Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 52 of 109
Found at i:9857123 original size:12 final size:12
Alignment explanation
Indices: 9857089--9857126 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9857079 ACACACACAC
*
9857089 ATATATATATAT
1 ATATATATATCT
9857101 ATATATATATCT
1 ATATATATATCT
*
9857113 ATATATCTATCT
1 ATATATATATCT
9857125 AT
1 AT
9857127 TTAGATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATATATCT
Found at i:9857476 original size:3 final size:3
Alignment explanation
Indices: 9857468--9857494 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9857458 TTATTAGGTG
9857468 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
9857495 GACCGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9863868 original size:2 final size:2
Alignment explanation
Indices: 9863861--9863888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9863851 TTAAAATCCT
9863861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9863889 GACACACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9864886 original size:3 final size:3
Alignment explanation
Indices: 9864878--9864906 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9864868 GGTTTTTTAG
9864878 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9864907 GTTATCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9864958 original size:14 final size:14
Alignment explanation
Indices: 9864941--9864970 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9864931 TAAAAAAATA
9864941 TTTTATATATAATCT
1 TTTTAT-TATAATCT
9864956 TTTTATTATAATCT
1 TTTTATTATAATCT
9864970 T
1 T
9864971 ATAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATTATAATCT
Found at i:9879156 original size:24 final size:24
Alignment explanation
Indices: 9879129--9879175 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9879119 CGAAAGTTTC
9879129 TAAACTCTTTGA-AAATTTTAAAAA
1 TAAA-TCTTTGATAAATTTTAAAAA
*
9879153 TAAATTTTTGATAAATTTTAAAA
1 TAAATCTTTGATAAATTTTAAAA
9879176 CTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAATCTTTGATAAATTTTAAAAA
Found at i:9887390 original size:15 final size:16
Alignment explanation
Indices: 9887370--9887399 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9887360 ATTATTTAAT
9887370 AAAATTA-AAATTTTA
1 AAAATTATAAATTTTA
9887385 AAAATTATAAATTTT
1 AAAATTATAAATTTT
9887400 GAGTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTATAAATTTTA
Found at i:9887531 original size:14 final size:14
Alignment explanation
Indices: 9887497--9887523 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9887487 AATGTAAAAA
9887497 AATAAATAAAGAAT
1 AATAAATAAAGAAT
9887511 AATAAATAAAGAA
1 AATAAATAAAGAA
9887524 AGTTAAATGA
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:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AATAAATAAAGAAT
Found at i:9896608 original size:2 final size:2
Alignment explanation
Indices: 9896603--9896628 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9896593 ATCCAGTCAC
9896603 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9896629 ATTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9899032 original size:2 final size:2
Alignment explanation
Indices: 9899025--9899055 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9899015 GACTTTTCAA
9899025 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9899056 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9902748 original size:2 final size:2
Alignment explanation
Indices: 9902741--9902776 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9902731 AGCACCAAAT
9902741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9902777 AAGTATGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9910832 original size:2 final size:2
Alignment explanation
Indices: 9910825--9910861 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9910815 TTGTTAAACT
9910825 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9910862 GAGTTGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9919987 original size:11 final size:11
Alignment explanation
Indices: 9919968--9919998 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9919958 AATTTCATAA
9919968 GAAATTTATTT
1 GAAATTTATTT
*
9919979 GAGATTTATTT
1 GAAATTTATTT
9919990 GAAATTTAT
1 GAAATTTAT
9919999 CAGATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (11 bp):
GAAATTTATTT
Found at i:9920175 original size:52 final size:52
Alignment explanation
Indices: 9920033--9920177 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 52
9920023 ACTTATAAAA
* * * *
9920033 AAAAATTTTAAGAGAAAAAAGATTCTTAATAATTAAGTTTGACTTGCAAGAG
1 AAAAATTTTAAGAGGAAAAGGATTCTTAATAAGTAAGTTTGACTTACAAGAG
* * * *
9920085 AATAATTTTAAAAGGAAAAGGATTCTTAATAAGCAAGTTTGACTTACAGGAG
1 AAAAATTTTAAGAGGAAAAGGATTCTTAATAAGTAAGTTTGACTTACAAGAG
* * **
9920137 AAAAATTCTAAGAGGAAAGGGATTCTTAATGGGTAAGTTTG
1 AAAAATTTTAAGAGGAAAAGGATTCTTAATAAGTAAGTTTG
9920178 TATGGTTATA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (52 bp):
AAAAATTTTAAGAGGAAAAGGATTCTTAATAAGTAAGTTTGACTTACAAGAG
Found at i:9920805 original size:22 final size:22
Alignment explanation
Indices: 9920770--9920839 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 22
9920760 GAGAAGAGTT
*
9920770 AAAGATTCAAGATGTGGAAAGAGC
1 AAAG-TTCGAGATGTGG-AAGAGC
*
9920794 -AGGTTCGAGATGTGGAAGAGC
1 AAAGTTCGAGATGTGGAAGAGC
9920815 TAAAAGTTCGAGATGTGGGAAGAGC
1 --AAAGTTCGAGATGT-GGAAGAGC
9920840 TAAAAGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.15
22 11 0.28
23 2 0.05
24 12 0.31
25 8 0.21
ACGTcount: A:0.37, C:0.09, G:0.36, T:0.19
Consensus pattern (22 bp):
AAAGTTCGAGATGTGGAAGAGC
Found at i:9920829 original size:46 final size:47
Alignment explanation
Indices: 9920747--9920839 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
9920737 TCAAAGTTGA
*
9920747 AGGTTCGAAACGTGAGAAGAGTTAAAGATTCAAGATGTGGAAAGAGC
1 AGGTTCGAAACGTGAGAAGAGTAAAAGATTCAAGATGTGGAAAGAGC
* * * *
9920794 AGGTTCGAGATGTG-GAAGAGCTAAAAG-TTCGAGATGTGGGAAGAGC
1 AGGTTCGAAACGTGAGAAGAG-TAAAAGATTCAAGATGTGGAAAGAGC
9920840 TAAAAGTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
46 23 0.57
47 17 0.43
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (47 bp):
AGGTTCGAAACGTGAGAAGAGTAAAAGATTCAAGATGTGGAAAGAGC
Found at i:9920841 original size:25 final size:25
Alignment explanation
Indices: 9920796--9920861 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
9920786 GAAAGAGCAG
9920796 GTTCGAGATGT-GGAAGAGCTAAAA
1 GTTCGAGATGTGGGAAGAGCTAAAA
9920820 GTTCGAGATGTGGGAAGAGCTAAAA
1 GTTCGAGATGTGGGAAGAGCTAAAA
** *
9920845 GTTTAAGATGTGAGAAG
1 GTTCGAGATGTGGGAAG
9920862 TGTATGGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 11 0.29
25 27 0.71
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (25 bp):
GTTCGAGATGTGGGAAGAGCTAAAA
Found at i:9921234 original size:52 final size:51
Alignment explanation
Indices: 9921154--9921257 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
9921144 TAGACAAGAA
* **
9921154 GACTTGCAAAAGAAGAATTCTAAGAGAAAAATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAAAT-ATTCTTAATAGACAAGTTT
* * **
9921206 GACTTGCAAGA-AAGAATTTTAAAAAGAAAGGTATTCTTAATAGACAAGTTT
1 GACTTGCAAAAGAAGAATTCT-AAAAGAAAAATATTCTTAATAGACAAGTTT
9921257 G
1 G
9921258 TATGGTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 26 0.59
52 18 0.41
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (51 bp):
GACTTGCAAAAGAAGAATTCTAAAAGAAAAATATTCTTAATAGACAAGTTT
Found at i:9925701 original size:2 final size:2
Alignment explanation
Indices: 9925694--9925729 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9925684 TTTGAAACTT
*
9925694 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9925730 ATCAAGCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9928820 original size:22 final size:22
Alignment explanation
Indices: 9928794--9928835 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9928784 TGTATATTTA
*
9928794 TATTTGTATCTCTAGAATTAGG
1 TATTTGTATCCCTAGAATTAGG
9928816 TATTTGTATCCCTAGAATTA
1 TATTTGTATCCCTAGAATTA
9928836 AGGAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAGG
Found at i:9929240 original size:18 final size:18
Alignment explanation
Indices: 9929217--9929251 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9929207 ATGTTCTTTG
*
9929217 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
9929235 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
9929252 TCATTGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:9932695 original size:22 final size:22
Alignment explanation
Indices: 9932669--9932710 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9932659 TGTATATTTA
*
9932669 TATTTGTATCTCTAGAATTAGG
1 TATTTGTATCCCTAGAATTAGG
*
9932691 TATTTGTGTCCCTAGAATTA
1 TATTTGTATCCCTAGAATTA
9932711 AGGAAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAGG
Found at i:9950290 original size:20 final size:20
Alignment explanation
Indices: 9950265--9950304 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9950255 GCTTGGGTTT
*
9950265 CGTTGAAAAGTACCGAATCG
1 CGTTGAAAAGTACAGAATCG
9950285 CGTTGAAAAGTACAGAATCG
1 CGTTGAAAAGTACAGAATCG
9950305 TACTCCCAAA
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:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (20 bp):
CGTTGAAAAGTACAGAATCG
Found at i:9952464 original size:2 final size:2
Alignment explanation
Indices: 9952457--9952486 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9952447 AACTTAGCGT
9952457 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9952487 AGGTTTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9952656 original size:129 final size:129
Alignment explanation
Indices: 9952469--9952723 Score: 492
Period size: 129 Copynumber: 2.0 Consensus size: 129
9952459 TGTGTGTGTG
9952469 TGTGTGTGTGTGTGTGTGAGGTTTGACATAGGCTGTTGCATTGCATTGTTGGCTTTTGCTGAAGC
1 TGTGTGTGTGTGTGTGTGAGGTTTGACATAGGCTGTTGCATTGCATTGTTGGCTTTTGCTGAAGC
9952534 CCGTGAAAACATGAAGAATCGAACCCATTAAAAGAGCCTTCACAAGTTAATTGGGCTAATGATC
66 CCGTGAAAACATGAAGAATCGAACCCATTAAAAGAGCCTTCACAAGTTAATTGGGCTAATGATC
* *
9952598 TGTGTGTGTGTGTGTGTGAGGTTTGACATGGGCTGTTGCATTGTATTGTTGGCTTTTGCTGAAGC
1 TGTGTGTGTGTGTGTGTGAGGTTTGACATAGGCTGTTGCATTGCATTGTTGGCTTTTGCTGAAGC
9952663 CCGTGAAAACATGAAGAATCGAACCCATTAAAAGAGCCTTCACAAGTTAATTGGGCTAATG
66 CCGTGAAAACATGAAGAATCGAACCCATTAAAAGAGCCTTCACAAGTTAATTGGGCTAATG
9952724 GATCAGACTG
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (129 bp):
TGTGTGTGTGTGTGTGTGAGGTTTGACATAGGCTGTTGCATTGCATTGTTGGCTTTTGCTGAAGC
CCGTGAAAACATGAAGAATCGAACCCATTAAAAGAGCCTTCACAAGTTAATTGGGCTAATGATC
Found at i:9964170 original size:19 final size:19
Alignment explanation
Indices: 9964138--9964180 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9964128 TTTCTTGTCT
*
9964138 CTTAATAATATAATCTATA
1 CTTAATAATATAATATATA
9964157 CTTAACTAAT-TAATATATA
1 CTTAA-TAATATAATATATA
*
9964176 ATTAA
1 CTTAA
9964181 GCTGATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (19 bp):
CTTAATAATATAATATATA
Found at i:9964871 original size:21 final size:22
Alignment explanation
Indices: 9964846--9964888 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9964836 CTTTCATAAA
9964846 GAGTATTATT-TTT-ATTTTAAG
1 GAGTATT-TTATTTAATTTTAAG
9964867 GAGTATTTTATTTAATTTTAAG
1 GAGTATTTTATTTAATTTTAAG
9964889 CGAAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 10 0.50
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (22 bp):
GAGTATTTTATTTAATTTTAAG
Found at i:9965256 original size:28 final size:28
Alignment explanation
Indices: 9965219--9965283 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
9965209 TTTGAATTGA
9965219 AAAAATATATCATAATTTGTATAAATAT
1 AAAAATATATCATAATTTGTATAAATAT
9965247 AAAAATATATCATAATTTGTATAAATAT
1 AAAAATATATCATAATTTGTATAAATAT
9965275 AAAAATATA
1 AAAAATATA
9965284 AAACATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAAATATATCATAATTTGTATAAATAT
Found at i:9965343 original size:11 final size:11
Alignment explanation
Indices: 9965329--9965364 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9965319 AAAATTTAAA
9965329 TTATATTATTT
1 TTATATTATTT
*
9965340 TTATATTTTTAT
1 TTATATTATT-T
9965352 TTATATTATTT
1 TTATATTATTT
9965363 TT
1 TT
9965365 TTATCGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATATTATTT
Found at i:9972127 original size:17 final size:17
Alignment explanation
Indices: 9972097--9972142 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
9972087 ATTAAACAGA
9972097 TATAATATTATTATTTT
1 TATAATATTATTATTTT
9972114 TAATAATA-TATTATTTT
1 T-ATAATATTATTATTTT
*
9972131 TATAATTTTATT
1 TATAATATTATT
9972143 TGTTGTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATAATATTATTATTTT
Found at i:9973726 original size:10 final size:10
Alignment explanation
Indices: 9973711--9973735 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9973701 GAAATACGGA
9973711 ACTATATAGG
1 ACTATATAGG
9973721 ACTATATAGG
1 ACTATATAGG
9973731 ACTAT
1 ACTAT
9973736 CACTTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (10 bp):
ACTATATAGG
Found at i:9983810 original size:2 final size:2
Alignment explanation
Indices: 9983803--9983827 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9983793 CTAGACTGAC
9983803 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 A
9983828 CATACTGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9985745 original size:18 final size:18
Alignment explanation
Indices: 9985704--9985746 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
9985694 ACGTTCTTAA
* *
9985704 TTATTATATATTATCAAT
1 TTATTAAATAATATCAAT
**
9985722 AAATTAAATAATATCAAT
1 TTATTAAATAATATCAAT
9985740 TTATTAA
1 TTATTAA
9985747 TAAATAAATA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATTAAATAATATCAAT
Found at i:9986241 original size:5 final size:5
Alignment explanation
Indices: 9986231--9986255 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9986221 GGTTAGTACT
9986231 CCCAG CCCAG CCCAG CCCAG CCCAG
1 CCCAG CCCAG CCCAG CCCAG CCCAG
9986256 GGACGAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
CCCAG
Found at i:9986619 original size:23 final size:22
Alignment explanation
Indices: 9986575--9986639 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
9986565 TATTTTTTAA
9986575 TAAAATATATTAATTT-TAATTAATT
1 TAAAATA-A-TAATTTAT-ATT-ATT
9986600 TAAAATAATAATTTATATTATT
1 TAAAATAATAATTTATATTATT
9986622 TAATAA-AA-AATTTATATT
1 TAA-AATAATAATTTATATT
9986640 TTATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.26
22 8 0.21
23 11 0.29
24 2 0.05
25 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATAATAATTTATATTATT
Found at i:9986631 original size:27 final size:27
Alignment explanation
Indices: 9986558--9986632 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 27
9986548 AAATATATAT
* * * *
9986558 TAATATATATTTTTTAATAAAATATAT
1 TAATTTATATTATTTAATAAAAAATAA
**
9986585 TAATTT-TA--A-TTAATTTAAAATAA
1 TAATTTATATTATTTAATAAAAAATAA
9986608 TAATTTATATTATTTAATAAAAAAT
1 TAATTTATATTATTTAATAAAAAAT
9986633 TTATATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
23 16 0.44
24 2 0.06
26 3 0.08
27 15 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TAATTTATATTATTTAATAAAAAATAA
Found at i:9993186 original size:33 final size:33
Alignment explanation
Indices: 9993139--9993206 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
9993129 AGAGAGCATA
*
9993139 AATTAAACATAAATTAAGGGCAGCCACTGTCAC
1 AATTAAACACAAATTAAGGGCAGCCACTGTCAC
9993172 AATTAAACACAAATTAAGGGCAGCCACTGTCAC
1 AATTAAACACAAATTAAGGGCAGCCACTGTCAC
9993205 AA
1 AA
9993207 ATGTATCGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (33 bp):
AATTAAACACAAATTAAGGGCAGCCACTGTCAC
Found at i:10000509 original size:41 final size:41
Alignment explanation
Indices: 10000448--10000529 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
10000438 TAATAGGTAA
10000448 AAGTTAGAGAAAAGGTTGCTGCAATACCACTGAACATCTTC
1 AAGTTAGAGAAAAGGTTGCTGCAATACCACTGAACATCTTC
10000489 AAGTTAGAGAAAAGAG-TGCTGCAATACCACTGAACATCTTC
1 AAGTTAGAGAAAAG-GTTGCTGCAATACCACTGAACATCTTC
10000530 CGCGTGGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 39 0.98
42 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (41 bp):
AAGTTAGAGAAAAGGTTGCTGCAATACCACTGAACATCTTC
Found at i:10007749 original size:31 final size:31
Alignment explanation
Indices: 10007708--10007770 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
10007698 TTTATGAGTA
* *
10007708 AACTTGACATAAAGTACATACAGATCACAAG
1 AACTTAACATAAAATACATACAGATCACAAG
10007739 AACTTAACATAAAATACATACAGATCACAAG
1 AACTTAACATAAAATACATACAGATCACAAG
10007770 A
1 A
10007771 TTCACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (31 bp):
AACTTAACATAAAATACATACAGATCACAAG
Found at i:10017032 original size:25 final size:26
Alignment explanation
Indices: 10017001--10017059 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
10016991 TTAGCATGCA
10017001 ATATTTTTAAAATATAA-TATTTAAT
1 ATATTTTTAAAATATAATTATTTAAT
* *
10017026 ATATTTTT--ATTATAATTATTTACT
1 ATATTTTTAAAATATAATTATTTAAT
*
10017050 TTATTTTTAA
1 ATATTTTTAA
10017060 CATGCAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 6 0.21
24 14 0.50
25 8 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
ATATTTTTAAAATATAATTATTTAAT
Found at i:10025529 original size:11 final size:11
Alignment explanation
Indices: 10025513--10025583 Score: 67
Period size: 11 Copynumber: 6.7 Consensus size: 11
10025503 GTGTAAATGG
10025513 TATTTTAATAA
1 TATTTTAATAA
*
10025524 TATTTTAGTAA
1 TATTTTAATAA
10025535 TATTTT-AT-A
1 TATTTTAATAA
** * *
10025544 T-TAATGATAT
1 TATTTTAATAA
*
10025554 TATTTTAGTAA
1 TATTTTAATAA
10025565 TATTTTAATAA
1 TATTTTAATAA
10025576 TATTTTAA
1 TATTTTAA
10025584 ATTAATTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 2 0.04
11 38 0.83
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:10025630 original size:18 final size:18
Alignment explanation
Indices: 10025607--10025653 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 18
10025597 TCATTTAGAG
**
10025607 AATATTAGATATTGAATT
1 AATATTAGATATTGAAAA
10025625 AATATT-GAT-TT-AAAA
1 AATATTAGATATTGAAAA
10025640 AATATTAGATATTG
1 AATATTAGATATTG
10025654 GTTTGATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
AATATTAGATATTGAAAA
Found at i:10025663 original size:33 final size:33
Alignment explanation
Indices: 10025593--10025669 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
10025583 AATTAATTTT
* * *
10025593 ATATTCATTTAGAGAATATTAGATATTGAATTA
1 ATATTGATTTAAAAAATATTAGATATTGAATTA
** *
10025626 ATATTGATTTAAAAAATATTAGATATTGGTTTG
1 ATATTGATTTAAAAAATATTAGATATTGAATTA
10025659 ATATTGATTTA
1 ATATTGATTTA
10025670 TATATTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.45
Consensus pattern (33 bp):
ATATTGATTTAAAAAATATTAGATATTGAATTA
Found at i:10036601 original size:19 final size:18
Alignment explanation
Indices: 10036573--10036610 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10036563 ATTTAGATAA
*
10036573 TTTTTTATAAATATATAT
1 TTTTTTATAAAAATATAT
10036591 TTTTTTCATAAAAATATAT
1 TTTTTT-ATAAAAATATAT
10036610 T
1 T
10036611 AATTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTATAAAAATATAT
Found at i:10042644 original size:28 final size:29
Alignment explanation
Indices: 10042610--10042687 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 29
10042600 ACAAAATCAT
*
10042610 CACTTGTAAGATTTCAACCAATCT-TTTG
1 CACTTGTAAGATTTCAAACAATCTATTTG
* * *
10042638 CCCTTGTAA-AATTCAAATAAT-TATTTG
1 CACTTGTAAGATTTCAAACAATCTATTTG
10042665 CACTTGTAAGATTTCAAACAATC
1 CACTTGTAAGATTTCAAACAATC
10042688 ATTCTTAGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (29 bp):
CACTTGTAAGATTTCAAACAATCTATTTG
Found at i:10044581 original size:16 final size:16
Alignment explanation
Indices: 10044560--10044597 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10044550 ATCATTAAAA
10044560 ATTATCATAAATCATC
1 ATTATCATAAATCATC
10044576 ATTATCATAAATCATC
1 ATTATCATAAATCATC
10044592 ATTATC
1 ATTATC
10044598 CTTCAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATCATAAATCATC
Found at i:10047792 original size:2 final size:2
Alignment explanation
Indices: 10047785--10047823 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10047775 TTGGTAGGAA
10047785 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10047824 TTTGTTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10053122 original size:12 final size:12
Alignment explanation
Indices: 10053105--10053129 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10053095 TTAAATTATA
10053105 AATAATTTTTTT
1 AATAATTTTTTT
10053117 AATAATTTTTTT
1 AATAATTTTTTT
10053129 A
1 A
10053130 CATATTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATAATTTTTTT
Found at i:10060702 original size:2 final size:2
Alignment explanation
Indices: 10060695--10060719 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10060685 AAACAACAAA
10060695 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
10060720 ACCCAAGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10061431 original size:22 final size:23
Alignment explanation
Indices: 10061386--10061432 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
10061376 CAGACATTCT
* * *
10061386 AATTTATATTATATTTTATTTAA
1 AATTTATATCATAATTTATATAA
10061409 AATTT-TATCATAATTTATATAA
1 AATTTATATCATAATTTATATAA
10061431 AA
1 AA
10061433 AATATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTATATCATAATTTATATAA
Found at i:10073792 original size:2 final size:2
Alignment explanation
Indices: 10073785--10073812 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10073775 ACATAGCTTC
10073785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10073813 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10077263 original size:27 final size:27
Alignment explanation
Indices: 10077216--10077294 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
10077206 CAAAATCATC
* * *
10077216 ACTTGTAAGAGTTCAACCAATCTTTTG
1 ACTTGTAAGAATTCAAACAATCATTTG
*
10077243 CCCTTGTAA-AATTCAAACAATCATTTG
1 -ACTTGTAAGAATTCAAACAATCATTTG
*
10077270 ACTTGTAAGATTTCAAACAATCATT
1 ACTTGTAAGAATTCAAACAATCATT
10077295 CTTAACCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.16
27 30 0.68
28 7 0.16
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (27 bp):
ACTTGTAAGAATTCAAACAATCATTTG
Found at i:10088494 original size:2 final size:2
Alignment explanation
Indices: 10088487--10088518 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10088477 GAAATCAGAA
10088487 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10088519 GTTCTAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10091591 original size:371 final size:368
Alignment explanation
Indices: 10090908--10091907 Score: 1563
Period size: 371 Copynumber: 2.7 Consensus size: 368
10090898 ACCATGCTTT
* * *
10090908 TGTCACGGACCTAAAGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGAGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
* * * * *
10090973 AAAAGGATTCACACCACCTTCACCTTGTAAAGCATCTTTTGTAGGACAAAACCGTGAAGTCAGGG
66 AAAAGG-TTCACACCACCTTCACCTTGTGAGGCGTCTTTTGTAGGACAAAATCGTGAGGTCAGGG
* * * * *
10091038 GAGCCAGAGCGGACAATACCTCACAACGG-TATAAACCGTGACGGGAAGACTGATCTGCGACGCC
130 G-GCCAGAGCGGACAATACCTCACAA-GGATGTGAACCGTGGCGGGAAGGCTGATCTGAGACGCC
10091102 GGAAGGGTGAATGCCTGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAA
193 GGAAGGGTGAATGCC-GGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAA
10091167 GTGGTATCAGAGCCAACCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGCAGGC-AGG
257 GTGGTATCAGAGCCAACCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGCAGGCAAGG
* * *
10091231 ATGGTCAACCTCCGTGAAGAGGGCGTCACGAGGTTGGGTGCGGGAGAA
322 -TAGTCAACCTCCGTGAAGAGGGCATCACGAGGTTAGGTGCGGGAGAA
10091279 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
* *
10091344 AAAAGTGTTCACACCACTTTCACCTTGTGAGGCGTCTTTTGTAGAACAAAATCGTGAGGTCAGAG
66 AAAAG-GTTCACACCACCTTCACCTTGTGAGGCGTCTTTTGTAGGACAAAATCGTGAGGTCAG-G
* *
10091409 GGGCCAGAGCGGACAATACCTCACAAGGATGTGAACCGTGGCGGGAAGGCTGATCTGGGACTCCG
129 GGGCCAGAGCGGACAATACCTCACAAGGATGTGAACCGTGGCGGGAAGGCTGATCTGAGACGCCG
* * *
10091474 AAAGGGTGAATGCTCGGGTCCCGGAGCCGCACGGGTTCGGAGCTTAAGTCTCTACCCGTGACAAG
194 GAAGGGTGAATGC-CGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAG
*
10091539 TGGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGCAGGCAAGGT
258 TGGTATCAGAGCCAACCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGCAGGCAAGGT
* *
10091604 AGTCAGCCTCCGTGACGAGGGCATCACGAGGTTAGGTGCGGGAGAA
323 AGTCAACCTCCGTGAAGAGGGCATCACGAGGTTAGGTGCGGGAGAA
* *
10091650 TGTCACGAACCTAAGGAAGAGTCCCGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
1 TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
*
10091715 AAAAGGGTTCACACCACCTTCACCTTGTGAGGCGTCTTTTGTAGGATAAAATCGTGAGGTCAGGG
66 AAAA-GGTTCACACCACCTTCACCTTGTGAGGCGTCTTTTGTAGGACAAAATCGTGAGGTCA-GG
* * *
10091780 GGGCCAAACCAGACAATACCTCACAAGGATGTGAACCGTGGCGGGAAGGCTGATCTGAGACGCCG
129 GGGCCAGAGCGGACAATACCTCACAAGGATGTGAACCGTGGCGGGAAGGCTGATCTGAGACGCCG
* * * *
10091845 GAAGGGTGAATGCCCGAGTCCCGGAGCCACGCGAGTTCGGAACTTAAGTCTCGACCCGTGACA
194 GAAGGGTGAATG-CCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACA
10091908 CTTTCGGCTT
Statistics
Matches: 579, Mismatches: 42, Indels: 16
0.91 0.07 0.03
Matches are distributed among these distances:
370 2 0.00
371 566 0.98
372 11 0.02
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.18
Consensus pattern (368 bp):
TGTCACGGACCTAAGGAAGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCTTGGGGTAT
AAAAGGTTCACACCACCTTCACCTTGTGAGGCGTCTTTTGTAGGACAAAATCGTGAGGTCAGGGG
GCCAGAGCGGACAATACCTCACAAGGATGTGAACCGTGGCGGGAAGGCTGATCTGAGACGCCGGA
AGGGTGAATGCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGTGG
TATCAGAGCCAACCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGCAGGCAAGGTAGT
CAACCTCCGTGAAGAGGGCATCACGAGGTTAGGTGCGGGAGAA
Found at i:10099508 original size:41 final size:41
Alignment explanation
Indices: 10099430--10099508 Score: 92
Period size: 41 Copynumber: 1.9 Consensus size: 41
10099420 AAAAAATATA
* *
10099430 TTTTATTTTTAATATTTCAATACAAATTATTATATAATTAT
1 TTTTATTTTTAATATTTCAATACAAATTATAACATAATTAT
10099471 TTTTATATTTTATATATTT-AATACGAAA-TA-AACATAAT
1 TTTTAT-TTTTA-ATATTTCAATAC-AAATTATAACATAAT
10099509 AAATTATCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
41 12 0.36
42 12 0.36
43 9 0.27
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (41 bp):
TTTTATTTTTAATATTTCAATACAAATTATAACATAATTAT
Found at i:10100033 original size:2 final size:2
Alignment explanation
Indices: 10100028--10100058 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10100018 CATCGTCCTC
*
10100028 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10100059 CAACAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10100864 original size:3 final size:3
Alignment explanation
Indices: 10100856--10100882 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10100846 CTGCTTATCG
10100856 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
10100883 AATAATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:10104104 original size:22 final size:20
Alignment explanation
Indices: 10104056--10104110 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 20
10104046 GATCCGTTAC
* *
10104056 ATATATAATTATTTTTAATT
1 ATATATATTTAATTTTAATT
10104076 A-AT-TATTTAATTTTATATCT
1 ATATATATTTAATTTTA-AT-T
*
10104096 ATATATATTTTATTT
1 ATATATATTTAATTT
10104111 ATTTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.36
19 4 0.14
20 3 0.11
21 2 0.07
22 9 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATATTTAATTTTAATT
Found at i:10109796 original size:18 final size:18
Alignment explanation
Indices: 10109759--10109792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10109749 TTAAATCAAG
*
10109759 TTATATATTTTTATTAAT
1 TTATATATTTTTATAAAT
10109777 TTATATATTTTT-TAAA
1 TTATATATTTTTATAAA
10109793 ATTTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 3 0.20
18 12 0.80
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATATATTTTTATAAAT
Found at i:10110016 original size:23 final size:24
Alignment explanation
Indices: 10109977--10110027 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
10109967 TATCTATTTA
* *
10109977 AATATATTAAAATTTTATTAAAAT
1 AATATATTAAAAATTTAATAAAAT
*
10110001 AATATA-TAAAAATTTAATAAATT
1 AATATATTAAAAATTTAATAAAAT
10110024 AATA
1 AATA
10110028 AATCAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATATATTAAAAATTTAATAAAAT
Found at i:10110022 original size:22 final size:24
Alignment explanation
Indices: 10109977--10110050 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 24
10109967 TATCTATTTA
* *
10109977 AATATATTAAAATTTTATTAAAA-T
1 AATATA-TAAAAATTTAATAAAATT
10110001 AATATATAAAAATTTAAT-AAATT
1 AATATATAAAAATTTAATAAAATT
* * **
10110024 AATAAAT-CAAATTTAATTTAATT
1 AATATATAAAAATTTAATAAAATT
10110047 AATA
1 AATA
10110051 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.28
23 25 0.58
24 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATATAAAAATTTAATAAAATT
Found at i:10110044 original size:19 final size:19
Alignment explanation
Indices: 10110022--10110058 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10110012 ATTTAATAAA
*
10110022 TTAATAAATCAAATTTAAT
1 TTAATAAATAAAATTTAAT
*
10110041 TTAATTAATAAAATTTAA
1 TTAATAAATAAAATTTAA
10110059 ATAAAATCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATAAATAAAATTTAAT
Found at i:10110046 original size:23 final size:22
Alignment explanation
Indices: 10110010--10110052 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
10110000 TAATATATAA
10110010 AAATTTAATAAATTAATAAATC
1 AAATTTAATAAATTAATAAATC
*
10110032 AAATTTAATTTAATTAATAAA
1 AAATTTAA-TAAATTAATAAA
10110053 ATTTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTTAATAAATTAATAAATC
Found at i:10116080 original size:3 final size:3
Alignment explanation
Indices: 10116072--10116097 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10116062 TTGAATCTCT
10116072 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10116098 CTTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10120777 original size:17 final size:17
Alignment explanation
Indices: 10120742--10120783 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10120732 CATAAATACA
*
10120742 TTTTTTAATGTTTTATT
1 TTTTTTAAAGTTTTATT
*
10120759 TTTTTTAAAGTATT-TT
1 TTTTTTAAAGTTTTATT
*
10120775 TTTATTAAA
1 TTTTTTAAA
10120784 TAAATGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTTTAAAGTTTTATT
Found at i:10138914 original size:12 final size:12
Alignment explanation
Indices: 10138897--10138928 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10138887 CCCTCCTCTA
*
10138897 CTGCCCTTACTC
1 CTGCCCTCACTC
10138909 CTGCCCTCACTC
1 CTGCCCTCACTC
10138921 CTGCCCTC
1 CTGCCCTC
10138929 TCAACCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.56, G:0.09, T:0.28
Consensus pattern (12 bp):
CTGCCCTCACTC
Found at i:10139866 original size:27 final size:26
Alignment explanation
Indices: 10139823--10139875 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
10139813 ATAGGATGAC
10139823 ATTATTTAATCTAATCCTATTCATAAT
1 ATTATTTAATCTAATCCTA-TCATAAT
*
10139850 ATTATCTTATTCT-ATCCTATCATAAT
1 ATTAT-TTAATCTAATCCTATCATAAT
10139876 CTTGTGTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATTTAATCTAATCCTATCATAAT
Found at i:10141573 original size:22 final size:20
Alignment explanation
Indices: 10141548--10141588 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
10141538 AGTGTTGTAC
10141548 TTTTAACTGGTTTTTTTTTTTG
1 TTTTAACT--TTTTTTTTTTTG
*
10141570 TTTTTACTTTTTTTTTTTT
1 TTTTAACTTTTTTTTTTTT
10141589 AACTGTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
22 7 0.39
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTAACTTTTTTTTTTTTG
Found at i:10142884 original size:19 final size:19
Alignment explanation
Indices: 10142844--10142886 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10142834 TAATCTAAGT
*
10142844 ATATTTATTTTAAATATTA
1 ATATTTATTTTAAATATAA
*
10142863 ATATTTATTTATTAATA-AA
1 ATATTTATTT-TAAATATAA
10142882 ATATT
1 ATATT
10142887 ATCCAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATTTATTTTAAATATAA
Found at i:10146363 original size:38 final size:38
Alignment explanation
Indices: 10146321--10146396 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
10146311 ACAAAGTTAA
*
10146321 CCTGAACTGTCAATTTCAATGCACACAAGACATCCAAG
1 CCTGAACTGTCAATTTCAATACACACAAGACATCCAAG
10146359 CCTGAACTGTCAATTTCAATACACACAAGACATCCAAG
1 CCTGAACTGTCAATTTCAATACACACAAGACATCCAAG
10146397 TTCCAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (38 bp):
CCTGAACTGTCAATTTCAATACACACAAGACATCCAAG
Found at i:10151701 original size:12 final size:12
Alignment explanation
Indices: 10151684--10151721 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10151674 GATACTAAAC
10151684 TTAAATAAATAT
1 TTAAATAAATAT
10151696 TTAAATAAAT-T
1 TTAAATAAATAT
*
10151707 TAAATATAAATAT
1 TTAA-ATAAATAT
10151720 TT
1 TT
10151722 CAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 4 0.18
12 16 0.73
13 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAATAAATAT
Found at i:10154771 original size:2 final size:2
Alignment explanation
Indices: 10154764--10154792 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10154754 AATGATTTGC
10154764 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 A
10154793 ATCAAGTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10158181 original size:22 final size:22
Alignment explanation
Indices: 10158155--10158197 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10158145 TGTATATTTA
*
10158155 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10158177 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
10158198 AGAAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:10158380 original size:23 final size:23
Alignment explanation
Indices: 10158360--10158445 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
10158350 AAAATTTTCA
* *
10158360 GCCTTCATTGCTGACTTTTTTAG
1 GCCTTCATTGCCGAATTTTTTAG
*
10158383 GCATTCATTGCCGAATTTTTTAG
1 GCCTTCATTGCCGAATTTTTTAG
* *
10158406 GCCTTCATTGTCGAATCCTGTTTAG
1 GCCTTCATTGCCGAAT--TTTTTAG
10158431 GCCTTCATTGCCGAA
1 GCCTTCATTGCCGAA
10158446 CCCTTTCAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 34 0.63
25 20 0.37
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (23 bp):
GCCTTCATTGCCGAATTTTTTAG
Found at i:10162113 original size:22 final size:22
Alignment explanation
Indices: 10162087--10162130 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10162077 TGTATATTTA
*
10162087 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10162109 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10162131 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:10163180 original size:104 final size:104
Alignment explanation
Indices: 10162996--10163205 Score: 375
Period size: 104 Copynumber: 2.0 Consensus size: 104
10162986 GCTACATCAA
* *
10162996 TGGAAACTGTATGCAGATCTATGAAAAAATAGTGAGCATAATGTATCTAATAAGTACCCTGCAAG
1 TGGAAACTGTATGCAGATCTATGAAAAAATAATGAGCAAAATGTATCTAATAAGTACCCTGCAAG
*
10163061 CTCAGCACCATAGTTGGTATGAAAACTATTTATCAACAT
66 CTCAGCACCAGAGTTGGTATGAAAACTATTTATCAACAT
* *
10163100 TGGAAACTGTATGTAGATCTATGAAAAGATAATGAGCAAAATGTATCTAATAAGTACCCTGCAAG
1 TGGAAACTGTATGCAGATCTATGAAAAAATAATGAGCAAAATGTATCTAATAAGTACCCTGCAAG
10163165 CTCAGCACCAGAGTTGGTATGAAAACTATTTATCAACAT
66 CTCAGCACCAGAGTTGGTATGAAAACTATTTATCAACAT
10163204 TG
1 TG
10163206 CCGTGGCTGT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (104 bp):
TGGAAACTGTATGCAGATCTATGAAAAAATAATGAGCAAAATGTATCTAATAAGTACCCTGCAAG
CTCAGCACCAGAGTTGGTATGAAAACTATTTATCAACAT
Found at i:10167086 original size:6 final size:6
Alignment explanation
Indices: 10167075--10167122 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
10167065 AGTACAAAAT
* * * *
10167075 TTTTAA TTTTAA TTTTAA TTTTGA TTTTGA TTTTAG TTTTTA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
10167123 ATTTGGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:10167108 original size:31 final size:32
Alignment explanation
Indices: 10167073--10167153 Score: 103
Period size: 30 Copynumber: 2.6 Consensus size: 32
10167063 AAAGTACAAA
* *
10167073 ATTTTTAATTTTAATTTT-AATTTTGATTTTG
1 ATTTTTAATTTTAATTTTAAATTTGGATTTGG
* *
10167104 A-TTTTAGTTTTTATTTTAAATTTGGATTTGG
1 ATTTTTAATTTTAATTTTAAATTTGGATTTGG
10167135 ATTTTTTAATTTTAATTTT
1 A-TTTTTAATTTTAATTTT
10167154 TTTTATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 14 0.34
31 13 0.32
33 14 0.34
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.67
Consensus pattern (32 bp):
ATTTTTAATTTTAATTTTAAATTTGGATTTGG
Found at i:10169799 original size:16 final size:16
Alignment explanation
Indices: 10169778--10169814 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
10169768 AACGATTTGA
*
10169778 ATGATAATGATGATTT
1 ATGATAATGATGACTT
10169794 ATGATAATGATGACTT
1 ATGATAATGATGACTT
10169810 ATGAT
1 ATGAT
10169815 GATTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (16 bp):
ATGATAATGATGACTT
Found at i:10170788 original size:19 final size:18
Alignment explanation
Indices: 10170764--10170815 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
10170754 TAATATATTA
10170764 ACATGATTAATTATCATCT
1 ACATGATTAATTATCA-CT
*
10170783 ACATGATTAATTATTGACT
1 ACATGATTAATTA-TCACT
*
10170802 ACATAATTAATTAT
1 ACATGATTAATTAT
10170816 TATTTGCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.90
20 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (18 bp):
ACATGATTAATTATCACT
Found at i:10170881 original size:13 final size:13
Alignment explanation
Indices: 10170863--10170889 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10170853 TTTTGTATGC
10170863 TTGCATGATATTT
1 TTGCATGATATTT
10170876 TTGCATGATATTT
1 TTGCATGATATTT
10170889 T
1 T
10170890 ATATTATTGC
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):
TTGCATGATATTT
Found at i:10170893 original size:20 final size:21
Alignment explanation
Indices: 10170870--10170910 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
10170860 TGCTTGCATG
*
10170870 ATATTTTTGCATGAT-ATTTT
1 ATATTATTGCATGATAATTTT
10170890 ATATTATTGCATGATAATTTT
1 ATATTATTGCATGATAATTTT
10170911 GGTATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (21 bp):
ATATTATTGCATGATAATTTT
Found at i:10170934 original size:32 final size:34
Alignment explanation
Indices: 10170863--10170949 Score: 117
Period size: 32 Copynumber: 2.6 Consensus size: 34
10170853 TTTTGTATGC
* * *
10170863 TTGCATGAT-ATTTTTGCATGATATTTTATATTA
1 TTGCATGATAATTTTGGTATGATATTTAATATTA
10170896 TTGCATGATAATTTTGGTATGA-ATTTAAT-TTA
1 TTGCATGATAATTTTGGTATGATATTTAATATTA
*
10170928 TTGCATGAAAATTTTGGTATGA
1 TTGCATGATAATTTTGGTATGA
10170950 CTTTTTGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 24 0.49
33 15 0.31
34 10 0.20
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (34 bp):
TTGCATGATAATTTTGGTATGATATTTAATATTA
Found at i:10170978 original size:19 final size:19
Alignment explanation
Indices: 10170944--10170993 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
10170934 GAAAATTTTG
*
10170944 GTATGACTTTTTGCATGAATT
1 GTATGA-TTATTGCAT-AATT
10170965 -TATGATTATTGCATAATT
1 GTATGATTATTGCATAATT
10170983 GTATGATTATT
1 GTATGATTATT
10170994 TGATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (19 bp):
GTATGATTATTGCATAATT
Found at i:10172213 original size:21 final size:22
Alignment explanation
Indices: 10172187--10172227 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10172177 CGTGTCATCT
10172187 TTATG-TTTTTTATTTATATCG
1 TTATGTTTTTTTATTTATATCG
10172208 TTATGTTTTTTTATTTATAT
1 TTATGTTTTTTTATTTATAT
10172228 TATTTTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (22 bp):
TTATGTTTTTTTATTTATATCG
Found at i:10173540 original size:18 final size:18
Alignment explanation
Indices: 10173517--10173555 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10173507 AATAATTCAA
10173517 ATATATGAA-TATTTAAAC
1 ATATAT-AATTATTTAAAC
*
10173535 ATATATAATTTTTTAAAC
1 ATATATAATTATTTAAAC
10173553 ATA
1 ATA
10173556 ATTCTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATATAATTATTTAAAC
Found at i:10173602 original size:22 final size:20
Alignment explanation
Indices: 10173565--10173604 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
10173555 AATTCTGAAT
*
10173565 AAATAATTATATCTTTTAAA
1 AAATAATTATAACTTTTAAA
10173585 AAATATATATATAACTTTTA
1 AAATA-AT-TATAACTTTTA
10173605 TCATCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATTATAACTTTTAAA
Found at i:10176375 original size:23 final size:23
Alignment explanation
Indices: 10176330--10176375 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10176320 AATAAAATTA
*
10176330 TTATTTTATCGTTTATTTTTATT
1 TTATTTTATCGATTATTTTTATT
*
10176353 TTATTTTAT-GATTCTTTTATATT
1 TTATTTTATCGATTATTTT-TATT
10176376 CGTTTAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
TTATTTTATCGATTATTTTTATT
Found at i:10176415 original size:15 final size:15
Alignment explanation
Indices: 10176384--10176425 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10176374 TTCGTTTAGT
* *
10176384 ATTTGTTTGTTTA-A
1 ATTTATTTGATTATA
10176398 ATTTATTTGATTATA
1 ATTTATTTGATTATA
10176413 ATTTATTT-ATTAT
1 ATTTATTTGATTAT
10176426 TCATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (15 bp):
ATTTATTTGATTATA
Found at i:10176448 original size:14 final size:14
Alignment explanation
Indices: 10176429--10176470 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10176419 TTATTATTCA
10176429 TATATATATTTATT
1 TATATATATTTATT
*
10176443 TATATATATTT-GT
1 TATATATATTTATT
*
10176456 GA-ATATATTTATT
1 TATATATATTTATT
10176469 TA
1 TA
10176471 ATGTTTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TATATATATTTATT
Found at i:10179709 original size:1 final size:1
Alignment explanation
Indices: 10179703--10179729 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10179693 TTCAAATGAA
10179703 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
10179730 AACCAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10184122 original size:2 final size:2
Alignment explanation
Indices: 10184117--10184149 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10184107 TATGTTTGGT
10184117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10184150 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10185125 original size:16 final size:17
Alignment explanation
Indices: 10185104--10185145 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10185094 TTATCATATT
10185104 TTAATTAAATTTTC-AA
1 TTAATTAAATTTTCTAA
*
10185120 TTAATTCAATTTTCTAA
1 TTAATTAAATTTTCTAA
10185137 TTGAATTAA
1 TT-AATTAA
10185146 TCAAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 13 0.59
17 4 0.18
18 5 0.23
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTAAATTTTCTAA
Found at i:10186046 original size:2 final size:2
Alignment explanation
Indices: 10186039--10186075 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10186029 TATTGGATAA
10186039 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10186076 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10186080 original size:2 final size:2
Alignment explanation
Indices: 10186075--10186099 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10186065 TCTCTCTCTC
10186075 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10186100 CCCACCTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10187487 original size:12 final size:12
Alignment explanation
Indices: 10187470--10187511 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10187460 CGACTTCAGG
10187470 TTTATTTTATTT
1 TTTATTTTATTT
10187482 TTTA-TTTATTT
1 TTTATTTTATTT
* *
10187493 GTTTATTTGATTA
1 -TTTATTTTATTT
10187506 TTTATT
1 TTTATT
10187512 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 7 0.27
12 14 0.54
13 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:10187509 original size:24 final size:23
Alignment explanation
Indices: 10187469--10187515 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
10187459 CCGACTTCAG
* *
10187469 GTTTATTTTATTTTTTATTTATTT
1 GTTTATTTGATTATTTA-TTATTT
10187493 GTTTATTTGATTATTTATTATTT
1 GTTTATTTGATTATTTATTATTT
10187516 TTAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (23 bp):
GTTTATTTGATTATTTATTATTT
Found at i:10191562 original size:13 final size:14
Alignment explanation
Indices: 10191544--10191577 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10191534 TCTTGTTTTA
10191544 TTCTTTGT-TCTTC
1 TTCTTTGTGTCTTC
10191557 TTCTTT-TGTCTTC
1 TTCTTTGTGTCTTC
10191570 TTCTTTGT
1 TTCTTTGT
10191578 ATAAGCACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.00, C:0.21, G:0.09, T:0.71
Consensus pattern (14 bp):
TTCTTTGTGTCTTC
Found at i:10192565 original size:91 final size:90
Alignment explanation
Indices: 10192428--10192605 Score: 259
Period size: 91 Copynumber: 2.0 Consensus size: 90
10192418 TAGAGATATA
* *
10192428 TTTAGTACACAAGATCATGATAGATAGGATAAGAAGATATTATGAATAAGATTAAATTAAATAAT
1 TTTAGTACACAAGATCATAATAGATAGAATAAGAAGATATTATGAATAAGATTAAATTAAATAAT
*
10192493 ATCATCTTATTTTGTGTTTGATGTG
66 ATCATCTTATCTTGTGTTTGATGTG
* * * * *
10192518 TTTAGTATACAAGATTATAATAGGATAGAATAAGATA-ATATTATGAATATGATTAGATTAAGTA
1 TTTAGTACACAAGATCATAATA-GATAGAATAAGA-AGATATTATGAATAAGATTAAATTAAATA
10192582 ATATCATCTTATCTTGTGTTTGAT
64 ATATCATCTTATCTTGTGTTTGAT
10192606 ATATATAGAG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 19 0.24
91 58 0.74
92 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (90 bp):
TTTAGTACACAAGATCATAATAGATAGAATAAGAAGATATTATGAATAAGATTAAATTAAATAAT
ATCATCTTATCTTGTGTTTGATGTG
Found at i:10192584 original size:27 final size:26
Alignment explanation
Indices: 10192531--10192585 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
10192521 AGTATACAAG
10192531 ATTATAATAGGATAGAATAAGATAAT
1 ATTATAATAGGATAGAATAAGATAAT
* *
10192557 ATTATGAATATGATTAGATTAAG-TAAT
1 ATTAT-AATAGGA-TAGAATAAGATAAT
10192584 AT
1 AT
10192586 CATCTTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (26 bp):
ATTATAATAGGATAGAATAAGATAAT
Found at i:10192818 original size:62 final size:62
Alignment explanation
Indices: 10192692--10192818 Score: 148
Period size: 62 Copynumber: 2.0 Consensus size: 62
10192682 ATTGATGTAA
* * * * * * * *
10192692 TTTTTAATGGTGTAATAGAACACTTAAGTTTAATCTCATTAATAAAAAATAATTCTTTTCAC
1 TTTTTAAGGGTATAATAGAACACATAAATTTAATATCATGAATAAAAAATAATTCATATCAC
* *
10192754 TTTTTAAGGGTATAATAGGACACATAAATTTAATATCATGAATTAAAAATAA-TCATATCTAC
1 TTTTTAAGGGTATAATAGAACACATAAATTTAATATCATGAATAAAAAATAATTCATATC-AC
10192816 TTT
1 TTT
10192819 AGAAGAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 5 0.09
62 49 0.91
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (62 bp):
TTTTTAAGGGTATAATAGAACACATAAATTTAATATCATGAATAAAAAATAATTCATATCAC
Found at i:10193840 original size:33 final size:33
Alignment explanation
Indices: 10193798--10193864 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10193788 TAGAACACTG
10193798 ACAATGTGTGATATCTGAAGTGTGAAAGAATCA
1 ACAATGTGTGATATCTGAAGTGTGAAAGAATCA
*
10193831 ACAATGTGTGATATTTGAAGTGTGAAAGAATCA
1 ACAATGTGTGATATCTGAAGTGTGAAAGAATCA
10193864 A
1 A
10193865 TCATATTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.28
Consensus pattern (33 bp):
ACAATGTGTGATATCTGAAGTGTGAAAGAATCA
Found at i:10194501 original size:14 final size:16
Alignment explanation
Indices: 10194481--10194520 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
10194471 AAAATATCAA
*
10194481 AAATATTTTTATA-TT
1 AAATATTTTAATACTT
10194496 -AATATTTTAATACTT
1 AAATATTTTAATACTT
10194511 AAATATTTTA
1 AAATATTTTA
10194521 GATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTTTAATACTT
Found at i:10194517 original size:16 final size:15
Alignment explanation
Indices: 10194481--10194530 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
10194471 AAAATATCAA
*
10194481 AAATATTTTTATATT
1 AAATATTTTAATATT
10194496 -AATATTTTAATACTT
1 AAATATTTTAATA-TT
*
10194511 AAATATTTTAGATTTT
1 AAATATTTTA-ATATT
10194527 AAAT
1 AAAT
10194531 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 11 0.37
15 2 0.07
16 15 0.50
17 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
AAATATTTTAATATT
Found at i:10198941 original size:7 final size:7
Alignment explanation
Indices: 10198931--10198955 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10198921 AAAAAAATAA
10198931 AAAATTT
1 AAAATTT
10198938 AAAATTT
1 AAAATTT
10198945 AAAATTT
1 AAAATTT
10198952 AAAA
1 AAAA
10198956 ACTGATGAAC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:10199234 original size:2 final size:2
Alignment explanation
Indices: 10199227--10199252 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10199217 TTTTATCCAA
10199227 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10199253 TAATCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10204731 original size:14 final size:14
Alignment explanation
Indices: 10204714--10204750 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10204704 AGATATATAT
*
10204714 AAAAGTTATTTAAA
1 AAAAATTATTTAAA
*
10204728 AAAAATGATTTAAA
1 AAAAATTATTTAAA
10204742 AAAAATTAT
1 AAAAATTAT
10204751 AAGTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (14 bp):
AAAAATTATTTAAA
Found at i:10205069 original size:74 final size:74
Alignment explanation
Indices: 10204990--10205139 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 74
10204980 TTACTTTCTT
* *
10204990 TTACTTTACTCTCCTTTCCTTACTCTCCTCAAGTTCTTTATATCCCAGGAAGTGTTTCCATACCC
1 TTACTTTACTCTCCTTTCCTTACTCTCCCCAAGTTCTTTATATCCCAGAAAGTGTTTCCATACCC
10205055 TATAAAGTG
66 TATAAAGTG
* *
10205064 TTACTTTACTTTCCTTTCCTTACTCTCCCCAAGTTCTTTATATCCCATAAAGTGTTTCCATACCC
1 TTACTTTACTCTCCTTTCCTTACTCTCCCCAAGTTCTTTATATCCCAGAAAGTGTTTCCATACCC
10205129 TATAAAGTG
66 TATAAAGTG
10205138 TT
1 TT
10205140 CAGAACTGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.22, C:0.28, G:0.08, T:0.42
Consensus pattern (74 bp):
TTACTTTACTCTCCTTTCCTTACTCTCCCCAAGTTCTTTATATCCCAGAAAGTGTTTCCATACCC
TATAAAGTG
Found at i:10219829 original size:17 final size:17
Alignment explanation
Indices: 10219803--10219841 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10219793 AATTTAAAAG
10219803 TTTT-TTTTTTATTTTT
1 TTTTATTTTTTATTTTT
10219819 TTTTATTTTTTATTTTT
1 TTTTATTTTTTATTTTT
10219836 TTTTAT
1 TTTTAT
10219842 GAATGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (17 bp):
TTTTATTTTTTATTTTT
Found at i:10219841 original size:10 final size:10
Alignment explanation
Indices: 10219804--10219839 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
10219794 ATTTAAAAGT
10219804 TTTTTTTTTA
1 TTTTTTTTTA
10219814 TTTTTTTTTA
1 TTTTTTTTTA
10219824 TTTTTTATTT-
1 TTTTTT-TTTA
10219834 TTTTTT
1 TTTTTT
10219840 ATGAATGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:10224190 original size:30 final size:27
Alignment explanation
Indices: 10224154--10224217 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 27
10224144 TTGGTCAACC
10224154 AAAATTTAATTGAATAAAAATTAATATTT
1 AAAATTTAATTGAATAAAAA-TAA-ATTT
10224183 AAGAATTTAATTGAATAAAAATAAATTT
1 AA-AATTTAATTGAATAAAAATAAATTT
10224211 AAAATTT
1 AAAATTT
10224218 TATTTATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.15
28 6 0.18
29 5 0.15
30 18 0.53
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
AAAATTTAATTGAATAAAAATAAATTT
Found at i:10226623 original size:13 final size:13
Alignment explanation
Indices: 10226585--10226628 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
10226575 ATATAAAATT
10226585 TATGATTTCTTTC
1 TATGATTTCTTTC
*
10226598 TGAGATCATTTCTTTC
1 T---ATGATTTCTTTC
10226614 TATGATTTCTTTC
1 TATGATTTCTTTC
10226627 TA
1 TA
10226629 GGATCATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 14 0.54
16 12 0.46
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (13 bp):
TATGATTTCTTTC
Found at i:10228690 original size:24 final size:23
Alignment explanation
Indices: 10228660--10228704 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
10228650 TTATAATATT
10228660 ATTATAT-TATTTTAATTATTGACA
1 ATTATATATATTTT--TTATTGACA
10228684 ATTATATATATTTTTTATTGA
1 ATTATATATATTTTTTATTGA
10228705 TTTTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTATATATATTTTTTATTGACA
Found at i:10233788 original size:8 final size:9
Alignment explanation
Indices: 10233766--10233799 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10233756 AACATCTAAA
10233766 ATTTTTAAT
1 ATTTTTAAT
10233775 ATTTTTAAT
1 ATTTTTAAT
*
10233784 ATTTTAAAT
1 ATTTTTAAT
10233793 AATTTTT
1 -ATTTTT
10233800 TTAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:10233813 original size:21 final size:21
Alignment explanation
Indices: 10233771--10233813 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10233761 CTAAAATTTT
**
10233771 TAATATTTTTAATATTTTAAA
1 TAATATTTTTAATATTAAAAA
*
10233792 TAATTTTTTTAATATTAAAAA
1 TAATATTTTTAATATTAAAAA
10233813 T
1 T
10233814 TATGAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTTTTAATATTAAAAA
Found at i:10240077 original size:33 final size:33
Alignment explanation
Indices: 10240035--10240098 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
10240025 CAAATAAACC
10240035 AATTGTACTTTAAATGGCTAGCATTGAAGTTGT
1 AATTGTACTTTAAATGGCTAGCATTGAAGTTGT
10240068 AATTGTACTTTAAATGGCTAGCATTGAAGTT
1 AATTGTACTTTAAATGGCTAGCATTGAAGTT
10240099 TTGCCCTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (33 bp):
AATTGTACTTTAAATGGCTAGCATTGAAGTTGT
Found at i:10243252 original size:16 final size:14
Alignment explanation
Indices: 10243223--10243256 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
10243213 AAATTTTAAA
10243223 TATTTTTTTTATAT
1 TATTTTTTTTATAT
10243237 TATTTTTATGTTATAT
1 TATTTTT-T-TTATAT
10243253 TATT
1 TATT
10243257 ATGTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 1 0.06
16 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TATTTTTTTTATAT
Found at i:10243424 original size:7 final size:7
Alignment explanation
Indices: 10243412--10243446 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
10243402 AATATCAATT
10243412 AAATTTA
1 AAATTTA
10243419 AAATTTTA
1 AAA-TTTA
10243427 AAA-TTA
1 AAATTTA
10243433 AAATTTA
1 AAATTTA
10243440 AAATTTA
1 AAATTTA
10243447 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:10243836 original size:13 final size:13
Alignment explanation
Indices: 10243803--10243827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10243793 ATTGATTAAA
10243803 AAAAAAATTTTAT
1 AAAAAAATTTTAT
10243816 AAAAAAATTTTA
1 AAAAAAATTTTA
10243828 AAATTAAATG
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAAAATTTTAT
Found at i:10245304 original size:28 final size:27
Alignment explanation
Indices: 10245273--10245328 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
10245263 TTTATATTAA
* * *
10245273 ATTAATCAAATTATATTATATTATTTTT
1 ATTAATCAAATCAAATT-TATTAATTTT
10245301 ATTAATCAAATCAAATTTATTAATTTT
1 ATTAATCAAATCAAATTTATTAATTTT
10245328 A
1 A
10245329 AAAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTAATCAAATCAAATTTATTAATTTT
Done.