Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 3 of 199
Found at i:835255 original size:29 final size:30
Alignment explanation
Indices: 835185--835256 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
835175 AATAAGGCTT
*
835185 ATAGGTCGATTTTAAAATTTATTTAGGCAT
1 ATAGGTCGATTTTAAAATTTATTTAGGCAA
* * *
835215 TTAGG-CTAATTTTAAAA-TTATTTAGGGAA
1 ATAGGTC-GATTTTAAAATTTATTTAGGCAA
835244 ATAGGTCGATTTT
1 ATAGGTCGATTTT
835257 GAGGAAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (30 bp):
ATAGGTCGATTTTAAAATTTATTTAGGCAA
Found at i:847721 original size:31 final size:31
Alignment explanation
Indices: 847686--847751 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
847676 ACAAATGATC
* * *
847686 CACTAAACTATTTCA-AATTTTTCATTTAAGT
1 CACTAAACT-GTTCATAAGTTTTAATTTAAGT
847717 CACTAAACTGTTCATAAGTTTTAATTTAAGT
1 CACTAAACTGTTCATAAGTTTTAATTTAAGT
847748 CACT
1 CACT
847752 GAGCCACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (31 bp):
CACTAAACTGTTCATAAGTTTTAATTTAAGT
Found at i:858030 original size:4 final size:4
Alignment explanation
Indices: 858021--858046 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
858011 TGAAAGGAGG
858021 GAAT GAAT GAAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GA
858047 GGAACAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:863484 original size:42 final size:42
Alignment explanation
Indices: 863437--863535 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
863427 TATACGAACA
* * *
863437 GCACTAAGTGCGCGAAACTAAAATGACAATGTTGAATAACGG
1 GCACTAAGTGTGCGAAACAAAAATGACAATGTCGAATAACGG
*
863479 GCACTAAGTGTGCGAAACAAAAATGACGATGTCGAATAACGG
1 GCACTAAGTGTGCGAAACAAAAATGACAATGTCGAATAACGG
863521 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
863536 TATCAATATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.18
Consensus pattern (42 bp):
GCACTAAGTGTGCGAAACAAAAATGACAATGTCGAATAACGG
Found at i:864067 original size:15 final size:15
Alignment explanation
Indices: 864047--864154 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
864037 TTTATGGAAA
864047 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
864062 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
864076 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
864092 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
864106 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
864122 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
864136 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
864152 ATC
1 ATC
864155 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:864076 original size:30 final size:30
Alignment explanation
Indices: 864040--864154 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
864030 ATCCATATTT
*
864040 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
864070 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
864100 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
864130 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
864155 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:868757 original size:15 final size:15
Alignment explanation
Indices: 868737--868844 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
868727 TTTATGGAAA
868737 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
868752 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
868766 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
868782 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
868796 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
868812 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
868826 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
868842 ATC
1 ATC
868845 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:868766 original size:30 final size:30
Alignment explanation
Indices: 868730--868844 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
868720 ATCCATATTT
*
868730 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
868760 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
868790 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
868820 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
868845 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:873554 original size:16 final size:16
Alignment explanation
Indices: 873533--873568 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
873523 ATATCGACTC
873533 AAAAAAGAA-AAAAGA
1 AAAAAAGAAGAAAAGA
873548 GAAAAAAGAAGAAAAGA
1 -AAAAAAGAAGAAAAGA
873565 AAAA
1 AAAA
873569 CCCTTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAAAGA
Found at i:884149 original size:27 final size:26
Alignment explanation
Indices: 884119--884180 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
884109 ATATATATTT
*
884119 AATATATA-ATTCGAATTAAAAGTCTAA
1 AATATATATATTCG-ATTAAAAAT-TAA
*
884146 AATATATATATTTGATTAAAAATTAA
1 AATATATATATTCGATTAAAAATTAA
884172 AATATATAT
1 AATATATAT
884181 TTAATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 12 0.38
27 16 0.50
28 4 0.12
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (26 bp):
AATATATATATTCGATTAAAAATTAA
Found at i:885403 original size:3 final size:3
Alignment explanation
Indices: 885395--885425 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
885385 TTAAGGGTTC
885395 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
885426 TGCATTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:896100 original size:20 final size:20
Alignment explanation
Indices: 896075--896112 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
896065 ATTTAACCAA
896075 AAAATT-AAGTATGAAAAAAC
1 AAAATTCAAG-ATGAAAAAAC
896095 AAAATTCAAGATGAAAAA
1 AAAATTCAAGATGAAAAA
896113 TATAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATTCAAGATGAAAAAAC
Found at i:916753 original size:72 final size:72
Alignment explanation
Indices: 916651--916798 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 72
916641 CAATTTCTTC
* * * *
916651 CAAATTTGACATACTCCCCATCCACCTTGGTATGTCCCCAGAAAGCTCGTTATTGCTTAAATCCA
1 CAAACTTGACATACTCCCCATCCACATTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
916716 ATGTTGA
66 ATGTTGA
* *
916723 CAAACTTGACATATTCTCCATCCACATTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
1 CAAACTTGACATACTCCCCATCCACATTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
916788 ATGTTGA
66 ATGTTGA
916795 CAAA
1 CAAA
916799 AAGGAGCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (72 bp):
CAAACTTGACATACTCCCCATCCACATTGGTATCTCCCCAGAAAGCACGTTATTGCTTAAATCCA
ATGTTGA
Found at i:921198 original size:514 final size:515
Alignment explanation
Indices: 920561--921592 Score: 1960
Period size: 514 Copynumber: 2.0 Consensus size: 515
920551 TATTTTAATT
920561 ATATTCAACAGTTTTGTATAAGAAATATTATTTTACAATAATTAAAAATATAATATTAAAAAAAT
1 ATATTCAACAGTTTTGTATAAGAAATATTATTTTACAATAATTAAAAATATAATATTAAAAAAAT
*
920626 TAACTAAAAATTAAATATCTAAAATCACATTCAACATATGTGCCATTAGAAACCAGTATTTATGC
66 AAACTAAAAATTAAATATCTAAAATCACATTCAACATATGTGCCATTAGAAACCAGTATTTATGC
* * * *
920691 AAATTAATCTTAAGCATTAAGATAGGTAAAAAAAATAGTAACTTACTGATTTGGGAATGGGAGTC
131 AAATTAATATTAAGAATTAAGATACGTAAAAAAAATAGTAACTTACTGATTTGGGAATGAGAGTC
920756 AATTAAATTAACTCCGTC-CAAGAAAAGAGTCTTCAATGATGAGAATAAATCCAATGATTGTAGT
196 AATTAAATTAACTCC-TCTCAAGAAAAGAGTCTTCAATGATGAGAATAAATCCAATGATTGTAGT
920820 TGAAGATTGCAACCTGAGCCTATCAAATAGTATATTTATATTTACTTTATTTCTTTGGAATATAT
260 TGAAGATTGCAACCTGAGCCTATCAAATAGTATATTTATATTTACTTTATTTCTTTGGAATATAT
920885 CAAATTAATCAAACTAACAAGTAATTAGTACATTTAAATTAAATTTGGAATTAGTACCAATATTT
325 CAAATTAATCAAACTAACAAGTAATTAGTACATTTAAATTAAATTTGGAATTAGTACCAATATTT
*
920950 GAATCGCAGCTCATATGGAGGTCCTCCAAATTGCTCAAGCCATCTAATTCTGAGGAGAATCAAAA
390 GAATCGCAGCTCATATCGAGGTCCTCCAAATTGCTCAAGCCATCTAATTCTGAGGAGAATCAAAA
921015 ATTGAAAAGTAAATACTTTATTAATATATGTAGACGTCATTGAATAAGGAGAAAGAGGATG
455 ATTGAAAAGTAAATACTTTATTAATATATGTAGACGTCATTGAATAAGGAGAAAGAGGATG
921076 ATATTCAACAGTTTTGTATAAGAAATATTATTTTACAATAATTAAAAATATAATATTAAAAAAA-
1 ATATTCAACAGTTTTGTATAAGAAATATTATTTTACAATAATTAAAAATATAATATTAAAAAAAT
* *
921140 AAACTAAAAATTAAATGTCTAAAATCACATTCAACATATGTGCCATTAGAAACCAGTATTTATGT
66 AAACTAAAAATTAAATATCTAAAATCACATTCAACATATGTGCCATTAGAAACCAGTATTTATGC
921205 AAATTAATATTAAGAATTAAGATACGTAAAAAAAATAGTAACTTACTGATTTGGGAATGAGAGTC
131 AAATTAATATTAAGAATTAAGATACGTAAAAAAAATAGTAACTTACTGATTTGGGAATGAGAGTC
*
921270 AATTAAATTAACTCCTCTCAAGAAAAGAGTCTTCAATGATGAGAATAAATCTAATGATTGTAGTT
196 AATTAAATTAACTCCTCTCAAGAAAAGAGTCTTCAATGATGAGAATAAATCCAATGATTGTAGTT
921335 GAAGATTGCAACCTGAGCCTATCAAATAGTATATTTATATTTACTTTATTTCTTTGGAATATATC
261 GAAGATTGCAACCTGAGCCTATCAAATAGTATATTTATATTTACTTTATTTCTTTGGAATATATC
921400 AAATTAATCAAACTAACAAGTAATTAGTACATTTAAATTAAATTTGGAATTAGTACCAATATTTG
326 AAATTAATCAAACTAACAAGTAATTAGTACATTTAAATTAAATTTGGAATTAGTACCAATATTTG
921465 AATCGCAGCTCATATCGAGGTCCTCCAAATTGCTCAAGCCATCTAATTCTGAGGAGAATCAAAAA
391 AATCGCAGCTCATATCGAGGTCCTCCAAATTGCTCAAGCCATCTAATTCTGAGGAGAATCAAAAA
921530 TTGAAAAGTAAATACTTTATTAATATATGTAGACGTCATTGAATAAGGAGAAAGAGGATG
456 TTGAAAAGTAAATACTTTATTAATATATGTAGACGTCATTGAATAAGGAGAAAGAGGATG
921590 ATA
1 ATA
921593 ATTTTACCTT
Statistics
Matches: 507, Mismatches: 9, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
513 2 0.00
514 441 0.87
515 64 0.13
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (515 bp):
ATATTCAACAGTTTTGTATAAGAAATATTATTTTACAATAATTAAAAATATAATATTAAAAAAAT
AAACTAAAAATTAAATATCTAAAATCACATTCAACATATGTGCCATTAGAAACCAGTATTTATGC
AAATTAATATTAAGAATTAAGATACGTAAAAAAAATAGTAACTTACTGATTTGGGAATGAGAGTC
AATTAAATTAACTCCTCTCAAGAAAAGAGTCTTCAATGATGAGAATAAATCCAATGATTGTAGTT
GAAGATTGCAACCTGAGCCTATCAAATAGTATATTTATATTTACTTTATTTCTTTGGAATATATC
AAATTAATCAAACTAACAAGTAATTAGTACATTTAAATTAAATTTGGAATTAGTACCAATATTTG
AATCGCAGCTCATATCGAGGTCCTCCAAATTGCTCAAGCCATCTAATTCTGAGGAGAATCAAAAA
TTGAAAAGTAAATACTTTATTAATATATGTAGACGTCATTGAATAAGGAGAAAGAGGATG
Found at i:926058 original size:15 final size:16
Alignment explanation
Indices: 926038--926067 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
926028 GTACTACAAG
926038 ATTATTTT-TTTAAAA
1 ATTATTTTATTTAAAA
926053 ATTATTTTATTTAAA
1 ATTATTTTATTTAAA
926068 TGCCTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTTTATTTAAAA
Found at i:926463 original size:25 final size:25
Alignment explanation
Indices: 926412--926469 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
926402 GAATTTTAGC
***
926412 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGCCAGT
926437 GCTCTCTGA-TATTTAGCACGCCAGT
1 GCTCTCTGATTA-TTAGCACGCCAGT
926462 GCTCTCTG
1 GCTCTCTG
926470 TTTAGCACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGCCAGT
Found at i:926485 original size:22 final size:22
Alignment explanation
Indices: 926448--926515 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
926438 CTCTCTGATA
* *
926448 TTTAGCACGCCAGTGCTCTCTG
1 TTTAGCACTCTAGTGCTCTCTG
* *
926470 TTTAGCACATCT-GTGCTTTTTG
1 TTTAGCAC-TCTAGTGCTCTCTG
* *
926492 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACTCTAGTGCTCTCTG
926514 TT
1 TT
926516 CATTGGTGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTAGCACTCTAGTGCTCTCTG
Found at i:928650 original size:17 final size:17
Alignment explanation
Indices: 928628--928661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
928618 ATCCACTAAT
*
928628 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
928645 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
928662 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:933288 original size:17 final size:17
Alignment explanation
Indices: 933266--933299 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
933256 ATCCACTAAT
*
933266 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
933283 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
933300 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:936596 original size:13 final size:13
Alignment explanation
Indices: 936578--936602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
936568 GTTTTATTTT
936578 TTATTTAAAATTG
1 TTATTTAAAATTG
936591 TTATTTAAAATT
1 TTATTTAAAATT
936603 ATGTTACATA
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTATTTAAAATTG
Found at i:945269 original size:27 final size:27
Alignment explanation
Indices: 945239--945316 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
945229 GGCCAATCAC
*
945239 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
** *
945266 ATTGATGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
*
945293 ATTGGCGGCTCCAATGGTGCCAAA
1 ATTGGCGGCACCAATGGTGCCAAA
945317 TGACTAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:945420 original size:19 final size:19
Alignment explanation
Indices: 945392--945460 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
945382 CAACTCATTC
945392 TTTT-ATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
945410 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
945428 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
945447 TTTTAATTTAATAA
1 TTTTAATTTAATAA
945461 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 19 0.44
19 24 0.56
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:945428 original size:18 final size:19
Alignment explanation
Indices: 945392--945466 Score: 93
Period size: 18 Copynumber: 4.1 Consensus size: 19
945382 CAACTCATTC
*
945392 TTTT-ATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
945410 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
* * *
945428 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
945447 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
945465 TT
1 TT
945467 AAGTAATACT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 24 0.50
19 24 0.50
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:945441 original size:37 final size:37
Alignment explanation
Indices: 945396--945466 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
945386 TCATTCTTTT
945396 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
945433 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
945467 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:945684 original size:19 final size:19
Alignment explanation
Indices: 945660--945718 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
945650 TCTAATTAAG
945660 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
945679 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
945697 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
945716 TAA
1 TAA
945719 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:945738 original size:18 final size:19
Alignment explanation
Indices: 945715--945761 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
945705 CTATTTTAAT
*
945715 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
*
945733 TTAAATTAAAATAGATTTA
1 TTAAATGAAAATAGATTTA
945752 TTAAAT-AAAA
1 TTAAATGAAAA
945762 AAATGAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGATTTA
Found at i:945762 original size:19 final size:18
Alignment explanation
Indices: 945724--945762 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
945714 TTTAAATGAG
*
945724 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATAAA
945742 AATAGATTTATTAAATAAA
1 AATAG-TTTATTAAATAAA
945761 AA
1 AA
945763 AATGAGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATAAA
Found at i:946016 original size:37 final size:37
Alignment explanation
Indices: 945974--946044 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
945964 ACTATTACTT
945974 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
946011 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
946045 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:946049 original size:19 final size:19
Alignment explanation
Indices: 945980--946048 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
945970 ACTTAATAGT
945980 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
945999 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
946017 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
946036 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
946049 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:946269 original size:291 final size:287
Alignment explanation
Indices: 945715--946408 Score: 1228
Period size: 291 Copynumber: 2.4 Consensus size: 287
945705 CTATTTTAAT
*
945715 TTAAATGAGAATAGTTTATTAAATTAAAATAGATTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
*
945780 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGCCACATTTCAATTTTAGTGCGC
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGAAATTAGCCACATTTCAATTTTAGTGCGC
* *
945845 CAGCAATTCACTTTCTAAATTCAAAATGGTAAATTAGCATGTCAAGTCCTTAAAACTGCAAATGG
131 CAGCAATTCACTTTCAAAATTCAAAATGGTAAATTAGCATGTCAAGTCCTTAAAACTGCAAATGA
945910 TCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTTAAAAAATTAACTATTACTTA
196 TCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTTAAAAAATTAACTATTACTTA
945975 ATAGTTTATTAAATTAAAATAGAGTTA
261 ATAGTTTATTAAATTAAAATAGAGTTA
946002 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
*
946067 TAAAAAGAAAATAATAAATAAGGAGGGCTTAAAAGGAAATTAGCCACATTTCAATTTTAGTGCGC
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGAAATTAGCCACATTTCAATTTTAGTGCG-
* * *
946132 ACAGCAGCAATTCACTTTCAAAATTTAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAA
130 -C--CAGCAATTCACTTTCAAAATTCAAAATGGTAAATTAGCATGTCAAGTCCTTAAAACTGCAA
*
946197 ATGATCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTTAAAAAATTAAGTATTA
192 ATGATCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTTAAAAAATTAACTATTA
*
946262 CTTAATAGTTTATTAAATTAAAATAGTGTTA
257 CTTAATAGTTTATTAAATTAAAATAGAGTTA
* *
946293 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATGAAAAAATGAATTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
946358 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAA-GACAATTAGCCACATTT
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGA-AATTAGCCACATTT
946409 TAGTCCTTTG
Statistics
Matches: 389, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
287 126 0.32
289 1 0.00
290 2 0.01
291 260 0.67
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (287 bp):
TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGAAATTAGCCACATTTCAATTTTAGTGCGC
CAGCAATTCACTTTCAAAATTCAAAATGGTAAATTAGCATGTCAAGTCCTTAAAACTGCAAATGA
TCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTTAAAAAATTAACTATTACTTA
ATAGTTTATTAAATTAAAATAGAGTTA
Found at i:946295 original size:19 final size:18
Alignment explanation
Indices: 946265--946340 Score: 98
Period size: 19 Copynumber: 4.1 Consensus size: 18
946255 AGTATTACTT
*
946265 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
*
946283 AATAGTGTTATTAAATGAG
1 AATAGT-TTATTAAATGAA
*
946302 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
*
946320 AATAGAGTTATTAAATGAA
1 AATAG-TTTATTAAATGAA
946339 AA
1 AA
946341 AATGAATTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
18 21 0.42
19 29 0.58
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATGAA
Found at i:946307 original size:37 final size:37
Alignment explanation
Indices: 946265--946337 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
946255 AGTATTACTT
*
946265 AATAGTTTATTAAATTAAAATAGTGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
946302 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGA
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGA
946338 AAAAATGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:946482 original size:27 final size:27
Alignment explanation
Indices: 946414--946484 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
946404 CATTTTAGTC
* *
946414 CTTTGGCACCATTGATGCCGCCAATCA
1 CTTTGGCACCATTGGTGCCACCAATCA
*
946441 CTTTGGCACCATTGGTGCCACCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCA
*
946468 CTTTGGCACCTTTGGTG
1 CTTTGGCACCATTGGTG
946485 TCAGCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCA
Found at i:946568 original size:25 final size:25
Alignment explanation
Indices: 946534--946583 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
946524 TTTCGTAAAT
946534 AATAAAAAAA-AGTAATATTTTGGTA
1 AATAAAAAAATA-TAATATTTTGGTA
946559 AATAAAAAAATTATAATATTTTGGT
1 AATAAAAAAA-TATAATATTTTGGT
946584 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 12 0.52
27 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (25 bp):
AATAAAAAAATATAATATTTTGGTA
Found at i:946575 original size:26 final size:28
Alignment explanation
Indices: 946520--946583 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
946510 TTTTTTTTGT
*
946520 ATATTTTCGTAAATAATAAAAAAAAGTA
1 ATATTTTGGTAAATAATAAAAAAAAGTA
**
946548 ATATTTTGGTAAATAA-AAAAATTA-TA
1 ATATTTTGGTAAATAATAAAAAAAAGTA
946574 ATATTTTGGT
1 ATATTTTGGT
946584 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.36
27 6 0.18
28 15 0.45
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAATAAAAAAAAGTA
Found at i:947796 original size:13 final size:13
Alignment explanation
Indices: 947778--947802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
947768 GTTTTATTTT
947778 TTATTTAAAATTG
1 TTATTTAAAATTG
947791 TTATTTAAAATT
1 TTATTTAAAATT
947803 ATGTTACATA
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTATTTAAAATTG
Found at i:965183 original size:6 final size:7
Alignment explanation
Indices: 965167--965192 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
965157 GATTCCAACC
965167 AAAAATA
1 AAAAATA
965174 AAAAATA
1 AAAAATA
965181 AAAAATA
1 AAAAATA
965188 AAAAA
1 AAAAA
965193 CCAAGGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:976658 original size:12 final size:12
Alignment explanation
Indices: 976624--976665 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
976614 GGTGACTTTC
*
976624 TTTTTTGTTTGT
1 TTTTTTGTTTTT
*
976636 TTGTTTGTTTTT
1 TTTTTTGTTTTT
976648 TTGTTTT-TTTTT
1 TT-TTTTGTTTTT
976660 TTTTTT
1 TTTTTT
976666 AATTTTGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.15
12 19 0.73
13 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:976665 original size:8 final size:8
Alignment explanation
Indices: 976626--976664 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
976616 TGACTTTCTT
976626 TTTTGTTTG
1 TTTT-TTTG
*
976635 TTTGTTTG
1 TTTTTTTG
976643 TTTTTTTG
1 TTTTTTTG
976651 TTTTTTT-
1 TTTTTTTG
976658 TTTTTTT
1 TTTTTTT
976665 TAATTTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.25
8 18 0.64
9 3 0.11
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:998060 original size:7 final size:7
Alignment explanation
Indices: 998048--998075 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
998038 TTAGGATGAG
998048 TTTTAAA
1 TTTTAAA
998055 TTTTAAA
1 TTTTAAA
998062 TTTTAAA
1 TTTTAAA
998069 TTTTAAA
1 TTTTAAA
998076 ATAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTTAAA
Found at i:999825 original size:44 final size:44
Alignment explanation
Indices: 999777--999866 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
999767 TAAATTTTAA
* *
999777 GATTCAAAAATTAAATCATTTAAATCTTACTTTTTAAGAATATG
1 GATTCAAAAATTAAATCACTTAAATCTTACTTTTTAAAAATATG
*
999821 GATTCAAAAATTAAATTACTTAAATCTTACTTTTTAAAAATATG
1 GATTCAAAAATTAAATCACTTAAATCTTACTTTTTAAAAATATG
999865 GA
1 GA
999867 GTTAAATACA
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:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (44 bp):
GATTCAAAAATTAAATCACTTAAATCTTACTTTTTAAAAATATG
Found at i:1001071 original size:22 final size:22
Alignment explanation
Indices: 1001006--1001075 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
1000996 TATGCACTAA
* *
1001006 TAAACAGAGAGCACTAAAGTAC
1 TAAACAGAGAGCACTGAAGTGC
* * *
1001028 TATACAGAGAGCACAGATGTGC
1 TAAACAGAGAGCACTGAAGTGC
*
1001050 TAAACAGAGAGCACTGACGTGC
1 TAAACAGAGAGCACTGAAGTGC
1001072 TAAA
1 TAAA
1001076 TATCAAAGAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (22 bp):
TAAACAGAGAGCACTGAAGTGC
Found at i:1001110 original size:25 final size:24
Alignment explanation
Indices: 1001002--1001111 Score: 77
Period size: 22 Copynumber: 4.6 Consensus size: 24
1000992 TTATTATGCA
* * *
1001002 CTAATAAACAGAGAGCACTAAAGTA
1 CTAAT-AACAGAGAGCACCAACGTG
*
1001027 CT-AT-ACAGAGAGCA-CAGATGTG
1 CTAATAACAGAGAGCACCA-ACGTG
**
1001049 CT-A-AACAGAGAGCACTGACGTG
1 CTAATAACAGAGAGCACCAACGTG
* *
1001071 CTAAATATCAAAGAGCACCAACGTG
1 CT-AATAACAGAGAGCACCAACGTG
1001096 CTAATAATCAGAGAGC
1 CTAATAA-CAGAGAGC
1001112 GCGCTAAAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 32 0.48
24 7 0.11
25 26 0.39
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (24 bp):
CTAATAACAGAGAGCACCAACGTG
Found at i:1002453 original size:13 final size:13
Alignment explanation
Indices: 1002435--1002472 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
1002425 AACTAACTTC
1002435 ATAAATATTTATA
1 ATAAATATTTATA
1002448 ATAAATATTTATA
1 ATAAATATTTATA
1002461 ATAAATATTTAT
1 ATAAATATTTAT
1002473 GAATCTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAAATATTTATA
Found at i:1004147 original size:50 final size:50
Alignment explanation
Indices: 1004032--1004280 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
1004022 GATAATAACA
* * ** * *
1004032 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* * *
1004083 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1004133 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1004183 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1004238 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1004281 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 93 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1004218 original size:100 final size:104
Alignment explanation
Indices: 1004031--1004280 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
1004021 TGATAATAAC
** * *
1004031 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
1004096 TCCCAGACATGGTCTTATAGGGGACATCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
* *
1004133 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
1004197 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACATCTCA--ATCTTAAGG
* *
1004238 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1004281 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACATCTCAATCTTAAGG
Found at i:1004396 original size:13 final size:13
Alignment explanation
Indices: 1004375--1004406 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1004365 GCTTGGATCA
*
1004375 TCATCAAATAAAT
1 TCATAAAATAAAT
1004388 TCATAAAATAAAT
1 TCATAAAATAAAT
1004401 TCATAA
1 TCATAA
1004407 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1004653 original size:30 final size:30
Alignment explanation
Indices: 1004618--1004675 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1004608 CCTCGACTCT
*
1004618 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1004648 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1004676 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1011718 original size:50 final size:51
Alignment explanation
Indices: 1011597--1011842 Score: 295
Period size: 50 Copynumber: 4.8 Consensus size: 51
1011587 GATAATAACA
* * **
1011597 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCATCGG
* *
1011645 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATC-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCATCGG
* * *
1011695 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTC-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCATCGG
* *
1011745 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCATC----GG
* *
1011800 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1011843 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
48 34 0.20
49 3 0.02
50 90 0.53
51 2 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCATCGG
Found at i:1011780 original size:100 final size:103
Alignment explanation
Indices: 1011596--1011842 Score: 362
Period size: 100 Copynumber: 2.4 Consensus size: 103
1011586 TGATAATAAC
*
1011596 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TCTCATGGTGCCCATGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCTCATGGTGCCCATGCCATGTC
* *
1011660 CCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 CCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1011695 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTC-TCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTC-TCAT-GGTGCCCATGCCATG
1011758 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
64 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
1011800 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1011843 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
98 37 0.28
99 3 0.02
100 46 0.35
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCTCATGGTGCCCATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1011958 original size:13 final size:13
Alignment explanation
Indices: 1011937--1011968 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1011927 GCTTGGATCA
*
1011937 TCATCAAATAAAT
1 TCATAAAATAAAT
1011950 TCATAAAATAAAT
1 TCATAAAATAAAT
1011963 TCATAA
1 TCATAA
1011969 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1015881 original size:26 final size:26
Alignment explanation
Indices: 1015852--1015947 Score: 93
Period size: 26 Copynumber: 3.5 Consensus size: 26
1015842 TTATATTAAG
1015852 AATTTTATTAAATTATATTTAATAAT
1 AATTTTATTAAATTATATTTAATAAT
* * *
1015878 AATTTTGTTAAAATATAGTTAAATTATTTAT
1 AATTTTATTAAATTATA-TTTAA-TA---AT
*
1015909 AATTTTTATTAAATTATTTTTAATAAT
1 AA-TTTTATTAAATTATATTTAATAAT
*
1015936 AAATTTATTAAA
1 AATTTTATTAAA
1015948 ATTTAATAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
26 24 0.43
27 8 0.14
28 2 0.04
30 2 0.04
31 8 0.14
32 12 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AATTTTATTAAATTATATTTAATAAT
Found at i:1015969 original size:58 final size:58
Alignment explanation
Indices: 1015854--1015969 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 58
1015844 ATATTAAGAA
* * * * ***
1015854 TTTTATTAAATTATATTTAATAATAATTTTGTTAAAATATAGTTAAATTATTTATAAT
1 TTTTATTAAATTATATTTAATAATAAATTTATTAAAATATAGATAAAATAACAATAAT
* *
1015912 TTTTATTAAATTATTTTTAATAATAAATTTATTAAAATTTA-ATAACAATAACAATAAT
1 TTTTATTAAATTATATTTAATAATAAATTTATTAAAATATAGATAA-AATAACAATAAT
1015970 CATCTACCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
57 3 0.06
58 45 0.94
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (58 bp):
TTTTATTAAATTATATTTAATAATAAATTTATTAAAATATAGATAAAATAACAATAAT
Found at i:1017221 original size:123 final size:123
Alignment explanation
Indices: 1017083--1017546 Score: 639
Period size: 123 Copynumber: 3.7 Consensus size: 123
1017073 TAAAATACAC
* *
1017083 ATAAAAAAAATGAATGAGCTAATTGTATTAATCTGATCCGATATGTAATTACTTAAAAAAGAAAA
1 ATAAAAAAATTGAATGAGTTAATTGTATTAATCTGATCCGATATGTAATTACTT-AAAAAGAAAA
*
1017148 TGCCTTTAAAAAAAATTGAATTGAAACCTTGAATATGAACTATAAAATAGAC-TGAAGA
65 TGCCTTTTAAAAAAATTGAATTGAAACCTTGAATATGAACTATAAAATAGACATGAAGA
** * *
1017206 ATGTAAAAATTGAATGAGTTAATTGTATTAATCAT-ATCCGATATATAATTACTTAAAAAAGAAG
1 ATAAAAAAATTGAATGAGTTAATTGTATTAATC-TGATCCGATATGTAATTACTT-AAAAAGAAA
*
1017270 ATGCCTTTTAAAAAAATTGAATTGAAACCTTGAATATGAACTAGAACTATAAAATAGACATGAAT
64 ATGCCTTTTAAAAAAATTGAATTGAAACCTTG-A-AT--A-T-GAACTATAAAATAGACATGAAG
1017335 A
123 A
* *
1017336 ATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCGATATGAAATTACTTAAAAAGAAAAT
1 ATAAAAAAATTGAATGAGTTAATTGTATTAATCTGATCCGATATGTAATTACTTAAAAAGAAAAT
* ** * * *
1017401 GCCTTTT--AAAAGTTGGCTTGAAACCTTGAACATAAACTATAAAACAGACATGAAGA
66 GCCTTTTAAAAAAATTGAATTGAAACCTTGAATATGAACTATAAAATAGACATGAAGA
*
1017457 ATAAAAAAATTGAATGAGTTAATTGTATTAATCAGATCCGATATGTAATTACTTAAAAAGAAAAT
1 ATAAAAAAATTGAATGAGTTAATTGTATTAATCTGATCCGATATGTAATTACTTAAAAAGAAAAT
* * *
1017522 GTCTTTTAAAAAATTTGACTTGAAA
66 GCCTTTTAAAAAAATTGAATTGAAA
1017547 ACTTTAAAAA
Statistics
Matches: 304, Mismatches: 26, Indels: 22
0.86 0.07 0.06
Matches are distributed among these distances:
121 89 0.29
122 1 0.00
123 102 0.34
124 2 0.01
125 3 0.01
126 1 0.00
127 19 0.06
128 1 0.00
129 33 0.11
130 53 0.17
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (123 bp):
ATAAAAAAATTGAATGAGTTAATTGTATTAATCTGATCCGATATGTAATTACTTAAAAAGAAAAT
GCCTTTTAAAAAAATTGAATTGAAACCTTGAATATGAACTATAAAATAGACATGAAGA
Found at i:1030914 original size:6 final size:6
Alignment explanation
Indices: 1030903--1030935 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1030893 AACAGTTATA
1030903 CCAGCT CCAGCT CCAGCT CCAGCT CCAGCT CCA
1 CCAGCT CCAGCT CCAGCT CCAGCT CCAGCT CCA
1030936 TGTTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
CCAGCT
Found at i:1031696 original size:13 final size:13
Alignment explanation
Indices: 1031680--1031705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1031670 TCTAATGAAG
1031680 ATCATTCAATAAT
1 ATCATTCAATAAT
1031693 ATCATTCAATAAT
1 ATCATTCAATAAT
1031706 TTATTTACTA
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
ATCATTCAATAAT
Found at i:1031789 original size:37 final size:37
Alignment explanation
Indices: 1031748--1031865 Score: 93
Period size: 37 Copynumber: 3.2 Consensus size: 37
1031738 GATTTGGCTT
1031748 TAAATTTTTATAAAATTGTTTGATATATTACTTAAAA
1 TAAATTTTTATAAAATTGTTTGATATATTACTTAAAA
* * ** *
1031785 TAAATTAATTACGAAACATAATTAG-T-T-TT--TTGATAAA
1 TAAATT-TTTA-TAAA-ATTGTTTGATATATTACTT-A-AAA
*
1031822 TAAAGATTTTATAAAATTGTTTGATATATTACTTAAAA
1 TAAA-TTTTTATAAAATTGTTTGATATATTACTTAAAA
1031860 TAAATT
1 TAAATT
1031866 AATTACGAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 22
0.63 0.13 0.24
Matches are distributed among these distances:
35 7 0.12
36 5 0.09
37 20 0.34
38 14 0.24
39 5 0.09
40 7 0.12
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TAAATTTTTATAAAATTGTTTGATATATTACTTAAAA
Found at i:1031851 original size:75 final size:75
Alignment explanation
Indices: 1031753--1031907 Score: 292
Period size: 75 Copynumber: 2.1 Consensus size: 75
1031743 GGCTTTAAAT
*
1031753 TTTTATAAAATTGTTTGATATATTACTTAAAATAAATTAATTACGAAACATAATTAGTTTTTTGA
1 TTTTATAAAATTGTTTGATATATTACTTAAAATAAATTAATTACGAAACATAATCAGTTTTTTGA
1031818 TAAATAAAGA
66 TAAATAAAGA
1031828 TTTTATAAAATTGTTTGATATATTACTTAAAATAAATTAATTACGAAACATAATCAGTTTTTTGA
1 TTTTATAAAATTGTTTGATATATTACTTAAAATAAATTAATTACGAAACATAATCAGTTTTTTGA
*
1031893 TAAATAAATA
66 TAAATAAAGA
1031903 TTTTA
1 TTTTA
1031908 AATTATAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (75 bp):
TTTTATAAAATTGTTTGATATATTACTTAAAATAAATTAATTACGAAACATAATCAGTTTTTTGA
TAAATAAAGA
Found at i:1033867 original size:51 final size:51
Alignment explanation
Indices: 1033788--1034042 Score: 343
Period size: 51 Copynumber: 5.0 Consensus size: 51
1033778 GATGCCGAAC
* * *
1033788 CAGCAAGGTGGAAACATCGAAT-CTCAAACATACACTCAGCTACCACTACAG
1 CAGCAAGGTGGAAACATTGAATAC-CAAACATATACTCAGCTACCACAACAG
* ** *
1033839 CAGCAAGGTGGTAACATCAAATACCAAACATATACTCAACTACCACAACAG
1 CAGCAAGGTGGAAACATTGAATACCAAACATATACTCAGCTACCACAACAG
* * *
1033890 CAGCAAGGTGGAAACGTTGAATACCAAACATATACTCAGCTGCCACAACAA
1 CAGCAAGGTGGAAACATTGAATACCAAACATATACTCAGCTACCACAACAG
* * * *
1033941 CAGCAAGGTGGAAGCATTGAATCCCAAACTTATACTCAGCTACAACAACAG
1 CAGCAAGGTGGAAACATTGAATACCAAACATATACTCAGCTACCACAACAG
*
1033992 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCCT-CCACAACAG
1 CAGCAAGGTGGAAACATTGAATACCAAACATATACTCAG-CTACCACAACAG
1034043 TACTTAATGG
Statistics
Matches: 180, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 177 0.98
52 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (51 bp):
CAGCAAGGTGGAAACATTGAATACCAAACATATACTCAGCTACCACAACAG
Found at i:1044339 original size:50 final size:50
Alignment explanation
Indices: 1044185--1044369 Score: 257
Period size: 50 Copynumber: 3.7 Consensus size: 50
1044175 ACATGCCAAA
* ** *
1044185 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGGTGCCCAT
* * *
1044236 GCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
*
1044285 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
*
1044335 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1044370 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.31
50 59 0.49
51 23 0.19
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCAT
Found at i:1044485 original size:13 final size:13
Alignment explanation
Indices: 1044464--1044495 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1044454 GCTTGGATCA
*
1044464 TCATCAAATAAAT
1 TCATAAAATAAAT
1044477 TCATAAAATAAAT
1 TCATAAAATAAAT
1044490 TCATAA
1 TCATAA
1044496 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1044742 original size:30 final size:30
Alignment explanation
Indices: 1044707--1044764 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1044697 CCTCGACTCT
*
1044707 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
1044737 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1044765 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1047410 original size:23 final size:23
Alignment explanation
Indices: 1047384--1047428 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1047374 TTCTAGAAAG
1047384 AAAATATATTTTTGTTTAACTTA
1 AAAATATATTTTTGTTTAACTTA
1047407 AAAATATATTTTTGTTTAACTT
1 AAAATATATTTTTGTTTAACTT
1047429 GACTTGCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
AAAATATATTTTTGTTTAACTTA
Found at i:1079421 original size:20 final size:21
Alignment explanation
Indices: 1079389--1079427 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1079379 ACTAAAGATA
1079389 TTTAAAAATTTTAC-TATTAT
1 TTTAAAAATTTTACATATTAT
1079409 TTTAATAAA-TTTACATATT
1 TTTAA-AAATTTTACATATT
1079428 TAAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTACATATTAT
Found at i:1080567 original size:26 final size:26
Alignment explanation
Indices: 1080535--1080591 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
1080525 TTGACTAAGT
1080535 GTATATGGATTATTTCAAGGATTGTA
1 GTATATGGATTATTTCAAGGATTGTA
1080561 GTATATGGATTATTTCAAGGATTGTA
1 GTATATGGATTATTTCAAGGATTGTA
*
1080587 CTATA
1 GTATA
1080592 AGAGTGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (26 bp):
GTATATGGATTATTTCAAGGATTGTA
Found at i:1080921 original size:33 final size:33
Alignment explanation
Indices: 1080883--1080984 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 33
1080873 AGATTAATTT
* *
1080883 ATATTTGATGTATCATTATATTAAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
1080916 ATATTTCATGTATCATTCTATTAAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
* * *
1080949 ATA--TCATTTACCATTCTATTGAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
1080980 ATATT
1 ATATT
1080985 ATATAACTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
31 28 0.45
33 34 0.55
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (33 bp):
ATATTTCATGTATCATTCTATTAAATTATTTAA
Found at i:1080967 original size:31 final size:31
Alignment explanation
Indices: 1080890--1080983 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
1080880 TTTATATTTG
* *
1080890 ATGTATCATTATATTAAATTATTTAAATATTTC
1 ATGTACCATTCTATTAAATTATTTAAATA--TC
*
1080923 ATGTATCATTCTATTAAATTATTTAAATATC
1 ATGTACCATTCTATTAAATTATTTAAATATC
* *
1080954 ATTTACCATTCTATTGAATTATTTAAATAT
1 ATGTACCATTCTATTAAATTATTTAAATAT
1080984 TATATAACTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
31 29 0.51
33 28 0.49
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (31 bp):
ATGTACCATTCTATTAAATTATTTAAATATC
Found at i:1085035 original size:25 final size:26
Alignment explanation
Indices: 1085000--1085060 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
1084990 CGGCCCGGCC
* * *
1085000 TATTTTTAAAAT-AAACATTAAAAAT
1 TATTTTAAAAATAAAAAAATAAAAAT
1085025 TATTTTAAAAATAAAAAAATAAAAAT
1 TATTTTAAAAATAAAAAAATAAAAAT
1085051 TATTTTAAAA
1 TATTTTAAAA
1085061 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTTTAAAAATAAAAAAATAAAAAT
Found at i:1086819 original size:24 final size:24
Alignment explanation
Indices: 1086768--1086825 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1086758 CAGCTCGAAA
* * *
1086768 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTAATAGCTCTCAG
*
1086792 GAGCTTCCCGTTAATAGCTCTTC-G
1 GAGCATCCCGTTAATAGCTC-TCAG
1086816 GAGCATCCCG
1 GAGCATCCCG
1086826 ATTGGTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.29
Consensus pattern (24 bp):
GAGCATCCCGTTAATAGCTCTCAG
Found at i:1093378 original size:32 final size:32
Alignment explanation
Indices: 1093342--1093420 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 32
1093332 ATTTTAAATT
1093342 TTAAAAATAACATATAAAAC-TTAAAATATATA
1 TTAAAAATAACATAT-AAACTTTAAAATATATA
1093374 TTAAAAA-ATAC--ATAAACTTTAAAATATATA
1 TTAAAAATA-ACATATAAACTTTAAAATATATA
*
1093404 TATATAAAATAAAATAT
1 T-TA-AAAATAACATAT
1093421 TTTAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
29 4 0.10
30 15 0.38
31 3 0.08
32 14 0.36
33 1 0.03
34 2 0.05
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (32 bp):
TTAAAAATAACATATAAACTTTAAAATATATA
Found at i:1093427 original size:30 final size:30
Alignment explanation
Indices: 1093358--1093414 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1093348 ATAACATATA
1093358 AAAC-TTAAAATATATATTAAAAAATACAT
1 AAACTTTAAAATATATATTAAAAAATACAT
*
1093387 AAACTTTAAAATATATATATATAAAATA
1 AAACTTTAAAATATATAT-TAAAAAATA
1093415 AAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 13 0.52
31 8 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
AAACTTTAAAATATATATTAAAAAATACAT
Found at i:1099714 original size:26 final size:26
Alignment explanation
Indices: 1099656--1099708 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
1099646 TGATTCCTTG
*
1099656 TGGAACTCTAAGGGAATTGCCTACCT
1 TGGAACTCTAAGGGAATTGCCCACCT
* *
1099682 TGGAACTCTAAGGGAGTTGCCCCCCT
1 TGGAACTCTAAGGGAATTGCCCACCT
1099708 T
1 T
1099709 TTAACTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (26 bp):
TGGAACTCTAAGGGAATTGCCCACCT
Found at i:1107913 original size:4 final size:4
Alignment explanation
Indices: 1107904--1107934 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1107894 AAAAGCCGCA
*
1107904 TGAC TGAC TGAC TGAC TAAC TGAC TGAC TGA
1 TGAC TGAC TGAC TGAC TGAC TGAC TGAC TGA
1107935 TGATGTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (4 bp):
TGAC
Found at i:1112937 original size:73 final size:73
Alignment explanation
Indices: 1112854--1113050 Score: 236
Period size: 72 Copynumber: 2.7 Consensus size: 73
1112844 ATTATTAACT
* * *
1112854 ACTCTAACATTACTAAATATATTTCACTTAAATTGCAATTTAAATTTATACAATTTTGTTCATCC
1 ACTCTGACATTACTAAATATATTTCATTTAAATTGCAATTCAAATTTATACAATTTTGTTCATCC
**
1112919 ATGGAACC
66 ATAAAACC
* * *
1112927 ACTCTGACATTATTAAATATATGTT-ATTTAAA-TACAATTCAAATTTATACAATTTTGTTGATC
1 ACTCTGACATTACTAAATATAT-TTCATTTAAATTGCAATTCAAATTTATACAATTTTGTTCATC
*
1112990 CATAAAACT
65 CATAAAACC
* * **
1112999 ATTGTTTGACATTACTAAATGCATTTCATTTAAATTGCAATTCAAATTTATA
1 A--CTCTGACATTACTAAATATATTTCATTTAAATTGCAATTCAAATTTATA
1113051 AGAAATTTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
72 35 0.34
73 28 0.27
74 25 0.24
75 16 0.15
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (73 bp):
ACTCTGACATTACTAAATATATTTCATTTAAATTGCAATTCAAATTTATACAATTTTGTTCATCC
ATAAAACC
Found at i:1113605 original size:27 final size:27
Alignment explanation
Indices: 1113575--1113626 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1113565 GGCCAATCAC
1113575 ATTGGCGGCACCAAAGGTGCCAATGTA
1 ATTGGCGGCACCAAAGGTGCCAATGTA
*
1113602 ATTGGCGGCACCAATGGTGCCAATG
1 ATTGGCGGCACCAAAGGTGCCAATG
1113627 AACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAATGTA
Found at i:1113954 original size:19 final size:19
Alignment explanation
Indices: 1113930--1113993 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
1113920 ATTAAAATAG
*
1113930 TTTAATTTGATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
1113949 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
1113967 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
1113986 TTTAATTT
1 TTTAATTT
1113994 TAAAAAAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:1114267 original size:18 final size:19
Alignment explanation
Indices: 1114228--1114286 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
1114218 ATTTTATATT
1114228 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
1114247 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
1114265 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
1114284 TTA
1 TTA
1114287 CTGAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:1114949 original size:26 final size:27
Alignment explanation
Indices: 1114920--1114982 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
1114910 TTTTTTTAGT
1114920 ATATTTTGGTAAAT-AAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
1114946 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
1114973 ATATTTTGGT
1 ATATTTTGGT
1114983 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:1126376 original size:21 final size:21
Alignment explanation
Indices: 1126351--1126394 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1126341 CCCCAACATA
1126351 TCGCAACACCCCATCACTAGG
1 TCGCAACACCCCATCACTAGG
1126372 TCGCAACACCCCATCACTAGG
1 TCGCAACACCCCATCACTAGG
1126393 TC
1 TC
1126395 TAGGCAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.43, G:0.14, T:0.16
Consensus pattern (21 bp):
TCGCAACACCCCATCACTAGG
Found at i:1127367 original size:2 final size:2
Alignment explanation
Indices: 1127360--1127388 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1127350 ATTCAAGGGT
1127360 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 G
1127389 TTATGGGAGT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1129887 original size:48 final size:48
Alignment explanation
Indices: 1129804--1129897 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
1129794 TTTCTTGGCT
* *
1129804 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
1129852 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAATAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
1129898 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:1133774 original size:30 final size:32
Alignment explanation
Indices: 1133730--1133792 Score: 103
Period size: 30 Copynumber: 2.0 Consensus size: 32
1133720 TAATAATGTT
1133730 AAAATTATACTTTAATTTTTTAAAAATAATAA
1 AAAATTATACTTTAATTTTTTAAAAATAATAA
*
1133762 AAAATTA-A-TTTAATTTTTTAAAAATTATAA
1 AAAATTATACTTTAATTTTTTAAAAATAATAA
1133792 A
1 A
1133793 GATAAGGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 22 0.73
31 1 0.03
32 7 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (32 bp):
AAAATTATACTTTAATTTTTTAAAAATAATAA
Found at i:1134533 original size:24 final size:25
Alignment explanation
Indices: 1134483--1134536 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
1134473 ATTATATACA
* *
1134483 AATAAATTTAACAAAAATAAAACAC
1 AATAAATTCAACAAAAAGAAAACAC
*
1134508 AATAAATTCAAC-ACAAGAAAACAC
1 AATAAATTCAACAAAAAGAAAACAC
1134532 AATAA
1 AATAA
1134537 CCCATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.67, C:0.15, G:0.02, T:0.17
Consensus pattern (25 bp):
AATAAATTCAACAAAAAGAAAACAC
Found at i:1138934 original size:3 final size:3
Alignment explanation
Indices: 1138915--1138952 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1138905 ATGATATCTT
* *
1138915 AGC ATC AGC AAC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1138953 ATGATGCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.37, C:0.32, G:0.29, T:0.03
Consensus pattern (3 bp):
AGC
Found at i:1139378 original size:20 final size:20
Alignment explanation
Indices: 1139335--1139378 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1139325 CTTTTTTATT
*
1139335 TTTAAAATTTCAATTTTAAT
1 TTTAAAATTTCAATTTTAAA
*
1139355 TTTAAAATTT-ATTTATTAAA
1 TTTAAAATTTCAATT-TTAAA
1139375 TTTA
1 TTTA
1139379 TTGATGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAAATTTCAATTTTAAA
Found at i:1141250 original size:16 final size:16
Alignment explanation
Indices: 1141231--1141267 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1141221 TGGAAAGATG
1141231 GAAAACT-GAAGGAGTA
1 GAAAACTAGAAGGA-TA
1141247 GAAAACTAGAAGGATA
1 GAAAACTAGAAGGATA
1141263 GAAAA
1 GAAAA
1141268 TATAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.27, T:0.11
Consensus pattern (16 bp):
GAAAACTAGAAGGATA
Found at i:1156474 original size:75 final size:75
Alignment explanation
Indices: 1156351--1156493 Score: 225
Period size: 75 Copynumber: 1.9 Consensus size: 75
1156341 CAGGCTATGC
* *
1156351 TCCTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAGGACCTGGTCATCCTCCAAGTCCACCAC
1 TCCTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAAGACCAGGTCATCCTCCAAGTCCACCAC
1156416 ATGCCGAGCA
66 ATGCCGAGCA
* * *
1156426 TCCTCCTCCAAGGCCAAGT-CTCTATGCGCCACCACCAAGACCAGGTCATCCTCCAGGTCCACTA
1 TCCTCCTCCAAGGCCAAGTCCTC-AAGCGCCACCACCAAGACCAGGTCATCCTCCAAGTCCACCA
1156490 CATG
65 CATG
1156494 AGCATCCTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 3 0.05
75 59 0.95
ACGTcount: A:0.24, C:0.43, G:0.17, T:0.17
Consensus pattern (75 bp):
TCCTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAAGACCAGGTCATCCTCCAAGTCCACCAC
ATGCCGAGCA
Found at i:1156511 original size:99 final size:99
Alignment explanation
Indices: 1156397--1156579 Score: 269
Period size: 99 Copynumber: 1.8 Consensus size: 99
1156387 AGGACCTGGT
* *
1156397 CATCCTCCAAGTCCACCACATGCCGAGCATCCTCCTCCAAGGCCAAG-TCTCTATGCGCCACCAC
1 CATCCTCCAAGTCCACCACATGCCGAGCATCCTCCTCCAAGG-CAAGATCCCCATGCGCCACCAC
1156461 CAAGACCAGGTCATCCTCCAGGTCCACTACATGAG
65 CAAGACCAGGTCATCCTCCAGGTCCACTACATGAG
** * ***
1156496 CATCCTCCAAGTCCACCACATGTTGAGCATCCTCCTCCAAGGCTAGATCCCCATGCGCCACCGTT
1 CATCCTCCAAGTCCACCACATGCCGAGCATCCTCCTCCAAGGCAAGATCCCCATGCGCCACCACC
*
1156561 AGGACCAGGTCATCCTCCA
66 AAGACCAGGTCATCCTCCA
1156580 AGCCCACCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 3 0.04
99 71 0.96
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (99 bp):
CATCCTCCAAGTCCACCACATGCCGAGCATCCTCCTCCAAGGCAAGATCCCCATGCGCCACCACC
AAGACCAGGTCATCCTCCAGGTCCACTACATGAG
Found at i:1156530 original size:27 final size:24
Alignment explanation
Indices: 1156472--1156517 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1156462 AAGACCAGGT
* *
1156472 CATCCTCCAGGTCCACTACATGAG
1 CATCCTCCAAGTCCACCACATGAG
1156496 CATCCTCCAAGTCCACCACATG
1 CATCCTCCAAGTCCACCACATG
1156518 TTGAGCATCC
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:0.26, C:0.41, G:0.13, T:0.20
Consensus pattern (24 bp):
CATCCTCCAAGTCCACCACATGAG
Found at i:1156850 original size:93 final size:92
Alignment explanation
Indices: 1156525--1156857 Score: 321
Period size: 93 Copynumber: 3.6 Consensus size: 92
1156515 ATGTTGAGCA
* * *** * *
1156525 TCCTCCTCCAAGGCTAGATCCCCATGCGCCACCGTTAGGACCAGGTCATCCTCCAAGCCCACCAC
1 TCCTCCTCCAAGGCCAGGTCCCCATGCGCCACCACCAGAACCAGGTCATCCTCCAAG-TCACCAC
* * *
1156590 ATAATGATCATCTTCATCCAGACCATGC
65 ATAATGGTCATCCTCATCCAGGCCATGC
* * * * * * *
1156618 TCCCCCTCCAGGGCCAGGTCCCCATGTGCCACCACCA-AGACCTGGACATCCTCCAGGTGCATCA
1 TCCTCCTCCAAGGCCAGGTCCCCATGCGCCACCACCAGA-ACCAGGTCATCCTCCAAGT-CACCA
** *
1156682 CATGCTGAG-CATTCTCATCCAGGCCATGC
64 CATAATG-GTCATCCTCATCCAGGCCATGC
* * *
1156711 TCCTCCTCC-AGGACCAAGTCCCCATACGCCACCACCAGAACCAGGTCATCTTCCAAGTCAACCA
1 TCCTCCTCCAAGG-CCAGGTCCCCATGCGCCACCACCAGAACCAGGTCATCCTCCAAGTC-ACCA
* *
1156775 CATATTGGTCATCCTCATCCAGGCCACGC
64 CATAATGGTCATCCTCATCCAGGCCATGC
* * ** *
1156804 TCCTCCTCCAAGGCCAGGTCCCCATGCACCACTACCAGGTCTAGGTCATCCTCC
1 TCCTCCTCCAAGGCCAGGTCCCCATGCGCCACCACCAGAACCAGGTCATCCTCC
1156858 TGAGCCACAC
Statistics
Matches: 190, Mismatches: 42, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
92 4 0.02
93 182 0.96
94 4 0.02
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.19
Consensus pattern (92 bp):
TCCTCCTCCAAGGCCAGGTCCCCATGCGCCACCACCAGAACCAGGTCATCCTCCAAGTCACCACA
TAATGGTCATCCTCATCCAGGCCATGC
Found at i:1157867 original size:14 final size:14
Alignment explanation
Indices: 1157848--1157876 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1157838 AAACACCGAA
1157848 AGTTTTATTATTTT
1 AGTTTTATTATTTT
1157862 AGTTTTATTATTTT
1 AGTTTTATTATTTT
1157876 A
1 A
1157877 AAGGATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (14 bp):
AGTTTTATTATTTT
Found at i:1158448 original size:3 final size:3
Alignment explanation
Indices: 1158440--1158544 Score: 53
Period size: 3 Copynumber: 35.0 Consensus size: 3
1158430 TAAGAGAAAT
* *
1158440 ATA ATA ATA ATA GTA ATA ATA ATGCA A-A ATTA ATTA AT- TTA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA AT--A ATA A-TA A-TA ATA ATA ATA ATA
* *
1158486 ATA ATA ATA ACA AGTAA ATAA ATA A-A A-A AAA AT- ATA A-A ATA ATA
1 ATA ATA ATA ATA A-T-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
1158530 ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA
1158545 TTAAATTAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
2 13 0.16
3 54 0.66
4 11 0.13
5 4 0.05
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1172642 original size:82 final size:82
Alignment explanation
Indices: 1172505--1172667 Score: 263
Period size: 82 Copynumber: 2.0 Consensus size: 82
1172495 GGAAGACTCA
* * *
1172505 CAATTTGATAAGCTTCTTCCACTGTAAAGGTTGATTAAATGAGGTCTCTATTCCATCGCTTAGGA
1 CAATTTGATAAGCTTCTTCCACTGTAAAGGTTGAATAAATGAGGTCTATATTCCATCACTTAGGA
* *
1172570 TTCTGCAAAATTAAATG
66 TTCTACAAAATCAAATG
*
1172587 CAATTTGATAATCTTCTTCCACTGTAAAGGTTGAATAAATGAGGTCTATATTCCATCACTTAGGA
1 CAATTTGATAAGCTTCTTCCACTGTAAAGGTTGAATAAATGAGGTCTATATTCCATCACTTAGGA
*
1172652 TTTTACAAAATCAAAT
66 TTCTACAAAATCAAAT
1172668 CAGACACAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (82 bp):
CAATTTGATAAGCTTCTTCCACTGTAAAGGTTGAATAAATGAGGTCTATATTCCATCACTTAGGA
TTCTACAAAATCAAATG
Found at i:1173989 original size:17 final size:17
Alignment explanation
Indices: 1173967--1174027 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
1173957 TAAAGAATGA
1173967 CCTAAATAGCAATTATG
1 CCTAAATAGCAATTATG
** * *
1173984 CCTAAATAAAAAGATAAGG
1 CCTAAAT-AGCA-ATTATG
1174003 CCTAAATAGCAATTATG
1 CCTAAATAGCAATTATG
1174020 CCTAAATA
1 CCTAAATA
1174028 AAAAGATGAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 19 0.56
18 4 0.12
19 11 0.32
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (17 bp):
CCTAAATAGCAATTATG
Found at i:1174010 original size:36 final size:36
Alignment explanation
Indices: 1173967--1174039 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1173957 TAAAGAATGA
1173967 CCTAAATAGCAATTATGCCTAAATAAAAAGATAAGG
1 CCTAAATAGCAATTATGCCTAAATAAAAAGATAAGG
*
1174003 CCTAAATAGCAATTATGCCTAAATAAAAAGATGAGG
1 CCTAAATAGCAATTATGCCTAAATAAAAAGATAAGG
1174039 C
1 C
1174040 AACATAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (36 bp):
CCTAAATAGCAATTATGCCTAAATAAAAAGATAAGG
Found at i:1178904 original size:23 final size:23
Alignment explanation
Indices: 1178854--1178897 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1178844 AATAGTCCAG
1178854 AAGAAAAAGCGCGTCAAAAGACA
1 AAGAAAAAGCGCGTCAAAAGACA
*
1178877 AAGAAAAAGCGTGTCAAAAGA
1 AAGAAAAAGCGCGTCAAAAGA
1178898 TAGAGAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.23, T:0.07
Consensus pattern (23 bp):
AAGAAAAAGCGCGTCAAAAGACA
Found at i:1185598 original size:30 final size:31
Alignment explanation
Indices: 1185529--1185598 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
1185519 ATACTCAATT
* ** *
1185529 ACTTAAATTTACCTATTTAATCCATCTCATT
1 ACTTAAATTTACCTATTTAACCCATAGCATA
**
1185560 GGTTAAATTTACCTATTTAACCCA-AGCATA
1 ACTTAAATTTACCTATTTAACCCATAGCATA
1185590 ACTTAAATT
1 ACTTAAATT
1185599 ACTTAAATTC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (31 bp):
ACTTAAATTTACCTATTTAACCCATAGCATA
Found at i:1188712 original size:21 final size:21
Alignment explanation
Indices: 1188614--1188728 Score: 72
Period size: 21 Copynumber: 5.5 Consensus size: 21
1188604 GCTTAACTCA
1188614 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCCGTTCAACCCT
* * * **
1188635 AATGGGTTTCCATT-AAGCTAT
1 TATGAGTTTCCGTTCAA-CCCT
* * * *
1188656 TTTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCCGTTCAACCCT
* * * *
1188677 TTTGAGATTT-TGTTCAGCTCT
1 TATGAG-TTTCCGTTCAACCCT
1188698 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCCGTTCAACCCT
*
1188719 TATGGGTTTC
1 TATGAGTTTC
1188729 TCTTTAGCAC
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
20 5 0.07
21 59 0.87
22 4 0.06
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCCGTTCAACCCT
Found at i:1188742 original size:42 final size:42
Alignment explanation
Indices: 1188614--1188743 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 42
1188604 GCTTAACTCA
*
1188614 TATGAGTTTCCGTTCAACCCTAATGGGTTTC-CATTAAGCTA-T
1 TATGAGTTTCCGTTCAACCCTTATGGGTTTCTC-TTAAGC-ACT
* * * * * * * * *
1188656 TTTGAGCTTCTGTTTAACCCTTTTGAGATTT-TGTTCAGCTCT
1 TATGAGTTTCCGTTCAACCCTTATG-GGTTTCTCTTAAGCACT
*
1188698 TATGAGTTTCCGTTCAACCCTTATGGGTTTCTCTTTAGCACT
1 TATGAGTTTCCGTTCAACCCTTATGGGTTTCTCTTAAGCACT
1188740 TATG
1 TATG
1188744 TGCTTCTATT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
41 4 0.06
42 57 0.88
43 4 0.06
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGTTTCCGTTCAACCCTTATGGGTTTCTCTTAAGCACT
Found at i:1192733 original size:20 final size:20
Alignment explanation
Indices: 1192703--1192751 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1192693 CCTGCATCTA
*
1192703 AGAAAAATTTTGAACTTTTG
1 AGAAAAATTTTGAAATTTTG
* *
1192723 GGAAAATTTTTGAAATTTTG
1 AGAAAAATTTTGAAATTTTG
1192743 AGAAAAATT
1 AGAAAAATT
1192752 CTCTAAGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (20 bp):
AGAAAAATTTTGAAATTTTG
Found at i:1193081 original size:58 final size:58
Alignment explanation
Indices: 1192980--1193127 Score: 188
Period size: 58 Copynumber: 2.6 Consensus size: 58
1192970 ACCAATTTGT
* * * *
1192980 TCAAGCCTTAATATAGGTACAATTGCCAAGTTCAAATATTAACTTGGACAAAAAAAAA
1 TCAAGCCTTAATATAGGTACAATTGTCAAGTTCAAAGACTAACTTGAACAAAAAAAAA
* * * *
1193038 TTAAGCCCTAATATAGGTACAATTGTCAAGTTCAGAGACTAACTTTAACAAAAAAAAA
1 TCAAGCCTTAATATAGGTACAATTGTCAAGTTCAAAGACTAACTTGAACAAAAAAAAA
* * * *
1193096 TCAAACCTTAATATAAGAACAATTATCAAGTT
1 TCAAGCCTTAATATAGGTACAATTGTCAAGTT
1193128 TAGGTCCTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (58 bp):
TCAAGCCTTAATATAGGTACAATTGTCAAGTTCAAAGACTAACTTGAACAAAAAAAAA
Found at i:1193138 original size:58 final size:58
Alignment explanation
Indices: 1193019--1193149 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 58
1193009 GTTCAAATAT
* * * * * *
1193019 TAACTTGGACAAAAAAAAATTAAGCCCTAATATAGGTACAATTGTCAAGTTCAGAGAC
1 TAACTTGAACAAAAAAAAATCAAACCCTAATATAAGAACAATTATCAAGTTCAGAGAC
* * * *
1193077 TAACTTTAACAAAAAAAAATCAAACCTTAATATAAGAACAATTATCAAGTTTAG-GTCC
1 TAACTTGAACAAAAAAAAATCAAACCCTAATATAAGAACAATTATCAAGTTCAGAG-AC
1193135 TAACTTGAA-AAAAAA
1 TAACTTGAACAAAAAA
1193150 TAATTGAAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
57 7 0.11
58 54 0.89
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (58 bp):
TAACTTGAACAAAAAAAAATCAAACCCTAATATAAGAACAATTATCAAGTTCAGAGAC
Found at i:1194127 original size:27 final size:28
Alignment explanation
Indices: 1194076--1194151 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
1194066 TGAATATTTT
**
1194076 TTAAAAGATTAAT-A-ATTAATTTAAAC-
1 TTAAAA-ATTAATAATATTAAAATAAACA
1194102 TTAAAAATTAATAATATTAAAATAAACA
1 TTAAAAATTAATAATATTAAAATAAACA
**
1194130 AAAAAAATT-ATAAATATTAAAA
1 TTAAAAATTAAT-AATATTAAAA
1194152 ACTAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 6 0.14
26 7 0.17
27 12 0.29
28 17 0.40
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (28 bp):
TTAAAAATTAATAATATTAAAATAAACA
Found at i:1209474 original size:14 final size:15
Alignment explanation
Indices: 1209452--1209528 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
1209442 CAATCAAACA
1209452 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
1209466 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
1209481 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
1209501 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
1209515 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
1209529 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:1209493 original size:20 final size:20
Alignment explanation
Indices: 1209468--1209507 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1209458 AATATTTTCC
*
1209468 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
1209488 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
1209508 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:1209513 original size:34 final size:35
Alignment explanation
Indices: 1209456--1209522 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
1209446 CAAACACCAG
*
1209456 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
1209491 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
1209523 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:1209765 original size:19 final size:19
Alignment explanation
Indices: 1209741--1209777 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1209731 ACAAATATTC
1209741 ATAAAAA-TTCAAATAAAAA
1 ATAAAAAGTTCAAA-AAAAA
1209760 ATAAAAAGTTCAAAAAAA
1 ATAAAAAGTTCAAAAAAA
1209778 TTATTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (19 bp):
ATAAAAAGTTCAAAAAAAA
Found at i:1210472 original size:21 final size:20
Alignment explanation
Indices: 1210446--1210485 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1210436 TAGTGTTTAC
1210446 TTTAATGTATATATACAAGGA
1 TTTAATGTATATATA-AAGGA
*
1210467 TTTAATGTGTATATAAAGG
1 TTTAATGTATATATAAAGG
1210486 CATATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTAATGTATATATAAAGGA
Found at i:1214127 original size:2 final size:2
Alignment explanation
Indices: 1214120--1214146 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1214110 CTGGCTTGTT
1214120 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 T
1214147 GTGTTAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1215821 original size:10 final size:10
Alignment explanation
Indices: 1215806--1215863 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
1215796 TAAAGTAAAT
*
1215806 GAAATAAAAA
1 GAAAGAAAAA
*
1215816 GAAATAAAAA
1 GAAAGAAAAA
* *
1215826 CAAAGCAAAA
1 GAAAGAAAAA
1215836 GAAAGAAGAAA
1 GAAAGAA-AAA
1215847 G-AAGAAAAA
1 GAAAGAAAAA
1215856 G-AAGAAAA
1 GAAAGAAAA
1215864 TAGGGAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
9 11 0.26
10 27 0.64
11 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:1218259 original size:39 final size:37
Alignment explanation
Indices: 1218192--1218284 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
1218182 ACCAGAATGG
* *
1218192 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
1218231 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
1218268 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
1218285 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:1218479 original size:24 final size:25
Alignment explanation
Indices: 1218425--1218495 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
1218415 ATCACATATA
*
1218425 TTTCAATTCAATTACAATTTTT-CACAT
1 TTTCAATTCAA-T-C-ATTTTTCCACAC
1218452 TTTCAATTCAATCATTTTTCCAC-C
1 TTTCAATTCAATCATTTTTCCACAC
*
1218476 TTTCAA-TCAATAATTATTTC
1 TTTCAATTCAATCATT-TTTC
1218496 ACAACTTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.20
24 16 0.40
25 4 0.10
26 1 0.03
27 11 0.28
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTCAATTCAATCATTTTTCCACAC
Found at i:1219422 original size:20 final size:20
Alignment explanation
Indices: 1219388--1219427 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1219378 TTCTATTCTG
*
1219388 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
1219408 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
1219428 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:1219594 original size:31 final size:28
Alignment explanation
Indices: 1219558--1219625 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
1219548 TTGTCTTTAT
**
1219558 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
1219588 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
1219617 TTAATTTAT
1 TTAATTTAT
1219626 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:1219642 original size:21 final size:20
Alignment explanation
Indices: 1219604--1219642 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1219594 TAATTTAATA
*
1219604 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
1219624 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
1219643 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:1222246 original size:19 final size:19
Alignment explanation
Indices: 1222222--1222272 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1222212 GTTTTTGATG
* *
1222222 TATTTTTATAGATTTTTAC
1 TATTTTTATAAAATTTTAC
1222241 TATTTTTATAAAATTTTAC
1 TATTTTTATAAAATTTTAC
*
1222260 AATTTTTTATAAA
1 TA-TTTTTATAAA
1222273 TGTTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTTTTATAAAATTTTAC
Found at i:1230795 original size:21 final size:21
Alignment explanation
Indices: 1230769--1230811 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1230759 ATTTTAAAAG
1230769 TAAAAATTATATTGCATTGAA
1 TAAAAATTATATTGCATTGAA
1230790 TAAAAATTATATTGCATTGAA
1 TAAAAATTATATTGCATTGAA
1230811 T
1 T
1230812 CTTCAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TAAAAATTATATTGCATTGAA
Found at i:1239694 original size:17 final size:17
Alignment explanation
Indices: 1239664--1239709 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
1239654 CAACATTTTT
1239664 AAAAGTATTT-TAAATTC
1 AAAA-TATTTATAAATTC
1239681 AAAATATTTATAAAATTC
1 AAAATATTTAT-AAATTC
*
1239699 TAAAT-TTTATA
1 AAAATATTTATA
1239710 TTTTTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 10 0.38
18 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATATTTATAAATTC
Found at i:1239698 original size:18 final size:17
Alignment explanation
Indices: 1239675--1239709 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1239665 AAAGTATTTT
1239675 AAATTCAAAATATTTATA
1 AAATTCAAAAT-TTTATA
*
1239693 AAATTCTAAATTTTATA
1 AAATTCAAAATTTTATA
1239710 TTTTTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTCAAAATTTTATA
Found at i:1258052 original size:50 final size:50
Alignment explanation
Indices: 1257928--1258176 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
1257918 TGATAATACA
* * ** * *
1257928 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1257979 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1258029 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1258079 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC--TCATC-T-CGG
* *
1258133 ATGCCAATGCCATGTCCCAGACATGGTTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGG-TCTTACAGGGGACCTCT
1258177 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.53
51 33 0.20
52 3 0.02
53 1 0.01
54 3 0.02
55 24 0.14
56 14 0.08
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Done.