Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 62 of 93
Found at i:8413583 original size:7 final size:7
Alignment explanation
Indices: 8413573--8413599 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8413563 AAAATTAAAG
8413573 ATTTAAT
1 ATTTAAT
8413580 ATTTAAT
1 ATTTAAT
8413587 ATTTAAT
1 ATTTAAT
8413594 ATTTAA
1 ATTTAA
8413600 AAGTATGATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTAAT
Found at i:8414722 original size:15 final size:16
Alignment explanation
Indices: 8414704--8414736 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8414694 TGAAATCTTA
8414704 AATTT-AAAAAAATAT
1 AATTTGAAAAAAATAT
8414719 AATTTGAAAAAAATAT
1 AATTTGAAAAAAATAT
8414735 AA
1 AA
8414737 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AATTTGAAAAAAATAT
Found at i:8414929 original size:12 final size:13
Alignment explanation
Indices: 8414905--8414937 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8414895 AATCTTTAAC
8414905 AAAA-AAAAGTAT
1 AAAATAAAAGTAT
8414917 AAAATAAAA-TAT
1 AAAATAAAAGTAT
8414929 AAAATAAAA
1 AAAATAAAA
8414938 AATTACGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAATAAAAGTAT
Found at i:8419720 original size:2 final size:2
Alignment explanation
Indices: 8419676--8419703 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8419666 GCTCATTTTC
8419676 AT 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 AT
8419704 GAGAAAAATC
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):
AT
Found at i:8422075 original size:233 final size:232
Alignment explanation
Indices: 8421668--8422133 Score: 905
Period size: 233 Copynumber: 2.0 Consensus size: 232
8421658 AATTTAAAAT
8421668 TTATTACTTTTTTATAATTTATTTTCTGGATATCGATTATTAAAGCTTTATAATAGTTTTAACTA
1 TTATTACTTTTTTATAATTTATTTTCTGGATATCGATTATTAAAGCTTTATAATAGTTTTAACTA
*
8421733 AATTGAACTCTTTGGAGAAATCCTTCTGTCTACTTGTCATGATGAATTTCTCAAGTTAACATTTA
66 AATTGAACTCTTTGGAGAAATCCTTCTATCTACTTGTCATGATGAATTTCTCAAGTTAACATTTA
*
8421798 GGTTTTGACAAAATTATGTATTATTTAGTAGTATTACTTATACAATTTCAATGAATTTTAACTCT
131 GGTTTTGACAAAATTAAGTATTATTTAGTAGTATTACTTATACAATTTCAATGAATTTTAACTCT
8421863 CAGATATTAATTAGACATGATATTTTTTTCATTATCTC
196 CAGATATTAATTAGACATGAT-TTTTTTTCATTATCTC
8421901 TTATTACTTTTTTATAATTTATTTTCTGGATATCGATTATTAAAGCTTTATAATAGTTTTAACTA
1 TTATTACTTTTTTATAATTTATTTTCTGGATATCGATTATTAAAGCTTTATAATAGTTTTAACTA
8421966 AATTGAACTCTTTGGAGAAATCCTTCTATCTACTTGTCATGATGAATTTCTCAAGTTAACATTTA
66 AATTGAACTCTTTGGAGAAATCCTTCTATCTACTTGTCATGATGAATTTCTCAAGTTAACATTTA
8422031 GGTTTTGACAAAATTAAGTATTATTTAGTAGTATTACTTATACAATTTCAATGAATTTTAACTCT
131 GGTTTTGACAAAATTAAGTATTATTTAGTAGTATTACTTATACAATTTCAATGAATTTTAACTCT
8422096 CAGATATTAATTAGACATGATTTTTTTTCATTATCTC
196 CAGATATTAATTAGACATGATTTTTTTTCATTATCTC
8422133 T
1 T
8422134 CGTAACATTA
Statistics
Matches: 231, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
232 17 0.07
233 214 0.93
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (232 bp):
TTATTACTTTTTTATAATTTATTTTCTGGATATCGATTATTAAAGCTTTATAATAGTTTTAACTA
AATTGAACTCTTTGGAGAAATCCTTCTATCTACTTGTCATGATGAATTTCTCAAGTTAACATTTA
GGTTTTGACAAAATTAAGTATTATTTAGTAGTATTACTTATACAATTTCAATGAATTTTAACTCT
CAGATATTAATTAGACATGATTTTTTTTCATTATCTC
Found at i:8423183 original size:13 final size:13
Alignment explanation
Indices: 8423165--8423189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8423155 CTGTAAATAC
8423165 ACAGATCAAGTAG
1 ACAGATCAAGTAG
8423178 ACAGATCAAGTA
1 ACAGATCAAGTA
8423190 ATAAAATAAA
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:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (13 bp):
ACAGATCAAGTAG
Found at i:8423733 original size:32 final size:32
Alignment explanation
Indices: 8423692--8423754 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8423682 AAATTTAAAA
8423692 AACAAAACTTTTGTTATTGACAAATCTGTCAG
1 AACAAAACTTTTGTTATTGACAAATCTGTCAG
*
8423724 AACAAAACTTTTGTTATTGGCAAATCTGTCA
1 AACAAAACTTTTGTTATTGACAAATCTGTCA
8423755 CCTAAGCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
AACAAAACTTTTGTTATTGACAAATCTGTCAG
Found at i:8426933 original size:24 final size:24
Alignment explanation
Indices: 8426906--8426951 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8426896 CCACGAACTG
* *
8426906 GACTTCGGCTCCTGCTTCTACTAC
1 GACTTCGGCTCCAGCTCCTACTAC
8426930 GACTTCGGCTCCAGCTCCTACT
1 GACTTCGGCTCCAGCTCCTACT
8426952 CCTACTCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.39, G:0.17, T:0.30
Consensus pattern (24 bp):
GACTTCGGCTCCAGCTCCTACTAC
Found at i:8430705 original size:34 final size:34
Alignment explanation
Indices: 8430667--8430745 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
8430657 GCATATCTCA
* * * *
8430667 AAAATATATTTTTTAAAAATTATAATATTTTTTG
1 AAAATATATTTTTGAAAAATCATAACACTTTTTG
* *
8430701 AAAATATATTTTTGAGAACTCATAACACTTTTTG
1 AAAATATATTTTTGAAAAATCATAACACTTTTTG
*
8430735 AAAATACATTT
1 AAAATATATTT
8430746 ATGAGAGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
AAAATATATTTTTGAAAAATCATAACACTTTTTG
Found at i:8431738 original size:21 final size:22
Alignment explanation
Indices: 8431714--8431757 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8431704 TTAAAAAAAT
*
8431714 AAAA-GTGGGATGTCTTTAGAA
1 AAAATGTGGGATGTATTTAGAA
*
8431735 AAAATGTGGGGTGTATTTAGAA
1 AAAATGTGGGATGTATTTAGAA
8431757 A
1 A
8431758 TCCCTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.30
Consensus pattern (22 bp):
AAAATGTGGGATGTATTTAGAA
Found at i:8434861 original size:13 final size:13
Alignment explanation
Indices: 8434843--8434867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8434833 TTCTTACAAA
8434843 AAAAAGAATTATT
1 AAAAAGAATTATT
8434856 AAAAAGAATTAT
1 AAAAAGAATTAT
8434868 GAAATTATAG
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:0.08, T:0.28
Consensus pattern (13 bp):
AAAAAGAATTATT
Found at i:8440891 original size:23 final size:21
Alignment explanation
Indices: 8440864--8440906 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
8440854 TTATTTTTAA
8440864 AAATTTTATCAATTAAAATAAAT
1 AAATTTTATC-ATT-AAATAAAT
*
8440887 AAATTTTTTCATTAAATAAA
1 AAATTTTATCATTAAATAAA
8440907 AATTACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTATCATTAAATAAAT
Found at i:8441398 original size:24 final size:27
Alignment explanation
Indices: 8441317--8441398 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 27
8441307 TTTTTTCATT
* *
8441317 TTAATTTT-TT-ATTTAAAAATTATAAA
1 TTAATTTTATTAATTT-AACATAATAAA
* *
8441343 CTAATTTTATTAATTTAAGATAA-AAA
1 TTAATTTTATTAATTTAACATAATAAA
*
8441369 TAAATTTTATT-A-TT-ACATAATAAA
1 TTAATTTTATTAATTTAACATAATAAA
8441393 TTAATT
1 TTAATT
8441399 AATCAATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
23 5 0.11
24 10 0.22
25 1 0.02
26 19 0.41
27 7 0.15
28 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (27 bp):
TTAATTTTATTAATTTAACATAATAAA
Found at i:8441440 original size:33 final size:35
Alignment explanation
Indices: 8441365--8441455 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 35
8441355 ATTTAAGATA
*
8441365 AAAATAAATTTTATTA-TTACATAATAAATTAATT
1 AAAATAAATTTTATTATTTATATAATAAATTAATT
*
8441399 AATCAATAAATTTTATTATTTATATAATAAATTGA-T
1 AA--AATAAATTTTATTATTTATATAATAAATTAATT
8441435 -AAATAAATTTTAATTATTTAT
1 AAAATAAATTTT-ATTATTTAT
8441456 TAACAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
33 10 0.20
34 11 0.22
35 1 0.02
36 15 0.29
37 14 0.27
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (35 bp):
AAAATAAATTTTATTATTTATATAATAAATTAATT
Found at i:8451579 original size:30 final size:30
Alignment explanation
Indices: 8451538--8451594 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
8451528 ACATTCTCAC
**
8451538 ATTTATATTATTTATTTTAAAATTAAACGT
1 ATTTATATTATTTAAATTAAAATTAAACGT
*
8451568 ATTTATTTTATTTAAATTAAAATTAAA
1 ATTTATATTATTTAAATTAAAATTAAA
8451595 ACATTATGAA
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:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTATATTATTTAAATTAAAATTAAACGT
Found at i:8453157 original size:22 final size:23
Alignment explanation
Indices: 8453125--8453170 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
8453115 AAGCTAGTTA
*
8453125 ATATATATTTAAATA-AAATTTT
1 ATATATATTTAAAAATAAATTTT
*
8453147 ATATATTTTTAAAAATAAATTTT
1 ATATATATTTAAAAATAAATTTT
8453170 A
1 A
8453171 ATGTAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATATTTAAAAATAAATTTT
Found at i:8461503 original size:138 final size:138
Alignment explanation
Indices: 8461255--8461524 Score: 414
Period size: 138 Copynumber: 2.0 Consensus size: 138
8461245 GAGAGCAAAC
* * * *
8461255 ACAGTCAAAGGGGCATGAATAATGACAGAAAACAAAGAAAAATTTTAGATGGAAGATGGGACGGA
1 ACAGTCAAAGGGGCAAGAATAATGACAGAAAACAAACAAAAATTTTAGATGAAAGATGGGACAGA
* * *
8461320 CAGAACACAAGTTTAAAATGGGATCAAAACAGTGAGAGAAGCCATGATACCAGTTCTGATGGTGG
66 CAGAACAAAAGTTTAAAACGGGATCAAAACAGTGAGAGAAGCCATGATACCAGTTCTGATGGAGG
8461385 TTGTTTAG
131 TTGTTTAG
* * *
8461393 ACAGTCAAATGGGCAAGAATAATGACAGAAAACAAACAAAAATTTTAGATGAAAGATTGGATAGA
1 ACAGTCAAAGGGGCAAGAATAATGACAGAAAACAAACAAAAATTTTAGATGAAAGATGGGACAGA
* * * *
8461458 CAGAGCAAAAGTTTAAAACGGGGTCAAAATAGTGAGAGAATCCATGATACCAGTTCTGATGGAGG
66 CAGAACAAAAGTTTAAAACGGGATCAAAACAGTGAGAGAAGCCATGATACCAGTTCTGATGGAGG
8461523 TT
131 TT
8461525 ATTCAGAGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.20
Consensus pattern (138 bp):
ACAGTCAAAGGGGCAAGAATAATGACAGAAAACAAACAAAAATTTTAGATGAAAGATGGGACAGA
CAGAACAAAAGTTTAAAACGGGATCAAAACAGTGAGAGAAGCCATGATACCAGTTCTGATGGAGG
TTGTTTAG
Found at i:8463674 original size:29 final size:28
Alignment explanation
Indices: 8463642--8463696 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
8463632 TCACATAATT
* *
8463642 ATATTATAAAAAAATTAATTATTTATTAC
1 ATATGATAAAAAAA-TAAATATTTATTAC
* *
8463671 ATATGATTAAATAATAAATATTTATT
1 ATATGATAAAAAAATAAATATTTATT
8463697 TTAATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATATGATAAAAAAATAAATATTTATTAC
Found at i:8463717 original size:21 final size:21
Alignment explanation
Indices: 8463683--8463747 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
8463673 ATGATTAAAT
* *
8463683 AATAAATATTTATTT-TAATA
1 AATAATTAATTATTTATAATA
8463703 AATTAATTAATTATTTTATAATA
1 AA-TAATTAATTA-TTTATAATA
*
8463726 AATAATTAATTTTTTATAATA
1 AATAATTAATTATTTATAATA
8463747 A
1 A
8463748 TATGATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.05
21 18 0.46
22 12 0.31
23 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATTAATTATTTATAATA
Found at i:8463755 original size:22 final size:22
Alignment explanation
Indices: 8463698--8463747 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
8463688 ATATTTATTT
8463698 TAATAAATTAATTAATTATTTTA
1 TAATAAA-TAATTAATTATTTTA
8463721 TAATAAATAATTAATT-TTTTA
1 TAATAAATAATTAATTATTTTA
8463742 TAATAA
1 TAATAA
8463748 TATGATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 11 0.41
22 9 0.33
23 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATAAATAATTAATTATTTTA
Found at i:8463758 original size:21 final size:21
Alignment explanation
Indices: 8463678--8463747 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 21
8463668 TACATATGAT
* *
8463678 TAAATAATAAATATTTATTTTAA
1 TAAATAATTAAT-TTT-TTATAA
8463701 TAAATTAATTAATTATTTTATAA
1 TAAA-TAATTAATT-TTTTATAA
8463724 TAAATAATTAATTTTTTATAA
1 TAAATAATTAATTTTTTATAA
8463745 TAA
1 TAA
8463748 TATGATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.26
22 9 0.21
23 14 0.33
24 9 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATAATTAATTTTTTATAA
Found at i:8469951 original size:14 final size:12
Alignment explanation
Indices: 8469919--8469961 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
8469909 ATACGGTAAA
*
8469919 AATTTTAAATTT
1 AATTTAAAATTT
8469931 AATTTAAAATTT
1 AATTTAAAATTT
8469943 ATTATTTAAAATTT
1 A--ATTTAAAATTT
8469957 AATTT
1 AATTT
8469962 GAGTGCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 16 0.57
14 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTAAAATTT
Found at i:8471423 original size:25 final size:24
Alignment explanation
Indices: 8471358--8471438 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
8471348 AAAATTTCAT
*
8471358 GAATTTT-AATGTTAAAAATAA-AA
1 GAATTTTAAATATTAAAAA-AAGAA
* *
8471381 AAATTTTAAA-A-TATAAAAAGTAA
1 GAATTTTAAATATTAAAAAAAG-AA
8471404 GAATTTTAAATATTAAAAAAAGATA
1 GAATTTTAAATATTAAAAAAAGA-A
*
8471429 TAATTTTAAA
1 GAATTTTAAA
8471439 AATTTTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 17 0.37
24 4 0.09
25 18 0.39
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
GAATTTTAAATATTAAAAAAAGAA
Found at i:8472014 original size:2 final size:2
Alignment explanation
Indices: 8472007--8472031 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8471997 TTCTTACCAA
8472007 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
8472032 CATTTTAAAT
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:8472585 original size:22 final size:22
Alignment explanation
Indices: 8472535--8472587 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8472525 ATAATTACAA
8472535 ATTATTTAAATTCAATTTAAAT
1 ATTATTTAAATTCAATTTAAAT
** * * *
8472557 AAAATTTAAATTTATTTTAATT
1 ATTATTTAAATTCAATTTAAAT
8472579 ATTATTTAA
1 ATTATTTAA
8472588 TTAAACTTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTATTTAAATTCAATTTAAAT
Found at i:8472655 original size:21 final size:22
Alignment explanation
Indices: 8472624--8472664 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8472614 TTATTAAACA
*
8472624 ACTCAAATTCAAATATTTTAAT
1 ACTCAAATTCAAATAATTTAAT
8472646 ACTC-AATTCAAATAATTTA
1 ACTCAAATTCAAATAATTTA
8472665 CAAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (22 bp):
ACTCAAATTCAAATAATTTAAT
Found at i:8472731 original size:2 final size:2
Alignment explanation
Indices: 8472724--8472748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8472714 AAAAATTATT
8472724 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
8472749 CAATTCTTTC
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:8475284 original size:29 final size:29
Alignment explanation
Indices: 8475252--8475309 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
8475242 TATTAGATTA
*
8475252 ATTTGATTTGAGTAGTATTATTTTTAACT
1 ATTTGATTTGAGTAGCATTATTTTTAACT
*
8475281 ATTTTATTTGAGTAGCATTATTTTTAACT
1 ATTTGATTTGAGTAGCATTATTTTTAACT
8475310 TACTTGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (29 bp):
ATTTGATTTGAGTAGCATTATTTTTAACT
Found at i:8481069 original size:54 final size:53
Alignment explanation
Indices: 8480992--8481106 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 53
8480982 ATTTAAATGT
* *
8480992 ATGTAATTCAATTATCAAATAATTAAAAAGG-TATCATGATAATTTGTAATGGG
1 ATGTAATTTAATTATCAAATAATT-AAAAGGACATCATGATAATTTGTAATGGG
* * * *
8481045 CATGTAATTTAATTGTCAAGTAATTAAAAGGACATTATGATCATTTGTAATGGG
1 -ATGTAATTTAATTATCAAATAATTAAAAGGACATCATGATAATTTGTAATGGG
8481099 AT-TAATTT
1 ATGTAATTT
8481107 CATATTATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
52 6 0.11
53 8 0.15
54 40 0.74
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (53 bp):
ATGTAATTTAATTATCAAATAATTAAAAGGACATCATGATAATTTGTAATGGG
Found at i:8481354 original size:26 final size:25
Alignment explanation
Indices: 8481311--8481376 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8481301 TATTATAGTA
* *
8481311 ATTTTAGTAAATTATAATATA-AGAGG
1 ATTTTCGT-AATTATAATA-AGAAAGG
8481337 TATTTTCGTAATTATAATAAGAAAGG
1 -ATTTTCGTAATTATAATAAGAAAGG
*
8481363 ATTTTCATAATTAT
1 ATTTTCGTAATTAT
8481377 GATGAAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.40
26 14 0.40
27 7 0.20
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTTCGTAATTATAATAAGAAAGG
Found at i:8481373 original size:25 final size:26
Alignment explanation
Indices: 8481320--8481376 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
8481310 AATTTTAGTA
* *
8481320 AATTATAATATAAGAGGTATTTTCGT
1 AATTATAATATAAAAGGTATTTTCAT
8481346 AATTATAATA-AGAAAGG-ATTTTCAT
1 AATTATAATATA-AAAGGTATTTTCAT
8481371 AATTAT
1 AATTAT
8481377 GATGAAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (26 bp):
AATTATAATATAAAAGGTATTTTCAT
Found at i:8482343 original size:25 final size:26
Alignment explanation
Indices: 8482291--8482347 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
8482281 AATTTTATCC
*
8482291 AATTATAATATGAGTGGTATTTTCAT
1 AATTATAATAAGAGTGGTATTTTCAT
8482317 AATTATAATAAGA-T-GTCATTTTCAT
1 AATTATAATAAGAGTGGT-ATTTTCAT
8482342 AATTAT
1 AATTAT
8482348 GGTTAGAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 12 0.41
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (26 bp):
AATTATAATAAGAGTGGTATTTTCAT
Found at i:8483049 original size:14 final size:15
Alignment explanation
Indices: 8483018--8483067 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
8483008 AATATTTTTT
* **
8483018 AAAAAAACTAAATTA
1 AAAAAAAGTAAAGAA
8483033 AAAAAAAGTAAA-AA
1 AAAAAAAGTAAAGAA
8483047 AAAAAAAGGTAAAGAA
1 AAAAAAA-GTAAAGAA
8483063 AAAAA
1 AAAAA
8483068 CAAAAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 8 0.26
15 16 0.52
16 7 0.23
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAAAAAGTAAAGAA
Found at i:8483065 original size:20 final size:20
Alignment explanation
Indices: 8483037--8483074 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8483027 AAATTAAAAA
*
8483037 AAAGTAAAAAAAAAAAAGGT
1 AAAGAAAAAAAAAAAAAGGT
*
8483057 AAAGAAAAAAACAAAAAG
1 AAAGAAAAAAAAAAAAAG
8483075 TTTTATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAAAAAAAAAGGT
Found at i:8487409 original size:25 final size:25
Alignment explanation
Indices: 8487372--8487421 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8487362 TTTGAATTTA
8487372 ATTTGCTTAATCAATGATTATATTG
1 ATTTGCTTAATCAATGATTATATTG
*
8487397 ATTTGCTTGATCAATGATTATATTG
1 ATTTGCTTAATCAATGATTATATTG
8487422 TTGGATGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (25 bp):
ATTTGCTTAATCAATGATTATATTG
Found at i:8487494 original size:14 final size:14
Alignment explanation
Indices: 8487475--8487501 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8487465 TGTTCGTCTT
8487475 AATTTTTTTTAATA
1 AATTTTTTTTAATA
8487489 AATTTTTTTTAAT
1 AATTTTTTTTAAT
8487502 CTTATTATAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTTTTTTAATA
Found at i:8487546 original size:28 final size:28
Alignment explanation
Indices: 8487515--8487574 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
8487505 ATTATAAAAA
* *
8487515 GTTATAAAAAATAATAAATAT-TCAATAT
1 GTTACAAAAAACAATAAATATAT-AATAT
* *
8487543 GTTACAAAGAACAATATATATATAATAT
1 GTTACAAAAAACAATAAATATATAATAT
8487571 GTTA
1 GTTA
8487575 AGATTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (28 bp):
GTTACAAAAAACAATAAATATATAATAT
Found at i:8502501 original size:18 final size:18
Alignment explanation
Indices: 8502478--8502527 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
8502468 ATAAAATTCG
8502478 ATCGAACTCAAACCAAGT
1 ATCGAACTCAAACCAAGT
** *
8502496 ATCGAACCTCAAATTATGT
1 ATCGAA-CTCAAACCAAGT
*
8502515 GTCGAACTCAAAC
1 ATCGAACTCAAAC
8502528 TCAAACTTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (18 bp):
ATCGAACTCAAACCAAGT
Found at i:8502820 original size:22 final size:22
Alignment explanation
Indices: 8502795--8502838 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8502785 TATTCGTTTC
8502795 TTATT-TTAATTAAATAAATAAT
1 TTATTATT-ATTAAATAAATAAT
* *
8502817 TTATTATTATTTAATTAATAAT
1 TTATTATTATTAAATAAATAAT
8502839 AATAAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTATTATTAAATAAATAAT
Found at i:8508000 original size:28 final size:28
Alignment explanation
Indices: 8507946--8508001 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8507936 ATATTTTAAG
*
8507946 ATATTTTAAAATTATATTATATTATTTT
1 ATATTTTAAAATTATATTATATGATTTT
* *
8507974 ATATTTTAAAATTATTTTTTATGATTTT
1 ATATTTTAAAATTATATTATATGATTTT
8508002 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
ATATTTTAAAATTATATTATATGATTTT
Found at i:8510106 original size:53 final size:52
Alignment explanation
Indices: 8510035--8510140 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 52
8510025 ATTTTTAACT
8510035 TACTTTTATGAGAATGATTGAGATATCGATTCCTTTTTGAATGTTTAATTACC
1 TACTTTTATGAGAATGATTGAGATATCGATT-CTTTTTGAATGTTTAATTACC
* *
8510088 TACTTTTATGAGACTGATTGAGATATCTATTCTTTTTGAATGTTTAATTACC
1 TACTTTTATGAGAATGATTGAGATATCGATTCTTTTTGAATGTTTAATTACC
8510140 T
1 T
8510141 TTTGCTTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 22 0.43
53 29 0.57
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (52 bp):
TACTTTTATGAGAATGATTGAGATATCGATTCTTTTTGAATGTTTAATTACC
Found at i:8514542 original size:27 final size:31
Alignment explanation
Indices: 8514512--8514598 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
8514502 ATACCTCAAA
*
8514512 ATTGAATTCTGCCACT-A-CTTT-A-TTTTG
1 ATTGAATTTTGCCACTAACCTTTGATTTTTG
* *
8514539 ATTGAATTTTACTACTAACCTTTGATTTTTG
1 ATTGAATTTTGCCACTAACCTTTGATTTTTG
** *
8514570 ATTGAATTTTGCCTTTAAACTTTGATTTT
1 ATTGAATTTTGCCACTAACCTTTGATTTT
8514599 GAATGATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 13 0.27
28 1 0.02
29 4 0.08
30 1 0.02
31 29 0.60
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (31 bp):
ATTGAATTTTGCCACTAACCTTTGATTTTTG
Found at i:8515406 original size:30 final size:29
Alignment explanation
Indices: 8515366--8515452 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 29
8515356 TAAATCATCC
*
8515366 AAAATCAAAGTTTAGTGGCAAAATTCAAT
1 AAAATAAAAGTTTAGTGGCAAAATTCAAT
* *
8515395 AAAAATAAAAGTTTTAGTAGC-AAATTTAAT
1 -AAAATAAAAG-TTTAGTGGCAAAATTCAAT
* * **
8515425 CAAATTAAAGTAGAGTGGCAAAATTCAA
1 AAAATAAAAGTTTAGTGGCAAAATTCAA
8515453 CATTGAGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 6 0.13
29 15 0.33
30 17 0.37
31 8 0.17
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (29 bp):
AAAATAAAAGTTTAGTGGCAAAATTCAAT
Found at i:8515640 original size:13 final size:13
Alignment explanation
Indices: 8515622--8515648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8515612 TGCCGTTTTT
8515622 TAATTTGTAAGGA
1 TAATTTGTAAGGA
8515635 TAATTTGTAAGGA
1 TAATTTGTAAGGA
8515648 T
1 T
8515649 GCATGATGTG
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:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TAATTTGTAAGGA
Found at i:8516856 original size:3 final size:3
Alignment explanation
Indices: 8516835--8516893 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
8516825 TTTTGCTTCT
*
8516835 TTA TTT TTA TT- TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8516880 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
8516894 GTTCAATCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.96
4 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8518423 original size:9 final size:9
Alignment explanation
Indices: 8518408--8518455 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
8518398 TTATTGTATA
8518408 TATTCGTGT
1 TATTCGTGT
*
8518417 TACTCGTGT
1 TATTCGTGT
*
8518426 CTATTCGTAT
1 -TATTCGTGT
8518436 ATATTCGTGT
1 -TATTCGTGT
*
8518446 TAGTCGTGT
1 TATTCGTGT
8518455 T
1 T
8518456 TATTTATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.50
Consensus pattern (9 bp):
TATTCGTGT
Found at i:8518432 original size:19 final size:18
Alignment explanation
Indices: 8518408--8518455 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
8518398 TTATTGTATA
8518408 TATTCGTGTTACTCGTGT
1 TATTCGTGTTACTCGTGT
* *
8518426 CTATTCGTATATATTCGTGT
1 -TATTCGTGT-TACTCGTGT
*
8518446 TAGTCGTGTT
1 TATTCGTGTT
8518456 TATTTATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 8 0.33
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.50
Consensus pattern (18 bp):
TATTCGTGTTACTCGTGT
Found at i:8518435 original size:29 final size:28
Alignment explanation
Indices: 8518399--8518459 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
8518389 TTAGTCGTAT
8518399 TATTGTATATATTCGTGTTACTCGTGTC
1 TATTGTATATATTCGTGTTACTCGTGTC
* *
8518427 TATTCGTATATATTCGTGTTAGTCGTGTT
1 TATT-GTATATATTCGTGTTACTCGTGTC
8518456 TATT
1 TATT
8518460 TATGTATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (28 bp):
TATTGTATATATTCGTGTTACTCGTGTC
Found at i:8518467 original size:29 final size:29
Alignment explanation
Indices: 8518404--8518468 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
8518394 CGTATTATTG
*
8518404 TATATATTCGTGTTACTCGTGTCTATTCG
1 TATATATTCGTGTTACTCGTGTCTATTCA
* * *
8518433 TATATATTCGTGTTAGTCGTGTTTATTTA
1 TATATATTCGTGTTACTCGTGTCTATTCA
*
8518462 TGTATAT
1 TATATAT
8518469 CTATATCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (29 bp):
TATATATTCGTGTTACTCGTGTCTATTCA
Found at i:8518580 original size:12 final size:12
Alignment explanation
Indices: 8518563--8518587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8518553 ACACATTTTA
8518563 TAATTCGTGTCG
1 TAATTCGTGTCG
8518575 TAATTCGTGTCG
1 TAATTCGTGTCG
8518587 T
1 T
8518588 GTTCGTATTT
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:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TAATTCGTGTCG
Found at i:8522982 original size:39 final size:39
Alignment explanation
Indices: 8522882--8522987 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
8522872 GAGGATATGA
* *
8522882 TTGGATGTTTTGGACTTGAAACGGAGTTAAAGGATTTGG
1 TTGGATGTTTTGGACTTGAAAGGGAGTTAAAGGATTTAG
**
8522921 TTGGATGTTTTGGACTTGAAAGGGAGTTGTAGGATTTAG
1 TTGGATGTTTTGGACTTGAAAGGGAGTTAAAGGATTTAG
*
8522960 TTGGATGTTTTGGA-TGTAAAAGGGAGTT
1 TTGGATGTTTTGGACT-TGAAAGGGAGTT
8522988 TGAGAAATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.02
39 60 0.98
ACGTcount: A:0.25, C:0.03, G:0.35, T:0.38
Consensus pattern (39 bp):
TTGGATGTTTTGGACTTGAAAGGGAGTTAAAGGATTTAG
Found at i:8527963 original size:15 final size:16
Alignment explanation
Indices: 8527943--8527973 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8527933 TAATGGAATT
8527943 TTCATGTTT-CAACAC
1 TTCATGTTTACAACAC
8527958 TTCATGTTTACAACAC
1 TTCATGTTTACAACAC
8527974 CCCTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.39
Consensus pattern (16 bp):
TTCATGTTTACAACAC
Found at i:8541093 original size:21 final size:21
Alignment explanation
Indices: 8541064--8541120 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
8541054 CAACAACCAA
8541064 TGAT-CATTATGAAAATAGAT
1 TGATCCATTATGAAAATAGAT
*
8541084 TGATCCATTATGAAAATGGAT
1 TGATCCATTATGAAAATAGAT
* *
8541105 TGATCCCTTATAAAAA
1 TGATCCATTATGAAAA
8541121 AGGATCAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (21 bp):
TGATCCATTATGAAAATAGAT
Found at i:8541125 original size:21 final size:21
Alignment explanation
Indices: 8541064--8541136 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
8541054 CAACAACCAA
*
8541064 TGAT-CATTATGAAAATA-GAT
1 TGATCCATTAT-AAAAAAGGAT
* *
8541084 TGATCCATTATGAAAATGGAT
1 TGATCCATTATAAAAAAGGAT
*
8541105 TGATCCCTTATAAAAAAGGAT
1 TGATCCATTATAAAAAAGGAT
**
8541126 CAATCCATTAT
1 TGATCCATTAT
8541137 CTTGTAACAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 7 0.17
21 35 0.83
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
TGATCCATTATAAAAAAGGAT
Found at i:8546800 original size:72 final size:73
Alignment explanation
Indices: 8546675--8546810 Score: 186
Period size: 72 Copynumber: 1.9 Consensus size: 73
8546665 TGGATAGCTC
*
8546675 AAATTCTTTTATCAAATTCCATCAAAAGAGGTGAAATTTATGAAATTTATTGATTTTATAATAAA
1 AAATTCTTTTATCAAATTCCATCAAAAGAGGTGAAATTTATGAAATTCATTGATTTTATAATAAA
8546740 AATTTATG
66 AATTTATG
* * * * * *
8546748 AAATTCTCTTT-TCAAATTCCAT-TAAGGAGGTGGAATTTGTGAAATTCCTTGATTTTATGATAA
1 AAATTCT-TTTATCAAATTCCATCAAAAGAGGTGAAATTTATGAAATTCATTGATTTTATAATAA
8546811 GAAGTCAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
72 34 0.62
73 18 0.33
74 3 0.05
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (73 bp):
AAATTCTTTTATCAAATTCCATCAAAAGAGGTGAAATTTATGAAATTCATTGATTTTATAATAAA
AATTTATG
Found at i:8548192 original size:22 final size:23
Alignment explanation
Indices: 8548149--8548202 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 23
8548139 TATTTATATA
8548149 ATTTTATATTTATTTAAAAAATAAT
1 ATTTTATATTTA--TAAAAAATAAT
8548174 ATTTTATATTTA-AAAAAATAAT
1 ATTTTATATTTATAAAAAATAAT
8548196 ATTTTAT
1 ATTTTAT
8548203 TAATTTCGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.59
25 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTATATTTATAAAAAATAAT
Found at i:8553922 original size:26 final size:24
Alignment explanation
Indices: 8553866--8553916 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
8553856 ACCAAGAAAC
*
8553866 CTGTGGAAAAACTAAGAAATAAAA
1 CTGTGTAAAAACTAAGAAATAAAA
8553890 CTGTGTAAAAACTAAGAGAA-AAAA
1 CTGTGTAAAAACTAAGA-AATAAAA
8553914 CTG
1 CTG
8553917 AATGTATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.55, C:0.10, G:0.18, T:0.18
Consensus pattern (24 bp):
CTGTGTAAAAACTAAGAAATAAAA
Found at i:8554081 original size:22 final size:22
Alignment explanation
Indices: 8554056--8554099 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8554046 ATTTTTTGTC
*
8554056 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8554078 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8554100 TAAATATACA
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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8558104 original size:22 final size:22
Alignment explanation
Indices: 8558079--8558122 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8558069 ATTTTTTGTC
*
8558079 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8558101 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
8558123 TAAATATATA
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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:8558134 original size:22 final size:22
Alignment explanation
Indices: 8558082--8558134 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
8558072 TTTTGTCCTT
* * *
8558082 AATTCTAGGGATACAAATACTT
1 AATTATAGAGATACAAATACTA
*
8558104 AATTCTAGAGATACAAATA-TA
1 AATTATAGAGATACAAATACTA
8558125 AATATATAGA
1 AAT-TATAGA
8558135 TTACAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (22 bp):
AATTATAGAGATACAAATACTA
Found at i:8563129 original size:2 final size:2
Alignment explanation
Indices: 8563114--8563150 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
8563104 GTGTTATAGG
8563114 GA GA -A GA G- 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 GA G
8563151 GAAGAAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8563894 original size:16 final size:16
Alignment explanation
Indices: 8563875--8563907 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8563865 TTTAAATATC
*
8563875 ATAATTAATAAAAATA
1 ATAAATAATAAAAATA
8563891 ATAAATAATAAAAATA
1 ATAAATAATAAAAATA
8563907 A
1 A
8563908 GTTAGATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAATAATAAAAATA
Found at i:8571797 original size:23 final size:23
Alignment explanation
Indices: 8571754--8571798 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8571744 ATGATTCTAA
*
8571754 ACAAACAAAAAATAAACAAACAC
1 ACAAACAAAAAAAAAACAAACAC
*
8571777 ACAAA-AAAACAAAAAATAAACA
1 ACAAACAAAA-AAAAAACAAACA
8571799 AAAAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.78, C:0.18, G:0.00, T:0.04
Consensus pattern (23 bp):
ACAAACAAAAAAAAAACAAACAC
Found at i:8571801 original size:10 final size:10
Alignment explanation
Indices: 8571752--8571804 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
8571742 GCATGATTCT
8571752 AAACAAACAAA
1 AAACAAA-AAA
* *
8571763 AAATAAACAA
1 AAACAAAAAA
* *
8571773 ACACACAAAA
1 AAACAAAAAA
8571783 AAACAAAAAA
1 AAACAAAAAA
8571793 TAAACAAAAAA
1 -AAACAAAAAA
8571804 A
1 A
8571805 GAGAAGAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 17 0.52
11 16 0.48
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (10 bp):
AAACAAAAAA
Found at i:8573081 original size:26 final size:26
Alignment explanation
Indices: 8573039--8573119 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
8573029 TTGTGTCCAA
* * *
8573039 GCCCATTGAGGTTTGAGCCCAATTGG
1 GCCCATTGAAGTCTGAGCCCAATTAG
8573065 GCCCATTGAAGTCTGAGCCCAATTAG
1 GCCCATTGAAGTCTGAGCCCAATTAG
* *
8573091 GCCCAGTGATGTACT-AGCCCAATTAG
1 GCCCATTGAAGT-CTGAGCCCAATTAG
8573117 GCC
1 GCC
8573120 TATTTGGGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
26 47 0.96
27 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.23
Consensus pattern (26 bp):
GCCCATTGAAGTCTGAGCCCAATTAG
Found at i:8573160 original size:3 final size:3
Alignment explanation
Indices: 8573152--8573205 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
8573142 GATAACTTGT
*
8573152 TTA TTA TTA -TA TTTA TTA CTA TTTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
8573197 TTTA TTA TT
1 -TTA TTA TT
8573206 TTTTTTTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 4 0.09
3 33 0.75
4 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8573210 original size:18 final size:17
Alignment explanation
Indices: 8573152--8573209 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
8573142 GATAACTTGT
*
8573152 TTATTATTATA-T-TTA
1 TTATTATTTTATTATTA
*
8573167 TTACTA-TTTATTATTA
1 TTATTATTTTATTATTA
8573183 TTATTATTTTATTATTTA
1 TTATTATTTTATTA-TTA
8573201 TTATT-TTTT
1 TTATTATTTT
8573210 TTTGTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 8 0.22
17 11 0.31
18 8 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTTTATTATTA
Found at i:8573341 original size:15 final size:15
Alignment explanation
Indices: 8573321--8573351 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8573311 TGGATAGAAT
8573321 ACAATCCCAGGATTC
1 ACAATCCCAGGATTC
8573336 ACAATCCCAGGATTC
1 ACAATCCCAGGATTC
8573351 A
1 A
8573352 AGCCTGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.19
Consensus pattern (15 bp):
ACAATCCCAGGATTC
Found at i:8574225 original size:25 final size:26
Alignment explanation
Indices: 8574184--8574232 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
8574174 AAAATGATAA
*
8574184 ATAAAAAAAATCCTTTC-AATAAAAG
1 ATAAAAAAAATACTTTCAAATAAAAG
*
8574209 ATAAAAAAAATATTTTCAAATAAA
1 ATAAAAAAAATACTTTCAAATAAA
8574233 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (26 bp):
ATAAAAAAAATACTTTCAAATAAAAG
Found at i:8574237 original size:24 final size:21
Alignment explanation
Indices: 8574180--8574247 Score: 55
Period size: 25 Copynumber: 2.9 Consensus size: 21
8574170 TGAAAAAATG
*
8574180 ATAAATAAAAAAAATCCTTTCA
1 ATAAATAAAAAAAAT-TTTTCA
8574202 ATAAAAGATAAAAAAAATATTTTCAA
1 AT--AA-ATAAAAAAAAT-TTTTC-A
*
8574228 ATAAATTAAAAATAATTTTT
1 ATAAA-TAAAAAAAATTTTT
8574248 ATCCTCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 5 0.13
24 13 0.34
25 15 0.39
26 3 0.08
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.32
Consensus pattern (21 bp):
ATAAATAAAAAAAATTTTTCA
Found at i:8575832 original size:48 final size:48
Alignment explanation
Indices: 8575773--8575867 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
8575763 CTTCAAGAGC
* * * ** * *
8575773 TAGTTGTTATACAATTGTTAGGTGTATATAATAACTCGTAAACATAAT
1 TAGTTGCTATACAACTGTTACGTACATATAACAACTCATAAACATAAT
*
8575821 TAGTTGCTATACAACTGTTACGTACATATAGCAACTCATAAACATAA
1 TAGTTGCTATACAACTGTTACGTACATATAACAACTCATAAACATAA
8575868 GTACTGTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (48 bp):
TAGTTGCTATACAACTGTTACGTACATATAACAACTCATAAACATAAT
Found at i:8580492 original size:2 final size:2
Alignment explanation
Indices: 8580485--8580513 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8580475 TACTATGATG
8580485 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 T
8580514 TTACATAGAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8582439 original size:43 final size:43
Alignment explanation
Indices: 8582378--8582463 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
8582368 ACACGACCAG
*
8582378 GAGGGAAAGGCTGGGAAAAAGTTGAACCCTAGACCTTGACCTT
1 GAGGGAAAGGCTGGGAAAAAGGTGAACCCTAGACCTTGACCTT
*
8582421 GAGGGAAAGGCTGGGAAAATGGTGAACCCTAGACCTTGACCTT
1 GAGGGAAAGGCTGGGAAAAAGGTGAACCCTAGACCTTGACCTT
8582464 CCATTGGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (43 bp):
GAGGGAAAGGCTGGGAAAAAGGTGAACCCTAGACCTTGACCTT
Found at i:8584641 original size:2 final size:2
Alignment explanation
Indices: 8584634--8584661 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8584624 TGATTTTATT
8584634 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
8584662 CACACATTTA
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:8604670 original size:15 final size:15
Alignment explanation
Indices: 8604650--8604683 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8604640 ACTTCAATAA
*
8604650 AATATATCATAAAAT
1 AATATATAATAAAAT
*
8604665 AATATATAATACAAT
1 AATATATAATAAAAT
8604680 AATA
1 AATA
8604684 GCCTCACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATATAATAAAAT
Found at i:8612882 original size:17 final size:16
Alignment explanation
Indices: 8612862--8612896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
8612852 ATATATTATT
*
8612862 TTTTATTTTTTTATGTA
1 TTTTATTATTTTA-GTA
8612879 TTTTATTATTTTAGTA
1 TTTTATTATTTTAGTA
8612895 TT
1 TT
8612897 ATAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTATTATTTTAGTA
Found at i:8614956 original size:24 final size:23
Alignment explanation
Indices: 8614929--8614982 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
8614919 TGTGAAAACT
* *
8614929 TTTTTTTAACCAAAACACATACAA
1 TTTTTTTAA-AAAAACACATAAAA
*
8614953 TTTTATCTAAAAAAACACATAAAA
1 TTTT-TTTAAAAAAACACATAAAA
*
8614977 ATTTTT
1 TTTTTT
8614983 ATAATAGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 19 0.79
25 4 0.17
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (23 bp):
TTTTTTTAAAAAAACACATAAAA
Found at i:8615081 original size:15 final size:16
Alignment explanation
Indices: 8615054--8615084 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8615044 TCAATATAAC
8615054 TTTATTAATATAATTT
1 TTTATTAATATAATTT
8615070 TTTATT-ATATAATTT
1 TTTATTAATATAATTT
8615085 GCCTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTAATATAATTT
Found at i:8620604 original size:3 final size:3
Alignment explanation
Indices: 8620596--8620627 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8620586 ACACCATCTA
8620596 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8620628 CAAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8624608 original size:4 final size:4
Alignment explanation
Indices: 8624599--8624634 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
8624589 ATTCAATGCG
8624599 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
8624635 TTATTTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:8627574 original size:2 final size:2
Alignment explanation
Indices: 8627569--8627597 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8627559 CTAGCATCTT
8627569 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 T
8627598 TAGGGTTTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8630122 original size:3 final size:3
Alignment explanation
Indices: 8630114--8630142 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8630104 ATTTGACTTC
8630114 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8630143 CAAAATTAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8632800 original size:24 final size:23
Alignment explanation
Indices: 8632773--8632824 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8632763 AAAATATAAA
8632773 TTATATTAAATTTAATTTTTACAT
1 TTATATTAAATTTAATTTTTA-AT
* *
8632797 TTATA-TAATTTTTATTTTTAAT
1 TTATATTAAATTTAATTTTTAAT
8632819 TTATAT
1 TTATAT
8632825 ATATATGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 13 0.52
24 5 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATATTAAATTTAATTTTTAAT
Found at i:8633912 original size:2 final size:2
Alignment explanation
Indices: 8633905--8633929 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8633895 AAAATTCCCT
8633905 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
8633930 TATGTATTAA
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:8642300 original size:21 final size:21
Alignment explanation
Indices: 8642256--8642305 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8642246 GAAAGCAATT
* * * *
8642256 AGGGAGGAACAGAGGCACTCA
1 AGGGAGAAACAGAAGAACTAA
8642277 AGGGAGAAACAGAAGAACTAA
1 AGGGAGAAACAGAAGAACTAA
8642298 AGGG-GAAA
1 AGGGAGAAA
8642306 ACCACAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.48, C:0.12, G:0.36, T:0.04
Consensus pattern (21 bp):
AGGGAGAAACAGAAGAACTAA
Found at i:8647482 original size:12 final size:12
Alignment explanation
Indices: 8647453--8647483 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8647443 AAATTATTAC
*
8647453 CTGCTGCTGCTG
1 CTGCTACTGCTG
8647465 CTGCTACTGCTG
1 CTGCTACTGCTG
8647477 CTGCTAC
1 CTGCTAC
8647484 AGATCTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.35, G:0.26, T:0.32
Consensus pattern (12 bp):
CTGCTACTGCTG
Found at i:8648116 original size:20 final size:22
Alignment explanation
Indices: 8648093--8648140 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
8648083 TTTTTTCTTA
8648093 TTTTACC-TCCCTT-TTCTTTT
1 TTTTACCTTCCCTTCTTCTTTT
* * *
8648113 TTTTTCCTTTCTTTCTTCTTTT
1 TTTTACCTTCCCTTCTTCTTTT
8648135 TTTTAC
1 TTTTAC
8648141 TCCTCAAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTACCTTCCCTTCTTCTTTT
Found at i:8648635 original size:22 final size:19
Alignment explanation
Indices: 8648606--8648651 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
8648596 TATTTTTTAA
*
8648606 TTATTTAATTAATTTAATATT
1 TTATTTAA--AATATAATATT
8648627 TATATTTAAAATATAATATT
1 T-TATTTAAAATATAATATT
8648647 TTATT
1 TTATT
8648652 ACTTAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 11 0.48
21 1 0.04
22 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTTAAAATATAATATT
Found at i:8648660 original size:22 final size:20
Alignment explanation
Indices: 8648620--8648660 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
8648610 TTAATTAATT
*
8648620 TAATATTTATATTTAAAATA
1 TAATATTTATACTTAAAATA
8648640 TAATATTTTATTACTTAAAAT
1 TAATA-TTTA-TACTTAAAAT
8648661 CAGATCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATTTATACTTAAAATA
Found at i:8648807 original size:23 final size:23
Alignment explanation
Indices: 8648777--8648822 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8648767 ATTTAACCTG
*
8648777 TTGTCATCTCAAATCACAAATCA
1 TTGTCATCCCAAATCACAAATCA
*
8648800 TTGTCATCCCTAATCACAAATCA
1 TTGTCATCCCAAATCACAAATCA
8648823 CAAATCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (23 bp):
TTGTCATCCCAAATCACAAATCA
Found at i:8652961 original size:44 final size:44
Alignment explanation
Indices: 8652898--8652987 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
8652888 TGACAGAAAC
*
8652898 AACCATCACCAATTTATGGATTGATAAGGCCAAAAAGGAAATCA
1 AACCATCACCAATTTATGGACTGATAAGGCCAAAAAGGAAATCA
* *
8652942 AACCATTACCTATTTATGGACTGATAAGGCCAAAAAGGAAATCA
1 AACCATCACCAATTTATGGACTGATAAGGCCAAAAAGGAAATCA
8652986 AA
1 AA
8652988 GTCTCACATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.21
Consensus pattern (44 bp):
AACCATCACCAATTTATGGACTGATAAGGCCAAAAAGGAAATCA
Found at i:8653351 original size:18 final size:18
Alignment explanation
Indices: 8653312--8653352 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8653302 AAAAAATTAA
*
8653312 AACAATAAAAAAAAAAAG
1 AACAATAAAAAAAAAAAC
* *
8653330 AACAATAACAAAAACAAC
1 AACAATAAAAAAAAAAAC
8653348 AACAA
1 AACAA
8653353 AAGAACGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.15, G:0.02, T:0.05
Consensus pattern (18 bp):
AACAATAAAAAAAAAAAC
Found at i:8654074 original size:23 final size:24
Alignment explanation
Indices: 8654038--8654085 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
8654028 TTGGATTTAC
*
8654038 TATTTTTTGTAATT-TTT-TATTT
1 TATTTTTTGAAATTCTTTATATTT
8654060 TATTTTTTGAAAATTCTTTATATTT
1 TATTTTTTG-AAATTCTTTATATTT
8654085 T
1 T
8654086 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 4 0.18
24 3 0.14
25 6 0.27
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (24 bp):
TATTTTTTGAAATTCTTTATATTT
Found at i:8654382 original size:16 final size:16
Alignment explanation
Indices: 8654357--8654394 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8654347 ATATTTTATA
8654357 AAAAACAGAAAATTTT
1 AAAAACAGAAAATTTT
*
8654373 AAAAATAGAAAATTTT
1 AAAAACAGAAAATTTT
8654389 ATAAAA
1 A-AAAA
8654395 ATTTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAACAGAAAATTTT
Found at i:8654668 original size:24 final size:25
Alignment explanation
Indices: 8654614--8654668 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
8654604 TATGATTTTT
8654614 AAAAATTAAATTATTTTTAAAAATG
1 AAAAATTAAATTATTTTTAAAAATG
** *
8654639 TTAAATTTAA-TA-TTTTAAAATATG
1 AAAAATTAAATTATTTTTAAAA-ATG
8654663 AAAAAT
1 AAAAAT
8654669 CATTTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 8 0.33
24 9 0.38
25 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATTAAATTATTTTTAAAAATG
Found at i:8656402 original size:15 final size:16
Alignment explanation
Indices: 8656371--8656403 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8656361 TTTAACATTG
8656371 ATTTTGATAAAAAAAA
1 ATTTTGATAAAAAAAA
8656387 ATTTTGA-AAAATAAAA
1 ATTTTGATAAAA-AAAA
8656403 A
1 A
8656404 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATTTTGATAAAAAAAA
Found at i:8656411 original size:15 final size:16
Alignment explanation
Indices: 8656393--8656425 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8656383 AAAAATTTTG
*
8656393 AAAAAT-AAAAAGAAA
1 AAAAATGAAAAACAAA
8656408 AAAAATGAAAAACAAA
1 AAAAATGAAAAACAAA
8656424 AA
1 AA
8656426 TGAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.85, C:0.03, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAATGAAAAACAAA
Found at i:8656418 original size:21 final size:23
Alignment explanation
Indices: 8656391--8656433 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8656381 AAAAAAATTT
8656391 TGAAAAATAAAAA-GAAAAAAAA
1 TGAAAAATAAAAATGAAAAAAAA
*
8656413 TGAAAAACAAAAATGAAAAAA
1 TGAAAAATAAAAATGAAAAAA
8656434 TTTGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (23 bp):
TGAAAAATAAAAATGAAAAAAAA
Found at i:8656424 original size:13 final size:13
Alignment explanation
Indices: 8656408--8656432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8656398 TAAAAAGAAA
8656408 AAAAATGAAAAAC
1 AAAAATGAAAAAC
8656421 AAAAATGAAAAA
1 AAAAATGAAAAA
8656433 ATTTGAAATA
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAATGAAAAAC
Found at i:8656439 original size:23 final size:22
Alignment explanation
Indices: 8656382--8656440 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
8656372 TTTTGATAAA
*
8656382 AAAAAATTTTGAAAAATAAAAAG
1 AAAAAA-TTTGAAAAACAAAAAG
**
8656405 AAAAAAAATGAAAAACAAAAATG
1 AAAAAATTTGAAAAACAAAAA-G
8656428 AAAAAATTTGAAA
1 AAAAAATTTGAAA
8656441 TAAAAATAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (22 bp):
AAAAAATTTGAAAAACAAAAAG
Found at i:8656445 original size:21 final size:22
Alignment explanation
Indices: 8656394--8656447 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
8656384 AAAATTTTGA
8656394 AAAATAAAAA-GAAAAAAAATG
1 AAAATAAAAATGAAAAAAAATG
* **
8656415 AAAAACAAAAATGAAAAAATTTG
1 -AAAATAAAAATGAAAAAAAATG
8656438 -AAATAAAAAT
1 AAAATAAAAAT
8656448 AGATAAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.33
22 9 0.33
23 9 0.33
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATGAAAAAAAATG
Found at i:8657786 original size:68 final size:70
Alignment explanation
Indices: 8657668--8657801 Score: 191
Period size: 68 Copynumber: 1.9 Consensus size: 70
8657658 AATCAATTTT
*
8657668 CTTAAGATAAGGTTTTTTCTAATTTAAAAAAAAAAGTTAAAATATTAATTTTTTCTTAAGATAAG
1 CTTAAGATAAGGTTTTTTCTAATTTAAAAAAAAAAGTTAAAATATCAATTTTTTCTTAAGATAAG
8657733 TAATC
66 TAATC
* * ** * *
8657738 CTTAAGATAA-TTTTTTTTTAATTT-AATGAAAAAGTTGAAATATCAATTTTTTCTTATGATAAG
1 CTTAAGATAAGGTTTTTTCTAATTTAAAAAAAAAAGTTAAAATATCAATTTTTTCTTAAGATAAG
8657801 T
66 T
8657802 TTTTTTTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 35 0.61
69 12 0.21
70 10 0.18
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (70 bp):
CTTAAGATAAGGTTTTTTCTAATTTAAAAAAAAAAGTTAAAATATCAATTTTTTCTTAAGATAAG
TAATC
Found at i:8657805 original size:52 final size:54
Alignment explanation
Indices: 8657738--8657902 Score: 160
Period size: 55 Copynumber: 3.1 Consensus size: 54
8657728 ATAAGTAATC
* * * *
8657738 CTTAAGATAA-TTTTTTTTTAAT-TTAATGAAAAAGTTGAAATATCAATTTTTT
1 CTTAAGATAAGTTTTTTTTAAATATTAAAGAAAAAGTTAAAATATAAATTTTTT
* * *
8657790 CTTATGATAAGTTTTTTTTAAATATTAAAGAAAAAGTTAAAATATAAA-TTATC
1 CTTAAGATAAGTTTTTTTTAAATATTAAAGAAAAAGTTAAAATATAAATTTTTT
* * * * *
8657843 CTTAAAATAAATTTATTTTGAAAATATT-AAGAAAAAAGTTAGAATATAAA-ATTTT
1 CTTAAGATAAGTTT-TTTT-TAAATATTAAAG-AAAAAGTTAAAATATAAATTTTTT
8657898 CTTAA
1 CTTAA
8657903 CATTTTAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
52 9 0.10
53 25 0.27
54 28 0.30
55 31 0.33
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (54 bp):
CTTAAGATAAGTTTTTTTTAAATATTAAAGAAAAAGTTAAAATATAAATTTTTT
Found at i:8658561 original size:3 final size:3
Alignment explanation
Indices: 8658555--8658592 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8658545 TAATAATAAT
8658555 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8658593 TAATAATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8660767 original size:2 final size:2
Alignment explanation
Indices: 8660760--8660789 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8660750 ACTCCTACTT
8660760 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
8660790 ACTCTTATTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8661638 original size:10 final size:10
Alignment explanation
Indices: 8661621--8661649 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8661611 GAGTTACTCA
8661621 AATT-TGCTC
1 AATTATGCTC
8661630 AATTATGCTC
1 AATTATGCTC
8661640 AATTATGCTC
1 AATTATGCTC
8661650 GTTTAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (10 bp):
AATTATGCTC
Found at i:8661783 original size:3 final size:3
Alignment explanation
Indices: 8661775--8661802 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8661765 CATTTTCAAG
8661775 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8661803 CTTATACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8663307 original size:21 final size:21
Alignment explanation
Indices: 8663283--8663322 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8663273 TTTAAAACCA
*
8663283 ATTGATAGATAAAAATGATGG
1 ATTGAAAGATAAAAATGATGG
* *
8663304 ATTGAAAGCTCAAAATGAT
1 ATTGAAAGATAAAAATGAT
8663323 ATGCAATGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (21 bp):
ATTGAAAGATAAAAATGATGG
Found at i:8665621 original size:14 final size:15
Alignment explanation
Indices: 8665602--8665638 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8665592 TGTGTTAACA
8665602 AATAAATAT-AAAAT
1 AATAAATATAAAAAT
*
8665616 AATAAAAATAAAAAT
1 AATAAATATAAAAAT
8665631 AA-AAATAT
1 AATAAATAT
8665639 GATAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAATATAAAAAT
Found at i:8667087 original size:30 final size:30
Alignment explanation
Indices: 8667052--8667121 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
8667042 ATTTAAGATG
*
8667052 AAAATTTTTTGAATTTTTAAAATCTTACAT
1 AAAATTTTTTAAATTTTTAAAATCTTACAT
** **
8667082 AAAATTGCTTAAATTTTTAATGTCTTACAT
1 AAAATTTTTTAAATTTTTAAAATCTTACAT
*
8667112 AAATTTTTTT
1 AAAATTTTTT
8667122 TAAAACTAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (30 bp):
AAAATTTTTTAAATTTTTAAAATCTTACAT
Found at i:8667280 original size:20 final size:21
Alignment explanation
Indices: 8667257--8667296 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8667247 TAAATAAGGT
*
8667257 TATTTGGT-AAAAAATAAAAC
1 TATTTAGTAAAAAAATAAAAC
*
8667277 TATTTATTAAAAAAATAAAA
1 TATTTAGTAAAAAAATAAAA
8667297 TTCATATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
TATTTAGTAAAAAAATAAAAC
Found at i:8669332 original size:156 final size:156
Alignment explanation
Indices: 8669048--8669364 Score: 634
Period size: 156 Copynumber: 2.0 Consensus size: 156
8669038 AATATAGAGT
8669048 TGACTTGATTAATATAAGATGTTTTTGTGTAAAACCTCCATTGTTGTTTTTCTTTTATTGTTAAT
1 TGACTTGATTAATATAAGATGTTTTTGTGTAAAACCTCCATTGTTGTTTTTCTTTTATTGTTAAT
8669113 GTCCTATAATTCTCTGATCGAATTGATCGGGTGATGTAGGAACGAGGATCAAGTCCTCCTTTCTG
66 GTCCTATAATTCTCTGATCGAATTGATCGGGTGATGTAGGAACGAGGATCAAGTCCTCCTTTCTG
8669178 TTAGGATATGTCAGCTGCATTGTTAA
131 TTAGGATATGTCAGCTGCATTGTTAA
8669204 TGACTTGATTAATATAAGATGTTTTTGTGTAAAACCTCCATTGTTGTTTTTCTTTTATTGTTAAT
1 TGACTTGATTAATATAAGATGTTTTTGTGTAAAACCTCCATTGTTGTTTTTCTTTTATTGTTAAT
8669269 GTCCTATAATTCTCTGATCGAATTGATCGGGTGATGTAGGAACGAGGATCAAGTCCTCCTTTCTG
66 GTCCTATAATTCTCTGATCGAATTGATCGGGTGATGTAGGAACGAGGATCAAGTCCTCCTTTCTG
8669334 TTAGGATATGTCAGCTGCATTGTTAA
131 TTAGGATATGTCAGCTGCATTGTTAA
8669360 TGACT
1 TGACT
8669365 AACTCTATTA
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 161 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (156 bp):
TGACTTGATTAATATAAGATGTTTTTGTGTAAAACCTCCATTGTTGTTTTTCTTTTATTGTTAAT
GTCCTATAATTCTCTGATCGAATTGATCGGGTGATGTAGGAACGAGGATCAAGTCCTCCTTTCTG
TTAGGATATGTCAGCTGCATTGTTAA
Found at i:8670259 original size:42 final size:42
Alignment explanation
Indices: 8670212--8670296 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
8670202 TCAGGCATCG
8670212 GGAATGACCCACAATTCATTGTTATGTTCATGTGATATGTTA
1 GGAATGACCCACAATTCATTGTTATGTTCATGTGATATGTTA
* *
8670254 GGAATGAGCTACAATTCATTGTTATGTTCATGTGATATGTTA
1 GGAATGACCCACAATTCATTGTTATGTTCATGTGATATGTTA
8670296 G
1 G
8670297 TAGTTTCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (42 bp):
GGAATGACCCACAATTCATTGTTATGTTCATGTGATATGTTA
Found at i:8673650 original size:148 final size:148
Alignment explanation
Indices: 8673447--8673748 Score: 586
Period size: 148 Copynumber: 2.0 Consensus size: 148
8673437 CTTTGGGTGT
8673447 TTTATTAGAACTCAACTGTCAAATTATAACTAAGGAGTTTAGGATGTGTTTGGTGCATAAGACTA
1 TTTATTAGAACTCAACTGTCAAATTATAACTAAGGAGTTTAGGATGTGTTTGGTGCATAAGACTA
8673512 TGATAGGATAGATTAGCATTAGATTAAATAATGTTATACTATCTTGTGTTTAATGTATAAAGGGA
66 TGATAGGATAGATTAGCATTAGATTAAATAATGTTATACTATCTTGTGTTTAATGTATAAAGGGA
*
8673577 TTATGATAAGATAATTTA
131 TTAAGATAAGATAATTTA
8673595 TTTATTAGAACTCAACTGTCAAATTATAACTAAGGAGTTTAGGATGTGTTTGGTGCATAAGACTA
1 TTTATTAGAACTCAACTGTCAAATTATAACTAAGGAGTTTAGGATGTGTTTGGTGCATAAGACTA
*
8673660 TGATAGGATAGATTAGCATTAGATTAAATAATGTTATCCTATCTTGTGTTTAATGTATAAAGGGA
66 TGATAGGATAGATTAGCATTAGATTAAATAATGTTATACTATCTTGTGTTTAATGTATAAAGGGA
8673725 TTAAGATAAGATAATTTA
131 TTAAGATAAGATAATTTA
8673743 TTTATT
1 TTTATT
8673749 GGTTAAAATT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 152 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (148 bp):
TTTATTAGAACTCAACTGTCAAATTATAACTAAGGAGTTTAGGATGTGTTTGGTGCATAAGACTA
TGATAGGATAGATTAGCATTAGATTAAATAATGTTATACTATCTTGTGTTTAATGTATAAAGGGA
TTAAGATAAGATAATTTA
Found at i:8677140 original size:14 final size:12
Alignment explanation
Indices: 8677113--8677157 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
8677103 GGTTAACAAT
8677113 ATAATAT-AAAA
1 ATAATATAAAAA
8677124 ATAATATGAATAAA
1 ATAATAT-AA-AAA
8677138 AT-ATATAAAAA
1 ATAATATAAAAA
8677149 ATAATATAA
1 ATAATATAA
8677158 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 12 0.40
12 8 0.27
13 5 0.17
14 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:8679287 original size:16 final size:18
Alignment explanation
Indices: 8679268--8679306 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
8679258 TGAATAATAT
8679268 TTAAATTTAAATTT-T-A
1 TTAAATTTAAATTTATAA
8679284 TTAAA-TTAAATTTATAA
1 TTAAATTTAAATTTATAA
8679301 TTAAAT
1 TTAAAT
8679307 AATTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTAAATTTATAA
Found at i:8679418 original size:33 final size:34
Alignment explanation
Indices: 8679381--8679457 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 34
8679371 TGATTTGATT
* *
8679381 ATTATTGATTATTTAA-AAAAATTAATTAATTCA
1 ATTATTGATTATTTAATAAAAATAAATTAAATCA
* *
8679414 ATTA-T--TTATTAAATAAAAATAAATTAAATCG
1 ATTATTGATTATTTAATAAAAATAAATTAAATCA
8679445 ATTATTGA-TATTT
1 ATTATTGATTATTT
8679458 TTAAATTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 2 0.06
33 8 0.23
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTATTGATTATTTAATAAAAATAAATTAAATCA
Found at i:8684070 original size:11 final size:11
Alignment explanation
Indices: 8684050--8684102 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
8684040 AATATATATT
*
8684050 TAAAATTTTAA
1 TAAAAATTTAA
8684061 TAAAAATTTACA
1 TAAAAATTTA-A
*
8684073 TAAAAATTTGA
1 TAAAAATTTAA
8684084 TAAAAA--TAA
1 TAAAAATTTAA
*
8684093 AAAAAATTTA
1 TAAAAATTTA
8684103 TATTTAACGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.20
11 18 0.51
12 10 0.29
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAAAATTTAA
Found at i:8684178 original size:15 final size:15
Alignment explanation
Indices: 8684158--8684194 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8684148 TTATATATGT
8684158 TAAATACGAAATAAA
1 TAAATACGAAATAAA
*
8684173 TAAATATGAAATAAA
1 TAAATACGAAATAAA
8684188 T-AATACG
1 TAAATACG
8684195 CTATAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (15 bp):
TAAATACGAAATAAA
Found at i:8684747 original size:24 final size:24
Alignment explanation
Indices: 8684708--8684760 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
8684698 TTGGTGGCCC
8684708 TTTT-CTTTTTTGTTTTATTT-CGT
1 TTTTCCTTTTTTGTTTTATTTAC-T
* *
8684731 TTTTCCTTTTTTTTTTTTTTTACT
1 TTTTCCTTTTTTGTTTTATTTACT
8684755 TTTTCC
1 TTTTCC
8684761 ATTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 21 0.81
25 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTCCTTTTTTGTTTTATTTACT
Done.