Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_039757
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: 211002
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:16151 original size:35 final size:35
Alignment explanation
Indices: 16105--16183 Score: 142
Period size: 34 Copynumber: 2.3 Consensus size: 35
16095 ATAGAGAGTG
*
16105 ATAGGAAAAAAAAAGGATAGCACTACAAGTTCACC
1 ATAGGATAAAAAAAGGATAGCACTACAAGTTCACC
16140 ATAGGAT-AAAAAAGGATAGCACTACAAGTTCACC
1 ATAGGATAAAAAAAGGATAGCACTACAAGTTCACC
16174 ATAGGATAAA
1 ATAGGATAAA
16184 GTGGTGGGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 34 0.81
35 8 0.19
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (35 bp):
ATAGGATAAAAAAAGGATAGCACTACAAGTTCACC
Left flanking sequence: Indices 15605 -- 16104
GTTCTCCTTATGGACGAACTCCAACAGGCAGTAGCCCCATTTCTGCATGCTTCGGGCGGGGGAAT
GGAAGGGTTCAATCCACCACCGGCGCCTTCGGACAATTCTATGTTCATTTGTACAGACGAGCCAG
CCCAGGAGGTTGGCGAAGTCTCGCAAAGGGCTCCTCGAGAAAGGGTGCGGCAAGCCGCATTTGAT
GACTCTCGGGAGATGCGATTGGCGGAGAGACACTCGCAAGAGTGTGACAAACGCATCCAAGAAAT
AGTAGACCGCGCTAAGGCCCTATACGCAAACGGCGCCCTTGATATTAATATTAAAGAAGAAGCTG
ATATAGAAAGAGGGGTTCAGTCCTTCTTCGCTGATCTTTATAAGTTCGGCACCCATCAAGGTCGT
CAGGAGCATCTAAAAAGGGTTTTAGCAGCTATTGGAAATCAAAGGAGTACCCTTTGGAAAGAGAT
AAAAAAACTGATTGAGAGGTAGACTGGATCCGGTCATAGAGAGTG
Right flanking sequence: Indices 16184 -- 16683
GTGGTGGGATCGGATCTCATACCTTTTTGCAAGTACTGATTCATGGAACGCTACAAGTTGTCTGG
CTATCATGAAAGCGTTGGGATGATATGCACAGTATCTTTAGGGAACAACCTGACTGCAACCCTAA
GTTGCTCACGTGAACTTACTGTCCATACCTTTAGGTCTATCAATGCTTTCTTTTACTCAATTGTT
TTTGTACAACATTGAAATGCCTTTAGTAAGGGTAGTTGCAGTCTGCAATTCAGGGGATTCTTTGT
GCTGCTAGTAAAGGAAAAAGAATGTTTGATAAAAGTAAGAAATTCTGACACCCATCATTTGAGAG
TGAGTATTACACCAAGAATTGACAAGCTTTTTAGTAAACCTTGCTGATGTGGTGCTATTGATAGT
GCCTTCTTGATTTCTTAGAGCTACCTAGTAGATGGATGCACTTCCTACAAGCGCTGAATGTGCGA
TCTCAACTTTTTTGAGAAGGGACATGCTACCGTCGACCGACCACT
Found at i:17240 original size:13 final size:13
Alignment explanation
Indices: 17222--17274 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
17212 TTCTATCCGA
17222 CTAGTAGGGCATG
1 CTAGTAGGGCATG
17235 CTAGTAGGGCATG
1 CTAGTAGGGCATG
17248 CTAGTAGGGCATG
1 CTAGTAGGGCATG
*
17261 CTAGTAAGGCATG
1 CTAGTAGGGCATG
17274 C
1 C
17275 AGTTCTCCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.23
Consensus pattern (13 bp):
CTAGTAGGGCATG
Left flanking sequence: Indices 16722 -- 17221
TGCCTGGAGGCACCCAAACGACAAGCCGGAGGAGAGAGTGCAGCTCAGGGGAGTAGCACGCTCGG
AGTTTCTTGGTTAAGCAAAAACAGGGTCAACTATAGCATCCCAACAATCTATCTGTCTTAAGCTG
GGTTCGGGTAGGTCCATAGCCACCTTGCGATCTCTAAACCAAGCAGGGCTGGGGTAAGCAGGAAG
GCTCTACCTCTTCGATCTAAAAATATCTGAGCAAAGCAGGAAGGAACAGTCCATGTGTGATTGGC
AATGTTTTTTTTTGTGGCTTTCTAGCAAATAGAATTTTCATGCTAAGGTAGCTAGAGATGCCTGT
ATTTGAATAGAAAAATAGATCTCATAAGTATAATAAGTCAGGCTATTCGGTTGATATATTATCCT
ATAACCCCATTACAGAAGGAGCATATCCTCAATTGCTTCTATTCACTTTAAAGAGTGTCTCTCCT
GTCCTAAGAGATATGAACAAGGTAGGTGGGTAGGCTTCTATCCGA
Right flanking sequence: Indices 17275 -- 17774
AGTTCTCCCCTTTGCCTTTGCCTTTGCCTTAGCCTTAGCCTTAGCCTTAGCCTTAGCCTTAGGGC
AGTCACTAAAGAAATGAAGAGCTTATAAAGAAAAGAGGACGACTGAAGACAGGCCAAAAGAAATC
GATGAATAGTGTCAAACCCAATCCCAAGCAACGAAGAAGCGCTAGCAGATGAGATTGGACTAGGA
AAGACAGGGAAAGAAAGTCTTGGGGGTCAGACTGAGAACTAGCAGCTCTCTAAGCTGTCTCACTC
TCGGAAAGCAGGTTCTGTTCAATAGAGTCAGAAAAGAAGTCAATCTCAATGAGTACTTGTGAAGG
AGTCAAGAGTTGAAAGAAAAAATCTCCTCGAAAGCCCTATAGGCGGGGACAGGATTCGAACCTGC
AATCTTCAGGTGATGAGCCTGATGAGTTAACCATTCCTCAACCCCGGCACTTTTTCAGTTGAGCT
TTTTTCATAGCAACTTCACTGTTACCCCCTCTTCTCAAAGCCCGA
Found at i:17294 original size:6 final size:6
Alignment explanation
Indices: 17283--17336 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
17273 GCAGTTCTCC
* * *
17283 CCTTTG CCTTTG CCTTTG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG
1 CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG CCTTAG
17331 CCTTAG
1 CCTTAG
17337 GGCAGTCACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.11, C:0.33, G:0.17, T:0.39
Consensus pattern (6 bp):
CCTTAG
Left flanking sequence: Indices 16783 -- 17282
TCGGAGTTTCTTGGTTAAGCAAAAACAGGGTCAACTATAGCATCCCAACAATCTATCTGTCTTAA
GCTGGGTTCGGGTAGGTCCATAGCCACCTTGCGATCTCTAAACCAAGCAGGGCTGGGGTAAGCAG
GAAGGCTCTACCTCTTCGATCTAAAAATATCTGAGCAAAGCAGGAAGGAACAGTCCATGTGTGAT
TGGCAATGTTTTTTTTTGTGGCTTTCTAGCAAATAGAATTTTCATGCTAAGGTAGCTAGAGATGC
CTGTATTTGAATAGAAAAATAGATCTCATAAGTATAATAAGTCAGGCTATTCGGTTGATATATTA
TCCTATAACCCCATTACAGAAGGAGCATATCCTCAATTGCTTCTATTCACTTTAAAGAGTGTCTC
TCCTGTCCTAAGAGATATGAACAAGGTAGGTGGGTAGGCTTCTATCCGACTAGTAGGGCATGCTA
GTAGGGCATGCTAGTAGGGCATGCTAGTAAGGCATGCAGTTCTCC
Right flanking sequence: Indices 17337 -- 17836
GGCAGTCACTAAAGAAATGAAGAGCTTATAAAGAAAAGAGGACGACTGAAGACAGGCCAAAAGAA
ATCGATGAATAGTGTCAAACCCAATCCCAAGCAACGAAGAAGCGCTAGCAGATGAGATTGGACTA
GGAAAGACAGGGAAAGAAAGTCTTGGGGGTCAGACTGAGAACTAGCAGCTCTCTAAGCTGTCTCA
CTCTCGGAAAGCAGGTTCTGTTCAATAGAGTCAGAAAAGAAGTCAATCTCAATGAGTACTTGTGA
AGGAGTCAAGAGTTGAAAGAAAAAATCTCCTCGAAAGCCCTATAGGCGGGGACAGGATTCGAACC
TGCAATCTTCAGGTGATGAGCCTGATGAGTTAACCATTCCTCAACCCCGGCACTTTTTCAGTTGA
GCTTTTTTCATAGCAACTTCACTGTTACCCCCTCTTCTCAAAGCCCGAAGAGAGTCAATAGATCA
CAGAACTAAATTGATATGAATCAACTGAAGCTTATCAAAGCTGGT
Found at i:19347 original size:33 final size:27
Alignment explanation
Indices: 19281--19362 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
19271 TTTTCTCAAG
*
19281 CAAGTGCCAGTGTATCAGAAGCAAGCA
1 CAAGTGCCAGTGCATCAGAAGCAAGCA
19308 CAAGTGCCAGTGCATCAGAAGCAAGCA
1 CAAGTGCCAGTGCATCAGAAGCAAGCA
* *
19335 CAAGTGCCAGTGCATCTGAAGCTAGCA
1 CAAGTGCCAGTGCATCAGAAGCAAGCA
19362 C
1 C
19363 TAGTACATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (27 bp):
CAAGTGCCAGTGCATCAGAAGCAAGCA
Left flanking sequence: Indices 18781 -- 19280
TTTCCGTATCTTTCCCAATCATCTCAATTTTGTCGAGACTAAGTTTTTAGTTGCTCCAGCTATCA
TTTCGAATATGAAAAAGATTTGGGAATCACTCCGTCTGTATCAATTTTGTATCCCTGTGTCTTCA
CAAGGTGTTGAATTATATACAAGGGCTGGCTGTGGTTTAAAAGGATTAGTTTCTCAACGAAAAAA
ATACTTACTAGAGACTGTAACCTTTCATAAAGGAACGTATGCACGTATTTTGGTCTTAGTCAGTT
TGGGTTTTGGATGTACTGTATGGTACGTGTTTGCTCCGGGTATTGCTGATATAGCCCCTCCTGCT
GAAGCATTCCCAAGACTGATTGACTACAGATTATTCTACAGCGAATCATTCGTTCATCCGAAGTT
CAATAAACTCCATTTTCTCGAAACAACGTATATGTATGAAGTAATTTTTAGTGCATTTGAAAATA
CATATCCTTTCAATCTGATGGAGATTCCTAATGATTTTTCTCAAG
Right flanking sequence: Indices 19363 -- 19862
TAGTACATCTGACAGACCACGCCCCTCTCTCTCTCAGATTAAGAAAGCTGCTAATCAAAAATGTG
CAGTAAGTTTGGGATTAATGATTTCAATATTTATGGCTACCAATGTGATTACACGTGAGACTCCA
AAGCTAATAGAAATGACATTATGATGAAAAAGATGATGAAAAAGATGGTATTAGTTCGACAAGAT
ATAATTTTAGGTTCTATTCATAGGGGTTATACAACAAAAATCGATCTATCAATAGGTCTTCTAAT
AGAGAATATTAGTGAGGTTTATAACCAGCTATATACTTATGAAGAAACACCACCTATGTATGAGG
CAGTAACTCCATTAGAGTTTCACTCAATGCAGCAGCTTGTCCTATCAAGTTGCTATCATATAGCT
CCCTATAATATTCAATATCTAAATAAAGATGGGGTTACTAACTTTCTAAGAGAGAGTGAACTTCT
TCTTATTGGTGTTGCTAATGAACCTTATGGTGATAAGAAATCAAA
Found at i:19530 original size:12 final size:12
Alignment explanation
Indices: 19513--19539 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19503 AAATGACATT
19513 ATGATGAAAAAG
1 ATGATGAAAAAG
19525 ATGATGAAAAAG
1 ATGATGAAAAAG
19537 ATG
1 ATG
19540 GTATTAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.19
Consensus pattern (12 bp):
ATGATGAAAAAG
Left flanking sequence: Indices 19013 -- 19512
TATGCACGTATTTTGGTCTTAGTCAGTTTGGGTTTTGGATGTACTGTATGGTACGTGTTTGCTCC
GGGTATTGCTGATATAGCCCCTCCTGCTGAAGCATTCCCAAGACTGATTGACTACAGATTATTCT
ACAGCGAATCATTCGTTCATCCGAAGTTCAATAAACTCCATTTTCTCGAAACAACGTATATGTAT
GAAGTAATTTTTAGTGCATTTGAAAATACATATCCTTTCAATCTGATGGAGATTCCTAATGATTT
TTCTCAAGCAAGTGCCAGTGTATCAGAAGCAAGCACAAGTGCCAGTGCATCAGAAGCAAGCACAA
GTGCCAGTGCATCTGAAGCTAGCACTAGTACATCTGACAGACCACGCCCCTCTCTCTCTCAGATT
AAGAAAGCTGCTAATCAAAAATGTGCAGTAAGTTTGGGATTAATGATTTCAATATTTATGGCTAC
CAATGTGATTACACGTGAGACTCCAAAGCTAATAGAAATGACATT
Right flanking sequence: Indices 19540 -- 20039
GTATTAGTTCGACAAGATATAATTTTAGGTTCTATTCATAGGGGTTATACAACAAAAATCGATCT
ATCAATAGGTCTTCTAATAGAGAATATTAGTGAGGTTTATAACCAGCTATATACTTATGAAGAAA
CACCACCTATGTATGAGGCAGTAACTCCATTAGAGTTTCACTCAATGCAGCAGCTTGTCCTATCA
AGTTGCTATCATATAGCTCCCTATAATATTCAATATCTAAATAAAGATGGGGTTACTAACTTTCT
AAGAGAGAGTGAACTTCTTCTTATTGGTGTTGCTAATGAACCTTATGGTGATAAGAAATCAAATG
TGTTCATGGTTTCTTCAGCTGCTAGTAAGGACGAGATAGTTCTTCTGGGGTTAGCCCGAATGTTA
TTCCATTTCACATATAAGAACAATCCCTTGTATTGCTCCCATACTGCTGCACTAGAACAACTTTA
TTTAGATAGGATATTATGTATAGCTAAGGCAAATAAGATATATCG
Found at i:44899 original size:16 final size:16
Alignment explanation
Indices: 44874--44913 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
44864 AAAGTGGAAA
*
44874 CTTTCCGCGGGATCCT
1 CTTTCTGCGGGATCCT
*
44890 CTTTCTGCGGGATGCT
1 CTTTCTGCGGGATCCT
44906 CTTT-TGCG
1 CTTTCTGCG
44914 CTACGATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.05, C:0.30, G:0.28, T:0.38
Consensus pattern (16 bp):
CTTTCTGCGGGATCCT
Left flanking sequence: Indices 44374 -- 44873
ACTACTAACCAAGCCAAGCCCAGTTCCCGCCGATAGGCGCAGGTAGCTTGCTTCCAAGCCTTGCC
TTATATGATAGTTGTGGCCATGGCCCGAAGGAGCCTTAAGCACTTGTACAATGCTTCAAGTCAAG
GCTCCCTCCCACTCGTTGCCCAGAGCCTTGACTTTCCATGTTTTTAGTCAAATGCGCGCTAGCGC
GCTACAACTAGCACTTTTTTCTCTGATAGGCTCGCTTCTTCAAGCTCCGACCCTTATTGAAAAAA
AAAGCGCTAACGCGCCTTTACTTTTTTTATTATATAATACCTTCTTTCTACTTCTTTCTCAAAGT
CAAGCAAGCAACCTTTCGCCTTTCTTTTTTTGAGGAGATATAAAAAGAAGCAACCTTACTAAGCA
AACGTAGGCTTGGGCTCGAAAGCAAGAAGCAATGGCTTTCGCGCTTGTTGGAGCTATTAAGCATC
TTAGACTATTCCATTCCATTTTGAAGCTGGACAGAAAAGTGGAAA
Right flanking sequence: Indices 44914 -- 45413
CTACGATGGACTTTTTTACTCTTTAAGTGCGCCACTCCTTCTTTTGTCCTGTATCTGTAGCTGCT
TTTCCCGCACTCTCTTTTATCCCGCCGAAGGTCCCCCTTACGTAATAGGGGTTCAGTTAAGGGGG
GTGCACACCGTGGTCAAATCTGCATGAAAAACCGCGGGGAATCATTAGTATTAAGTATTATGCTC
CCGCACCCCCTATCTCTTAAAGGCTCTGCGCTCCCGCATTCTGATTGATCCTGTGCAATGTTGTA
ATCCTGCTGTTCCTTTATCCCCCGCTCCGCAGCTGCTGGAGACTTAGTCATATTTTGAGCCTTTT
GCGGTACTGATTGATGTTATGGGGGATTACTTGGGTTGGCCGGACTGTTTGTTTGCGAAGGCCGA
AGGACTTAAAAATGAGGTTTTTGGTGTTATTGGACAGAATTGGTGCCGTTTTCCCACGCCTCATT
TTCCATAATATGATTATGAGCTGCAGAACGCTTGAAGCTGGAATT
Found at i:53453 original size:39 final size:39
Alignment explanation
Indices: 53399--53477 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
53389 CAATTTTCTA
*
53399 TTCACTCATGATCTGGCCTAGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCTAGTCGACCCAATCATGATAT
*
53438 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTAGTCGACCCAATCATGATAT
53477 T
1 T
53478 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTAGTCGACCCAATCATGATAT
Left flanking sequence: Indices 52899 -- 53398
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCGACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGGATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGGGCGACCAGACTTAACATAAATGTAGCCACTGGAGCC
ATTCTAAAAAGGGAGAAATTTGCACTACTTGGTGAAATAGGTTCTTTTATAATCAATTTAAAACC
ATCTGCTAGAGGTTGTAACAATCCAAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCAGCTGGAACTGCTATGTACATTTTCAATTTTCTA
Right flanking sequence: Indices 53478 -- 53977
GAAGGATGGGACCTTTTCTCGAAAAAGAAAGGAGATTCTATTTCTTCTTCCAAGCCCTTCTTAGA
AGATGCAGCCAGTAAGCTCTCACTTATCTTCTTCATTTACGAAAATAGATAGATAAGAAAAGATG
TCAGCCTCTCTTTTCTCGCGGAACACTCACTTAATGGGGCTATTTGAATTGGAAGACAACGACAA
AAGTGAAAGAAGGAGGTCTATTTCGTTGATCGATGTCAATGGACCAAGAAATCTGTCCTTTGCTG
AAAGCTCATAGGGTAAGAAGAATTGAAAGGTAGGTTTTGTCAGTGATTAAATGGAAAGGTCAGCT
GGAGCGAAAACCAATCAAACTCAGAAAGATAGGTAGATCGAGCGCGCTGAGGGAAATTCGAGAGA
TCCGGAGACATGGCCACTACTGGCCTACGGTCCTTGCAGATTACATAGCACATGCTAAGAGCTGC
GATGCCTGCCAGAGGTATGCAGGAATCCAGCACAAGCCGGCTTCC
Found at i:61582 original size:37 final size:38
Alignment explanation
Indices: 61511--61585 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
61501 CTGTGCTGAG
*
61511 AGAGGCTATTGAACGGGCTACCCTTAATGCTTCTAAGT
1 AGAGGCTATTGAACGGGATACCCTTAATGCTTCTAAGT
*
61549 AGAGGCTATTGAACGGTATA-CCTTAATGCTTCTAAGT
1 AGAGGCTATTGAACGGGATACCCTTAATGCTTCTAAGT
61586 CCTGTATACG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (38 bp):
AGAGGCTATTGAACGGGATACCCTTAATGCTTCTAAGT
Left flanking sequence: Indices 61011 -- 61510
AGAAGGGAAAGCGAAAGCTATAGCTAAAGAGAGAAGGGCAAAGCAGAAGGGAAAGACTGAAGGGA
AAGCTATCCTTCGGTCAAAGCAATAGAGAAGGGAAAGCGATCCTTCCGGAAAGACTGCAGTCCCA
GAGCCTAAAGCACGAGAGAGATGGGAAAGACTGCTGTCCCTGAGCCTAAAGCCATAGCACGAGAG
AGAAGGAGACGGCAGAAAGCAATCCTTCCGAGTTGAACTATGTCAAATTGGAGCCCTCTTTAGCT
ATGAGATGATTAGACAGCTAGGCTCGTATAACTAGCCCCTTAGACAGAAGATTGAGGATGAGTCC
AATTAAGCTTGACCCTACTTCCTTCATCCACTCTTTGAACATCACTTTCACTAGTAAGTGAGGAG
AGTCCTTACATTCCTTCTACCCAGCTATCCCTGCTCTATAGAAGAAACACTGCCTAGCTTAGAAT
AGAGGGTACCTACTATGTGATCGAGTCAAGTTGTCCTGTGCTGAG
Right flanking sequence: Indices 61586 -- 62085
CCTGTATACGGAGAGTGCGGGAAGATTGCTTGCCATTGAGTTAGCTGCTACCGGTCAGTGATCTC
AGTTCAGCCATAAAGGTGGTGCTCTCTAGTATATAACTGGTTCTGTCTAGTCTCTTACACAAGAA
GGCAGTGATCTCAGTGATAGGCTAGTGCTCAAGAAGCAAGATGGGAGTGCTTCAGACTGTTAATA
TGAGAGGGGAGATATAGCTCGACTGTTAAGGAAAGAAGAAAGAAAAGCTCTCTAGCCCAAGATTC
ACTGCGAAGGAACAAGCTAAAGGCTTCCGAAAGATAGTAGAGCTAGGCAAGGTCTTCTGTGAGTG
AACGAGATGAGGCAGTGTTGTTCCGGTGCTTTCTTATGAGGATCGAGGCTGTGTTGTACCACCTG
GGTAGGTGCTTTCTTCGCGAGTATGTCTGTTGATTGCGCAGTGTCCTATCTGCTCAAGTCAAGCT
TTCCTGCAGGCGAGACAGATGCCGATTCTACCGCAGGCGAGACAG
Found at i:62084 original size:27 final size:27
Alignment explanation
Indices: 62046--62099 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
62036 AAGCTTTCCT
62046 GCAGGCGAGACAGATGCCGATTCTACC
1 GCAGGCGAGACAGATGCCGATTCTACC
62073 GCAGGCGAGACAGATGCCGATTCTACC
1 GCAGGCGAGACAGATGCCGATTCTACC
62100 TCTGTCAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (27 bp):
GCAGGCGAGACAGATGCCGATTCTACC
Left flanking sequence: Indices 61546 -- 62045
AGTAGAGGCTATTGAACGGTATACCTTAATGCTTCTAAGTCCTGTATACGGAGAGTGCGGGAAGA
TTGCTTGCCATTGAGTTAGCTGCTACCGGTCAGTGATCTCAGTTCAGCCATAAAGGTGGTGCTCT
CTAGTATATAACTGGTTCTGTCTAGTCTCTTACACAAGAAGGCAGTGATCTCAGTGATAGGCTAG
TGCTCAAGAAGCAAGATGGGAGTGCTTCAGACTGTTAATATGAGAGGGGAGATATAGCTCGACTG
TTAAGGAAAGAAGAAAGAAAAGCTCTCTAGCCCAAGATTCACTGCGAAGGAACAAGCTAAAGGCT
TCCGAAAGATAGTAGAGCTAGGCAAGGTCTTCTGTGAGTGAACGAGATGAGGCAGTGTTGTTCCG
GTGCTTTCTTATGAGGATCGAGGCTGTGTTGTACCACCTGGGTAGGTGCTTTCTTCGCGAGTATG
TCTGTTGATTGCGCAGTGTCCTATCTGCTCAAGTCAAGCTTTCCT
Right flanking sequence: Indices 62100 -- 62599
TCTGTCAACTACCTCTTGATTTTCGATTTTCTCACTCTTTTTTCCATTAACGATTGCCACGTGAA
AGCTCTAAGTCAAGAAGTCAAGCCAGCAAGAAAGTTAGAAGGTACGGTTTCATCATCCTAAGCTA
CCTCACCTCACTAAGTCCAGTCTATGCCCCCGGATAGAGACAGGGTTAATGCTTTGGTCATACTA
GATGACGAGGCTTACCGAAATACCTTTGCCGTAACTCAGAGAAGGCCGCTCAAGCAGAATCCGAA
TACGACTCTCGCTAAACAAGAGCTCTTTACTGCTAAGCTGATCACAACTTCAACAACAGCAAGAA
GACGACTATACTAGCCCGCTGAAAGCTTTGAACATTCTCCTTTCTCGGGTTCCTAGCCGGTTCTA
GGGTTCGAGAGAGAAATTCCTACTATAAAAGGAAGAAGGTAATCCAATTAGTAGAATGCTGCTTT
CTATCGGTTGTTCACATTCAAGCATGAGTTAGTTCAGAGTCGGCA
Found at i:65306 original size:20 final size:20
Alignment explanation
Indices: 65270--65307 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65260 CAACATTACA
*
65270 AAGTTAACTAACAACATATT
1 AAGTTAACTAAAAACATATT
65290 AAGTTAAC-AAAAGACATA
1 AAGTTAACTAAAA-ACATA
65308 GAACAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (20 bp):
AAGTTAACTAAAAACATATT
Left flanking sequence: Indices 64770 -- 65269
CATGGAAGATGGCCGTCATAGCCCTCTGGTAGGTTGCTCCGGCATTCTTTAGGCCGAGCCAAATG
GCATGACCTTTGCACAGAAGGTTTCCCGCCCCGTGATGAAGGAAGTCTTCTTTTGGTCTTTCTCG
GCCAACCGTCTTTGGTTGTATCCTGATAAACCGTCCATAAATGACAGCGTTTTGTACCCCGACAT
CTAAATTTGGGAGTGGGAAATCGTCCTTGGGACAGGCTTTATTTAGTTTAGCTTTCTAAAAGAAA
AGTCCTTCCCATCCTTTTTCGGTACGGGGACGGTTAGAGATCCAATCAGAATAATCCAAGGTCCT
AATTCAGCGGGCCGCTTTTTCGTTTTTTTTTTTTCATGAGTTTGTTGACGTAAGTTACTAGGGAG
AGGGTAAATCGTTTCCTTCTTTCGCTATTAGTTGATCTAAAGGCTTTTATGGTTATAGATTGCAC
TAGACTAGAAAGGACAACAAACACACAACTCAACACAACATTACA
Right flanking sequence: Indices 65308 -- 65807
GAACAACATTAAAGATAACAATGAAAAGTGCTGTGAACAGAAAATTCTGCCAAACACAAAAAGAC
ACTTAGCATAGGAGTCTATCTCCAGTAAGCATAGGAGTAGATCTCCACCAAACAAAGAAAGATAA
AGCCATGCATTAAAACACAATACTTTGCGTTTACAGACACTTATTTCAATCTTCTAGAAAGAGTC
GGCGGACTCTTCTATTCTAGTCTCCCCGGTGACCGCGGCGGGTGACAGCACGCACAATGAGGTCT
TCCTGTTCCTCCCGCAGCATTATCAGTCTACTCTCGAGGACCCTTGTTCTCGGGTCCGTCGCACG
GATGCGGTTTTCCACGGCGGCAGGGTTCGCCGGGAACCGGCGTCTCCAAAAAAAGTCTGTTAAGA
TTCTCCGGCGTTGGCGCAGTTCGTTTTCTACGTGCTGTATTTCGTTTACAACTTGAGCGAGCCTT
ACTGCATCCGCAATAGTAGCCATACGTGCTAGTACTCAATTTCTT
Found at i:92787 original size:23 final size:23
Alignment explanation
Indices: 92757--92816 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 23
92747 TTCCTTTCTG
92757 CCGTTCCTAGGGACCACCCACTC
1 CCGTTCCTAGGGACCACCCACTC
92780 CCGTTCCTTGGTTTAGGGACCACCCACTC
1 CCGTTCC------TAGGGACCACCCACTC
92809 CCGTTCCT
1 CCGTTCCT
92817 TGGTTGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
23 8 0.26
29 23 0.74
ACGTcount: A:0.13, C:0.43, G:0.18, T:0.25
Consensus pattern (23 bp):
CCGTTCCTAGGGACCACCCACTC
Left flanking sequence: Indices 92257 -- 92756
TAGAGGAAGCTGATCTGCCGTATGCACTTCCGACTGACACAATCGACAGCTTGAGGAATAAATGT
GCTTTAATACTTTCCGAGTTTTGCAAGAATAATAATCGTGAACATGAGACCTTCGTCGACATCAT
ACAAGAACTGACCTTAAAAAACAAGATAAGCGAAGGCGATTCACTTTCGCGTGAGGACTTTATTC
ACATTTTACGGACTTATTACGGCTTACAGAATTCGGAGATAGTGGGGATAGATGGGCTAGGAAAT
ATGAAGAGCTAACGGGATGCTTACCGACTGAACGAACTTCGGCAAAAGGAAATGAAACGGGCGGG
CGAAATGACGTGAGAGAAAGAACCTCTTAGTGGAGTCCAGTCCCTGGGCGGCTCTCGGTTCATGG
CATGTTAAAACGACTCTATCGGCTTATAGTCATTCCTGGCACTCGGCGCATGTCTTTGATCAACA
CCGGTTCCGTCACTCGTATCTGGTTGAACCAGTACTTCCTTTCTG
Right flanking sequence: Indices 92817 -- 93316
TGGTTGTTGGTGTATTGGCTCTTTGGTTTGGTTCCCGGTCAAAGCCGTGAAAGCAAGATAGGGTG
AACACATATGTATCGTAATATGGGTATGAGTATAGTATATGTACAAACAGGTAAGTGAACTACTC
CTTCGACTGGTCTGCCCGCCGTTTGCTTTGAGGGCCTACATCGACTAGGCCTCCCGCTGACTGAG
GGAAGCGATCTGTCTTAAACAAGAAGATTTTCCGGGTGAACAATGAGATGGCATGTGAATGAGTG
ATATGGGGAGAAGGAATCAATTCTTGTACGTATGATATGGGGTCGGTACGATACTCATATGGTGA
ACAGTCAAAGCGAGGGATGGGGTCTAGTTAAATACGATATGGGGAGATATGGGATACAGCTAATG
TCGATAAGGAAGGGAGGGAAGGAGCTCTTGCCTTCAACTCAGAGCAGAACGTTCCTTCCGCAACG
CAAGGCCTATTTCTTTCGTAGCAGCCAAGGATGAGTTCGATCCAT
Found at i:92806 original size:29 final size:29
Alignment explanation
Indices: 92764--92821 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92754 CTGCCGTTCC
92764 TAGGGACCACCCACTCCCGTTCCTTGGTT
1 TAGGGACCACCCACTCCCGTTCCTTGGTT
92793 TAGGGACCACCCACTCCCGTTCCTTGGTT
1 TAGGGACCACCCACTCCCGTTCCTTGGTT
92822 GTTGGTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.38, G:0.21, T:0.28
Consensus pattern (29 bp):
TAGGGACCACCCACTCCCGTTCCTTGGTT
Left flanking sequence: Indices 92264 -- 92763
AGCTGATCTGCCGTATGCACTTCCGACTGACACAATCGACAGCTTGAGGAATAAATGTGCTTTAA
TACTTTCCGAGTTTTGCAAGAATAATAATCGTGAACATGAGACCTTCGTCGACATCATACAAGAA
CTGACCTTAAAAAACAAGATAAGCGAAGGCGATTCACTTTCGCGTGAGGACTTTATTCACATTTT
ACGGACTTATTACGGCTTACAGAATTCGGAGATAGTGGGGATAGATGGGCTAGGAAATATGAAGA
GCTAACGGGATGCTTACCGACTGAACGAACTTCGGCAAAAGGAAATGAAACGGGCGGGCGAAATG
ACGTGAGAGAAAGAACCTCTTAGTGGAGTCCAGTCCCTGGGCGGCTCTCGGTTCATGGCATGTTA
AAACGACTCTATCGGCTTATAGTCATTCCTGGCACTCGGCGCATGTCTTTGATCAACACCGGTTC
CGTCACTCGTATCTGGTTGAACCAGTACTTCCTTTCTGCCGTTCC
Right flanking sequence: Indices 92822 -- 93321
GTTGGTGTATTGGCTCTTTGGTTTGGTTCCCGGTCAAAGCCGTGAAAGCAAGATAGGGTGAACAC
ATATGTATCGTAATATGGGTATGAGTATAGTATATGTACAAACAGGTAAGTGAACTACTCCTTCG
ACTGGTCTGCCCGCCGTTTGCTTTGAGGGCCTACATCGACTAGGCCTCCCGCTGACTGAGGGAAG
CGATCTGTCTTAAACAAGAAGATTTTCCGGGTGAACAATGAGATGGCATGTGAATGAGTGATATG
GGGAGAAGGAATCAATTCTTGTACGTATGATATGGGGTCGGTACGATACTCATATGGTGAACAGT
CAAAGCGAGGGATGGGGTCTAGTTAAATACGATATGGGGAGATATGGGATACAGCTAATGTCGAT
AAGGAAGGGAGGGAAGGAGCTCTTGCCTTCAACTCAGAGCAGAACGTTCCTTCCGCAACGCAAGG
CCTATTTCTTTCGTAGCAGCCAAGGATGAGTTCGATCCATTAGGT
Found at i:97454 original size:22 final size:22
Alignment explanation
Indices: 97428--97471 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
97418 GATAACTTAT
97428 TTAGGAAGGAGCCATCGGAATA
1 TTAGGAAGGAGCCATCGGAATA
97450 TTAGGAAGGAGCCATCGGAATA
1 TTAGGAAGGAGCCATCGGAATA
97472 GGCTTTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (22 bp):
TTAGGAAGGAGCCATCGGAATA
Left flanking sequence: Indices 96928 -- 97427
CTTCTCTTTCTGTGCGGCTTTCTTTATAGGGATCCTGCCGGCATGGTACTCCGTTTCCAGCAAGT
TCGTGAAGGTCCAGCAATTTTCAAGGGGATGTTGTACGTACCGATTTGACAGTACTTAGGGTCCT
CAGTACGACTTCGTTTGGCCTGTGTTCCAAATTCAATGCTCAGGCAGCTCAAAAGCCTTATTCTT
CAACAGGAGCTGGTCTAGTACTTCGGGGCAGTAACTCAAAGTGGTACCAGGTCAGTCCCTAACTA
TCTGCTTCCACTAAATACGCGGTAACGCTAACTCATGTGCTGAACACAGGGTCAGTCACGGACCT
CTTAGGTTTTTTCAGAAAGAACAAAAAAATTCTCGTTAAGGTCCCATAGATAGAACCTGATACGA
AGTACTGAACATAAGACCTATGTAAGGGAGTCAGTCCTACTCATAAAGGTGAAGGACCAAGCACT
AGATCGTTGAAAACAAAAAGAAAGACTGACTTTTAGATAACTTAT
Right flanking sequence: Indices 97472 -- 97971
GGCTTTCAAGGCAGCTGCCAAGTCAGCCAGTAAGTAAGCAGGTAATAGTCAGCCAGCAAGCTGGG
CCGTTCTTGCCAGTTCGAGTACGAGACTTCGGTGTAGTAGTACTATAACGGTTTTGACACATACT
AAGGACTCCTTTTGTAAAGCAACTTATTGTGCTTTTATTCCAGCCAACGAAGCTCCGTCTAATCT
CTAATAGGGGCTCGGTTCGGTTCACCCATCATACCTACTAAGTAGAAGGCAGGCGAACTCGGACC
AGTGCAACAAAGTTTAGACTCTCGCGATTGGACTCTATAACAGAAGAGGTTGTGCAAAAAAGAAA
GGGAAAAGAAGCTTTGCAAAAGCTAAGGCCGAAGCTCTTTGGGCGATATTATAGCATAGCGCATT
TCCTCATGATTAGGGTGATGTGGTTGTTCCATCGGTTTTCTTTATGGAGGGATCTATTATTCAAG
ATATTCTTGAAAGGCGGATTGACAAGTGCGACGAGGAGATGGAGA
Found at i:124510 original size:21 final size:21
Alignment explanation
Indices: 124484--124525 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
124474 ACCTTATTCT
124484 CAAACCTGGTGGCTCGGTTGA
1 CAAACCTGGTGGCTCGGTTGA
124505 CAAACCTGGTGGCTCGGTTGA
1 CAAACCTGGTGGCTCGGTTGA
124526 TTGGAACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (21 bp):
CAAACCTGGTGGCTCGGTTGA
Left flanking sequence: Indices 123984 -- 124483
TAATGGGGATCACATTAGTAGGAATATAGGCCAGTCTCCAGCTTCTATCCTTTTCTTTTCCGCTG
GCATCTCGCATTCACGCCCCCGTTTGACTGCTGCTGTTAGAACACCACAATATTCGTCCTTTTGG
GCTTAATGCTCTCAATGGTGAATTGATCATTCGATATCCTTCCTCTTCTTATGAGAAGACAGAAT
GGAATAAAAGTAATGAAACCTGCGATGGCTACTGAATAACCTCCTTTTACTTTATCAATAAAAAT
TTGACCCGTTCGCCAAATCTTGTTCAGTTCCATCCAAGCTCGGTTTTGTGTGAATCTTCGTGGAA
GAAGAAGAAGCGGTTCACCAGCCACTACAGGATCCCACCAAATCATTAAACCTGGCGGCAGCTCG
CTCTTTGATCAGTGATTCACCGGTCACTAGATCCATGAAGAATCTAAAAAAAATCTGCTTTTTGA
TCAGTGATTCGCTGGCCACTAGATCCAGGGATCCCACCTTATTCT
Right flanking sequence: Indices 124526 -- 125025
TTGGAACTCCTTTAGGCTCATCCTGCATACTCATTCTGGCGGTCGCAAGTCCTGCATCCACCAAG
AACATTTCTTCCTTTAAGCGTAAAACTTCAGATTTTAAGGCCTTTCCACTGCATCAAAAAAAACT
TGAATTAGATCTACGAAATGATCGACTCAAATATATGGTCATCATAAGCTATTTCTTTTCCTCCT
CTTCCAGTTCTATTAATAAAAAGGCCATCATGGACCAAGATCCAAAGGGATCAATCTTTTACACC
GATGTATCGTACTCTCTCGACCAGGTCATCATAAGAAAAGACTGAAAAATCTTTCCGAAGTGTTA
TAAAGAGGGAAGGCGCGCTACAACTAACATAACAGCCTCTTCCTTGCCCCCCTAAGAATCCAAGG
GTGACCTTTGGATGTTGTCGTGACGCTTTGGTTACGAAGGTTATCGGGGTCTAGGTTTATGGATG
GATGAAGTAATCGAAAGTCCCTCCAACTCAATCAATATCAACAAC
Found at i:140217 original size:20 final size:20
Alignment explanation
Indices: 140192--140232 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
140182 TGTAAGTGTT
140192 AGAAAGA-GTAAGTTAAGTAA
1 AGAAAGATGTAAGTTAA-TAA
*
140212 AGAAAGATGTCAGTTAATAA
1 AGAAAGATGTAAGTTAATAA
140232 A
1 A
140233 TCAGGGGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (20 bp):
AGAAAGATGTAAGTTAATAA
Left flanking sequence: Indices 139692 -- 140191
AAGTGATCCAAGCTGGAAGTGAGCCGGAGTTCGTAGGCTAAGTGAACGGGGAGCAACGGCTGATC
GAAAAGCGAAGATAGGCGCATAGTTCAGTGATCTACAAGAGTGGTAGAGGTCCCGATCAGGTTGT
TTTAACAAGCTAGTTAGGCCAGATAGGCTAAACTAGTAGTTCGTAGTTCCCCAGGCCAGCGGTCT
CGCTATTCCTGATGATCAGGTTAGGCAAGCTAATCACGCCTGCTGCGTCAAACCTTCATTGAATG
GGAATGCAAATTCGACGGCATCTAACTACCTAAACCTAAGGTGAATACGTGAACAGAGACTTCTC
TCTGCTGCTGTAGCTGCTAGGATACTCAAATTGTCTGCTTCAGCTAACCACACGGCGTTCAGTCG
CCCAAACACACGAACATACTATACAAAGAAGGAGAGGCAAGCGCTGAGTCTTAAATTAGATTACC
CCTCTGATTCGTCACCCGCTGAGCTAACGTCGAGATGTAAGTGTT
Right flanking sequence: Indices 140233 -- 140732
TCAGGGGACCCAGCCTCACTAAGGTTAACGGATTGTCTACCATTCGCTCAGCTTCGGAAAGCCCT
GTGGAGGCCTACAAAGAAAGGCACAACGCTTATGTTGCATGCAATATCTTGGAATCTGCTTCGAT
ATAAGTCGGATGGATAGTTTTTTAGATTAAAAAAGAATCAAATAGCAGCGAGACTAAATGGTTTT
AAGTCGAATAAAGGGCCTAGGAGTCATAAGCAAAAGCAAGATAGAAGCCTTAAAAATCCACACAT
ATATAAGTATAAGCTCTACTAAATCTAGATAACTAGAATTCCAAGGGACCAGAAATCCTGCCCGT
AGATGGCCGAAACAGAGCTTCGGAGGGGCTATGCTGCTTACTGTAACTGTCAAATTTGATTCCCT
TCCCTTTTTGCCGGAGCAGGACACACATAAAAAATAGAAATGGCAAAAAAAAGACCTCCTACACG
CACGGGAACCAGAACAAAAGAAGGAGATAGGATCCACCTGCACGC
Found at i:181968 original size:25 final size:25
Alignment explanation
Indices: 181939--181988 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
181929 TAAGAATCCA
181939 TCTGATGGTATTTAGTAAAGACTTG
1 TCTGATGGTATTTAGTAAAGACTTG
181964 TCTGATGGTATTTAGTAAAGACTTG
1 TCTGATGGTATTTAGTAAAGACTTG
181989 AATAGATGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (25 bp):
TCTGATGGTATTTAGTAAAGACTTG
Left flanking sequence: Indices 181439 -- 181938
CCGGAGGTAGACCTTCTACTAAAGTGGAGTCACCACCATATACTGAAAAAGAAGGTAGCAGCTAC
AGAATCCAGTTGATAACAAGAAGTCTCACTTTACTGGCTGGGAGTTCTACTTTCTACAATCGAGC
ATAAGCCCTCTTCTACTTGCTTTTCTCCCGTAGTAGCTTCACGTCCTCCCTTTCCTTTTGTATGG
TACTAAAACGGAAAAGTGGATGCCCAGATATTGAGGAGTTCTTCCTTCAGATAGAAGCTGGTAAT
CCAAGCTATCTTGGAGTTTTCTTTTTGAAAAAAAAAAAAAAAAGAAAAAGCGTCCCCCGCGAAAG
TCAAAAAGGAAGAGCCTAAAATCATGCCCTTTTTCGAGCTTTCTGATAGTTAGTAGTACCTAGCC
AAACCAAAGGCTGGAAAGAGCGTTTAGACTACTTATACCCCTCACTGGGAATCAGAGAAAGGAGA
GGATAGGACCGGTATTAGCAGAATAGATGGCTTCCTAAGAATCCA
Right flanking sequence: Indices 181989 -- 182488
AATAGATGCCTTCCTTCATAAGAACAGGTAACCTGGTAGGTGAGTCACTCTCCGCTAACCTGGTA
GGTGGGACTTGCTCTACTTTGACTTCTCTATTTCATAACACTAGCCAACCTGCGTACCTGGAAGG
AGCTGACACTCGTCGAGAGGAGAAAGGGCAGGTTTTTGATCTAGTCTGATGCTTACAGGACATAG
AATCACGTTTACGGATGAGTGAAGTTCTTGTTCATTTCTCTTTCTAAAAGGGAGTCTCAATGAGA
CCTAAGAAAGGTAATGAGTCTGAATGCCTTCATTGTATTGTTGCTGGCTACCTTTCACTTAGAAG
CAATAATAGGAAGTCCAAGGCTGCCTTATCTTATGGGCAATGCCCCCTTTGCCGTAAAGAGTAGC
CATATCCAGTGCGATCTCCTCATACTCAGGCGTCGCCTCAAATCCCATTTATAAACTCTACAACC
GCTCCGGTCACACTGCACCACCCTTATTTAACGGGCCTTTAGGCT
Found at i:187997 original size:18 final size:18
Alignment explanation
Indices: 187957--187999 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
187947 ACCGCCCTGC
187957 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
187976 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
187993 CATAGTC
1 CATAGTC
188000 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 187457 -- 187956
CGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGGAG
CGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTCCTTTCCCTAATATGAAC
CTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCAAA
AGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCGGACACTTTTTGTTATCTAAAGGCGAA
GACTCTGAAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTCCGCGCACCT
GCTGACACCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTCTCGTTCAGCGTCAC
GAGTCTACAAGCCTTTCTCATTTCAGTGCTCGCCCTTTGAATCTTCAGTAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 188000 -- 188499
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAAGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:189635 original size:21 final size:21
Alignment explanation
Indices: 189609--189652 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
189599 ATATCTAGTT
*
189609 TGAATTCTAAGACCCTCTTTA
1 TGAATTATAAGACCCTCTTTA
*
189630 TGAATTATAAGGCCCTCTTTA
1 TGAATTATAAGACCCTCTTTA
189651 TG
1 TG
189653 CTCTCAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (21 bp):
TGAATTATAAGACCCTCTTTA
Left flanking sequence: Indices 189109 -- 189608
CCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTG
CTGCACCGCGGGAAATCCTTCTCTATACAAGTTCTCGGACGAGGTTTTTGAACAGAACTTCGATA
GGCGAGAGGTGTAAGCACCGCGAGGTGTGAAGCGATCTCGTACTAAACGAAAGAACTTTCACTTT
CCATAACCAAAATGAAAGAAAGTCAACCTATTCCTGCAATTGCGGTCAGTCTCGCTACCTCTTTA
GTTGCCGCCCCCTACTTGCTCATTCGCAATGACTACCACAAGAAAGTAGCCCCTATCTCTAAAGG
GGCTTATGCACTCCACGACTTTCTTATGTTATGGCGAAGACTGAATTTCGCTTCCAACCCTAGTC
AGCAAGCTTCAAAAGTCCTTTCTCCTTTCTTTTCCGAAACTCAAATAGAAAACTCTCCCCATGGG
ACCGGGGTTTGAGGTTGTCATACCACTTTCATCCGATATCTAGTT
Right flanking sequence: Indices 189653 -- 190152
CTCTCAAAGACCGGCTTTTACAGAACTGAGATTCCATAGGCCGAAACGAAGCCCTTTAAAGGTAG
AATTAGGAGTCGAAGCCATGCATTTAGCCCGATTGCTATTCGCCCTTTTTAGCACTAGACTGACA
TTCTCATTTCGCTTGTTCAGTTCAACGAAAGCCGGTACTAATCAAGCACAGTTTAGCCCTATGAT
TGAATTGCGATAGTTGGATTCCCTCTTCCTATAGCTATGACTGGCAACCCCTATAAGTAAGTTTT
GACTCCCTCTTTTAAGGTCGAGCCTATATAAAAGTAAATATGGTCTAGCTAGTTATCACTTCTCC
CCCTATAGTTATAGCAGTACTGGGGAATTCCTCTATCTTCTTTGAATGAGGAGAGAGAGTACTCA
TTCCTCTCCCTCTGGTCGAGTGGCTTCGCTCCTATAAGCTAGTTCTCACTTCCGAGCTCTAACTC
CTTACTTTCTTTCCCACCGTAGAACTCCAATCGAAAGGGGAATCT
Found at i:191257 original size:25 final size:25
Alignment explanation
Indices: 191229--191278 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
191219 AAATTGGGGT
191229 AGCTCAGGAACTATAGAATCTCTCA
1 AGCTCAGGAACTATAGAATCTCTCA
191254 AGCTCAGGAACTATAGAATCTCTCA
1 AGCTCAGGAACTATAGAATCTCTCA
191279 GGAGTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
AGCTCAGGAACTATAGAATCTCTCA
Left flanking sequence: Indices 190729 -- 191228
GTGCCATTTCTTCTCTTGGAGGCAGGGCAATAGATTCATCTTGTCCTTGGCTTGTGAAGGGAATG
AGGTAGGGTAGCCAAAGCCCCCAACAAAGGGATAGGGCAATCCTTCCCAAGTAATGCATAAGCAA
GATCAGGACTAGAGGGGTGTGAAGAGTAGGGGGATCTCTTGTGCAAAGCAAAGACAGGTACGTGC
TAGCAAAGAAGGGAAGTGGCAAGGGATTTCAAAGAAGAAGAAAGAAGAGAAAGTTAGTACACAGA
GTCTTCCCCTGCCTAATTGATCTAATGATAAAGAAGTAGGCTAAGTAAAATAGAAAGTGTGTGTA
AACAATAAGTAATGACTTGCTTTGTGAGAGCTCAGTTTCTAAGACGAAGGCTAAGAATTCTCTAC
TAGAGGGATTGAAAAGATCGAGGGTAATTTCTGAGTCTTGATGGACCTTTCTTATTATAGGCCAA
AGGAATAGCTAAGGACTTCTTCCCTCATTCTCATCAAATTGGGGT
Right flanking sequence: Indices 191279 -- 191778
GGAGTTGAATAAACTCTTTTATGCTAGTGGAATTGGGAAGCATGATAAGTCCGTACTCCACATTC
TAGCTTCATCCTTGGTTTTCAAAGAAAGGAAACTTCAAAGACTGACAGAAGAGAAAGGTAAGATA
ATTCTTTCTGGCCTTAACTGAAAGCGGGGGAGGCCCAGGTCTACATACAGGTCTTGGATCAATAG
AATCCTCCAATTGCTAGGGAAAGAATATCGGGATTAGTCTCCTTGCCATTGCTACTGTCTTTGAA
AGTCTAGCTATCCTCTCCTTGTCATGCTTAGTTATTCTGCATTGCTCCTTCTTCTGATCTTGCTT
TCTTGCCTTATAGAACTGACCTTTGTCCCCTCCTTCCGGTTTTCACTCACTTAAAGTCCATTCCT
TGCTCTTGCCTAGTTCTAGGCTTAGACGAAAGAGCTCATTCATAGATTCCATCTTTCTAGCATTT
CATGTCTTTCTTCCTTCAACTCTAATTCATGCCATGAATTGTTAA
Found at i:210973 original size:20 final size:20
Alignment explanation
Indices: 210948--210988 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
210938 CAATCAGAGA
210948 AGAGATAAGGGTAATGTTAC
1 AGAGATAAGGGTAATGTTAC
210968 AGAGATAAGGGTAATGTTAC
1 AGAGATAAGGGTAATGTTAC
210988 A
1 A
210989 ATGAATGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.24
Consensus pattern (20 bp):
AGAGATAAGGGTAATGTTAC
Left flanking sequence: Indices 210448 -- 210947
ACTCTTTGAGGCCGATCGATCTAGAGAACTCATAGTCACTGGAACCGTCGACTATTGGAAGGGGA
TCATCTACCTCTTGCGAGCACTTTAAAGGATCTAATTACGAAAAAAGAAAGTAGTGAGGGAAAGC
CCTCTAGTCGAGTAAGAGAACTGAAAGTTTCAGGCCAGTAAAGTCCGTTAGTGGGGGAGTGAACC
CGGAGATTCGTCAATCAATTCTTTCTTCTGGAAACGACTAAAAAGAGCAGGGCTTGTCCGGGGCA
AGGGATGCAGGTATGAAAGATGAAGCTTGAAAGCGGGGGAGTTCTTCTACTGCATGTTCAGAGAA
AGACTTCCCCCATGGCATAGCTCAGTCATTCAATCATGGGAGGGTCACAGGATTCTTCTCCTAAG
CGCAGGTGTAGCTCCCCATGGTGTTCATTTAAGTTCTCATACATCCCGCTACGGTTTGTCTTGGT
AAACAACTATTTCTCTTTCGCCCAGGGGAACGCGACAATCAGAGA
Right flanking sequence: Indices 210989 -- 211002
ATGAATGAGGATAG
Done.