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 9 of 109
Found at i:1441617 original size:35 final size:36
Alignment explanation
Indices: 1441578--1441705 Score: 104
Period size: 35 Copynumber: 3.5 Consensus size: 36
1441568 TTGAACAGCA
* *
1441578 AGTCAAAAAATAACGATGATCTGGATTGAA-CCATG
1 AGTCAAAAAATAATGATGATCTGGATTGAAGCCACG
* *
1441613 AGTCAAGAATATAAAAATGATGAT-TAGGATT-AAGCTACG
1 AGTC-A-AA-A-AATAATGATGATCT-GGATTGAAGCCACG
* * *
1441652 AGTCAAAAAATAATGATGATCGGGATTG-A-CTCGCC
1 AGTCAAAAAATAATGATGATCTGGATTGAAGC-CACG
1441687 AGTCAAAAAATAATGATGA
1 AGTCAAAAAATAATGATGA
1441706 CCGAGATTGA
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
34 1 0.01
35 41 0.55
36 2 0.03
37 4 0.05
38 5 0.07
39 22 0.29
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (36 bp):
AGTCAAAAAATAATGATGATCTGGATTGAAGCCACG
Found at i:1441661 original size:109 final size:109
Alignment explanation
Indices: 1441548--1441754 Score: 242
Period size: 109 Copynumber: 1.9 Consensus size: 109
1441538 ACCGCAAGTA
*
1441548 AAAAAATAA-CAAAATCAAGATTGAAC-AGCAAGTCAAAAAATAACGATGATCTG-GATTGAACC
1 AAAAAATAATCAAAATCAAGATTG-ACTAGCAAGTCAAAAAATAACGATGA-CCGAGATTGAACC
* * *
1441610 -ATGAGTCAAGAATATAAAAATGATGATTAGGATTAAGCTACGAGTC
64 GAT-AGTAAAGAATATAAAAATGATGACTAAGATTAAGCTACGAGTC
* ** ** * * * *
1441656 AAAAAATAATGATGATCGGGATTGACTCGCCAGTCAAAAAATAATGATGACCGAGATTGAACCGC
1 AAAAAATAATCAAAATCAAGATTGACTAGCAAGTCAAAAAATAACGATGACCGAGATTGAACCGA
1441721 TAGTAAAGAATATAAAAATGATGACTAAGATTAA
66 TAGTAAAGAATATAAAAATGATGACTAAGATTAA
1441755 ATTGTAAGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
108 13 0.16
109 68 0.83
110 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (109 bp):
AAAAAATAATCAAAATCAAGATTGACTAGCAAGTCAAAAAATAACGATGACCGAGATTGAACCGA
TAGTAAAGAATATAAAAATGATGACTAAGATTAAGCTACGAGTC
Found at i:1442220 original size:14 final size:15
Alignment explanation
Indices: 1442190--1442223 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1442180 CTTCTCTGAA
*
1442190 TTCTTTTTTTATCTT
1 TTCTTTATTTATCTT
1442205 TTCTTTATTT-TCTT
1 TTCTTTATTTATCTT
1442219 TTCTT
1 TTCTT
1442224 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTATTTATCTT
Found at i:1452434 original size:16 final size:16
Alignment explanation
Indices: 1452413--1452445 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1452403 ATTAATAAAT
1452413 TTTATTGTATTT-ATAA
1 TTTATT-TATTTAATAA
1452429 TTTATTTATTTAATAA
1 TTTATTTATTTAATAA
1452445 T
1 T
1452446 AAATCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATTTATTTAATAA
Found at i:1454863 original size:48 final size:48
Alignment explanation
Indices: 1454794--1454901 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 48
1454784 TTTTCTCTCT
* *
1454794 TGATGATGAGCAGAATGAAAGATCCCTGTTTATGATTAAGCAGTTTGA
1 TGATGATGAGTAGAATAAAAGATCCCTGTTTATGATTAAGCAGTTTGA
*
1454842 TGATGATGAGTAGAATAAAAGATCCCTGTTTATGATTAAGTAGTTTGA
1 TGATGATGAGTAGAATAAAAGATCCCTGTTTATGATTAAGCAGTTTGA
1454890 TGATGATGAGTA
1 TGATGATGAGTA
1454902 TGTAAATTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.33
Consensus pattern (48 bp):
TGATGATGAGTAGAATAAAAGATCCCTGTTTATGATTAAGCAGTTTGA
Found at i:1458200 original size:22 final size:21
Alignment explanation
Indices: 1458153--1458200 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
1458143 TTAGTATGAG
***
1458153 TCATAATGATGAGTCATTGTA
1 TCATAATGATGAGTCACCATA
*
1458174 CCATAAGTGATGAGTCACCATA
1 TCATAA-TGATGAGTCACCATA
1458196 TCATA
1 TCATA
1458201 GATCAGACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (21 bp):
TCATAATGATGAGTCACCATA
Found at i:1459807 original size:21 final size:21
Alignment explanation
Indices: 1459727--1459807 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
1459717 CTAAAGGACG
* *
1459727 GTGACTCATAAGTATGATACA
1 GTGACTCATCATTATGATACA
* * * * * **
1459748 ATGACTTATTACTATGGTATG
1 GTGACTCATCATTATGATACA
1459769 GTGACTCATCACTTATGATACA
1 GTGACTCATCA-TTATGATACA
1459791 GTGACTCATCATTATGA
1 GTGACTCATCATTATGA
1459808 CTCATACTAA
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (21 bp):
GTGACTCATCATTATGATACA
Found at i:1461151 original size:12 final size:12
Alignment explanation
Indices: 1461129--1461167 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1461119 ATAATCTGTA
1461129 AGGTGTTTGAAGG
1 AGGT-TTTGAAGG
*
1461142 GGGTTTTGAAGG
1 AGGTTTTGAAGG
1461154 AGGTTTTGAAGG
1 AGGTTTTGAAGG
1461166 AG
1 AG
1461168 CATGTCTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (12 bp):
AGGTTTTGAAGG
Found at i:1467260 original size:21 final size:21
Alignment explanation
Indices: 1467211--1467291 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
1467201 GCTAAAGGAC
* * *
1467211 AGTGACTCATAAGTATGGTAC
1 AGTGACTCATCACTATGGTAT
* * *
1467232 AATAACTCATTACTATGGTAT
1 AGTGACTCATCACTATGGTAT
*
1467253 GGTGACTCATCACTTATGGTAT
1 AGTGACTCATCAC-TATGGTAT
1467275 AGTGACTCATCACTATG
1 AGTGACTCATCACTATG
1467292 ACTCATACTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
21 29 0.59
22 20 0.41
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (21 bp):
AGTGACTCATCACTATGGTAT
Found at i:1467272 original size:22 final size:22
Alignment explanation
Indices: 1467236--1467288 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1467226 TGGTACAATA
* *
1467236 ACTCATTAC-TATGGTATGGTG
1 ACTCATCACTTATGGTATAGTG
1467257 ACTCATCACTTATGGTATAGTG
1 ACTCATCACTTATGGTATAGTG
1467279 ACTCATCACT
1 ACTCATCACT
1467289 ATGACTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
ACTCATCACTTATGGTATAGTG
Found at i:1468116 original size:13 final size:13
Alignment explanation
Indices: 1468098--1468126 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1468088 ATAACCTGTA
1468098 AGGTTTTTGAAAG
1 AGGTTTTTGAAAG
1468111 AGG-TTTTGAAAG
1 AGGTTTTTGAAAG
1468123 AGGT
1 AGGT
1468127 CTTGTGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (13 bp):
AGGTTTTTGAAAG
Found at i:1472220 original size:12 final size:12
Alignment explanation
Indices: 1472203--1472227 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1472193 TTGGTAAAGG
1472203 TTGGGTGGAATT
1 TTGGGTGGAATT
1472215 TTGGGTGGAATT
1 TTGGGTGGAATT
1472227 T
1 T
1472228 AGTTGTTGTA
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:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (12 bp):
TTGGGTGGAATT
Found at i:1474345 original size:187 final size:187
Alignment explanation
Indices: 1474028--1474401 Score: 640
Period size: 187 Copynumber: 2.0 Consensus size: 187
1474018 GAGCCTTGGA
1474028 CGTACTACCTGCCGCTGTGTATAAAATTGATATCAGAGCTTGCAGCTTGCCAAGATAGTGAGAAG
1 CGTACTACCTGCCGCTGTGTATAAAATTGATATCAGAGCTTGCAGCTTGCCAAGATAGTGAGAAG
*
1474093 AAAATCATGTTTCTAAAGTTTTGATTATTGAAGTTGGAAAAGGAAAAGCCAAAAGAGAGTCTTAT
66 AAAATCATGTTTCTAAAGTTTTGATTATTGAAGTTGGAAAAGGAAAAGCCAAAAGAGAATCTTAT
* * * * * *
1474158 TTTTATGGATCTCTCCACTCTTAGCAACTCTAGTTCTCAACTTTTTTCCTCCAGATC
131 TTTCATGGATCTATCCACTCTAAGCAACTCTAGTTCTCAACGTTCTTCCTCAAGATC
* * *
1474215 CGTACTACCTGCCGCTGTGTATAGAATTGGTATCAGAGCTTGCAGCTTGTCAAGATAGTGAGAAG
1 CGTACTACCTGCCGCTGTGTATAAAATTGATATCAGAGCTTGCAGCTTGCCAAGATAGTGAGAAG
*
1474280 AAAATCATGTTTCTAAAGTTTTGATTATTGAAGTTGGAAAAGGAAAAGCTAAAAGAGAATCTTAT
66 AAAATCATGTTTCTAAAGTTTTGATTATTGAAGTTGGAAAAGGAAAAGCCAAAAGAGAATCTTAT
*
1474345 TTTCATGGATCTATCCACTCTAAGCGACTCTAGTTCTCAACGTTCTTCCTCAAGATC
131 TTTCATGGATCTATCCACTCTAAGCAACTCTAGTTCTCAACGTTCTTCCTCAAGATC
1474402 TTCTTTTAGT
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
187 175 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (187 bp):
CGTACTACCTGCCGCTGTGTATAAAATTGATATCAGAGCTTGCAGCTTGCCAAGATAGTGAGAAG
AAAATCATGTTTCTAAAGTTTTGATTATTGAAGTTGGAAAAGGAAAAGCCAAAAGAGAATCTTAT
TTTCATGGATCTATCCACTCTAAGCAACTCTAGTTCTCAACGTTCTTCCTCAAGATC
Found at i:1485517 original size:21 final size:21
Alignment explanation
Indices: 1485462--1485517 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
1485452 TAGTATGAGT
* *
1485462 CATAGTGATAAGTCACTATAC
1 CATAGTGATGAGTCACCATAC
1485483 CATAAGTGATGAGTCACCATAC
1 CAT-AGTGATGAGTCACCATAC
*
1485505 CATAGTAATGAGT
1 CATAGTGATGAGT
1485518 TATTGTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (21 bp):
CATAGTGATGAGTCACCATAC
Found at i:1485681 original size:16 final size:16
Alignment explanation
Indices: 1485660--1485691 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1485650 TCAAGAAGGC
1485660 ATCATCCACAACTTAT
1 ATCATCCACAACTTAT
1485676 ATCATCCACAACTTAT
1 ATCATCCACAACTTAT
1485692 CAAAAACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
ATCATCCACAACTTAT
Found at i:1491765 original size:12 final size:12
Alignment explanation
Indices: 1491748--1491792 Score: 81
Period size: 12 Copynumber: 3.7 Consensus size: 12
1491738 GACATGCTCA
1491748 CAAAACCTCCTT
1 CAAAACCTCCTT
1491760 CAAAACCTCCTT
1 CAAAACCTCCTT
1491772 CAAAACCTCCTT
1 CAAAACCTCCTT
1491784 CAAACACCT
1 CAAA-ACCT
1491793 TACAAGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 28 0.88
13 4 0.12
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (12 bp):
CAAAACCTCCTT
Found at i:1500327 original size:21 final size:21
Alignment explanation
Indices: 1500301--1500383 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
1500291 AAGCTAAAGG
*
1500301 ACAATGACTCATAAGTATGGT
1 ACAATGACTCATAACTATGGT
* *
1500322 ACAATGACTTATTACTATGGT
1 ACAATGACTCATAACTATGGT
*** **
1500343 ATGGTGACTCATCATTTATGGT
1 ACAATGACTCAT-AACTATGGT
* *
1500365 ACAGTGACTCATCACTATG
1 ACAATGACTCATAACTATG
1500384 ACTCATACTA
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
21 30 0.65
22 16 0.35
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (21 bp):
ACAATGACTCATAACTATGGT
Found at i:1500364 original size:22 final size:22
Alignment explanation
Indices: 1500337--1500378 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1500327 GACTTATTAC
**
1500337 TATGGTATGGTGACTCATCATT
1 TATGGTACAGTGACTCATCATT
1500359 TATGGTACAGTGACTCATCA
1 TATGGTACAGTGACTCATCA
1500379 CTATGACTCA
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:0.17, G:0.21, T:0.36
Consensus pattern (22 bp):
TATGGTACAGTGACTCATCATT
Found at i:1512582 original size:21 final size:21
Alignment explanation
Indices: 1512527--1512584 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
1512517 TAGTATGAGT
**
1512527 TATAGTGATGAGTCACTGTAC
1 TATAGTGATGAGTCACCATAC
*
1512548 CATAAGTGATGAGTCACCATAC
1 TAT-AGTGATGAGTCACCATAC
*
1512570 TATAGTAATGAGTCA
1 TATAGTGATGAGTCA
1512585 TTATACCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (21 bp):
TATAGTGATGAGTCACCATAC
Found at i:1512590 original size:21 final size:21
Alignment explanation
Indices: 1512528--1512605 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
1512518 AGTATGAGTT
*
1512528 ATAGTGATGAGTCACTGTACC
1 ATAGTGATGAGTCACTATACC
* *
1512549 ATAAGTGATGAGTCACCATACT
1 AT-AGTGATGAGTCACTATACC
* *
1512571 ATAGTAATGAGTCATTATACC
1 ATAGTGATGAGTCACTATACC
* *
1512592 ATACTTATGAGTCA
1 ATAGTGATGAGTCA
1512606 TCGTCTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 29 0.62
22 18 0.38
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (21 bp):
ATAGTGATGAGTCACTATACC
Found at i:1513440 original size:150 final size:150
Alignment explanation
Indices: 1513169--1513471 Score: 437
Period size: 150 Copynumber: 2.0 Consensus size: 150
1513159 TTATGGTTGA
* *
1513169 TATTATCTTACCAAGTTTGATCGATCTACACGCTGTTGTCATAGTACCAGATAGTATTATCAAGA
1 TATTATCTTACCAAGTTTGATCGATCTACACGCTATTATCATAGTACCAGATAGTATTATCAAGA
* *
1513234 TTCTACCACCCAAAGAACCTGAAACTGAAGCCGTGTCAGTTGCCAGAGTATCGGTCGTACTACCT
66 CTCTACCACCCAAAGAACCTGAAACTGAAGCCGTGTCAGTTGCCAGAGCATCGGTCGTACTACCT
* *
1513299 ACTGCTATGTATAGAAATGG
131 ACCGCTATATATAGAAATGG
* * *
1513319 TATTATCTTACCAAGTTTGATCGATCTACACGCTATTATCATAGTACTAGATAGTATTGTCAGGA
1 TATTATCTTACCAAGTTTGATCGATCTACACGCTATTATCATAGTACCAGATAGTATTATCAAGA
* * * * ** *
1513384 CTCTACCATCCGAAG-AGCTCGAAACTTAAGTTGTGTCAGTTGCCAGAGCATTGGTCGTACTACC
66 CTCTACCACCCAAAGAACCT-GAAACTGAAGCCGTGTCAGTTGCCAGAGCATCGGTCGTACTACC
*
1513448 TACCGCTGTATATAGAAATGG
130 TACCGCTATATATAGAAATGG
1513469 TAT
1 TAT
1513472 CAGAGCTTAC
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
149 3 0.02
150 132 0.98
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (150 bp):
TATTATCTTACCAAGTTTGATCGATCTACACGCTATTATCATAGTACCAGATAGTATTATCAAGA
CTCTACCACCCAAAGAACCTGAAACTGAAGCCGTGTCAGTTGCCAGAGCATCGGTCGTACTACCT
ACCGCTATATATAGAAATGG
Found at i:1525488 original size:26 final size:24
Alignment explanation
Indices: 1525457--1525513 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
1525447 AAACTTAGAG
*
1525457 AAATTTCTTATCTAGAGATTTCTTAA
1 AAATTTCTTAT-TAGAAATTT-TTAA
* *
1525483 AAATTTATTATTTGAAATTTTTAA
1 AAATTTCTTATTAGAAATTTTTAA
1525507 AAATTTC
1 AAATTTC
1525514 ATCCTTAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 10 0.37
25 7 0.26
26 10 0.37
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (24 bp):
AAATTTCTTATTAGAAATTTTTAA
Found at i:1526346 original size:13 final size:13
Alignment explanation
Indices: 1526328--1526357 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1526318 TCAAAAATTG
1526328 AAAATTTTTCAAA
1 AAAATTTTTCAAA
1526341 AAAA-TTTTCAAA
1 AAAATTTTTCAAA
1526353 AAAAT
1 AAAAT
1526358 CTTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTTTCAAA
Found at i:1534403 original size:12 final size:11
Alignment explanation
Indices: 1534381--1534455 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
1534371 TAAAAAAATA
1534381 AAAATCTAAATCT
1 AAAATC-AAAT-T
* *
1534394 AAATTAAAATT
1 AAAATCAAATT
*
1534405 AAAATCAAAAT
1 AAAATCAAATT
* *
1534416 CAAATGAAATT
1 AAAATCAAATT
*
1534427 AAAGTCAAATT
1 AAAATCAAATT
*
1534438 ACAACTCCAAATT
1 A-AAAT-CAAATT
1534451 AAAAT
1 AAAAT
1534456 TTTTGTGCTT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
11 26 0.55
12 10 0.21
13 11 0.23
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAATCAAATT
Found at i:1539114 original size:21 final size:22
Alignment explanation
Indices: 1539084--1539164 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 22
1539074 TTGAAAATAT
1539084 TATTATATTAATAAATAATTT-A
1 TATT-TATTAATAAATAATTTAA
**
1539106 TATTTATTAA-ATTTAATTTAA
1 TATTTATTAATAAATAATTTAA
* * *
1539127 TATATATTAAAAAATTATTTTAA
1 TATTTATTAATAAA-TAATTTAA
*
1539150 TATTTTAATAATAAA
1 TA-TTTATTAATAAA
1539165 CTTAATTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 7 0.15
21 16 0.35
22 5 0.11
23 9 0.20
24 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTATTAATAAATAATTTAA
Found at i:1539130 original size:23 final size:22
Alignment explanation
Indices: 1539104--1539157 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
1539094 ATAAATAATT
* *
1539104 TATATTTATTAAATTTAATTTAA
1 TATATTTA-AAAAATTAATTTAA
*
1539127 TATATATTAAAAAATTATTTTAA
1 TATAT-TTAAAAAATTAATTTAA
1539150 TAT-TTTAA
1 TATATTTAA
1539158 TAATAAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 1 0.04
23 19 0.70
24 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATATTTAAAAAATTAATTTAA
Found at i:1542520 original size:16 final size:16
Alignment explanation
Indices: 1542499--1542530 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1542489 AAAGGTTAAA
*
1542499 ATTTAAATTTCTATTT
1 ATTTAAAATTCTATTT
1542515 ATTTAAAATTCTATTT
1 ATTTAAAATTCTATTT
1542531 TGAAAGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTAAAATTCTATTT
Found at i:1543711 original size:39 final size:39
Alignment explanation
Indices: 1543657--1543737 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
1543647 CATGTTGTTT
*
1543657 CTTAATAGCCCAACACTTAGTCTCATATAATAATGCAGA
1 CTTAATAGCCCAACACTTAATCTCATATAATAATGCAGA
1543696 CTTAATAGCCCAACACTTAATCTCATATAATAATGCAGA
1 CTTAATAGCCCAACACTTAATCTCATATAATAATGCAGA
1543735 CTT
1 CTT
1543738 TACAGTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (39 bp):
CTTAATAGCCCAACACTTAATCTCATATAATAATGCAGA
Found at i:1544030 original size:9 final size:9
Alignment explanation
Indices: 1544012--1544051 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1544002 TACTCATCTC
*
1544012 TTTTTCTTT
1 TTTTTATTT
1544021 TTTTTA-TT
1 TTTTTATTT
1544029 TTTTTATTT
1 TTTTTATTT
*
1544038 TATTTATTT
1 TTTTTATTT
1544047 TTTTT
1 TTTTT
1544052 TTTAAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:1544038 original size:17 final size:16
Alignment explanation
Indices: 1544012--1544055 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
1544002 TACTCATCTC
*
1544012 TTTTTCTTTTT-TTTA
1 TTTTTTTTTTTATTTA
1544027 TTTTTTTATTTTATTTA
1 TTTTTTT-TTTTATTTA
1544044 TTTTTTTTTTTA
1 TTTTTTTTTTTA
1544056 AATCAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 9 0.35
17 11 0.42
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTTATTTA
Found at i:1544208 original size:42 final size:42
Alignment explanation
Indices: 1544098--1544319 Score: 236
Period size: 42 Copynumber: 5.4 Consensus size: 42
1544088 ACGACTTTGA
* * *
1544098 GAAAAAT-AAATGCTTCT-TGAAATAGAGGCACCACAAC-TTC
1 GAAAAATAAAATGCTCCTCT-AAACAGAGGCACCACAACTTTT
* * *
1544138 GAAAAATAAAATTCTCCTTTAAACAGAGGCACCATAACTTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTT
* * *
1544180 GAAAAATAAAATGTTCCTCTAAATAGAGGTACCACAAC-TTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTT
* * * * * *
1544221 GGAAAATAAATTGCTCATCTAAACAGAGACACTATAACTTTT
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTT
* *
1544263 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTC
1 GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTT
* *
1544305 GAAAATTAAATTGCT
1 GAAAAATAAAATGCT
1544320 TCTTGACGAT
Statistics
Matches: 151, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 7 0.05
41 56 0.37
42 88 0.58
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (42 bp):
GAAAAATAAAATGCTCCTCTAAACAGAGGCACCACAACTTTT
Found at i:1544214 original size:83 final size:84
Alignment explanation
Indices: 1544098--1544319 Score: 283
Period size: 83 Copynumber: 2.7 Consensus size: 84
1544088 ACGACTTTGA
* * *
1544098 GAAAAAT-AAATGCTTCT-TGAAATAGAGGCACCACAACTTCGAAAAATAAAATT-CTCCTTTAA
1 GAAAAATAAAATGCTCCTCT-AAATAGAGGCACCACAACTTCGAAAAATAAAATTGCTCATCTAA
*
1544160 ACAGAGGCACCATAACTTTT
65 ACAGAGACACCATAACTTTT
* * * *
1544180 GAAAAATAAAATGTTCCTCTAAATAGAGGTACCACAACTTTGGAAAAT-AAATTGCTCATCTAAA
1 GAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAACTTCGAAAAATAAAATTGCTCATCTAAA
*
1544244 CAGAGACACTATAACTTTT
66 CAGAGACACCATAACTTTT
* * *
1544263 GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTCG-AAAATTAAATTGCT
1 GAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAAC-TTCGAAAAATAAAATTGCT
1544320 TCTTGACGAT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
82 12 0.10
83 97 0.80
84 12 0.10
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (84 bp):
GAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAACTTCGAAAAATAAAATTGCTCATCTAAA
CAGAGACACCATAACTTTT
Found at i:1544688 original size:109 final size:111
Alignment explanation
Indices: 1544517--1544721 Score: 256
Period size: 109 Copynumber: 1.9 Consensus size: 111
1544507 AAGATTCTTA
*
1544517 TTTGAATTTTGAAGATTCACATCCAAAAATTAAAAGCTTCTTATTCGAGTCCAAAGGCTCACATT
1 TTTGAATTTTGAAGATTCACATCCAAAAATTAAAAGCTTCTTATTCGAGTCCAAAGACTCACATT
*
1544582 TGACAAATTTTAGG-GTTCACATC-CAAAAAGTTTAAAGCTTTTCG
66 TGACAAACTTTAGGAGTTCACATCTCAAAAAGTTTAAAGCTTTTCG
* * * * *** *
1544626 TTTGAATTTTGGATATTCACATCCAAAAGTTTAAAA-CTT-TTCATTCTAGTTTGAAGATTCACA
1 TTTGAATTTTGAAGATTCACATCCAAAA-ATTAAAAGCTTCTT-ATTCGAGTCCAAAGACTCACA
* *
1544689 TTTGACGAACTTTAGGATTTCACATCTCAAAAA
64 TTTGACAAACTTTAGGAGTTCACATCTCAAAAA
1544722 TTCTCATTTG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
108 2 0.03
109 58 0.73
110 14 0.17
111 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (111 bp):
TTTGAATTTTGAAGATTCACATCCAAAAATTAAAAGCTTCTTATTCGAGTCCAAAGACTCACATT
TGACAAACTTTAGGAGTTCACATCTCAAAAAGTTTAAAGCTTTTCG
Found at i:1544736 original size:59 final size:58
Alignment explanation
Indices: 1544673--1544786 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
1544663 TTTTCATTCT
* *
1544673 AGTTTGAAGATTCACATTTGACGAACTTTAGGATTTCACATCTCAAAAATTCTCATTTG
1 AGTTTGAAGATTCACATTTGACAAACTTTAGG-TTTCACACCTCAAAAATTCTCATTTG
* * *
1544732 AGTTTGAAGATTCACATTTGACAAATTTTAGGTTTCACACCTTAAAGATTCTCAT
1 AGTTTGAAGATTCACATTTGACAAACTTTAGGTTTCACACCTCAAAAATTCTCAT
1544787 ATGAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 20 0.40
59 30 0.60
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (58 bp):
AGTTTGAAGATTCACATTTGACAAACTTTAGGTTTCACACCTCAAAAATTCTCATTTG
Found at i:1545992 original size:11 final size:11
Alignment explanation
Indices: 1545976--1546044 Score: 75
Period size: 11 Copynumber: 5.9 Consensus size: 11
1545966 CAAATCACCC
1545976 TTTCTTTTTTT
1 TTTCTTTTTTT
1545987 TTTCTTTTTTT
1 TTTCTTTTTTT
*
1545998 TTTTTTTTTTT
1 TTTCTTTTTTT
*
1546009 CATTTTTTTATTTT
1 --TTTCTTT-TTTT
1546023 TTTCTTTTTTT
1 TTTCTTTTTTT
*
1546034 TCATCTTTTTT
1 T-TTCTTTTTT
1546045 CATCTATTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
11 26 0.51
12 14 0.27
13 7 0.14
14 4 0.08
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:1546044 original size:1 final size:1
Alignment explanation
Indices: 1545980--1546034 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
1545970 TCACCCTTTC
* ** * *
1545980 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTCATTTTTTTATTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1546035 CATCTTTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.04, C:0.05, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:1546049 original size:10 final size:9
Alignment explanation
Indices: 1545983--1546047 Score: 69
Period size: 9 Copynumber: 7.1 Consensus size: 9
1545973 CCCTTTCTTT
*
1545983 TTTTTTTCTT
1 TTTTTTTC-A
**
1545993 TTTTTTTTT
1 TTTTTTTCA
1546002 TTTTTTTCA
1 TTTTTTTCA
1546011 TTTTTTT-A
1 TTTTTTTCA
*
1546019 TTTTTTTCT
1 TTTTTTTCA
1546028 TTTTTTTCA
1 TTTTTTTCA
1546037 TCTTTTTTCA
1 T-TTTTTTCA
1546047 T
1 T
1546048 CTATTAGTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
8 8 0.17
9 24 0.50
10 16 0.33
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:1546422 original size:23 final size:23
Alignment explanation
Indices: 1546396--1546441 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1546386 ATGTATGGCA
1546396 TTCATTTT-TTTCTCTTTTTTTTT
1 TTCATTTTCTTT-TCTTTTTTTTT
1546419 TTCATTTTGCTTTTCTTTTTTTT
1 TTCATTTT-CTTTTCTTTTTTTT
1546442 AGACCTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 10 0.48
25 3 0.14
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (23 bp):
TTCATTTTCTTTTCTTTTTTTTT
Found at i:1550214 original size:60 final size:60
Alignment explanation
Indices: 1550039--1550569 Score: 720
Period size: 60 Copynumber: 8.8 Consensus size: 60
1550029 TGCTTTTATA
* *
1550039 CAAGAAAAATCGATACTTTCAACTTTTTCTTAAAAATATATTTTTT-AAAATTTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAA--TTTTATTTT
* * *
1550100 TAA-AGAAAATTGATAGTTTTAAC-TTTTCTTTAAAAATATTTTGTTTTGAAAATTTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTC-TTAAAAATATTTT-TTTTGAAAATTTTATTTT
*
1550161 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTCTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTT
* * *
1550221 CAAGAAAAAATGATACTTTCAA-GTTTTCTTTAAAAATATATTTTTTT-AATATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTC-TTAAAAATAT-TTTTTTTGAAAATTTTATTTT
1550281 CAAGAAAAATTGATACTTTCAA-TTTTTCCTTAAAAATATTTTTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTT-CTTAAAAATA-TTTTTTTTGAAAATTTTATTTT
*
1550342 TAAGAAAAATTGATACTTTCAA-TTTTTCCTTAAAAATATTTTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTT-CTTAAAAATATTTTTTTTGAAAATTTTATTTT
* *
1550402 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTT
* * *
1550462 GAA-AGAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTTTT-ACAATTTTTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTTAAAAAT-ATTTTTTTTGA-AA-ATTTTATTTT
* *
1550524 CAAGAAAAATTGATGCTATCAACTTTTTCTTAAAAATATTTTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTT
1550570 TTTTGAAAGT
Statistics
Matches: 429, Mismatches: 24, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
59 6 0.01
60 219 0.51
61 149 0.35
62 50 0.12
63 5 0.01
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (60 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTT
Found at i:1550349 original size:181 final size:181
Alignment explanation
Indices: 1550039--1550569 Score: 768
Period size: 181 Copynumber: 2.9 Consensus size: 181
1550029 TGCTTTTATA
* * *
1550039 CAAG-AAAAATCGATACTTTCAACTTTT-TCTTAAAAATATATTTTTTAAAATTTTTTATTTTTA
1 CAAGAAAAAAT-GATACTTTCAACTTTTCT-TTAAAAATATATTTTTT-TAATATTTTATTTTCA
* * * *
1550102 AAGAAAATTGATAGTTTTAACTTTTCTTTAAAAATATTTTGTTTTGAAAATTTTATTTTCAAGAA
63 AAGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAAATTTTATTTTCAAGAA
*
1550167 AAATTGATACTTTCAACTTTTTCTTAAAAATATTTCTTTTGAAAATTTTATTTT
128 AAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTT
*
1550221 CAAGAAAAAATGATACTTTCAAGTTTTCTTTAAAAATATATTTTTTTAATATTTTATTTTC-AAG
1 CAAGAAAAAATGATACTTTCAACTTTTCTTTAAAAATATATTTTTTTAATATTTTATTTTCAAAG
* *
1550285 AAAAATTGATACTTTCAATTTTTCCTTAAAAATATTTTTTTTTGAAAATTTTATTTTTAAGAAAA
66 -AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAAATTTTATTTTCAAGAAAA
1550350 ATTGATACTTTCAA-TTTTTCCTTAAAAATATTTTTTTTGAAAATTTTATTTT
130 ATTGATACTTTCAACTTTTT-CTTAAAAATATTTTTTTTGAAAATTTTATTTT
* * * * *
1550402 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTTTTTTGAAAATTTTATTTTGAAA
1 CAAGAAAAAATGATACTTTCAACTTTTCTTTAAAAATATATTTTTTT-AATATTTTATTTTCAAA
* *
1550466 GAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTTTT-ACAATTTTTTATTTTCAAGAA
65 GAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGA-AA-ATTTTATTTTCAAGAA
* *
1550530 AAATTGATGCTATCAACTTTTTCTTAAAAATATTTTTTTT
128 AAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTT
1550570 TTTTGAAAGT
Statistics
Matches: 317, Mismatches: 23, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
180 16 0.05
181 204 0.64
182 85 0.27
183 12 0.04
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (181 bp):
CAAGAAAAAATGATACTTTCAACTTTTCTTTAAAAATATATTTTTTTAATATTTTATTTTCAAAG
AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTGAAAATTTTATTTTCAAGAAAAA
TTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTT
Found at i:1550673 original size:3 final size:3
Alignment explanation
Indices: 1550665--1550708 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1550655 ATAAATAAGC
1550665 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1550709 ATGAAAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1553187 original size:10 final size:9
Alignment explanation
Indices: 1553164--1553198 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
1553154 ATTAGTAAAT
1553164 GAAAGGAAAA
1 GAAA-GAAAA
1553174 GAAAGAAAA
1 GAAAGAAAA
1553183 GGAAAGAAAA
1 -GAAAGAAAA
1553193 GAAAGA
1 GAAAGA
1553199 TTTTTTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 11 0.46
10 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:1554569 original size:16 final size:16
Alignment explanation
Indices: 1554544--1554611 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
1554534 AATTATTTAA
*
1554544 TTTTTATTATGATTAT
1 TTTTTATTATTATTAT
*
1554560 TTTTTGTTATTATTTAT
1 TTTTTATTATTA-TTAT
* * * *
1554577 TGTTTGTTGTTTTTAT
1 TTTTTATTATTATTAT
1554593 CTTTTTATTA-TATTAT
1 -TTTTTATTATTATTAT
1554609 TTT
1 TTT
1554612 AAAAAACTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
15 3 0.07
16 19 0.46
17 19 0.46
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTTTATTATTATTAT
Found at i:1554977 original size:20 final size:19
Alignment explanation
Indices: 1554929--1554977 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
1554919 TTTAAATAAG
1554929 TTATCATTTTTTATTTTAT
1 TTATCATTTTTTATTTTAT
*
1554948 TTATCTTTTTTATAATTTTA-
1 TTATCATTTTT-T-ATTTTAT
1554968 TTATCATTTT
1 TTATCATTTT
1554978 CTAGCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 10 0.38
21 6 0.23
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATCATTTTTTATTTTAT
Found at i:1555236 original size:26 final size:27
Alignment explanation
Indices: 1555202--1555256 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
1555192 TCATAAAAAT
* *
1555202 AAAATAAAAATCAACACA-AAATTAAA
1 AAAATAAAAATCAAAACAGAAAATAAA
1555228 AAAATAAAAATCAAAACAGAAAATAAA
1 AAAATAAAAATCAAAACAGAAAATAAA
1555255 AA
1 AA
1555257 GAAAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.76, C:0.09, G:0.02, T:0.13
Consensus pattern (27 bp):
AAAATAAAAATCAAAACAGAAAATAAA
Found at i:1555662 original size:12 final size:12
Alignment explanation
Indices: 1555645--1555673 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1555635 CTGATGAACC
1555645 AAAATTTTTTAA
1 AAAATTTTTTAA
1555657 AAAATTTTTTAA
1 AAAATTTTTTAA
1555669 AAAAT
1 AAAAT
1555674 CCCAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAATTTTTTAA
Found at i:1556237 original size:4 final size:4
Alignment explanation
Indices: 1556228--1556257 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1556218 TTTTTAAAAG
1556228 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1556258 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:1556262 original size:3 final size:3
Alignment explanation
Indices: 1556254--1556289 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1556244 ATTAATTAAT
1556254 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1556290 AAAAATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1560800 original size:24 final size:24
Alignment explanation
Indices: 1560769--1560817 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
1560759 CACACTCTAT
*
1560769 TTGTATTCTAATTGCTGTGATATA
1 TTGTATTCTAATTGCTGCGATATA
1560793 TTGTATTCTAATTGCTGCGATATA
1 TTGTATTCTAATTGCTGCGATATA
1560817 T
1 T
1560818 GACACCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (24 bp):
TTGTATTCTAATTGCTGCGATATA
Found at i:1562030 original size:2 final size:2
Alignment explanation
Indices: 1562023--1562053 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1562013 CAATTTTGCG
1562023 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 T
1562054 TGTTAGCTTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1571883 original size:33 final size:33
Alignment explanation
Indices: 1571842--1571907 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1571832 TATTTTATAA
1571842 ATATAAACAAAATGAACTAAATATAAAATTAGT
1 ATATAAACAAAATGAACTAAATATAAAATTAGT
* * *
1571875 ATATAAACATAATTAGCTAAATATAAAATTAGT
1 ATATAAACAAAATGAACTAAATATAAAATTAGT
1571908 CTTAGTACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (33 bp):
ATATAAACAAAATGAACTAAATATAAAATTAGT
Found at i:1573074 original size:62 final size:63
Alignment explanation
Indices: 1572972--1573120 Score: 282
Period size: 62 Copynumber: 2.4 Consensus size: 63
1572962 TGCAGTGTAT
1572972 CAACATAAGCATGACCCTTCCATCGTTGAGCATGCAGTAAATCGACTGAATATGTCAAAATGG
1 CAACATAAGCATGACCCTTCCATCGTTGAGCATGCAGTAAATCGACTGAATATGTCAAAATGG
*
1573035 CAAC-TAAGCATGACCCTTCCATCGTTGAGCATGCAGTAAATCGATTGAATATGTCAAAATGG
1 CAACATAAGCATGACCCTTCCATCGTTGAGCATGCAGTAAATCGACTGAATATGTCAAAATGG
1573097 CAACATAAGCATGACCCTTCCATC
1 CAACATAAGCATGACCCTTCCATC
1573121 AAAGTGCTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
62 61 0.73
63 23 0.27
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (63 bp):
CAACATAAGCATGACCCTTCCATCGTTGAGCATGCAGTAAATCGACTGAATATGTCAAAATGG
Found at i:1575702 original size:16 final size:16
Alignment explanation
Indices: 1575681--1575725 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
1575671 TCTAATATGT
1575681 AATAAAAAT-ATAATAA
1 AATAAAAATGA-AATAA
1575697 AATAAAAATGAAATAA
1 AATAAAAATGAAATAA
1575713 AA-AAAATATGAAA
1 AATAAAA-ATGAAA
1575726 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.15
16 22 0.81
17 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AATAAAAATGAAATAA
Found at i:1576993 original size:21 final size:20
Alignment explanation
Indices: 1576960--1577008 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
1576950 CAACAACAAA
*
1576960 AACAAC-AAA-AATAATATC
1 AACAACTAAACAATAACATC
1576978 AACAACATAAACAATAACATC
1 AACAAC-TAAACAATAACATC
*
1576999 AATAACTAAA
1 AACAACTAAA
1577009 ACCAAGGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
20 7 0.27
21 13 0.50
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.16
Consensus pattern (20 bp):
AACAACTAAACAATAACATC
Found at i:1578268 original size:21 final size:22
Alignment explanation
Indices: 1578238--1578278 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1578228 ATTCTAGAAG
1578238 AAAAACAAAT-TGAAAAAAAAA
1 AAAAACAAATCTGAAAAAAAAA
* *
1578259 AAAAAGAAATCTGACAAAAA
1 AAAAACAAATCTGAAAAAAA
1578279 TATAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (22 bp):
AAAAACAAATCTGAAAAAAAAA
Found at i:1578405 original size:11 final size:11
Alignment explanation
Indices: 1578389--1578413 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1578379 CCCGCATCCA
1578389 AATCAAATTTT
1 AATCAAATTTT
1578400 AATCAAATTTT
1 AATCAAATTTT
1578411 AAT
1 AAT
1578414 TGTAATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
AATCAAATTTT
Found at i:1580301 original size:6 final size:7
Alignment explanation
Indices: 1580284--1580310 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1580274 ATTCAATGAT
1580284 TTTTTAA
1 TTTTTAA
1580291 TTTTTAA
1 TTTTTAA
1580298 TTTTTAA
1 TTTTTAA
1580305 TTTTTA
1 TTTTTA
1580311 TATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:1580407 original size:10 final size:10
Alignment explanation
Indices: 1580392--1580426 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
1580382 ATAGATTTAG
1580392 TATAAAAATA
1 TATAAAAATA
1580402 TATAAAAAT-
1 TATAAAAATA
1580411 TAATAAAAATA
1 T-ATAAAAATA
1580422 TATAA
1 TATAA
1580427 TTTGACTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.04
10 21 0.91
11 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TATAAAAATA
Found at i:1587467 original size:20 final size:20
Alignment explanation
Indices: 1587442--1587482 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1587432 CTTTAAATTT
*
1587442 TTTAAAAT-TAGATTTAATAA
1 TTTAAAATATA-ATATAATAA
1587462 TTTAAAATATAATATAATAA
1 TTTAAAATATAATATAATAA
1587482 T
1 T
1587483 ATGACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAATATAATATAATAA
Found at i:1587630 original size:43 final size:41
Alignment explanation
Indices: 1587532--1587630 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 41
1587522 TACGATTTAA
* *
1587532 AATTTTAATAATAAATTTAATAAAATTAAATATATATATATT
1 AATTTTAATATTAAATTTAATAAAA-TAAATATATAAATATT
* *
1587574 AATTGTGACATATTAATTTTAATATAAA-AAATATATAAATATTT
1 AATT-TTA-ATATTAAATTTAATA-AAATAAATATATAAATA-TT
1587618 GAATTTTAATATT
1 -AATTTTAATATT
1587631 TTATATTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.09
43 19 0.40
44 17 0.36
45 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (41 bp):
AATTTTAATATTAAATTTAATAAAATAAATATATAAATATT
Found at i:1588852 original size:21 final size:21
Alignment explanation
Indices: 1588828--1588895 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
1588818 TTCAAAATTA
1588828 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
*
1588849 ATAAAATAATATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
* * *
1588871 ATAAATATATAATTATATAAAT
1 ATAAA-ATATTATTTTTTAAAT
1588893 ATA
1 ATA
1588896 TATAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 16 0.40
22 16 0.40
23 8 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:1588882 original size:8 final size:8
Alignment explanation
Indices: 1588865--1588897 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1588855 TAATATTTTT
1588865 TAAA-ATA
1 TAAATATA
1588872 TAAATATA
1 TAAATATA
*
1588880 TAATTATA
1 TAAATATA
1588888 TAAATATA
1 TAAATATA
1588896 TA
1 TA
1588898 TAAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:1588918 original size:26 final size:26
Alignment explanation
Indices: 1588869--1588919 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1588859 ATTTTTTAAA
* * * *
1588869 ATATAAATATATAATTATATAAATAT
1 ATATAAATAAAGAATTAAAAAAATAT
1588895 ATATAAATAAAGAATTAAAAAAATA
1 ATATAAATAAAGAATTAAAAAAATA
1588920 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
ATATAAATAAAGAATTAAAAAAATAT
Found at i:1589639 original size:14 final size:14
Alignment explanation
Indices: 1589604--1589642 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1589594 ATTAAAATTA
1589604 AAAATATAATATAC
1 AAAATATAATATAC
* *
1589618 AAAA-ATAATTTGC
1 AAAATATAATATAC
1589631 AAAATATAATAT
1 AAAATATAATAT
1589643 TCTTAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAATATAATATAC
Found at i:1598571 original size:15 final size:15
Alignment explanation
Indices: 1598551--1598585 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1598541 TCACTCTTAT
*
1598551 AACAATAATAACAAC
1 AACAATAAGAACAAC
*
1598566 AACAATAAGATCAAC
1 AACAATAAGAACAAC
1598581 AACAA
1 AACAA
1598586 CATCAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.20, G:0.03, T:0.11
Consensus pattern (15 bp):
AACAATAAGAACAAC
Found at i:1598601 original size:12 final size:12
Alignment explanation
Indices: 1598557--1598605 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
1598547 TTATAACAAT
*
1598557 AATAACAACAAC
1 AATAACATCAAC
*
1598569 AATAAGATCAAC
1 AATAACATCAAC
*
1598581 AACAACATCAAC
1 AATAACATCAAC
*
1598593 AATATCATCAAC
1 AATAACATCAAC
1598605 A
1 A
1598606 TAAATAATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.59, C:0.24, G:0.02, T:0.14
Consensus pattern (12 bp):
AATAACATCAAC
Found at i:1600855 original size:2 final size:2
Alignment explanation
Indices: 1600848--1600873 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1600838 ATGGAAAGTA
1600848 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
1600874 GAGGAGAGAT
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:1604850 original size:22 final size:22
Alignment explanation
Indices: 1604825--1604869 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1604815 TCTCATTTTT
* *
1604825 ATTACTTATTCTTAATTTATTA
1 ATTAATTATTATTAATTTATTA
* *
1604847 ATTAATTTTTATTATTTTATTA
1 ATTAATTATTATTAATTTATTA
1604869 A
1 A
1604870 AAAAATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTAATTATTATTAATTTATTA
Found at i:1604899 original size:21 final size:22
Alignment explanation
Indices: 1604850--1604901 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1604840 TTTATTAATT
*
1604850 AATTTTTATTATTTTATTAAAA
1 AATTTTTATTATTGTATTAAAA
* *
1604872 AAATTTT-TTATTGTATTGAAA
1 AATTTTTATTATTGTATTAAAA
*
1604893 ACTTTTTAT
1 AATTTTTAT
1604902 AAATACTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
AATTTTTATTATTGTATTAAAA
Found at i:1605894 original size:17 final size:16
Alignment explanation
Indices: 1605872--1605911 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
1605862 TCTGATAGTG
*
1605872 TGTTTTTTTATTTGTTT
1 TGTTTTTTT-GTTGTTT
1605889 TGTTTTTTTGTTGTTT
1 TGTTTTTTTGTTGTTT
1605905 T-TTTTTT
1 TGTTTTTT
1605912 GCAAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 9 0.41
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (16 bp):
TGTTTTTTTGTTGTTT
Found at i:1605896 original size:16 final size:15
Alignment explanation
Indices: 1605874--1605911 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1605864 TGATAGTGTG
*
1605874 TTTTTTTAT-TTGTT
1 TTTTTTTTTGTTGTT
1605888 TTGTTTTTTTGTTGTT
1 TT-TTTTTTTGTTGTT
1605904 TTTTTTTT
1 TTTTTTTT
1605912 GCAAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 12 0.57
16 7 0.33
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTGTTGTT
Found at i:1606384 original size:43 final size:43
Alignment explanation
Indices: 1606302--1606438 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 43
1606292 TTTTTTTTGT
* * * *
1606302 AAATTTAAAAGGGTTCCTCTAAGCAGATGTTCAATAATTTTTAA
1 AAATATAAAAGGGTTCCTCTAAGCAGAGGCTCAACAA-TTTTAA
* *
1606346 AAATATAAAA-GGTTTCTCTAAGCCGAGGCTCAACAATTTTAA
1 AAATATAAAAGGGTTCCTCTAAGCAGAGGCTCAACAATTTTAA
* * * * * *
1606388 AAATCATCTTGAAAGAGCTCTTCTAAGCAAAGGCTCAATAATTTTAA
1 AAAT-A---TAAAAGGGTTCCTCTAAGCAGAGGCTCAACAATTTTAA
1606435 AAAT
1 AAAT
1606439 TTATCTTGAG
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 10 0.14
43 22 0.30
44 9 0.12
46 4 0.05
47 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (43 bp):
AAATATAAAAGGGTTCCTCTAAGCAGAGGCTCAACAATTTTAA
Found at i:1606472 original size:50 final size:48
Alignment explanation
Indices: 1606362--1606875 Score: 446
Period size: 50 Copynumber: 10.7 Consensus size: 48
1606352 AAAAGGTTTC
* * * *
1606362 TCTAAGCCGAGGCTCAACAATTTTAAAAA-TCATCTTGAAAGAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACTCT
* * * *
1606409 TCTAAGCAAAGGCTCAATAATTTTAAAAATTTATCTTGAGAAAAAACTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTT--GAAAAAACTCT
* * *
1606459 TCTAAGCATAGGCTCAACAACTTT-AAAATTCATCTTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACTCT
*
1606506 TCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAACTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTT--GAAAAAACTCT
** *
1606556 TCTAAATAGAGGCTCAACGACTTTAAAAA-TC-TC------AAACTCCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACT-CT
* * * *
1606597 T-TAAGTAGAGGCTTAACAACTTTAAAAATTCATTTTGATGAAAAGCTCAT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGA--AAAAACTC-T
* * *
1606647 T-TAAGCAGAGGCTCAACGACTTT-AAAATTCATCTTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACTCT
* * * * * *
1606693 TATCAGCAAAGGCCCAACAACTTTAAAAAAATTCATCTTGAAAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTT--AAAAATTCATCTTGAAAAAACTCT
* * * **
1606743 TATAAGCAGAGGCTCAACAACATTTTAAACTTCATCTTGAAAAGGCTCT
1 TCTAAGCAGAGGCTCAACAAC-TTTAAAAATTCATCTTGAAAAAACTCT
* * *
1606792 TCTCAGCAGAGGCTCAACAA-TTTTAAAATTCATCTTGAAAAAAGT-T
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACTCT
* * *
1606838 ATCATAAACAGAGACTCAATAACTTTAAAAATCTCATC
1 -TC-TAAGCAGAGGCTCAACAACTTTAAAAAT-TCATC
1606876 GGTTTTCGAA
Statistics
Matches: 390, Mismatches: 50, Indels: 51
0.79 0.10 0.10
Matches are distributed among these distances:
40 29 0.07
41 5 0.01
42 1 0.00
46 2 0.01
47 106 0.27
48 34 0.09
49 73 0.19
50 137 0.35
51 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (48 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAACTCT
Found at i:1606484 original size:97 final size:96
Alignment explanation
Indices: 1606362--1606834 Score: 477
Period size: 97 Copynumber: 4.9 Consensus size: 96
1606352 AAAAGGTTTC
* * * * *
1606362 TCTAAGCCGAGGCTCAACAATTTTAAAAATCATCTTGAAAGAGCTCTTCTAAGCAAAGGCTCAAT
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAA-AGCTCTTCTAAGCAGAGGCTCAAC
*
1606427 AATTTTAAAAATTTATCTTGAGAAAAAACTCT
65 AATTTTAAAAATTCATCTTGAGAAAAAACTCT
* * *
1606459 TCTAAGCATAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAAC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCTTCTAAGCAGAGGCTCAAC
*
1606524 AACTTTAAAAATTCATCTTGAGAAAAAACTCT
65 AATTTTAAAAATTCATCTTGAGAAAAAACTCT
** * * * *
1606556 TCTAAATAGAGGCTCAACGACTTTAAAA---ATC-T-CAAA-CTCCTT-TAAGTAGAGGCTTAAC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCT-CTTCTAAGCAGAGGCTCAAC
* * *
1606614 AACTTTAAAAATTCATTTTGATG-AAAAGCTCAT
65 AATTTTAAAAATTCATCTTGA-GAAAAAACTC-T
* * * * * *
1606647 T-TAAGCAGAGGCTCAACGACTTTAAAATTCATCTTGAAAAAGCTCCTATCAGCAAAGGCCCAAC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTG-AAAAGCTCTTCTAAGCAGAGGCTCAAC
* * *
1606711 AACTTTAAAAAAATTCATCTT--GAAAAAGCTCC
65 AA-TTT-TAAAAATTCATCTTGAGAAAAAACTCT
* * *
1606743 TATAAGCAGAGGCTCAACAACATTTTAAACTTCATCTTGAAAAGGCTCTTCTCAGCAGAGGCTCA
1 TCTAAGCAGAGGCTCAACAAC--TTTAAAATTCATCTTGAAAA-GCTCTTCTAAGCAGAGGCTCA
1606808 ACAATTTT-AAAATTCATCTTGA-AAAAA
63 ACAATTTTAAAAATTCATCTTGAGAAAAA
1606835 GTTATCATAA
Statistics
Matches: 316, Mismatches: 39, Indels: 42
0.80 0.10 0.11
Matches are distributed among these distances:
90 68 0.22
91 8 0.03
93 4 0.01
94 4 0.01
96 19 0.06
97 153 0.48
98 12 0.04
99 48 0.15
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (96 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAGCTCTTCTAAGCAGAGGCTCAACA
ATTTTAAAAATTCATCTTGAGAAAAAACTCT
Found at i:1606606 original size:40 final size:40
Alignment explanation
Indices: 1606549--1606625 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1606539 TCTTGAGAAA
*
1606549 AAACTCTTCTAAATAGAGGCTCAACGACTTTAAAAATCTC
1 AAACTCTTCTAAATAGAGGCTCAACAACTTTAAAAATCTC
* *
1606589 AAACTCCTT-TAAGTAGAGGCTTAACAACTTTAAAAAT
1 AAACT-CTTCTAAATAGAGGCTCAACAACTTTAAAAAT
1606626 TCATTTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (40 bp):
AAACTCTTCTAAATAGAGGCTCAACAACTTTAAAAATCTC
Found at i:1606657 original size:90 final size:90
Alignment explanation
Indices: 1606502--1606673 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 90
1606492 CTTGAAAAAG
*
1606502 CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAACTCTTCTAAATAGAG
1 CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAACTCTTCTAAACAGAG
1606567 GCTCAACGACTTTAAAAATCTCAAA
66 GCTCAACGACTTTAAAAATCTCAAA
* * * * *
1606592 CTCCTTTAAGTAGAGGCTTAACAACTTTAAAAATTCATTTTGATG-AAAAGCTCATT-TAAGCAG
1 CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGA-GAAAAAACTC-TTCTAAACAG
1606655 AGGCTCAACGACTTTAAAA
64 AGGCTCAACGACTTTAAAA
1606674 TTCATCTTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
90 71 0.96
91 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (90 bp):
CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAGAAAAAACTCTTCTAAACAGAG
GCTCAACGACTTTAAAAATCTCAAA
Found at i:1607684 original size:17 final size:17
Alignment explanation
Indices: 1607662--1607694 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1607652 TGAGTCATTA
1607662 TTTTTTATTTTTTTAAC
1 TTTTTTATTTTTTTAAC
1607679 TTTTTTATTTTTTTAA
1 TTTTTTATTTTTTTAA
1607695 GCAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTTTTTAAC
Found at i:1618195 original size:26 final size:26
Alignment explanation
Indices: 1618156--1618211 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
1618146 TATTAGACAT
*
1618156 AGGTATTTCTTATAAGAAGGTGGACG
1 AGGTATTTCCTATAAGAAGGTGGACG
1618182 AGGTATTTCCTATAAGAAGGTGGACG
1 AGGTATTTCCTATAAGAAGGTGGACG
1618208 AGGT
1 AGGT
1618212 TCTAGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (26 bp):
AGGTATTTCCTATAAGAAGGTGGACG
Found at i:1619503 original size:27 final size:28
Alignment explanation
Indices: 1619443--1619505 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
1619433 ATACACTAGT
*
1619443 AATA-TTTTTAAAAAATCTTCTCACTTA
1 AATATTTTTTAAAAAATCTTCTCACTGA
* *
1619470 AAGATTTTTTAAAACATC-TCT-ACTCGA
1 AATATTTTTTAAAAAATCTTCTCACT-GA
1619497 AATATTTTT
1 AATATTTTT
1619506 AGAATCTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.10
27 15 0.50
28 12 0.40
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.44
Consensus pattern (28 bp):
AATATTTTTTAAAAAATCTTCTCACTGA
Found at i:1619573 original size:22 final size:22
Alignment explanation
Indices: 1619548--1619592 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1619538 TCTCATTTTT
* *
1619548 ATTACTTATTCTTAATTTATTA
1 ATTAATTATTATTAATTTATTA
* *
1619570 ATTAATTTTTATTATTTTATTA
1 ATTAATTATTATTAATTTATTA
1619592 A
1 A
1619593 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTAATTATTATTAATTTATTA
Found at i:1620713 original size:18 final size:18
Alignment explanation
Indices: 1620686--1620722 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1620676 ATTTATAGAG
1620686 CAAAAAGAAGATCAAAAT
1 CAAAAAGAAGATCAAAAT
*
1620704 CAAAAGGAAGATCAAAAT
1 CAAAAAGAAGATCAAAAT
1620722 C
1 C
1620723 CCAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.11
Consensus pattern (18 bp):
CAAAAAGAAGATCAAAAT
Found at i:1620879 original size:14 final size:15
Alignment explanation
Indices: 1620860--1620891 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1620850 AAGTTGCCAG
1620860 AAAAAGAAAAAAA-A
1 AAAAAGAAAAAAATA
1620874 AAAAAGAAAAAAATA
1 AAAAAGAAAAAAATA
1620889 AAA
1 AAA
1620892 TAAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAAATA
Found at i:1635324 original size:69 final size:70
Alignment explanation
Indices: 1635181--1635389 Score: 217
Period size: 69 Copynumber: 2.9 Consensus size: 70
1635171 AAAGACTACT
* * * *
1635181 TTTTTAAGATATTATGAAATTTTAACAAATACCATATTTTTAA-AGTAAAAA-ATGTAATCGATG
1 TTTTTAA-A-ATTATAAAATTTTAACAAATACTA-ATTTTTAAGA-TAAAAACA--TAATAGATA
* *
1635244 TTAAAATTATA
60 CTAAAACTATA
* * *
1635255 TTTTTAAATTTATAAAATTTTAATAAATACT-ATTTTTAAGATAAAAACATAGTAGATACTAAAA
1 TTTTTAAAATTATAAAATTTTAACAAATACTAATTTTTAAGATAAAAACATAATAGATACTAAAA
1635319 CTATA
66 CTATA
* * * *
1635324 TTTTTAAAATTCTAAAATTTTAACAAATATTACATTTTTAAGATAAAAATATAATAGATATTAAA
1 TTTTTAAAATTATAAAATTTTAACAAATACTA-ATTTTTAAGATAAAAACATAATAGATACTAAA
1635389 A
65 A
1635390 AAAAAGATCA
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
69 42 0.37
70 14 0.12
71 32 0.28
72 19 0.17
73 1 0.01
74 7 0.06
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (70 bp):
TTTTTAAAATTATAAAATTTTAACAAATACTAATTTTTAAGATAAAAACATAATAGATACTAAAA
CTATA
Found at i:1636205 original size:36 final size:36
Alignment explanation
Indices: 1636164--1636234 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
1636154 ATTTATATAC
* *
1636164 GAGTTTATATTTAATATATTGTAAATATATAATGTA
1 GAGTTTACATTTAATACATTGTAAATATATAATGTA
*
1636200 GAGTTTACATTTAATACATTGTAAATATGTAATGT
1 GAGTTTACATTTAATACATTGTAAATATATAATGT
1636235 TATATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (36 bp):
GAGTTTACATTTAATACATTGTAAATATATAATGTA
Found at i:1636291 original size:11 final size:11
Alignment explanation
Indices: 1636275--1636299 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1636265 CACATAGAAA
1636275 AAATATATTTT
1 AAATATATTTT
1636286 AAATATATTTT
1 AAATATATTTT
1636297 AAA
1 AAA
1636300 AATTAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATATATTTT
Found at i:1636982 original size:20 final size:19
Alignment explanation
Indices: 1636934--1636982 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1636924 TGAATTTGAT
1636934 TTAATTTTATATTAAATTCA
1 TTAA-TTTATATTAAATTCA
* * *
1636954 TTTAGTTATATGTTAATTCA
1 TTAATTTATAT-TAAATTCA
1636974 TTAATTTAT
1 TTAATTTAT
1636983 TTATTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (19 bp):
TTAATTTATATTAAATTCA
Found at i:1641408 original size:24 final size:22
Alignment explanation
Indices: 1641384--1641424 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1641374 TAATTATTAG
*
1641384 TAGTACCGAATGATTAATATA-
1 TAGTATCGAATGATTAATATAT
*
1641405 TAGTATTGAATGATTAATAT
1 TAGTATCGAATGATTAATAT
1641425 TACAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (22 bp):
TAGTATCGAATGATTAATATAT
Found at i:1642313 original size:13 final size:14
Alignment explanation
Indices: 1642297--1642371 Score: 70
Period size: 13 Copynumber: 5.6 Consensus size: 14
1642287 TAAAACAAAT
*
1642297 AAATAAATTAATC-
1 AAATAAAATAATCA
1642310 AAATATAAATAATCA
1 AAATA-AAATAATCA
1642325 AAATAAAATAA--A
1 AAATAAAATAATCA
1642337 ATAAT-AAATAATCA
1 A-AATAAAATAATCA
**
1642351 AAAT-AAATAAAAA
1 AAATAAAATAATCA
1642364 AAATAAAA
1 AAATAAAA
1642372 AATAGAACTG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
12 8 0.15
13 22 0.42
14 18 0.34
15 5 0.09
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAATCA
Found at i:1642358 original size:25 final size:24
Alignment explanation
Indices: 1642301--1642369 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
1642291 ACAAATAAAT
* *
1642301 AAATTAATCAAATATAAATAATCA
1 AAATAAATAAAATATAAATAATCA
1642325 AAATAAAATAAAATAATAAATAATCA
1 AAAT-AAATAAAAT-ATAAATAATCA
1642351 AAATAAATAAAA-A-AAATAA
1 AAATAAATAAAATATAAATAA
1642370 AAAATAGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.15
23 1 0.02
24 4 0.10
25 15 0.37
26 15 0.37
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (24 bp):
AAATAAATAAAATATAAATAATCA
Found at i:1642362 original size:9 final size:9
Alignment explanation
Indices: 1642287--1642371 Score: 56
Period size: 9 Copynumber: 9.6 Consensus size: 9
1642277 ACTTAAACAT
*
1642287 TAAAACAAA
1 TAAAATAAA
1642296 T-AAATAAA
1 TAAAATAAA
*
1642304 T-TAATCAAA
1 TAAAAT-AAA
1642313 TATAAAT-AA
1 TA-AAATAAA
1642322 TCAAAATAAAA
1 T-AAAAT-AAA
1642333 TAAAAT-AA
1 TAAAATAAA
1642341 T-AAAT-AA
1 TAAAATAAA
1642348 TCAAAATAAA
1 T-AAAATAAA
*
1642358 TAAAAAAAA
1 TAAAATAAA
1642367 TAAAA
1 TAAAA
1642372 AATAGAACTG
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
7 7 0.11
8 13 0.21
9 28 0.44
10 9 0.14
11 6 0.10
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:1642370 original size:26 final size:26
Alignment explanation
Indices: 1642314--1642370 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
1642304 TTAATCAAAT
*
1642314 ATAAATAATCAAAATAAAATAAAATA
1 ATAAATAATCAAAATAAAATAAAAAA
1642340 ATAAATAATCAAAAT-AAATAAAAAAA
1 ATAAATAATCAAAATAAAAT-AAAAAA
1642366 ATAAA
1 ATAAA
1642371 AAATAGAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (26 bp):
ATAAATAATCAAAATAAAATAAAAAA
Found at i:1642372 original size:9 final size:9
Alignment explanation
Indices: 1642324--1642373 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
1642314 ATAAATAATC
1642324 AAAATAAAA
1 AAAATAAAA
1642333 TAAAATAATAA
1 -AAAATAA-AA
*
1642344 ATAATCAAAA
1 AAAAT-AAAA
*
1642354 TAAATAAAA
1 AAAATAAAA
1642363 AAAATAAAA
1 AAAATAAAA
1642372 AA
1 AA
1642374 TAGAACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 14 0.41
10 16 0.47
11 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAA
Found at i:1643354 original size:80 final size:81
Alignment explanation
Indices: 1643228--1643377 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 81
1643218 AAAAATATTT
* *
1643228 TTTTAATGAAAGTCATTAAATGTAATTAGAATTTTAATTTACAAATTACAT-AAATTATATTAAT
1 TTTTAATGAAAGTCATTAAATGCAATTAAAATTTTAATTTACAAATTACATAAAATT-TATTAAT
1643292 -ATTTATGATAAAAATA
65 AATTTATGATAAAAATA
* * ** * **
1643308 TTTTAGTGATAGTCATTTGATGCAATTAAAATTCTT-ATTTATAAATTGGATAAAATTTATTAAT
1 TTTTAATGAAAGTCATTAAATGCAATTAAAATT-TTAATTTACAAATTACATAAAATTTATTAAT
1643372 AATTTA
65 AATTTA
1643378 CAATAAAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 46 0.79
81 12 0.21
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (81 bp):
TTTTAATGAAAGTCATTAAATGCAATTAAAATTTTAATTTACAAATTACATAAAATTTATTAATA
ATTTATGATAAAAATA
Found at i:1644446 original size:19 final size:19
Alignment explanation
Indices: 1644422--1644459 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1644412 AAAGGCCAAC
1644422 CGCAATAAATACAATCTTT
1 CGCAATAAATACAATCTTT
1644441 CGCAATAAATACAATCTTT
1 CGCAATAAATACAATCTTT
1644460 ATACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (19 bp):
CGCAATAAATACAATCTTT
Found at i:1650836 original size:16 final size:16
Alignment explanation
Indices: 1650815--1650869 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
1650805 ATATAAAGGG
1650815 TTTGGATTTTAAGGAT
1 TTTGGATTTTAAGGAT
*
1650831 TTTGGATTTTCAGG--
1 TTTGGATTTTAAGGAT
* *
1650845 TTTGGGTTTAAAGGAT
1 TTTGGATTTTAAGGAT
*
1650861 TTCGGATTT
1 TTTGGATTT
1650870 CGGATTTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 11 0.35
16 20 0.65
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (16 bp):
TTTGGATTTTAAGGAT
Found at i:1650847 original size:30 final size:30
Alignment explanation
Indices: 1650813--1650869 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1650803 TGATATAAAG
* *
1650813 GGTTTGGATTTTAAGGATTTTGGATTTTCA
1 GGTTTGGATTTAAAGGATTTCGGATTTTCA
*
1650843 GGTTTGGGTTTAAAGGATTTCGGATTT
1 GGTTTGGATTTAAAGGATTTCGGATTT
1650870 CGGATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (30 bp):
GGTTTGGATTTAAAGGATTTCGGATTTTCA
Found at i:1651317 original size:21 final size:20
Alignment explanation
Indices: 1651288--1651344 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
1651278 AAAACTTATC
1651288 ATACATAAATATATAAAAAAA
1 ATACAT-AATATATAAAAAAA
* *
1651309 ATACTTAA-A-ATAACAAAA
1 ATACATAATATATAAAAAAA
1651327 ATA-ATAATATATAAAAAA
1 ATACATAATATATAAAAAA
1651345 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 8 0.27
20 2 0.07
21 5 0.17
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
ATACATAATATATAAAAAAA
Found at i:1651657 original size:28 final size:28
Alignment explanation
Indices: 1651602--1651660 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1651592 GATCCTCTAC
*
1651602 GCTCAAAACGACGTCATTTTGGTCTTAT
1 GCTCAAAACGACGTCATTTTGGCCTTAT
*
1651630 GCTCAAAACGACGTCGTTTT-GCCATTAT
1 GCTCAAAACGACGTCATTTTGGCC-TTAT
1651658 GCT
1 GCT
1651661 TTCTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (28 bp):
GCTCAAAACGACGTCATTTTGGCCTTAT
Found at i:1652336 original size:19 final size:19
Alignment explanation
Indices: 1652312--1652364 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1652302 TTTTCTGTTC
*
1652312 TATTTTTTTTGTTTTGTAT
1 TATTTTTTTTATTTTGTAT
**
1652331 TATTTTTGGTATTTTGTAT
1 TATTTTTTTTATTTTGTAT
1652350 TATTTTTTTGTATTT
1 TATTTTTTT-TATTT
1652365 CATATTTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.75
Consensus pattern (19 bp):
TATTTTTTTTATTTTGTAT
Found at i:1653752 original size:3 final size:3
Alignment explanation
Indices: 1653746--1653791 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1653736 TTTTTTATGA
1653746 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1653792 CCTTCTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1656314 original size:33 final size:30
Alignment explanation
Indices: 1656271--1656358 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 30
1656261 AAGTCTCGAA
* * *
1656271 TTATTTTATTTTTTAAATAATTTTTTTATTT
1 TTATATTATATTTTAAATAA-ATTTTTATTT
1656302 TTATATTATA-TTTAAATAAATTTTTATTT
1 TTATATTATATTTTAAATAAATTTTTATTT
* *
1656331 TTA-ATTATA-TCTAAATAAATCTTTATTT
1 TTATATTATATTTTAAATAAATTTTTATTT
1656359 CAAATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 23 0.44
29 12 0.23
30 9 0.17
31 8 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (30 bp):
TTATATTATATTTTAAATAAATTTTTATTT
Found at i:1656337 original size:28 final size:29
Alignment explanation
Indices: 1656282--1656358 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
1656272 TATTTTATTT
*
1656282 TTTAAATAATTTTTTTATTTTTATATTATA
1 TTTAAATAA-ATTTTTATTTTTATATTATA
1656312 TTTAAATAAATTTTTATTTTTA-ATTATA
1 TTTAAATAAATTTTTATTTTTATATTATA
* *
1656340 TCTAAATAAATCTTTATTT
1 TTTAAATAAATTTTTATTT
1656359 CAAATAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 23 0.52
29 12 0.27
30 9 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTAAATAAATTTTTATTTTTATATTATA
Found at i:1656434 original size:30 final size:30
Alignment explanation
Indices: 1656380--1656490 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 30
1656370 ATTAATTCAT
* * *
1656380 GTTAAGGATTGATTTAAATCTAAATTAAAA
1 GTTAAGAATTTATTTAAATATAAATTAAAA
*
1656410 GTTAAGAATTTATTTGAATATAAATTAAAA
1 GTTAAGAATTTATTTAAATATAAATTAAAA
* * *
1656440 GTTAATAA--T-TTTGAGTATAAATTTAAAA
1 GTTAAGAATTTATTTAAATATAAA-TTAAAA
* *
1656468 ATTAAAAATTTATTTAAATATAA
1 GTTAAGAATTTATTTAAATATAA
1656491 TAAAAAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 11 0.16
28 13 0.19
30 34 0.51
31 9 0.13
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.41
Consensus pattern (30 bp):
GTTAAGAATTTATTTAAATATAAATTAAAA
Found at i:1656460 original size:27 final size:27
Alignment explanation
Indices: 1656400--1656478 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
1656390 GATTTAAATC
*
1656400 TAAATTAAAAGTTAAGAATTTATTTGAATA
1 TAAATTAAAAGTTAA-AA-AT-TTTGAATA
* *
1656430 TAAATTAAAAGTTAATAATTTTGAGTA
1 TAAATTAAAAGTTAAAAATTTTGAATA
*
1656457 TAAATTTAAAAATTAAAAATTT
1 TAAA-TTAAAAGTTAAAAATTT
1656479 ATTTAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 11 0.26
28 16 0.37
29 1 0.02
30 15 0.35
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.41
Consensus pattern (27 bp):
TAAATTAAAAGTTAAAAATTTTGAATA
Found at i:1656503 original size:27 final size:27
Alignment explanation
Indices: 1656473--1656526 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1656463 TAAAAATTAA
* *
1656473 AAATTTATTTAAATATAATAAAAAAAT
1 AAATTTATCTAAATAAAATAAAAAAAT
*
1656500 AAATTTATCTAAATAAAATAATAAAAT
1 AAATTTATCTAAATAAAATAAAAAAAT
1656527 TCAGGGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAATTTATCTAAATAAAATAAAAAAAT
Found at i:1658120 original size:33 final size:33
Alignment explanation
Indices: 1658038--1658128 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 33
1658028 AAGCGTCACT
* *
1658038 AATTTAGCGGTGTTTGAACACAAAACACCATTA
1 AATTTAGCGGCGTTTGTACACAAAACACCATTA
* ** * *
1658071 AATTTAACAACATTTGTACACAAAATACCATTA
1 AATTTAGCGGCGTTTGTACACAAAACACCATTA
*
1658104 AATTTAGTGGCGTTTGTACACAAAA
1 AATTTAGCGGCGTTTGTACACAAAA
1658129 ACACTACTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (33 bp):
AATTTAGCGGCGTTTGTACACAAAACACCATTA
Found at i:1658144 original size:33 final size:33
Alignment explanation
Indices: 1658034--1658145 Score: 86
Period size: 33 Copynumber: 3.4 Consensus size: 33
1658024 GAAAAAGCGT
* * * *
1658034 CACT-AATTTAGCGGTGTTTGAACACAAAACAC
1 CACTAAATTTAGTGGCGTTTGTACACAAAATAC
* **** *
1658066 CATTAAATTTAACAACATTTGTACACAAAATAC
1 CACTAAATTTAGTGGCGTTTGTACACAAAATAC
*
1658099 CATTAAATTTAGTGGCGTTTGTACACAAAA-AC
1 CACTAAATTTAGTGGCGTTTGTACACAAAATAC
1658131 ACTACTAAA-TTAGTG
1 -C-ACTAAATTTAGTG
1658146 AAATTTCAAG
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
32 5 0.08
33 53 0.84
34 5 0.08
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (33 bp):
CACTAAATTTAGTGGCGTTTGTACACAAAATAC
Found at i:1658394 original size:19 final size:20
Alignment explanation
Indices: 1658370--1658409 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1658360 TTACTATAAT
*
1658370 TAAATAAAAA-ATATTAAAA
1 TAAATAAAAACAAATTAAAA
1658389 TAAATAAAAACAAATTAAAA
1 TAAATAAAAACAAATTAAAA
1658409 T
1 T
1658410 TCATAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAATAAAAACAAATTAAAA
Found at i:1660133 original size:24 final size:24
Alignment explanation
Indices: 1660077--1660136 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
1660067 AGAGCTTAAA
1660077 ATAATTTATTTAAAAAAATAAAAC
1 ATAATTTATTTAAAAAAATAAAAC
* * * *
1660101 ATAA-ATATTTGATAAAATAGAAC
1 ATAATTTATTTAAAAAAATAAAAC
1660124 ATAATTTATTTAA
1 ATAATTTATTTAA
1660137 TCTTGATGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (24 bp):
ATAATTTATTTAAAAAAATAAAAC
Found at i:1660943 original size:6 final size:6
Alignment explanation
Indices: 1660934--1661008 Score: 53
Period size: 6 Copynumber: 12.5 Consensus size: 6
1660924 AGTTAAATCT
* * * * * *
1660934 AAATTA AAATTA AAATTA AAATCA AATTTA ATATTG AAATTG AAATTG
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
* * *
1660982 AAA-TC AAATTA CAACTCA AAATTA AAA
1 AAATTA AAATTA -AAATTA AAATTA AAA
1661009 AATTTAAGCT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
5 4 0.07
6 46 0.85
7 4 0.07
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:1660964 original size:24 final size:24
Alignment explanation
Indices: 1660901--1660979 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
1660891 CCACAAACTA
*
1660901 AAAATTAAAA-CTAAATT-AAA-G
1 AAAATTAAAATCTAAATTAAAATT
*
1660922 AAAGTT-AAATCTAAATTAAAATT
1 AAAATTAAAATCTAAATTAAAATT
*
1660945 AAAATTAAAATC-AAATTTAATATT
1 AAAATTAAAATCTAAA-TTAAAATT
* *
1660969 GAAATTGAAAT
1 AAAATTAAAAT
1660980 TGAAATCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.06
21 12 0.26
22 3 0.06
23 8 0.17
24 21 0.45
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (24 bp):
AAAATTAAAATCTAAATTAAAATT
Found at i:1664494 original size:7 final size:7
Alignment explanation
Indices: 1664482--1664519 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
1664472 ACTTATTTTT
1664482 TTTTTCA
1 TTTTTCA
1664489 TTTTTCA
1 TTTTTCA
1664496 TTTTT--
1 TTTTTCA
1664501 TTTTTCA
1 TTTTTCA
1664508 TTTTTTCA
1 -TTTTTCA
1664516 TTTT
1 TTTT
1664520 CTTTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCA
Found at i:1664503 original size:11 final size:12
Alignment explanation
Indices: 1664489--1664531 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
1664479 TTTTTTTTCA
1664489 TTTTTCATTTTT
1 TTTTTCATTTTT
1664501 TTTTTCATTTTT
1 TTTTTCATTTTT
*
1664513 TCATTTTC-TTTTC
1 T--TTTTCATTTTT
1664526 TTTTTC
1 TTTTTC
1664532 TGACAGCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 5 0.18
14 5 0.18
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCATTTTT
Found at i:1664511 original size:27 final size:25
Alignment explanation
Indices: 1664481--1664531 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1664471 TACTTATTTT
*
1664481 TTTTTTCATTTTTCATTTTTTTTTTCA
1 TTTTTTCA-TTTTC-TTTTCTTTTTCA
1664508 TTTTTTCATTTTCTTTTCTTTTTC
1 TTTTTTCATTTTCTTTTCTTTTTC
1664532 TGACAGCGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 5 0.22
27 8 0.35
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTCATTTTCTTTTCTTTTTCA
Found at i:1664525 original size:19 final size:20
Alignment explanation
Indices: 1664476--1664524 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
1664466 TTATTTACTT
1664476 ATTTTTTTTTTCA-TTTTTC
1 ATTTTTTTTTTCATTTTTTC
1664495 ATTTTTTTTTTCATTTTTTC
1 ATTTTTTTTTTCATTTTTTC
1664515 ATTTTCTTTT
1 ATTTT-TTTT
1664525 CTTTTTCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 13 0.46
20 11 0.39
21 4 0.14
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTTTCATTTTTTC
Found at i:1665380 original size:21 final size:22
Alignment explanation
Indices: 1665335--1665380 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1665325 AAAAAAAAAA
* * *
1665335 ATTTTTAATTTTTTTATATATT
1 ATTTTAAATTTTATTATATAAT
1665357 ATTTTAAATTTTATTAT-TAAT
1 ATTTTAAATTTTATTATATAAT
1665378 ATT
1 ATT
1665381 CATGCCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTAAATTTTATTATATAAT
Found at i:1665873 original size:17 final size:17
Alignment explanation
Indices: 1665847--1665879 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1665837 TTGAAATATT
1665847 TATAAAAAAAATTTCAA
1 TATAAAAAAAATTTCAA
*
1665864 TATAATAAAAATTTCA
1 TATAAAAAAAATTTCA
1665880 CTTTTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAAAAATTTCAA
Found at i:1666930 original size:2 final size:2
Alignment explanation
Indices: 1666909--1666947 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1666899 GCATTTTGTA
1666909 AT AT A- AT AT A- AT AT -T 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 AT AT AT AT AT AT AT AT
1666948 GATTTGATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1671035 original size:24 final size:24
Alignment explanation
Indices: 1670979--1671038 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
1670969 AGAGCTTAAA
1670979 ATAATTTATTTAAAAAAATAGAAC
1 ATAATTTATTTAAAAAAATAGAAC
* * *
1671003 ATAA-ATATTTGATAAAATAGAAC
1 ATAATTTATTTAAAAAAATAGAAC
1671026 ATAATTTATTTAA
1 ATAATTTATTTAA
1671039 TCTTGATGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (24 bp):
ATAATTTATTTAAAAAAATAGAAC
Found at i:1671597 original size:11 final size:11
Alignment explanation
Indices: 1671581--1671614 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1671571 TTCACTAAAT
*
1671581 TTGTGATTTTA
1 TTGTGATTTGA
1671592 TTGTGATTTGA
1 TTGTGATTTGA
1671603 TT-TGATTTGA
1 TTGTGATTTGA
1671613 TT
1 TT
1671615 TTTCTGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (11 bp):
TTGTGATTTGA
Done.