Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MH410146
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: 614836
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:13566 original size:24 final size:24
Alignment explanation
Indices: 13545--13593 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13535 ATTCGGATTC
*
13545 GTTACTTGGGGCTCCTGAGGATGA
1 GTTACTTCGGGCTCCTGAGGATGA
*
13569 GTTACTTCGGGCTCCTGAGGGTGA
1 GTTACTTCGGGCTCCTGAGGATGA
13593 G
1 G
13594 GAATTATTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (24 bp):
GTTACTTCGGGCTCCTGAGGATGA
Left flanking sequence: Indices 13045 -- 13544
TCCAGGGATTTTTCACTTACTTTTTAGAGTCAGGTTTTTAGAACTTACTTGCTAGAGTAAGGAAG
ACATCGCACTTTTTTAACCTTACCTTACCAAAGTAAAGTATCAAGCTGTCTTTGCTTTGCCAGCG
GATTCCAATTCTGCTGTGCCGGTGCGCAAAGCAAGCACGCTTAGACTGCGATGTGCAATCTTTGG
TCTGCCTATCATTGTCCATTAAGGGCTGACTCCGCTAGGCAAGAGGACCACTACTGGGATTATTT
AACTACTAACTGATGACCAGGGGACTACTCTGTCTGCTTTTTCCACTACTGATATTGACTGACCT
GTTGAAAAGATAGCTGCAGGAAAAAGAAAAGAAGTAGAGTTAGGTTGTGTTCTAGTGTGTAAGCA
TCTCTTTCCTCGGTCGATTCGTCTGCTCATTCAGCCTATGATTCTTATCCAATTGTTTCTTCCGA
AAAGTCTTATGAAACGAATTCGGCTGGAGATAGGCATTCGGATTC
Right flanking sequence: Indices 13594 -- 14093
GAATTATTCCCTGAAGCCGTTGATCCAGAAAGAGAATTACCACCATCAGATGATGACCCCTCAGA
GATAGAAGTCCAAATCCGTTATTTTTACCTTGACCTGCCTCTTCCCCAATGGGCACAAGATGCTA
CAAACTATCATACACGGGCCACTCAAGAGTTCATATTCAATCTGGACTTCTACTTTAGGCAACGG
AATCGTGCAGAGATTCTCTACCGAATCGAACTCAAGCTCCTAGCTAAAGACCACCTGAAAGAGGA
GCGGATCGGAATTTGGCCTGATAATATAGCTTTTCCTTGACGAGCTCATCTCAAAAGTATTGGAA
GACATACGAAAGGAAGAATGTAGAACTGCAAGAAGTCACTTCCAAGGATACAACTGCTGGGATTG
CGAGACTCCCGGAAAGACATGCAAATACATTCGCGCGGCTACAAGAGAGTTCTTTTACTGTGTCA
ACCTGCTTAATGAATGGGGCTTTCGTTGACAGTCCCTATGAAGAC
Found at i:32130 original size:13 final size:13
Alignment explanation
Indices: 32112--32139 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32102 CTTTGTCATT
32112 TGACAATATGGTA
1 TGACAATATGGTA
32125 TGACAATATGGTA
1 TGACAATATGGTA
32138 TG
1 TG
32140 GGGGAGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (13 bp):
TGACAATATGGTA
Left flanking sequence: Indices 31612 -- 32111
TTCCCATAACATAAGTGGAGACATATCAAGTTACAAAGGCTTAGTATTGGGTTTATTTAGAGTTC
ATGCGAAACATCTTGAAAGAATTAGGGTTAAGCTACAGAACTTCCCTGTAACAATGTCATCCCTA
GACTATCCGTCCCCATAAGGGATTATCTTACCGAATTTTTCTTTTCGATAGAAAGAAGAAGCGAG
CGAAAAAGAAGTAGATCGCGGAGCAGCTGCATCGAAGATAACAGGGGCAGCTAGTAATTAAAGGT
CAAGAACTTCGAGTCAGATATGCCTAGGAACCTGAGGAGCTAGAGAATGGAGCAGTGACCTCTTC
TCTTGATCATAAGATGGGGAATTTGAGTAGAGGTAAGGTGATTAAGAGTAGTTCTACTCCCAACC
TGCTTTTATGTGAATTCGACTTGTAAAAAGAAAAAGTCTTTCACTGCGCTCGTCAATTAAACTCA
ATTGGAGCGAGCCTCACTTCTATTTACCACTGTAACTTTGTCATT
Right flanking sequence: Indices 32140 -- 32639
GGGGAGTAAGCAAAAAATCCTTGGATTCCTGACCCCGCTACTGGAACTCTCGCATAAACCCTGAA
ATGGGGAAAGCAGATTTTCTTGGCCTGTAAAAAAAACAATCTTTAGTGAATAGAATGTTCGTGAG
CTACGGTTACTCACAGGATTACTATTGCTAGAAAACGAATTAGCACTGTTAGTACAGGCCTACCG
CACGGCCTAAGAGGCGCGCTTGAGAAAGAGTCTAGAAAGAAATCCAATAATAACTCAAGCTATCT
TAGGAAATTCACATTTTGAAACCAAACGTATTGGTGGGCTCTTCGTGTACGGCGAACATCCTCCA
CTTATTGCTTGTCCTTTCAGTTTGGAAGGATATTGAAAGGAGTTACATATCTATATGAAAATGAA
ATGATTAGGCGCTTTTGTCCCGTAACTATTCTCTGATGTGTGATGTGAGTGGTCCAGTAAATCCC
CACTCACACAGGTATTCCCATGTATATAGGTTTTCTAAGTCACCC
Found at i:77073 original size:13 final size:12
Alignment explanation
Indices: 77054--77085 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
77044 AGCAAGCCTT
77054 ATTCTATATATA
1 ATTCTATATATA
77066 ATTTCTATATATA
1 A-TTCTATATATA
77079 ATTCTAT
1 ATTCTAT
77086 CTTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTCTATATATA
Left flanking sequence: Indices 76554 -- 77053
AAAAGAAAAAAAGTCCTAAATGAAAGACCTCGGAGCCCTTTATTGAACTTCAACCGTGGGAACAC
ATTCAGTGAAGGACAGTCAATACAGGTGCCGCTTCTTCTCCTTAATCGTAAAAAGCGCAACTCTT
GATCGGGTTGACGAGCTTACCCTGGGTTATACTAGAATAGCCAGACTGGCGAACTAAAGAAGAGT
AAGAATAAGCCAAAAAGGGGCAATGAAACCTCTGATAGTAATGGATATTAAGCGATAGCAGAAGA
TTGGGAGATAACAGAAGATCCCGTGATAGCAGACCTTCTTTCACCAGAAGATGCAGCGGCATAAA
TCGTCAAGGGTCCTCGATACTAAAGGGGGCACCAATCCAGATTTTACATTAAAAATCCCGGGGTT
CAGTTCAACTAAAATCTACCCTTTATCTAATAGATTACCGATTTTGAACATCGTCTGACTAGGAG
ACATCATACTATCCACTAAAAGCAGGTAATTAAGCAGCAAGCCTT
Right flanking sequence: Indices 77086 -- 77585
CTTTCTTTATCGGCAAACTCAAAAGGAAGGAGTTCCCATGCCCGGATGGGAAAAAATCTTCAATA
CGACGAATAAAAACCTTTCGCTCTTCGTCTTTCCCAGTAGAATCTGAAAGTGGATTTCTCTCCTC
CTTCGGTTCGTCTAGACCGATCGTTCTCTTCAGTCGACCTTTCTCATTCGCCAACTTTCCACTTT
CAAATGTCTTGTACTAGAGCGGAATACACCTTTCAAAAGGGAGGCTTATTTTTTGACTTTACCAC
CCTATAGATTGAGTTTATTTGAAAGAAGCGGGAAGGCTTCGACAGATGTCATAGTGAATTCGATT
GTTCGATTCAATTACTTTTCCAACCCCGATTTTTCTTTCTCCATTTTGTATTGGTCAAATGCAGT
CTAGTATAATAGAGACTGGGCCGTAGATGTGTACGCGAACGAGGGTAATGCTAAGCAGGAAAATC
CCTCTTCAAATTGAATTTGAACCGCTTTCGAAGCATAAATATTGC
Found at i:82653 original size:18 final size:18
Alignment explanation
Indices: 82630--82666 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
82620 ATCGAATCTT
82630 GCCATACATAATAGAATA
1 GCCATACATAATAGAATA
82648 GCCATACATAATAGAATA
1 GCCATACATAATAGAATA
82666 G
1 G
82667 AAAGTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (18 bp):
GCCATACATAATAGAATA
Left flanking sequence: Indices 82130 -- 82629
GGATGTCGAAGCCAAGAGCACCTTCATTCCTATAGAAATAGAAAATAGTGGATATAAGAAAGAAT
CCACAATGGATCATGTCCTTCAAGTCGCACGTTGCTTTCTACCACATCGTTTCAAACGAAGTTTT
ACCATAACATTCCTCTAATTTGGAACCAGTATGGAATTTATTCAATTATGGAATCATGAATAGTC
ATTGGTTTGTAGACATCGTAATCTATATCCCTTTGTTCTATAATTAGAATATAGAAGAGAGATTC
TATATATAGCTATAGATCGGTAAAGAGGTTTCTGAAGATAAAATGAAAAATAATTTCTAGATTAT
TCGGGTTAAATATTTTAATTTCCAAATTCAAAATCGAGGGTGCTCCGTTTCTGGGTGCATTTTCA
CAAAAATAGAATAGAAGGATACATATACGTTAAACATTTCCTCATTTTTTATGTATTTTGTGTGT
GTGTTTAAGCTGTGTAGTTCAGCAAGATTTCGCTAATCGAATCTT
Right flanking sequence: Indices 82667 -- 83166
AAAGTGAATAAAAGATAATAAAAGATATAAAACACTCCCCTCTTAAGTGTTACATAAATTTACAA
TTATTTTGGAGTTATTAGGGCCAAACACGAAATACTTTTTCAAAGAAAATACATCGGATAGATAT
AGAATTACATAACATATATAATTTTATTTTTGTTAATGCAATTCAGGCAGACGCAGAAATTTGAA
TATCTTCGGTTAATGTATTCGCCCCCCGGGTACTACAGGACTAATGGGACATAAGAGAAATCCAA
ATGGGAATTATGATCGGGGATGCGGACTGGCTAGGTACAAATCCCAACAAGTCCAAATTGAGTAG
CTCCTATTTTGATTTTAGTCTAACCCCTTAGGATAATTAATCCTATTTACTTTGAATGAATTTCA
TTAGTACCAAAATTCCTAAAAAATAGGTTTGGTTTATAGGATAGGAAATAATAGATAGGATCCTT
GAAAAAAAAAATCTTGATAAAATAGAAAATCAATATGGGACGGAA
Found at i:104082 original size:33 final size:33
Alignment explanation
Indices: 104040--104105 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
104030 TGTCCCTTTT
104040 CCATACACTTATCCAACCTTCCTTAACTACTGG
1 CCATACACTTATCCAACCTTCCTTAACTACTGG
104073 CCATACACTTATCCAACCTTCCTTAACTACTGG
1 CCATACACTTATCCAACCTTCCTTAACTACTGG
104106 GCTGTTCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.36, G:0.06, T:0.30
Consensus pattern (33 bp):
CCATACACTTATCCAACCTTCCTTAACTACTGG
Left flanking sequence: Indices 103540 -- 104039
GAGCTTCCCCTAAGGTAGGCGAGGTTCCAGCTTCTGTACAAGGCCTAATCGGATGGGATCAAGTT
TGACTTTTCCCACTGGTCAACCTCTTGCTTACTACAGCTCGTGGCTAGCGTATATGTTCGTCTAT
ATAAGGATCAGTCCGAGATATCGAAAACTGGTAGCTTTGAATTTGCTATACGCCGTAAGGGCACC
CCTCTCACTTAAAGCTTGAGTCCCGTCGTATGATAGCTACGTTAATGAATTCTATCCATTTCGCT
CCTGTGCTTCAACGGGTAAGTTAGTTTATGAATCTCAAATGAAGTCTCACCTCTATCGTCTAAGA
AAAGAGGTTGATAGAGTTGGTGGTGCTCCATGCGCCCCTCAAAGTCAGTGTTGGAAACGTAGGTC
TTACCTACCTTCTGGGCATTCATTCCCTTTTGATAGGGGGTTGGGTTTTGAGGTCAAGCATCAGC
GTCTTCGACCGCCGCGAGTACACTCGAAAGAACGATGTCCCTTTT
Right flanking sequence: Indices 104106 -- 104605
GCTGTTCTTCTCCCTGTCCTTACCCCTACTGCCTTCCCTTCCCGCTGGGTCCCCTTACCCTAGCT
ACAGAAGTTTATGCAGCTACTCCTTACCACTTCCTTCAAGAACTACTTCTTTAACCATCCCTACT
AGAAACGAATGCACTCCTAGGGGTGGGTATCTCGTACAAGAAAGGGGTAAATAAAGGAAAAGGAA
TAGAGAGTAAGAAAAGAGGAGAAGCAAAAGAAAGAAAGGAAAAAGGAAAACAGTAGAATACTACT
TTAGGGCATACCTACCATACTTCTTTATTCCACTCTTCCAATAAAGGAAAGAAGCTACTAGCTAC
AGCTTTACTACTTCCTTAAGCGCTCGGAACCCTTACCCAAGGTTTCCATCGCTCCCTATAAGAGA
TATTTAGGAAATCATAAACCTACTCCTTCCAGTAAGAAGATTTGTTTTAGTTGATAAGCGCCGGC
CGGGGCTGCTAACTACTGTATTGGCTTCGGATCCCTTAAAAGGTA
Found at i:105004 original size:11 final size:11
Alignment explanation
Indices: 104984--105013 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
104974 AATAGGGGGA
104984 AACAAAAGAGT
1 AACAAAAGAGT
*
104995 AACTAAAGAGT
1 AACAAAAGAGT
105006 AACAAAAG
1 AACAAAAG
105014 GATCATATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.17, T:0.10
Consensus pattern (11 bp):
AACAAAAGAGT
Left flanking sequence: Indices 104484 -- 104983
CCCTATAAGAGATATTTAGGAAATCATAAACCTACTCCTTCCAGTAAGAAGATTTGTTTTAGTTG
ATAAGCGCCGGCCGGGGCTGCTAACTACTGTATTGGCTTCGGATCCCTTAAAAGGTATCCTCAGC
TAAATTGATATTATTTCAAACTCGTAGTACTTAGCGCTCGGACTCCTTATCCAAGGATTCCTTCG
CTCCCCCAAAAGGGATAATAAAGAAATGGAACCATAGCTAAGACTGATCGATGAGCCTTCTCTCT
TCCCCATCAAGAAAGAAAAGCCTGACTCTCGGGCTTTCTTGACTTTAAAGGCACAAAAGCTGGGG
CCCATCCTTGCCTCCCCTGCAATCTAGCTCAACCGTTTGAGGCCAGTCCGATACAATAAATATAG
AGTCTAAGCGCCACACCCGGTTCCCGTGTAAGTATGATTTCTATTTAAGCTTATGCTTTTCTGGG
ATCAGTACGCTGGGCGAGGCACTTATTTCAGATAAAATAGGGGGA
Right flanking sequence: Indices 105014 -- 105513
GATCATATAGGATAACTTCACGGGCAGTGCTCAAAACAGCTATCTTTTTAGATAACAGAAATTTG
CCCCCTGGCTCGATAGAACACACGCGCCCCTGCAGATTGAGTTCTTTCAATAGATCTCGTAGTGC
ATTCTCGTTTAAGTTTGAATATTGCACATACTGAGTTCCATAAATAAGTACATCCTCGCGGAATC
TAGAAAAAGCAACACCGGGAAACCTTTGTTCGAAATTCCTGTCGAAAATATCCTTTAATACAATG
TCGAATAATACCCGAGTGAGTTCGCCCGCCGGAGGCAACCCCTCCTTGTCTATTTTATTCATAGA
ATTACCACTAGAATCAATTATTTCTATATCAAGAAAGGATTTAATAAGTTTATAAACTCCTGTAC
CTTCTCCAACTAAACTCGACACCCTATCTAAAATAAGACTAATAGGAATTTTTGTTAATGATTCA
GTTAAGTCAAGGTGGTACACCCTATCAACATTTCTCATTCCCTTG
Found at i:106933 original size:7 final size:7
Alignment explanation
Indices: 106921--106945 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
106911 GATTTGATCA
106921 TTGTTGT
1 TTGTTGT
106928 TTGTTGT
1 TTGTTGT
106935 TTGTTGT
1 TTGTTGT
106942 TTGT
1 TTGT
106946 CCTATTCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (7 bp):
TTGTTGT
Left flanking sequence: Indices 106421 -- 106920
TGCCAAATCTGATTGGGAGGGTCCATAAAATAAACCAAGTGAATTGCTAAGAAAGGAAAACTTTT
CGAAACATTGCGGTAGTTCTAACTCTCTTAAAATGAACGAACTCTGCCCCGGTAGGAATCGAAAA
CCAAAACACATCTTAAGACCACGCGCGAGCGCAGATGCCCCCTCTGGAAGAGAGGATCCATCAAT
ATATTCAGATGGAATATCAATAAAGGGAGCTCCTACAGCCTTGATAAGAGGAAGCGCCCAATCAG
GTCGGAGACTAGAATTAAGCGTGTTTTGTGCACTTACAACGCTTGTTTTATTAAACATTCCTGTA
ATTTTATTTCTCAAAATGGATAGTGAATTAGGTTCAGGTGTTCCATCCTCCGAAGAAGGCCCGTC
ATCCGTTGATGGTCCATCGTCCAAAGATAAATTGTCAAAGTCCTGGCAGAGCACAAATATCCTAT
AGTTGTCAATCTGATGTCGCAAAGTTTCAAAGTAAGATTTGATCA
Right flanking sequence: Indices 106946 -- 107445
CCTATTCCGTGTATTCATACGGGTTTTATATTTTCCTTCTATATCTGGCTAGTGGTAAGATGTTG
TATATATTTGTGTATCTATTCCGGTGTTATGATTCTTTTCTTTCTTCTATTTAAAGGATGCTTTT
CTTTCTTCGAAGCTCATTATTTTATATCTTATATTAAGTAAAGTCGTATCTTCCCTATTAGTTCG
TCCAAGTAAAGTCGTATCATCCCTTTGTTTATATTAAGTAAAGTCGTATCATCCCTTTGTTTATA
GTAAGTAAAGTGTTATCTACCCTATATGTTCTTCGAAGTAAAGTCGTAACATCCCTGTTTTGTTG
TCTATTAATATATAACTTTGTGTATTAATAAGTGAAGTATTATCTTACCGTCCTATCCCTAGTAA
GGTGTCTCTACCCTGTGAATTACTTCCTATAGTCGCCACCAGCCTTTGCTTTGAATCTCCAACTC
TCGATGGTTGTGAGAAGCTTGCTGATGAAGGGCGTATATGGGTTT
Found at i:107185 original size:32 final size:32
Alignment explanation
Indices: 107104--107216 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
107094 ATTTTATATC
*
107104 TTATATTAAGTAAAGTCGTATCTTCCCTATTAGT
1 TTATATTAAGTAAAGTCGTATCATCCCT-TT-GT
** **
107138 TCGT-CCAAGTAAAGTCGTATCATCCCTTTGT
1 TTATATTAAGTAAAGTCGTATCATCCCTTTGT
107169 TTATATTAAGTAAAGTCGTATCATCCCTTTGT
1 TTATATTAAGTAAAGTCGTATCATCCCTTTGT
*
107201 TTATAGTAAGTAAAGT
1 TTATATTAAGTAAAGT
107217 GTTATCTACC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
31 4 0.06
32 42 0.62
33 20 0.29
34 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TTATATTAAGTAAAGTCGTATCATCCCTTTGT
Left flanking sequence: Indices 106604 -- 107103
GGATCCATCAATATATTCAGATGGAATATCAATAAAGGGAGCTCCTACAGCCTTGATAAGAGGAA
GCGCCCAATCAGGTCGGAGACTAGAATTAAGCGTGTTTTGTGCACTTACAACGCTTGTTTTATTA
AACATTCCTGTAATTTTATTTCTCAAAATGGATAGTGAATTAGGTTCAGGTGTTCCATCCTCCGA
AGAAGGCCCGTCATCCGTTGATGGTCCATCGTCCAAAGATAAATTGTCAAAGTCCTGGCAGAGCA
CAAATATCCTATAGTTGTCAATCTGATGTCGCAAAGTTTCAAAGTAAGATTTGATCATTGTTGTT
TGTTGTTTGTTGTTTGTCCTATTCCGTGTATTCATACGGGTTTTATATTTTCCTTCTATATCTGG
CTAGTGGTAAGATGTTGTATATATTTGTGTATCTATTCCGGTGTTATGATTCTTTTCTTTCTTCT
ATTTAAAGGATGCTTTTCTTTCTTCGAAGCTCATTATTTTATATC
Right flanking sequence: Indices 107217 -- 107716
GTTATCTACCCTATATGTTCTTCGAAGTAAAGTCGTAACATCCCTGTTTTGTTGTCTATTAATAT
ATAACTTTGTGTATTAATAAGTGAAGTATTATCTTACCGTCCTATCCCTAGTAAGGTGTCTCTAC
CCTGTGAATTACTTCCTATAGTCGCCACCAGCCTTTGCTTTGAATCTCCAACTCTCGATGGTTGT
GAGAAGCTTGCTGATGAAGGGCGTATATGGGTTTTTTACTCCTGTATTATCAATCTTTGTTATGG
AGCCGCCTCTACCCTGCGCCTATAGCTAAGTTGTTTTCACACTCTAGTGTTATCTAGAGAACGAC
ATTTCATGAACAGCACGTGGAAAGCGCGGACAGGCTCTCTTTCCTATAAGCGTGCTTACGATGTT
GTGTAGCTTTCCCATCCTATTCGATTACTTCTTATAGTTCCATAGCAGACTTGAACAAGAAATCT
CTTTTCCATCCGTTGACCGTAGAGAAAAAAGAAGCCCAAGCCGGG
Found at i:134460 original size:22 final size:19
Alignment explanation
Indices: 134434--134498 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 19
134424 GTAATTAAGT
134434 AAGTAAGTAAAAATGACTAGAA
1 AAGTAAGTAAAAATGACT---A
*
134456 AAGTAAGTAAAAATGACTT
1 AAGTAAGTAAAAATGACTA
*
134475 AAGTAAGTAAAAATGGCT-
1 AAGTAAGTAAAAATGACTA
134493 AAGTAA
1 AAGTAA
134499 AAATGGCTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.15
19 17 0.41
22 18 0.44
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (19 bp):
AAGTAAGTAAAAATGACTA
Left flanking sequence: Indices 133934 -- 134433
AAGAATTTGCAGTGAAAATTCTCCCTCATCTCAATCCTAACGAACTGCCCTTCTCTCCGCTTGCT
TGGTCGAATGCTCTTTTCATTTATTCTTTGACTTGTTGAGAATATCTTCGGTCAATGGAGTCAGA
TTTAGAGGAACCCGTGATGAAAATCCAATTCTCGATTTATTGAATGATCCTTGGGTCTACGTCTC
TAGAGCTTTGGCCGATGAAGCCGGACCTTTGAACTATCAATCAGTAGCCAAATCTCTGTGATCGC
AAGTCGCTTAGTAAAGCATCTCGGTACCGCTACTCGGAAAGAAGAAAAGAAGAAAGCCTAGAAAG
ACATAGGAAAGGATTTAATGAATAGAAAAGGTTTTATAGGTGACATCTCACTCAGGAAGAGCGCA
AAGAAAGAAGCAAGAAATAGAAAGAAGGTCAAGGGCTGCCCAAAATCTTATACCAAATGGTCGAA
TGAATTTCTAAACCTATATATACAGTAAATTCAAAGTAATTAAGT
Right flanking sequence: Indices 134499 -- 134998
AAATGGCTTAGAAAAGTAAGTAAATAAAGAGTAAGTAAATGTTGCTCTACTTTATCTTGCTGGCA
TACTAGGCACGTCTTGACGTATGCTTCCACATCATCTTGCATGTGCGGCCAATAGTAGTGTGCTC
GCACCAAGCTAAGCGTCCGGGCTTCGCTCTTACCTGTCCTATCTATAAGGTGACCAGCCCAGAGG
GAGTCATGGGACTCCTTTCCAATTTATTTCCGTAAGTTCACCCATTTTGGGACAAGTACTCGATT
TCCATGGGTATATAAGACCCCTAATGCTAGCAGCTTTTGTGGAAAGAGAAATCTCCCAAAACCTT
CGAGTCTTGCCCTCTTTTGCTAACTTTAACAAGTTAGTTGCAAAAGAATCATGAGTCATACCTTC
AATTACCTCTTTACTTACCTTACAAATTGCGACTCAGCATATCACTTTGTGGTGTACTCGCACTG
ATGTGAGCCAGTTCAGCTTTTCTGCTAAGTGCATCGGCGACTACG
Found at i:134513 original size:13 final size:14
Alignment explanation
Indices: 134478--134506 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
134468 ATGACTTAAG
134478 TAAGTAAAAATGGC
1 TAAGTAAAAATGGC
134492 TAAGTAAAAATGGC
1 TAAGTAAAAATGGC
134506 T
1 T
134507 TAGAAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TAAGTAAAAATGGC
Left flanking sequence: Indices 133978 -- 134477
CTGCCCTTCTCTCCGCTTGCTTGGTCGAATGCTCTTTTCATTTATTCTTTGACTTGTTGAGAATA
TCTTCGGTCAATGGAGTCAGATTTAGAGGAACCCGTGATGAAAATCCAATTCTCGATTTATTGAA
TGATCCTTGGGTCTACGTCTCTAGAGCTTTGGCCGATGAAGCCGGACCTTTGAACTATCAATCAG
TAGCCAAATCTCTGTGATCGCAAGTCGCTTAGTAAAGCATCTCGGTACCGCTACTCGGAAAGAAG
AAAAGAAGAAAGCCTAGAAAGACATAGGAAAGGATTTAATGAATAGAAAAGGTTTTATAGGTGAC
ATCTCACTCAGGAAGAGCGCAAAGAAAGAAGCAAGAAATAGAAAGAAGGTCAAGGGCTGCCCAAA
ATCTTATACCAAATGGTCGAATGAATTTCTAAACCTATATATACAGTAAATTCAAAGTAATTAAG
TAAGTAAGTAAAAATGACTAGAAAAGTAAGTAAAAATGACTTAAG
Right flanking sequence: Indices 134507 -- 135006
TAGAAAAGTAAGTAAATAAAGAGTAAGTAAATGTTGCTCTACTTTATCTTGCTGGCATACTAGGC
ACGTCTTGACGTATGCTTCCACATCATCTTGCATGTGCGGCCAATAGTAGTGTGCTCGCACCAAG
CTAAGCGTCCGGGCTTCGCTCTTACCTGTCCTATCTATAAGGTGACCAGCCCAGAGGGAGTCATG
GGACTCCTTTCCAATTTATTTCCGTAAGTTCACCCATTTTGGGACAAGTACTCGATTTCCATGGG
TATATAAGACCCCTAATGCTAGCAGCTTTTGTGGAAAGAGAAATCTCCCAAAACCTTCGAGTCTT
GCCCTCTTTTGCTAACTTTAACAAGTTAGTTGCAAAAGAATCATGAGTCATACCTTCAATTACCT
CTTTACTTACCTTACAAATTGCGACTCAGCATATCACTTTGTGGTGTACTCGCACTGATGTGAGC
CAGTTCAGCTTTTCTGCTAAGTGCATCGGCGACTACGTTGGACTT
Found at i:136983 original size:11 final size:11
Alignment explanation
Indices: 136967--137002 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
136957 TTTTCACTTT
136967 TAGTAGAGAAG
1 TAGTAGAGAAG
136978 TAGTAGAGAAG
1 TAGTAGAGAAG
136989 TAGTAGAGAAG
1 TAGTAGAGAAG
137000 TAG
1 TAG
137003 ATATAGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.19
Consensus pattern (11 bp):
TAGTAGAGAAG
Left flanking sequence: Indices 136467 -- 136966
TTAGTTGCCTAACAGTGGCAACATAGCTCTCGGAGGATTGAAGTCCTCTCTTGAATTGCATGGCG
GACAGTTGCATAGCCGAAATGCCTCGTGATGTCTTCTCAATGCTCCTCAGTGGGATGGAATGTGT
CTTCCCATTATCAACAATGATTAAGGAACTTGAATCAGCTAAGAGCATTGTACGTACCTGCCGAA
AGAATGACAGTCCCAATACCACTCGGAAGTCATCCATCGGGACAACTGTGAAGTCCATCTTTCCA
CATAATATAAGATAAGAAGAAGAGGGCTACCATATAATATAAGATAAGTTTGCACATTCACTGCC
CTTGCAATGCCTACAACAGGTCTTGCTGGAGCGTTAACGGTCTTAATGGATCCTTCGCCCTTCTC
TACTTTAATGCCCAACCTTTTAGCTTCTTCATGGTTAAGGAAGTTATGAGTAGCTCCCGTGTCTA
GCATGGCACAAGCTGCCTTGCCATCAATACTTACCTTTTCACTTT
Right flanking sequence: Indices 137003 -- 137502
ATATAGGGTTAAGGTAGGTATAGGGTTAAAGTAGGTATAAGGTTAAAGGTAAAGAAAGTTTAAAA
GACCACCTTGCTGATGAAATAAGAAAAAGAACGGGTTCATCAACTCATTTCCTTTAATTATTATT
CTAATGAGCTTGCTGATGAAATAAGAAAAAGAACTATTGGTCACAACCTTCCTACTACGATTCAT
AAGACCTTCCTACTACGAGAACTATATGGTCACAAAAAGTACAATTTTCACTTGTCACCAGCCTC
ATCTGGCTTTTCTAGCTTCACAGCGGATCCCTCACCAGATGCTTAGTCAGACCCATTCTCGTTGT
GCTTTGATAGACTACTCAGAAAGACTCTTTAGTAGAAAGATTCTCCGCTTGAACTTGAAGATCGG
TCTTCTCAAGGGAATCTTTCATGCTGTCTGAAATCCTTGTATTTGTATATCCAACCCAAGAGTGT
CCCGGAACGAGCACTAAATGAAAGGGGTGGAAGTGTACAAAACGA
Found at i:137024 original size:17 final size:17
Alignment explanation
Indices: 136999--137053 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
136989 TAGTAGAGAA
*
136999 GTAGATATAGGGTTAAG
1 GTAGGTATAGGGTTAAG
*
137016 GTAGGTATAGGGTTAAA
1 GTAGGTATAGGGTTAAG
*
137033 GTAGGTATAAGGTTAAAG
1 GTAGGTATAGGGTT-AAG
137051 GTA
1 GTA
137054 AAGAAAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
17 28 0.85
18 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
GTAGGTATAGGGTTAAG
Left flanking sequence: Indices 136499 -- 136998
GAGGATTGAAGTCCTCTCTTGAATTGCATGGCGGACAGTTGCATAGCCGAAATGCCTCGTGATGT
CTTCTCAATGCTCCTCAGTGGGATGGAATGTGTCTTCCCATTATCAACAATGATTAAGGAACTTG
AATCAGCTAAGAGCATTGTACGTACCTGCCGAAAGAATGACAGTCCCAATACCACTCGGAAGTCA
TCCATCGGGACAACTGTGAAGTCCATCTTTCCACATAATATAAGATAAGAAGAAGAGGGCTACCA
TATAATATAAGATAAGTTTGCACATTCACTGCCCTTGCAATGCCTACAACAGGTCTTGCTGGAGC
GTTAACGGTCTTAATGGATCCTTCGCCCTTCTCTACTTTAATGCCCAACCTTTTAGCTTCTTCAT
GGTTAAGGAAGTTATGAGTAGCTCCCGTGTCTAGCATGGCACAAGCTGCCTTGCCATCAATACTT
ACCTTTTCACTTTTAGTAGAGAAGTAGTAGAGAAGTAGTAGAGAA
Right flanking sequence: Indices 137054 -- 137553
AAGAAAGTTTAAAAGACCACCTTGCTGATGAAATAAGAAAAAGAACGGGTTCATCAACTCATTTC
CTTTAATTATTATTCTAATGAGCTTGCTGATGAAATAAGAAAAAGAACTATTGGTCACAACCTTC
CTACTACGATTCATAAGACCTTCCTACTACGAGAACTATATGGTCACAAAAAGTACAATTTTCAC
TTGTCACCAGCCTCATCTGGCTTTTCTAGCTTCACAGCGGATCCCTCACCAGATGCTTAGTCAGA
CCCATTCTCGTTGTGCTTTGATAGACTACTCAGAAAGACTCTTTAGTAGAAAGATTCTCCGCTTG
AACTTGAAGATCGGTCTTCTCAAGGGAATCTTTCATGCTGTCTGAAATCCTTGTATTTGTATATC
CAACCCAAGAGTGTCCCGGAACGAGCACTAAATGAAAGGGGTGGAAGTGTACAAAACGAACGAAT
GAAGTGATAGTGGCCAGCGAGTTATTGGTGGTATAGTACCTATAA
Found at i:142605 original size:10 final size:8
Alignment explanation
Indices: 142575--142600 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
142565 ACTTCATCCA
142575 TACTTTTT
1 TACTTTTT
142583 TACTTTTT
1 TACTTTTT
142591 TACTTTTT
1 TACTTTTT
142599 TA
1 TA
142601 GACTTCTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (8 bp):
TACTTTTT
Left flanking sequence: Indices 142075 -- 142574
GGTCCCAAAGTAATCATGCGTCATTCAGAACCAAGGAAGAAAAAAAGATAGCAGCATCATGCAAC
ATCGTTTTTCAGCTATATTGTTTCGATTTCTTTTCATGTTTTTTTGATAGGTAAAGCCCTTGGTT
CGAGCCTTTTTTCTTGTGGACTGGCTGGCTGCAGTGGGTGATTTTTTATATGGAGAGATTTCCTC
TTTCCCTCGGAGACGAAAGTGGTGTCAGCTCGTCGAAGCGACCGCTTTTCGATCTCAATTTGCCT
CCGCAGCCAGATCCGGAACCTGCCCCCCCTGTGAACCTTCCTCGGAGGAGGAAGAAAGTAGTTGG
ACAACTGTATACACGAGGGAGGGTACATTAGTATGATGGGAATTTTCAACATTGACAGAAAGGAA
GGAATCCACTTTTTTAGGTGTAGCTCTACTAAAGTAGTCGGCCTAACCTTCGGTTCCCGTAACCA
AGTTTTTCTTTCTCATTCCTTATGTACTTTTTCTTACTTCATCCA
Right flanking sequence: Indices 142601 -- 143100
GACTTCTGGCGAACCCTCTACTTCTACTTCTAACTAAAGGTGAATAGCCGGCATTGCAAGCAAAT
AGGGAGCCCCCGCCCATTTGAGCCGTTGCGAGCCGGAAAGTGTACCAGCTGTTTGAGTCGCGAAA
GGCTTCAATTCCATTCTTTTTTTTTTTTATTTATATAGAATTCTAATTTAGAATGAATTCAAATA
AAATAATAATAATAATATTCTATATCTATCTATAAACAATAATAAAAAAACAATAGAATTATATA
AATTAAATAAATCCATTTTTTATCCAATTGTTCATTCCTGGGAAGAGGGAGAAGCAGATAGAGCA
AAGGCCTCCTCCTTCCTTCCCGAAGTGAGCGAATTGCATGTAGAGATTCATAGGGGCTTATAGTT
TAATTGGTTGAAACGTACCGCTCATAACGGTGATATTGTAGGTTCGAGCCCTACTAAGCCTACCA
CCCCCGTGGGGTCGAAGAGGATTCATTCATTTTTCTTTCTTCTTT
Found at i:173111 original size:13 final size:13
Alignment explanation
Indices: 173093--173119 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
173083 AGCGGAATGC
173093 CCCTATCTATTCA
1 CCCTATCTATTCA
173106 CCCTATCTATTCA
1 CCCTATCTATTCA
173119 C
1 C
173120 TATAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (13 bp):
CCCTATCTATTCA
Left flanking sequence: Indices 172593 -- 173092
GCTTCTTTTTCCCCTCGTTCGCTAGTCTTTTGGCTTAGTTAAGACTGATTCCCTCTTGGCTTACT
AGCCAAGTCCAATAGCAACGGACTTTTTCTAACATAAAGCTGAGAGCAAGCATTTCTTCCGCTTG
ATCAGGGCTATTTTCGTTAGTTCTTGAAGTGAAGTCTGATCTCTTAATTGGCCTAAAGGGCCTAG
CCCTAAGATCTTTCTTTTCTCTTCCTAGTGCCAAGCAAAAGGCCAAGAGCTGCTTCTTCTGTAAC
AGCAAAAACAAAGACCGGCTATTCTTTTTGTTCAATGAGAAAGCATTCCTTCGTAGCTACACTCG
TTACAGTTTTAGCTTAGCCGCTTGTTTCCCTCCCCGAGGAAAGCCAAGCTGGAATAGCAATCCAG
GAAAAGCGCACCTTTAAGAACCTTAGTAGCGAGTCTCTTATAAGGAAGTAGAGCAGGAGTGGCTT
TCATTCCTTATATAATATATATTTCACTTTACGCTAGCGGAATGC
Right flanking sequence: Indices 173120 -- 173619
TATAGTAATGCTAAAATTTCGTCTACTCATTTGCCCTCTGCCTCTCCTCTTATTGGATCTATCAC
CTACGCTCACTAATCTCTGTCTCCTTCGTGCATTACTGGATTTCCTGTTGCTGCAAGCTTCCGGT
TGATGATGAACTTGTTCTCTTCTTAGGCGTAGGTGTAGGTGCTCTTCTCTTATTCGTATACTAAG
TATATGTAAGAGTGAAACCTCTTTCAGTAAAAAACCTTACCTATGTCTCTTAGCCAATCAAGCTT
GACTTTCTTTCCCTTTTATTCTTTTGTTTTCTGCCTCGGTCAGCTTTTCTTTGATCTATCTCTGC
GGATCATTAAACTAACCTTCTCTGGTCCGCTTTGGCTATTGAACTAATCTTCTTCGAACTCCCAG
GCTGAACTCGGAAAGAGAAAGACCTTAACTCACTTCAACAACTGGCTTAGAGCGGTTAGACAGCT
TTCACTTTCAGTGCCTTGTTAATCCCTCTAAATGCTAATAACACA
Found at i:185460 original size:25 final size:25
Alignment explanation
Indices: 185406--185460 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
185396 CTACATAACA
** *
185406 CTTT-AAGAGATAGGAGTAGCTACC
1 CTTTAAAGAGATAAAAGGAGCTACC
185430 CTTTTAAAGAGATAAAAGGAGCTACC
1 C-TTTAAAGAGATAAAAGGAGCTACC
185456 CTTTA
1 CTTTA
185461 CCTGCACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 7 0.27
26 18 0.69
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (25 bp):
CTTTAAAGAGATAAAAGGAGCTACC
Left flanking sequence: Indices 184906 -- 185405
TTATCGTCGGTCACCCCCCTAGGTTTCCTGTCCTCCTGGTTTATCCCTAGAACAGAAAAAAGAGT
GGTATGTGGGTTGTTTCTGGGGAGGTTAAGTATGCGATTTTGAAAAACGGATGAGGCTGGGGAAG
TTGCCACTCAAGTTTCACTACTATACCCTCGACAAAGGGAAATTTCTTACTTCTTAAGCCGGATC
CGCAGGAAGCTGACTCGATACAGATTCGCCACGCTTAGGAAATAGGAAGAAAGACGAAAGGCGAG
ACCAGCACTTTTGATTCCTAAACTACTAAGGAAAAGGGTAGCTCAGTCTTTAGATTCCTTAGAAA
CTGTCTTTGTACAATCGCCCCTTTGAGGGGTAGCTACAAGGCCAGGGCAAACACCCAAGCTTACA
GTCCTACTCTTACCCGGAGGGGATATAGGTAGTTATCTATCCATTTCTTTAGCGTAAGGAGTTAA
GGAGTTAGGGTTACCTGCCCCCAAGGGGTCCTGCGCTACATAACA
Right flanking sequence: Indices 185461 -- 185960
CCTGCACCTTAAGGCGCTTGGATCCCTTACCAAAGGTATCCTTCGCTTCCTAACAGATATATTAA
GGAGAACCTAAAGCTATTCTCTAAAAGATAAGACTTTTTAGTTGATATACGTCCTGGGGCCTCAG
GCGCCGGCCAGGCTCACACTTAGACTGTATTGGCTTCGGATACCTACCAGAACGCTTAAAGGTAA
AGGAGCTCCCGTGCCAATCACTTCCGACCTCTCCTTATCAGTCTCGTTCGTTCCTCTCCCGCTGG
TCGACTCACTTCTACCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTATCCCGGTT
CAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGATTCGTGT
ACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTAACATTAGGGGTACTGGACTATCGGACA
TTAGGGGTACTGGACTATCGGAAAGGTTAAAAGCTCTGATAACCT
Found at i:185916 original size:24 final size:24
Alignment explanation
Indices: 185889--185937 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
185879 TGAACTACTA
185889 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
185913 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
185937 A
1 A
185938 AAGGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (24 bp):
ACATTAGGGGTACTGGACTATCGG
Left flanking sequence: Indices 185389 -- 185888
TCCTGCGCTACATAACACTTTAAGAGATAGGAGTAGCTACCCTTTTAAAGAGATAAAAGGAGCTA
CCCTTTACCTGCACCTTAAGGCGCTTGGATCCCTTACCAAAGGTATCCTTCGCTTCCTAACAGAT
ATATTAAGGAGAACCTAAAGCTATTCTCTAAAAGATAAGACTTTTTAGTTGATATACGTCCTGGG
GCCTCAGGCGCCGGCCAGGCTCACACTTAGACTGTATTGGCTTCGGATACCTACCAGAACGCTTA
AAGGTAAAGGAGCTCCCGTGCCAATCACTTCCGACCTCTCCTTATCAGTCTCGTTCGTTCCTCTC
CCGCTGGTCGACTCACTTCTACCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTAT
CCCGGTTCAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGA
TTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTA
Right flanking sequence: Indices 185938 -- 186437
AAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCAC
CTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTA
CTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGG
ATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAA
GGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATAT
AGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAA
AGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATAGTCTAGTT
CAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTAT
Found at i:186203 original size:36 final size:36
Alignment explanation
Indices: 186156--186227 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
186146 GGAAGTATTG
186156 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
186192 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
186228 TGTAGCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (36 bp):
GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
Left flanking sequence: Indices 185656 -- 186155
AGGAGCTCCCGTGCCAATCACTTCCGACCTCTCCTTATCAGTCTCGTTCGTTCCTCTCCCGCTGG
TCGACTCACTTCTACCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTATCCCGGTT
CAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGATTCGTGT
ACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTAACATTAGGGGTACTGGACTATCGGACA
TTAGGGGTACTGGACTATCGGAAAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGA
GTTAGTTCAGTTCTTTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTA
GTTAGAGTAATGTCATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCAT
CTCTACTATAGCTGTAAAAGGGATTCATGTCTTCCGGAAGTATTG
Right flanking sequence: Indices 186228 -- 186727
TGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGATCCACTTCAAGTAATACGCT
TTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCA
AAGGATTCAAGATATCCCATTCGGATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAG
TTCAAGTCTTTCTATTGGATTTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATG
AGACCTCGTAATGAGCTAATTGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTAT
GAGACTTTAGCATAGAACCAGTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAA
TAGAAAGAAACTTCACGGATTGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAG
TGGAAGTGGACTTCTATATATATAAAAGGATAACCATGTTCCTTA
Found at i:186356 original size:31 final size:31
Alignment explanation
Indices: 186318--186381 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
186308 GTCAATCCAT
*
186318 GGTAGAGCAAAGGATTCAAGATATGCCAGTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
*
186349 GGTAGAGCAAAGGATTCAAGATATCCCATTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
186380 GG
1 GG
186382 ATAGTCTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (31 bp):
GGTAGAGCAAAGGATTCAAGATATCCCAGTC
Left flanking sequence: Indices 185818 -- 186317
TCATGTTACCTATTCTCTGATCCGGATTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAA
CTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGTTAAAA
GCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTACTGTC
TTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGCGATTA
AAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCATGTCT
TCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAAGCTTT
AGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGA
TCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCAT
Right flanking sequence: Indices 186382 -- 186881
ATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTT
TGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAATTGTA
ATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTAC
ACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGAC
TGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATA
AAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAG
TCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGC
TTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGA
Found at i:186415 original size:32 final size:32
Alignment explanation
Indices: 186378--186442 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
186368 GATATCCCAT
186378 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
186410 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
186442 T
1 T
186443 TTTTTGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (32 bp):
TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
Left flanking sequence: Indices 185878 -- 186377
TTGAACTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGT
TAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTA
CTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGC
GATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCA
TGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAA
GCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATA
GGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGAT
TCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCAT
Right flanking sequence: Indices 186443 -- 186942
TTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAAT
TGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCA
GTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGAT
TGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATA
TATAAAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCA
ATAGTCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCT
TTGCTTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGC
CTGAAGAAGAGCAAAAAGAAGAAGCAGGAGGAGAATTCTTTGCGC
Found at i:186514 original size:14 final size:14
Alignment explanation
Indices: 186495--186521 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
186485 ATGAGACCTC
186495 GTAATGAGCTAATT
1 GTAATGAGCTAATT
186509 GTAATGAGCTAAT
1 GTAATGAGCTAAT
186522 CCCGTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (14 bp):
GTAATGAGCTAATT
Left flanking sequence: Indices 185995 -- 186494
TTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTC
ATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTG
TAAAAGGGATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTC
TAGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTG
TTGAATATAGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGG
TAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATA
GTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTTTGA
TGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTC
Right flanking sequence: Indices 186522 -- 187021
CCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTACACCTACACTC
ATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGACTGAAGGCAAG
GAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATAAAAGGATAAC
CATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAGTCCTACCTAA
AGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGCTTTCCTTACG
ACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGCCTGAAGAAGAGCAA
AAAGAAGAAGCAGGAGGAGAATTCTTTGCGCTTGAGCCCTTGACAAAAGATCTTAACCTTTGAGA
GCTGCACTGGGGCCCCACCTCTGAAGGCGCACCATCTTTGGTACC
Found at i:187928 original size:22 final size:22
Alignment explanation
Indices: 187903--187952 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
187893 CAATGTGAGA
187903 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
187925 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
187947 AAAAGT
1 AAAAGT
187953 GAAGTAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (22 bp):
AAAAGTATCATTGATATATGAT
Left flanking sequence: Indices 187403 -- 187902
TCTATGAAAGCCCTTGATCCAAGAAGGTAGTGGGCATGTTCACTCGGTCGAGAGAGACCAGAGGA
GTCTAGAGAGTCCGAGGCCTCGGTCTTATCCCTCTTTCTTACATTCTTGAACCTCCAATCCAATC
AATCAACTTGTCTACTTGCTTATCGGCATTATCTAAAAGAATTACGTTATGGTCTTGAACTCTCG
ATATATCATATGTAATGAATGCTCGAGGTAAGCTTGTCTTTTCGGAAGAGGTGGGTGGGAGTGGG
GCAGGCAAAGAAAGTAACAATCATACCCGATATTCAGAGCGCCGGAGATAGAAGCGGCGGCAGCC
ATAAAGTCAAGTGGAGAATTTCCATCCATTTGCTGTCTCCTTCGCTACCGGGGTCATAATTACGA
AATTTGCCAGGTTCAGTTCTGACTATAGCTGCAACCTATCTCATATTGGTGTTCAGTCTACCGCA
CCGTGGGTACAAGATCAAAATCATGCAAAGCATTCCAATGTGAGA
Right flanking sequence: Indices 187953 -- 188452
GAAGTAAACGGACCGGTCAAAGGGATGAGCCGGGGGGAAGGGAGACAAGGTAGGGCCCAACATTA
TTATAAAAGAAAGACATTATCTTTAATACTGAGGGCATTTTTGGCTAAATGAACAATGTTCCCAA
ATTTATATAAAAAGGAACAACAAGAACAGAAGCACATCAAAGACCAAGATGATGATGATCCATCT
CCTTAGTTAAACCGTCGAACATGATTAATTTCATCTTAGAAAAGATCCCATTAAGCATGCGAAGA
CCTTCAAAAGTCTTCCCAGAACCCTTAATTCAAGTCTTAAGTAAATCACTAAATTCTTTTTGTAA
CGACCTCTCTCTTAGCCCTTAACGGCCTAAACTCAATCTAGTCCTTCTATCTGACTTCTTTATTG
AAAGCGAACAAAACAATAACACATTAAGCTTCTTCCCTTCGAATGCTTGAAGCTTGCACACTTCT
GTTCTAGAGTTTAGCTAGTGTAATTAGGTTTTTTCTTTTTATTCT
Found at i:193427 original size:18 final size:19
Alignment explanation
Indices: 193404--193441 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
193394 GGAAGTGAAA
193404 TAGAGAAGGAGTTC-GACT
1 TAGAGAAGGAGTTCTGACT
193422 TAGAGAAGGAGTTCTGACT
1 TAGAGAAGGAGTTCTGACT
193441 T
1 T
193442 CGAGTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
TAGAGAAGGAGTTCTGACT
Left flanking sequence: Indices 192904 -- 193403
AATTCTATTATCTTCTCTTGCTTGTCCTCATAGATGCGAATATCAGTCTCAATCGACTTCAGTGG
TGGGGCAAGTATCTTAACGAATGGGAATCACATTTGTTCCCAGAGTACGAGACAGCTACTCTGAC
CCCCTCAGTATTAGTATAGACTTCAGGAGACCAAAAAAGTGATCAGGAATAGCGGCCTTAAGGGC
CAATAGTTGAGGCCTTATCTTCTCTTTCAAACTTCCTAAGTTGATCCCTTTCGTGAGGCAAGCTG
GATACTACTGGACCTTGTTACGACTTAACTCCAGTCAAAAGATCGTAGCGTAGAGGGAATCCAAG
GAAAGACATCTATGCTAGTTCACCTCCGTCAGTCTAGAGCGCCTCTCGCGCCCAATAGACTTTTA
TCGAAAAAAGGCTTTCTTTTAAGGTTTAAGTTTTCTCAAATCGCCCAGCAGCCTCTAGAAGGCCT
TACTGTATTCCTTCTCTTACAAGACATAAATAATAGGAAGTGAAA
Right flanking sequence: Indices 193442 -- 193941
CGAGTTCTGAGTTTGTAGTTTTTCTATTCTAGAATAGTAGATCCCAGGGAAAAAGTCCTTCTAAC
GTCTCTTGTTGGAATGATAAATTTTATTTTCAATGAAAAGAGGGTCCTTGTTCTTTCGCATGTAG
AAAGGAGAAGAGTTAAAGAGATTACCTAGCTCACATTTCTATTTCTGGCTGGGGGAAGGCTGAAC
TTGCTTTGCCATCATGCTTCCGCCGCAAGACTCTTGGAAAGTCTCATTTGCAGTAAAGGATCCAT
TTCTGATGGAGCTAATTGCTTCATATATGGAAATTACAGTTGTAACTGAGTCCGGAGAGAATGTA
TTGCCAAACAAAGGACTGCCACCTGTACCCTATTTTCTTAAATTTCTACTTGGATGACCTAGATC
GGGCTTTTCAATGCGATTTCTTTCCAGGAGCTAGATACGGCGAAGAAGGACTTCTTCCCTTCCTT
TCCCAAAAAGAGTAGAAGTGCACTATTCAACAAATCACAGAGCTA
Found at i:230659 original size:20 final size:20
Alignment explanation
Indices: 230634--230673 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
230624 CGTAGAGGTC
*
230634 CCCTTTGCCATTCTGTATAA
1 CCCTTTACCATTCTGTATAA
230654 CCCTTTACCATTCTGTATAA
1 CCCTTTACCATTCTGTATAA
230674 ATGGGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (20 bp):
CCCTTTACCATTCTGTATAA
Left flanking sequence: Indices 230134 -- 230633
CTACGTCGGTTGGTTAAATTTGGAATTCTTTTTTGGATGTCTTGTATCCGCGAAAAGATCATTTC
TTTCGATAGATAGAGGGCCACCTTCTTATATTTCTACATCTAGGATTCGACTTGTATCATGGATA
CTAATTGGAACTGAACCATTATGGCAAGGAAAGGTTTGATTCAGCGGGAGAAGAAGAGGAATAAA
TTAGAACAGAAATATCATTTGATTCGTCAATCCTCAAAAAAAAGAAATAAGCAAAGTTCCGTCAT
TGAGTGAGAAATGGGAAATTTATAGAAAGTTACAATCCCCACCACGGAATAGCGCAGCTACACGC
CTTCATCGACGTTGTTTTGCGACTGGACGGCCGAGAGCTAATTATCGAGACTTTGGACTATCCGG
ACATATACTTCGTGAAATGGTTGATGCATGTTTGTTGCCAGGAGCAACAAGATCGAGTTGGTAAG
GATTAACTCTTGATTTCTATTCTAGGGTCGGTGATCGTAGAGGTC
Right flanking sequence: Indices 230674 -- 231173
ATGGGCTATCCTATTTGTACAGATATGGTAAAGGGTTATACAGAACTTGGTTATCTATTAGTTTT
CAGTTCTTCTCTTCATCGCGGGGTAGAGCAGTTTGGTAGCTCGCAAGGCTCATAACCTTGAGGTC
ACGGGTTCCAATCCTGTCTCCGCAACATCTTGTTTGTCAAAAAATTGTAGATTTCACTTTGTTAA
GTTAACTAGTAATTAATTACCGCTTTGGGGGAGGAATCCTCGAAGTGGTCCCTCATCTCCTCTTT
CCGGTTCTTCAAGAGTTATAGGCTACTCTACCAATCAAAAGAAAAGAAGGCTCGAAGGCTTGAGA
ATTTGCCCTACTCAATTTATAAAATTGAGCGGGAATGACAAATAAGAGCTTTTGCCAGTTTCAAG
TCCGGGAATCCTCTTTCATCCGCCCTAAGGGGTAACCTCACTGCTTGCATTCCCTTCTGTATTGG
ATTTCGGGTTTGAATCGCCGAATAAGGGCTAATACGAAGATAAAG
Found at i:232295 original size:15 final size:16
Alignment explanation
Indices: 232275--232310 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
232265 AGAGCACCTT
232275 TAGTACGCCATTTTA-
1 TAGTACGCCATTTTAC
232290 TAGTACGCCATTTTAC
1 TAGTACGCCATTTTAC
232306 TAGTA
1 TAGTA
232311 TAAGGTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (16 bp):
TAGTACGCCATTTTAC
Left flanking sequence: Indices 231775 -- 232274
TGCAAACCAGGAGAATTTTCTAATTGAATACATGGGGCGGAATTGGCTATTTGCTGTGCTTGTGA
AATTGGGCCAGGGCCTATACCCGCGAAGAGGGCTGCTCAACTCCTAAAGAAGGACATACGGACCG
ATCATGGAATGCTAAGAGATGATCAAGCTAGAGACCTAAGGAGAAGAAAGATCTACGCTACGATT
CATGGGCAGGTAAAACAGATATTTTTTCCCGAGCAAGAACTTCTATCAGTTGGAGTTCGAGTGGA
AGGCACTTGCCCGCGATTCAAGTACACTAAATGCGGTATCAATACATGGCCAACCAACTTCGTAG
CTCGATCTTATACTTTTTTTATAGGTAACGGATTTCGACTTACACAAGTTGGGAGATTCCATTCA
CGAAGGAAGTCTTTGAAAAAGAGAATGCGAGACAGAATTGGTTAGTTGTCCAGTCCAGTTTGGTA
TCCAAATCTCCCTTACTTTGTTAACTGACGTAAGGAGAGCACCTT
Right flanking sequence: Indices 232311 -- 232810
TAAGGTAGTGTATCGAGGGGCTCTAAGCGATCAAGGAGCTTAATGCGTCTTTATGGCATAACCCG
GAAAGACTTTTCTTAGTCTTTCTCCTATTACTATCGCACCCTTTACGCTACCGCACAACTAACCG
TTGCTTGGTTAGTCGGATCAATTTCACTCTCGAAGTTGGGAAGAATCCACTGAAAATGCGAGGGG
TGCGAAGCACGAAGCATGACATTTTGTTTGAACGAATCATCGAAGGGAAAGGTCGACGAGACAGC
AGAGGGGCCGTAGGCGGTTACCTTGAGATGGGGAGATGGTTTGACCGCTTATATTTATACACGTG
TCACTGTCAGATCGAAATTCTATATCATCCTAAAAATGCAGAGGAAGAAAAAAAAGCCCTCGTTA
GGCCGAAAAGGGTTCGGCGCTAGGGCAAGCTCTTTAAACCATGGGGAAGGCTCATCGAAGGCCTA
GGGCATTATCTGACTCAAAAAAAAAGGGCTCGAGAAGGCTTGGGC
Found at i:298917 original size:24 final size:22
Alignment explanation
Indices: 298830--298919 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
298820 ACTCACACAG
* *
298830 AAAAAAGGAAGTGAGTTAGACA
1 AAAAAAAGAAGTGACTTAGACA
* ** *
298852 AAAAGAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACA
*
298872 AAAAAAAGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACA
*
298894 AAAAGAAAGGAAGTGGCTTAGACA
1 AAAA-AAA-GAAGTGACTTAGACA
298918 AA
1 AA
298920 TCTTTTTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
20 6 0.11
21 20 0.38
22 9 0.17
23 3 0.06
24 15 0.28
ACGTcount: A:0.54, C:0.09, G:0.24, T:0.12
Consensus pattern (22 bp):
AAAAAAAGAAGTGACTTAGACA
Left flanking sequence: Indices 298330 -- 298829
CATACGTAAAATCATAATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTCCAA
TAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGATAT
CAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCATTG
AGAAATAGGAATCCGTGTTATCAAAGGATTTCCTGCGATTATTTCTAGTATGGAATGAGTCAATC
ATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTTATA
TTTTTGGGAAGTATCATGATCATCCAATAAGAAGGGTTTCCATTTTTTCAAATGAACAATTTGAA
GACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATGTAG
ATCATCTCGGACCTATGAAAGGGGATATTCCCGAAACTCACACAG
Right flanking sequence: Indices 298920 -- 299419
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCAAACAT
TACTTGAAGGCGGCTCTTCTGCTCAGAAACGAAATGTTCCTGGAAATTCTTGCTCCCATTGGACT
GGACCATTTGTATCTATATGCATCAGGATTCCGATTCATGGATCTCTCGGTTCGAGAAATCCAAA
TAAGGGGATCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATGTTGGTTGATCCTATAT
TTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATTCGAA
GTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCAGAGGTAC
TATATGGGATTTGAATCTGATTTCGGATCAATCTGTATTGATTGACTGCCTCCATTATGTTGTTG
CTAGCAAATACCACTCTTTTTGGTTGTGGATCTTCCAAATCATTC
Found at i:307395 original size:29 final size:31
Alignment explanation
Indices: 307358--307428 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
307348 CAATTCAATT
307358 TAAAATTAATT-AT-TTATT-AT-TTAATCAA
1 TAAAATTAATTAATATTATTAATATTAAT-AA
307386 TAATAATTAATTAATATTATTAATATTAATAA
1 TAA-AATTAATTAATATTATTAATATTAATAA
*
307418 TAAAATAAATT
1 TAAAATTAATT
307429 GGAAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 3 0.08
29 8 0.22
30 2 0.05
31 12 0.32
32 7 0.19
33 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
TAAAATTAATTAATATTATTAATATTAATAA
Left flanking sequence: Indices 306858 -- 307357
ACATCGGTCAAGGTTTCGCGATTACCCTGTCTCACGCGAATCGTTTACCTATAACTATTCAATAT
CCCTACGAAAAACTAATTACGTCGGAACGTTTCCGGGGCCGAATTCACTTTGAATTTGATAAATG
CATTGCTTGTGAAGTATGCGTTCGTGTATGTCCTATAGATCCACCTGTTGTAGATTGGAAATTGG
AAAGTGATATTCGAAAGAAACGATTGTTTAATTACAGTATTTTTTTTTTAATCTGTATATTTTGT
GGTAATTGCGTTGAGTATTGTCCAACAAATTGTTTATCAATGACTGAAGAATATGAACTTTCAAG
TTATGATCGTCACGAATTGAATTCTAATCAAATTGCTTTGGGTCGGTTACCAACGTCAGTAATTG
ATGATTACACAATTCGCACAATTTCGAATTCGCCTCCAATAGAAATAAAATATAAAATAGTTAAA
CTTAAACCTCTCAATTCAAAAAAATCCCCAATTAACAATTCAATT
Right flanking sequence: Indices 307429 -- 307928
GGAAATAAATGAAATTAGGTTGCATCTCTCAAAATAAGGCTTTGAAAAAGTTGTTTAAACTTGTC
ATTTCATTTTGATGAAAAATGTATTTCTATATTTAGATTTTCTATTTATATTAGAGTAATATATA
TATTTTCAAACAATTTTCCAGATATTGAATGATTAGGGCTAATAACACTATATATATCAACCCGC
CCGCATCTGTTCCAATTTTATTTATTTAATTACGTTTAAGTTAAGAAGTATCATAAACAAAAAAA
AAATGGAGTTACTTCTTTTTTCCTGGTCAGGTCAATAAAATCATGAAATATTGAGATTTGGATTT
TATGGATTTACCCGGGCCAATGCATGATTTTATTTTAGTCTTTCTGGGATCGGGTCTGATCTTAG
GAGGTCTAGGAGTAGTATTACTTCCCAATCCCATTTTTTCGGCCTTTTCGTTAGGATTGGTTCTT
GTTTGTATATCCTTATTCTATATTCTATTGAGTTCTTATTTTGTA
Found at i:314850 original size:26 final size:27
Alignment explanation
Indices: 314812--314863 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
314802 GAAACTTATT
*
314812 CATTCCAGCATTAGTTATCCCATCTTC
1 CATTCCAGCATTACTTATCCCATCTTC
* *
314839 CATTGCAG-ATTACTTATTCCATCTT
1 CATTCCAGCATTACTTATCCCATCTT
314864 TCGCAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.23, C:0.29, G:0.08, T:0.40
Consensus pattern (27 bp):
CATTCCAGCATTACTTATCCCATCTTC
Left flanking sequence: Indices 314312 -- 314811
TCGGCGAGATGGATAAAAGTATGTGTTATGATCCAAACTCAAAATGAATAGGGATGTCGATTCAT
ATCAATTAATTTATTCAAGAGAGACTCATCCAAATTAATCATGTGCCAGGAACCTGATTGGAACT
GGTGACACGAGGATTTTCAGTCCTCTGCTCTACCAGCTGAGCTATCCCGACTAAGTCCCAATGTA
GCATCCTCATTTTATTAGAGGGCGGGGGTCTATGTCAATTAAAAGGGCGAAAGAAGATTCAAAAG
TTTTATCTAGGTACTGGAATTTCTTGGATCTTAAAAAAGACGACTTTTTCAGTTTCAGTATGAGT
AATGATATCGATTGTAAATCATTCAAATGGGGATTTCTTGCTCAAAGATGTATATCTTAGATATA
AGATATAATAAGACATTTCCGCCCAGATCTATTTCAAAAAGAATAGGGCGAGTGTATAAGGACAC
TGACGCAAGGAAAGTGGGTTTAGAGGTTATATATAGAAACTTATT
Right flanking sequence: Indices 314864 -- 315363
TCGCAACAAAAAGAGAACATGCCAAAAAAGCGTAAAACGGCAACGATGACTTTTTTTGATGATCG
AGCCAAGTTCCGAATTCGTGTGAAAGAATCTTGTTCCCGGTGATGTAATACCTACCTACCATTTT
CGACCTCGTTTTCTTGTCTCTTTTTGGTCACCGTATTACATTTATGCTGTCCGCTAAAAAGCGCC
TCGATCCACCCCTACTAAATCGATCGCCCCTGAAGCTATAGCATGCTTTATTGGCTAAAGCCCCT
TCTTTCTTAGAAAACGATTCTGGTTCAAGTCTCATTCGAAAGCATTCGAAAGGAAGTAGGCGTCA
TCTACGACTTTACCTTCATGTCTTAGGCATAAGACTAGGTTCACTTAGAAATCGGATAGATCGTC
GAAAGAATACTAAAAGTGCGGGATTTTAGACACCAACAAAGAGGGGTTGATCCTCGCTTCCAAGA
AATGCTTATTTACGAGAATAGCCAAAAAGGCGGTATCAAAAAGAA
Found at i:324503 original size:15 final size:13
Alignment explanation
Indices: 324468--324494 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
324458 TGAGTATTAC
324468 TTTATTAGGTCTA
1 TTTATTAGGTCTA
324481 TTTATTAGGTCTA
1 TTTATTAGGTCTA
324494 T
1 T
324495 ATATATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTTATTAGGTCTA
Left flanking sequence: Indices 323968 -- 324467
TTGGGACTGCTACCGAAAAGACATCAACTAAAGGCTCTGGCTCGGCTGCTTCTTTGAGTGAGACC
ACACCAACCCCTTTCCCCCCAACCTTCGAGCCAATTCGAGCCCACCTTCTATTCTACGCCCTCAG
CAGACCTTAGATCTTCTTCGCCAACCATCCTTGCCAGCCAACCTTCCGGAACCCATCGGTCCATC
AGTCAGTAGCTATTCAGTCCCTATCCCGTAACCAGTCGTTGGCCCTATCCCCCGTCGTTGGCCTA
AGGCCCTTCTTCCTTGCCTTATTAGTGTAGGGCAGCCGAGAACAATTATTAGTCTAGGGCCTTAG
CGACTTTACTACTAATCAGATCAAGATCAGGTGTCCCTTCACTCTCCTCCCCTCCGGTGAAATAA
GAAAATTCATGTACTTAATTTAGCAATATCTCGAACCATACCCTACCATAAAACGTAACCCTACC
TTAGCATCTCCCAAGCGCTGCCGTCTTTCGATCTGTGAGTATTAC
Right flanking sequence: Indices 324495 -- 324994
ATATATTAGTAGGTATGATTGATGTCTTTTTCGCTCTACAGGGTCTCGCGAAGGGCACCGAACTA
CTAAGACAGAGACTTACTAGCAACTGACTTACTATCGTTTGTGCCTTCCTCCGGACCGGAGCCGA
TTGTAGGAGAAGAATCAGCAGAAGAAGCAGCATCAGCATCAGTAGAAGAAGTTTCTGTTGCCGAA
TCAGTTTCGGAATCAGTTGAATAGGAATCAGTTTCATGGACAGAATCAGTTGCAGTATTTGATGA
AGTTTCAGAATCAGTTTCAGGGTAAGCGGAATCCGCAGAAGCAGAAGTTGGAGAAGTAGGAGAAG
GTAGAATTAGTCATTTAATGAGGAATGAAAAACGGTAGTTTTTCTTTACTGACATCGGGGTCTCA
GGCTCTATCCCGTCTCGTCTCATGGCACCTACAAGTGGGTCTTTTCCCGGGATTTATGCTTGAAA
ACCCGTAGGGTTTCATTAATCATCAATATTGCTTCCTAAAGTGGA
Found at i:338293 original size:13 final size:13
Alignment explanation
Indices: 338275--338299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
338265 GCCGCACATA
338275 CGTTTTCTTGCTC
1 CGTTTTCTTGCTC
338288 CGTTTTCTTGCT
1 CGTTTTCTTGCT
338300 GGCACGAACG
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:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (13 bp):
CGTTTTCTTGCTC
Left flanking sequence: Indices 337775 -- 338274
GTCTTAATCTTTCCCTAGCTCAAGTTCAGTTACTTCCGGGGAGAAATCCTTCTTATTGAACCCCA
GGAGAGTGGGGGGACATTTACTAACCGGGCAACTAAGGCCTTTTCGAATACCCATGGGCTGAGAA
TCGGCCTTTTCCAAACCAAAGAATTACAGCTGCTTTTCTACTCCCGCTGTTACAGCTAAAGCATA
TTCAGATAACTCCATACCCTCTCCCTCTGGTCGAGATACTTCATACCCTCATATCAAGGTAGGCC
GGCCTTATTAAGAAGGAAATTAGACATTATCGAAGCTTAGCCACTGCTTCCACCGCTCCTTTCGC
TTAGAATGATTTCATACCTGCTTTCTTCTTTGCTCACTGAACTGGAGCTTGAGCTTAAGGATTTC
TGGTTGATTTATCTCCAGCGCGTTATGTATTCTATTATATTACCAGTTCGTTCGACTTCTCCTCT
CGCTTCGCTCGAGCAGCTACGCACGTGGTGCGTTAGCCGCACATA
Right flanking sequence: Indices 338300 -- 338799
GGCACGAACGAGAAGAAGAAGGAATCCGTCAGCAATCTTCCTCCTGCGCTAACGATAGAAAGCCA
GCCAACAAGCAAGGACCTTGCCTTAGACAGGGCCTTAGACGGGTTAGGGGTTCAAGCCTACAGCT
AACGAGCAGGCAGGGCAGGCTCATACTAATAAGTGTAACTCACCCTATTAAGAGGAGAGGCCTAG
AAAGGCGAGAAGGCCACCAAAACGTGCCTATACCAGTGTCGGTTATATTGAGGTTTTCTTTTCCT
TAGCCAAAGACGAATACCGCCTGTAGCCAGCCCCTTTAAACCTCAAAGAGACCTTCAGGCAACCG
AGGAACCACTATTCAAGACCACGCAGGCCGACAGCCGTTAGAGAAGAAGAGAGAGGCACCAAAGC
TAGTTACCAGTACCCCGACAGCTGCCACCTGATCAAACCGGGAAAGCGGAAACCGTGCCATCTTT
AACCCCTGTTTTGGTTTTGTGCCCTTTAGGCATCTCTTTAGGGAT
Found at i:341027 original size:23 final size:23
Alignment explanation
Indices: 340981--341029 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
340971 AAGCGCTAAT
* **
340981 CTAAGGATAGTTTCATTCCTTCC
1 CTAAGGATAGTTTCAATCAATCC
341004 CTAAGGATAGTTTCAATCAATCC
1 CTAAGGATAGTTTCAATCAATCC
341027 CTA
1 CTA
341030 TAGGGATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (23 bp):
CTAAGGATAGTTTCAATCAATCC
Left flanking sequence: Indices 340481 -- 340980
GCAGCGGAAAAAGCAGTATCGACGGATCTACAGTGTTCTAAAAGCTCTCTATCCAATAGCCGCTT
ATGGCCTCCCTTCCTCTGTCAAAGTCATCGATGTGCAACAATTAGAAGAGAAGCCATAAAGCGAG
AAAAACCCCTTAGAAAATCCCCCAGCCCAGTATGGAAGAGGCAAAAGCCAGTTTCTTTCGTAGTG
ACGAATCACCAAAGACTACAGCTGTGTCTACAAGCGGGAAAGCAGCGCTAAATCCGTATCGACAT
CGACTAAATCCGTCTCGCGTAAACCTGTATCGACTACATCTGCCCTACCCTTTACTTGACTTTAC
CGGTCTTAAGCTTAAGCTAACTCTTTCCCGACTGGAAGGAACTCTAGAGTAGCTCCTTAGCTGCT
AACTGGCTGGACAAGCGGCTCTCGTGGCTTTCTTTCCTTCTTGAGAATAGCCCTTTTCTTTGAAA
GTAGTCCCCAGAGGTGTGGACTAAAGGAATAGCACAAGCGCTAAT
Right flanking sequence: Indices 341030 -- 341529
TAGGGATGAAAAGAGAGCGTCTAAACAGAGTCCTGTGGGGATATAGAAACCCTCTCTTCGACTCT
TCTGCTGATCGTAGACCATCCTGTGATTTCAAATCAACAGATTCATTGAGCAATTCTTGAGTAAA
CTAATAGAATTCAAAGAATTAGCGTAGTCAAGCTAAAGAGCCCTCTACTGGCCTTCTCTCTGCTC
GTCTAGCTTGCGATACTGATTCTTCTATGGGGATTCTTGTCTTGAAAAGAGGTTAAAGAAAGGAG
TAGGGCAGCTGCATTCTATAATGCTAGGAAGAGTGAAGAGTTAGCTTCTAGCTCTAGCTCTGGCC
TTAGTGCGGGTGAAAGCCTATTCACTCCTACCATTACATTAAAAAGCGTGCAAGAATTGCGGAGG
GGCTTTTTTAAGCCTTCCATTGTTGGCAGTAAGGTACAATCCCCTTTTGTATTAATCTTTCCATC
TGCCACCAGTCTTGCAGGTCTTTCACCATTTGCTTTTCCTTTAGC
Found at i:347779 original size:20 final size:21
Alignment explanation
Indices: 347741--347780 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
347731 GGCCCCTGAT
*
347741 AAAAAGAAAAAAGCTGAAATC
1 AAAAAGAAAAAAGCAGAAATC
*
347762 AAAAAGAAAGAAG-AGAAAT
1 AAAAAGAAAAAAGCAGAAAT
347781 TGGGCCATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAAAGCAGAAATC
Left flanking sequence: Indices 347241 -- 347740
TGAATCTCCGCTATTTGAATATGGAACATCATAACAACGAATAGGAATAAAACGGCTATAGCTCC
TATATGAACTACTGGGAAGATCATAGCGAAGAAGTCGAGACCTAACAAAAGAAGTAAACCTGAAG
TGTTGCGAAAGACTGGGATGGGAAACAAAACAGAATGTACCGGATTTTTAGCACGTACAACCATC
AAACCAGAGACCAAAGCAGGGCTAGACAAAACAGAAAGTATCATAGTACGTCGTCCTTCCCTGAA
ATGGAACTTTCATGCTAGTTCTTGCTCCAGCATGAAAGTCGATCTATTACGACCAGCGCGGTTGT
TCGTATTTCATTTTCTTCTTCCAAGCCAAGCCCTTCTTAGAAAGCACTCACTGAGTTACTTACGG
AATCTCAAATCTCTCTCGACGCCGAGAATTTTTTATGTGCCCAGGTCGATTAGAGGTTCGGCTTC
CTTCTCCCCCACCCACCTTTTCTTTTAGCGTCCTGGGCCCCTGAT
Right flanking sequence: Indices 347781 -- 348280
TGGGCCATCTTTCCCGAGGGAGGCCGCCTTCTCTCAGGCCCGCAGTCTTCTACTTCTAGTCGACT
GCTCTATGACGGGCTTCCCTCTTTCCTGGGCTCTGCTCGCTCGTCTACGCTCCAACCCAGCAAGT
AATAATTGAAATCCAAATTTCCTTGCGATTTCAAACTTGTCGTCAAAAAAAAGGCAATCAATTAG
AATCAAGAAATAAATGGAAATAGTAAATCAAGATCTAGATGGGTTCCTATCTTTATCTCTATCCA
CGGAGATACCTATCTATATGGAGAGAGATCTATCTATGAATCAATCTATACTATCCTCTATCCGG
ATAGATATGTCCCTATGAGGGACTACGCCGATCTTTATATGTTTTGGCCACGTCCGTTTCCGCTC
CGAAGAAGAAGGTTTGTATCTTTCAATCTTATGTCGTGAGGGATGTGACCTATGTTAGGTCCATA
AGATACCACAGCTTTTGGTGTTCTATGATTCACCTCCGAATAATG
Found at i:435932 original size:14 final size:14
Alignment explanation
Indices: 435913--435939 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
435903 GCGGATAAAT
435913 CAAAGAAAATGAAC
1 CAAAGAAAATGAAC
435927 CAAAGAAAATGAA
1 CAAAGAAAATGAA
435940 ATTTTTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAGAAAATGAAC
Left flanking sequence: Indices 435413 -- 435912
CTGTCTTAAGTGCTCTGCTAGCTGAAGCCTTAGGAGCAGTCCTTTACAGAACAGTTGAGCCTTTA
TATACGAAAGGAGACGAGCTAACAAGCGAACAAGGGTCTGACTCGATCATAGAGAGAGAGTCTGA
AAGAGTTCATGAACTTAGCGTAACTGAAATTCTCTGATCCGATCTTCTGAACATTGCTTTAATCC
CAAGGGAAAGCAAAAAGGACCCAACCGTACTACTTTCCGCCTTAGTTTTGCTTGTAGCTTGGTTG
ATAACCGGTTCGAGAGCTGAAGCCAAGTCGCGTGCATAAAGAAATTCTTCGCTAAAATACACACC
TACGAATTTACCTGTTGGGAAAAGTAAAGTATTCTTATGATCTCTATAGCTAAATGAAAATATCG
TATTATAGTCATAGAAACAATATACGTGTCCCATGTCTTTGTTGGAAAAAAGCCAACAACCCGTA
TTTAAATGAAAAGTCTTTCTCTTTTTTTGGGAGGAGCGGATAAAT
Right flanking sequence: Indices 435940 -- 436439
ATTTTTAGAATGGCTATTTCTCACAATTGCTCCTTGTGATGCAGCGGAACCATGGCAATTAGGAT
TTCAAGACGCAGCAACACCTATGATGCAAGGAATAATAGACTTACATCACGATATCTTTTTCTTC
CTCATTCTTATTTTGGTTTTCGTATTATGGATCTTGGTTCGCACTTTATGGCATTTCCACTATAA
AAAGAATCCAATTCCGCAAAGGATTGTTCATGGAACTACTATCGAGATTCTTTGGACCATATTCC
CTAGTATCATCCTGATGTTCATTGCTATACCATCATTTGCTCTGTTATACTCAATGGACGAGGTA
GTAGTAGATCCAGCCATTACTATCAAAGCTATTGGACATCAATGGTATCGGAGTGCGCCCCTTCA
CGAGGGTGATTTAAGTGCAACGAAATGCCTTAAAGTTGAATATGGTTCGCGAAGCATCTGGCTTA
CCGGTAATCTCCCATTCCCGCCGTCGAGAGACTTTAATAACTATA
Found at i:521900 original size:2 final size:2
Alignment explanation
Indices: 521893--521924 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
521883 AGGGCTATGC
521893 TA TA TA TA T- TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
521925 GAAGCAGCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 521393 -- 521892
GAAAATATAGATAGATACATCTTTGAAGGGGTCGTACGATCGATTGCTTTTTCACTGCCGGGCAG
GCATAACTAGTAACTTTACTCTTTCTAAACCCCCTTAGATGAGGCAAAGGCCGGAGCTGCTACAA
TAGCTTTAGCGGGAGCTGGAGGAAATAACACTGATAGATGGACGTGAGAAAGCTCTTTTATAATT
ATAAAATTTTTGTCTGGTATCGTGTGGTATATGGGCGGGAGGAGAATAAGAGTCTCGTCTCATCT
TTCAGCTGGAGTTAAGGCTCTCCTGTAAGAACTCTGGAAGGAATTGGTAGACAAAGCATAATGCT
TCTTACAAGCGAAAGAAAGATTAGCTCGATCCCAGGAGCGTAGATGGAATCTGTCGAGGAGCACT
TCTCGGGGTAGCATCGCCCAGGTTGAGAAGGAATCGCTTAGGTTTCTTCGGAACCAGAAGAATAG
GAATGATTACTTGACGTAATCTCAATATCAGAAAAAGGGCTATGC
Right flanking sequence: Indices 521925 -- 522424
GAAGCAGCGTCTCTATCTCTTAGTGAGCTAGCCGCTACTATAGTTTTAAGGGATTTGTGCAATGA
ATTCTTTTCTGCCAGTTTCGAGTGGGAGTCTAAATCAACCCATTTTAAAGCAAGATAGACCAAAC
GACTTTACTGTAGGAAGAATCCCAGAAGAGGTGATACACTGATTCTGGATGCAACTCACAAAGAC
AGCAAGTTTCATCATCAATAACTCTATCGTATTGAGAGCTCTTTTGATCCCATCCATTCCTTTAT
CGTCTGATCCAGTGATTAGTTAAGTTAGAAGAATGGAATTACTTCCATATGCGGGCAGATATGCA
TTAACAAGCTTATTGAAGGGAAGTTCCCCGCTCTCGAATAAAAAAGTAAGCTGACTATCCCGCAG
TGAGCGCTACCTAAGCACTGTTGAAGGCACTCAGAGAAGAGTGGAAAGAGTCCTAAGAGGGCTTC
TCACTAAGACTTTCGACTCCGATGCCTTTGAATCCGTTGATTGAA
Found at i:560071 original size:14 final size:14
Alignment explanation
Indices: 560052--560078 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
560042 TACTTGTGAT
560052 TTCATTTTCTTTGG
1 TTCATTTTCTTTGG
560066 TTCATTTTCTTTG
1 TTCATTTTCTTTG
560079 ATTTATCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.11, T:0.67
Consensus pattern (14 bp):
TTCATTTTCTTTGG
Left flanking sequence: Indices 559552 -- 560051
ATCCTAAACAAATAGAATCCCTTCCGGTCGGGAAGATGCAGATAAAAAAAAAGGCCAATAGCCTG
CTTCTACGGCATAAGCTTTAAAGAAGAAGAGAGCTATCATTTCATAAGAAAAATTTGTTGTTTAA
ATCTCAAAGGTATAGGTTAAATTTGGAACAGTAGTCATTTCAATCTTTTTTTTCGAAAGAAAAAT
CCGTCAATAAATGACGAACTCCATTATACAGATGATAGGACAGGGCTAAGGCAGTAATCTCGACG
GCGATTAGGATGAGCTTTGATGAATAAAAGAAGAATAGGTAGAAATTTTCATAGGTGAAGCAAAT
CAAACCTATTTTAAGACAAAGAAGATAAAAAAACAAAACTATAGTGACTAGGGAAGCTCCGGAAA
TTCTATGGGAAATTGGAAACGTCGAAGTGAGCTGTGGCTTATAAATAGGAAGATGAGGAGATAAC
GGGCGAAGGATATGCAATTTCTTATTATTAGAATTTACTTGTGAT
Right flanking sequence: Indices 560079 -- 560578
ATTTATCCGCTCCTCCCAAAAAAAGAGAAAGACTTTTCATTTAAATACGGGTTGTTGGCTTTTTT
CCAACAAAGACATGGGACACGTATATTGTTTCTATGACTATAATACGATATTTTCATTGATCGTA
GCTCAATTGTGACAACAGCCGATAAGCAAGCACGCTTTGCTTCCTTAGCTCGCCCTTCTATTTCA
TAGCCTCTTCTTCTTTGTTTCGCATCTGCTCTGAGGGTACATTGGCCTTGGCTCTCCCTTCAGAA
GGGTTACATAAGAAAAAGACTATTATACTTAGTCTATTGACTCGGGTACTTTGGGCTTTTTCCTC
GCCCTTGTGGCCTATATAAGCTCTGGTTGTTCCAGGTTCTCGGCACTATTTGTCCGTCCATCTGG
GCGATCTTGTAAGCTCCGTTCCCTCGATTTTCACTATGAACGTTCCCAGTTCGCCGCAAACTCCC
CCTCTTTTTCTTCATCTCGACCTTCCCCCCCTCTATCGCTGCCTA
Found at i:612411 original size:24 final size:24
Alignment explanation
Indices: 612384--612432 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
612374 TGAACTACTA
612384 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
612408 ACATTAGGGGTACTGGACTATCGG
1 ACATTAGGGGTACTGGACTATCGG
612432 A
1 A
612433 AAGGTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (24 bp):
ACATTAGGGGTACTGGACTATCGG
Left flanking sequence: Indices 611884 -- 612383
AGGATTCCGTTCACGAGGGGTGAGTTTACCGAAAGGAAGGAAGAGTCATAGGATGTGTAGTAGTA
GCATAAGAAAGCATGCCCAATCGCTATGGCGAGCTGGAATGAACGAACGGAATACTTGGAGTGAG
AACTAGAGTAGCTGTATAAGAGACGGGTCGGTGGGCAAGTGAGTACCTGCCCAGACATGTATCAA
AAACCAATTACAATCACGCCACCGGATGACCTAAAGATTGCGTGGTTACGCCTTAGGAACCGGAG
AGGCATATGAATCTCTTTCCTTCTTCTTTATAACCGAGAGATAGGATACCTATGAATGAAGGGTC
CAACCTTAGCGGCCCTTAGCGCCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTAT
CCCGGTTCAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGA
TTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTA
Right flanking sequence: Indices 612433 -- 612932
AAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCAC
CTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTA
CTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGG
ATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAA
GGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATAT
AGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAA
AGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATAGTCTAGTT
CAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTAT
Found at i:612698 original size:36 final size:36
Alignment explanation
Indices: 612651--612722 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
612641 GGAAGTATTG
612651 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
612687 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
1 GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
612723 TGTAGCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (36 bp):
GATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTA
Left flanking sequence: Indices 612151 -- 612650
TGAATCTCTTTCCTTCTTCTTTATAACCGAGAGATAGGATACCTATGAATGAAGGGTCCAACCTT
AGCGGCCCTTAGCGCCCTCTCCTTTCAGTCGAGTTACTACGTTCCTGCATCTCTCTATCCCGGTT
CAATAGAGTAATTGGTATTCCCATCTCCCGGTTCATGTTACCTATTCTCTGATCCGGATTCGTGT
ACTTCTTGCTTGTCTTTCTCTTTCAACTTGAACTACTAACATTAGGGGTACTGGACTATCGGACA
TTAGGGGTACTGGACTATCGGAAAGGTTAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGA
GTTAGTTCAGTTCTTTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTA
GTTAGAGTAATGTCATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCAT
CTCTACTATAGCTGTAAAAGGGATTCATGTCTTCCGGAAGTATTG
Right flanking sequence: Indices 612723 -- 613222
TGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGATCCACTTCAAGTAATACGCT
TTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCA
AAGGATTCAAGATATCCCATTCGGATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAG
TTCAAGTCTTTCTATTGGATTTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATG
AGACCTCGTAATGAGCTAATTGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTAT
GAGACTTTAGCATAGAACCAGTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAA
TAGAAAGAAACTTCACGGATTGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAG
TGGAAGTGGACTTCTATATATATAAAAGGATAACCATGTTCCTTA
Found at i:612851 original size:31 final size:31
Alignment explanation
Indices: 612813--612876 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
612803 GTCAATCCAT
*
612813 GGTAGAGCAAAGGATTCAAGATATGCCAGTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
*
612844 GGTAGAGCAAAGGATTCAAGATATCCCATTC
1 GGTAGAGCAAAGGATTCAAGATATCCCAGTC
612875 GG
1 GG
612877 ATAGTCTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (31 bp):
GGTAGAGCAAAGGATTCAAGATATCCCAGTC
Left flanking sequence: Indices 612313 -- 612812
TCATGTTACCTATTCTCTGATCCGGATTCGTGTACTTCTTGCTTGTCTTTCTCTTTCAACTTGAA
CTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGTTAAAA
GCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTACTGTC
TTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGCGATTA
AAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCATGTCT
TCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAAGCTTT
AGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATAGGAGA
TCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCAT
Right flanking sequence: Indices 612877 -- 613376
ATAGTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTT
TGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAATTGTA
ATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTAC
ACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGAC
TGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATA
AAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAG
TCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGC
TTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGA
Found at i:612910 original size:32 final size:32
Alignment explanation
Indices: 612873--612937 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
612863 GATATCCCAT
612873 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
612905 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
1 TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
612937 T
1 T
612938 TTTTTGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (32 bp):
TCGGATAGTCTAGTTCAAGTCTTTCTATTGGA
Left flanking sequence: Indices 612373 -- 612872
TTGAACTACTAACATTAGGGGTACTGGACTATCGGACATTAGGGGTACTGGACTATCGGAAAGGT
TAAAAGCTCTGATAACCTCTCCTTTCCTTTACAGTTGAGTTAGTTCAGTTCTTTCCTCACCTTTA
CTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTCATCCTTTACTAGC
GATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTGTAAAAGGGATTCA
TGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTAGATCAAGGTAA
GCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTGTTGAATATAGATA
GGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGGTAGAGCAAAGGAT
TCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCAT
Right flanking sequence: Indices 612938 -- 613437
TTTTTGATGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTCGTAATGAGCTAAT
TGTAATGAGCTAATCCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCA
GTACACCTACACTCATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGAT
TGACTGAAGGCAAGGAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATA
TATAAAAGGATAACCATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCA
ATAGTCCTACCTAAAGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCT
TTGCTTTCCTTACGACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGC
CTGAAGAAGAGCAAAAAGAAGAAGCAGGAGGAGAATTCTTTGCGC
Found at i:613009 original size:14 final size:14
Alignment explanation
Indices: 612990--613016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
612980 ATGAGACCTC
612990 GTAATGAGCTAATT
1 GTAATGAGCTAATT
613004 GTAATGAGCTAAT
1 GTAATGAGCTAAT
613017 CCCGTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (14 bp):
GTAATGAGCTAATT
Left flanking sequence: Indices 612490 -- 612989
TTCCTCACCTTTACTGTCTTGTTAGTTCCTTTACCCTTAAACAAAGACTTAGTTAGAGTAATGTC
ATCCTTTACTAGCGATTAAAAAGAAAGTAATTAAAGGCGTGGAACTTGCATCTCTACTATAGCTG
TAAAAGGGATTCATGTCTTCCGGAAGTATTGGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTC
TAGATCAAGGTAAGCTTTAGAGCTTTCAATGACTTCTATGTAGCCAATAGTGCCTCTTCAAGCTG
TTGAATATAGATAGGAGATCCACTTCAAGTAATACGCTTTCCTTCTAATGCCAGTCAATCCATGG
TAGAGCAAAGGATTCAAGATATGCCAGTCGGTAGAGCAAAGGATTCAAGATATCCCATTCGGATA
GTCTAGTTCAAGTCTTTCTATTGGATCGGATAGTCTAGTTCAAGTCTTTCTATTGGATTTTTTGA
TGTATATCTAAGGGGGATTGGGACTCTAAAAAGATATGAGACCTC
Right flanking sequence: Indices 613017 -- 613516
CCCGTATAACCTCCTAAAAAGAAAGAAGTATGAGACTTTAGCATAGAACCAGTACACCTACACTC
ATAAATCCTGTCTATTTCTTTTTTTAAATAATAGAAAGAAACTTCACGGATTGACTGAAGGCAAG
GAAGGATAAATCGGCAATCTAGACACTCTAGTGGAAGTGGACTTCTATATATATAAAAGGATAAC
CATGTTCCTTAGTAACTCAAAAAGAGAAGATCCATTCAAGGGCTTTATTCAATAGTCCTACCTAA
AGAAAGGCAGACGTAAGCGGGCTTGGCTTCTTGGATTTATTTGACTCTCCTTTGCTTTCCTTACG
ACGAGCACATCTACTTTTTATTATGAAGGTTGTGAGCTCATTCGATCTCGCCTGAAGAAGAGCAA
AAAGAAGAAGCAGGAGGAGAATTCTTTGCGCTTGAGCCCTTGACAAAAGATCTTAACCTTTGAGA
GCTGCACTGGGGCCCCACCTCTGAAGGCGCACCATCTTTGGTACC
Found at i:614423 original size:22 final size:22
Alignment explanation
Indices: 614398--614447 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
614388 CAATGTGAGA
614398 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
614420 AAAAGTATCATTGATATATGAT
1 AAAAGTATCATTGATATATGAT
614442 AAAAGT
1 AAAAGT
614448 GAAGTAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.14, T:0.34
Consensus pattern (22 bp):
AAAAGTATCATTGATATATGAT
Left flanking sequence: Indices 613898 -- 614397
TCTATGAAAGCCCTTGATCCAAGAAGGTAGTGGGCATGTTCACTCGGTCGAGAGAGACCAGAGGA
GTCTAGAGAGTCCGAGGCCTCGGTCTTATCCCTCTTTCTTACATTCTTGAACCTCCAATCCAATC
AATCAACTTGTCTACTTGCTTATCGGCATTATCTAAAAGAATTACGTTATGGTCTTGAACTCTCG
ATATATCATATGTAATGAATGCTCGAGGTAAGCTTGTCTTTTCGGAAGAGGTGGGTGGGAGTGGG
GCAGGCAAAGAAAGTAACAATCATACCCGATATTCAGAGCGCCGGAGATAGAAGCGGCGGCAGCC
ATAAAGTCAAGTGGAGAATTTCCATCCATTTGCTGTCTCCTTCGCTACCGGGGTCATAATTACGA
AATTTGCCAGGTTCAGTTCTGACTATAGCTGCAACCTATCTCATATTGGTGTTCAGTCTACCGCA
CCGTGGGTACAAGATCAAAATCATGCAAAGCATTCCAATGTGAGA
Right flanking sequence: Indices 614448 -- 614836
GAAGTAAACGGACCGGTCAAAGGGATGAGCCGGGGGGAAGGGAGACAAGGTAGGGCCCAACATTA
TTATAAAAGAAAGACATTATCTTTAATACTGAGGGCATTTTTGGCTAAATGAACAATGTTCCCAA
ATTTATATAAAAAGGAACAACAAGAACAGAAGCACATCAAAGACCAAGATGATGATGATCCATCT
CCTTACTAAAAACCCATCTAGGAAAAATCAAAATCGACTAAATAAAACAGTTCCAAGATCAAAAG
TTAGCACTTTGTAAGGATCAATTGATGACTCTTTATGTGCACAATTCGAGAAGAAGGAATCCAGA
GAAAGAGGAGAAGAGAAGCACCGCACATAAAATAGATAGAGAAGGGAATTCAAAGGACTTTTTA
Done.