Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_045035
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 674158
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:25964 original size:19 final size:19
Alignment explanation
Indices: 25922--25964 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
25912 CCATTTTATC
* *
25922 TTCTTTTGCGGGATAAAGG
1 TTCTTTAGCGGGATAAACG
* *
25941 CTCTTTAGCGGGATAACCG
1 TTCTTTAGCGGGATAAACG
25960 TTCTT
1 TTCTT
25965 AGGGTAATAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (19 bp):
TTCTTTAGCGGGATAAACG
Left flanking sequence: Indices 25422 -- 25921
TCTATTTACATAGCGAAGAAAGGCAAAGGCTCTTGCTCGAATGCGTGACTGCGGCGCGCCTATCG
CCCCGGCACTCTAAAATGCATGTTGGGTTGAGCAAGAATACTGCGACTAGGAAGACGAAGAATGA
AATTGAAGGCATAATCTCAATAAAAAGAATTGAACACCAACCAACGAGTGACGGATTTTGATGGC
AGAAGAAGACCCTGACTCTATAGGGGCGCTAGCGCGCTACAACTAGCAGCTCTCATCTTGAATTT
TGTTGCGTCCTTCTTTTATTCATATTCAATCTTCCGCTTTCATCGCTCGTAGTTGCTCTCTTCCT
TAATGCTATTTTCTTCTTAGCCTCGTTTGGCGCTATATACCTTCTTTGCTTCTCTTACGTGTCCA
TGAACATTAGTTCGAGTCTACGCCCATCTTTCTGAGTTCAAAGAGGGGATTACGAGAACCCCCAG
AAACTATGGTTTTCCTGCCCATAGATCTGCCCCAGCCATTTTATC
Right flanking sequence: Indices 25965 -- 26464
AGGGTAATAAAACCTGCTAGTCTTAGTGCTACAGAATTCCCTGCTCGTTGGAAGGTTTGAAGGAA
GAATGCGTAGTTAGAAAGGTCACTATCATCTCAGATTCGAAGAAGGGAAGGGCCATTTCGCCTAT
TTCAACAGAATCCGATTCGAGAGCAGATAGAGCAACTGTCCAATCTCGCTCGGGTAAATGGCTCT
TAGTGGGCAATCCCCTGTTCTCTTTGCTCTTGCTTGAGAATCCGCAGAAGGGCTTAGACGAGACC
TCGCATCTCTCAGCTCAGATTCGGCATATCCGGTCTTAGCAGCAAATCCTTCCTCCGAAGATGGA
CAGCATCCGCTCTTTGACACATCGTATTCCGTAATGGGCATGGTAACCCCATAGTAAAAGCAGAG
AGAAAGAGAAGAGTTAGAACAAGAAGGATTAGTTAGCACTACCCCAGATCCATATGCATAGTCAA
ATAAGAGGTTAGACAGAGGTGCAACCTTATTGGCTTAAGCATCCG
Found at i:51552 original size:13 final size:13
Alignment explanation
Indices: 51534--51559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51524 CCGGAACTGG
51534 TTGAGATGAAGAA
1 TTGAGATGAAGAA
51547 TTGAGATGAAGAA
1 TTGAGATGAAGAA
51560 AATGTCGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
TTGAGATGAAGAA
Left flanking sequence: Indices 51034 -- 51533
GTATCTTTTTCCCCTGAGATGGAATTGGCCAATGAGCAACCAACCTACCTTAGATAAGGGGCGAG
TGGATAATCGATCACTTCCATAACACCCAAGCATGCCGTACCCCTCACCTCCCCAAGGTCGGGTA
AGCGGTAAATCCCGTCGTTACTGGTTGGATGGGGCTCAATCGGCCGATCCCCGTTCAAATCCAAG
GATCGGCCGCATCGATCATAATTAATTGCTTGTAGGAGACTTAGGATAAGAGCGGGGAAGATACT
TTTTTTTCCAGCTTTAGAGTGTAAAGGGCGGCCCTGTTTACGGTAAGGGGATCCATTTTGATGGC
GGTGCATAGATCGTCACGCCTTGGAGCGTTCCCCATATTCCATTTCATTGGCAACTGAAATAGAT
CTAAACGGATTGCGTGGTACCCCCGGACCGAAGAAAGGGCTTCAAAAAAAAATGGAAAGAATATC
AATAAAAGGTCGAGATGTAGCCTGTGCGGAGCAAGCCGGAACTGG
Right flanking sequence: Indices 51560 -- 52059
AATGTCGACACCGATGAAATGAGTTTGAAAACGTAGACAGCGGAAGAAGTCACTCTCAATCCGAT
CTAGCAATAAATGCTCTACCGATAAAGTAAAGCGAGAGAGCTCATTAAGAAGGCCATCTTCCATC
CGCCTTTTTGACCTATGGACGAATATGCAAGCATACATTTCATGCTTGTTTGAGTAATAGCAATG
AGATTCCCCAATATCATGCTAAGAATAGCTAGGATTTCCAGAAGAAGATGCCATTCGTTTGATGA
GAAATAAAAAAGGCGGCCAGCTTGTCCAAAGTGCTCAAATTCTTCCTCATAGCGAGCCAAAGGAT
GACCGCGTGCCTGGGTATCATTCGGTTGAACCAAACTACCTTATACCATTCCACCTTGTTACCCC
GGGGGCGAATAGACTCCCAAGCACTCCTGATCGAGAAGGCAATCCTCAGGTGCCAGCCAGGGAAT
CCACAATATGGAAGACTTGAGGGGAATAAAGTTCCCTCTGACCAA
Found at i:121053 original size:18 final size:18
Alignment explanation
Indices: 121026--121061 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
121016 ACAATAGAAA
121026 AAGAAAAATAAAAAAAGT
1 AAGAAAAATAAAAAAAGT
* *
121044 AAGAATAATAAAGAAAGT
1 AAGAAAAATAAAAAAAGT
121062 GGATTATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAGAAAAATAAAAAAAGT
Left flanking sequence: Indices 120526 -- 121025
TAAGGGCTTATTCGATCCAATCGTACCACGTAATCCTTTAAAAGGTGTTCTGAGTGAGTTATTTC
AGCTTCACGCTTTTTGTCCTTTGAATAAAAATTCAATCAAGTAGGTTCTTAAGTGAAATTTTGAT
TGTGATGAACAATTAGTTAGTTTATCAGAATCAAAATAAAACAAAACCCGAAAAATGGACTTTTC
TTTGGTGACATAAGATTTAATTGTAGAAAGAATCATGCGAATAATTATTTTTTTTTTACCGATAT
TACTGATTAGTAAACCTCTATCAACAAAACAACATAAAAAGCGAATTCTTCCTTAGAATTAGGAG
GCAAGGCAAATAAAACGAATTTCATGGTCCCCTCTTTCATCTTTCTATATATCCCAAGAAGCCCG
TTTTTTCTAAGAATCCCTGCTGTTGGATCGGATTCTAACGAATTTTTCGGGAATTTTTAAGAAAC
TCTTTCTTTATTAAAAAAGAAATTAGAAGAGAAGAACAATAGAAA
Right flanking sequence: Indices 121062 -- 121561
GGATTATCATACATATATTTCATGTAGAAAGATGAATAAGTCCGTTTATTTAGTTCTACATGCCT
TGCACTTATTAGATATACTTACTTAGATATACTTAGTATAGATACTTAGTATACTTATACACGAA
TTAGAATATGACTTATAATTATTATAAGATATCTTTATAATAATAACAGGTACAAATATTAAATC
GAGGTACCCTTTCTATGACAATTCTCAACAACTTACCCTCTATTTTTGTGCCTTTAGTGGGCCTA
GTATTTCCGGCAATTGCAATGGCTTCTTTATCTCTTCATGTTCAAAAAAATAAGATTTTTTAAGT
CCGACGTCAAATCTCCTCTAGTTTTTTTTTTCAAGACTTAGCGAACACGCATATCCATTTAGTAG
AATATTGTATAACAATAAAAGGTGGCTTTCTCCGAACATAAATGAAAGAGCTCTTATGCATGCAT
AAACATGATATATGGGTAAATGAATTCTATCTATTTTCAAAAATA
Found at i:121154 original size:14 final size:13
Alignment explanation
Indices: 121130--121161 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
121120 CATGCCTTGC
121130 ACTTATTAGATAT
1 ACTTATTAGATAT
121143 ACTTACTTAGATAT
1 ACTTA-TTAGATAT
121157 ACTTA
1 ACTTA
121162 GTATAGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (13 bp):
ACTTATTAGATAT
Left flanking sequence: Indices 120630 -- 121129
AGTAGGTTCTTAAGTGAAATTTTGATTGTGATGAACAATTAGTTAGTTTATCAGAATCAAAATAA
AACAAAACCCGAAAAATGGACTTTTCTTTGGTGACATAAGATTTAATTGTAGAAAGAATCATGCG
AATAATTATTTTTTTTTTACCGATATTACTGATTAGTAAACCTCTATCAACAAAACAACATAAAA
AGCGAATTCTTCCTTAGAATTAGGAGGCAAGGCAAATAAAACGAATTTCATGGTCCCCTCTTTCA
TCTTTCTATATATCCCAAGAAGCCCGTTTTTTCTAAGAATCCCTGCTGTTGGATCGGATTCTAAC
GAATTTTTCGGGAATTTTTAAGAAACTCTTTCTTTATTAAAAAAGAAATTAGAAGAGAAGAACAA
TAGAAAAAGAAAAATAAAAAAAGTAAGAATAATAAAGAAAGTGGATTATCATACATATATTTCAT
GTAGAAAGATGAATAAGTCCGTTTATTTAGTTCTACATGCCTTGC
Right flanking sequence: Indices 121162 -- 121661
GTATAGATACTTAGTATACTTATACACGAATTAGAATATGACTTATAATTATTATAAGATATCTT
TATAATAATAACAGGTACAAATATTAAATCGAGGTACCCTTTCTATGACAATTCTCAACAACTTA
CCCTCTATTTTTGTGCCTTTAGTGGGCCTAGTATTTCCGGCAATTGCAATGGCTTCTTTATCTCT
TCATGTTCAAAAAAATAAGATTTTTTAAGTCCGACGTCAAATCTCCTCTAGTTTTTTTTTTCAAG
ACTTAGCGAACACGCATATCCATTTAGTAGAATATTGTATAACAATAAAAGGTGGCTTTCTCCGA
ACATAAATGAAAGAGCTCTTATGCATGCATAAACATGATATATGGGTAAATGAATTCTATCTATT
TTCAAAAATAGGTTCGGGTTCGGATCCGAGCTCATGTCTGAAATTTAAGTCAATGTATCTATATG
TATGTAGCTATCTATAGGGAATCCTAGGAGGGGGCTGTTCTTATT
Found at i:121173 original size:13 final size:13
Alignment explanation
Indices: 121155--121179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121145 TTACTTAGAT
121155 ATACTTAGTATAG
1 ATACTTAGTATAG
121168 ATACTTAGTATA
1 ATACTTAGTATA
121180 CTTATACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
ATACTTAGTATAG
Left flanking sequence: Indices 120655 -- 121154
TTGTGATGAACAATTAGTTAGTTTATCAGAATCAAAATAAAACAAAACCCGAAAAATGGACTTTT
CTTTGGTGACATAAGATTTAATTGTAGAAAGAATCATGCGAATAATTATTTTTTTTTTACCGATA
TTACTGATTAGTAAACCTCTATCAACAAAACAACATAAAAAGCGAATTCTTCCTTAGAATTAGGA
GGCAAGGCAAATAAAACGAATTTCATGGTCCCCTCTTTCATCTTTCTATATATCCCAAGAAGCCC
GTTTTTTCTAAGAATCCCTGCTGTTGGATCGGATTCTAACGAATTTTTCGGGAATTTTTAAGAAA
CTCTTTCTTTATTAAAAAAGAAATTAGAAGAGAAGAACAATAGAAAAAGAAAAATAAAAAAAGTA
AGAATAATAAAGAAAGTGGATTATCATACATATATTTCATGTAGAAAGATGAATAAGTCCGTTTA
TTTAGTTCTACATGCCTTGCACTTATTAGATATACTTACTTAGAT
Right flanking sequence: Indices 121180 -- 121679
CTTATACACGAATTAGAATATGACTTATAATTATTATAAGATATCTTTATAATAATAACAGGTAC
AAATATTAAATCGAGGTACCCTTTCTATGACAATTCTCAACAACTTACCCTCTATTTTTGTGCCT
TTAGTGGGCCTAGTATTTCCGGCAATTGCAATGGCTTCTTTATCTCTTCATGTTCAAAAAAATAA
GATTTTTTAAGTCCGACGTCAAATCTCCTCTAGTTTTTTTTTTCAAGACTTAGCGAACACGCATA
TCCATTTAGTAGAATATTGTATAACAATAAAAGGTGGCTTTCTCCGAACATAAATGAAAGAGCTC
TTATGCATGCATAAACATGATATATGGGTAAATGAATTCTATCTATTTTCAAAAATAGGTTCGGG
TTCGGATCCGAGCTCATGTCTGAAATTTAAGTCAATGTATCTATATGTATGTAGCTATCTATAGG
GAATCCTAGGAGGGGGCTGTTCTTATTTTATTATATCTAACTAAT
Found at i:147979 original size:35 final size:35
Alignment explanation
Indices: 147933--148002 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
147923 AGCATCCTCA
147933 ATATATCAGAAGATATCAAATTTGATATCTCTTCC
1 ATATATCAGAAGATATCAAATTTGATATCTCTTCC
147968 ATATATCAGAAGATATCAAATTTGATATCTCTTCC
1 ATATATCAGAAGATATCAAATTTGATATCTCTTCC
148003 TTTTCTGCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (35 bp):
ATATATCAGAAGATATCAAATTTGATATCTCTTCC
Left flanking sequence: Indices 147433 -- 147932
AGGTCTTGGCTTGGCCACTCCATAAGAAAATCTCTTTGAATAGCTTCCAACAACCAAGGGGAATC
CAAAACAGCGAAAGGAAGTCAATTTGAAGGCTATGGAGACAGGATCTCAGTAGTTAGATCTGACC
TGCAAATGAGAACAAATGGACCCAGGCTAACCTTTGCCTAGTACACTTCAACACCAGCTCCCAAA
GAGCTTTAGAGCACCGCCCAGTGAATAATGGCAGCCCAAAATTACATGGCAGGGATGGATTGTGA
GAGATGGAAACTGGAGTCAAGTCCCGAAGCTGCTCCCTAATCAATAAGCCTACCAAGGGAGTCCG
CCATCAAGATTCATCGGTATGGAGAAAGAGGATCCCCTTGTCTAGTCTCTCTAGTCCCCTGAAAG
TCACCTTAGGGGGGGGCAAGTAGATAAGATTGAGTATGAAATCGTGGATACACAAGCCCTAATCC
ACTCACACCATCTAGAGGTGAAACCAAACTGCTGCAGCATCCTCA
Right flanking sequence: Indices 148003 -- 148502
TTTTCTGCTCCCCTTATACTTTCTCGAATTCTTCCGGAGAAGCCTTTTCTTGGTTTGATCTCCTC
TTCAGCTTCTCCCTTTCTGGATTCTGGATCTAGGTAGAAAACGGGCTTCTTCTTTTAAACGACGA
CGACCAAGTCTTTGAATGAGCTTCATTTTGAAAACGCCCTTCTCTTAGATCAAGACTTTCAGCTG
AGATATCAACCGAGAATTCTTCCTTCTGTGCTTCCAATGCTTGAAAAAAGATTTTCCGAAGTTCA
AGTCTTGCTTGAATTCTTTAATATGACTTCGGTTAAGGCCTACAATGATCACTTCGGTGGAGAGC
AGGCTTCTCCTCCAATGATGACGAACTAAATTCTTAGAGCAAAAAAATTTCAGCATTCAGCAAGG
AATATGACTTTGAGTCTCTTCTCCTTGCTTGGGAGTTGTCAAGAGATGATTTGGACCGAGGCCTA
CGCTTTTTTGAATCCAATTGTAGATGTTATGCCAGTAATACTTGT
Found at i:151133 original size:17 final size:16
Alignment explanation
Indices: 151087--151134 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
151077 GCGCTTTTTG
151087 TCCTCCGCTTACTAATC
1 TCCT-CGCTTACTAATC
*
151104 TCCTCTGGTTACTAATC
1 TCCTC-GCTTACTAATC
151121 TCCTCGCTCTACTA
1 TCCTCGCT-TACTA
151135 GTAGGAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.17, C:0.38, G:0.08, T:0.38
Consensus pattern (16 bp):
TCCTCGCTTACTAATC
Left flanking sequence: Indices 150587 -- 151086
GAAGCAGGTATAGGAATAGGATCATAGGTGTATGGGCTTCTATATTCATAGCCTTTCCGCGCTTG
GTCACTATAGGAACATGAACAAAACTATTGCATAGTCTAATCGTTTTTAGCGAGTAAGAAAGCAA
TTGAATCACCTTTAATAGAGATAAGATAAATAAAAGAACTTTATCAGCCTTTGTAGCGAGTAAGA
ACCCATTTGAATCTAAATGCATATATAGGAGCTTCAGCAATTTCATCAGTAGCTATACGAGAATA
ATCCGTTTTGTAGCTATAGAAGCATACATATAATAACTTTCTGATGGTTGCTTTCGAGTAAGAAT
AAGAAAAGGTTTGAATCACATTGTCGCTACGCTATATAAGTATGAAATCAAACGATTACAAAAGG
AACAGGCACAAGCAGCAAAAGAAAAGGAAGGCAACCGTCAACCTCAATCGGGAAAGCACACAAGC
AGTCAAGCCCTCAGTAATAGGAAAGCAAGCTATAGGCGCTTTTTG
Right flanking sequence: Indices 151135 -- 151634
GTAGGAATTATTAATAGGAAACCGACACAAAAGCCAGCCAGCACACCATTGGAAAGCCAACTGGT
AATAGCAAAGGAAACCGTAACCGCACCCACAACAGGAACCGCCAACTCTTTCTCTTGCAGATCCT
CGCTCTCGTCGTATTAGCAACAGCAAGCCAGAAAGCAGGAAAGCAAGCATTAGGAAGAGGTAGTA
AACAAGCAAACAACCAATCGAAACCAGAATAGGAATAAGCACCAGTACGATACTCTTCTTAAGTG
TGAATCACTTTGTTACTATAGGAATCGCCAACAACAAGAAGGACTACGGCTTTGCGCACTGGCAC
ACTTCCGCACCTACGCACTAAAGGCTTACCCTCAGATATTAGCCTTCGGCTTACTATCTGTGTAA
AAAAGATTACTCTTTACTACTATAATGAAAGAAGGGCACCCGAACCTACTCCCTCACCACCGGAA
CCGCCAGCAGACCTTCTCTTCCTACTAGGCACACTCACTCAAGCG
Found at i:152418 original size:12 final size:12
Alignment explanation
Indices: 152361--152425 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 12
152351 CGAACGGGAA
152361 AGCAAGCAAGC-
1 AGCAAGCAAGCG
152372 A-CAAGC-AG-G
1 AGCAAGCAAGCG
152381 AGC-A-CAAGCG
1 AGCAAGCAAGCG
* *
152391 AGCAAGCAAACA
1 AGCAAGCAAGCG
*
152403 AGCAAGCACGCG
1 AGCAAGCAAGCG
*
152415 AGCAAGAAAGC
1 AGCAAGCAAGC
152426 ACGCATACGC
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
8 1 0.02
9 6 0.15
10 10 0.24
11 2 0.05
12 22 0.54
ACGTcount: A:0.46, C:0.26, G:0.28, T:0.00
Consensus pattern (12 bp):
AGCAAGCAAGCG
Left flanking sequence: Indices 151861 -- 152360
GTAGTACTTTGACGGAGAAGGTATAATCACTAGCTTAGCTTTGAGTGTAAAAGAGAACATGCTCA
CTCAGATACAGGAGATTTTTTCACATTCCTCGCTCGTGCTATAGCTCTTTCAAAGAGGGACAAAT
CCAGGCTCTAAGATAAAGGGGTTCTTACTTAAAGAGATATGCCTCTAGAACGATAGCTAATACCT
GCGCACTTTGAAGCTTTAGCGGACGTCGGATGCCGATGGAAACTATTCTGCTGATTGTGATGATA
CCGATCCCTCATATCCCGATTATGATTTCGAGAAGGAGGAATGACTGACTACTAAGATATATACG
ACAAAAGCGAAGTGTGACTTTGGAAATTCCATTGTTTTGCCTAGGCGTCAGTTTCATCCATAAAG
CTATGGAATCAAAAAGATTAGACAGAAGACGAAGGATGACGGGATGGCCCCTACCTAAAATTCAT
AATCCCGAGTCTCACTCCTCACTCACGAGAGAGAGCGAACGGGAA
Right flanking sequence: Indices 152426 -- 152925
ACGCATACGCGCTAGCACGCACTCAGCCTACTATACCGGGGGGAGAATCAGAGCTGGTAATCGCC
CTCGCTACCTGGTCGGCTAGGGGTTCTAGTTCGTGTTCCGGAGGTAGGTAGGGGGGAAGCGGAAC
AGCTGTCTTGGTTCAATCGGGAAATGGCCGATCATCTTTGTTAGGGTTTCAGATTCAAGCAGCTC
GTTGCTACACGATCAGTCAAGCTAAGCTAAGAGAGAAAAGCGGCAGTCCTTCCAATCAAGCAAGC
GACCAACCAATTCCAACGATTGCAGTGACAGCCATCAAAGCAAGAAGTATAGGCTTGCAGGATTA
AGTGGGAAGAGCGGAACTTGACAAGTCTTGCAGCTACTAAGCTAACGGTTTCAAAAATGGCTACC
GCATCTGCGCTTTGCTACGATTTGGTGCGGAACTGAAAGCGAAGAAAGCTTAACGCAAGCGACAT
AGGTAATCAAGCAGCAATCGAGAGCCGAAGGTCTGATTCCACCTA
Found at i:162233 original size:19 final size:19
Alignment explanation
Indices: 162209--162247 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
162199 TGGACGATAA
162209 TTCGATGAGTCTACCTGCT
1 TTCGATGAGTCTACCTGCT
162228 TTCGATGAGTCTACCTGCT
1 TTCGATGAGTCTACCTGCT
162247 T
1 T
162248 CGGACTCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (19 bp):
TTCGATGAGTCTACCTGCT
Left flanking sequence: Indices 161709 -- 162208
CGGTTCCTTCCTAAAAAGCTTCTAAACTCCTATGAACGAGTTCCGTGTAATCAATGAATTTCGAT
ATTCGTATGTATGCGCCCGGGTAAATTTACAAGATTGGAAGGAGGAATGCTTACCGATACGAAGC
CGTTCCACAACTCATGAATTGGATTCGAACCAATCTCAAGCTACTTCCCTTTTAGTAGTTCGTGA
GGGCTACCCTACAATTAGTTAATACGAAAGAGAGCCCCCCCTTTTTTTAAGATCAAAATAGGAAT
AAGATATAAAAGCCCATCATTAGGGCAAACAAGGCGATAGCTTTTGTTAAAGCTAATAAAATAGA
GTACCCAATAAATTGTTTAGGATTTAGCCCCACCGAATGAATCAAAGAGCTGAAAACGTTTCCAA
TACCGACTGCAGCTCCCGCTAAAGCAATTGTAGCAGCTCCGGCACCTATTAATTTAGCTCCCTCT
AACAAGACAAGAAGAGTTGAGAATTCTCGAATTCTTGGACGATAA
Right flanking sequence: Indices 162248 -- 162747
CGGACTCGTACAAGAATCCTCGTCACGCTTTCATGATTTCTGTTATAGATTTCTCGTCGTTCAAT
GTGATTCATTTCTGAAAGCCATCGGCTTACTTTTCTAGTGTGAAGGATGTGAAAAAGTCATATTC
AAGGTCCGGTCCGGGCCGAGCCATAAAGGCTTTGCTTTTGCCTATAGCCGGTTCAAATCTCTAGT
TAAGGGGTCTTCTCGACAGCAGTAGCATCAGTCTATTAGAAAAGGGGTCCCCCCCTTAAGTAGAT
AGCTTACACTTCACAACAACTGAAACTCTCAGGGTTGGAAAGACAACAAATCCGTTCTGGAACAA
AAACGTAAATGAATGACCTTATGCTATCACTTTCGTTGAGAAGACAGTACGAGACCCAGGTCAAT
TTACGAACCAAACCAAGATCCATCGTGAGTCAGATCACTACCAAATTTGGTTTTTGTTCAGCTTA
CAGGACTCGCCGGCGCGATTCCAACTACAATATGAACATTGATTC
Found at i:169668 original size:19 final size:19
Alignment explanation
Indices: 169644--169686 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
169634 AGTAGATGGT
169644 GAATGG-TGAATAATGAAGG
1 GAATGGATG-ATAATGAAGG
* *
169663 GAATGGATGGTAATGAATG
1 GAATGGATGATAATGAAGG
169682 GAATG
1 GAATG
169687 AATGGTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (19 bp):
GAATGGATGATAATGAAGG
Left flanking sequence: Indices 169144 -- 169643
AATGATAGAACAGAGACCGCTTTCATAAGCAGGTAGGTCAGTTTCATACGTAGGAAGAACGGTGC
TGTTCGATGGTAGCGAAAGGGGGACGGCCAAGAGGGGCCCAAGCGTGTCTCTTGTTCTGTAGTTC
CTTTATGAGTCCGTTAGTGGTCTAAGTAGTCCTTTGTTAGTCCAATATGAGTAGCGGGGGGACTC
CCTTAATAGAGTCTCGAGCAGAACCTATTCTGTTTTTAGTTAGTTCATCGATACCTTTTCCTTTG
TTGGTTAGTTAATCTCTCTGGCTTCAAAAGTGTTAAGCGAATGAGTCTAGTAGCGAACCAGTAGC
TCATTGTTAGCAAAGAACCGGATTGAATCCCTTTTTATAGGCGAGGGCATTGTGTTATAGAGGGC
ATTGATAGGATTTAGTTTCCCGAGGGGCTGATATTGATGTAAGTAATGAGTAAGCGAGACGCAAT
AGTAAGTAATGAGTAAGTCAAAATTGAGTATAGTAAGTAGATGGT
Right flanking sequence: Indices 169687 -- 170186
AATGGTTGACGATGAACTACTATCTGTCGTACCAGATACCATCCAAGTACCGGATAGCATCCAAA
GTGATTCAATGATTGTTGTAGCAGATACTATCCAATTTGATCTCAAAAGTGATCCAATGACTTTG
CGCCTTTCAACCCTATCCTTCTCTTTGCTGTGAGCCTTCCCCTTGGCCCGAGACGCGGCTATGCT
ATGAACCTACCTTAGCCCCATGTGAGACTTTGGCAAGACGCGTGACTGCTTCCTATGCGCCAGAG
AGCTCTGTTCGTTAGTCCTAAAAGGAATCTTTAGGTGGACAGCAAAAGAGCAGGCCAGGGTCTTG
TGTCATGCTTGCCGATAGCGGTGCGCTCCTTGTGTCACCTTTGACGGTCGGGGTCATGGAATCGA
GAAAGAGTGATTTTTACCCTTTACTGTTGATGGAGACCCGTGCTCCTGCTTGATAGGACGAAGGA
AGCACTCCGACAAAGAAGGAAAACTAAGATTCCAACTAGCGGCCT
Found at i:169691 original size:19 final size:19
Alignment explanation
Indices: 169654--169692 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
169644 GAATGGTGAA
*
169654 TAATGAAGGGAATGGATGG
1 TAATGAAGGGAATGAATGG
*
169673 TAATGAATGGAATGAATGG
1 TAATGAAGGGAATGAATGG
169692 T
1 T
169693 TGACGATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (19 bp):
TAATGAAGGGAATGAATGG
Left flanking sequence: Indices 169154 -- 169653
CAGAGACCGCTTTCATAAGCAGGTAGGTCAGTTTCATACGTAGGAAGAACGGTGCTGTTCGATGG
TAGCGAAAGGGGGACGGCCAAGAGGGGCCCAAGCGTGTCTCTTGTTCTGTAGTTCCTTTATGAGT
CCGTTAGTGGTCTAAGTAGTCCTTTGTTAGTCCAATATGAGTAGCGGGGGGACTCCCTTAATAGA
GTCTCGAGCAGAACCTATTCTGTTTTTAGTTAGTTCATCGATACCTTTTCCTTTGTTGGTTAGTT
AATCTCTCTGGCTTCAAAAGTGTTAAGCGAATGAGTCTAGTAGCGAACCAGTAGCTCATTGTTAG
CAAAGAACCGGATTGAATCCCTTTTTATAGGCGAGGGCATTGTGTTATAGAGGGCATTGATAGGA
TTTAGTTTCCCGAGGGGCTGATATTGATGTAAGTAATGAGTAAGCGAGACGCAATAGTAAGTAAT
GAGTAAGTCAAAATTGAGTATAGTAAGTAGATGGTGAATGGTGAA
Right flanking sequence: Indices 169693 -- 170192
TGACGATGAACTACTATCTGTCGTACCAGATACCATCCAAGTACCGGATAGCATCCAAAGTGATT
CAATGATTGTTGTAGCAGATACTATCCAATTTGATCTCAAAAGTGATCCAATGACTTTGCGCCTT
TCAACCCTATCCTTCTCTTTGCTGTGAGCCTTCCCCTTGGCCCGAGACGCGGCTATGCTATGAAC
CTACCTTAGCCCCATGTGAGACTTTGGCAAGACGCGTGACTGCTTCCTATGCGCCAGAGAGCTCT
GTTCGTTAGTCCTAAAAGGAATCTTTAGGTGGACAGCAAAAGAGCAGGCCAGGGTCTTGTGTCAT
GCTTGCCGATAGCGGTGCGCTCCTTGTGTCACCTTTGACGGTCGGGGTCATGGAATCGAGAAAGA
GTGATTTTTACCCTTTACTGTTGATGGAGACCCGTGCTCCTGCTTGATAGGACGAAGGAAGCACT
CCGACAAAGAAGGAAAACTAAGATTCCAACTAGCGGCCTGCCGAG
Found at i:169742 original size:18 final size:18
Alignment explanation
Indices: 169715--169750 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
169705 ACTATCTGTC
169715 GTACCAGATACCATCCAA
1 GTACCAGATACCATCCAA
* *
169733 GTACCGGATAGCATCCAA
1 GTACCAGATACCATCCAA
169751 AGTGATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.17
Consensus pattern (18 bp):
GTACCAGATACCATCCAA
Left flanking sequence: Indices 169215 -- 169714
ATGGTAGCGAAAGGGGGACGGCCAAGAGGGGCCCAAGCGTGTCTCTTGTTCTGTAGTTCCTTTAT
GAGTCCGTTAGTGGTCTAAGTAGTCCTTTGTTAGTCCAATATGAGTAGCGGGGGGACTCCCTTAA
TAGAGTCTCGAGCAGAACCTATTCTGTTTTTAGTTAGTTCATCGATACCTTTTCCTTTGTTGGTT
AGTTAATCTCTCTGGCTTCAAAAGTGTTAAGCGAATGAGTCTAGTAGCGAACCAGTAGCTCATTG
TTAGCAAAGAACCGGATTGAATCCCTTTTTATAGGCGAGGGCATTGTGTTATAGAGGGCATTGAT
AGGATTTAGTTTCCCGAGGGGCTGATATTGATGTAAGTAATGAGTAAGCGAGACGCAATAGTAAG
TAATGAGTAAGTCAAAATTGAGTATAGTAAGTAGATGGTGAATGGTGAATAATGAAGGGAATGGA
TGGTAATGAATGGAATGAATGGTTGACGATGAACTACTATCTGTC
Right flanking sequence: Indices 169751 -- 170250
AGTGATTCAATGATTGTTGTAGCAGATACTATCCAATTTGATCTCAAAAGTGATCCAATGACTTT
GCGCCTTTCAACCCTATCCTTCTCTTTGCTGTGAGCCTTCCCCTTGGCCCGAGACGCGGCTATGC
TATGAACCTACCTTAGCCCCATGTGAGACTTTGGCAAGACGCGTGACTGCTTCCTATGCGCCAGA
GAGCTCTGTTCGTTAGTCCTAAAAGGAATCTTTAGGTGGACAGCAAAAGAGCAGGCCAGGGTCTT
GTGTCATGCTTGCCGATAGCGGTGCGCTCCTTGTGTCACCTTTGACGGTCGGGGTCATGGAATCG
AGAAAGAGTGATTTTTACCCTTTACTGTTGATGGAGACCCGTGCTCCTGCTTGATAGGACGAAGG
AAGCACTCCGACAAAGAAGGAAAACTAAGATTCCAACTAGCGGCCTGCCGAGCCAAGACCCGCCG
AGTGATCTACCGATCTAAGTACTCCCTAGCGACCTACCGAGCCGT
Found at i:187103 original size:3 final size:3
Alignment explanation
Indices: 187095--187137 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
187085 CCCCATAAAG
* *
187095 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ATA AGA ATA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
187138 TCAAAAGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (3 bp):
AGA
Left flanking sequence: Indices 186595 -- 187094
TTGTGTGAATAAAGGAATGGTAAGCATTACTCATTTGAGACTTTCCCACGGTGATATAATATCTT
TTCAAGAAAATGACGCGAGAATCCGCGGTGAAGAAATAAGGAGATCTTTCTATATCGAAATATCA
GTTGAAAAAATAATAGGAAAATTCCTTCATCAACCGGTAAGAATGTGGAGAAGAACCAAAACTGA
ATGGTTCCACCTACTCAAAACTAAGAGGGGATGCCGCCTACTACTAAAATCCCGGTTTTTGCAAC
AGTTGCGTTCTTCTATGCAAAAAAAAGACTTAGAAAGAACAAAGAAGTTTGGATCCGAAAAATTA
GGCAGTTCCCTCGCTGAGTACAACAAAATGAAGAGGAATTTATATCATAAAAAATCCCTATTCTT
ATCGAAGAGAAGGAACGAGAAAAACCGAAAATTTCCTACTCGAAAAATCAGTCCTATAGTTTACA
ACTCTTCTTTATATAGTAATTCGACCTCCGCATCCCCCCATAAAG
Right flanking sequence: Indices 187138 -- 187637
TCAAAAGGATTGAACTACCTACTCATTATTCGGAGGTGAATCATAGAACACTAAAAGCTGTGGTA
TCTTATGGACCTAACATAGGTCACATCCCTCACGACATAAGATTGAAAGATCCAAACCTTCCTCT
TCGGAGCGGAAACGGACGTGGCCAAAACATATAAAGATCGGCGTAGCCGCTCATAGGGACATATC
TATCCGGATAGAGGATAGTCTAGATCGATTCATAGATAGATTTCTATCCATATAGATAGGTATCT
CCGTGGATAGAGATAAAGATAGGGATCCATCTAGATCTTGATTCACTATTTCCATTTTTTTTTTC
TTGATTTTGATTGATTGCCTTTTTTTTTGACAACAAGTTTGAAATCTGCAAAGAAAGATCGTTTT
TCAATTATTACTTGCTGGGTCGGAGCGTAGACGAGCGAGCAGAGCCCAGGAAAGAGGGAAGCCCG
TCATAGAATAGAGCAGTCGACTAGAAGTAGAAGACTGCTGGCCTG
Found at i:188565 original size:29 final size:29
Alignment explanation
Indices: 188533--188606 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
188523 TGATTTTAGG
188533 AGGACTATAATGATGAGAACGACAAGGAC
1 AGGACTATAATGATGAGAACGACAAGGAC
188562 AGGACTATAATGATGAGAACGACAAGGAC
1 AGGACTATAATGATGAGAACGACAAGGAC
188591 AGGACTATAATG-TGAG
1 AGGACTATAATGATGAG
188607 GAGGACGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 4 0.09
29 41 0.91
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.16
Consensus pattern (29 bp):
AGGACTATAATGATGAGAACGACAAGGAC
Left flanking sequence: Indices 188033 -- 188532
ATTCCGTTTTGTTTTCCATCCCAGTCTTTCGCGACACTTCAGGTTTACTTCTTTTGTTAGGTCTC
GACTTCTCCGCTATGATCTTCCCAGTAGTTCATATAGGAGCTATAGCCGTTTCATTTCTATTCGT
TGTTATGATGTTCCATATTCAAATAGCGGAGATTCACGAAGAAGTATTGCGCTATTTACCAGTGA
GTGGTATTATTGGACTGATCTTTTGGTGGGAAATGTTCTTCATTTTAGATAATGAAACCATTCCA
TTACTACCAACCCAAAGAAATACGACCTCTCTGAGATATACGGTTTATGCCGGAAAGGTACGAAG
TTGGACTAATTTGGAAACATTGGGAAATTTACTTTATACCTACTATTCCGTCTGGTTTTTGGTTC
CTAGTCTGATTTTATTAGTAGCCATGATTGGGGCTATAGTACTGACTATGCATAGGACAACTAAG
GTGAAAAGACAGGATGTATTCCGACGAAATGCTATTGATTTTAGG
Right flanking sequence: Indices 188607 -- 189106
GAGGACGACAGACCACTCACGATCTACTAAAGGGCAAGTAGCTTGATATTGGTTCGAATCCAATT
CGTGAGACTCGTGCAAGTGTATCTGATACCGAATGCACAGCGGAAATCAACGGCTTTGCGAGCTG
GGGTTGAGTGGAGACAAAGATGAAAGGAGTGCCACTGTGTCGGGAAGAAAAAAGCTTAGCTTAAG
AGATTTGAACCGAAAAACCTGTGAATTTGACTTTTGATGCTCCTTGTATGAGTTTGATTGTTATA
ATATAATACATTGAGAGGAACCGCCCCCTCGGCACTCAGGCAGTAACTCGCCCATTCTTTCTCTT
AATGCGAGAAGTAGACTTTCATTTACTCGACCAGTCACCCTCGAGCCCACTATGAATGAGGGGAG
GACGGCCGACCACGATGGATTTTGTTTCCATAATTCCGCTGGGGCGAGCACTTCGTAGAGCCTGG
GCGGACCCTGTTCCCCTTCGTCTTGGGTGTCCAATGACGGATAGG
Found at i:208254 original size:21 final size:21
Alignment explanation
Indices: 208224--208263 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
208214 CGACCAAAGG
208224 CTCAGCCGAAAGAGAAACTTT
1 CTCAGCCGAAAGAGAAACTTT
* *
208245 CTCAGTCGAAGGAGAAACT
1 CTCAGCCGAAAGAGAAACT
208264 GAATTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (21 bp):
CTCAGCCGAAAGAGAAACTTT
Left flanking sequence: Indices 207724 -- 208223
TGGATCGAGGGGATAGACCTTCTTCTCTTGGTCTTGGGTCTTTTTTCTTTCATTGAGGGGGAAGA
GTCGAGTCAAAGACACCCGAATGAAACGAAAGGAATTATGTCAGGGCCTTAAGCCCCCACCCAAG
GGAGCGTCCCCCGTATTCCCGACATGCTAAGGGAATGGAAACTAAACAGTAAGCTATGCCCGGAG
AGAGAGATCTCTCGTTAGGTCTTGGGAATGTTGCTAATAAGGTGAAGGCTAATATCTCGCCGAAA
GGTGGGAGGGGTGCCGAGATCCTGGGCAGCGGGATCTTCCCATCATGATCGACTAAAGGGAAAGT
CGCACAGAGATATTGGTTCGAATCCAATTCATGATTCCAGTTCAGAAGGACTTCATTCAATCGAA
GTTTAGGATGGAGCTATCACTAATAGACAGATGGGATTGTTTGCAACAAAGTGTCTATATAGCAA
GGGCTCTTGAAACTATATCCTATAGAATAGGGACTCGACCAAAGG
Right flanking sequence: Indices 208264 -- 208763
GAATTCAAATCTCACTTTAAGACGGTTGTTAGCCGTCTCAGTAAGGGTAGTGAGCAAGTTTAGGT
TTAGGAATAGGAATGATTCTTAGGAAGCGAAGCAACCTCTTCTCTTTGCGTGACTCCTTCTTAGG
GCGTGAAAGCATTCCATCGGGCTTCCCGCTGAAGGATGTGTTCAAGTCGCTTCTTTTCCGCTTTC
AAGCTGAATCAAGTGGGGAAGATGGGAAGTCCAGGTCAAGGTTGATTGATTAGTTCTGTGGTCAG
GTGAAGGAGAAAGATTAGCAGCTTCTTCTATAAACGGAATTTTATACTTGCCATGCCAATAACCG
GATTGGATCACGATCCAGTACTGTAGGAAGAAGGAAAATCTCTTATATGAATAGGATTCAGTGCT
CAAGTCGTCCAGTCCCGAGTGGGGAAGATTGCTTCTATCCGTCAAGCATTGGAGTCGTGCCTGAA
TCCTTTGTTCGTTCTTCTATCATCTGCACTTGCCTTCCTCAAAGG
Found at i:223461 original size:18 final size:18
Alignment explanation
Indices: 223440--223571 Score: 246
Period size: 18 Copynumber: 7.3 Consensus size: 18
223430 GTCACGATCG
223440 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
223458 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
223476 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
223494 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
223512 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
*
223530 ATATCGTCACTAGCATTA
1 ATATCGTCACTAGCATCA
*
223548 ATATCGTCACTATCATCA
1 ATATCGTCACTAGCATCA
223566 ATATCG
1 ATATCG
223572 ATATCATCAA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 111 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (18 bp):
ATATCGTCACTAGCATCA
Left flanking sequence: Indices 222940 -- 223439
TACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCTATGGTTATG
GACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATTTAT
TCGGGGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTGGAACATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGCCTATTTCCGACATCATATCGATAGTTAGCGCA
TTCATCATAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 223572 -- 224071
ATATCATCAATAAGAAAACCTTTAGGCTTGTTACCCAGGAACTTGTTCAGAAATACTGTAATGAA
AGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGAGCGTCCGGTTCCTATAGAACCTA
TCACTAAAATACCCCTAGAGGGGGATAGGGCTAGGCGGAGCGAAAAGGGTTTTCCATGAGATGGG
AAATGAAAACTATTAGCCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAA
TATCCGTCTTTCTGCTAAAGAGGATGTATTGAACTCATAATTCATTAAATGCTTTTTATGAATGT
CAACTAAGTATCGTAAGTAAATTGTTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTT
GATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGT
GGAGAACTGAACCAAGAATTCTCTTTCTTTATCATCAATCCAATC
Found at i:225419 original size:34 final size:34
Alignment explanation
Indices: 225376--225443 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
225366 TCCAAAAAAG
225376 CATGTTTTTTTTTACCGCCGCACAAAGAAAATAT
1 CATGTTTTTTTTTACCGCCGCACAAAGAAAATAT
225410 CATGTTTTTTTTTACCGCCGCACAAAGAAAATAT
1 CATGTTTTTTTTTACCGCCGCACAAAGAAAATAT
225444 TTTGTTGCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (34 bp):
CATGTTTTTTTTTACCGCCGCACAAAGAAAATAT
Left flanking sequence: Indices 224876 -- 225375
GTACCCTGTCGAAGTAAGGAACCATGGCATATATGTTTGGAATAGATTCCATTTTGAGAGAGTTG
AAAAAGCACTGTCTCGTTGAAAGGTTCTATACATCTGACCTTTCTCAACGCATTTCTTTAGACAA
AGACTCCGTTTTTTCCTCTTTTTGGATGGTAAATATTTCTCAGAACATGGAGTGTGAATCAAACC
CATGTTTGAATTGAAATTGAGATACTGATGCAAGTTCTTCTCTTCTGAATCAGATAGATTCATAT
CGGAAAGAGGTTGACAATAAGTTCTTTCAAAATTGACTATTTGTCCCTCTGTTAGAGGTGTTCCA
GAAATGGCTGCGATCGAGTAAATAGCTCTACGAACTAATAGATCGGATCGAATTGGAAAATGGAA
AGATTTGTACAAGTTATACCTTTCGTCACCACTTTGTGGAAAATCGTTAGGTATGAATATGTTAG
ATATCTGTGACTCGATTGGTGAAATAGTATCTCTCTCCAAAAAAG
Right flanking sequence: Indices 225444 -- 225943
TTTGTTGCGAATGAACAAGATATTGAGGAATTGTCCATACGTAAAATCATAATTATTGATACGGG
CCTTTTCCACATAAAAAGGGAATCTTTTGTTACAATAGAAGCGGAAGCGATGTGGATTATTCAAG
AATCGAAGTCGATTTGCTTTATAAAAAGAAGATATCAATGAACTTCTATGAAATGGTTTCACAGG
ATTCAGCCAATTGTCTTGATCGTGGGATATCATTGAGAAATAGGAATCCGTGTTATCAAAAGATT
TCCTGCGATTATTTCTAGTATGGAATGAGTCAATCATCCACCTTGGTATCTTATTGAACAAAAAT
GGTGATATTCTTCCTCCATTGATCAAAAATTTCGATTTTTGGGAAGTATTATGATCATCCAATAA
GAAGGGTTTCAATTTTTTCAAATGAACGATTTGAAGACCTATTGATTCTAACAACGGATTGCAGA
GTTGATCATTCGGACCTTTCAATTCATAGATGTGGATCTCAGACC
Found at i:226042 original size:24 final size:24
Alignment explanation
Indices: 225970--226044 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 24
225960 CCCGAAACTC
* *
225970 ACAAAGAAAAAAGGAAGTGAGTTAG
1 ACAAA-AAGAAAGGAAGTGACTTAG
** *
225995 ACAAAAAG-AA--AAGCAACTTGG
1 ACAAAAAGAAAGGAAGTGACTTAG
226016 ACAAAAAGAAAGGAAGTGACTTAG
1 ACAAAAAGAAAGGAAGTGACTTAG
226040 ACAAA
1 ACAAA
226045 TCTTTTTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 15 0.38
22 2 0.05
23 2 0.05
24 15 0.38
25 5 0.13
ACGTcount: A:0.57, C:0.09, G:0.23, T:0.11
Consensus pattern (24 bp):
ACAAAAAGAAAGGAAGTGACTTAG
Left flanking sequence: Indices 225470 -- 225969
GGAATTGTCCATACGTAAAATCATAATTATTGATACGGGCCTTTTCCACATAAAAAGGGAATCTT
TTGTTACAATAGAAGCGGAAGCGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAA
AGAAGATATCAATGAACTTCTATGAAATGGTTTCACAGGATTCAGCCAATTGTCTTGATCGTGGG
ATATCATTGAGAAATAGGAATCCGTGTTATCAAAAGATTTCCTGCGATTATTTCTAGTATGGAAT
GAGTCAATCATCCACCTTGGTATCTTATTGAACAAAAATGGTGATATTCTTCCTCCATTGATCAA
AAATTTCGATTTTTGGGAAGTATTATGATCATCCAATAAGAAGGGTTTCAATTTTTTCAAATGAA
CGATTTGAAGACCTATTGATTCTAACAACGGATTGCAGAGTTGATCATTCGGACCTTTCAATTCA
TAGATGTGGATCTCAGACCTATGAATGGGGATATTCCCGAAACTC
Right flanking sequence: Indices 226045 -- 226544
TCTTTTTTGTCGATAACCTCAGACCAACCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCAGAAACGAAATGTTCCAAATGCTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATTAGGATCCCGATTCATGAATCTCTCGGTTCGAGAAATC
AAAATAAGAGGATCGAACCATTTCTTCGGACTCTTTTTCAAATTCGATAAATGTTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCATTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCGATTCTTTTTAATGAATCGATTCAATACATTTCTTATGTACCCATAG
GTGCTATATTGGATTTGAATCCGATTTCGGATCAATCTATATTGATTGACTGCCTCCATTATGTT
GTTGCTAGCAAATACCACTATTTTTGGTTTTGGATCTTCCAAATC
Found at i:247318 original size:18 final size:18
Alignment explanation
Indices: 247295--247330 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
247285 TCTTGCAAGC
* *
247295 GAAACTCTAAATTCTGAT
1 GAAACTCGAAATTATGAT
247313 GAAACTCGAAATTATGAT
1 GAAACTCGAAATTATGAT
247331 TGACCGGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
GAAACTCGAAATTATGAT
Left flanking sequence: Indices 246795 -- 247294
CCATCGGGTAAAGGATGAGGACGGGGGCGCTGATTCCTTAACTCGTCCGTGGGCACTGATTCCAG
GATTATGGGCATTGGCATTGAAGAACTAGCTCGTCTGGGAACACTGAATAAATCATAAAAAAATC
TACCTATCAGTGGATCTACAAGGAGATCCGCCAGTGGAAGGACTTAAGACTAAGCCAATCTGAAG
CAAAAAAGAATCAATATAAATTCTTCTCTTTCTCGAGAGAGACCATAAAGGAAGCAAGTAAGGAT
CTAGTTGGGTAATCTTATGGTCAGCCCTAGTCTCCTATGATACTGAAAAGTCAGTCCCGTCTCAG
GCTAAGCCGTGGCAAGGAAGCAATCCTCAAGAAGAGAGGGGTTCGGTCTCATTTGATCCATTGGC
CGACTTCGATTTCGATTTACTTTACTTGGCCCAGCTTCAGCGGATGTTGTACTTGGATCCGAGGT
TAGGTTATTATCAATTCGGACATGGTGGGATGGGATCTTGCAAGC
Right flanking sequence: Indices 247331 -- 247830
TGACCGGTTCTATTATGGATTCCAGTGGGTTCCACGAGCGAGTCTGACCAGTTCTACTCGCGGTT
GCACTGAGTTCCACCACCGACTCAAGACTAGTTCCAATAGATATTATGACGAGGTGATGGATCGT
GCATTTGTGGTGGCCTGATAAGCCCCATCTATAACCAGTCGTCTTGAATGAGAAGACTTTACCGA
TCGGTGGCTAAAAGCAAATAATAAAGATTTTAGGTACCTATTTGAAGAGCGGACCCAAGTCCATC
ACTTCTTATTCCTAGGGACGCAGAGTGGTACATCAAAAGGATGATTGGCAGAATGGAATTACACG
GATAGTATCCTATCGAGATTCCTGTGCGTGCTCATCACCAATTGCGCTTTGGCCAAAACGAATTG
AACTACTCAAAGCAAGATGAGTTCCCGTTTGAAAAATCCTTTATCTATTAGGTACGTTGCCCTTC
GGGCTCTCAAAGAGGAACCATCACTATCTTTTTGTCTGTCTAGCA
Found at i:249020 original size:4 final size:4
Alignment explanation
Indices: 249011--249035 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
249001 TTCCTGCTAC
249011 CTTA CTTA CTTA CTTA CTTA CTTA C
1 CTTA CTTA CTTA CTTA CTTA CTTA C
249036 CTGGGGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (4 bp):
CTTA
Left flanking sequence: Indices 248511 -- 249010
TGGCGGTGATACGACATCCGAAGATGAGACAGTGTGGTCTGGTACCATGCTCTTAGTCAAGGGAA
GGGCGAACCACATCTGTTCCAATTCCAGAGGCTTTCGGAGATCGAAGTCAGATCAAATGCAAATA
TTCGATTCCAGAGGAATCGGTTTTTGGGGAACCTCGGGCTGTAAGGCGATGGTTCGAAGATTTCG
ATGCCTTCTATTCCGGTCAATGAACCTATATTGGGAGGGAGCAGCTAACCAATCTCATTTCTCAG
ATAAGTCCATCGGTTTAGAGATTAGTTCATGCTCTTTCATCCCCGGAGTCGGAGATGGCTTGGCA
GCAACTCTCTCCCGGCCTATCAGTCCGATCCGTCTATCTGCGTTCACCCGGCCCGGCAGCTTTCG
TCCCCTATCACTCTTGCCTATGGCTCCATTTCTTTCTCGACTGGCTGCACGATTCGGGGGAGAGA
GGAGTTCAAACCCGACTCAAGGCCTAGTAGATCTATTCCTGCTAC
Right flanking sequence: Indices 249036 -- 249535
CTGGGGGAGATCACATACTGGATAGGGAAGGGGGACTTTGAATTAATTCAAAATAAATAAATGTT
GGGGAAGTTGGGCTTGCTGATTGATCCCTATGAGTTTCCAGACGTGGACCGCCGGGAGGGATTGA
TGGGAGCAAGCAGCTATTTGTATCATGAGCAATATAAAAAAATTCCCGGATACGATTAGATATTA
TTTCATTTGATTCGGGATGACGAAACTGAGAAGGCCACCTCCCTTCTTCTCTCTCCTCAATAGTC
GCTCTGATCAGTCTATGGGCTATGATCCTATTGCCCACCCCAAAGCAAGAAGTTTTCTAACTTTT
AAGTCACGTAACGGAATGTGATGCAAACGTAACCGCTCTCCCATCCACCCACCAGTAGAATGGAA
GGCGGGATAGGGACGGATTTCTTGATGCTTGCAAGAACAGGAATAGCTGAAAATGAGAAAATCGG
CTCTTAAAGATTCGACTGGAGGACTAGAGGAATCCGGTAAAGAAG
Found at i:254329 original size:38 final size:37
Alignment explanation
Indices: 254267--254338 Score: 126
Period size: 38 Copynumber: 1.9 Consensus size: 37
254257 GGGCAGTAAG
*
254267 GGTCGGAGAAGGGCAATTACTCATTCTTAAAACCGGC
1 GGTCGGAGAAGGGCAATCACTCATTCTTAAAACCGGC
254304 GGTCGGAGAAGGAGCAATCACTCATTCTTAAAACC
1 GGTCGGAGAAGG-GCAATCACTCATTCTTAAAACC
254339 AGCATTCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 12 0.36
38 21 0.64
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (37 bp):
GGTCGGAGAAGGGCAATCACTCATTCTTAAAACCGGC
Left flanking sequence: Indices 253767 -- 254266
TGGACCGTAGGTGCGATGATTTACTTCACGGGCGAGGTCTCTGGTTCAAATCCAGGATGGCCCAG
CTGCGCCAAGGAAAAGAATAGAAGAAGCATCTGACTCCTTCATGCATGCTCCACTTGGCTCGGGG
GGATATAGCTCAGTTGGTAGAGCTCCGCTCTTGCAATTGGGTCGTTGCGATTACGGGTTGGATGT
CTAATTGTCCAGGCGGTAATGATAGTATCTTGTACCTGAACCGGTGGCTCACTTTTTCTAAGTAC
TGGGGAAGAGGATCAAGTTGGCCCTTGCGAACAGCTTGATGCACTATCTCCCTTCAACCCTTTGA
GCGAAATGCGACAAAAGGAAGGAAAATCCATGGACCGACCCCATCGTCTCCACCCCGTAGGAACT
ACGAGATCACCCCAAGGACGCCTTCGGTATCCAGGGGTCGCGGACCGACCATAGAACCCTGCTCA
ATAAGTGGAATGCATTAGCTGTCCACTCTCAGGTTGGGCAGTAAG
Right flanking sequence: Indices 254339 -- 254838
AGCATTCTTAAGACCAAAGAGTCGGGGCGGAAAAGGGGGGAAAGCTCTCCGTTCCCGGTTCTCCT
GTAGCTGGATCCTCCGGAACCACAAGAATCCTTACTTAGAATGGGATTCCAACTCAGCACCTTTT
GAGATTTTGAGAAGAGTTGCTCTTTGGAGAGCACAGTACGATGAAAGTTGTAAGCTGTGTTCGGG
GGGGAGTTATTGTCTATCGTTGGCCTCTATGGTAGAATCAGTGGGGGCCTGAGAGGCGGTGGTTT
ACCCTGTGGCGGATGTCAGCGGTTCGAGTCCGCTTATCTCCAACTCGTGAACTTAGCCGATACAA
AGCTATATGAATATGATAGCACCCAATTTTTCCGATTCGGCAGTTCGATCTATGGTTTATCATTC
ATGGACGTTGATAAGATCCTTCCATTTAGCAGCACCTTAGGATGGCATAGCCTTAAAGTAAAGTT
AAGGGCGAGGTTCAAACAAGGAAAGGCTTACGGTGGATACCTAGG
Found at i:264560 original size:56 final size:58
Alignment explanation
Indices: 264498--264629 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 58
264488 TACCGGAAAA
264498 AAAAGAAAGAAA-GTGCCTAACTACATCTCCTTCGGACCAAGACGGACAGATTCATAT
1 AAAAGAAAGAAAGGTGCCTAACTACATCTCCTTCGGACCAAGACGGACAGATTCATAT
264555 AAAGAAAGAAAGAAAAAAAAGGTGCCTAACTACATCTCCTTCGGACCAAGACGGACAGATTCATA
1 --A-AAAGAAAG-----AAAGGTGCCTAACTACATCTCCTTCGGACCAAGACGGACAGATTCATA
264620 T
58 T
264621 -AAAGAAAGA
1 AAAAGAAAGA
264630 GGGGATAAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
57 1 0.02
59 1 0.02
60 8 0.12
62 8 0.12
65 3 0.05
66 45 0.68
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (58 bp):
AAAAGAAAGAAAGGTGCCTAACTACATCTCCTTCGGACCAAGACGGACAGATTCATAT
Left flanking sequence: Indices 263998 -- 264497
CTCCATTAGCACCCGCTCTTCGAACGAGGACTTCCCTGTCCACGAGGTCGAGTTTGACAAGCCCG
AACCCCCCGAAGAAAGCATAAAGTTTTTTATGTTTTCCATATCTAAGAGAACACAAATGACTTGT
ATACAGCAGAGACCCCCGAACCCGAGTCCACTAAAGAGGAAGCGGAAAGATTTTCCCAGTAGCAT
AGATTTGATCTTACCCATTAGCATATGCCAATCTAGATCGAGGACTACAAAGTCAGAATAGCATA
TAGTGAGTAAGGTGAGAAGTAAGAAGAGAATGATTCTGAAAAAAAAAATGAAGATTCGCCCTTTT
GATTCTACTGAAAAGATATCCAAATCGATTTTTTTAGAAACTAAAGGAAGACCGCGTGGGATCAA
AGAAACTAGCGGACTGATCACAAAATAGATAAAAATAGGTACAAATTCTGACATCACCACAGCCC
ACTTTGTTCTCTCGCTCCTTACTCGCGGAGCGGCATACCGGAAAA
Right flanking sequence: Indices 264630 -- 265129
GGGGATAAGAAGGGATAGCGCGTCGATCAGCATGGGATAAGACCCGAAGCAGCGGATAGTAGAAA
TTCCTTGAGTTAAGCATAAATAAGTACCTCAGAGGCTACGAGAAAGATCTGAGGGCGATCTCGCA
TTGTTGCTTCACAAAGCCCTTCCTTCTTTATATACGCAATATTTCGTCTAGCCCCGGTTCTTTTC
CCCCCTCGTAGACAAGACAATTGCTAGCCTGAAAGTGGCTGGATACTAAGTAACTCTTCATTCCG
TCATCTCTCCAGAAGAGCCAAATACCTGCTCCCTGTGCATCAATTTGAATAACTTTAGATAGTTG
AGCTTTATTGGAAATTTTGTCAGCAAGAGTGCATCTTGTGCGAGTCTCAAGCAATACCAGTATAC
TAGGATCATGAGATCGAAGCAAATCAGATAAATTCCTTCTGAACTTGGCTACGCTCCTCTCACTT
TGTTCTCAACTTTCCTAGTAGGAAGTTTGAAAGATAAGAAATTCC
Found at i:275587 original size:21 final size:21
Alignment explanation
Indices: 275561--275601 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
275551 CGAAGTACAG
*
275561 CTTGGAACTGGCTGCTTTCTA
1 CTTGGAACTGGCTGCCTTCTA
275582 CTTGGAACTGGCTGCCTTCT
1 CTTGGAACTGGCTGCCTTCT
275602 TTCTCTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.24, T:0.37
Consensus pattern (21 bp):
CTTGGAACTGGCTGCCTTCTA
Left flanking sequence: Indices 275061 -- 275560
CCATAACCTCACGATTCATTACTTATTCTTGTTCTTGTTATCACCTAGCAACTCCTGGTATCAGA
CTAACTAGAGCCGCTTGGCTTACCTTCTTCATAGAATGCTTCCCGCGAAGTAGTGAAGGGAGAAG
AATAGTCACTACACCTTATTTGCTTTCCCGTTGTCCTTCATCCGTTCTGTCAGCAGTACGCTTCT
CCTCAACCTTCGGCTTACCAAACTGCCGTTATCTTGTCTTATGAGTTGTGACTTCACTGGCTGGC
CCTTAGTCACTTGAATGATTCTATTCATAGAAAATCTAAGGATTGCCGTCTTTCATTTACTGTGA
ACTAAGGGGTTTAACCTGGGCTGAAAGCTTCCATGTCATCTTTATCAGATGAAAGAGACGAAAAG
CCCGAAAAACAAAGGAAATGGCGGATTATTGCGAGCTCAGGTTGGGTTGCTTTTAGGCCGAAGCG
ATGGTAATATTGGTAATCGTTGAGTTCTATTAATTCGAAGTACAG
Right flanking sequence: Indices 275602 -- 276101
TTCTCTCTGCGAAAAAGGTCTATCTCTCAACTCATTCTTGCCGAGCTGCTGGAAAGCTGAATAAG
GTGCGTAGCTGTAAGGAAGGGGGAAATTAATAGAAAGAGGAAGTCTCCTTCCGAAGGTCAAATCC
ATTGGATACAGAATCCTCATCTTCAAATTCACGTTCTTTTGGTATAATTCGGGGGGCTTGCTTCC
TTTGTGAGAAAGACGTGAGGGAATGTGCACGATTGAATGACCATGACTTTTCGATACTCACAGCC
AGCCCCTTCTTTTTCTGCCTGCCACATCTCTCTTCGATAGCGGGGGTAGAACCCATATAGATTCG
CAAGCACGGACTCGGCATAATCATTAGTTTATGCTGGAACGCCGTGGACAATTACTCACAAGCTC
GGCCTCAGTCAAGCAAAAGAGTGAAAGCGGCTGCCCCTCCCTACTGTCAAGCAAAAGAAAAGAGC
CAAAGCGACTTCCCCTCCCCCCTTCACGAGGTTGGCCTACTCATG
Found at i:342902 original size:29 final size:29
Alignment explanation
Indices: 342870--342943 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
342860 TGATTTTAGG
342870 AGGACTATAATGATGAGAACGACAAGGAC
1 AGGACTATAATGATGAGAACGACAAGGAC
342899 AGGACTATAATGATGAGAACGACAAGGAC
1 AGGACTATAATGATGAGAACGACAAGGAC
342928 AGGACTATAATG-TGAG
1 AGGACTATAATGATGAG
342944 GAGGACAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 4 0.09
29 41 0.91
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.16
Consensus pattern (29 bp):
AGGACTATAATGATGAGAACGACAAGGAC
Left flanking sequence: Indices 342370 -- 342869
GGAACTGCGCCTAGATATGCGTACAAAGGAATGCTGGCACTGTAAAGGAATTGGACTATATGATG
GTGGGACAGGCTTTCCCCTATCCACGCCGGTCCATCCACACTTCTACTGGGGATATTAGGCTATA
TCGGAACAGGGAAAGATACTGGACGGAGTTGTGCTTTTCCGCCAGGAAGAGATGTGAGACGAGGT
TCTTCAACCATTACTTTTCTTCTAATTTGAATTCCGTTCTGTCAGGGTCAAGATCAGGTGGTAGC
TTATTTGCTGTTGCTGGTGCTACTGGAGGATCTGGGTCTCGCTTCCGAACATCAGAATCTTTCGA
TCCCAAACATCAAAATATAGATCACTAGCATCCGGCTCTTCCTAACGATCACGAAAGACAGAACC
CCGATCACTAGCACTAGGTAGCCATGATTGGGGTTATAGTACTGACTATGCATAGGACAACTAAG
GTGAAAAGACAGGATGTATTCCGACGAAATGCTATTGATTTTAGG
Right flanking sequence: Indices 342944 -- 343443
GAGGACAGAACAGACCACTCACGATCTACTAAAGGGCAAGTAGCTTGATATTGGTTCAAATCCAA
TTCGTGAGAAGAAGCGTCAAATGATTTGGACTGTTGTCGCTTGCTTGCCTTGCCCTAAAGACTGG
AAAGAGAAGTCAACAGTGCCTAGACCTCAATCAATACGCTTACTGAGAGTACCGGTACCAGAACA
AGGATTTTTTTTGGTCAAAGCTGCCCGCCTTGAACCAGACTAGCTTCCGTCACTTACGGAACTGA
CAGAACTTATGATTCAAAGAAGGGACTTTACGCCAACTCGCTTACACCCTTGCCTTTGCTCTCTC
TACTGCGTCTAGATCTGCTGCTCCTGGGTCTACCGGGTATGGAACTACTCGTGCTCGCTTTTTGA
TTCTAGAGATGGAAGGAAGATCACTAGGTATGCTGCTTATTTAGATGCTTATACTGGATCTGGGA
CTCTTACTGATAGCTTAGGTCGGTATGTACCGAAAGTCGGAACAA
Found at i:343799 original size:21 final size:21
Alignment explanation
Indices: 343775--343826 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
343765 GTCTTTGACG
343775 TAGGTTTCTCCTCGTCTGTAT
1 TAGGTTTCTCCTCGTCTGTAT
* * *
343796 TAGGTATCTTCTCGTCTGTCT
1 TAGGTTTCTCCTCGTCTGTAT
*
343817 TAGTTTTCTC
1 TAGGTTTCTC
343827 GTCTAATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (21 bp):
TAGGTTTCTCCTCGTCTGTAT
Left flanking sequence: Indices 343275 -- 343774
GTCTAGATCTGCTGCTCCTGGGTCTACCGGGTATGGAACTACTCGTGCTCGCTTTTTGATTCTAG
AGATGGAAGGAAGATCACTAGGTATGCTGCTTATTTAGATGCTTATACTGGATCTGGGACTCTTA
CTGATAGCTTAGGTCGGTATGTACCGAAAGTCGGAACAAGAGGGATGTGTAAAAGTCGAACAAGC
ATCAACAGCAGCATCTGTCTCTCTCTCTGCTTTTGCTCTTACTGGCTTTCTATATGATGGATTTC
CTGTATTCCTGTATATGGATGAAGATATGGAACCAATGAAGCTGTTAGGGATGCTACCCTTGCTT
GGGATTCGGATAAGCAAAGGAGAGAACGAATTAGAGCCTCACATTGCTTCCCTCTTCCTCTGTCT
TACAGCGATAGTTCTCTGTCATTTTCTTTTGGGTGGATCATCTAGGTCTTTGATGCCCTTCTTCA
TTTGTTCTGCATAGTTATCCATTAAAGAAGGCCCTGTCTTTGACG
Right flanking sequence: Indices 343827 -- 344326
GTCTAATGTAGGGTGAGTCTCCTCTCTTGGTTCTTCTTCTTCTTTATCTAATAGTGTTCTGTCTT
CTGTAAGACTAGTCTCTATCTCTGTAGTGGATTGAGTGTGCATCTTTTTATCAGTATTCTTTTTT
GCATCATACAGTGATTTCATCTCTTTGTATCTCTCGGCTATCTCTCTTTCCTTCTGAGATAATTT
CTCACTGAGAATTTGATTTTCAGTCTGTAGTTGTATTAAATTATTCCTTAGTGATTTGATTATTA
GTTTTCCAATGTGATCTAGGCCAGACAAGTCTTTGATATCAATTGGATCAGTATCCTTCCAGACA
TCTCCGTGATATACTGGTATCCTCTTGGCCCCCAGCTTAATCCCAAGCCTGACAAATGTGTCCTT
CTTGATGATGTTAAGAGTGTGCCAATCAATCCGGAAGTTGCTTACCACCTGTACCTGTTCTGTAC
GAGATGGGTTCTCGAATTGTAACTTAAACCATTCAGGTTGGACCT
Found at i:346603 original size:15 final size:15
Alignment explanation
Indices: 346585--346620 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
346575 TGCCTTTCTA
346585 TTTAATGCCTTCATC
1 TTTAATGCCTTCATC
*
346600 TTTAATGCTTTCATC
1 TTTAATGCCTTCATC
346615 TTTAAT
1 TTTAAT
346621 TGTGTACGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAATGCCTTCATC
Left flanking sequence: Indices 346085 -- 346584
CTTGAATGATAGAAGATAACTTATTATCTCTCTCCTTTTCAGATAGGGATGGCCTATCTATCTTT
TTGCCGTCCATATATACTCTGATCATGAGTCGAACTATATAATTTCCGTCGTAGATTTCATCATA
TTTCATAATATTTCGATATATATGAGCATAGATTTCACTCATTGGAATTAACTTACAATCTTGAT
AAGTCAAGGGGATAGCTGGACCAAGCGTAAATGAGATCTCCTCTCCGTAAGATCGCATCATGGTA
AAGGAAATTGTGAACTTACCGTAACCAGATAAGGATGGGTAAGCAAACTGGATTAAGAGATCCAT
GGTCGCAAGACAGAATAGGCTAATATCGTTAACAAGAGGATAAGGCTCAAAGAAGTAATGTGATG
CAATGATTAACCCTGGATGTGGATCTTGCTGTGTTGTTCGTTCAATCTTTTGATACAAGTGATTC
AATAACTGCCCAGTAGTTGCGCTGTCTGTGGTGTATGCCTTTCTA
Right flanking sequence: Indices 346621 -- 347120
TGTGTACGCAGTAATATGGTAAGTTCTCCCCATTTTTTAGCTTGAACTTGAATTTTGCCCACTTT
AGCATATGAGCATCCCAACTATCCTCAGGGGATTGAAAATTACCGCATACATTACGAGTATAGTT
CTCGTAAGAATCCAGTATTCTCGAGTTCTTTTTTTCCCAAGTAGTCCTCATATTCTTGATTATGT
TATCAGGTATATTTGCATTTAAGTAATAAAGAAGCCTATCTTTTGATATTACCTTACTGGTTAAG
TAATTCTCAGTAAGTTTTCCATGTGACTCCTTTTTTAGAATTGGTTTAATAACATTCATATAGAT
GAAGTCGTTGATGATTGAAAGGGGAGGGCCCATCTTACGAAAGGCATAGCTATAAAAACTTGTTA
TATTATCGCAATATTGAACAGTTGTTAGAAAGTTGTCGTGTACTGTGTATATAGGCGCATTTATA
TTAAACATATCTTCTACTACACTCATTGCAATACAGGCATCCCTC
Found at i:352145 original size:31 final size:31
Alignment explanation
Indices: 352104--352183 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
352094 TAGAGGAGAG
* *
352104 AGGCTCGATGCAATTGAGTTGATTGTAAACA
1 AGGCTCGATGCAATTGAGTTGACTGCAAACA
* * *
352135 AGGCTTGATGCAATCGAGTTGACTGCAGACA
1 AGGCTCGATGCAATTGAGTTGACTGCAAACA
352166 AGGCTCGATGCAATTGAG
1 AGGCTCGATGCAATTGAG
352184 AAGAAGCGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (31 bp):
AGGCTCGATGCAATTGAGTTGACTGCAAACA
Left flanking sequence: Indices 351604 -- 352103
CCGAGACTCTCCTAGTGTACCGGGGGTGGAGGTATCCATAATTGCGTAGATAAGGAAAGTCGAAT
TTTCACCTATCCTGATCGCCTACCTACTAAGTGCTGCTATTCACTATCACTTCATTCTTCCTATT
AAACTGAACGATCATTTATGGCATTGATCAAGCACACAGGAACGTCTCTCGAAGCAAAGTTTGGC
CATATTTCAGTTATGCTGACTCCTAGCTAGCTCTCCTTACTCCCAGTTAGACGGTTATAGTAGGA
GGTGCAACTAGAGTTGTTGGGTGCTTCGATCGGTGATCAGGAGGTGGAACCTGGGTTATTGGTGT
AATGAACCATGTCAGGATTGCGATAGTTAGACCTTCCTTTTTGGTTTGTACCGACCAGTGAGCCG
TAATGAATGCAAATAGGAATCCTCCTCAAATCGGAATGTTTAGGATAAGGTTCGTTCAGTATGCA
AAGGTGCGATCTCGGGAGAGTACGGTCAAGAAGAATAGAGGAGAG
Right flanking sequence: Indices 352184 -- 352683
AAGAAGCGACTAACCAGATAAGCGGTCAAAGCTTTTGAATTGCGGTAGTACAGGGATCGGGGACC
TTTTCAGAAGGTGTACGCTCAGTAAAGGTCCCGGGCGATTCATGCGCTTGCGAAGATCAGATTCA
TGCTCAGGTAGCAGAGCGCTTTAATAAAAAGGAAGGTGACGCCTTTGACCCCCTGGGCCTGTCTG
ACTCCCTAGGCTTGCCTGAACGTAGGACCCGAGCGGCGACTTTAGCGCTTTTGATCGGAGCTTTC
ATTGTTCTTGGAATGGTAGTCGAAAGTGGTTACGACATGGCCTTCAAAGAGTTGTCCCCTTCTGA
AGGGATGTAGCTGTATTCAACCGTAGGCATCTTTTCTTGAGTACGATTTAAAAAGATTCCACATG
AAAGAGGACCGGAGAATCTCCCTATTGAATAATGGGAAGCGAGCTAATCCCCGAAAATGCTCGTT
CCTTTGTCGTTCAAGAATCTTGTGAAAAATTCCTTCGGTCGAGCG
Found at i:384009 original size:12 final size:12
Alignment explanation
Indices: 383992--384016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
383982 TCAGGGACAA
383992 ATTACCACCTAT
1 ATTACCACCTAT
384004 ATTACCACCTAT
1 ATTACCACCTAT
384016 A
1 A
384017 GTAAGGTCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTACCACCTAT
Left flanking sequence: Indices 383492 -- 383991
TCGGTGTTCAACCCAAAGCTAGCCTTCCCCTTTCGTCTTCGTTCGCGGTCAGGACTGCTATTTTG
CCTTCAATCTCAACAAATTTTCTTTTCCAGTATGCTTTTCGTCTTCGTTCAATAGTGCAAGTTTT
CTGCTTTTAGCTTCCCCTCACGCTGCTTTGACACCAGAACGGAATAATTGTGTCATGCCAACCCA
GAGCGCTAGCCTGCTACGCCCGAAAAGCAGCTTAGGGTTACACGTCACGTTTTTTAAAGGCAGGT
CATTGTCAAGTCCAGAAAGAAAGGTCATTTTATGCGAAAAAGACGTGGAAACCTAGCAGCAAGCC
TCAGATTTGCTTAATTGATACGCCTTGCCAGAAATAAGGGAAGCAGCAAGTCTTCGATCAATAAG
GTCATCATATCTTTCTAATAAACAAGGTTGCCAAGTTTCAGTTACAGTCGTTAGAAAGCAAGAAA
ATAAGGGAGGCAAGCAAGCGAGAAAGCAGCTCCGGTCAGGGACAA
Right flanking sequence: Indices 384017 -- 384516
GTAAGGTCCGCATTTGTAAGCATTGGTGTGGCATCAAAGCTAACAGCTAATCTAAGTTTATCCAG
GTAAGGGCTCAGTAAGGTCGGCAACGGTTTTGTAGTTGCTACCGGCTTGCTTCTCCTAGTCACAA
CGTACAGACTGGCTATCAGGGCAGAGGCGAGCAAACGTCTATTCCGCGACAAGTAAGGCGGTCTC
CGTTGTATTGATAATAAGAAAGATAGTTAGGGGGATCATTGTTCTACTATACCTTATAAGTTCAG
GTGGTAAGGAAAGAGGCTAGCGCCGAGTGAACGTCAATAAAGGCGTATGGTTCGCATGACGAAGC
TACAGGTCTCAGGGCTAAGGCTGATACTGAGAATAGTGGAGTTAAGAAAGGAACTGCAACTACCG
GGTGTACATAGTTGACTAAAGTAGTGTGATCCACTGCTGTGAAGGAAAGAAAGTAGGGGCTGGGC
ATAGGTATACGTGAGCAAACAAGAAATTGCAAGGGGGCTGGAAGC
Found at i:406182 original size:28 final size:29
Alignment explanation
Indices: 406148--406203 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
406138 ATCAAAGAGA
406148 GGCCGG-AAGCAAGTCAACTATGTCAACC
1 GGCCGGAAAGCAAGTCAACTATGTCAACC
406176 GGCCGGAAAGCAAGTCAACTATGTCAAC
1 GGCCGGAAAGCAAGTCAACTATGTCAAC
406204 TATATGAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.34, C:0.27, G:0.25, T:0.14
Consensus pattern (29 bp):
GGCCGGAAAGCAAGTCAACTATGTCAACC
Left flanking sequence: Indices 405648 -- 406147
CTTTGAAAGCACCTTATAGGAAATGTGCACCCTTAAGATAAGATTTGACTCTTTTGTTGCCTTAG
TGACAGGGTCGGAAGGCACAAGGAATTGAGCACGATCCTCCAGTTATCAAGTATACCCCTGTCGC
GATAAGAGAACGAAATAGTGCTCTGGTTGGAAGGTCAGGAAGGGCGCATGCAGAATTATGGTTTT
AGAAAAGAAAGAATCCTACTATCTGTTGGCAGAGCGGCTTCCAAAGAATTGGTTCTCGCTGCTGC
TGTAGCTGCCGAAGCCGAAGCGCCTTCACTTGAATGGATTTCCGCTTTTGAGATATTGAATGAAA
GATGTGCGTGAACCGCCCATTCCACTAAGGGCTCTTTCTTTCCCGCCCCCACAAAGGGCTTTGTT
CGTAGAGTCATAATACTCCTTCCTTAGTTAGCGGTGGGAGTCACTGTATAGGACAAAAGAAAACC
ACGAGATCTTTTCTATGCCGGAAAGTCAAAACTCTATCAAAGAGA
Right flanking sequence: Indices 406204 -- 406703
TATATGAGACGCCGGTACCACACTTGACAAACCTAGCGCACTCCCTCTCCTCCGATCATAGATCT
TTTCATCAAATAGGACTCCCTCCTCACGGATACTACTATATGACATGACATTAAGAGAGGCCTCG
TTTTTCATTTCGTTTTTTCCTAGCTCACTCGTAGGTATTGAACTGCAAGTAGCTCCCCTCTCCGA
ACTACACAGACAGAAAAAGTACGGCTTCCAATAGAGTATATATAAATTCCAAAAGGGGGCTTCAA
ACGTGCACTTTTATAGAGCTGTGTAAGCTGCCGAATAAATAGAGTTAGTTATACGCGCCGGGCGC
AGATACTTGAACTATCAAGCGTAGTTCTCTCATCTATCTGAACTTCGAGCTGGCCCAAAGGGGCT
AGACAATCGGAGTACTATTTATTATTCCACCAGGGCGTCCCAACCCCGGCAATCGGAGTGAGGAA
GGGAAGAAAAGACTCTTTGCCGAAGAAAAGCGGATGGGCAAGTGC
Found at i:420550 original size:2 final size:2
Alignment explanation
Indices: 420543--420593 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
420533 TCCACTGGAA
*
420543 AT AT AT AT A- AT AT AT -T CT AT AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
420581 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
420594 GAAGCAAGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
1 4 0.09
2 40 0.91
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 420043 -- 420542
TAACAAATAGACTTCGCCACAAAGGGGCTATGGGATTCGAACCCAAATATTCCATTCCAGCCCTA
AAAAAGTCGAATAAATGACGACTTTCAAACACGAGCCGTTCCCATTTCGGAATGAATACTCGACG
GTGGACTTACTTCGTTTTTTAACCTGCGACTGATAGCTCAAGCTCGCCAATCAATAAGAGAGGGT
TCTCTCTGGCTAGTTAACGAACTTCAAGTGATCGATCGGATTCGACTCTGCCAGACGGAGACCGG
CTTGACCCTAAGGTGGTAAGCTCTTTGGGCGCTGATTTTTCGAAACCGATATCTCGCGAATTCGC
GACTCGCATTCATAAGTTATTTTGAATAAAAAGAAATTCTTTAGTTTCGAATGAAATAAGTGTCT
TAAAGATCTAAAAGCTTTCGATCACTGGGGAGCAAATCCTACTAGCTGAACACAGACCAAATCCT
CATTTTTTGAATGGTGAACTTTCTCCGATCTGCGATCCACTGGAA
Right flanking sequence: Indices 420594 -- 421093
GAAGCAAGCAAACTTTCTTGTTGACGTTAGCGCAACGTCTTTCTCTTAAGGCGCTCGTTGCTTGT
GGGATCTTCTCTTATGATCTTTTCTCGTAACGACTTCCTTTACTTTAAGTAGGGATCCTACTCGG
TCGGTTTTTTCTTCTTTCTATTAGTGGAATAGAAGGAAAATCTGAGTCCAAAGTATGGATTTGCA
CGAGCAAGTAAAGGGGGTCCTAATGACTGAAATTCACTACAGAAAAGGAACGGGGCATACTGACC
TCCTTTCCTTGCTTTTGCAGCTTTCTCAATTGTTGATTCGGATTCGGTTTTTCTTCCTCTGGGGT
GAACTGCTCTCCCGGAGCTAATTTGAAATCTCGATTCGTTATGATCTTTGCGCGTAAGGGCTTCA
TTCGTATTCAAGAAATGATCATCTCAGATTGAATCAGCCGAAAGGCAAGGGAGTGGACTATACTC
TCTAGTTAGAGCTCAAGATCTTACTTCTCTTCCTGAAGATGGACA
Found at i:420568 original size:20 final size:20
Alignment explanation
Indices: 420543--420591 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
420533 TCCACTGGAA
* *
420543 ATATATATAATATATTCTAT
1 ATATATATAATATAATATAT
420563 ATATATATAATATAATATAT
1 ATATATATAATATAATATAT
420583 ATATATATA
1 ATATATATA
420592 TAGAAGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATATAATATAATATAT
Left flanking sequence: Indices 420043 -- 420542
TAACAAATAGACTTCGCCACAAAGGGGCTATGGGATTCGAACCCAAATATTCCATTCCAGCCCTA
AAAAAGTCGAATAAATGACGACTTTCAAACACGAGCCGTTCCCATTTCGGAATGAATACTCGACG
GTGGACTTACTTCGTTTTTTAACCTGCGACTGATAGCTCAAGCTCGCCAATCAATAAGAGAGGGT
TCTCTCTGGCTAGTTAACGAACTTCAAGTGATCGATCGGATTCGACTCTGCCAGACGGAGACCGG
CTTGACCCTAAGGTGGTAAGCTCTTTGGGCGCTGATTTTTCGAAACCGATATCTCGCGAATTCGC
GACTCGCATTCATAAGTTATTTTGAATAAAAAGAAATTCTTTAGTTTCGAATGAAATAAGTGTCT
TAAAGATCTAAAAGCTTTCGATCACTGGGGAGCAAATCCTACTAGCTGAACACAGACCAAATCCT
CATTTTTTGAATGGTGAACTTTCTCCGATCTGCGATCCACTGGAA
Right flanking sequence: Indices 420592 -- 421091
TAGAAGCAAGCAAACTTTCTTGTTGACGTTAGCGCAACGTCTTTCTCTTAAGGCGCTCGTTGCTT
GTGGGATCTTCTCTTATGATCTTTTCTCGTAACGACTTCCTTTACTTTAAGTAGGGATCCTACTC
GGTCGGTTTTTTCTTCTTTCTATTAGTGGAATAGAAGGAAAATCTGAGTCCAAAGTATGGATTTG
CACGAGCAAGTAAAGGGGGTCCTAATGACTGAAATTCACTACAGAAAAGGAACGGGGCATACTGA
CCTCCTTTCCTTGCTTTTGCAGCTTTCTCAATTGTTGATTCGGATTCGGTTTTTCTTCCTCTGGG
GTGAACTGCTCTCCCGGAGCTAATTTGAAATCTCGATTCGTTATGATCTTTGCGCGTAAGGGCTT
CATTCGTATTCAAGAAATGATCATCTCAGATTGAATCAGCCGAAAGGCAAGGGAGTGGACTATAC
TCTCTAGTTAGAGCTCAAGATCTTACTTCTCTTCCTGAAGATGGA
Found at i:426492 original size:16 final size:14
Alignment explanation
Indices: 426471--426510 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
426461 TCCCATGAAT
426471 CACTGCTTTCTGCAC
1 CACTGCTTTC-GCAC
426486 GCACTGCTTTCGCAC
1 -CACTGCTTTCGCAC
*
426501 CACGGCTTTC
1 CACTGCTTTC
426511 CGCAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 10 0.43
ACGTcount: A:0.12, C:0.40, G:0.17, T:0.30
Consensus pattern (14 bp):
CACTGCTTTCGCAC
Left flanking sequence: Indices 425971 -- 426470
AACTTCAAAGTCACCTGATTTGGCACCAGCCAAAGGAGTAGGAGCAGCTGCTGGGGAACCACCAT
AACCATCCATGGGAGTCAGAATAGCAGCAAAAGGAGTAGTAGGAGCATGGGCACTGGGAAAAGAT
TGAATCGATCCTGCTCTGGTAACAAAGCAGTAGGCAAGCCTTAGTGGGGACCATCCATACCTCTA
AGCCCGAGACTTTTTCTCCTCGGATCGGAGCGCACCACGGGATGCTTTGTGAACAGCCCCCTCTG
CAGGTCCCGCTGCAGTTATATGAGCTGCCCCCTCTGTTCAATACCGATACCTGTCAGATTCCATA
GCTGATGAATCTCTTTCTTTTGAAACTCTTTCCATTGATCGTCACGCAAGACGCTTTTCTGGCAC
AAACCTAGTAGTTATTTGTCCTGCCGATCTTGGGTGAACTGATGACACTGATGCTCCAAGACCAA
GAGTTTTCACAGCCAAAACTATTGAAGCTGCTCCCTCCCATGAAT
Right flanking sequence: Indices 426511 -- 427010
CGCAAAATAGAGAAAACAAACTCCTATCCCAGTTGATCGAGCTGAATCCACCCACTGCCGGGCAG
GTGCATCAGCCTCTTCTTTCTTGTTTCCGACAGGGCTAGTGTAGCTAGCCGCACAAGCCTCTGAC
CTGTACTCCAAAAAGGGAAGGTGAGGGGCTTAGAGACGGGTAGATAGACTAGACCAAGAAGAAGA
AAAGAAAGCGCTACTATACTAGGCGAGGGAGGCTCCACCCGTAGGAGCCGACCGATTGTCGCTAT
AGTAGGTTTGCTATCTTTTTCGAGTGCAGTGAGTAAAGTAGCTAGTTAACCTTACCGAGGCTTTT
CGCTCCTCTCCTTACAGTCGAGCCTCTGACACGGACAGCCATAGTGGTGGTAGCTCCTGTTCTGA
TGCCTTCACGCTCCTCTCGCTATGCTCGAGCTGCTTCGCACCTCTCACTTTCTTTTGTTTGAGCG
GCTATCGCTTCTCTTTGATTCTATAATGGGAATTCCTCTTCTATC
Found at i:444359 original size:31 final size:33
Alignment explanation
Indices: 444308--444368 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
444298 ATCCCTTTTT
444308 ATTTCTATCTAATATATATATCTTATATAGTTG
1 ATTTCTATCTAATATATATATCTTATATAGTTG
444341 ATTTCTATCTAATATATAT-T-TTATATAG
1 ATTTCTATCTAATATATATATCTTATATAG
444369 ATAGAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 8 0.29
32 1 0.04
33 19 0.68
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.52
Consensus pattern (33 bp):
ATTTCTATCTAATATATATATCTTATATAGTTG
Left flanking sequence: Indices 443808 -- 444307
AACTGTAGAATTTAATGAGAATAAGTTATCCTTAGAATGAGTTCTAATAGAGTAATTAGAATAGT
CCATTCTAGTTATAAAAGAAAATTGAACATTTGTTTATTATAATGAGTAATGATAAGTCGTCTCT
TCAATCGCCAAATATTTTTCTTTTCCATTATTCCAATCAAATCCATTGTAAAGACTAGAAAGCAA
CAAAAGAAAAAGTAAGTGGACCTAACGCATTGAATCATGACTATATCCACTATTCTGATATTAAA
ATTTAAAATTCGATAGATATGAAATTGGAACAGTCGATGTTTTTTTATTTCATAGTTCTTTGGAC
TCCGCAAGAATCCGTCGATATTTCCGATTAAATCTTCTTGTTCCTAGACGTTCCATAGGAATAAC
TTGATATTCCGCTCCTATACAGAGAAAGGTTTATTCCAAGTTACAACACAAGAGATATTTCCAAT
ATGTTTCTTTTTCTTTGATTCCCGAACACAAGAAGATCCCTTTTT
Right flanking sequence: Indices 444369 -- 444868
ATAGAAATCAGATCATGGCTTCATGTATCAAATATTTTCATATCGATGCATATGATCCTTTTATT
TTGTTCCGACAATGTGAGGAGAGTGGATGTGAAAAAGAAACTTTCATTTACAGTCTCCTATTATT
TAATTTAATATTGTATTTGAATTTAAAAATAGGAAATTCGCTTTTTGTCTCTGACATATAAAAGT
AAATAGAAAAATATTCGAAGTGTGTTTCTTGCTTCGACCCGTGAAATGAAAAGATATACTATAGA
GTTTTATATTAATCTCAAAGAGAAGGAAATATAACAAAGAAGACAATAAATAAAAGAAAATGAAA
AAGGAAAGTATAAAGCAATAAAATATATGATACTGTAGGAGTTTAATACACATAGGTCTGGGGAT
CTATCAGTAAGGAAAGAAGGGATCACTTCTTCCGTGAATTGAAGAGTTCTTTCAAAAGATTCATC
TATCGTATTGATAAGTCATAAGACAATTGATGGTTCAGGTTCAGA
Found at i:463654 original size:12 final size:13
Alignment explanation
Indices: 463637--463669 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
463627 CGGTTTCGGG
463637 TGCTTATGA-AGT
1 TGCTTATGACAGT
463649 TGCTTAT-ACAGT
1 TGCTTATGACAGT
463661 TGCTTATGA
1 TGCTTATGA
463670 GGGTCCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (13 bp):
TGCTTATGACAGT
Left flanking sequence: Indices 463137 -- 463636
GTTTATTCGTGACTCTTAGCCGCTTCGCTTCCTTTGATGGCGCTTTCTTATTCAAGATGGCTTTA
CCGCGGGCTTTCCACGGTGCACCTAGTTATTCGAAACAGACTCTTTAATCCGATCCCTCGGCAAT
ACTCCTCTGCTTGTGCGCGTGTGCCTCTTATGGCGGCTGCTGTTCATGCTATCTTAACTTTAGAC
TTGACTTGAGGAGCTACCAACTCCAGTTCGCCCGGACACAAGCAAGGTCAATGTCAATTTAGGCT
CAAGCAAGAGCTCCTACTCGATATATCTTATCTTATAGAAAGAGAAAAGCACATAAAGGTACGGC
GGACAGGCTAACCAACCAGAGTGACTTACAAATCAAGGAAAGACGAGCTAAAGCCAAGATTACGA
CTACAAAGCACAGTCAGCGGTTCAGGTTTTCGAGAGTCGAAGGCTAAGGCCAGTTCCAGTTCATC
AACCGAAAGCTCGGCTTGGGAGCTCGGGTTAGGGACGGTTTCGGG
Right flanking sequence: Indices 463670 -- 464169
GGGTCCTGATCGTTACCCAGACCCACCACTATATCCACCACCATCACTAAGAGCAGAGGTCAAGG
TAGCACCCCTAGCAGCTTCACAGGTTTCATCTCCAGATCAAGACCGGGTTCCATGCCCAGTATCA
GTTCCAGTTGTTCCAGGTGAAGACCCAGATCGAGACCGAGTAGCTTCACTAGTAGATCCAAGTCC
AGTCATTGATCCCGTTGGAGTAGAAGCAAGGGTACCTAGAGCAGCAGTTCCATCTCCCGATCGTG
ATCGATACCCATACCCATGCCCAGCATCAGAACCTGCGACTTGCCCCGGCATCCCTTACAACTAG
AGATAGAGATCCAGATTAAGATCTTCGTGTTCGAGATCCATACGCGGATCCATATCCATACGTAG
GAGCAGACTAAGTATCTCGTTCTCTTATATTCGTATATTCTGTCGATTAAGCAAAGCAGTTCGAT
ACCCATCAGCAGCAAAGGCCTCGACGTACAATCGGCGCATGAGAT
Found at i:465893 original size:14 final size:14
Alignment explanation
Indices: 465874--465904 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
465864 TCTGACCCAT
*
465874 AAGACCGATTAAGG
1 AAGACCAATTAAGG
465888 AAGACCAATTAAGG
1 AAGACCAATTAAGG
465902 AAG
1 AAG
465905 GGGAACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (14 bp):
AAGACCAATTAAGG
Left flanking sequence: Indices 465374 -- 465873
GCAGAACTAGTACAAAGACCATAAGAGGGCTTGAACTAGCGAGATAGGCTCAAAAATCGGCAATT
GAATTGAGAAGGTTTTCCGCAGTTGACCGGGAAAGGCTAGCAGAAGAGGGAAGGGCTGGGGGGCA
GATTCCACCGATCAAAGAAGCCAGGCTACATAAGACTCTCTCGGAATGGACAGAAGAGGCTACGG
GATTCGCACACTAGCAGGGCCAATCAGCGAGACTTTTTTTTACAAAAAGACTAAACAAGGAATTG
ACTGAATAGGACACGAGCGGGTATTTTCAAGCCTATGTGACCAATGCACTTATGCTGCCTTCACT
CAAACACTTTCAAAGAAGCAAGGGGAAGAGTTTAATACTGAAATCGATTCACTAAGCTAGCTTAA
CTCTTAAACTACTTGAACTAGAGGAGCGGTACGAGCTACTAATAGGCTTACTACAAAATAAAGGC
AGCCTATTTGAGATCCTTTTTCAAGGCTCAAGTACTCTGACCCAT
Right flanking sequence: Indices 465905 -- 466404
GGGAACTATTGTGCGGTTTCCTCTTTGTTGAGCATGGCGCTGATGAATGATGGTCTTGGGTCCTC
TTTTGTTCCCAAGTTGACTTCTATCAGGTCATTGACAGTTGCTTGTCCACCCTCTTCGAACTGGG
GCGGCGCAGACTGTAGCTCCTGTCTTGGTCTTTCCTCTGGGGGGTATTCTGTCGCGGTTTACTCA
TCGCATGATGATCCTTCCTCCGTGGAGATTGAATATACAGCCGCAGACTGTCTTTATCCGACCCT
TTCGTCTTCATACACACTTTCGATGATAAGTACGCCAGAGGGAAGTCTCGTTCTGAAGGAGAGTC
CCGCAAGTTGCCTTTGATCAAGCCCTTACTTAATCTTCGTACACACTTTCGATGATGGATTCACT
CTCTTTCATTACTTCCTGTAATGGGAATGGCGCATCTCCTTTGACTGAAATTAAGCATGAAGGGC
TGAGCGTTTGGTCTGAGTCGATTGCGGTGACGTAAATCAGCATTG
Found at i:482297 original size:16 final size:16
Alignment explanation
Indices: 482276--482308 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
482266 ATTGGGTCAC
482276 GTAGATCTTCTATTTT
1 GTAGATCTTCTATTTT
482292 GTAGATCTTCTATTTT
1 GTAGATCTTCTATTTT
482308 G
1 G
482309 CCGTAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.55
Consensus pattern (16 bp):
GTAGATCTTCTATTTT
Left flanking sequence: Indices 481776 -- 482275
AGTACATAGACCATGGAAAGTTCACATCGTCAGGGTCATCCCTCCGGGAGGACAGGACCACCCGA
TCTGGTGCGAAGAAAGAGAACAGTGGGGTAATATACCCCACTGCCCAATCTAGAAAACACCTGGT
TGGAACGGCCAAAGGTTCCCGGCAGCTCTTTGGGTTTTATCCCGACGTTGGTGCCTGCAGTGTCA
TCCGATCCCACATAGCGACTGAGAATATATCCCAGATCATTCTGTGGAAAGGGGTGTTCCCCTTG
GGAGTCGAAATGAATCTGTTCCCTTGGGTACTAACCGATGATGACGACCACTGAGGGAGCCAGCG
TAGACCACATTCCATGGGAATATCAAAGACCCACGGAATGTACCGTTCAGCCAGATCCATGCATA
CTTCCCAAAATGAATGAAATTTTGCATTCAATTGGGTAGTGGGACCCTTAACAATGGTCTTAAAC
TGAAAGTGAGTATCTTCTTTTTTTTGAACAGGAAAATTGGGTCAC
Right flanking sequence: Indices 482309 -- 482808
CCGTAATTCGTTAATTGCTCCGTACGAATTGACTTTTTCAAAACTCGTTGTAAGATCATTGAAGG
AAAGGTTGGTCAACAATTTGGAGTTCTACACGGAAACGAAGACTTTCGAGAACAAATATTGGACC
GGGAAGAAAAAGGGGGAAAAAGGAAAGGAAAGTCTAAGCGCATATGGCAAGAAAAGGAAATCCGA
TTTCGGTAAGACTTGATCTGAATCGTAGTTCAGATTCAAGTCGGTTCAGTGAGGGCGACCGCGAA
AGTCACCGAAAGAGAATGGGTCAGTCTTTTTCTTCAGTTTGTCCTATAAAAAAAAAAAAAAAGCG
TGGTAGGACGTTGCGGATGTCCGGGACGGACACGACTTCTTCTAACGCTAGAAGACCACTGGGAA
AGACCCGGGACCAGAGCATGTCGTGAAAGAAGCACACTGGGCGGGCGTGCTTCGACCGTGTCTCC
GGGGCACAGTTGAATGTAGATATCATGAACGCGAGGTGCAGGATA
Found at i:492730 original size:18 final size:18
Alignment explanation
Indices: 492707--492742 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
492697 CAGGTTGATC
492707 CTTCACTTTCACTCTATT
1 CTTCACTTTCACTCTATT
492725 CTTCACTTTCACTCTATT
1 CTTCACTTTCACTCTATT
492743 TGATTGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTCACTTTCACTCTATT
Left flanking sequence: Indices 492207 -- 492706
TACTATCCCATGTTTTAAGAATAAGAATCTATTTTGCCAGCTCCCGAGGAGATGATCTCACTGGG
GCACACAATTACTATGATCTATGGGTTTTCGATTCATCCCACGAACCAAAGGATGAACGGGTATT
TCACAAGAAAGCAAATGTGCCTATCGTAATGATAGCCAACAAACTACAAGCTAGCATGAGAGATC
AGGGACCCTTTAGAGCAAGGTACATCAGGATGAGAATCTCATCAAATATACATGATCTAGATGAA
GGCAGGATTTTTGCAAAACTTTGGGGATGCAGAAGGGTGCGCAATTCACCCTTCGCCTTCTTTAG
TACGACACCAAATCATGTTCACCTTGACTATAATTATTGCGAGGGGTACTTTATCCCCTATCACC
TCGATTCACAAGAAAGAAGCTTTCGCAAAGATTATATGGACTCATATCTACAATTCGCAAAAGAG
ATTGGATTGTGATCCTTTCTTATGAAATGGAATCTCAGGTTGATC
Right flanking sequence: Indices 492743 -- 493242
TGATTGATCTGCTTATATAAGAATATTGGATTCATTTCATTCCTTCAGCTTGAAAGCGGATCCTT
CTTTCCGGATAAACAAAGGCGATAGATGGGTTCAGGTCAAAGAAATGCTTTTTCTAAGCTTTCAA
GCCCTGGAACGAAGATAAGGGCCAAGTCGTTGACCATACGGTCTTCGAGAAGGAGCTGCTAAGGT
ACAGACTAATTCGATCTTTTGGTGGTATCATATATAAGCTGCGAATGCCTGTCCCTCTCCTCTCC
GCCTAGGATTAGCTTGGGTTTGAAAGAGATTAGTCTAGTTAAGCAAATCCACTTCTTTTCGAACG
GCTTTTGGCGGTCAGTCGCTCCAAGACAGTCAAGTCAACCCTTCCATTCCGGACCTAGGATTCAC
TTGAGACAGAGAGGCGAGACATGAAGAAAGCTAAGAACTCTTATTACATAGAGCCTCGAGTACCT
GAACCGGAAGATCTCATTCCGCCTTCGACGGAGCTGAATCTGTCC
Found at i:519040 original size:65 final size:65
Alignment explanation
Indices: 518961--519091 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
518951 TAAACAAATA
518961 CAGATCCTCGGTATCATTCTCTATACTGAGATATACCATAAGACCAATAAGTTGATTCGAGATCT
1 CAGATCCTCGGTATCATTCTCTATACTGAGATATACCATAAGACCAATAAGTTGATTCGAGATCT
519026 CAGATCCTCGGTATCATTCTCTATACTGAGATATACCATAAGACCAATAAGTTGATTCGAGATCT
1 CAGATCCTCGGTATCATTCTCTATACTGAGATATACCATAAGACCAATAAGTTGATTCGAGATCT
519091 C
1 C
519092 GCTATCAACC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (65 bp):
CAGATCCTCGGTATCATTCTCTATACTGAGATATACCATAAGACCAATAAGTTGATTCGAGATCT
Left flanking sequence: Indices 518461 -- 518960
TTATTTGAAAAAAAAATAAAGAAAAAATAATCTTCTTTTTTTAGTTTCGTCCTCTTTCATAACAT
AAATATTGTTAATAACCTTCCGGTGTGAAAAGAGTTTGTGACGCTGAAATAGGTCTACGATAGGT
AAGATAAAATCGGAAATACCCTTACTTTATCTCATACTACTCTTTCGATACATAATCGAATATTT
TGAAAAAAAAAACAATAAAGAATTTGCATATCGAATTCGAAGTGCCATGCTATTATTACTTAATA
TGAATAATTCATATGGTGAAGGCATAGTCTTCTTTTTTCTCTCAAATAAAAAACTCATTGGCGCC
AAGCGTGAGGGAATGCTAGACGTTTGGTAATTTCTCCTCCGACCAGGATAAAAGACCCCATTGAG
GCGGCCAATCCCATGCATATTGTCTGTACATCTGGTCGCACAAATTGCATAGTATCATAAATAGC
TATTCCGGGTATTACCCATCCGCCAGGAGAGTTTATAAACAAATA
Right flanking sequence: Indices 519092 -- 519591
GCTATCAACCTCTTGGCCTAAAAAAAGTAATCGTTCTCGATAAAGTCGGTTGATTAGGATAAAAT
TGTATCCCTTAGGAGCCGTACAGGCACCTTTTGATGCATACGGTTCAACAAAACTTGCGCAAAAA
AATCAATGTGTAGACTTCAGCCCTCTTTCTTTTTTCATAGCGGGCTCTTTCTAACGAAGGGGCTT
TTCTTCCATTTTTCAAGAACGATGAGTTTGGCTGGTTTTCCTATAATATAAAAAACTATTCACTA
AACTCATCGAACTAACTTTTCATTGATGTATTTTTTCATCGGGATCCAATCCAAAAATCACGATG
TCATTTTCTTGTTCCTGAATGGGCTTCTTCAATTTTTTTAGGTTTATGCTCTACTCCGAGTAAGG
ATCTGCCCGATTTTGATTTGCACATATAGGACAAATGACCCCAATACCACGTCTTTTTTTTTTTC
AATTCATTTCTTGCATGTCTTCCGATAAATATTCGACGTATTCAT
Found at i:520314 original size:65 final size:65
Alignment explanation
Indices: 520156--520287 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
520146 ATAAGTTCAT
520156 AAAATAAAGCAAAACAGAATGAATAAAGGAAAATTCTTACGAATAGGTCCTTTGAACGATGACCA
1 AAAATAAAGCAAAACAGAATGAATAAAGGAAAATTCTTACGAATAGGTCCTTTGAACGATGACCA
520221 AAAATAAAGCAAAACAGAATGAATAAAGGAAAATTCTTACGAATAGGTCCTTTGAACGATGACCA
1 AAAATAAAGCAAAACAGAATGAATAAAGGAAAATTCTTACGAATAGGTCCTTTGAACGATGACCA
520286 AA
1 AA
520288 TATAGATGCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (65 bp):
AAAATAAAGCAAAACAGAATGAATAAAGGAAAATTCTTACGAATAGGTCCTTTGAACGATGACCA
Left flanking sequence: Indices 519656 -- 520155
GAATCATTTATGATATAAGTAATAATCATAGATATTATTACCAATTGGGTTTTTTTAAACGGAGC
CTGGATACTTCATTTTATTGGTCCAGCCAAGCCGACCATAAATTATTTTAATTGGCTAATATTAA
TCTGGATACCTCCTCACAAAATGGATCTAATTGCACTTCATTGCGCTTCACGCTACAAATTTTTG
ATAATTCAATCAATTTTTTTTGGGCAAAACAGAGGATATCTCGATCGGGGGAGAGAACGGGGAAA
TCCCATATGACCCAATATATCTGACAAGTCGCACTATACGTCAACCCAAGATGCATCTTCCTCTC
CGGGACTTCGAAAAGGTACTTTTGGAACACCAATAGGCATAAAATGAAAGAAAAAAGAATTAAGT
ACTCTATTTCACTTTGATGTGGAAGCGTAATCGTAATAATGGACTTATTGTCTTAATAATATAGA
ATATCGACCTTTATCATATTTTAGACAGACCTTGAATAAGTTCAT
Right flanking sequence: Indices 520288 -- 520787
TATAGATGCATTCGCTCATAGAAAAGGGAATCCACCCCCATTGCGTATTGGTACTTATCGAGTAT
AGAATAGATCTGCTTCTCTTTTTTCCTACGAACCGAACTGTTCCATTATTACTAAAAGACTATAA
CAAATATTAATCCTTTTTCCGAGATAATCCACTGAAAAAAAGTGGGTCCATAGCATAGTTTTTTT
TTTTCAATGCAATAAAGTTACATAGTGTCTATTTTTTGTTCATAAAGGGGTATTCCCATGGGTTT
GCCTTGGTATCGTGTTCATACCGTCGTATTGAATGATCCCGGTCGTTTGCTTTCTGTCCATATAA
TGCATACAGCTCTGGTTGCTGGTTGGGCCGGTTCAATGGCTCTATATGAATTAGCAGTTTTTGAT
CCCTCCGACCCCGTTCTTGATCCAATGTGGAGACAAGGTATGTTCGTTATACCCTTCATGACTCG
TTTAGGAATAACCAATTCATGGGGCGGTTGGAGTATTACAGGAGG
Found at i:555548 original size:26 final size:25
Alignment explanation
Indices: 555494--555549 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
555484 ATAGATATAT
* * *
555494 AATTATATATATATATTATTATTCT
1 AATTATAAATATATAATATTATTCG
555519 AATTATTAAATATATAATA-TATTTCG
1 AATTA-TAAATATATAATATTA-TTCG
555545 AATTA
1 AATTA
555550 ATCTAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTATAAATATATAATATTATTCG
Left flanking sequence: Indices 554994 -- 555493
TCTTCGCCTAAAGTTGTAACTTCGCTCTTCGATTCTTCGCCATCGCGAGAATATAGCAGAGCTAT
CGCTCAGCTGCTTCGCGTATTACGAAAGCCGTATTGTATTGCCCGAAAGGGGCATGCTGCAAGAG
CGTAGGTGAGTGGTAAGCGTAGGAGGCATGCCCGAAGGGCAGCGGCAGCGGTGTGGTTCCAGGTG
CCGTCGCTAGATTGAGATCCGCAGGGTGGCGTGGACTTCGACTTCCTTATTTCGGGTGAAGAGAC
GGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGTTATGAGCGGTACGTTTCACCCA
ATTAAACTATAAGCCCCTACGGATCTCTACATGCAATTTGCTCACTTCGGTAAGAGCGGACGGAA
AGGGGAGGTCTTTGCTCTATCTGCTTCTTCCTCTTCCCAGGAATGAACAATTCAAAAAAAAATGA
TTTTCTTATTGTTTATAGATAGATATAGAATATAGATAGATATAT
Right flanking sequence: Indices 555550 -- 556049
ATCTAATATAATAAATAAAATAATTAAGCAAGCGGCCCTTTCGCGACTCAAACTGCCGGTACGCT
TTCCGGCTCGCAACGACTCAAACGGGCGGGGGCTCTCTATCTGCTTGCAATGCCGGCTGTTCGCG
TTTAGTTAAAAGTAGAAGTAGAGGGCGCCCTTTGCCCCACACTTCAAAAAAAGTCCAAATTTTTA
TAAAAAGTAAGAAAAAGTACATAAGAAGTAAGAAAGAAAAACTTAGTTACGGGAACCGAAGGTTA
GGCCGACTACTTACTTTAGTATAGCTAAACCTAAAAAAAAAAGTGGATTCCCCCTTTTTCTTCTT
TTTTCTGTCAATGTTGCCAATTCCCAGAATACTAATGTACCCGCGTGGATACAGTTGCCCAACTA
CTTTCTTCCTACTACTTTTTTAGCCACTTCCGCATCTGTCGTATTCGGGAGAGCTTGCTTCGTGT
CGGAGCATTTAGCAATGCCAGCAGCCTGGTGAGGGCTGGCTGTCT
Found at i:593734 original size:41 final size:41
Alignment explanation
Indices: 593677--593760 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
593667 TGCTTAGCTT
593677 TCAATTCGCCTCTGACCATCAAATCAAATGTGAATAACCCG
1 TCAATTCGCCTCTGACCATCAAATCAAATGTGAATAACCCG
593718 TCAATTCGCCTCTGACCATCAAATCAAATGTGAATAACCCG
1 TCAATTCGCCTCTGACCATCAAATCAAATGTGAATAACCCG
593759 TC
1 TC
593761 CTCCTCTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (41 bp):
TCAATTCGCCTCTGACCATCAAATCAAATGTGAATAACCCG
Left flanking sequence: Indices 593177 -- 593676
TCCAGAAGGTAATTTTAATGTGGCCGATTTCCCCTCTTTTGCAATAAGTTTCGCTACAGCACCCG
CTGCTCTAGCTAATTGTCCACCCTTTCCTAGTGTGATTTCTATGTTATGTATGGCCGTGCCTAAG
GGCATATCGGTTGAAGTAGATTCGTCTTTTTGATCAATCAAAACCCCTTCCCAAACTGTACAAGC
TTCTTCCAAAGCATACGGCTTTCTGGATGTAGATGATGATATCTATACAGATGGATCTTATATAT
ATCATATAATGAAGTACCCCATGAGTGGATATATAGGAATCAAAATCTGCCGAATCACTCATGTT
ATGATCTTCTACATCCTAGGTCTTCCCGTTCCGTCATCTGGCTTATGTTCTTCATGTAGCATTCA
GACCGAATGACTCTATGAAATTACGTCGATACTTCCACATATTATGGGTAACGTAGGAGACATCT
CTATTTTTCCCCCGGGAAATCTTTAGAATTACCACTGCTTAGCTT
Right flanking sequence: Indices 593761 -- 594260
CTCCTCTCTTTGAAACAAGGGGAGCTTCTGGTTCTGTCGGTGCTTGAAACAATTTTGTCTTCTCC
ATATTACTATATCTCTAGAGTCAATAATTTTATATGAGGAACTACTGAACTCAATCACTTGCTGC
CGTTACTCTTCAGTTTTCTGTTGAGGTCTATCCTGTAGAGGTACTCAAATTGGATCAGTGATCGA
TTTCTAGGTTTCGTCGTAAACCTAATTGGTTACTTCCAATTACGTAAATCAATAGTTCAAACCGC
ACTCAAAGGTAGGGCATTTCCCATTTTTATAGGAACTTCTGTACCAGAAACAATGGTATCTCCAA
TTATAGCCCCTCTGGGATGTAAAATATATCTCTTCTCACCATCCCCATAGTGTATGAGACAAATG
TATGCATTTCGATTAGGGTCGTATTCTATGGTTACGATTCTACCATATATGTCTTTTTCATTCCG
TCGAAAATCGATTTTACGGTATAGACGCTTATGACCTCCCCCTCT
Found at i:606055 original size:14 final size:14
Alignment explanation
Indices: 606036--606063 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
606026 AGCGAACTAT
606036 CTATCATTAGAATC
1 CTATCATTAGAATC
606050 CTATCATTAGAATC
1 CTATCATTAGAATC
606064 TATTATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CTATCATTAGAATC
Left flanking sequence: Indices 605536 -- 606035
CTATATTATTCCGGGAAAAGCAAGCGGATCAATCAAGAGAGCTAGCTTCGGTCTCACGTAGGTAA
GGACGGACGAGTAAGGATTGCTCTATCTCTTAATTCTTAATAAAGAATGATAAAAAAGGGGAGTA
CTTTATGATGTGCGTTCTATTTCTAGGCTTCAATTCTTGAGGAAGTGATCGGTTTAACCCGCGTG
GCGATACCCGCCAAAAACAAAGGACTATTTTATTTTATTCGCTTTTTTTGGAAGCTACTTTATTT
AGAATTCTAAGTCTAAGTAAAGGCGAACAGCTCATGCTTCTTTCATTAAGGAGATACTGCATATG
TTTTTCCGACCGAAGGTGAACTATGTAAGTACTAAAATAAAAAGAGCCTGTACTATCTTTGGCCT
TTATTCGATAAAGATATATAATACTAAAATCAAATCTAAGGGCTTTCGGCTAACATCTATCTACT
ATTAGACGTAAGATGGCGCGGCTATAAGATAGCCTAGCGAACTAT
Right flanking sequence: Indices 606064 -- 606563
TATTATCTTATTTGGTCGAGCGGCTGAGAAAGTTTTGATCATCAATTGTATTAAAAAAAAGACAT
AGTTAGTAGGTTAGGTCACACCCCTTTTGTGATTACCGAAACCCGTCAGGACAGGTTGGTTTCCT
AAGAGGATCTACTTAACTTCTCCGAGTTATTCGTAAGTTCTAAAGCAGGCCTAGGTGGTAGAGGA
TTTAATGCCACCACGCGTAGACTGTTGCTCTGAATCGAGATAGGCCAAGGACAAAGAAAGACCTT
CCTGTCCCAAGTCGTGAGGTTTAGCATCCAAAAGTCCTAGTAGACCTGAAGAGGAACAAGTCCAT
TTCGAAACAAAGAATGCAACCCGTAGTTTTTGAACCCCGCCCAGACAAAAGAAGAGGAGTCACAA
AAGTCCTCTTGTGTGGGACAATATAGTAAGTTCATCCGCCATTAGGAACTGGGTCTACTAGAATC
AGGTCTTATGGATTGCACACGGTTTGTTCTACTTGAATGGGGAAT
Found at i:617446 original size:19 final size:19
Alignment explanation
Indices: 617422--617459 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
617412 CGTCTGCATC
617422 GTCTGACTTGTACTATAAA
1 GTCTGACTTGTACTATAAA
*
617441 GTCTGACTTGTACTCTAAA
1 GTCTGACTTGTACTATAAA
617460 ATACAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (19 bp):
GTCTGACTTGTACTATAAA
Left flanking sequence: Indices 616922 -- 617421
GTCTCTCGATCCAGGGATCCTAGGGCGCTTTTCCTGCGCTCTATTCCAAAGTCCTGGGCTAAGCT
GAGCTCCGAAGTCAGGCTTTCTTCCTAAAGCCCGGCCTGTTCCAAATGCTTTCCTTTCCTGCATT
CCTTCCTAAAGGCAGGACTGGGTAGGTTAAGTTGCTCCCTCTTTCCTCTGAGCTCCCCTCCGAGC
TAAAAGAAAGAATGATGAAACCTGCGGCCAGGCATAAATGGAGGCATTCCTCGGGTGATTTCCTA
CTTCTTCCTGTGGATTCCCTACCCAAAGGGAAAGGGTACGGGACATAGGGACTAAAGCCAAGGCC
TTTTTTTCCTTCTATCGTGCCTATCTATGCGGCTCCCGACTCTAGTTCTATCATTTGAAGGTTCT
TCTCGATCTGGCTAGACGCTCTTCCCTATGGAGGTTCTGTGTAGGATTTCAATCTGAGATTCAGA
CTGTGAAAACAAATCAGACTGACGGTATAGCATTGCGTCTGCATC
Right flanking sequence: Indices 617460 -- 617959
ATACAGTTATTGAGCTTCCCCTGCCTACGAAAAGGAGTCTCCCCCTATCTTATTCAACAACAGAT
TCTTTAAAAATAGGGTGTTAGTTCATAGGTTGCTCTGGGGCCAGTGCACCCCATCTTATTCAATT
CAGCTGGAAGGCCAGATAGCTGAAAGACCTGGAAACGGCAGCACGCCAAAGCAAAAGAACTTCGG
GCGGGGGCACCTGATCTCAACTTGAAGTAGAGGAAGACCGAGCAGACTCAGGGCTAACGTCTGCA
TCGTATGATTAGTCGGATTAGTACGATCTAGCCTCTTGGAATGGGGCGCAGTAAAAGAAAACCAA
CTTTTGGAGCTGGAAAGAACAGGAAACAGAAGCACGCTGCGGGTCTGGGTAAGTAAGAGAACCTC
TTTGACTACCTCTTATAAATAGATCTGGAGTCTTCGTCCTCTGGATTAGTCTGTCAGTCCAGTCC
GTCAGATCAATCAATTGCCATTGCAATGTAAGAGTAATCCAATTT
Found at i:641965 original size:17 final size:18
Alignment explanation
Indices: 641938--641971 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
641928 AAAATCAAGT
641938 TAATAAAAGAAAAGAAAG
1 TAATAAAAGAAAAGAAAG
641956 TAAT-AAAGAAAAGAAA
1 TAATAAAAGAAAAGAAA
641972 AATGATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
TAATAAAAGAAAAGAAAG
Left flanking sequence: Indices 641438 -- 641937
AAACTGTCAGTCAAAGTGATTAATTTGAATGAAACTTGACTTCTTAGTTCTTATCAATGATTTAA
GAAAAAAGATTCCAATTTCACATCTTAAATGAAATGACCGAACTAGAATCAGCAGTAGCCTATGA
GATTCGATAGTATGGTAGAAAGATTCATATATGAATCTTTCTACCATACTATCTATTTTTATTAT
TGTAATGTAGAAAGATACAAACTGAATAGAGATCAATATACAATATGTATATGTATCTTCATACA
TGTTAATATCAATTAAATATATGTAATGTACATAGTATCTCAATTCTATTTCTTTGCTTTATCTA
TTTTATTTTTGTTGATTGGAATCAACAAAAATAAAATAGATAAAGCAACTCTTACGATTTTCTAA
TTTCTCGATTTCTTATTATTTGCAATATGAATCCCGGTATCCATTAAAAAAGAATCAAATCAATG
AAGGAAAAACTATATTGGGCATATATTACTAAAATAAAATCAAGT
Right flanking sequence: Indices 641972 -- 642471
AATGATAAAGATAAAAACATTCATCGTTGGGGTGATAGTGAGAGTTCGAGTTGTTATCATGCCGG
ATCAGAAAAGTCAAAAGCCGTACTAAAAGCCAGCGGACCTGCTCACGGGAGTCAGGCCTGCTCTG
TAGTGGGCAGACGTAGCAGGGCCATCTGAAAGAATATAGGAAAAAGAGCCGCTGTAGAAAACCAA
TTACGCTGGGTTCTCAATTCCATGTAATATGCAGTGAGTTTGAATTGACCCGGTTAGCTAGAAGG
TTCCTTTCGCTACCGTCCTAAGGTTCAACCAACCGTTGGTTTGCTTTAACAAGATTGAACTTCAG
TGAACCCGACGCGAAGTTGGTGAAACCTGAGCGTAATTATGTCACGTGAAGTGAAGAACCTCCGC
TTCCTTTTTTAGACACCTTCTCTGATTATTCCCCGAAGCACAAGAGCTAGGGTAAACTCGTCAGC
TGAATAGCTATAGTACAGAGTTTAAGGGGGGAATATATATATCGC
Found at i:641979 original size:18 final size:17
Alignment explanation
Indices: 641938--641982 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
641928 AAAATCAAGT
*
641938 TAATAAAAGAAAAGAAAG
1 TAAT-AAAGAAAAGAAAA
641956 TAATAAAGAAAAGAAAAA
1 TAATAAAGAAAAG-AAAA
*
641974 TGATAAAGA
1 TAATAAAGA
641983 TAAAAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (17 bp):
TAATAAAGAAAAGAAAA
Left flanking sequence: Indices 641438 -- 641937
AAACTGTCAGTCAAAGTGATTAATTTGAATGAAACTTGACTTCTTAGTTCTTATCAATGATTTAA
GAAAAAAGATTCCAATTTCACATCTTAAATGAAATGACCGAACTAGAATCAGCAGTAGCCTATGA
GATTCGATAGTATGGTAGAAAGATTCATATATGAATCTTTCTACCATACTATCTATTTTTATTAT
TGTAATGTAGAAAGATACAAACTGAATAGAGATCAATATACAATATGTATATGTATCTTCATACA
TGTTAATATCAATTAAATATATGTAATGTACATAGTATCTCAATTCTATTTCTTTGCTTTATCTA
TTTTATTTTTGTTGATTGGAATCAACAAAAATAAAATAGATAAAGCAACTCTTACGATTTTCTAA
TTTCTCGATTTCTTATTATTTGCAATATGAATCCCGGTATCCATTAAAAAAGAATCAAATCAATG
AAGGAAAAACTATATTGGGCATATATTACTAAAATAAAATCAAGT
Right flanking sequence: Indices 641983 -- 642482
TAAAAACATTCATCGTTGGGGTGATAGTGAGAGTTCGAGTTGTTATCATGCCGGATCAGAAAAGT
CAAAAGCCGTACTAAAAGCCAGCGGACCTGCTCACGGGAGTCAGGCCTGCTCTGTAGTGGGCAGA
CGTAGCAGGGCCATCTGAAAGAATATAGGAAAAAGAGCCGCTGTAGAAAACCAATTACGCTGGGT
TCTCAATTCCATGTAATATGCAGTGAGTTTGAATTGACCCGGTTAGCTAGAAGGTTCCTTTCGCT
ACCGTCCTAAGGTTCAACCAACCGTTGGTTTGCTTTAACAAGATTGAACTTCAGTGAACCCGACG
CGAAGTTGGTGAAACCTGAGCGTAATTATGTCACGTGAAGTGAAGAACCTCCGCTTCCTTTTTTA
GACACCTTCTCTGATTATTCCCCGAAGCACAAGAGCTAGGGTAAACTCGTCAGCTGAATAGCTAT
AGTACAGAGTTTAAGGGGGGAATATATATATCGCTTTTCCGGGGG
Found at i:667216 original size:41 final size:42
Alignment explanation
Indices: 667138--667218 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 42
667128 CGCTAACGCG
***
667138 CAACGGCTTTCGCGGTAGTGCCGCTCAGGAGTTGCTTGTTCA
1 CAACGGCTTTCGCCCCAGTGCCGCTCAGGAGTTGCTTGTTCA
667180 CAACGGCTTTCGCCCCAGTG-CGCTCAGGAGTTGCTTGTT
1 CAACGGCTTTCGCCCCAGTGCCGCTCAGGAGTTGCTTGTT
667219 GGTTGGGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 19 0.53
42 17 0.47
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (42 bp):
CAACGGCTTTCGCCCCAGTGCCGCTCAGGAGTTGCTTGTTCA
Left flanking sequence: Indices 666638 -- 667137
CATCTCTTATATCCGTTGGGAAAAAAAACATATCTATTCGTTTCCTTGGCAGTGCTTTGAAACTG
TGTTATCGAGGCCGGAAGAAGAGAGAAATAGAGTATGCGAGGAACCCTATCGGAGAACCTGGGCA
TGCATAGTTCCCTGGTAAGGACGGAACGTGACGGAACGGAATTCTATCTAAGTGGAAACACTTTT
CTATCGAAATGAGGGTCGCGAAGGGAGAGGAGGTTTACGTAAGCTTAGAAGGGCGGCCCCATTAT
AGATAGTAGGGCTGCGGGGCGGGGTGTACCTGAGAACGGATATACTTAGAATGGATAGGAAATAG
GAACGGGCACACCGGCATAGAATGAATCAAGGTATCTCACTCAGTATCGTTACACGTAGGCGGGC
GGAGCGAGCATCCATCCTTCTGACGCATCATGCTATGGTTATTCCCAAGGGGGTGTACCCACCGT
CAGAAGAAAGACCAGAAGCACCAAGAAAACGTATGCGCTAACGCG
Right flanking sequence: Indices 667219 -- 667718
GGTTGGGACCTGAGGCAAATAAATGAATGAAGAAGCAGCTAAAGTGGTTGAAGAGAAAGTACAAA
AGGGCAGGCGAATCCTACTATTCTCTCTAATTTCTTTGAGCCGATAGCTAGTAATCTCTTAAAGC
AGCTAGGGGTGGGTGATGAATCTACACCCCTAGGCAAATCTAAGTGGGCAGGCCACTATCTCTAT
AGTGCAAAAGCTATGGTCAAAGGCGTAACACTGGGAATGGGGGGAAGACCGATTTTATAGCTAAT
TAAGAGTACCGGGATGGAAAGATTAGGGCGTACTATTCCGTACCGATCTTAGATTATAGGTCCGT
TCCGTCCGGGCACAGATGCAATGCAAGATGAATGAAGCCCGGGTTGGTTCTATTTTTGTTGTGTA
GGAATGCCCCAGATATAGGTAGTAGGGGCTTATTTTAAATGGTGAAGTGAATTCGTCTGTCTATA
GTCTAGTAGTTATCTAATCTCTAGTATTTTCTCCCACTCGACGAG
Done.