Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 48 of 190
Found at i:8020656 original size:28 final size:28
Alignment explanation
Indices: 8020624--8020677 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
8020614 TCAATAGATG
8020624 ACCAAAAACTCCACATATCGAATATTTC
1 ACCAAAAACTCCACATATCGAATATTTC
* *
8020652 ACCAAAAACTCGACATATTGAATATT
1 ACCAAAAACTCCACATATCGAATATT
8020678 AATTTAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (28 bp):
ACCAAAAACTCCACATATCGAATATTTC
Found at i:8023447 original size:23 final size:23
Alignment explanation
Indices: 8023420--8023465 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8023410 CACATAACTC
*
8023420 TTTGCACGCAACTTTTCTTGACA
1 TTTGCACCCAACTTTTCTTGACA
*
8023443 TTTGCTCCCAACTTTTCTTGACA
1 TTTGCACCCAACTTTTCTTGACA
8023466 AATCCACAGA
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:0.20, C:0.28, G:0.11, T:0.41
Consensus pattern (23 bp):
TTTGCACCCAACTTTTCTTGACA
Found at i:8024218 original size:5 final size:6
Alignment explanation
Indices: 8024203--8024232 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8024193 CCTCTCTGAA
8024203 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
8024233 AGGGATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:8024225 original size:13 final size:12
Alignment explanation
Indices: 8024203--8024232 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
8024193 CCTCTCTGAA
8024203 AAAAATAAAAAT
1 AAAAATAAAAAT
8024215 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
8024228 AAAAA
1 AAAAA
8024233 AGGGATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:8024531 original size:2 final size:2
Alignment explanation
Indices: 8024526--8024560 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8024516 GAAGTGTGTG
8024526 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8024561 CTTACAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8029741 original size:2 final size:2
Alignment explanation
Indices: 8029734--8029761 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8029724 CTACTACTTT
8029734 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
8029762 ATTTCAACTA
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:8030059 original size:46 final size:46
Alignment explanation
Indices: 8029993--8030081 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
8029983 CATAATTTTT
* *
8029993 TTATTATAATTGAATAATTATAAGATTATAATGAGAAAAATTAAAA
1 TTATTATAATTAAATAATTATAAGATTATAATGACAAAAATTAAAA
8030039 TTATTATAATTAAATAATTATAAGATTATAATGACAAAAATTA
1 TTATTATAATTAAATAATTATAAGATTATAATGACAAAAATTA
8030082 TAAGTCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (46 bp):
TTATTATAATTAAATAATTATAAGATTATAATGACAAAAATTAAAA
Found at i:8030080 original size:23 final size:22
Alignment explanation
Indices: 8029995--8030085 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 22
8029985 TAATTTTTTT
*
8029995 ATTATAATTG-AATAATTATAAG
1 ATTATAA-TGAAAAAATTATAAG
* *
8030017 ATTATAATGAGAAAAATTAAAATT
1 ATTATAATGA-AAAAATTATAA-G
* *
8030041 ATTATAATTAAATAATTATAAG
1 ATTATAATGAAAAAATTATAAG
8030063 ATTATAATGACAAAAATTATAAG
1 ATTATAATGA-AAAAATTATAAG
8030086 TCAAATATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.04
22 16 0.29
23 29 0.52
24 9 0.16
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (22 bp):
ATTATAATGAAAAAATTATAAG
Found at i:8030925 original size:21 final size:21
Alignment explanation
Indices: 8030886--8030926 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
8030876 AAAAGAATAA
8030886 ATTTTATAAAATTAAAAAAAT
1 ATTTTATAAAATTAAAAAAAT
8030907 ATTTT-TAAAATTAAAAAAAT
1 ATTTTATAAAATTAAAAAAAT
8030927 TTTAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTTATAAAATTAAAAAAAT
Found at i:8030939 original size:12 final size:12
Alignment explanation
Indices: 8030917--8030945 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8030907 ATTTTTAAAA
8030917 TTAAA-AAAATT
1 TTAAAGAAAATT
8030928 TTAAAGAAAATT
1 TTAAAGAAAATT
8030940 TTAAAG
1 TTAAAG
8030946 GTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TTAAAGAAAATT
Found at i:8032137 original size:17 final size:17
Alignment explanation
Indices: 8032111--8032145 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8032101 TTTTAAAAAT
*
8032111 ATTTTATATATTTTTTA
1 ATTTTATATATATTTTA
*
8032128 ATTTTTTATATATTTTA
1 ATTTTATATATATTTTA
8032145 A
1 A
8032146 AAAATATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATATATATTTTA
Found at i:8033522 original size:19 final size:19
Alignment explanation
Indices: 8033500--8033553 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
8033490 AATTTTCTAA
8033500 AAAAAAAAGAGATAAAATG
1 AAAAAAAAGAGATAAAATG
*
8033519 AAAAAAAAG-GACT-AAAGG
1 AAAAAAAAGAGA-TAAAATG
*
8033537 AAAAAAAA-AAATAAAAT
1 AAAAAAAAGAGATAAAAT
8033554 TAAGATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.03
18 18 0.62
19 10 0.34
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (19 bp):
AAAAAAAAGAGATAAAATG
Found at i:8034237 original size:21 final size:20
Alignment explanation
Indices: 8034200--8034239 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8034190 TTCCCCTATT
8034200 TTTTATATTTTAGTTAAATA
1 TTTTATATTTTAGTTAAATA
* *
8034220 TTTTGTATTTATATTTAAAT
1 TTTTATATTT-TAGTTAAAT
8034240 TCATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATATTTTAGTTAAATA
Found at i:8042503 original size:129 final size:129
Alignment explanation
Indices: 8042273--8042509 Score: 314
Period size: 129 Copynumber: 1.8 Consensus size: 129
8042263 TCATAACGCA
* * * *
8042273 TACATTTATTACATTAAGGCATATAGGTAAACACAGACCCCACTTTTTACCCACACATTCAGCGC
1 TACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACATCCAGCAC
* **
8042338 ATCCTAGCGCATCACTTATTATGTTAAAGCTCTAAGCCAACACGTTTAATAGGCCTCTATATGC
66 ATCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACACGTTTAATAGGCCTCTATATGC
* * ** *
8042402 TACATTTATTACATTAAGGCATATGGGCGAACACAGACCCCACTTCTTACTGACATACTCCA-CA
1 TACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACA-TCCAGCA
* * * *
8042466 CGTCCTAGTGCACCACTTATTACATTAAGGCTTTAAGCCAACAC
65 CATCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACAC
8042510 ACTAAACTCA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
129 88 0.97
130 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (129 bp):
TACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACATCCAGCAC
ATCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACACGTTTAATAGGCCTCTATATGC
Found at i:8042536 original size:129 final size:129
Alignment explanation
Indices: 8042274--8042547 Score: 293
Period size: 129 Copynumber: 2.1 Consensus size: 129
8042264 CATAACGCAT
* * * *
8042274 ACATTTATTACATTAAGGCATATAGGTAAACACAGACCCCACTTTTTACCCACACATTCAGCGCA
1 ACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACATCCAGCACA
* ** ** * * *
8042339 TCCTAGCGCATCACTTATTATGTTAAAGCTCTAAGCCAACACGTTTAATAGGCCTCTATATGCT
66 TCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACACACTAAATAGCCCTCTATATGCC
* * ** *
8042403 ACATTTATTACATTAAGGCATATGGGCGAACACAGACCCCACTTCTTACTGACATACTCCA-CAC
1 ACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACA-TCCAGCAC
* * * * *
8042467 GTCCTAGTGCACCACTTATTACATTAAGGCTTTAAGCCAACACACTAAACTCA-CCCT-TATGTG
65 ATCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACACACTAAA-T-AGCCCTCTATATG
8042530 CC
128 CC
*
8042532 ACATTTATTACGTTAA
1 ACATTTATTACATTAA
8042548 TAAATATCAC
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
129 111 0.93
130 7 0.06
131 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (129 bp):
ACATTTATTACATTAAGGCATATAGGCAAACACAGACCCCACTTCTTACCCACACATCCAGCACA
TCCTAGCGCACCACTTATTACATTAAAGCTCTAAGCCAACACACTAAATAGCCCTCTATATGCC
Found at i:8047373 original size:22 final size:21
Alignment explanation
Indices: 8047325--8047378 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
8047315 GCTTATGAAA
*
8047325 AAAAGAAAATAAAGGAGAAAAAG
1 AAAAG-AAA-AAAGGAAAAAAAG
*
8047348 AAAAGAAAAAAGTGAAAAAAAT
1 AAAAGAAAAAAG-GAAAAAAAG
8047370 AAAAGAAAA
1 AAAAGAAAA
8047379 GAACTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 19 0.68
23 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAAGAAAAAAGGAAAAAAAG
Found at i:8047694 original size:24 final size:24
Alignment explanation
Indices: 8047661--8047733 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
8047651 TTCTTGTTGG
*
8047661 CCTAATCCTAAACCCTAACCTAAC
1 CCTAACCCTAAACCCTAACCTAAC
*
8047685 CCTAACCCTAAA-CCTAAACCTAAA
1 CCTAACCCTAAACCCT-AACCTAAC
8047709 CCTAACCCTAAACCCTAATCCTAAC
1 CCTAACCCTAAACCCTAA-CCTAAC
8047734 TTTAAACAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.07
24 32 0.74
25 8 0.19
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (24 bp):
CCTAACCCTAAACCCTAACCTAAC
Found at i:8047750 original size:6 final size:6
Alignment explanation
Indices: 8047661--8047733 Score: 76
Period size: 6 Copynumber: 12.0 Consensus size: 6
8047651 TTCTTGTTGG
* * * *
8047661 CCTAAT CCTAAAC CCTAA- CCTAAC CCTAAC CCTAAA CCTAAA CCTAAA
1 CCTAAC CCT-AAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC
*
8047709 CCTAAC CCTAAAC CCTAAT CCTAAC
1 CCTAAC CCT-AAC CCTAAC CCTAAC
8047734 TTTAAACAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
5 5 0.08
6 43 0.73
7 11 0.19
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAC
Found at i:8047901 original size:24 final size:24
Alignment explanation
Indices: 8047873--8047921 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8047863 GATCATGCAT
*
8047873 TCATAC-TTTATTCATATTATATTA
1 TCATACATTCATT-ATATTATATTA
*
8047897 TCATACATTCATTATATTTTATTA
1 TCATACATTCATTATATTATATTA
8047921 T
1 T
8047922 GTTCATGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (24 bp):
TCATACATTCATTATATTATATTA
Found at i:8055450 original size:13 final size:13
Alignment explanation
Indices: 8055428--8055457 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8055418 TGATGGAAAT
*
8055428 GAAAGGAAAAAGA
1 GAAAGAAAAAAGA
8055441 GAAAGAAAAAAGA
1 GAAAGAAAAAAGA
8055454 GAAA
1 GAAA
8055458 AGTATACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAAGA
Found at i:8056610 original size:24 final size:26
Alignment explanation
Indices: 8056581--8056637 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
8056571 TTATTTATTA
8056581 AAAATTTGA-T-A-TATAAATAATTT
1 AAAATTTGATTAATTATAAATAATTT
* *
8056604 AATAATTTTATTAATTTTAAATAATTT
1 AA-AATTTGATTAATTATAAATAATTT
8056631 AAAATTT
1 AAAATTT
8056638 TTTATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 6 0.21
25 1 0.04
26 6 0.21
27 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
AAAATTTGATTAATTATAAATAATTT
Found at i:8056624 original size:27 final size:26
Alignment explanation
Indices: 8056594--8056646 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
8056584 ATTTGATATA
8056594 TAAATAATTTAATAATTTTATTA-ATTT
1 TAAATAATTTAA-AATTTT-TTATATTT
8056621 TAAATAATTTAAAATTTTTTATATTT
1 TAAATAATTTAAAATTTTTTATATTT
8056647 AATTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 3 0.12
26 10 0.40
27 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAAATAATTTAAAATTTTTTATATTT
Found at i:8056807 original size:21 final size:21
Alignment explanation
Indices: 8056764--8056807 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8056754 TTTCACTACT
* * **
8056764 ATAGTAACCAATTTCACTGTC
1 ATAGTAACAAATCTCACCCTC
8056785 ATAGTAACAAATCTCACCCTC
1 ATAGTAACAAATCTCACCCTC
8056806 AT
1 AT
8056808 CACTGTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (21 bp):
ATAGTAACAAATCTCACCCTC
Found at i:8064135 original size:25 final size:25
Alignment explanation
Indices: 8064076--8064136 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
8064066 TATTTACTTT
*
8064076 TTCTACTT-GGATTTGGTTTTCCTAT
1 TTCTA-TTAGGATTTGGTTTTCCTAA
* *
8064101 TTTTAGTAGGATTT-GTTATTCCTAA
1 TTCTATTAGGATTTGGTT-TTCCTAA
8064126 TTCTATTAGGA
1 TTCTATTAGGA
8064137 GTAGGATTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (25 bp):
TTCTATTAGGATTTGGTTTTCCTAA
Found at i:8065548 original size:14 final size:13
Alignment explanation
Indices: 8065519--8065571 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 13
8065509 TTTCGTTATT
8065519 TTTGTTTTATAGTA
1 TTTGTTTTAT-GTA
8065533 TTTGTTTTATGCTA
1 TTTGTTTTATG-TA
8065547 TTTAAGTTTTATGTA
1 TTT--GTTTTATGTA
8065562 GTTTTGTTTT
1 --TTTGTTTT
8065572 TAAGGATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 7 0.21
16 8 0.24
17 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (13 bp):
TTTGTTTTATGTA
Found at i:8065691 original size:18 final size:19
Alignment explanation
Indices: 8065670--8065705 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8065660 TAGTTTCGAT
8065670 TTTGATTATT-TTTAGTTA
1 TTTGATTATTATTTAGTTA
*
8065688 TTTGATTCTTATTTAGTT
1 TTTGATTATTATTTAGTT
8065706 TACTTCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTGATTATTATTTAGTTA
Found at i:8067926 original size:29 final size:31
Alignment explanation
Indices: 8067878--8067946 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 31
8067868 CTTAAATTTA
* *
8067878 AAATATA-TTATTTTTATATTTTA-TTG-AT
1 AAATATATTTATTATTATATTTTACTAGCAT
8067906 AAATATATTTA-TATTACTATTTTACTAGCAT
1 AAATATATTTATTATTA-TATTTTACTAGCAT
8067937 AAATAT-TTTA
1 AAATATATTTA
8067947 ATAATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 11 0.31
29 10 0.29
30 6 0.17
31 8 0.23
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (31 bp):
AAATATATTTATTATTATATTTTACTAGCAT
Found at i:8068081 original size:48 final size:48
Alignment explanation
Indices: 8067956--8068082 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 48
8067946 AATAATTTAA
*
8067956 TAAT-AATAATAATTATTATTAAGTGTTTAATTTTAATATTAATAATCAT
1 TAATAAAT-ATAATTATT-TTAAGTGATTAATTTTAATATTAATAATCAT
*
8068005 TAATAAATA-AATTTATTTTAAGTGATTAATTTTAATATTAA-ATATTAT
1 TAATAAATATAA-TTATTTTAAGTGATTAATTTTAATATTAATA-ATCAT
* *
8068053 TATTAAAATATAATTATTTTTAGT-ATTAAT
1 TAAT-AAATATAATTATTTTAAGTGATTAAT
8068083 AATTTTAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
47 1 0.01
48 38 0.55
49 25 0.36
50 5 0.07
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (48 bp):
TAATAAATATAATTATTTTAAGTGATTAATTTTAATATTAATAATCAT
Found at i:8068124 original size:16 final size:15
Alignment explanation
Indices: 8068082--8068124 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
8068072 TTAGTATTAA
8068082 TAATTTTAATAAAAC
1 TAATTTTAATAAAAC
*
8068097 TAATTTCAAATAATAAC
1 TAATTT-TAATAA-AAC
8068114 TAATTTTAATA
1 TAATTTTAATA
8068125 TTTTAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 9 0.38
17 9 0.38
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTTTAATAAAAC
Found at i:8070754 original size:21 final size:21
Alignment explanation
Indices: 8070725--8070768 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8070715 CCTAAATCTT
8070725 AACCCAAAACTCCAAACCTTA
1 AACCCAAAACTCCAAACCTTA
* *
8070746 AACCTAAAACTTCAAACCTTA
1 AACCCAAAACTCCAAACCTTA
8070767 AA
1 AA
8070769 TCGAAACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (21 bp):
AACCCAAAACTCCAAACCTTA
Found at i:8070833 original size:13 final size:13
Alignment explanation
Indices: 8070815--8070854 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
8070805 TAAAAGCCTT
*
8070815 ACCCTAACCCTAA
1 ACCCTAATCCTAA
*
8070828 ACCCTAATCGTAA
1 ACCCTAATCCTAA
*
8070841 ACCTTAATCCTAA
1 ACCCTAATCCTAA
8070854 A
1 A
8070855 ACCAACCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (13 bp):
ACCCTAATCCTAA
Found at i:8072006 original size:25 final size:25
Alignment explanation
Indices: 8071971--8072050 Score: 124
Period size: 25 Copynumber: 3.2 Consensus size: 25
8071961 ATGTGTTTTA
8071971 CATTTTATGCATATTTTAATTATGT
1 CATTTTATGCATATTTTAATTATGT
*
8071996 TATTTTATGCATATTTTAATTATGT
1 CATTTTATGCATATTTTAATTATGT
* * *
8072021 CATTTCATGTATGTTTTAATTATGT
1 CATTTTATGCATATTTTAATTATGT
8072046 CATTT
1 CATTT
8072051 ATTATATGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.57
Consensus pattern (25 bp):
CATTTTATGCATATTTTAATTATGT
Found at i:8072033 original size:14 final size:13
Alignment explanation
Indices: 8072010--8072055 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
8072000 TTATGCATAT
8072010 TTTAATTATGTCA
1 TTTAATTATGTCA
*
8072023 TTTCATGTATGT--
1 TTTAAT-TATGTCA
8072035 TTTAATTATGTCA
1 TTTAATTATGTCA
8072048 TTT-ATTAT
1 TTTAATTAT
8072056 ATGCAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 5 0.18
12 10 0.36
13 8 0.29
14 5 0.18
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTAATTATGTCA
Found at i:8072058 original size:25 final size:25
Alignment explanation
Indices: 8071984--8072058 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
8071974 TTTATGCATA
* *
8071984 TTTTAATTATGTTA-TT-TTATGCATA
1 TTTTAATTATGTCATTTATTAT--ATG
*
8072009 TTTTAATTATGTCATTTCA-TGTATG
1 TTTTAATTATGTCATTT-ATTATATG
8072034 TTTTAATTATGTCATTTATTATATG
1 TTTTAATTATGTCATTTATTATATG
8072059 CAGTTATTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.02
25 37 0.88
26 2 0.05
27 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (25 bp):
TTTTAATTATGTCATTTATTATATG
Found at i:8073122 original size:35 final size:37
Alignment explanation
Indices: 8073082--8073166 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
8073072 ATAGGATAAC
8073082 ACATGCATTCCATGTCAT-C-CATGTTAATAGATAGT
1 ACATGCATTCCATGTCATGCACATGTTAATAGATAGT
* *
8073117 ACATGCATTCCATTTCATGCACATGTTAATAGATGGT
1 ACATGCATTCCATGTCATGCACATGTTAATAGATAGT
* *
8073154 ACATACATCCCAT
1 ACATGCATTCCAT
8073167 CCTATCCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 17 0.39
36 1 0.02
37 26 0.59
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (37 bp):
ACATGCATTCCATGTCATGCACATGTTAATAGATAGT
Found at i:8077385 original size:32 final size:30
Alignment explanation
Indices: 8077326--8077413 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 30
8077316 ATCCACTTAA
*
8077326 AAGAAAAGAAAAAGAAAGTGAAAGAAAGAAAGT
1 AAGAAAAGGAAAA-AAA-TGAAAGAAAG-AAGT
*
8077359 AAGAAAAGGGAAAAAAATGAAAGAAAGAATT
1 AAGAAAA-GGAAAAAAATGAAAGAAAGAAGT
*
8077390 AAAAAAAAGGAAAAAAA--AAAGAAA
1 -AAGAAAAGGAAAAAAATGAAAGAAA
8077414 AAGAGGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 7 0.14
31 12 0.24
32 16 0.32
33 10 0.20
34 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (30 bp):
AAGAAAAGGAAAAAAATGAAAGAAAGAAGT
Found at i:8079143 original size:41 final size:41
Alignment explanation
Indices: 8079032--8079225 Score: 147
Period size: 41 Copynumber: 4.7 Consensus size: 41
8079022 GTGAATTTGG
* * * *
8079032 AGTCCTTCAAACTGTGAATTATTT-CTTTGTTATGAATCCAA
1 AGTCTTTC-AACTGTGAATCATTTACTCTGTTATAAATCCAA
** **
8079073 AGTCATCCCAACTGTGAATTGTTTACTCTGTTATAAATCCAA
1 AGTC-TTTCAACTGTGAATCATTTACTCTGTTATAAATCCAA
* * * * * *
8079115 AGTCTTTCAACTGTGAATCCTTTCCTCTGTTGTGAATCTAG
1 AGTCTTTCAACTGTGAATCATTTACTCTGTTATAAATCCAA
* * * * * *
8079156 AGCCTTTCAACTATGAATCATTTGTCTCTATTGTAAATCGAA
1 AGTCTTTCAACTGTGAATCATTT-ACTCTGTTATAAATCCAA
* * *
8079198 ACTCTTTAAACTTTGAATCATTTACTCT
1 AGTCTTTCAACTGTGAATCATTTACTCT
8079226 ATTGTGGATC
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 70 0.57
42 52 0.43
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (41 bp):
AGTCTTTCAACTGTGAATCATTTACTCTGTTATAAATCCAA
Found at i:8079251 original size:41 final size:41
Alignment explanation
Indices: 8079094--8079256 Score: 148
Period size: 41 Copynumber: 4.0 Consensus size: 41
8079084 CTGTGAATTG
* * * * * *
8079094 TTTACTCTGTTATAAATCCAAAGTCTTTCAACTGTGAATCC
1 TTTACTCTATTGTGAATCTAAAGTCTTTCAACTTTGAATCA
* * * * *
8079135 TTTCCTCTGTTGTGAATCTAGAGCCTTTCAACTATGAATCA
1 TTTACTCTATTGTGAATCTAAAGTCTTTCAACTTTGAATCA
* * * * *
8079176 TTTGTCTCTATTGTAAATCGAAACTCTTTAAACTTTGAATCA
1 TTT-ACTCTATTGTGAATCTAAAGTCTTTCAACTTTGAATCA
*
8079218 TTTACTCTATTGTGGATCTAAAGTC-TTCTAACTTTGAAT
1 TTTACTCTATTGTGAATCTAAAGTCTTTC-AACTTTGAAT
8079257 TGTTGCCTTT
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 2 0.02
41 63 0.65
42 32 0.33
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (41 bp):
TTTACTCTATTGTGAATCTAAAGTCTTTCAACTTTGAATCA
Found at i:8079498 original size:31 final size:31
Alignment explanation
Indices: 8079427--8079498 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
8079417 CTAGCATTTC
* *
8079427 AGTGTGAATC-TGAACCTTTTGAAGAATCTT
1 AGTGTGAATCTTAAAACTTTTGAAGAATCTT
**
8079457 AGTGCAAATCTTAAAACTTTTGAAGAATCTT
1 AGTGTGAATCTTAAAACTTTTGAAGAATCTT
8079488 AGTGTGAATCT
1 AGTGTGAATCT
8079499 CGAACCTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (31 bp):
AGTGTGAATCTTAAAACTTTTGAAGAATCTT
Found at i:8079598 original size:52 final size:52
Alignment explanation
Indices: 8079540--8079709 Score: 206
Period size: 50 Copynumber: 3.4 Consensus size: 52
8079530 GGCCTTTCGG
* * *
8079540 TGTGAATCCCAAACCTTTTAAAGAATCTTAGTGGGAATCTTAGCCTTTTCAA
1 TGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGCCTTTTCAA
* * * *
8079592 TGTGAATCCCAAACCTTTTGAAGAATCCTGGTGCGAATCCTA-AC-TTTCAG
1 TGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGCCTTTTCAA
* * *
8079642 TGTAAATCTCAAACCTTTTAAAGAATCTTGGTGTGAATCCTAGCCTTTT-AA
1 TGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGCCTTTTCAA
*
8079693 --TGAATCCTAAACCTTTT
1 TGTGAATCCCAAACCTTTT
8079710 GAAAAAACCT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
49 14 0.14
50 42 0.42
51 3 0.03
52 40 0.40
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (52 bp):
TGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGCCTTTTCAA
Found at i:8079666 original size:50 final size:51
Alignment explanation
Indices: 8079488--8079689 Score: 194
Period size: 50 Copynumber: 4.0 Consensus size: 51
8079478 GAAGAATCTT
* * * * * * *
8079488 AGTGTGAATCTCGAACCTTTGAAA-AATGTTGGTGTGAA-CCTCGGCCTTTC
1 AGTGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCT-AGACTTTC
* * * * *
8079538 GGTGTGAATCCCAAACCTTTTAAAGAATCTTAGTGGGAATCTTAGCCTTTTC
1 AGTGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGAC-TTTC
* * *
8079590 AATGTGAATCCCAAACCTTTTGAAGAATCCTGGTGCGAATCCTA-ACTTTC
1 AGTGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGACTTTC
* * * *
8079640 AGTGTAAATCTCAAACCTTTTAAAGAATCTTGGTGTGAATCCTAGCCTTT
1 AGTGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGACTTT
8079690 TAATGAATCC
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 62 0.50
51 19 0.15
52 43 0.35
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (51 bp):
AGTGTGAATCCCAAACCTTTTAAAGAATCTTGGTGCGAATCCTAGACTTTC
Found at i:8079822 original size:163 final size:162
Alignment explanation
Indices: 8079586--8079885 Score: 381
Period size: 163 Copynumber: 1.8 Consensus size: 162
8079576 ATCTTAGCCT
* * *
8079586 TTTCAATGTGAATCCCAAACCTTTTGAAGAATCCTGGTGCGAATCCTAACTTTCAGTGTAAATCT
1 TTTCAATGTGAATCCCAAACCTTTTGAAGAATACTGGTGCGAATCCCAACTTTCAGTGTAAAACT
* * *
8079651 CAAACCTTTTAAAGAA-TCTTGGTGTGAATCCTAGCCTTTTAAT-GAATCCTAAACCTTTTGAAA
66 CAAACCTTTTAAAGAACTC-TAGTGTGAATCCTAGCCTTTCAATCGAATCCCAAA-CTTTTG-AA
8079714 AAACCTTTTACAAATTCCAAACCTTTTGAAGGACC
128 AAACCTTTTACAAATTCCAAACCTTTTGAAGGACC
* * * * * *
8079749 TTTCAGTGTGAATCCCAAA-GTTTTGAAGAATATTGGTGTGAATCCCAGCTTGTTAGTGTAAAAC
1 TTTCAATGTGAATCCCAAACCTTTTGAAGAATACTGGTGCGAATCCCAACTT-TCAGTGTAAAAC
** * * *
8079813 TTGAACCTTTTGAATAACTCTAGTGTGAATCCTAGCCTTTCAATGCGAATCCCAAACTTTTGAAG
65 TCAAACCTTTTAAAGAACTCTAGTGTGAATCCTAGCCTTTCAAT-CGAATCCCAAACTTTTGAAA
8079878 AACCTTTT
129 AACCTTTT
8079886 GGTGTGAATC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
162 26 0.22
163 73 0.63
164 8 0.07
165 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (162 bp):
TTTCAATGTGAATCCCAAACCTTTTGAAGAATACTGGTGCGAATCCCAACTTTCAGTGTAAAACT
CAAACCTTTTAAAGAACTCTAGTGTGAATCCTAGCCTTTCAATCGAATCCCAAACTTTTGAAAAA
CCTTTTACAAATTCCAAACCTTTTGAAGGACC
Found at i:8080821 original size:144 final size:143
Alignment explanation
Indices: 8080673--8080951 Score: 350
Period size: 144 Copynumber: 1.9 Consensus size: 143
8080663 TTGTACGTTG
* * *
8080673 AGAGGTGTGAAATTACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTTTCTAAAGT-TG
1 AGAGGTATGAAATTACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTATCCAAAGTCTG
** *
8080737 -GTTTTAAATAAAACTTTTCAGATCATAATTTTATAATATTTGATGATTTTAT-GTGCTTTTGAA
66 AGTTTTAAA-AAAA-TTTTCAGATCATAATTCCATAATATTTCATGATTTT-TGGTGC-TTT-AA
8080800 A-TCACAAAAGTACTCTA
126 AGTCACAAAAGTACTCTA
** ** * *
8080817 AGAGGTATGAAATTACCAAAATACCTTTTAGGGGTAATTTCGTAATTTGACCTATCCAAGGTCTG
1 AGAGGTATGAAATTACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTATCCAAAGTCTG
* * *
8080882 ATTTTTACAAAAATTTTCAGATCTTAATTCCATAATATTTCATGATTTTTGGTGCTTTAAAGTCA
66 AGTTTTAAAAAAATTTTCAGATCATAATTCCATAATATTTCATGATTTTTGGTGCTTTAAAGTCA
8080947 CAAAA
131 CAAAA
8080952 ATGAGCATGG
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
142 3 0.03
143 12 0.10
144 89 0.77
145 6 0.05
146 6 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (143 bp):
AGAGGTATGAAATTACCAAAATACCCCTTAAAGGTAATTTCATAATTTGACCTATCCAAAGTCTG
AGTTTTAAAAAAATTTTCAGATCATAATTCCATAATATTTCATGATTTTTGGTGCTTTAAAGTCA
CAAAAGTACTCTA
Found at i:8082276 original size:5 final size:5
Alignment explanation
Indices: 8082262--8082291 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
8082252 TAAAACCAAA
8082262 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
8082292 GCTAAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8082445 original size:6 final size:6
Alignment explanation
Indices: 8082436--8082508 Score: 56
Period size: 6 Copynumber: 11.3 Consensus size: 6
8082426 AAAGCCTAGT
* * *
8082436 CCTAAA CCTAAA TCTTAA CCTTAAA CCTTAAA CCCTAAC CCTAAA CCTAAA
1 CCTAAA CCTAAA CCTAAA CC-TAAA CC-TAAA -CCTAAA CCTAAA CCTAAA
* *
8082487 CCCTAAT CCTAGA CCTTAAA CC
1 -CCTAAA CCTAAA CC-TAAA CC
8082509 CTAGAACCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
6 28 0.53
7 23 0.43
8 2 0.04
ACGTcount: A:0.40, C:0.36, G:0.01, T:0.23
Consensus pattern (6 bp):
CCTAAA
Found at i:8082474 original size:20 final size:19
Alignment explanation
Indices: 8082436--8082537 Score: 93
Period size: 20 Copynumber: 5.3 Consensus size: 19
8082426 AAAGCCTAGT
* *
8082436 CCTAAACC-TAAATCTTAA
1 CCTAAACCTTAAACCCTAA
8082454 CCTTAAACCTTAAACCCTAA
1 CC-TAAACCTTAAACCCTAA
8082474 CCCTAAACC-TAAACCCTAA
1 -CCTAAACCTTAAACCCTAA
*
8082493 TCCTAGACCTTAAACCCTAGAA
1 -CCTAAACCTTAAACCCT--AA
*
8082515 CC-AACCCTTAAACCCTAA
1 CCTAAACCTTAAACCCTAA
*
8082533 ACTAA
1 CCTAA
8082538 TCATGCATTG
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.07
19 25 0.36
20 34 0.49
21 4 0.06
22 2 0.03
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (19 bp):
CCTAAACCTTAAACCCTAA
Found at i:8082503 original size:39 final size:39
Alignment explanation
Indices: 8082436--8082511 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
8082426 AAAGCCTAGT
* *
8082436 CCTAAACCTAAATCTTAACCTTAAACCTTAAACCCTAAC
1 CCTAAACCTAAACCCTAACCTTAAACCTTAAACCCTAAC
*
8082475 CCTAAACCTAAACCCTAATCC-TAGACCTTAAACCCTA
1 CCTAAACCTAAACCCTAA-CCTTAAACCTTAAACCCTA
8082512 GAACCAACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (39 bp):
CCTAAACCTAAACCCTAACCTTAAACCTTAAACCCTAAC
Found at i:8082528 original size:8 final size:7
Alignment explanation
Indices: 8082452--8082534 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
8082442 CCTAAATCTT
*
8082452 AACCTTA
1 AACCCTA
*
8082459 AACCTTA
1 AACCCTA
8082466 AACCCT-
1 AACCCTA
8082472 AACCCTA
1 AACCCTA
8082479 AA-CCTA
1 AACCCTA
8082485 AACCCT-
1 AACCCTA
*
8082491 AATCCTA
1 AACCCTA
* *
8082498 GACCTTA
1 AACCCTA
8082505 AACCCTA
1 AACCCTA
8082512 GAA-CC--
1 -AACCCTA
8082517 AACCCTTA
1 AACCC-TA
8082525 AACCCTA
1 AACCCTA
8082532 AAC
1 AAC
8082535 TAATCATGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 17 0.28
7 33 0.54
8 7 0.11
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:8084222 original size:20 final size:20
Alignment explanation
Indices: 8084194--8084232 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8084184 CTAAACTTTA
* *
8084194 AACCTTAAACTTTAAGCCCT
1 AACCCTAAACCTTAAGCCCT
8084214 AACCCTAAACCTTAAGCCC
1 AACCCTAAACCTTAAGCCC
8084233 AAATCCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.05, T:0.23
Consensus pattern (20 bp):
AACCCTAAACCTTAAGCCCT
Found at i:8084273 original size:13 final size:12
Alignment explanation
Indices: 8084210--8084338 Score: 62
Period size: 13 Copynumber: 10.1 Consensus size: 12
8084200 AAACTTTAAG
8084210 CCCTAACCCTAAA
1 CCCTAA-CCTAAA
* *
8084223 CCTTAAGCCCAAA
1 CCCTAA-CCTAAA
* *
8084236 TCCATAAACTAAA
1 -CCCTAACCTAAA
*
8084249 ACCTAACCTAAA
1 CCCTAACCTAAA
8084261 CCCTAATCCTAAA
1 CCCTAA-CCTAAA
*
8084274 CCCCAACTCTAAA
1 CCCTAAC-CTAAA
*
8084287 ACCTAAACTCTAAA
1 CCCT-AAC-CTAAA
* *
8084301 -CCAAACCTAAG
1 CCCTAACCTAAA
* * *
8084312 CCTTGACCCTATA
1 CCCT-AACCTAAA
8084325 CCCTAATCCTAAA
1 CCCTAA-CCTAAA
8084338 C
1 C
8084339 TTTAAACCCT
Statistics
Matches: 86, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
11 4 0.05
12 20 0.23
13 48 0.56
14 14 0.16
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.19
Consensus pattern (12 bp):
CCCTAACCTAAA
Found at i:8084295 original size:14 final size:13
Alignment explanation
Indices: 8084240--8084310 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
8084230 CCCAAATCCA
8084240 TAAA-CTAAAACC
1 TAAACCTAAAACC
*
8084252 T-AACCTAAACCC
1 TAAACCTAAAACC
*
8084264 TAATCCT-AAACC
1 TAAACCTAAAACC
**
8084276 CCAACTCTAAAACC
1 TAAAC-CTAAAACC
8084290 TAAACTCT-AAACC
1 TAAAC-CTAAAACC
8084303 -AAACCTAA
1 TAAACCTAA
8084311 GCCTTGACCC
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
11 4 0.09
12 20 0.43
13 11 0.24
14 11 0.24
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAACCTAAAACC
Found at i:8086114 original size:16 final size:16
Alignment explanation
Indices: 8086093--8086127 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8086083 AAAAAAATGA
8086093 AAAAAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
* *
8086109 AAAAAAAGTGGAAAAG
1 AAAAAAAGAGAAAAAG
8086125 AAA
1 AAA
8086128 TTGCTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:8089531 original size:19 final size:19
Alignment explanation
Indices: 8089507--8089544 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8089497 CTATCAAAAG
* *
8089507 ATGATAGGCTACACTCATA
1 ATGATAAGCCACACTCATA
8089526 ATGATAAGCCACACTCATA
1 ATGATAAGCCACACTCATA
8089545 GTCTCATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (19 bp):
ATGATAAGCCACACTCATA
Found at i:8097287 original size:137 final size:140
Alignment explanation
Indices: 8096920--8097314 Score: 485
Period size: 137 Copynumber: 2.8 Consensus size: 140
8096910 GCATTGAGAG
* * *
8096920 AAGTACAAAATTACCAAAATACCCCTATAAAGGATACTTTTGTAATTTGACCTTCCCGAGCTCAT
1 AAGTGCAAAATTACCAAAATA-CCCTAT-AAGGGTACTTTTGTAATTTGACCTTCCCGAGCTCAA
*
8096985 ATTTCATGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTACATTTAAAATCA
64 ATTTCATGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGG-A-A-TTAAAATCA
* *
8097050 CAACTGTACCATAAA
126 CAACAGTACCACAAA
* ** ** *
8097065 AAGTGTAAAATTACCAAAATACCCTATAAGGGTACTTTTGTAATTTGACCTTCTTGAGCTTGGAT
1 AAGTGCAAAATTACCAAAATACCCTATAAGGGTACTTTTGTAATTTGACCTTCCCGAGC-TCAAA
* * * ** * *
8097130 TTTCATAAAAATTTTCAGATCTTAATTTTATGATATTTCATGATTTTT-G-A-TGCAATCATAGC
65 TTTCATGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGAATTAAAATCACAAC
8097192 AGTACC-CAAA
130 AGTACCACAAA
*
8097202 AA-TGCAAAATTACCAAAATACCCATATAAGGGTATTTTTGTAATTTGACCTTCCCGAGCTCAAA
1 AAGTGCAAAATTACCAAAATACCC-TATAAGGGTACTTTTGTAATTTGACCTTCCCGAGCTCAAA
* *
8097266 TTTCCATGAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTT
65 TTT-CATGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTT
8097315 TACATTTTAA
Statistics
Matches: 216, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
136 25 0.12
137 77 0.36
138 13 0.06
140 1 0.00
143 30 0.14
144 51 0.24
145 19 0.09
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (140 bp):
AAGTGCAAAATTACCAAAATACCCTATAAGGGTACTTTTGTAATTTGACCTTCCCGAGCTCAAAT
TTCATGAAACTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGAATTAAAATCACAACA
GTACCACAAA
Found at i:8100166 original size:24 final size:23
Alignment explanation
Indices: 8100126--8100170 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8100116 GCTTATTAAA
* *
8100126 AAATAAAAATATGATTTTTAAGG
1 AAATAAAAAAATAATTTTTAAGG
8100149 AAATAAAAAAATTAATTTTTAA
1 AAATAAAAAAA-TAATTTTTAA
8100171 ATACCCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
AAATAAAAAAATAATTTTTAAGG
Found at i:8100591 original size:3 final size:3
Alignment explanation
Indices: 8100585--8100610 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8100575 ATAATAATAA
8100585 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
8100611 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:8100615 original size:3 final size:3
Alignment explanation
Indices: 8100609--8100666 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
8100599 GTAGTAGTAG
8100609 TAA TAA TAA TAA 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 TAA TAA TAA TAA
8100657 TAA TAA TAA T
1 TAA TAA TAA T
8100667 GGTAAATAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8106162 original size:10 final size:10
Alignment explanation
Indices: 8106147--8106176 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
8106137 ATGGAAAAAT
8106147 GGTGAATGAA
1 GGTGAATGAA
8106157 GGTGAATGAA
1 GGTGAATGAA
8106167 GGATGAATGA
1 GG-TGAATGA
8106177 TGAATGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (10 bp):
GGTGAATGAA
Found at i:8106509 original size:20 final size:20
Alignment explanation
Indices: 8106480--8106522 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8106470 AAGAAAACCC
*
8106480 AAAGAGAAGAAATAATCTTT
1 AAAGAAAAGAAATAATCTTT
* *
8106500 AAAGAAAAGAAATCATTTTT
1 AAAGAAAAGAAATAATCTTT
8106520 AAA
1 AAA
8106523 AGGCCTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (20 bp):
AAAGAAAAGAAATAATCTTT
Found at i:8106627 original size:50 final size:49
Alignment explanation
Indices: 8106558--8106730 Score: 179
Period size: 49 Copynumber: 3.5 Consensus size: 49
8106548 CAAAATTGAT
* * * *
8106558 ATTTTTCAATTTTTCTTGCCTCTCTTTAGATAAGCTTTTTAAAGATGAG
1 ATTTTTAAAGTTTCCTTGCCTCTCTTTAGATAAGCTTTTTAAAGATAAG
* * *
8106607 ATTTTTTAAAGTTTCATTGCCTCTCTTTAGA-AGAGCTTTTCAATA-TTAAG
1 A-TTTTTAAAGTTTCCTTGCCTCTCTTTAGATA-AGCTTTTTAA-AGATAAG
** * * * *
8106657 ATTTTTAAAAATTCCCTACCTCTCTTTAGATAAGTTTTTTAGAGATAAG
1 ATTTTTAAAGTTTCCTTGCCTCTCTTTAGATAAGCTTTTTAAAGATAAG
*
8106706 ATTTTTAAAGTTTCCTTGTCTCTCT
1 ATTTTTAAAGTTTCCTTGCCTCTCT
8106731 GATAATTCTA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.01
49 57 0.58
50 39 0.40
51 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (49 bp):
ATTTTTAAAGTTTCCTTGCCTCTCTTTAGATAAGCTTTTTAAAGATAAG
Found at i:8113297 original size:19 final size:19
Alignment explanation
Indices: 8113260--8113298 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8113250 TCTTGTAATG
*
8113260 TTCTTAGAAGTTCTTGATT
1 TTCTTAGAAGATCTTGATT
8113279 TTCTTAGAA-ATCTTGGATT
1 TTCTTAGAAGATCTT-GATT
8113298 T
1 T
8113299 AGATAATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (19 bp):
TTCTTAGAAGATCTTGATT
Found at i:8113648 original size:25 final size:24
Alignment explanation
Indices: 8113589--8113649 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
8113579 TATCTACTTT
8113589 TTCTAC-ATGGATTTGGTTTTCCTA
1 TTCTACTA-GGATTTGGTTTTCCTA
*
8113613 TTCTTAGTAGGATTT-GTTATTCCTAA
1 TTC-TACTAGGATTTGGTT-TTCCT-A
8113639 TTCTACTAGGA
1 TTCTACTAGGA
8113650 GTAAAATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 6 0.19
25 20 0.65
26 5 0.16
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TTCTACTAGGATTTGGTTTTCCTA
Found at i:8115490 original size:50 final size:49
Alignment explanation
Indices: 8115352--8115545 Score: 166
Period size: 50 Copynumber: 4.0 Consensus size: 49
8115342 CACCTATCAA
* * * *
8115352 TCTCTTTAAATGA-GCTTTTCAAAAGTGAAAATTTTTAAAGTTTTTCTACC
1 TCTCTTTAAA-GAGGCTTTTTAAAAATG-AGATTTTTAAAGTTTCTCTACC
* * * * *
8115402 T-TTTTTAGAGAAG-TTTTTCAAAATTGAGATTTTTAAAGTTTC-CTTGCC
1 TCTCTTTAAAGAGGCTTTTT-AAAAATGAGATTTTTAAAGTTTCTC-TACC
*
8115450 TCTCTTTAAAG-GAGCTTTTTAAAAATGAGATTTTATAAAGTTTCTCTACT
1 TCTCTTTAAAGAG-GCTTTTTAAAAATGAGATTTT-TAAAGTTTCTCTACC
* * * *
8115500 TTTTTTTAAAGAGGCTTTTTAAAGATGAGATTTTTGAAGTTT-TCTA
1 TCTCTTTAAAGAGGCTTTTTAAAAATGAGATTTTTAAAGTTTCTCTA
8115546 GCCCCTATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
47 1 0.01
48 28 0.24
49 41 0.35
50 46 0.39
51 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (49 bp):
TCTCTTTAAAGAGGCTTTTTAAAAATGAGATTTTTAAAGTTTCTCTACC
Found at i:8115568 original size:99 final size:97
Alignment explanation
Indices: 8115356--8115561 Score: 227
Period size: 99 Copynumber: 2.1 Consensus size: 97
8115346 TATCAATCTC
* * * * * *
8115356 TTTAAATGAGCTTTTCAAAAGTGAAAATTTTTAAAGTTTTTCTACCTTTTTTAGAGAAGTTTTTC
1 TTTAAAGGAGCTTTTTAAAAATG-AGATTTTTAAAGTTTCTCTACCTTTTTTAAAGAAGTTTTTC
* * *
8115421 AAAATTGAGATTTTTAAAGTTTCCTTGCCTCTC
65 AAAATTGAGATTTTTAAAGTTTCCTAGCCCCTA
* *
8115454 TTTAAAGGAGCTTTTTAAAAATGAGATTTTATAAAGTTTCTCTACTTTTTTTTAAAGAGGCTTTT
1 TTTAAAGGAGCTTTTTAAAAATGAGATTTT-TAAAGTTTCTCTAC-CTTTTTTAAAGAAG-TTTT
* *
8115519 T-AAAGA-TGAGATTTTTGAAGTTTTCTAGCCCCTA
63 TCAAA-ATTGAGATTTTTAAAGTTTCCTAGCCCCTA
*
8115553 TTTAGAGGA
1 TTTAAAGGA
8115562 TTTTTTTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
97 6 0.07
98 33 0.37
99 45 0.50
100 6 0.07
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.45
Consensus pattern (97 bp):
TTTAAAGGAGCTTTTTAAAAATGAGATTTTTAAAGTTTCTCTACCTTTTTTAAAGAAGTTTTTCA
AAATTGAGATTTTTAAAGTTTCCTAGCCCCTA
Found at i:8115721 original size:24 final size:24
Alignment explanation
Indices: 8115669--8115721 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8115659 ATGACCCATA
8115669 AAAAAAAAAAAAACAAAAACAAAC
1 AAAAAAAAAAAAACAAAAACAAAC
* * * *
8115693 CAAAAAAAAAAAATAACAACAAGC
1 AAAAAAAAAAAAACAAAAACAAAC
8115717 AAAAA
1 AAAAA
8115722 CCTTTCAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAAACAAAAACAAAC
Found at i:8116004 original size:30 final size:30
Alignment explanation
Indices: 8115952--8116013 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8115942 TACCATGGTC
*
8115952 AAATATGATCAAATTTAGTAAAAAAAGTCA
1 AAATATGATCAAATTGAGTAAAAAAAGTCA
* **
8115982 AAAT-TGATCAAAATTGATTAAAATCAGTCA
1 AAATATGATC-AAATTGAGTAAAAAAAGTCA
8116012 AA
1 AA
8116014 TTGGGTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (30 bp):
AAATATGATCAAATTGAGTAAAAAAAGTCA
Found at i:8116624 original size:143 final size:142
Alignment explanation
Indices: 8116370--8116657 Score: 332
Period size: 143 Copynumber: 2.0 Consensus size: 142
8116360 TTTTGGTATG
* * * * ** **
8116370 TTAAAAACCTTGATCATACCTCAAAAGATGTTAAATACTAAAATGCCCTTTAGGGCTATTTTTGT
1 TTAAAAACCTTGATCATACCTCAAAAGATATGAAATACTAAAATACCATTTAAAGCTATTTTCAT
* * ** * *
8116435 AATTTAATCTTCTTAAGGTCAATTTTTCATGAAATGCTCCAGATCATGTTTTGAAATTAATTTAT
66 AATTTAATCTTCTTAAGGTCAATTTTTCATAAAAT-CTCCAAATCATAATTTCAAATTAATTTAA
8116500 GATTTTTAGTGCA
130 GATTTTTAGTGCA
8116513 TTAAAAACCTTGATCATACCTCAAAA-ATATGAAATTACTAAAATACCATTTATAAG-TATTTTC
1 TTAAAAACCTTGATCATACCTCAAAAGATATGAAA-TACTAAAATACCATTTA-AAGCTATTTTC
* * *
8116576 ATAATTTAATCTTCTTAAGGTCAGATTTTTACA-AAAA-CTTTCAAATCATAATTTCATATTATT
64 ATAATTTAATCTTCTTAAGGTCA-ATTTTT-CATAAAATC-TCCAAATCATAATTTCAAATTAAT
*
8116639 TTAAGATTTTTGGTGCA
126 TTAAGATTTTTAGTGCA
8116656 TT
1 TT
8116658 GAAATCACAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
142 7 0.06
143 103 0.84
144 10 0.08
145 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (142 bp):
TTAAAAACCTTGATCATACCTCAAAAGATATGAAATACTAAAATACCATTTAAAGCTATTTTCAT
AATTTAATCTTCTTAAGGTCAATTTTTCATAAAATCTCCAAATCATAATTTCAAATTAATTTAAG
ATTTTTAGTGCA
Found at i:8119283 original size:33 final size:33
Alignment explanation
Indices: 8119241--8119308 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
8119231 TTAGAATTAG
8119241 GCAAGTATGGGTTCCTAAAGGAACAAGAGACTT
1 GCAAGTATGGGTTCCTAAAGGAACAAGAGACTT
8119274 GCAAGTATGGGTTCCTAAAGGAACAAGAGACTT
1 GCAAGTATGGGTTCCTAAAGGAACAAGAGACTT
8119307 GC
1 GC
8119309 TCACTAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (33 bp):
GCAAGTATGGGTTCCTAAAGGAACAAGAGACTT
Found at i:8122129 original size:16 final size:16
Alignment explanation
Indices: 8122110--8122144 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8122100 TATCATAACA
*
8122110 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
8122126 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
8122142 TAT
1 TAT
8122145 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:8126755 original size:7 final size:7
Alignment explanation
Indices: 8126745--8126955 Score: 64
Period size: 7 Copynumber: 31.7 Consensus size: 7
8126735 ATTGTAAATC
8126745 CTAAACT
1 CTAAACT
*
8126752 CT-AACC
1 CTAAACT
8126758 CTAAAC-
1 CTAAACT
8126764 CATAAAC-
1 C-TAAACT
*
8126771 C-AAAAT
1 CTAAACT
*
8126777 CCTAAACC
1 -CTAAACT
*
8126785 CT-AACC
1 CTAAACT
8126791 CTAAACT
1 CTAAACT
*
8126798 C-AAAAT
1 CTAAACT
8126804 CCTAAAC-
1 -CTAAACT
*
8126811 CAAAACT
1 CTAAACT
8126818 CTAAA-T
1 CTAAACT
*
8126824 CCTTAACT
1 -CTAAACT
8126832 CTAAAC-
1 CTAAACT
*
8126838 CCAAA-T
1 CTAAACT
8126844 CCTAAAC-
1 -CTAAACT
*
8126851 CTACA-T
1 CTAAACT
*
8126857 CTCAAC-
1 CTAAACT
8126863 CTTAAAC-
1 C-TAAACT
*
8126870 CTTAAACC
1 C-TAAACT
8126878 CTAAAC-
1 CTAAACT
*
8126884 CTAAACC
1 CTAAACT
8126891 CTAAAC-
1 CTAAACT
8126897 CTAAACT
1 CTAAACT
*
8126904 CT-AACC
1 CTAAACT
*
8126910 CTAAACC
1 CTAAACT
*
8126917 CTAAACC
1 CTAAACT
8126924 CTTAAAC-
1 C-TAAACT
8126931 CTAAACT
1 CTAAACT
*
8126938 CT-AACA
1 CTAAACT
*
8126944 CTAAACC
1 CTAAACT
8126951 CTAAA
1 CTAAA
8126956 ACCTTAAACC
Statistics
Matches: 160, Mismatches: 20, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
5 3 0.02
6 61 0.38
7 83 0.52
8 13 0.08
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACT
Found at i:8126762 original size:13 final size:13
Alignment explanation
Indices: 8126744--8127050 Score: 51
Period size: 13 Copynumber: 23.5 Consensus size: 13
8126734 CATTGTAAAT
8126744 CCTAAACTCTAAC
1 CCTAAACTCTAAC
*
8126757 CCTAAAC-CATAAA
1 CCTAAACTC-TAAC
*
8126770 CC-AAAATCCTAAAC
1 CCTAAACT-CT-AAC
*
8126784 CCT-AACCCTAA-
1 CCTAAACTCTAAC
* * *
8126795 ACTCAAAATCCTAAA
1 CCT-AAACT-CTAAC
* *
8126810 CCAAAACTCTAAAT
1 CCTAAACTCT-AAC
*
8126824 CCTTAACTCTAAAC
1 CCTAAACTCT-AAC
*
8126838 CC-AAA-TCCTAAA
1 CCTAAACT-CTAAC
*
8126850 CCTACA-TCTCAAC
1 CCTAAACTCT-AAC
*
8126863 CTTAAAC-CTTAAAC
1 CCTAAACTC-TAA-C
8126877 CCTAAAC-CTAAAC
1 CCTAAACTCT-AAC
8126890 CCTAAAC-CTAAAC
1 CCTAAACTCT-AAC
* *
8126903 TCT-AACCCTAAAC
1 CCTAAACTCT-AAC
* *
8126916 CCTAAACCCTTAAA
1 CCTAAACTC-TAAC
8126930 CCTAAACTCTAAC
1 CCTAAACTCTAAC
* *
8126943 ACTAAACCCTAA-
1 CCTAAACTCTAAC
* *
8126955 ---AACCT-TAAA
1 CCTAAACTCTAAC
8126964 CCTAAAC-CTTAAC
1 CCTAAACTC-TAAC
8126977 CCTAAAAC-CTAAGC
1 CCT-AAACTCTAA-C
* **
8126991 CCTAACCTAAAAC
1 CCTAAACTCTAAC
* *
8127004 CCTAAAACTATAAA
1 CCT-AAACTCTAAC
8127018 CCTAAAC-CTTAAC
1 CCTAAACTC-TAAC
8127031 CCTAAA-TCATAAGC
1 CCTAAACTC-TAA-C
8127045 CCTAAA
1 CCTAAA
8127051 AACCCAAACC
Statistics
Matches: 219, Mismatches: 42, Indels: 65
0.67 0.13 0.20
Matches are distributed among these distances:
8 3 0.01
9 3 0.01
11 2 0.01
12 19 0.09
13 106 0.48
14 84 0.38
15 2 0.01
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.20
Consensus pattern (13 bp):
CCTAAACTCTAAC
Found at i:8126769 original size:20 final size:21
Alignment explanation
Indices: 8126744--8127050 Score: 150
Period size: 20 Copynumber: 15.3 Consensus size: 21
8126734 CATTGTAAAT
* *
8126744 CCTAAACTCT-AACCCTAAAC
1 CCTAAACCCTAAACTCTAAAC
* *
8126764 CATAAA-CC-AAAATCCTAAAC
1 CCTAAACCCTAAACT-CTAAAC
* *
8126784 CCT-AACCCTAAACTCAAAAT
1 CCTAAACCCTAAACTCTAAAC
* *
8126804 CCTAAA-CCAAAACTCTAAAT
1 CCTAAACCCTAAACTCTAAAC
* * * *
8126824 CCTTAACTCTAAAC-CCAAAT
1 CCTAAACCCTAAACTCTAAAC
* *
8126844 CCTAAA-CCTACA-TCTCAAC
1 CCTAAACCCTAAACTCTAAAC
* * *
8126863 CTTAAACCTTAAACCCTAAA-
1 CCTAAACCCTAAACTCTAAAC
8126883 CCTAAACCCTAAAC-CTAAAC
1 CCTAAACCCTAAACTCTAAAC
* *
8126903 TCT-AACCCTAAACCCTAAAC
1 CCTAAACCCTAAACTCTAAAC
* *
8126923 CCTTAAACCTAAACTCT-AAC
1 CCTAAACCCTAAACTCTAAAC
*
8126943 ACTAAACCCTAAAAC-CTTAAA-
1 CCTAAACCCT-AAACTC-TAAAC
* * *
8126964 CCTAAA-CCTTAACCCTAAAA
1 CCTAAACCCTAAACTCTAAAC
*
8126984 CCTAAGCCCT-AAC-CTAAAAC
1 CCTAAACCCTAAACTCT-AAAC
**
8127004 CCTAAAACTATAAAC-CTAAA-
1 CCT-AAACCCTAAACTCTAAAC
* *
8127024 CCTTAACCCTAAA-TCATAAGC
1 CCTAAACCCTAAACTC-TAAAC
8127045 CCTAAA
1 CCTAAA
8127051 AACCCAAACC
Statistics
Matches: 217, Mismatches: 46, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
19 49 0.23
20 110 0.51
21 51 0.24
22 7 0.03
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.20
Consensus pattern (21 bp):
CCTAAACCCTAAACTCTAAAC
Found at i:8126784 original size:27 final size:25
Alignment explanation
Indices: 8126744--8127036 Score: 198
Period size: 27 Copynumber: 11.0 Consensus size: 25
8126734 CATTGTAAAT
* *
8126744 CCTAAACTCTAACCCTAAACCATAAA
1 CCTAAAC-CTAAACCTAAACCCTAAA
*
8126770 CCAAAATCCTAAACCCT-AACCCTAAA
1 CCTAAA-CCTAAA-CCTAAACCCTAAA
* * *
8126796 CTCAAAATCCTAAACCAAAACTCTAAA
1 C-CTAAA-CCTAAACCTAAACCCTAAA
* * *
8126823 TCCTTAACTCTAAACCCAAATCCTAAA
1 -CCTAAAC-CTAAACCTAAACCCTAAA
* * * *
8126850 CCTACATCTCAACCTTAAACCTTAAA
1 CCTAAACCTAAACC-TAAACCCTAAA
8126876 CCCTAAACCTAAACCCTAAA-CCTAAA
1 -CCTAAACCTAAA-CCTAAACCCTAAA
*
8126902 CTCTAACCCTAAACCCTAAACCCTTAAA
1 C-CTAAACCTAAA-CCTAAACCC-TAAA
8126930 CCTAAACTCT-AACACTAAACCCTAAAA
1 CCTAAAC-CTAAAC-CTAAACCCT-AAA
*
8126957 CCTTAAACCTAAACCTTAACCCTAAAA
1 CC-TAAACCTAAACCTAAACCCT-AAA
*
8126984 CCTAAGCCCT-AACCTAAAACCCTAAAA
1 CCTAA-ACCTAAACCT-AAACCCT-AAA
* *
8127011 CTATAAACCTAAACCTTAACCCTAAA
1 C-CTAAACCTAAACCTAAACCCTAAA
8127037 TCATAAGCCC
Statistics
Matches: 217, Mismatches: 29, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
25 7 0.03
26 68 0.31
27 116 0.53
28 26 0.12
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (25 bp):
CCTAAACCTAAACCTAAACCCTAAA
Found at i:8126930 original size:34 final size:34
Alignment explanation
Indices: 8126874--8127060 Score: 181
Period size: 34 Copynumber: 5.5 Consensus size: 34
8126864 TTAAACCTTA
8126874 AACCCT-AAACCTAAACCC-TAAACCTAAACTCT
1 AACCCTAAAACCTAAACCCTTAAACCTAAACTCT
*
8126906 AACCCTAAACCCTAAACCCTTAAACCTAAACTCT
1 AACCCTAAAACCTAAACCCTTAAACCTAAACTCT
* * *
8126940 AACACTAAACCCTAAAACCTTAAACCTAAAC-CTT
1 AACCCTAAAACCTAAACCCTTAAACCTAAACTC-T
* *
8126974 AACCCTAAAACCTAAGCCC-T-AACCTAAAACCCT
1 AACCCTAAAACCTAAACCCTTAAACCT-AAACTCT
** *
8127007 AAAACTATAAACCTAAA-CCTTAACCCTAAA-TCAT
1 AACCCTA-AAACCTAAACCCTTAAACCTAAACTC-T
*
8127041 AAGCCCTAAAAACCCAAACC
1 AA-CCCT-AAAACCTAAACC
8127061 AATCCCTAAA
Statistics
Matches: 128, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
32 11 0.09
33 26 0.20
34 75 0.59
35 14 0.11
36 2 0.02
ACGTcount: A:0.45, C:0.35, G:0.01, T:0.18
Consensus pattern (34 bp):
AACCCTAAAACCTAAACCCTTAAACCTAAACTCT
Found at i:8126964 original size:7 final size:7
Alignment explanation
Indices: 8126860--8127029 Score: 94
Period size: 7 Copynumber: 25.1 Consensus size: 7
8126850 CCTACATCTC
8126860 AACCTTA
1 AACCTTA
8126867 AACCTTA
1 AACCTTA
*
8126874 AACCCTA
1 AACCTTA
8126881 AACC-TA
1 AACCTTA
*
8126887 AACCCTA
1 AACCTTA
8126894 AACC-TA
1 AACCTTA
8126900 AA-CTCT-
1 AACCT-TA
*
8126906 AACCCTA
1 AACCTTA
*
8126913 AACCCTA
1 AACCTTA
8126920 AACCCTTA
1 AA-CCTTA
8126928 AACC-TA
1 AACCTTA
8126934 AA-CTCT-
1 AACCT-TA
8126940 AACAC-TA
1 AAC-CTTA
*
8126947 AACCCTAA
1 AA-CCTTA
8126955 AACCTTA
1 AACCTTA
8126962 AACC-TA
1 AACCTTA
8126968 AACCTTA
1 AACCTTA
* *
8126975 ACCCTAA
1 AACCTTA
8126982 AACC-TA
1 AACCTTA
* *
8126988 AGCCCT-
1 AACCTTA
*
8126994 AACCTAA
1 AACCTTA
*
8127001 AACCCTA
1 AACCTTA
*
8127008 AAACTATA
1 AACCT-TA
8127016 AACC-TA
1 AACCTTA
8127022 AACCTTA
1 AACCTTA
8127029 A
1 A
8127030 CCCTAAATCA
Statistics
Matches: 127, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
5 2 0.02
6 39 0.31
7 70 0.55
8 16 0.13
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
AACCTTA
Found at i:8127048 original size:27 final size:27
Alignment explanation
Indices: 8126947--8127050 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
8126937 TCTAACACTA
* *
8126947 AACCCTAAAACCTTAA-ACCTAAACCTT
1 AACCCTAAAA-CATAAGCCCTAAACCTT
* *
8126974 AACCCTAAAACCTAAGCCCT-AACCTAA
1 AACCCTAAAACATAAGCCCTAAACCT-T
*
8127001 AACCCTAAAACTATAA-ACCTAAACCTT
1 AACCCTAAAAC-ATAAGCCCTAAACCTT
*
8127028 AACCCTAAATCATAAGCCCTAAA
1 AACCCTAAAACATAAGCCCTAAA
8127051 AACCCAAACC
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 13 0.20
27 43 0.67
28 8 0.12
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (27 bp):
AACCCTAAAACATAAGCCCTAAACCTT
Found at i:8129080 original size:74 final size:73
Alignment explanation
Indices: 8128919--8129180 Score: 219
Period size: 74 Copynumber: 3.6 Consensus size: 73
8128909 ATTGAAAATG
* * * * * *
8128919 TGATGTTTCTAAGATAAAAACATAATCTTTGTTAAAAACATGAAAATAT-TAATTTTTCATAATT
1 TGATATTTCTAAAATAAAAACGTAATCTTTGTTGAAAACATGAAAAAATAT-ATTTTTCATATTT
*
8128983 CAACAAAAA
65 CAATAAAAA
** * * *
8128992 CAACATTT-TAAAAATAGAAAACGTGATCTTTGTTGAAAAGATGAAAAAATATAGTTTTT-ATAT
1 TGATATTTCT-AAAATA-AAAACGTAATCTTTGTTGAAAACATGAAAAAATATA-TTTTTCATAT
8129055 TTCAATAAAAA
63 TTCAATAAAAA
* * * * * * *
8129066 TGATATTTCTAAAATAAAAAAGTAGTTTTTGTAGAAATCATG-AAAATTATATTTTTCAGAATTT
1 TGATATTTCTAAAATAAAAACGTAATCTTTGTTGAAAACATGAAAAAATATATTTTTCA-TATTT
*
8129130 -AATAAAGA
65 CAATAAAAA
* ** * *
8129138 TGATGTTTCTATGATAAAAACGTAATTTTTGTTGAAAAAATGA
1 TGATATTTCTAAAATAAAAACGTAATCTTTGTTGAAAACATGA
8129181 CTTTTGTAAA
Statistics
Matches: 148, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
71 5 0.03
72 51 0.34
73 32 0.22
74 53 0.36
75 7 0.05
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (73 bp):
TGATATTTCTAAAATAAAAACGTAATCTTTGTTGAAAACATGAAAAAATATATTTTTCATATTTC
AATAAAAA
Found at i:8130092 original size:19 final size:19
Alignment explanation
Indices: 8130056--8130093 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8130046 TCAAATATAA
*
8130056 AAAAATAAAACTTCAATAT
1 AAAAATAAAAATTCAATAT
*
8130075 AAAAATAAAAATTTAATAT
1 AAAAATAAAAATTCAATAT
8130094 CCCAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATAAAAATTCAATAT
Found at i:8130449 original size:23 final size:23
Alignment explanation
Indices: 8130423--8130467 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8130413 CTATACCGGC
8130423 ACAATTTTAATACATGTATAGGG
1 ACAATTTTAATACATGTATAGGG
*
8130446 ACAATTTTAATATATGTATAGG
1 ACAATTTTAATACATGTATAGG
8130468 TATAGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
ACAATTTTAATACATGTATAGGG
Found at i:8134584 original size:27 final size:27
Alignment explanation
Indices: 8134549--8134604 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
8134539 CTGAAAACAC
* *
8134549 TATTCTATTTGAAGTGTGATAGAATAT
1 TATTCTATTTAAAGAGTGATAGAATAT
*
8134576 TATTCTATTTAAAGAGTGCTAGAATAT
1 TATTCTATTTAAAGAGTGATAGAATAT
8134603 TA
1 TA
8134605 CCGAGCCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (27 bp):
TATTCTATTTAAAGAGTGATAGAATAT
Found at i:8142943 original size:20 final size:20
Alignment explanation
Indices: 8142906--8142943 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8142896 TTTATTTAAT
*
8142906 ACTAAACTACATGAAAATTA
1 ACTAAACTAAATGAAAATTA
8142926 ACTAAA-TAAATGATAAAT
1 ACTAAACTAAATGA-AAAT
8142944 AAATTGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (20 bp):
ACTAAACTAAATGAAAATTA
Found at i:8145206 original size:19 final size:17
Alignment explanation
Indices: 8145184--8145226 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
8145174 TTTGGGCTTT
8145184 TTTTTTTAATTTCCTTAGA
1 TTTTTTTAATTT--TTAGA
* *
8145203 TTTTTTGAATTTTTGGA
1 TTTTTTTAATTTTTAGA
8145220 TTTTTTT
1 TTTTTTT
8145227 TCTTGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTTTTTAATTTTTAGA
Found at i:8145291 original size:46 final size:44
Alignment explanation
Indices: 8145238--8145325 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
8145228 CTTGAAAAAT
* * *
8145238 TCTTCTCATTAGAGGTTCCACAACTTTTAAAAATAAATCTAAAAGC
1 TCTTCTCATCAGAGATT-CACAACTTTT-AAAATAAATCGAAAAGC
* *
8145284 TCTTCTCATCATAGATTCATAACTTTTAAAATAAATCGAAAA
1 TCTTCTCATCAGAGATTCACAACTTTTAAAATAAATCGAAAA
8145326 CTCCCTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 14 0.38
45 9 0.24
46 14 0.38
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (44 bp):
TCTTCTCATCAGAGATTCACAACTTTTAAAATAAATCGAAAAGC
Found at i:8145895 original size:42 final size:42
Alignment explanation
Indices: 8145849--8145933 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
8145839 ATTTTAAAAA
*
8145849 TCTCATCTGAAAAAACTCCT-TCTAAATAGAGGTTAAACAACT
1 TCTCATATGAAAAAACTCCTCT-TAAATAGAGGTTAAACAACT
*
8145891 TCTCATATGAAAAAGCTCCTCTTAAATAGAGGTTAAACAACT
1 TCTCATATGAAAAAACTCCTCTTAAATAGAGGTTAAACAACT
8145933 T
1 T
8145934 TAAAAATCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (42 bp):
TCTCATATGAAAAAACTCCTCTTAAATAGAGGTTAAACAACT
Found at i:8147669 original size:27 final size:28
Alignment explanation
Indices: 8147639--8147709 Score: 65
Period size: 30 Copynumber: 2.4 Consensus size: 28
8147629 ATATTTGCTA
*
8147639 TTCTATTCTTTTATT-CCTTTT-TTTTTT
1 TTCT-TTCTTTTATTACCTTTTGTTTTTC
*
8147666 TTCTTTGCTTTTCTTTACCTTTTGTTTTTC
1 TTCTTT-CTTTT-ATTACCTTTTGTTTTTC
8147696 TTCTCTTCTCTTTA
1 TTCT-TTCT-TTTA
8147710 CTTTTCTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
26 2 0.06
27 9 0.26
28 2 0.06
29 6 0.17
30 11 0.31
31 5 0.14
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.72
Consensus pattern (28 bp):
TTCTTTCTTTTATTACCTTTTGTTTTTC
Found at i:8147710 original size:27 final size:26
Alignment explanation
Indices: 8147658--8147714 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
8147648 TTTATTCCTT
* *
8147658 TTTTTTTTTTCTTTGCTTTTCTTTACC
1 TTTTGTTTTTCTTTGCTTCTCTTTA-C
8147685 TTTTGTTTTTCTTCT-CTTCTCTTTAC
1 TTTTGTTTTTCTT-TGCTTCTCTTTAC
8147711 TTTT
1 TTTT
8147715 CTTTACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 5 0.19
27 21 0.78
28 1 0.04
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTTGTTTTTCTTTGCTTCTCTTTAC
Found at i:8153255 original size:22 final size:22
Alignment explanation
Indices: 8153224--8153265 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8153214 ATAAGAAAAT
*
8153224 TTTAAATTTTAATTTGATTTGA
1 TTTAAATTTTAATTTAATTTGA
* *
8153246 TTTAATTTTTATTTTAATTT
1 TTTAAATTTTAATTTAATTT
8153266 TACTTGTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTAAATTTTAATTTAATTTGA
Found at i:8154171 original size:17 final size:17
Alignment explanation
Indices: 8154151--8154227 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 17
8154141 ACAATTGATG
8154151 AAATTCTTGCGAACCTA
1 AAATTCTTGCGAACCTA
** *
8154168 AAATTCTTATGAA-CTT
1 AAATTCTTGCGAACCTA
* *
8154184 AAATCTCTTCCGAATCTA
1 AAAT-TCTTGCGAACCTA
8154202 AAATTCTT--G--CCTA
1 AAATTCTTGCGAACCTA
8154215 AAATTCTTGCGAA
1 AAATTCTTGCGAA
8154228 TCTTTCATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
13 11 0.23
15 2 0.04
16 6 0.13
17 22 0.47
18 6 0.13
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (17 bp):
AAATTCTTGCGAACCTA
Found at i:8154217 original size:13 final size:13
Alignment explanation
Indices: 8154199--8154224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8154189 TCTTCCGAAT
8154199 CTAAAATTCTTGC
1 CTAAAATTCTTGC
8154212 CTAAAATTCTTGC
1 CTAAAATTCTTGC
8154225 GAATCTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
CTAAAATTCTTGC
Found at i:8154502 original size:11 final size:12
Alignment explanation
Indices: 8154474--8154500 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8154464 AATCTTTGGA
8154474 TTTTAATTTTTT
1 TTTTAATTTTTT
8154486 TTTTAATTTTTT
1 TTTTAATTTTTT
8154498 TTT
1 TTT
8154501 AACCCGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTAATTTTTT
Found at i:8155232 original size:24 final size:23
Alignment explanation
Indices: 8155204--8155258 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
8155194 CTTTTTTGGA
8155204 TTTTTATGAAAAAAAAAACTAGG
1 TTTTTATGAAAAAAAAAACTAGG
* * *
8155227 TATTTTTTAAAAAAAAAAACTTGG
1 T-TTTTATGAAAAAAAAAACTAGG
8155251 TTTTTATG
1 TTTTTATG
8155259 GGTTTAGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (23 bp):
TTTTTATGAAAAAAAAAACTAGG
Found at i:8157054 original size:15 final size:14
Alignment explanation
Indices: 8157034--8157067 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8157024 AATATATAAT
8157034 ATTTTCAACCCCTTC
1 ATTTTC-ACCCCTTC
*
8157049 ATTTTCATCCCTTC
1 ATTTTCACCCCTTC
8157063 ATTTT
1 ATTTT
8157068 GTCTCACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTCACCCCTTC
Found at i:8158865 original size:70 final size:71
Alignment explanation
Indices: 8158734--8158888 Score: 170
Period size: 70 Copynumber: 2.2 Consensus size: 71
8158724 TGCAAGCCAG
* * * * ** *
8158734 GAAATAAATAATGATCGAGATTGAACCGTGAATCAAGAAATTACGATAACTGGGACAAAACTACA
1 GAAATAAAGAATGATCGAGATGGAACCATGAATCAAAAAACAAAGATAACTGGGACAAAACTACA
8158799 AATCAA
66 AATCAA
* * ** *
8158805 GAAATAAA-AATGATCGAGATGGGACCATGAGTCAAAAAACAAAGATAACTGGGATTAAACTATA
1 GAAATAAAGAATGATCGAGATGGAACCATGAATCAAAAAACAAAGATAACTGGGACAAAACTACA
* *
8158869 AGTCAT
66 AATCAA
8158875 GAAA-AAAGAATGAT
1 GAAATAAAGAATGAT
8158889 AGGGCCGAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
69 3 0.04
70 59 0.84
71 8 0.11
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (71 bp):
GAAATAAAGAATGATCGAGATGGAACCATGAATCAAAAAACAAAGATAACTGGGACAAAACTACA
AATCAA
Found at i:8159034 original size:24 final size:24
Alignment explanation
Indices: 8159006--8159064 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
8158996 ACTTGGGTTA
*
8159006 TCACCATCAAAGAAAACTC-GAATG
1 TCACCACCAAAGAAAACTCAG-ATG
*
8159030 TCACCACCGAAGAAAACTCAGATG
1 TCACCACCAAAGAAAACTCAGATG
8159054 TCACCACCAAA
1 TCACCACCAAA
8159065 TGGATGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.14
Consensus pattern (24 bp):
TCACCACCAAAGAAAACTCAGATG
Found at i:8159140 original size:30 final size:30
Alignment explanation
Indices: 8159106--8159168 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
8159096 CCCACCAAGG
8159106 AAATGTAAATGACT-TCAGATATCACAATCA
1 AAATGTAAATGA-TGTCAGATATCACAATCA
*
8159136 AAATGTAAATGATGTCAGATATCACCATCA
1 AAATGTAAATGATGTCAGATATCACAATCA
8159166 AAA
1 AAA
8159169 AAACATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (30 bp):
AAATGTAAATGATGTCAGATATCACAATCA
Found at i:8159565 original size:61 final size:60
Alignment explanation
Indices: 8159488--8159977 Score: 236
Period size: 61 Copynumber: 7.9 Consensus size: 60
8159478 TTTTTCATTT
* * * *
8159488 CCAACTAAACTGGGCTTAAAACTTAGGTACCAGCTAAATTGAGCTTAAATTTTCATGGGTG
1 CCAACTAAACTAGGCTTAAAACTTAGGTGCCAGCTAAACT-AGCTTAAATTTTCATAGGTG
* ** ** * *
8159549 ACAACTAAACTAGGCTTAAATTTGTATAAATGCCAACTAAACTGTGCTTAAATTTTCATAGGTG
1 CCAACTAAACTAGGCTTAAA--ACT-TAGGTGCCAGCTAAACT-AGCTTAAATTTTCATAGGTG
* * * * * * * * *
8159613 TCAGCTAAGCTAAGTTTAAAATTTCACAGGTGCTAGCTAAACTAGACTTAAA-TTTCA-CGCATG
1 CCAACTAAACTAGGCTTAAAACTT---AGGTGCCAGCTAAACTAG-CTTAAATTTTCATAG-GTG
** * * * ** * * * * ** ***
8159676 CCAGTTAAATTAAGCATAAATTTTGGGTACCAACTAAATTAGGCTTAAATTTTTTTCTTTG
1 CCAACTAAACTAGGCTTAAAACTTAGGTGCCAGCTAAACTA-GCTTAAATTTTCATAGGTG
* * * * ** *
8159737 CCAACTAAACTAGGCTTAAAACTTAAGTGCCAACTAAATTGGACTTACGTTTTAATAGGTG
1 CCAACTAAACTAGGCTTAAAACTTAGGTGCCAGCTAAACTAG-CTTAAATTTTCATAGGTG
* * * *
8159798 CCAACTAAACTGGGCTTAAAACTTCA-ATGCCAGCTAAACTAGCTTAAATTTTAATAAGTG
1 CCAACTAAACTAGGCTTAAAACTT-AGGTGCCAGCTAAACTAGCTTAAATTTTCATAGGTG
* * * * * * *
8159858 TCAGCTAAACTAGG-TTCAAATTTTCCTT-GGATGCCAGTTAAACTGGGCTTAAGTTTTCAT-GA
1 CCAACTAAACTAGGCTT-AAA----ACTTAGG-TGCCAGCTAAACT-AGCTTAAATTTTCATAGG
8159920 TG
59 TG
* * *
8159922 CCAACTAAACTAGGCTTAAAACTTGGGTGCTAGCTAAATTAGGCTTAAATTTTCAT
1 CCAACTAAACTAGGCTTAAAACTTAGGTGCCAGCTAAACTA-GCTTAAATTTTCAT
8159978 GATGATTGGC
Statistics
Matches: 319, Mismatches: 86, Indels: 49
0.70 0.19 0.11
Matches are distributed among these distances:
59 2 0.01
60 74 0.23
61 103 0.32
62 4 0.01
63 26 0.08
64 96 0.30
65 14 0.04
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (60 bp):
CCAACTAAACTAGGCTTAAAACTTAGGTGCCAGCTAAACTAGCTTAAATTTTCATAGGTG
Found at i:8159931 original size:31 final size:31
Alignment explanation
Indices: 8159488--8159941 Score: 122
Period size: 32 Copynumber: 14.6 Consensus size: 31
8159478 TTTTTCATTT
** * *
8159488 CCAACTAAACTGGGCTTAAAACTT-A-GGTA
1 CCAACTAAACTGGGCTTAAATTTTCATGATG
* * * *
8159517 CCAGCTAAATTGAGCTTAAATTTTCATGGGTG
1 CCAACTAAACTGGGCTTAAATTTTCAT-GATG
* * *
8159549 ACAACTAAACTAGGCTTAAATTTGT-ATAAATG
1 CCAACTAAACTGGGCTTAAATTT-TCAT-GATG
* *
8159581 CCAACTAAACTGTGCTTAAATTTTCATAGGTG
1 CCAACTAAACTGGGCTTAAATTTTCAT-GATG
* * * ** * * * *
8159613 TCAGCTAAGCTAAGTTTAAAATTTCACAGGTG
1 CCAACTAAACTGGGCTTAAATTTTCA-TGATG
* * * * *
8159645 CTAGCTAAACTAGACTTAAA-TTTCACGCATG
1 CCAACTAAACTGGGCTTAAATTTTCATG-ATG
** * ** * * * *
8159676 CCAGTTAAATTAAGCATAAATTTT--GGGTA
1 CCAACTAAACTGGGCTTAAATTTTCATGATG
* * ** **
8159705 CCAACTAAATTAGGCTTAAATTTTTTTCTTTG
1 CCAACTAAACTGGGCTTAAATTTTCAT-GATG
* ** *
8159737 CCAACTAAACTAGGCTTAAAACTT-AAG-TG
1 CCAACTAAACTGGGCTTAAATTTTCATGATG
* * ** * *
8159766 CCAACTAAATTGGACTTACGTTTTAATAGGTG
1 CCAACTAAACTGGGCTTAAATTTTCAT-GATG
**
8159798 CCAACTAAACTGGGCTTAAAACTTCA--ATG
1 CCAACTAAACTGGGCTTAAATTTTCATGATG
* * * *
8159827 CCAGCTAAACT-AGCTTAAATTTTAATAAGTG
1 CCAACTAAACTGGGCTTAAATTTTCATGA-TG
* * * *
8159858 TCAGCTAAACTAGG-TTCAAATTTTCCTTGGATG
1 CCAACTAAACTGGGCTT-AAATTTT-CAT-GATG
** *
8159891 CCAGTTAAACTGGGCTTAAGTTTTCATGATG
1 CCAACTAAACTGGGCTTAAATTTTCATGATG
*
8159922 CCAACTAAACTAGGCTTAAA
1 CCAACTAAACTGGGCTTAAA
8159942 ACTTGGGTGC
Statistics
Matches: 310, Mismatches: 93, Indels: 42
0.70 0.21 0.09
Matches are distributed among these distances:
28 10 0.03
29 71 0.23
30 5 0.02
31 57 0.18
32 143 0.46
33 21 0.07
34 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (31 bp):
CCAACTAAACTGGGCTTAAATTTTCATGATG
Found at i:8159967 original size:60 final size:60
Alignment explanation
Indices: 8159735--8159981 Score: 196
Period size: 60 Copynumber: 4.0 Consensus size: 60
8159725 TTTTTTTCTT
* * ** *
8159735 TGCCAACTAAACTAGGCTTAAAACTT-AAGTGCCAACTAAA-TTGGACTTACGTTTTAATAGG
1 TGCCAACTAAACTAGGCTTAAAACTTGAA-TGCCAGCTAAACTAGG-CTTAAATTTTAAT-GA
* * *
8159796 TGCCAACTAAACTGGGCTTAAAACTTCAATGCCAGCTAAACTA-GCTTAAATTTTAATAA
1 TGCCAACTAAACTAGGCTTAAAACTTGAATGCCAGCTAAACTAGGCTTAAATTTTAATGA
* * * * * * * *
8159855 GTGTCAGCTAAACTAGG-TTCAAATTTTCCTTGGATGCCAGTTAAACTGGGCTTAAGTTTTCATG
1 -TGCCAACTAAACTAGGCTT-AAA----ACTTGAATGCCAGCTAAACTAGGCTTAAATTTTAATG
8159919 A
60 A
** * * *
8159920 TGCCAACTAAACTAGGCTTAAAACTTGGGTGCTAGCTAAATTAGGCTTAAATTTTCATGA
1 TGCCAACTAAACTAGGCTTAAAACTTGAATGCCAGCTAAACTAGGCTTAAATTTTAATGA
8159980 TG
1 TG
8159982 ATTGGCATCC
Statistics
Matches: 149, Mismatches: 27, Indels: 21
0.76 0.14 0.11
Matches are distributed among these distances:
59 2 0.01
60 60 0.40
61 36 0.24
62 3 0.02
64 33 0.22
65 15 0.10
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (60 bp):
TGCCAACTAAACTAGGCTTAAAACTTGAATGCCAGCTAAACTAGGCTTAAATTTTAATGA
Found at i:8160876 original size:24 final size:23
Alignment explanation
Indices: 8160836--8160890 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
8160826 TTGTTTTCTT
8160836 TTCTTT-TT-TTTCCTTCTTTTA
1 TTCTTTCTTCTTTCCTTCTTTTA
* *
8160857 TTTTGTTCTTCTTTCTTTCTTTTA
1 TTCT-TTCTTCTTTCCTTCTTTTA
8160881 TTCTTTCTTC
1 TTCTTTCTTC
8160891 CACTTTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 8 0.29
24 15 0.54
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (23 bp):
TTCTTTCTTCTTTCCTTCTTTTA
Found at i:8160884 original size:19 final size:19
Alignment explanation
Indices: 8160830--8160885 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8160820 GTAATGTTGT
8160830 TTTCTTTTCTTTTTT-TTC
1 TTTCTTTTCTTTTTTCTTC
* *
8160848 CTTCTTTTATTTTGTTCTTC
1 TTTCTTTTCTTTT-TTCTTC
8160868 TTTC-TTTCTTTTATTCTT
1 TTTCTTTTCTTTT-TTCTT
8160886 TCTTCCACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 11 0.35
19 14 0.45
20 6 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTCTTTTCTTTTTTCTTC
Found at i:8160922 original size:23 final size:22
Alignment explanation
Indices: 8160896--8160943 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
8160886 TCTTCCACTT
8160896 TTTACTTTTT-TTTTCTCTTTTTC
1 TTTACTTTTTCTTTTC-C-TTTTC
8160919 TTTACTTTTTCTTTTCCTTTTC
1 TTTACTTTTTCTTTTCCTTTTC
8160941 TTT
1 TTT
8160944 TGAGTAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
23 11 0.46
24 5 0.21
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTACTTTTTCTTTTCCTTTTC
Found at i:8160933 original size:17 final size:18
Alignment explanation
Indices: 8160906--8160944 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8160896 TTTACTTTTT
*
8160906 TTTTCTCTTTTTCTTTAC
1 TTTTCTCTTTTCCTTTAC
*
8160924 TTTT-TCTTTTCCTTTTC
1 TTTTCTCTTTTCCTTTAC
8160941 TTTT
1 TTTT
8160945 GAGTAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTCTTTTCCTTTAC
Found at i:8166729 original size:12 final size:13
Alignment explanation
Indices: 8166707--8166738 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8166697 GATTTCATTT
8166707 TTATT-TTTATTC
1 TTATTATTTATTC
8166719 TT-TTATTTATTC
1 TTATTATTTATTC
8166731 TTATTATT
1 TTATTATT
8166739 GTTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 11 0.61
13 5 0.28
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTATTTATTC
Found at i:8167064 original size:17 final size:16
Alignment explanation
Indices: 8167042--8167078 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
8167032 CTTCTAAAAA
8167042 TTATATTTTTTATATTT
1 TTATATTTTTTAT-TTT
*
8167059 TTATATTTTTTCTTTT
1 TTATATTTTTTATTTT
8167075 TTAT
1 TTAT
8167079 TAAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATATTTTTTATTTT
Found at i:8169491 original size:46 final size:46
Alignment explanation
Indices: 8169439--8169558 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
8169429 TCGAGATTTG
*
8169439 AAAACTTAGAATAT-GAACACTCGGATATCACCA-CCAAGAAATTTTA
1 AAAACTTAGAAT-TCGAACATTCGGATATCACCATCCAA-AAATTTTA
* *
8169485 AAAACTTA-AAGTTCGAACATTCAGATATCACCATCGAAAAATTTTA
1 AAAACTTAGAA-TTCGAACATTCGGATATCACCATCCAAAAATTTTA
* *
8169531 AAACCTTAGAGTTCGAACATTCGGATAT
1 AAAACTTAGAATTCGAACATTCGGATAT
8169559 TACAACTGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 3 0.05
46 57 0.89
47 4 0.06
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (46 bp):
AAAACTTAGAATTCGAACATTCGGATATCACCATCCAAAAATTTTA
Found at i:8170579 original size:16 final size:14
Alignment explanation
Indices: 8170548--8170575 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8170538 CCTAAAAACA
8170548 TTTTTTTCCTTTCT
1 TTTTTTTCCTTTCT
8170562 TTTTTTTCCTTTCT
1 TTTTTTTCCTTTCT
8170576 CTTTCCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTCCTTTCT
Found at i:8170687 original size:22 final size:23
Alignment explanation
Indices: 8170659--8170702 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8170649 TCACAATTCA
*
8170659 ATGATTTTATT-TTATACCAAAC
1 ATGATTTCATTATTATACCAAAC
*
8170681 ATGATTTCATTATTTTACCAAA
1 ATGATTTCATTATTATACCAAA
8170703 ATGTGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (23 bp):
ATGATTTCATTATTATACCAAAC
Found at i:8171798 original size:23 final size:24
Alignment explanation
Indices: 8171768--8171817 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8171758 TTTTTCCTTA
8171768 TTTCCTTTTT-TTTTCATTTATTT
1 TTTCCTTTTTCTTTTCATTTATTT
* *
8171791 TTTCCTTTTTCTTTTCCTTTCTTT
1 TTTCCTTTTTCTTTTCATTTATTT
8171815 TTT
1 TTT
8171818 TGAGTGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCCTTTTTCTTTTCATTTATTT
Found at i:8171818 original size:40 final size:40
Alignment explanation
Indices: 8171687--8171801 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 40
8171677 ATTCATTTTT
* * **
8171687 TTTCATTTCTTTTTCTTTC-TTTCTTTTCTTTTGTTCTCCTT-
1 TTTCATTTTTTTTTCTTTCATTT-TCTTCCATT-TT-TCCTTA
8171728 TTTCATTTTTTTTTCTTTCATTTTCTTCCATTTTTCCTTA
1 TTTCATTTTTTTTTCTTTCATTTTCTTCCATTTTTCCTTA
*
8171768 TTTCCTTTTTTTTTCATTT-ATTTT-TTCC-TTTTTC
1 TTTCATTTTTTTTTC-TTTCATTTTCTTCCATTTTTC
8171802 TTTTCCTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
38 6 0.09
39 9 0.14
40 21 0.32
41 27 0.41
42 3 0.05
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (40 bp):
TTTCATTTTTTTTTCTTTCATTTTCTTCCATTTTTCCTTA
Found at i:8177429 original size:19 final size:19
Alignment explanation
Indices: 8177407--8177476 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
8177397 CATAAATGAA
8177407 AACCCAAACCCTATATGTG
1 AACCCAAACCCTATATGTG
*
8177426 AACCCTAAACCCTATATGTA
1 AACCC-AAACCCTATATGTG
** * *
8177446 AACTTAAACCCTAAATTTG
1 AACCCAAACCCTATATGTG
*
8177465 -ATCCAAACCCTA
1 AACCCAAACCCTA
8177477 AATCCACCTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 9 0.22
19 16 0.39
20 16 0.39
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.24
Consensus pattern (19 bp):
AACCCAAACCCTATATGTG
Found at i:8182142 original size:24 final size:24
Alignment explanation
Indices: 8182115--8182162 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
8182105 AATTTTTAAT
*
8182115 TATTTATTAATATTTATTTACAAA
1 TATTTATAAATATTTATTTACAAA
*
8182139 TATTTGTAAATATTTATTTACAAA
1 TATTTATAAATATTTATTTACAAA
8182163 AGTACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTATAAATATTTATTTACAAA
Found at i:8188062 original size:52 final size:52
Alignment explanation
Indices: 8188006--8188107 Score: 123
Period size: 52 Copynumber: 2.0 Consensus size: 52
8187996 ATACAAAACC
* * *
8188006 ATTCAGCAAAACAATATCAAACAATAAGGTTCAGCAAACTATTTAGCATATG
1 ATTCAGCAAAACAATATCAAACAACAAGGTTCAGCAAACCATTCAGCATATG
**** * *
8188058 ATTCAGCCCCCCAATATCATACAACAAGGTTTAGCAAACCATTCAGCATA
1 ATTCAGCAAAACAATATCAAACAACAAGGTTCAGCAAACCATTCAGCATA
8188108 CAATTCAGGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (52 bp):
ATTCAGCAAAACAATATCAAACAACAAGGTTCAGCAAACCATTCAGCATATG
Found at i:8188095 original size:80 final size:80
Alignment explanation
Indices: 8187875--8188081 Score: 315
Period size: 80 Copynumber: 2.6 Consensus size: 80
8187865 AGAAACACCA
* * * * *
8187875 TTCAGTAAACCATTTAGCATACGATTCAGCCCCTCAATATCGTACAAAATCATTCAGCAAAACAA
1 TTCAGCAAACCATTTAGCATATGATTCAGCCCCCCAATATCATACAAAACCATTCAGCAAAACAA
* *
8187940 TATCAGATAACAAGG
66 TATCAAACAACAAGG
* *
8187955 TTTAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAAAACCATTCAGCAAAACAA
1 TTCAGCAAACCATTTAGCATATGATTCAGCCCCCCAATATCATACAAAACCATTCAGCAAAACAA
*
8188020 TATCAAACAATAAGG
66 TATCAAACAACAAGG
*
8188035 TTCAGCAAACTATTTAGCATATGATTCAGCCCCCCAATATCATACAA
1 TTCAGCAAACCATTTAGCATATGATTCAGCCCCCCAATATCATACAA
8188082 CAAGGTTTAG
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 114 1.00
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.24
Consensus pattern (80 bp):
TTCAGCAAACCATTTAGCATATGATTCAGCCCCCCAATATCATACAAAACCATTCAGCAAAACAA
TATCAAACAACAAGG
Found at i:8188114 original size:52 final size:52
Alignment explanation
Indices: 8188017--8188133 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
8188007 TTCAGCAAAA
* * * * **
8188017 CAATATCAAACAATAAGGTTCAGCAAACTATTTAGCATATGATTCAGCCCCC
1 CAATATCATACAACAAGGTTCAGCAAACCATTCAGCATACAATTCAGCCCCC
* *
8188069 CAATATCATACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGGCCCC
1 CAATATCATACAACAAGGTTCAGCAAACCATTCAGCATACAATTCAGCCCCC
*
8188121 TAATATCATACAA
1 CAATATCATACAA
8188134 TACCATTCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (52 bp):
CAATATCATACAACAAGGTTCAGCAAACCATTCAGCATACAATTCAGCCCCC
Found at i:8188114 original size:132 final size:131
Alignment explanation
Indices: 8187937--8188175 Score: 370
Period size: 132 Copynumber: 1.8 Consensus size: 131
8187927 TTCAGCAAAA
* **
8187937 CAATATCAGATAACAAGGTTTAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAA
1 CAATATCAGACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGCCCCCCAATATCATACAA
* *
8188002 AACCATTCAGCAAAACAATATCAAACAATAAGGTTCAGCAAACTATTTAGCATATGATTCAGCCC
66 AACCATTCAGCAAAA-AAAATCAAACAACAAGGTTCAGCAAACTATTTAGCATATGATTCAGCCC
8188067 CC
130 CC
* * *
8188069 CAATATCATACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGGCCCCTAATATCATACAA
1 CAATATCAGACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGCCCCCCAATATCATACAA
* * *
8188134 TACCATTCAGCAAAAAAAATCAGACAACAAGGTTTAGCAAAC
66 AACCATTCAGCAAAAAAAATCAAACAACAAGGTTCAGCAAAC
8188176 CACAATATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 23 0.24
132 73 0.76
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (131 bp):
CAATATCAGACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGCCCCCCAATATCATACAA
AACCATTCAGCAAAAAAAATCAAACAACAAGGTTCAGCAAACTATTTAGCATATGATTCAGCCCC
C
Found at i:8188146 original size:52 final size:52
Alignment explanation
Indices: 8188017--8188147 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 52
8188007 TTCAGCAAAA
* * ** * * **
8188017 CAATATCAAACAATAAGGTTCAGCAAACTATTTAGCATATGATTCAGCCCCC
1 CAATATCATACAACAACATTCAGCAAACCATTCAGCATACAATTCAGCCCCC
** * *
8188069 CAATATCATACAACAAGGTTTAGCAAACCATTCAGCATACAATTCAGGCCCC
1 CAATATCATACAACAACATTCAGCAAACCATTCAGCATACAATTCAGCCCCC
* * *
8188121 TAATATCATACAATACCATTCAGCAAA
1 CAATATCATACAACAACATTCAGCAAA
8188148 AAAAATCAGA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (52 bp):
CAATATCATACAACAACATTCAGCAAACCATTCAGCATACAATTCAGCCCCC
Found at i:8198208 original size:135 final size:134
Alignment explanation
Indices: 8198026--8198386 Score: 436
Period size: 135 Copynumber: 2.7 Consensus size: 134
8198016 AGTAAATGGC
* * *
8198026 TTTTTTTTATACAAATGCTACCAAAGCAACGGCGTTTTTCTCATAAAAATGTCACTAAATTAGCG
1 TTTTTATT-TACAAATGCCACCAAAACAACGGCGTTTTTCTCATAAAAATGTCACTAAATTAGCG
* *
8198091 GCGTCTCAAAGATACAAACGCCGCTAATATAAAGGCATTTTCAGATACAAACGCCTCTAAAGTAG
65 GCGTCTCAAAGATACAAACGCCACTAATATAAAGGCATTTTCAGATACAAACGCCTATAAAGTAG
8198156 CAGCA
130 CAGCA
* *
8198161 TTTTTATTTACAAATGCCACCAAAACAAACGGCGTTTTCCTCATAAAAACGTCACTAAATTAGCG
1 TTTTTATTTACAAATGCCACCAAAAC-AACGGCGTTTTTCTCATAAAAATGTCACTAAATTAGCG
* * * * * *
8198226 ACGTCTCAAAGATACAAACGCTACTAATATAGAGGTATTTTCATATACAAATGCCTATAAAGTAG
65 GCGTCTCAAAGATACAAACGCCACTAATATAAAGGCATTTTCAGATACAAACGCCTATAAAGTAG
*
8198291 CGGCA
130 CAGCA
* * * * ** ** * *
8198296 TTTTTAGTTATAAACGCGACCAAAGTAACGATGTTTTTCTCATAAAAATG-CAACTAATTTAGCA
1 TTTTTATTTACAAATGCCACCAAAACAACGGCGTTTTTCTCATAAAAATGTC-ACTAAATTAGCG
* * * *
8198360 GCGTTTCAAATATAGAAACGTCACTAA
65 GCGTCTCAAAGATACAAACGCCACTAA
8198387 GATGGCGGTA
Statistics
Matches: 192, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
133 1 0.01
134 67 0.35
135 124 0.65
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (134 bp):
TTTTTATTTACAAATGCCACCAAAACAACGGCGTTTTTCTCATAAAAATGTCACTAAATTAGCGG
CGTCTCAAAGATACAAACGCCACTAATATAAAGGCATTTTCAGATACAAACGCCTATAAAGTAGC
AGCA
Found at i:8200498 original size:2 final size:2
Alignment explanation
Indices: 8200491--8200531 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8200481 GCGCGGAAGT
8200491 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8200532 CTGTTATCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8208372 original size:18 final size:18
Alignment explanation
Indices: 8208349--8208385 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8208339 GGTACGTGCC
8208349 TTAGGTAAGGTCTCTAGT
1 TTAGGTAAGGTCTCTAGT
8208367 TTAGGTAAGGTCTCTAGT
1 TTAGGTAAGGTCTCTAGT
8208385 T
1 T
8208386 CTCATGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (18 bp):
TTAGGTAAGGTCTCTAGT
Found at i:8211775 original size:30 final size:30
Alignment explanation
Indices: 8211728--8211798 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
8211718 TGGGAAAATA
8211728 CCTAGAATTAAGTTGGTTGTAATCTATATC
1 CCTAGAATTAAGTTGGTTGTAATCTATATC
* *
8211758 CCTAAAATTAA-TCTGGTTGTAATCTGTATC
1 CCTAGAATTAAGT-TGGTTGTAATCTATATC
8211788 CCTAGAATTAA
1 CCTAGAATTAA
8211799 AGACTGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (30 bp):
CCTAGAATTAAGTTGGTTGTAATCTATATC
Done.