Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008645.1 Corchorus capsularis cultivar CVL-1 contig08666, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 71330
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:3398 original size:2 final size:2
Alignment explanation
Indices: 3391--3421 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3381 TTATCGAAAG
3391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3422 CACACTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6113 original size:677 final size:678
Alignment explanation
Indices: 5160--7746 Score: 3904
Period size: 677 Copynumber: 3.8 Consensus size: 678
5150 CAAATTAATA
*
5160 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAATCTTAGTGCGGTTT
1 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTT
5225 AATTTTTTGATATTTTGACTTGACA--TTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTATT
66 AATTTTTTGATATTTTGACTTGACATTTTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTATT
* * *
5288 TACGTTGAAAGATATTCTCAACCCTTGAAGCTGTCAAATTTTTCCATAAAAACTAAAATTATTTT
131 TACGTTGAAAGATATTCTCAACCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATTTT
* * * *
5353 CCAAGATATACATCGCTTATAATATATCTATATAGTTTTAAAAAGTTTCAGATTGTGCTATGATA
196 CCAAGATATACAACGCTTATAATATATCAATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATA
* *
5418 CTTGTAAAGTAGTTAAATAACATTACATTTTCCTAAAAGAACAA-TTCTATTTTTGCAATCTCAA
261 CTTGTAGAGTAGTTAAATAACATTACATTTTCGTAAAAGAA-AATTTCTATTTTTGCAATCTCAA
*
5482 GCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCTAGCAATATTTCTATGTTCTAGTTG
325 GCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGCAATATTTCTATGTTCTAGTTG
*
5547 AACGCAATTTTGAAGATGTTATAACTGAGATCG-ATTTCTTTTACGATATATAT-TTTCTGTCTA
390 AACGCAATTTTGAAGATGTTATAACTGAGATGGAATTTCTTTTACGATATATATATTTCTGTCTA
* *
5610 ACTTGAACTCTTCACTGATTACGATGAATAGCTTCTCGTAGAAAATAACCACAAAAATTCCACTT
455 ACTTCAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACAAAAATT-CACTT
* *
5675 CTTTGAA-AATGATATATAACAAGCAACATCACGGGAAAATGTGTTGCAATTGAAGAATCTAATA
519 CTTT-AACAATGATACATAACAAGCAACATCACGGGAAAATGTGCTGCAATTGAAGAATCTAATA
5739 TGGCTTTAAATGTGGGCATTTACTTAATAATCCTGTTAGCTACAGTCTACATATCAGGTTCAGGA
583 TGGCTTTAAATGTGGGCATTTACTTAATAATCCTGTTAGCTACAGTCTACATATCAGGTTCAGGA
5804 TCGATTCATCATAAAATAATGATTGCAGATG
648 TCGATTCATCATAAAATAATGATTGCAGATG
5835 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTT
1 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTT
*
5900 AATTTTTTGATATTTTGACTTAACATTTTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTATT
66 AATTTTTTGATATTTTGACTTGACATTTTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTATT
* *
5965 TACGTTGAAAGATATTCTCAACCCCTGAAGCTGTCAAATTTTTCCATAAAAACTAAAATTATTTT
131 TACGTTGAAAGATATTCTCAACCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATTTT
* * * * * *
6030 TCAAGATATATATCGCTTATAATATATCAATATAGTTTTAAAAAGTTTCAAATTGTCCTCTGATA
196 CCAAGATATACAACGCTTATAATATATCAATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATA
*
6095 CTTGTAGAGTAGTTAAATAACATTACATTTTCGTAAAAGAACAA-TTCTATTTTTGCAATCTCAG
261 CTTGTAGAGTAGTTAAATAACATTACATTTTCGTAAAAGAA-AATTTCTATTTTTGCAATCTCAA
*
6159 GCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCCGCAATATTTCTATGTTCTAGTTG
325 GCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGCAATATTTCTATGTTCTAGTTG
* * *
6224 ATCGCAATTTTGAAGATGTTATAACTGAGATGG-ATTTCTTTTATGATATATAT-TTTCCGTCTA
390 AACGCAATTTTGAAGATGTTATAACTGAGATGGAATTTCTTTTACGATATATATATTTCTGTCTA
* *
6287 ACTTGAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACATAAATTACACTT
455 ACTTCAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACAAAAATT-CACTT
* *
6352 TTTTGAA-AATGATATATAACAAGCAACATCACGGGAAAATGTGCTGCAATTGAAGAATCTAATA
519 CTTT-AACAATGATACATAACAAGCAACATCACGGGAAAATGTGCTGCAATTGAAGAATCTAATA
* * * *
6416 TGGCTTCAAATGTGGGCATTTACTTAATAATCTTGTTAGCTATAGTCTACATATCAGGTTCAGGG
583 TGGCTTTAAATGTGGGCATTTACTTAATAATCCTGTTAGCTACAGTCTACATATCAGGTTCAGGA
* *
6481 TCGATTCATCATAAAATAATAATTGTAGATG
648 TCGATTCATCATAAAATAATGATTGCAGATG
* * * * *
6512 AACTTGTTTTACATTTTTAAGTGTTATAGGAGTCACTTCTAAAATCTTGAAGCTTAGTGCGATTT
1 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTT
** * * *
6577 AATTCATTAATATTTCGACTTGACATTTTCTTTTTGTGTGAGGTCATTAGTTTAATCTTTATTTA
66 AATTTTTTGATATTTTGACTTGACATTTT-TTTTT-TGTGAGGGCATTAGTTTAATCTTTATTTA
* ** *
6642 TTTACGTTGAAAGATATTCTCAACCCCTAAAACTGACAAATTTTTCTTTAAAAACTAAGATTATT
129 TTTACGTTGAAAGATATTCTCAACCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATT
* * * *
6707 TTCCAAGATGTACAACGCTTATAATATACCTATATAGTTTGAAAAAGTTTCACATTGTGCTCTGA
194 TTCCAAGATATACAACGCTTATAATATATCAATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGA
* *
6772 TACTTGTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGAAAATTTCTATTTTTGCAATCTCA
259 TACTTGTAGAGTAGTTAAATAACATTACATTTTCGTAAAAGAAAATTTCTATTTTTGCAATCTCA
* * * *
6837 GGCGCATAAAGCACTTGGATCCTTCGACGTCCATTCCAGTCCAACAATATTTCTATGTTCTAGTT
324 AGCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGCAATATTTCTATGTTCTAGTT
* * *
6902 GAACGCAATTATGAAGTTGATATAACTGAGAT-GAATTTCTTTTACGATATATATATTTCTGTCT
389 GAACGCAATTTTGAAGATGTTATAACTGAGATGGAATTTCTTTTACGATATATATATTTCTGTCT
* * * * * * * * *
6966 ATCTTCAACTCTTCCCTGATTATGATGAAAAGTTTCTCACAGAAACT-A-CA-GAAATTTCACTT
454 AACTTCAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACAAAAATTCACTT
** *
7028 CTTTAACAATGATACATAACAAGCAGTATCACGGGAAAATGTGCTGCAATTGAAGAATCTAAGAT
519 CTTTAACAATGATACATAACAAGCAACATCACGGGAAAATGTGCTGCAATTGAAGAATCTAATAT
* * *
7093 GGCTTTAAATGTGGGTATTTACGTAATAATCCTGTTAACTACAGTCTACATATCAGGTTCAGGAT
584 GGCTTTAAATGTGGGCATTTACTTAATAATCCTGTTAGCTACAGTCTACATATCAGGTTCAGGAT
7158 CGATTCATCATAAAATAATGATTGCAGATG
649 CGATTCATCATAAAATAATGATTGCAGATG
* * *
7188 AACTTATTTTACATTTTTGAGTGTGATAGGAGTTGATTCTAAAATCTCGAA-CTTTAGTGCGGTT
1 AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGC-TTAGTGCGGTT
* * *
7252 TAATTTTTTTATATTTTGACTTG--ATATTTTTTTTGTGATGGCATTAGTTTAATCTTTATTTAT
65 TAATTTTTTGATATTTTGACTTGACATTTTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTAT
*
7315 TTACGTTGAAAGATATTCTCAACCCCCTAAAACTGTCAAATTTTTCCACAAAAACTAAAATTATT
130 TTACGTTGAAAGATATTCTCAA-CCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATT
* * * * *
7380 TTCCAAGATGTACAACGCTTATATTGTA-CAAATATAGTTTGAAAAAGTTTCGGATTGTGCTGTG
194 TTCCAAGATATACAACGCTTATAATATATC-AATATAGTTTGAAAAAGTTTCAGATTGTGCTCTG
* *
7444 ATACATGTAG-GATAGTTAAATAATATTACATTTTCGTTGAAAA-AAAATTTCTATTTTTGC-AT
258 ATACTTGTAGAG-TAGTTAAATAACATTACATTTTCG-T-AAAAGAAAATTTCTATTTTTGCAAT
* * * * *
7506 CTTAAGCGCATAAAGCACCTGAATCCTTCGATGTCAATTCCCGTTCAGCAATATTTCTATGTTCT
320 CTCAAGCGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGCAATATTTCTATGTTCT
* *
7571 AGTTGAACGCAGTTTTGAAGATGTTATAACTGAGATGGAATTTTTTTTTTACGATATATATATTT
385 AGTTGAACGCAATTTTGAAGATGTTATAACTGAGATGGAA--TTTCTTTTACGATATATATATTT
* * *
7636 CTGTCTAACTTCAACTCTTCCCTGATTATGATGAATAGTTTCTCGCAGAAAATAACCACAAAAA-
448 CTGTCTAACTTCAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACAAAAAT
* *
7700 TCACTTCTTTAACTATGATACATAATAAGCAACATCACGGGAAAATG
513 TCACTTCTTTAACAATGATACATAACAAGCAACATCACGGGAAAATG
7747 GGTGGAGGCT
Statistics
Matches: 1749, Mismatches: 143, Indels: 37
0.91 0.07 0.02
Matches are distributed among these distances:
672 52 0.03
673 221 0.13
674 25 0.01
675 95 0.05
676 292 0.17
677 647 0.37
678 55 0.03
679 315 0.18
680 47 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (678 bp):
AACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTT
AATTTTTTGATATTTTGACTTGACATTTTTTTTTTGTGAGGGCATTAGTTTAATCTTTATTTATT
TACGTTGAAAGATATTCTCAACCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATTTT
CCAAGATATACAACGCTTATAATATATCAATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATA
CTTGTAGAGTAGTTAAATAACATTACATTTTCGTAAAAGAAAATTTCTATTTTTGCAATCTCAAG
CGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGCAATATTTCTATGTTCTAGTTGA
ACGCAATTTTGAAGATGTTATAACTGAGATGGAATTTCTTTTACGATATATATATTTCTGTCTAA
CTTCAACTCTTCACTGATTACGATGAATAGCTTCTCGCAGAAAATAACCACAAAAATTCACTTCT
TTAACAATGATACATAACAAGCAACATCACGGGAAAATGTGCTGCAATTGAAGAATCTAATATGG
CTTTAAATGTGGGCATTTACTTAATAATCCTGTTAGCTACAGTCTACATATCAGGTTCAGGATCG
ATTCATCATAAAATAATGATTGCAGATG
Found at i:10119 original size:21 final size:21
Alignment explanation
Indices: 10094--10458 Score: 262
Period size: 21 Copynumber: 17.5 Consensus size: 21
10084 ATATATGAAA
10094 ATTTGGGGTTTGACTATCAAG
1 ATTTGGGGTTTGACTATCAAG
* * *
10115 TTTTGAGGTTTGACCATCAAG
1 ATTTGGGGTTTGACTATCAAG
*
10136 ATTTGGGGTTTGACCATCAAG
1 ATTTGGGGTTTGACTATCAAG
*
10157 TTTTGGGGTTTGACTATCAA-
1 ATTTGGGGTTTGACTATCAAG
* * * *
10177 AATTGGGTTTTAACTATCAAA
1 ATTTGGGGTTTGACTATCAAG
*
10198 ATTTGGGGTTTGACCATCAAG
1 ATTTGGGGTTTGACTATCAAG
* *
10219 ATTTGAGGTTTGACTATCAAA
1 ATTTGGGGTTTGACTATCAAG
*
10240 ACTTTGGGATTTGACTATCAA-
1 A-TTTGGGGTTTGACTATCAAG
* **
10261 ATTTGGGGGTTGACCATAT-ATTT
1 ATTTGGGGTTTGA-C-TATCA-AG
* * *
10284 TTTTGGGTTTTAACTATCAA-
1 ATTTGGGGTTTGACTATCAAG
* * * * *
10304 AATAGGGATTTGGCCATCAA-
1 ATTTGGGGTTTGACTATCAAG
* * *
10324 ATTTGGGTTTTAACTATCAAA
1 ATTTGGGGTTTGACTATCAAG
10345 ATTTGGGGTTTGA-TCATCAA-
1 ATTTGGGGTTTGACT-ATCAAG
* * *
10365 ATTT-GGATTTAACTATCAAA
1 ATTTGGGGTTTGACTATCAAG
* *
10385 ATTTGAGGTTTGACCATCAAG
1 ATTTGGGGTTTGACTATCAAG
* * * *
10406 ATTTGGTGTTTGACCATAAAA
1 ATTTGGGGTTTGACTATCAAG
* *
10427 ATTTTGGGATTTCACTATCAA-
1 A-TTTGGGGTTTGACTATCAAG
10448 ATTTGTGGGTT
1 ATTTG-GGGTT
10459 GACCATATAT
Statistics
Matches: 269, Mismatches: 61, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.04
20 67 0.25
21 146 0.54
22 36 0.13
23 9 0.03
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (21 bp):
ATTTGGGGTTTGACTATCAAG
Found at i:10238 original size:83 final size:84
Alignment explanation
Indices: 10091--10464 Score: 243
Period size: 83 Copynumber: 4.5 Consensus size: 84
10081 GAAATATATG
* ** *
10091 AAAATTTGGGGTTTGACTATCAAGTTTTGAGGTTTGACCATCAAGATTTGGGGTTTGACCATC-A
1 AAAA-TTGGGGTTTAACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATCAA
** *
10155 AGTTTTGGGGTTTGACTATC
65 AACTTTGGGATTTGACTATC
* * *
10175 AAAATTGGGTTTTAACTATCAAAATTTGGGGTTTGACCATCAAGATTTGAGGTTTGACTATCAAA
1 AAAATTGGGGTTTAACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATCAAA
10240 ACTTTGGGATTTGACTATC
66 ACTTTGGGATTTGACTATC
* * * *** * * * * *
10259 AAATTTGGGGGTTGACCATAT-ATTTTTTTG-GGTTTTAACTATCAA-AATAG-GGATTTGGCCA
1 AAAATT-GGGGTTTAAC-TATCA-AAATTTGAGG-TTTGACCATCAAGATTTGAGG-TTTGACCA
* *
10320 TC-AAA-TTTGGGTTTTAACTATC
61 TCAAAACTTTGGGATTTGACTATC
* * * * *
10342 AAAATTTGGGGTTTGA-TCATC-AAATTTG-GATTTAACTATCAAAATTTGAGGTTTGACCATCA
1 AAAA-TTGGGGTTTAACT-ATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATCA
* * *
10404 AGA-TTTGGTG-TTTGACCATA
64 AAACTTTGG-GATTTGACTATC
* * * *
10424 AAAATTTTGGGATTTCACTATC-AAATTTGTGGGTTGACCAT
1 AAAA--TTGGGGTTTAACTATCAAAATTTGAGGTTTGACCAT
10465 ATATTTTTTT
Statistics
Matches: 228, Mismatches: 46, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
80 12 0.05
81 18 0.08
82 22 0.10
83 96 0.42
84 42 0.18
85 21 0.09
86 17 0.07
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (84 bp):
AAAATTGGGGTTTAACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATCAAA
ACTTTGGGATTTGACTATC
Found at i:10333 original size:40 final size:40
Alignment explanation
Indices: 10285--10416 Score: 151
Period size: 40 Copynumber: 3.2 Consensus size: 40
10275 CATATATTTT
*
10285 TTTGGGTTTTAACTATCAAAATAGGGATTTGGCCATCAAA
1 TTTGGGTTTTAACTATCAAAATAGGGATTTGACCATCAAA
* * *
10325 TTTGGGTTTTAACTATCAAAATTTGGGGTTTGATCATCAAA
1 TTTGGGTTTTAACTATCAAAA-TAGGGATTTGACCATCAAA
* *
10366 TTT-GGATTTAACTATCAAAATTTGAGG-TTTGACCATCAAGA
1 TTTGGGTTTTAACTATCAAAA-TAG-GGATTTGACCATCAA-A
10407 TTTGGTGTTT
1 TTTGG-GTTT
10417 GACCATAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
40 52 0.65
41 24 0.30
42 1 0.01
43 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTGGGTTTTAACTATCAAAATAGGGATTTGACCATCAAA
Found at i:10452 original size:187 final size:189
Alignment explanation
Indices: 10123--10475 Score: 534
Period size: 187 Copynumber: 1.9 Consensus size: 189
10113 AGTTTTGAGG
* ** *
10123 TTTGACCATCAAGATTTGGGGTTTGACCATCAAGTTTTGGGGTTTGACTATCAAAATTGGGTTTT
1 TTTGACCATCAAGATTTGGGGTTTAACCATCAAAATTTGGGGTTTGACTATCAAAATTGGGATTT
* * * *
10188 AACTATCAAAATTTGGGGTTTGACCATCAAGATTTGAGGTTTGACTATCAAAACTTTGGGATTTG
66 AACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATAAAAACTTTGGGATTTC
10253 ACTATCAAATTTGGGGGTTGACCATATATTTTTTTGGGTTTTAACTATCAAAATAGGGA
131 ACTATCAAATTTGGGGGTTGACCATATATTTTTTTGGGTTTTAACTATCAAAATAGGGA
* * * *
10312 TTTGGCCATCAA-ATTTGGGTTTTAACTATCAAAATTTGGGGTTTGA-TCATC-AAATTTGGATT
1 TTTGACCATCAAGATTTGGGGTTTAACCATCAAAATTTGGGGTTTGACT-ATCAAAATTGGGATT
*
10374 TAACTATCAAAATTTGAGGTTTGACCATCAAGATTTG-GTGTTTGACCATAAAAATTTTGGGATT
65 TAACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAG-GTTTGACCATAAAAACTTTGGGATT
*
10438 TCACTATCAAATTTGTGGGTTGACCATATATTTTTTTG
129 TCACTATCAAATTTGGGGGTTGACCATATATTTTTTTG
10476 CCACAAGGGG
Statistics
Matches: 148, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
186 1 0.01
187 104 0.70
188 32 0.22
189 11 0.07
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (189 bp):
TTTGACCATCAAGATTTGGGGTTTAACCATCAAAATTTGGGGTTTGACTATCAAAATTGGGATTT
AACTATCAAAATTTGAGGTTTGACCATCAAGATTTGAGGTTTGACCATAAAAACTTTGGGATTTC
ACTATCAAATTTGGGGGTTGACCATATATTTTTTTGGGTTTTAACTATCAAAATAGGGA
Found at i:10587 original size:21 final size:21
Alignment explanation
Indices: 10561--10658 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
10551 GGTGACCATA
10561 GTTTGACTAT-AAAGTTTTAGG
1 GTTTGACTATCAAA-TTTTAGG
* *
10582 GTTTGACCATCAAAATTT-GG
1 GTTTGACTATCAAATTTTAGG
*
10602 GATTTGACTATCAAACTTT-GAG
1 G-TTTGACTATCAAATTTTAG-G
* * *
10624 GTTTGACCATCAAAATTTGGG
1 GTTTGACTATCAAATTTTAGG
*
10645 GTTTGGCTATCAAA
1 GTTTGACTATCAAA
10659 AGTTTTGTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.05
21 56 0.86
22 6 0.09
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (21 bp):
GTTTGACTATCAAATTTTAGG
Found at i:10604 original size:66 final size:67
Alignment explanation
Indices: 10472--10609 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 67
10462 CATATATTTT
* * *
10472 TTTG-CCACAAGGGGTTGACCATAGTTTGACTATCACACTTTGGGGTTTAAATATAAAAAATAGG
1 TTTGACCACAAGGGGTTGACCATAGTTTGACTATCAAACTTTAGGGTTTAAACATAAAAAATAGG
10536 GA
66 GA
* * * * * * *
10538 TTTGACCAGAAGGGG-TGACCATAGTTTGACTAT-AAAGTTTTAGGGTTTGACCATCAAAATTTG
1 TTTGACCACAAGGGGTTGACCATAGTTTGACTATCAAA-CTTTAGGGTTTAAACATAAAAAATAG
10601 GGA
65 GGA
10604 TTTGAC
1 TTTGAC
10610 TATCAAACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 2 0.03
66 49 0.82
67 9 0.15
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (67 bp):
TTTGACCACAAGGGGTTGACCATAGTTTGACTATCAAACTTTAGGGTTTAAACATAAAAAATAGG
GA
Found at i:10627 original size:42 final size:43
Alignment explanation
Indices: 10562--10658 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 43
10552 GTGACCATAG
* *
10562 TTTGACTAT-AAAGTTTTAGGGTTTGACCATCAAAATTTGGGA
1 TTTGACTATCAAACTTTGAGGGTTTGACCATCAAAATTTGGGA
*
10604 TTTGACTATCAAACTTTGA-GGTTTGACCATCAAAATTTGGGG
1 TTTGACTATCAAACTTTGAGGGTTTGACCATCAAAATTTGGGA
*
10646 TTTGGCTATCAAA
1 TTTGACTATCAAA
10659 AGTTTTGTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 43 0.86
43 7 0.14
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (43 bp):
TTTGACTATCAAACTTTGAGGGTTTGACCATCAAAATTTGGGA
Found at i:10659 original size:21 final size:21
Alignment explanation
Indices: 10580--10659 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
10570 TAAAGTTTTA
10580 GGGTTTGACCATCAAAATTTG
1 GGGTTTGACCATCAAAATTTG
* * *
10601 GGATTTGACTATCAAACTTTG
1 GGGTTTGACCATCAAAATTTG
*
10622 AGGTTTGACCATCAAAATTTG
1 GGGTTTGACCATCAAAATTTG
* *
10643 GGGTTTGGCTATCAAAA
1 GGGTTTGACCATCAAAA
10660 GTTTTGTGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (21 bp):
GGGTTTGACCATCAAAATTTG
Found at i:14319 original size:666 final size:668
Alignment explanation
Indices: 12556--14455 Score: 2610
Period size: 677 Copynumber: 2.8 Consensus size: 668
12546 TATCTGACAC
* *
12556 CGGGAAAATGTGCTGCAATTAAAGAATATAATATGGCTTTAAATTTGGGTATTTACGTAATAATC
1 CGGGAAAATGTGCTGCAATTAAAGAATCTAATATGGCTTTAAATATGGGTATTTACGTAATAATC
* * * *
12621 CTGTTAGCTACAGTCTACATATCAGGTTCAGAATCAATTCATCATAAAATAATGATTGAAGATAA
66 CTGTTAGCTACAGTCTACATATCAGGTTCAGGATCGATTCATCATAAAATAATGATTGCAGATGA
*
12686 ACTTGTTTTACA--TT--T-T--T--GA--G--TCTAAAATCTCGAAGTTTAATGCGGTTTAATT
131 ACTTGTTTTACATTTTGATGTGATAGGAGTGCTTCTAAAATCTCGAAGCTTAATGCGGTTTAATT
* *
12738 TTTTTATATTTTGACTTAACATTTTTTTTTGTTTGAGGGTATTAGTTTAATCTTTATTTATTTAC
196 TTTTTATATTTTGACTTGACA-TTTTTTTTGTGTGAGGGTATTAGTTTAATCTTTATTTATTTAC
*
12803 GTTGAAAAGATATTCTCAACCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAACTATTTTCCA
260 GTTG-AAAGATATTCTCAACCCTAAAACTGTCAAATTTTTCCATAAAAA-TTAAACTATTTTCCA
* * *
12868 AGATATATAACGCTTATAATATATCTATATAGTTTGAAAAAGTTTCAGATTGTACTCTGATACTT
323 AGATGTATAACGCTTATAATATACCTATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATACTT
*
12933 GTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGAACAATTCTATTTTTGCAATCTCAGGCGC
388 GTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGAACAATTCTATTTTTGCAATCTCAGCCGC
* * * *
12998 ATAAAGCACATGTATCCTTCGACGTCCATTCCAGTCTAGCAATATTT-TCGTGTTCTAGTTGAAC
453 ATAAAGCACCTGGATCCTTCGACGTCCATTCCAGTCCAG-AATATTTCT-ATGTTCTAGTTGAAC
* * * *
13062 GCAATTTTGATGATGTTACAACTGAGATGGATTTCTTTTACGAAATACATATATTTTTGTCTATC
516 GCAATTTTGAAGATGTTATAACTGAGATGGATTTCTTTTACG--ATATATATATTTCTGTCTATC
* * *
13127 TTCAACTCTTCCTTGATTATGGTGAAAAGCTTCTCGTAGAAAATAACCATAAAAATTTCACTTCT
579 TTCAACTCTTCCCTGATTATGATGAAAAGCTTCAC--AGAAAATAACCAT--AAATTTCACTTCT
** *
13192 TTGACATTGATACATAACAAGGAACATCA
640 TTGACAAAGATACATAACAAGCAACATCA
* * * * * *
13221 CGGGAAAATGTGTTGCAATTGAAGAATCTAAGATGACATTAAATATAGGTATTTACGTAATAATC
1 CGGGAAAATGTGCTGCAATTAAAGAATCTAATATGGCTTTAAATATGGGTATTTACGTAATAATC
* * *
13286 CTGTTAGCTACAGTCTATATATCAGGTTCATGATCGATTCATCATAAAATAGTGATTGCAGATGA
66 CTGTTAGCTACAGTCTACATATCAGGTTCAGGATCGATTCATCATAAAATAATGATTGCAGATGA
*
13351 ACTTGTTTT-CATTTTGAATGTGATAGGAGTTGCTTCTAAAATCTCGAAACTTAATGCGG-TTAA
131 ACTTGTTTTACATTTTG-ATGTGATAGGAG-TGCTTCTAAAATCTCGAAGCTTAATGCGGTTTAA
* *
13414 TTTTTTAATATTTTGACTTGACATTTTTTTTGTGTGAGGGTATTAGTTTAATATTTATTTATTTA
194 TTTTTTTATATTTTGACTTGACATTTTTTTTGTGTGAGGGTATTAGTTTAATCTTTATTTATTTA
* * *
13479 CATTGAAAGATATTCTCAACCCCTAAAACTGTCAAATTTTTCCATAAAAACTAAAATTATTTTCC
259 CGTTGAAAGATATTCTCAA-CCCTAAAACTGTCAAATTTTTCCATAAAAA-TTAAACTATTTTCC
* * *
13544 AAGATGTACAACGCCTATAATATACCTATATAGTTTGAAAAAGTTTCAGATTGTGGTCTGATACT
322 AAGATGTATAACGCTTATAATATACCTATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATACT
*
13609 TGTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGTACAATTCTATTTTTGCAATCTCAGCCG
387 TGTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGAACAATTCTATTTTTGCAATCTCAGCCG
* *
13674 CATAAAGCACCTGGATCCTTCGACGACCATTCCAGTCCAGTAATATTTCTATGTTCTAATTGAAC
452 CATAAAGCACCTGGATCCTTCGACGTCCATTCCAGTCCAG-AATATTTCTATGTTCTAGTTGAAC
* *
13739 GCAATTTTGAAAATGTTATAACTGAGATGGATTTCTTTTACGATATATATATTTCTGTCTCTCTT
516 GCAATTTTGAAGATGTTATAACTGAGATGGATTTCTTTTACGATATATATATTTCTGTCTATCTT
*
13804 CAACTCTTCCCTGATTATGATGAAAAGCTTCAC-GCAAA-AA-C-T-AA-TT-ACTT-TTTGACA
581 CAACTCTTCCCTGATTATGATGAAAAGCTTCACAGAAAATAACCATAAATTTCACTTCTTTGACA
13861 AAGATACATAACAAGCAACATCA
646 AAGATACATAACAAGCAACATCA
* * * *
13884 CGTGAAAATGTGCTGCAATTAAAGAATCTAATATGGCTTTAAATGTGGGCATTTCCGTAATAATC
1 CGGGAAAATGTGCTGCAATTAAAGAATCTAATATGGCTTTAAATATGGGTATTTACGTAATAATC
* * * *
13949 CTGTTAGTTAGAGTCTACAAATCAGGTTCAGGATCGATTCATCATAAAATAATGATTGCGGATGA
66 CTGTTAGCTACAGTCTACATATCAGGTTCAGGATCGATTCATCATAAAATAATGATTGCAGATGA
*
14014 ACTTGTTTTACATTTTTGAGTGTGATAGGAGTCGCTTCTAAAATCTCGAAGCTTAGTGCGGTTTA
131 ACTTGTTTTACA-TTTTGA-TGTGATAGGAGT-GCTTCTAAAATCTCGAAGCTTAATGCGGTTTA
* * *
14079 ATTTTTTTATATTTTGACTTGACATTTTCTTTGTGTGAGTGCATTAGTTTAATCTTTATTTATTT
193 ATTTTTTTATATTTTGACTTGACATTTTTTTTGTGTGAGGGTATTAGTTTAATCTTTATTTATTT
* * * * *
14144 ACGTTGAAAGATATTCTCAACCACTAAATATTATCTAATTGTT-CATAAAAATTAAACTGATTTC
258 ACGTTGAAAGATATTCTCAACC-CTAAA-ACTGTCAAATTTTTCCATAAAAATTAAACT-ATTTT
* * * * * *
14208 CCAAGATGTTTAACGCTTATAATGTACCTATGTAGTTTGAGATAGTTTCAGATTATGCTCTGATA
320 CCAAGATGTATAACGCTTATAATATACCTATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATA
** * ** * * *
14273 CTTGTAGGGTAGTTTTATAATATTACCTAATCGTTAAAGAACAATTCTATTTTTGCAGTCTCAGT
385 CTTGTAGGGTAGTTAAATAATATTACATTTTCGTAAAAGAACAATTCTATTTTTGCAATCTCAGC
* *
14338 CGCATAAAGCACCTGGATCCTTCGACGTCCATTCCCGTCCAGAA-ATGTTCTATGTTCTGGTTGA
450 CGCATAAAGCACCTGGATCCTTCGACGTCCATTCCAGTCCAGAATAT-TTCTATGTTCTAGTTGA
* * * *
14402 ACGTAATTTTGAAGATGTTATGACTGAGATAGATTTCTTTTACGATGTATATAT
514 ACGCAATTTTGAAGATGTTATAACTGAGATGGATTTCTTTTACGATATATATAT
14456 CACCGTCTAA
Statistics
Matches: 1099, Mismatches: 110, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
663 149 0.14
664 12 0.01
665 241 0.22
666 255 0.23
667 10 0.01
669 2 0.00
670 2 0.00
671 2 0.00
672 5 0.00
674 2 0.00
675 50 0.05
676 14 0.01
677 306 0.28
678 26 0.02
679 23 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (668 bp):
CGGGAAAATGTGCTGCAATTAAAGAATCTAATATGGCTTTAAATATGGGTATTTACGTAATAATC
CTGTTAGCTACAGTCTACATATCAGGTTCAGGATCGATTCATCATAAAATAATGATTGCAGATGA
ACTTGTTTTACATTTTGATGTGATAGGAGTGCTTCTAAAATCTCGAAGCTTAATGCGGTTTAATT
TTTTTATATTTTGACTTGACATTTTTTTTGTGTGAGGGTATTAGTTTAATCTTTATTTATTTACG
TTGAAAGATATTCTCAACCCTAAAACTGTCAAATTTTTCCATAAAAATTAAACTATTTTCCAAGA
TGTATAACGCTTATAATATACCTATATAGTTTGAAAAAGTTTCAGATTGTGCTCTGATACTTGTA
GGGTAGTTAAATAATATTACATTTTCGTAAAAGAACAATTCTATTTTTGCAATCTCAGCCGCATA
AAGCACCTGGATCCTTCGACGTCCATTCCAGTCCAGAATATTTCTATGTTCTAGTTGAACGCAAT
TTTGAAGATGTTATAACTGAGATGGATTTCTTTTACGATATATATATTTCTGTCTATCTTCAACT
CTTCCCTGATTATGATGAAAAGCTTCACAGAAAATAACCATAAATTTCACTTCTTTGACAAAGAT
ACATAACAAGCAACATCA
Found at i:15641 original size:18 final size:19
Alignment explanation
Indices: 15618--15657 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
15608 TAGGTAAAAA
15618 AAATAGATAATAG-TAAAT
1 AAATAGATAATAGCTAAAT
*
15636 AAATAGATGATAGCTAAAT
1 AAATAGATAATAGCTAAAT
15655 AAA
1 AAA
15658 AGAAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (19 bp):
AAATAGATAATAGCTAAAT
Found at i:16043 original size:21 final size:20
Alignment explanation
Indices: 15991--16044 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
15981 TAATCCTAAT
*
15991 TTAATCTAATTAAAGTTAAA
1 TTAATCTAATTAAAATTAAA
16011 TTAACTCTAATTAAAATTGAAA
1 TTAA-TCTAATTAAAATT-AAA
16033 TATAATC-AATTA
1 T-TAATCTAATTA
16045 TTCAGCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.13
21 17 0.57
22 6 0.20
23 3 0.10
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
TTAATCTAATTAAAATTAAA
Found at i:21471 original size:25 final size:25
Alignment explanation
Indices: 21442--21500 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
21432 GAGCTGAGTA
*
21442 TCGAGCTCGGGAAATTTTG-TCGAGC
1 TCGAGCTCGGGAAA-TTGGCTCGAGC
21467 TCGAGCTCGGGAAATTGGCTCGAGC
1 TCGAGCTCGGGAAATTGGCTCGAGC
21492 TCGAGCTCG
1 TCGAGCTCG
21501 AGCTCGGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.24
Consensus pattern (25 bp):
TCGAGCTCGGGAAATTGGCTCGAGC
Found at i:23320 original size:31 final size:28
Alignment explanation
Indices: 23278--23363 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 28
23268 AACCCGGTTA
* *
23278 AATGCTAAATTTGGTCCTAATCCTTTGATGG
1 AATGCTCAATTTGGTCCTAAACCTTT-A--G
*
23309 AATGCTCAATTTGGCCCTAAACCTTTAG
1 AATGCTCAATTTGGTCCTAAACCTTTAG
* *
23337 ACCTGCTCAAATTGGTCCTAAACCTTT
1 A-ATGCTCAATTTGGTCCTAAACCTTT
23364 CAAAACCTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.04
29 22 0.46
30 1 0.02
31 23 0.48
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (28 bp):
AATGCTCAATTTGGTCCTAAACCTTTAG
Found at i:23386 original size:31 final size:29
Alignment explanation
Indices: 23324--23386 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
23314 TCAATTTGGC
* *
23324 CCTAAACCTTTAGACCTGCTCAAATTGGT
1 CCTAAACCTTTAAACCTGCTCAAATTAGT
23353 CCTAAACCTTTCAAAACCTGCT-AAATTCAGT
1 CCTAAACCTTT--AAACCTGCTCAAATT-AGT
23384 CCT
1 CCT
23387 TTTTCAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.38
30 5 0.17
31 13 0.45
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (29 bp):
CCTAAACCTTTAAACCTGCTCAAATTAGT
Found at i:25042 original size:31 final size:31
Alignment explanation
Indices: 24967--25049 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
24957 GCAGATTTTG
* *
24967 AAAGGTTTAGGACCAATTTGA--ACAGATCT
1 AAAGGTTTAGGACCAAATTGAGCACACATCT
* * *
24996 AAAAGTTTAGAACCAAATTGAGCATTACATC-
1 AAAGGTTTAGGACCAAATTGAGCA-CACATCT
25027 AAAGGTTTAGGACCAAATTGAGC
1 AAAGGTTTAGGACCAAATTGAGC
25050 CCCATGTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 18 0.41
31 22 0.50
32 4 0.09
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGGTTTAGGACCAAATTGAGCACACATCT
Found at i:25241 original size:17 final size:18
Alignment explanation
Indices: 25219--25252 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25209 TCAATTTCAC
25219 CAAAAAA-AAAAAAAAAG
1 CAAAAAACAAAAAAAAAG
25236 CAAAAAACAAAAAAAAA
1 CAAAAAACAAAAAAAAA
25253 AAGAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (18 bp):
CAAAAAACAAAAAAAAAG
Found at i:25246 original size:24 final size:24
Alignment explanation
Indices: 25219--25275 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
25209 TCAATTTCAC
25219 CAAAAAAAAAAA-AAAAGCAAAAAA
1 CAAAAAAAAAAAGAAAAG-AAAAAA
*
25243 CAAAAAAAAAAAGAAAAGGAAAAA
1 CAAAAAAAAAAAGAAAAGAAAAAA
*
25267 GAAAAAAAA
1 CAAAAAAAA
25276 CCCAGACGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAAAGAAAAGAAAAAA
Found at i:25248 original size:25 final size:24
Alignment explanation
Indices: 25220--25275 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
25210 CAATTTCACC
25220 AAAAAAAAAAAAAAAGCAAAAAACA
1 AAAAAAAAAAAAAAAG-AAAAAACA
* * *
25245 AAAAAAAAAAGAAAAGGAAAAAGA
1 AAAAAAAAAAAAAAAGAAAAAACA
25269 AAAAAAA
1 AAAAAAA
25276 CCCAGACGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.88, C:0.04, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAGAAAAAACA
Found at i:26440 original size:59 final size:59
Alignment explanation
Indices: 26325--26441 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
26315 CAAACTGTTA
* * *
26325 TGAACTGAGAGCTATTACTGACCATTCAATTGTCACTCAAATTGTTTTTGAGCTATTAC
1 TGAACTGAGAGCTATTACTGACCATTCAATTGTCACTCAAACTGTTTTGGACCTATTAC
*
26384 TGAACTGGGAGCTATTACTGACCATTCAATTGTCACTCAAACTG-TTTGGCACCTATTA
1 TGAACTGAGAGCTATTACTGACCATTCAATTGTCACTCAAACTGTTTTGG-ACCTATTA
26442 TGCCTTTGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 4 0.08
59 49 0.92
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (59 bp):
TGAACTGAGAGCTATTACTGACCATTCAATTGTCACTCAAACTGTTTTGGACCTATTAC
Found at i:39825 original size:4 final size:4
Alignment explanation
Indices: 39816--39874 Score: 82
Period size: 4 Copynumber: 14.8 Consensus size: 4
39806 CATGCAATAT
* * *
39816 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAT ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
39864 ATAC ACAC ATA
1 ATAC ATAC ATA
39875 TACCCTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:42124 original size:32 final size:32
Alignment explanation
Indices: 42083--42185 Score: 156
Period size: 32 Copynumber: 3.3 Consensus size: 32
42073 TGGGCTTGAG
* *
42083 TCGGGTTCGGGTTGGATTTGGGTTAGGTTAAT
1 TCGGGTTCGGGTTGAATTTGGGTCAGGTTAAT
*
42115 TCAGGTTCGGG-T-AATTTGGGTCAGGTTAAT
1 TCGGGTTCGGGTTGAATTTGGGTCAGGTTAAT
*
42145 TCGGGTTCGGATTGAATTTGGGTCAGGTTAAT
1 TCGGGTTCGGGTTGAATTTGGGTCAGGTTAAT
42177 TCGGGTTCG
1 TCGGGTTCG
42186 AGTTCTGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 25 0.39
31 2 0.03
32 37 0.58
ACGTcount: A:0.16, C:0.10, G:0.37, T:0.38
Consensus pattern (32 bp):
TCGGGTTCGGGTTGAATTTGGGTCAGGTTAAT
Found at i:42144 original size:15 final size:15
Alignment explanation
Indices: 42098--42182 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
42088 TTCGGGTTGG
*
42098 ATTTGGGTTAGGTTA
1 ATTTGGGTCAGGTTA
* * *
42113 ATTCAGGTTC-GGGTA
1 ATT-TGGGTCAGGTTA
42128 ATTTGGGTCAGGTTA
1 ATTTGGGTCAGGTTA
*
42143 ATTCGGGTTC-GGATTGA
1 ATTTGGG-TCAGG-TT-A
42160 ATTTGGGTCAGGTTA
1 ATTTGGGTCAGGTTA
*
42175 ATTCGGGT
1 ATTTGGGT
42183 TCGAGTTCTG
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
14 4 0.07
15 30 0.56
16 11 0.20
17 9 0.17
ACGTcount: A:0.19, C:0.08, G:0.34, T:0.39
Consensus pattern (15 bp):
ATTTGGGTCAGGTTA
Found at i:42197 original size:32 final size:30
Alignment explanation
Indices: 42083--42199 Score: 117
Period size: 32 Copynumber: 3.7 Consensus size: 30
42073 TGGGCTTGAG
* *
42083 TCGGGTTCGGGTTGGATTTGGGTTAGGTTAAT
1 TCGGGTTCGGATT-G-TTTGGGTCAGGTTAAT
* * **
42115 TCAGGTTCGGGTAATTTGGGTCAGGTTAAT
1 TCGGGTTCGGATTGTTTGGGTCAGGTTAAT
42145 TCGGGTTCGGATTGAATTTGGGTCAGGTTAAT
1 TCGGGTTCGGATTG--TTTGGGTCAGGTTAAT
*
42177 TCGGGTTCGAGTTCTGTTTGGGT
1 TCGGGTTCG-GAT-TGTTTGGGT
42200 TTTGGCCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
30 25 0.35
32 43 0.60
33 2 0.03
34 2 0.03
ACGTcount: A:0.15, C:0.09, G:0.37, T:0.39
Consensus pattern (30 bp):
TCGGGTTCGGATTGTTTGGGTCAGGTTAAT
Found at i:42381 original size:32 final size:32
Alignment explanation
Indices: 42345--42458 Score: 210
Period size: 32 Copynumber: 3.6 Consensus size: 32
42335 AATTTTCGAA
*
42345 TTCGGGTTTTTTCGGATTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGG
42377 TTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGG
*
42409 TTCGTGTTTTTTCGGGTTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGG
42441 TTCGGGTTTTTTCGGGTT
1 TTCGGGTTTTTTCGGGTT
42459 CAGGTTCAGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 79 1.00
ACGTcount: A:0.04, C:0.12, G:0.32, T:0.52
Consensus pattern (32 bp):
TTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGG
Found at i:42456 original size:16 final size:16
Alignment explanation
Indices: 42345--42464 Score: 132
Period size: 16 Copynumber: 7.5 Consensus size: 16
42335 AATTTTCGAA
*
42345 TTCGGGTTTTTTCGGA
1 TTCGGGTTTTTTCGGG
* * *
42361 TTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGG
42377 TTCGGGTTTTTTCGGG
1 TTCGGGTTTTTTCGGG
* * *
42393 TTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGG
*
42409 TTCGTGTTTTTTCGGG
1 TTCGGGTTTTTTCGGG
* * *
42425 TTTGAGCTTTTTCGGG
1 TTCGGGTTTTTTCGGG
42441 TTCGGGTTTTTTCGGG
1 TTCGGGTTTTTTCGGG
*
42457 TTCAGGTT
1 TTCGGGTT
42465 CAGGCGGTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 84 1.00
ACGTcount: A:0.04, C:0.12, G:0.33, T:0.51
Consensus pattern (16 bp):
TTCGGGTTTTTTCGGG
Found at i:42548 original size:15 final size:16
Alignment explanation
Indices: 42528--42557 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42518 CGGGATCGGG
42528 TTTTCGGG-CGGGTTT
1 TTTTCGGGTCGGGTTT
42543 TTTTCGGGTCGGGTT
1 TTTTCGGGTCGGGTT
42558 CACTTTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.13, G:0.40, T:0.47
Consensus pattern (16 bp):
TTTTCGGGTCGGGTTT
Found at i:46659 original size:37 final size:37
Alignment explanation
Indices: 46612--46713 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
46602 AAAGCAGTTA
*
46612 AGAACTTAATTCAGGGCAATTAAGTAAACACAGTGAG
1 AGAACTTAATTCAGGGCAATTAAGTAAACACAGTCAG
* *
46649 AGAACTTAATTCAGGGAAATTAAGAAAACACAGTCAG
1 AGAACTTAATTCAGGGCAATTAAGTAAACACAGTCAG
*
46686 AGAACTTAATTCAGGACAATTAAGTAAA
1 AGAACTTAATTCAGGGCAATTAAGTAAA
46714 AGAAGTTAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (37 bp):
AGAACTTAATTCAGGGCAATTAAGTAAACACAGTCAG
Found at i:46780 original size:73 final size:72
Alignment explanation
Indices: 46601--46786 Score: 205
Period size: 73 Copynumber: 2.5 Consensus size: 72
46591 GCAACTGAGT
* * * *
46601 AAAAGCAGTTAAGAACTTAATTCAGGGCAATTAAGTAAACACAGTGAGAGAACTTAATTCAGGGA
1 AAAAGCAGTAAAGAACTTAATTCAGGGCAATTAAGTAAACAAAGTGAGAGAACTTAATTCACGAA
*
46666 AATTAAG
66 AATCAAG
* * * * *
46673 AAAACACAGTCAGAGAACTTAATTCAGGACAATTAAGTAAA-AGAAGTTA-AGAACTTAATTTAC
1 AAAA-GCAGT-AAAGAACTTAATTCAGGGCAATTAAGTAAACA-AAGTGAGAGAACTTAATTCAC
46736 GAAAATCAAGG
63 GAAAATCAA-G
* *
46747 AAAAGCAGTAAAAGGACTTAATTCAGGGTAATTAAGTAAA
1 AAAAGCAGT-AAAGAACTTAATTCAGGGCAATTAAGTAAA
46787 GATAAGCACA
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
72 4 0.04
73 54 0.57
74 36 0.38
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (72 bp):
AAAAGCAGTAAAGAACTTAATTCAGGGCAATTAAGTAAACAAAGTGAGAGAACTTAATTCACGAA
AATCAAG
Found at i:46801 original size:73 final size:74
Alignment explanation
Indices: 46689--47159 Score: 295
Period size: 77 Copynumber: 6.2 Consensus size: 74
46679 CAGTCAGAGA
** * *
46689 ACTTAATTCAGGACAATTAAGTAAA-AGAAGTTA-AGAACTTAATTTACG-A-AAATCAAGGA-A
1 ACTTAATTCAGGGTAATTAAGTAAAGATAAG-CACA-AACTTAATTTACGAAGAAATCAA--ATA
46749 AAG-C-AGTAAAAGG
62 AAGACAAG-AAAA-G
* * *
46762 ACTTAATTCAGGGTAATTAAGTAAAGATAAGCACAAACTTAATTCAAGGAAGGAAATTAAATAAA
1 ACTTAATTCAGGGTAATTAAGTAAAGATAAGCACAAACTTAATT-TACGAA-GAAATCAAATAAA
* *
46827 GACAAGCACAG
64 GACAAGAAAAG
* * * **
46838 ACTTAATTCAGGGTAATTAAGTAAAG-TAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAA
1 ACTTAATTCAGGGTAATTAAGTAAAGATAAGCACAAACTTAATTT--ACGAA-GAAATCAAATAA
*
46902 AGACAAGCACAA-
63 AGACAAG-AAAAG
* * * * **
46914 ACTTAATTCAGCGTAATTAAGTAAAG-TGAA-CACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 ACTTAATTCAGGGTAATTAAGTAAAGAT-AAGCACAAACTTAATTT--ACGAA-GAAATCAAATA
*
46977 AAGACAA-ACACAG
62 AAGACAAGA-AAAG
* * * **
46990 ACTTAATTCAGGGTAATTAAGTAAA-AGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 ACTTAATTCAGGGTAATTAAGTAAAGA-TAAGCACAAACTTAATTT--ACGAA-GAAATCAAATA
* *
47054 AAGACAAGCACAG
62 AAGACAAGAAAAG
* * * **
47067 ACTTAATTCAGGGTAATTAAGTAAA-AGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 ACTTAATTCAGGGTAATTAAGTAAAGA-TAAGCACAAACTTAATTT--ACGAA-GAAATCAAATA
* *
47131 AAGACAAGCACAG
62 AAGACAAGAAAAG
47144 ACTTAATTCAGGGTAA
1 ACTTAATTCAGGGTAA
47160 ACTTAATTTC
Statistics
Matches: 358, Mismatches: 21, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
73 33 0.09
74 8 0.02
75 19 0.05
76 146 0.41
77 150 0.42
78 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (74 bp):
ACTTAATTCAGGGTAATTAAGTAAAGATAAGCACAAACTTAATTTACGAAGAAATCAAATAAAGA
CAAGAAAAG
Found at i:46805 original size:36 final size:36
Alignment explanation
Indices: 46761--47159 Score: 356
Period size: 36 Copynumber: 10.5 Consensus size: 36
46751 GCAGTAAAAG
*
46761 GACTTAATTCAGGGTAATTAAGTAAAGATAAGCACA
1 GACTTAATTCAGGGTAATTAAGTAAAGACAAGCACA
* * *
46797 AACTTAATTCAAGGAAGGAAATTAAATAAAGACAAGCACA
1 GACTTAATTC-A-G--GGTAATTAAGTAAAGACAAGCACA
*
46837 GACTTAATTCAGGGTAATTAAGTAAAG-TAAGCACA
1 GACTTAATTCAGGGTAATTAAGTAAAGACAAGCACA
* *
46872 GACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GACTTAA-TTC-A-G--GGTAATTAAGTAAAGACAAGCACA
* * **
46913 AACTTAATTCAGCGTAATTAAGTAAAGTGAA-CACA
1 GACTTAATTCAGGGTAATTAAGTAAAGACAAGCACA
* * *
46948 GACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAACACA
1 GACTTAA-TTC-A-G--GGTAATTAAGTAAAGACAAGCACA
*
46989 GACTTAATTCAGGGTAATTAAGTAAA-AGTAAGCACA
1 GACTTAATTCAGGGTAATTAAGTAAAGA-CAAGCACA
* *
47025 GACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GACTTAA-TTC-A-G--GGTAATTAAGTAAAGACAAGCACA
*
47066 GACTTAATTCAGGGTAATTAAGTAAA-AGTAAGCACA
1 GACTTAATTCAGGGTAATTAAGTAAAGA-CAAGCACA
* *
47102 GACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GACTTAA-TTC-A-G--GGTAATTAAGTAAAGACAAGCACA
47143 GACTTAATTCAGGGTAA
1 GACTTAATTCAGGGTAA
47160 ACTTAATTTC
Statistics
Matches: 296, Mismatches: 37, Indels: 60
0.75 0.09 0.15
Matches are distributed among these distances:
35 26 0.09
36 97 0.33
37 9 0.03
38 10 0.03
39 7 0.02
40 69 0.23
41 76 0.26
42 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (36 bp):
GACTTAATTCAGGGTAATTAAGTAAAGACAAGCACA
Found at i:47059 original size:77 final size:76
Alignment explanation
Indices: 46761--47159 Score: 694
Period size: 76 Copynumber: 5.2 Consensus size: 76
46751 GCAGTAAAAG
* **
46761 GACTTAATTCAGGGTAATTAAGTAAAGATAAGCACAAACTTAA-TTCAAGGAAGGAAATTAAATA
1 GACTTAATTCAGGGTAATTAAGTAAAG-TAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
46825 AAGACAAGCACA
65 AAGACAAGCACA
46837 GACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAA
1 GACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAA
46902 AGACAAGCACA
66 AGACAAGCACA
* *
46913 AACTTAATTCAGCGTAATTAAGTAAAGTGAA-CACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 GACTTAATTCAGGGTAATTAAGTAAAGT-AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
*
46977 AAGACAAACACA
65 AAGACAAGCACA
46989 GACTTAATTCAGGGTAATTAAGTAAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 GACTTAATTCAGGGTAATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
47054 AAGACAAGCACA
65 AAGACAAGCACA
47066 GACTTAATTCAGGGTAATTAAGTAAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
1 GACTTAATTCAGGGTAATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
47131 AAGACAAGCACA
65 AAGACAAGCACA
47143 GACTTAATTCAGGGTAA
1 GACTTAATTCAGGGTAA
47160 ACTTAATTTC
Statistics
Matches: 310, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
75 14 0.05
76 151 0.49
77 145 0.47
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (76 bp):
GACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAA
AGACAAGCACA
Found at i:47191 original size:57 final size:57
Alignment explanation
Indices: 47103--47216 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
47093 GTAAGCACAG
*
47103 ACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACAGACTTAATTCAGGGTAA
1 ACTTAATTTCAAGGAAGGAAATTAGATAAAGACAAGCACAGACTTAATTCAGGGTAA
47160 ACTTAATTTCAAGGAAGGAAATTAGATAAAGACAAGCACAGACTTAATTCAGGGTAA
1 ACTTAATTTCAAGGAAGGAAATTAGATAAAGACAAGCACAGACTTAATTCAGGGTAA
47217 TTAAGTAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (57 bp):
ACTTAATTTCAAGGAAGGAAATTAGATAAAGACAAGCACAGACTTAATTCAGGGTAA
Found at i:47233 original size:36 final size:35
Alignment explanation
Indices: 47193--47320 Score: 148
Period size: 36 Copynumber: 3.5 Consensus size: 35
47183 AGATAAAGAC
*
47193 AAGCACAGACTTAATTCAGGGTAATTAAGTAAAAGT
1 AAGCACAAACTTAATTCAGGGTAATTAAGT-AAAGT
* * *
47229 AAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAGCACAAACTTAA-TTC-A-G--GGTAATTAAGTAAAG-T
47270 AAGCACAAACTTAATTCAGGGTAATTAAGTAAAGT
1 AAGCACAAACTTAATTCAGGGTAATTAAGTAAAGT
*
47305 AAGCACAGACTTAATT
1 AAGCACAAACTTAATT
47321 TCAAGGAAGG
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
35 15 0.19
36 26 0.33
37 3 0.04
38 2 0.03
39 2 0.03
40 7 0.09
41 23 0.29
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.23
Consensus pattern (35 bp):
AAGCACAAACTTAATTCAGGGTAATTAAGTAAAGT
Found at i:47266 original size:134 final size:134
Alignment explanation
Indices: 47077--47900 Score: 1079
Period size: 134 Copynumber: 6.0 Consensus size: 134
47067 ACTTAATTCA
*
47077 GGGTAATTAAGTAAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
* * * * * * * *
47142 AGACTTAATTCAGGGTAAACTTAATTTCAAGGAAGGA-A-A-TTAGA-TAAAGACAAGCACA-GA
66 AGACTTAATTCAGGGT-AA-TTAA-GTAAAGTAAGCACAGACTTA-ATTCAAG-GAAGGAAATGA
* * **
47202 -CTTAATTC
126 GGTAAAGAC
47210 AGGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCA
1 -GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCA
* *
47275 CAAACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGT
65 CAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGGAAGGAAATGAGGT
47340 AAAGAC
129 AAAGAC
47346 GGGTAATTAAGT-AAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
* *
47410 AGACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATAAGGTA
66 AGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGGAAGGAAATGAGGTA
47475 AAGAC
130 AAGAC
47480 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
*
47545 AGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTA
66 AGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGGAAGGAAATGAGGTA
47610 AAGAC
130 AAGAC
* *
47615 GGGTGATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
* * *
47679 AGACTTAATTTAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGTAAGGAAATTAGGTA
66 AGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGGAAGGAAATGAGGTA
47744 AAGAC
130 AAGAC
* * *
47749 AAGCACAGACTTAATTTAGGGTTATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAAT
1 --G----G--GTAA-TTA-----AGT-A--AAAGTAAGCACAAACTTAATTTCAAGGAAGGAAAT
*
47814 TAGGTAAAGACAAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAAACTTAATTTCA
49 TAGGTAAAGACAAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCA
* *
47879 AGGAAGGAAGTTAGGTAAAGAC
113 AGGAAGGAAATGAGGTAAAGAC
47901 AAGCACAGAC
Statistics
Matches: 633, Mismatches: 31, Indels: 34
0.91 0.04 0.05
Matches are distributed among these distances:
131 8 0.01
132 5 0.01
133 4 0.01
134 337 0.53
135 148 0.23
136 5 0.01
140 1 0.00
142 2 0.00
143 3 0.00
148 2 0.00
152 118 0.19
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (134 bp):
GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
AGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTCAAGGAAGGAAATGAGGTAA
AGAC
Found at i:47339 original size:76 final size:77
Alignment explanation
Indices: 47158--47345 Score: 342
Period size: 77 Copynumber: 2.5 Consensus size: 77
47148 AATTCAGGGT
* *
47158 AAACTTAATTTCAAGGAAGGAAATTAGATAAAGACAAGCACAGACTTAATTCAGGGTAATTAAGT
1 AAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACAAACTTAATTCAGGGTAATTAAGT
47223 AAAAGTAAGCAC
66 AAAAGTAAGCAC
47235 AAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACAAACTTAATTCAGGGTAATTAAGT
1 AAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACAAACTTAATTCAGGGTAATTAAGT
47300 -AAAGTAAGCAC
66 AAAAGTAAGCAC
*
47311 AGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47346 GGGTAATTAA
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 45 0.42
77 63 0.58
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (77 bp):
AAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACAAACTTAATTCAGGGTAATTAAGT
AAAAGTAAGCAC
Found at i:47378 original size:58 final size:59
Alignment explanation
Indices: 47288--47672 Score: 353
Period size: 58 Copynumber: 6.0 Consensus size: 59
47278 ACTTAATTCA
*
47288 GGGTAATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47346 GGGTAATTAAGT-AAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* * *
47404 AAGCACAGACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAAT
1 --G----G--GT-A---A--TTAAGT-A--AAAGTAAGCACAAACTTAATTTCAAGGAAGGAAAT
*
47469 AAGGTAAAGAC
49 TAGGTAAAGAC
47480 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* * *
47539 AAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAAT
1 --G----G--GTAA-T-----TAAGTAA--AA-GTAAGCACAAACTTAATTTCAAGGAAGGAAAT
47604 TAGGTAAAGAC
49 TAGGTAAAGAC
* *
47615 GGGTGATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47673 AAGCACAGAC
Statistics
Matches: 277, Mismatches: 15, Indels: 70
0.77 0.04 0.19
Matches are distributed among these distances:
58 100 0.36
59 46 0.17
60 1 0.00
61 3 0.01
62 9 0.03
64 2 0.01
65 1 0.00
66 1 0.00
67 6 0.02
68 4 0.01
70 3 0.01
72 5 0.02
73 6 0.02
74 2 0.01
75 2 0.01
76 86 0.31
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.22
Consensus pattern (59 bp):
GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
Found at i:47449 original size:35 final size:38
Alignment explanation
Indices: 47347--47461 Score: 128
Period size: 40 Copynumber: 3.0 Consensus size: 38
47337 GGTAAAGACG
*
47347 GGTAATTAAGTAAAGTAAGCACAAACTTAATTTCAAGGAA
1 GGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGG-A
* * *
47387 GGAAATTAGGTAAAGACAAGCACAGACTTAATTC-A-G-
1 GGTAATTAAGTAAAG-TAAGCACAGACTTAATTCAAGGA
*
47423 GTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGA
1 GGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAGGA
47462 AGGAAATAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
35 14 0.23
36 15 0.24
37 1 0.02
38 2 0.03
39 1 0.02
40 16 0.26
41 13 0.21
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (38 bp):
GGTAATTAAGTAAAGTAAGCACAGACTTAATTCAAGGA
Found at i:47543 original size:41 final size:41
Alignment explanation
Indices: 47498--47614 Score: 156
Period size: 36 Copynumber: 3.0 Consensus size: 41
47488 AAGTAAAAGT
*
47498 AAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* * *
47539 AAGCACAGACTTAA-TTC-A-G--GGTAATTAAGTAAAG-T
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47574 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47615 GGGTGATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
35 14 0.22
36 16 0.25
37 1 0.02
38 2 0.03
39 1 0.02
40 16 0.25
41 13 0.21
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (41 bp):
AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
Found at i:47556 original size:269 final size:270
Alignment explanation
Indices: 47077--47900 Score: 1160
Period size: 269 Copynumber: 3.0 Consensus size: 270
47067 ACTTAATTCA
47077 GGGTAATTAAGTAAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
1 GGGTAATTAAGT-AAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCAC
* * * * * * * * *
47142 AGACTTAATTCAGGGTAAACTTAATTTCAAGGAAGGA-A-A-TTAGA--TAAAGACAAGCACA-G
65 AGACTTAATTCA-GGTTAA-TTAA-GTAAAGTAAGCACAGACTTA-ATTTCAAG-CAAGGAAATA
* * **
47201 A-CTTAATTCAGGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTA
125 AGGTAAAGACAGGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTA
*
47265 AAGACAAGCACAAACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAG
190 AAGACAAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAG
47330 GAAATTAGGTAAAGAC
255 GAAATTAGGTAAAGAC
*
47346 GGGTAATTAAGTAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
*
47411 GACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATAAGGTAA
66 GACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGCAAGGAAATAAGGTAA
47476 AGAC-GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACA
131 AGACAGGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACA
47540 AGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATT
196 AGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATT
47605 AGGTAAAGAC
261 AGGTAAAGAC
*
47615 GGGTGATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
* * * *
47680 GACTTAATTTAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGTAAGGAAATTAGGTAA
66 GACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGCAAGGAAATAAGGTAA
* * *
47745 AGACAAGCACAGACTTAATTTAGGGTTATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGG
131 AGAC-AG----G--GTAA-TTA-----AGT-A--AAAGTAAGCACAAACTTAATTTCAAGGAAGG
*
47810 AAATTAGGTAAAGACAAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAAACTTAAT
180 AAATTAGGTAAAGACAAGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAAT
*
47875 TTCAAGGAAGGAAGTTAGGTAAAGAC
245 TTCAAGGAAGGAAATTAGGTAAAGAC
47901 AAGCACAGAC
Statistics
Matches: 504, Mismatches: 27, Indels: 31
0.90 0.05 0.06
Matches are distributed among these distances:
265 8 0.02
266 5 0.01
267 7 0.01
268 71 0.14
269 279 0.55
270 4 0.01
271 1 0.00
275 1 0.00
277 3 0.01
278 3 0.01
283 2 0.00
284 1 0.00
286 119 0.24
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (270 bp):
GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
GACTTAATTCAGGTTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGCAAGGAAATAAGGTAA
AGACAGGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAATTAGGTAAAGACA
AGCACAGACTTAATTCAGGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATT
AGGTAAAGAC
Found at i:47584 original size:35 final size:37
Alignment explanation
Indices: 47480--47595 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 37
47470 AGGTAAAGAC
*
47480 GGGTAATTAAGTAAAAGTAAGCACAAACTTAATTTCAAG
1 GGGTAATTAAGT-AAAGTAAGCACAGACTTAA-TTCAAG
* * *
47519 GAAGGAAATTAGGTAAAGACAAGCACAGACTTAATTC-A-
1 G--GGTAATTAAGTAAAG-TAAGCACAGACTTAATTCAAG
47557 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAG
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAA-TTCAAG
47595 G
1 G
47596 AAGGAAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
35 14 0.22
36 16 0.25
37 1 0.02
38 2 0.03
39 2 0.03
40 7 0.11
41 22 0.34
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (37 bp):
GGGTAATTAAGTAAAGTAAGCACAGACTTAATTCAAG
Found at i:47681 original size:41 final size:41
Alignment explanation
Indices: 47632--47916 Score: 327
Period size: 41 Copynumber: 7.4 Consensus size: 41
47622 TAAGTAAAGT
47632 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* * *
47673 AAGCACAGACTTAATTT--A-G--GGTAATTAAGTAAAG-T
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
*
47708 AAGCACAGACTTAATTTCAAGTAAGGAAATTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
** * *
47749 AAGCACAGACTTAATTT--A-G--GGTTATTAAGTAAAG-T
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47784 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* * *
47825 AAGCACAGACTTAA-TTC-A-G--GGTAATTAAGTAAAG-T
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
* *
47860 AAGCACAAACTTAATTTCAAGGAAGGAAGTTAGGTAAAGAC
1 AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
47901 AAGCACAGACTTAATT
1 AAGCACAGACTTAATT
47917 CAGGGTAATT
Statistics
Matches: 201, Mismatches: 25, Indels: 36
0.77 0.10 0.14
Matches are distributed among these distances:
35 47 0.23
36 41 0.20
37 3 0.01
38 4 0.02
39 3 0.01
40 40 0.20
41 63 0.31
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (41 bp):
AAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGAC
Found at i:47746 original size:76 final size:76
Alignment explanation
Indices: 47615--47953 Score: 581
Period size: 76 Copynumber: 4.5 Consensus size: 76
47605 AGGTAAAGAC
*
47615 GGGTGATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
*
47680 GACTTAATTTA
66 GACTTAATTCA
*
47691 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGTAAGGAAATTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
*
47756 GACTTAATTTA
66 GACTTAATTCA
*
47767 GGGTTATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
47832 GACTTAATTCA
66 GACTTAATTCA
* *
47843 GGGTAATTAAGTAAAGTAAGCACAAACTTAATTTCAAGGAAGGAAGTTAGGTAAAGACAAGCACA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
47908 GACTTAATTCA
66 GACTTAATTCA
* * *
47919 GGGTAATTAAGTAAA-TTAGCAAAAACTTAATTTCA
1 GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCA
47954 CATGAATTAA
Statistics
Matches: 253, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
75 18 0.07
76 235 0.93
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (76 bp):
GGGTAATTAAGTAAAGTAAGCACAGACTTAATTTCAAGGAAGGAAATTAGGTAAAGACAAGCACA
GACTTAATTCA
Found at i:48034 original size:37 final size:37
Alignment explanation
Indices: 47993--48332 Score: 527
Period size: 37 Copynumber: 9.2 Consensus size: 37
47983 TCCAAAAATG
47993 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
48030 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
*
48067 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGG
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
* * * * *
48104 ATTAAATAAAGTAAAGGACTTGATTCCAAGGATGGGG
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
* * *
48141 ATTAAGTAGAGTAAAGGACTCGATTCCAAGGAAGGGG
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
48178 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
* *
48215 AGTATGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
48252 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
* * * * * *
48289 ATTAAGTAGAGTCAGGGATTTAATTTCAAGGAAGGAA
1 ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
48326 ATTAAGT
1 ATTAAGT
48333 CAAGTCGGGG
Statistics
Matches: 281, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 281 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (37 bp):
ATTAAGTAGAGTTAAGGACTTGATTCCAAGGAAGGGA
Found at i:48380 original size:74 final size:75
Alignment explanation
Indices: 48302--48461 Score: 211
Period size: 74 Copynumber: 2.2 Consensus size: 75
48292 AAGTAGAGTC
* **
48302 AGGGATTTAATTTCAAGG-AAGGAAATTA-AGTCAAGT-CGGGGACTTAATTCAGGGTAATTAAG
1 AGGGACTTAATTTCAAGGTAAGGAAA-TAGAGTCAA-TAAAGGGACTTAATTCAGGGTAATTAAG
48364 TAGCGTCAATAA
64 TAGCGTCAATAA
* ** *
48376 AGGGACTTAA-TTCAGGGTAATTAAATAGCGTCAATAAAGGGACTTAATTCAGGGTAATTAAGTA
1 AGGGACTTAATTTCAAGGTAAGGAAATAGAGTCAATAAAGGGACTTAATTCAGGGTAATTAAGTA
48440 GCGTCAATAA
66 GCGTCAATAA
48450 AGGGACTTAATT
1 AGGGACTTAATT
48462 CGGGGTAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
73 9 0.12
74 65 0.87
75 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (75 bp):
AGGGACTTAATTTCAAGGTAAGGAAATAGAGTCAATAAAGGGACTTAATTCAGGGTAATTAAGTA
GCGTCAATAA
Found at i:48507 original size:36 final size:37
Alignment explanation
Indices: 48340--48547 Score: 312
Period size: 37 Copynumber: 5.7 Consensus size: 37
48330 AGTCAAGTCG
48340 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
1 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
*
48377 GGGACTTAATTCAGGGTAATTAAATAGCGTCAATAAA
1 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
48414 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
1 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
* * *
48451 GGGACTTAATTCGGGGTAATTAAGTAGCATCAGTAAA
1 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
* * * * *
48488 -AGACTTAATTCTGGATAATTAAGTGGAGTCAATAAA
1 GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
*
48524 -GAACTTAATTCAGGGTAATTAAGT
1 GGGACTTAATTCAGGGTAATTAAGT
48548 GGAGTTAATA
Statistics
Matches: 155, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 49 0.32
37 106 0.68
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (37 bp):
GGGACTTAATTCAGGGTAATTAAGTAGCGTCAATAAA
Found at i:54928 original size:14 final size:14
Alignment explanation
Indices: 54909--54939 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
54899 CTGAAGTTTG
*
54909 TTTTGTTCTCAAAC
1 TTTTGTTCCCAAAC
54923 TTTTGTTCCCAAAC
1 TTTTGTTCCCAAAC
54937 TTT
1 TTT
54940 ATAGAGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (14 bp):
TTTTGTTCCCAAAC
Found at i:63133 original size:19 final size:19
Alignment explanation
Indices: 63092--63134 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
63082 GATTTTTTAA
*
63092 CTACCTCATCTAAAAGAGT
1 CTACCTCATCTAAAAGAGC
* *
63111 CTACCTCCTCTAAAATAGC
1 CTACCTCATCTAAAAGAGC
63130 CTACC
1 CTACC
63135 ATTCCTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.35, G:0.07, T:0.26
Consensus pattern (19 bp):
CTACCTCATCTAAAAGAGC
Done.