Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 16 of 109
Found at i:2596397 original size:34 final size:32
Alignment explanation
Indices: 2596360--2596483 Score: 117
Period size: 34 Copynumber: 3.7 Consensus size: 32
2596350 CAAATTGTTA
2596360 AAAAATAATTTTCAAAAAATTATAAACCTTTTC
1 AAAAATAATTTTCAAAAAATTATAAA-CTTTTC
** *
2596393 AAAAATAATTTTTTTAAATATTATATAAC-TTTC
1 AAAAATAA-TTTTCAAAAAATTATA-AACTTTTC
*
2596426 TAAAAATAAATTTTTAAAAAATTATAAAACTCTTTC
1 -AAAAAT-AATTTTCAAAAAATTAT-AAACT-TTTC
*
2596462 -GAAATAAATTTTCAAAAAATTA
1 AAAAAT-AATTTTCAAAAAATTA
2596484 ACTTTTGAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
33 12 0.16
34 56 0.73
35 5 0.06
36 4 0.05
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.40
Consensus pattern (32 bp):
AAAAATAATTTTCAAAAAATTATAAACTTTTC
Found at i:2597929 original size:10 final size:10
Alignment explanation
Indices: 2597916--2597948 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2597906 GATAAATATT
2597916 AATAAATAAA
1 AATAAATAAA
*
2597926 AATAATTAAA
1 AATAAATAAA
2597936 AATAAA-AAA
1 AATAAATAAA
2597945 AATA
1 AATA
2597949 CATATTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AATAAATAAA
Found at i:2597938 original size:16 final size:16
Alignment explanation
Indices: 2597909--2597943 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2597899 ATATTTTGAT
2597909 AAATATTAATAAATAA
1 AAATATTAATAAATAA
2597925 AAATAATTAA-AAATAA
1 AAAT-ATTAATAAATAA
2597941 AAA
1 AAA
2597944 AAATACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATTAATAAATAA
Found at i:2599222 original size:2 final size:2
Alignment explanation
Indices: 2599215--2599241 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2599205 GAGTTGTCTC
2599215 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2599242 AAACTCTAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2599293 original size:24 final size:25
Alignment explanation
Indices: 2599264--2599316 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
2599254 AAATAGTACT
*
2599264 TTTTGACGAGAAAA-TATGTATATC
1 TTTTGACGAAAAAAGTATGTATATC
* *
2599288 TTTTGACGAAAAAAGTGTGTATATT
1 TTTTGACGAAAAAAGTATGTATATC
2599313 TTTT
1 TTTT
2599317 TATTATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (25 bp):
TTTTGACGAAAAAAGTATGTATATC
Found at i:2603775 original size:21 final size:19
Alignment explanation
Indices: 2603750--2603801 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
2603740 ATATGAAATT
*
2603750 AAAATAAATAAATAAAGTTT
1 AAAATAAA-AAATAAAGTTG
*
2603770 ATAAATATAACAATAAAGTTG
1 A-AAATA-AAAAATAAAGTTG
2603791 AAAATAAAAAA
1 AAAATAAAAAA
2603802 ATACATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 15 0.56
22 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (19 bp):
AAAATAAAAAATAAAGTTG
Found at i:2608892 original size:2 final size:2
Alignment explanation
Indices: 2608887--2608915 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2608877 TTTCCTTTTA
2608887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2608916 AAAGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2610389 original size:17 final size:17
Alignment explanation
Indices: 2610359--2610391 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2610349 TTTTGACAGA
2610359 ATTTATAAAAAAATTTT
1 ATTTATAAAAAAATTTT
2610376 ATTTA-AAAATAAATTT
1 ATTTATAAAA-AAATTT
2610392 AAAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATAAAAAAATTTT
Found at i:2610704 original size:14 final size:13
Alignment explanation
Indices: 2610684--2610718 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
2610674 TTAATAAACA
2610684 ATTATTTTTTATT
1 ATTATTTTTTATT
*
2610697 ATTTATTTATTATT
1 A-TTATTTTTTATT
2610711 ATTATTTT
1 ATTATTTT
2610719 CATTTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTATTTTTTATT
Found at i:2611320 original size:26 final size:24
Alignment explanation
Indices: 2611279--2611327 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
2611269 AAAACAACAA
* *
2611279 AAAAATCAACATAAAATAAGTAAAAT
1 AAAAATCAAAACAAAA-AA-TAAAAT
2611305 AAAAATCAAAACAAAAAATAAAA
1 AAAAATCAAAACAAAAAATAAAA
2611328 AGAAAAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (24 bp):
AAAAATCAAAACAAAAAATAAAAT
Found at i:2611709 original size:12 final size:13
Alignment explanation
Indices: 2611692--2611721 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2611682 TTAGAGACCT
2611692 AAAAAAAA-TTCA
1 AAAAAAAATTTCA
2611704 AAAAAAAATTTCA
1 AAAAAAAATTTCA
2611717 AAAAA
1 AAAAA
2611722 TTTTAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTTCA
Found at i:2616415 original size:10 final size:10
Alignment explanation
Indices: 2616399--2616453 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
2616389 ATATATAATT
2616399 TATTTTTATA
1 TATTTTTATA
* *
2616409 AATTTTTATG
1 TATTTTTATA
2616419 TATTCTTTATA
1 TATT-TTTATA
*
2616430 T-GTTTT-TA
1 TATTTTTATA
2616438 TATTTTTATA
1 TATTTTTATA
2616448 TTATTT
1 -TATTT
2616454 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.09
9 7 0.20
10 14 0.40
11 11 0.31
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (10 bp):
TATTTTTATA
Found at i:2616428 original size:21 final size:20
Alignment explanation
Indices: 2616399--2616447 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
2616389 ATATATAATT
2616399 TATTTTTATAAATTTTTATG
1 TATTTTTATAAATTTTTATG
**
2616419 TATTCTTTATATGTTTTTA--
1 TATT-TTTATAAATTTTTATG
2616438 TATTTTTATA
1 TATTTTTATA
2616448 TTATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 4 0.15
21 12 0.46
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTTATAAATTTTTATG
Found at i:2616458 original size:21 final size:20
Alignment explanation
Indices: 2616434--2616485 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2616424 TTTATATGTT
2616434 TTTATATTTTTATATTATTTA-
1 TTTAT-TTTTTATATTA-TTAC
*
2616455 TTTATTTATTTATTTTATTAC
1 TTTATTT-TTTATATTATTAC
2616476 TTTATTTTTT
1 TTTATTTTTT
2616486 TTTTAATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTTTTTATATTATTAC
Found at i:2616462 original size:17 final size:17
Alignment explanation
Indices: 2616434--2616482 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
2616424 TTTATATGTT
2616434 TTTATATT-TTTATATTA
1 TTTATATTATTTAT-TTA
2616451 TTTAT-TTATTTATTTA
1 TTTATATTATTTATTTA
2616467 TTT-TATTACTTTATTT
1 TTTATATTA-TTTATTT
2616483 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.03
16 11 0.38
17 17 0.59
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATATTATTTATTTA
Found at i:2616471 original size:13 final size:13
Alignment explanation
Indices: 2616441--2616483 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
2616431 GTTTTTATAT
2616441 TTTTATATTATTTA
1 TTTTAT-TTATTTA
2616455 -TTTATTTATTTA
1 TTTTATTTATTTA
2616467 TTTTA-TTACTTTA
1 TTTTATTTA-TTTA
2616480 TTTT
1 TTTT
2616484 TTTTTTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:2621168 original size:22 final size:21
Alignment explanation
Indices: 2621118--2621170 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
2621108 TCAACAAAAA
2621118 ATGAAAAATTTTAAGGGTCTCC
1 ATGAAAAATTTTAAGGGTCT-C
*
2621140 ACAGAAAAATTTTAGAGGTGTCT-
1 A-TGAAAAATTTTA-AGG-GTCTC
2621163 ATGAAAAA
1 ATGAAAAA
2621171 ATAAACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 7 0.27
23 12 0.46
24 3 0.12
25 4 0.15
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGAAAAATTTTAAGGGTCTC
Found at i:2621188 original size:32 final size:32
Alignment explanation
Indices: 2621147--2621210 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2621137 TCCACAGAAA
2621147 AATTTTAGAGGTGTCTATGAAAAAATAAACAT
1 AATTTTAGAGGTGTCTATGAAAAAATAAACAT
*
2621179 AATTTTAGAGGTGTCTATGAAGAAATAAACAT
1 AATTTTAGAGGTGTCTATGAAAAAATAAACAT
2621211 TCAAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.31
Consensus pattern (32 bp):
AATTTTAGAGGTGTCTATGAAAAAATAAACAT
Found at i:2621310 original size:2 final size:2
Alignment explanation
Indices: 2621305--2621341 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2621295 ACACACACAC
2621305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2621342 AAATGCTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2623267 original size:5 final size:5
Alignment explanation
Indices: 2623257--2623281 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2623247 TGGCTGAGAA
2623257 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
2623282 GGAAATCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2626395 original size:25 final size:25
Alignment explanation
Indices: 2626362--2626410 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2626352 AAATAAAACA
*
2626362 TTAAAATTAAATT-TTTTTAATATTT
1 TTAAAATT-AATTATTTTAAATATTT
*
2626387 TTAATATTAATTATTTTAAATATT
1 TTAAAATTAATTATTTTAAATATT
2626411 GAATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAAAATTAATTATTTTAAATATTT
Found at i:2626569 original size:28 final size:29
Alignment explanation
Indices: 2626537--2626601 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
2626527 TCATTTCTTA
*
2626537 ATATTTTAAATTTA-AAATATATTATTTT
1 ATATTTTAAATTTACAAATATATTATATT
2626565 ATATTTT--ATTTACAAATATATTATATT
1 ATATTTTAAATTTACAAATATATTATATT
2626592 ACTATTTTAA
1 A-TATTTTAA
2626602 TAGTATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.16
27 14 0.44
28 13 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
ATATTTTAAATTTACAAATATATTATATT
Found at i:2626644 original size:21 final size:22
Alignment explanation
Indices: 2626587--2626650 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
2626577 CAAATATATT
2626587 ATATTACTATTTTAATAGTATAA
1 ATATTACTATTTTAATAG-ATAA
* *
2626610 ATATTTTTAATATTTTAATA-ATAC
1 ATA---TTACTATTTTAATAGATAA
2626634 ATATTACTATTTTAATA
1 ATATTACTATTTTAATA
2626651 TTAATATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 13 0.37
23 3 0.09
24 6 0.17
26 13 0.37
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTACTATTTTAATAGATAA
Found at i:2626814 original size:16 final size:16
Alignment explanation
Indices: 2626793--2626835 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2626783 TTATAACTAT
2626793 TTTTGAATATTAATAA
1 TTTTGAATATTAATAA
*
2626809 TTTTG-ATAATAAATAA
1 TTTTGAAT-ATTAATAA
*
2626825 TTTTTAATATT
1 TTTTGAATATT
2626836 TTAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
TTTTGAATATTAATAA
Found at i:2631087 original size:5 final size:5
Alignment explanation
Indices: 2631073--2631123 Score: 61
Period size: 5 Copynumber: 10.6 Consensus size: 5
2631063 TGTGCATATG
* * *
2631073 ATTTT ATTTT GTTTT ATTTT ATTTC A-TTT ATTTT -TTTT ACTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
2631121 ATT
1 ATT
2631124 ATATACTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
4 7 0.18
5 31 0.82
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:2631104 original size:14 final size:15
Alignment explanation
Indices: 2631085--2631123 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
2631075 TTTATTTTGT
2631085 TTTATTTTATTTCA-
1 TTTATTTTATTTCAC
*
2631099 TTTATTTT-TTTTAC
1 TTTATTTTATTTCAC
2631113 TTTATTTTATT
1 TTTATTTTATT
2631124 ATATACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTATTTCAC
Found at i:2631447 original size:12 final size:12
Alignment explanation
Indices: 2631423--2631464 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2631413 TTTTCATCTT
2631423 ATTTTTATT-TA
1 ATTTTTATTCTA
*
2631434 ATTTTTGTTCTA
1 ATTTTTATTCTA
* *
2631446 ATTCTAATTCTA
1 ATTTTTATTCTA
2631458 ATTTTTA
1 ATTTTTA
2631465 ATTTTTATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
ATTTTTATTCTA
Found at i:2631764 original size:3 final size:3
Alignment explanation
Indices: 2631751--2631794 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
2631741 GAAGATTTTC
*
2631751 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2631795 ATTGGCATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2634918 original size:3 final size:3
Alignment explanation
Indices: 2634910--2635040 Score: 118
Period size: 3 Copynumber: 41.0 Consensus size: 3
2634900 TATCAGGTTA
* ** *
2634910 ATT ATT ATT ATT ATT ATT ATT ATT AAT AAA ATGT ATC AGGTT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A--TT -ATT ATT
* ** *
2634959 ATT ATT ATT ATT ATT AAT AAA ATGT ATC AGGTT AATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT A--TT -ATT ATT ATT ATT ATT
2635008 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2635041 TAAAAGTTTA
Statistics
Matches: 108, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
3 96 0.89
4 8 0.07
5 2 0.02
6 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:2634951 original size:43 final size:43
Alignment explanation
Indices: 2634890--2635017 Score: 235
Period size: 43 Copynumber: 3.0 Consensus size: 43
2634880 ATAATAATAA
2634890 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
2634933 TAATAAAATGTATCAGGTT-A--ATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
2634973 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
2635016 TA
1 TA
2635018 TTATTATTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
40 39 0.48
41 1 0.01
42 1 0.01
43 41 0.50
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (43 bp):
TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
Found at i:2634968 original size:40 final size:40
Alignment explanation
Indices: 2634890--2635014 Score: 223
Period size: 40 Copynumber: 3.0 Consensus size: 40
2634880 ATAATAATAA
2634890 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTT-A--ATTATTATTATTATTATTAT
2634933 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTAT
2634973 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTAT
1 TAATAAAATGTATCAGGTTAATTATTATTATTATTATTAT
2635013 TA
1 TA
2635015 TTATTATTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
40 62 0.76
42 1 0.01
43 19 0.23
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (40 bp):
TAATAAAATGTATCAGGTTAATTATTATTATTATTATTAT
Found at i:2636639 original size:25 final size:25
Alignment explanation
Indices: 2636611--2636660 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2636601 TGCAGGCACT
2636611 TCAGTTCTTATTCTTGCGGGATGTG
1 TCAGTTCTTATTCTTGCGGGATGTG
**
2636636 TCAGTTCTTATTCTTTTGGGATGTG
1 TCAGTTCTTATTCTTGCGGGATGTG
2636661 CCACTGATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.48
Consensus pattern (25 bp):
TCAGTTCTTATTCTTGCGGGATGTG
Found at i:2637436 original size:206 final size:207
Alignment explanation
Indices: 2637087--2637468 Score: 461
Period size: 206 Copynumber: 1.9 Consensus size: 207
2637077 TATTATACAT
* * **
2637087 TTAAAAATTATATCAATAATTTAAATTATATAAATTTTAAGAAAATATAATTTTAATTAATAAAT
1 TTAAAAATTATATCAATAATTTAAATTATACAAATTTTAAGAAAAAATAATTTTAACCAATAAAT
* * * * ** *
2637152 AAATTATCTTACTTTAGTTCTTACACACATCAAATATATGATAAGATAATATTATTTAATCTAAT
66 AAATTATCTTACTGTAATTCTTACACACATCAAACACAAAATAAGATAACATTATTTAATCTAAT
*
2637217 CCTATTCATAATATCA-CATTATCTTATTCTATCATAATTTTATGTATCAAACATGACCTATATA
131 ACTATTCATAATATCATC-TTATCTTATTCTATCATAATTTTATGTATCAAACATGACCTATATA
2637281 TCTTATTATATTC
195 TCTTATTATATTC
* *
2637294 TTAAAATTTATATCAATAATTTAAA-TATACAAATTTTATA-AAAAAATAATTTTAACCAATTAA
1 TTAAAAATTATATCAATAATTTAAATTATACAAATTTTA-AGAAAAAATAATTTTAACCAATAAA
* * * * * *
2637357 TAAATTATTTTA-TCGTAATAT-TTATATATATCAAACACAAAATAATATAACATTATTTAATTT
65 TAAATTATCTTACT-GTAAT-TCTTACACACATCAAACACAAAATAAGATAACATTATTTAATCT
* * * *
2637420 AATACTAATT-ATAATATTATCTTATTTTATTTTATTATAATTTTATGTA
128 AATACT-ATTCATAATATCATCTTATCTTATTCTATCATAATTTTATGTA
2637469 CTAAATTCAT
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
205 1 0.01
206 115 0.79
207 30 0.21
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (207 bp):
TTAAAAATTATATCAATAATTTAAATTATACAAATTTTAAGAAAAAATAATTTTAACCAATAAAT
AAATTATCTTACTGTAATTCTTACACACATCAAACACAAAATAAGATAACATTATTTAATCTAAT
ACTATTCATAATATCATCTTATCTTATTCTATCATAATTTTATGTATCAAACATGACCTATATAT
CTTATTATATTC
Found at i:2640514 original size:2 final size:2
Alignment explanation
Indices: 2640507--2640539 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2640497 CAAGATGATC
2640507 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2640540 AACAACTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2646236 original size:23 final size:23
Alignment explanation
Indices: 2646183--2646237 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
2646173 GCCCTCACAA
*
2646183 AAAATTAATTAATCAATAAAAAAT
1 AAAATT-ATTAATCAACAAAAAAT
* * *
2646207 -AATTTATTAGTCAACGAAAAAT
1 AAAATTATTAATCAACAAAAAAT
2646229 AAAATTATT
1 AAAATTATT
2646238 TTTCTCAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATTATTAATCAACAAAAAAT
Found at i:2646433 original size:25 final size:25
Alignment explanation
Indices: 2646385--2646452 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
2646375 GATTTTATCA
2646385 AAAATATTATTATATTAATAAAAATATT
1 AAAATATTA--ATATTAATAAAAA-ATT
** *
2646413 TTAAT-TTAATATTAATTAAAAATT
1 AAAATATTAATATTAATAAAAAATT
2646437 AAAATATTAATATTAA
1 AAAATATTAATATTAA
2646453 AAATCTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.18
25 22 0.65
27 3 0.09
28 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAATATTAATATTAATAAAAAATT
Found at i:2646557 original size:26 final size:24
Alignment explanation
Indices: 2646498--2646545 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2646488 TTTTTACTCA
*
2646498 AACCGAACTTTGAAAAAAAATTTT
1 AACCAAACTTTGAAAAAAAATTTT
2646522 AACCAAACTTT-AAAAAATAATTTT
1 AACCAAACTTTGAAAAAA-AATTTT
2646546 TTACTCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AACCAAACTTTGAAAAAAAATTTT
Found at i:2646715 original size:25 final size:25
Alignment explanation
Indices: 2646679--2646743 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
2646669 TAAATATTTG
2646679 TATTTTGT-ATATTATTAAGT-ATAAA
1 TATTTT-TAATATTATTAA-TAATAAA
*
2646704 TATTTTTAATATT-TCAATAATAAA
1 TATTTTTAATATTATTAATAATAAA
*
2646728 TATTATTAA-ATTATTA
1 TATTTTTAATATTATTA
2646744 TTTTAATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 4 0.12
24 19 0.56
25 11 0.32
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
TATTTTTAATATTATTAATAATAAA
Found at i:2646731 original size:40 final size:40
Alignment explanation
Indices: 2646687--2646809 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 40
2646677 TGTATTTTGT
2646687 ATATTATTAAGTATAAATATTTTTAATATTTCAATAATAA
1 ATATTATTAAGTATAAATATTTTTAATATTTCAATAATAA
* * *
2646727 ATATTATTAA--ATTATTA-TTTTAATA--ACAAATAATAA
1 ATATTATTAAGTATAAATATTTTTAATATTTC-AATAATAA
* * * *
2646763 ATATT-TATATAGTAAATAATATTTTTATTATTTAAATAATTA
1 ATATTAT-TA-AGTATA-AATATTTTTAATATTTCAATAATAA
2646805 ATATT
1 ATATT
2646810 GTTTAATATA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
35 2 0.03
36 15 0.23
37 9 0.14
38 5 0.08
39 1 0.02
40 13 0.20
41 7 0.11
42 12 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (40 bp):
ATATTATTAAGTATAAATATTTTTAATATTTCAATAATAA
Found at i:2646821 original size:27 final size:24
Alignment explanation
Indices: 2646779--2646831 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
2646769 ATATAGTAAA
*
2646779 TAATATTTTTATTATTTAAATAAT
1 TAATATTTTTATTATTGAAATAAT
*
2646803 TAATATTGTTTAATATATTGATATAAT
1 TAATATT-TTT-AT-TATTGAAATAAT
2646830 TA
1 TA
2646832 TTATAGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 2 0.08
27 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TAATATTTTTATTATTGAAATAAT
Found at i:2648783 original size:18 final size:19
Alignment explanation
Indices: 2648760--2648805 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
2648750 TAAAATACAA
*
2648760 ATAAATATATGTACA-AAT
1 ATAAATATATGTAAATAAT
* *
2648778 ATAAATTTAAGTAAATAAT
1 ATAAATATATGTAAATAAT
2648797 A-AAATATAT
1 ATAAATATAT
2648806 ACTTTTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAATATATGTAAATAAT
Found at i:2649541 original size:20 final size:20
Alignment explanation
Indices: 2649486--2649560 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
2649476 TATTAAATTA
* *
2649486 AAATATTAAATAATAATTTAT
1 AAATATAAAATAA-AATATAT
* *
2649507 TAATAT--AATACAATATAT
1 AAATATAAAATAAAATATAT
*
2649525 AAATATAAAATAAAATAAAT
1 AAATATAAAATAAAATATAT
* *
2649545 AATTATCAAATTAAAA
1 AAATAT-AAAATAAAA
2649561 AGAGAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
18 11 0.26
19 4 0.09
20 15 0.35
21 13 0.30
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATAAAATAAAATATAT
Found at i:2651102 original size:276 final size:275
Alignment explanation
Indices: 2650610--2651161 Score: 1061
Period size: 276 Copynumber: 2.0 Consensus size: 275
2650600 ATATTTTTAT
*
2650610 AAACTTTTGAAACAAAGCATATGAATATAAACAACTAACTCATAAAAGGATTATCGAGGTTTTTT
1 AAACTTTTGAAACAAAGCATATGAATATAAACAACTAACTCATAAAAGGATTATCAAGGTTTTTT
2650675 TTTTTTTTTTTTAGTTATAGATTATCAAGGTTTAAGACTTGAGTGCAAATTGTAATTGATCAAGT
66 TTTTTTTTTTTTAGTTATAGATTATCAAGGTTTAAGACTTGAGTGCAAATTGTAATTGATCAAGT
2650740 TAATGTTTTGTTCATGGTCGTAGACAGTTTATTTAGACTTGGGCTTTATTAGTTAGAATTAATTT
131 TAATGTTTTGTTCATGGTCGTAGACAGTTTATTTAGACTTGGGCTTTATTAGTTAGAATTAATTT
*
2650805 TTGTCCTAATTTGATCTAAACTTAGGAGTGTTATTTTTAATAAAATTAGGTTCAATTAAAAAATT
196 TAGTCCTAATTTGATCTAAACTTAGGAGTGTTATTTTTAATAAAATTAGGTTCAATTAAAAAATT
2650870 TACACGTAATTGTAG
261 TACACGTAATTGTAG
2650885 AAACTTTTGAAACAAAGCATATGAATATAAACAACTAACTCATAAAAGGATTATCAAGGTTTTTT
1 AAACTTTTGAAACAAAGCATATGAATATAAACAACTAACTCATAAAAGGATTATCAAGGTTTTTT
2650950 TTTTTTTTTTTTGAGTTATAGATTATCAAGGTTTAAGACTTGAGTGCAAATTGTAATTGATCAAG
66 TTTTTTTTTTTT-AGTTATAGATTATCAAGGTTTAAGACTTGAGTGCAAATTGTAATTGATCAAG
2651015 TTAATGTTTTGTTCATGGTCGTAGACAGTTTATTTAGACTTGGGCTTTATTAGTTAGAATTAACT
130 TTAATGTTTTGTTCATGGTCGTAGACAGTTTATTTAGACTTGGGCTTTATTAGTTAGAATTAA-T
2651080 TTTAG-CCTAATTTGATCTAAACTTAGGAGTGTTATTTTTAATAAAATTAGGTTCAATTAAAAAA
194 TTTAGTCCTAATTTGATCTAAACTTAGGAGTGTTATTTTTAATAAAATTAGGTTCAATTAAAAAA
2651144 TTTACACGTAATTGTAG
259 TTTACACGTAATTGTAG
2651161 A
1 A
2651162 CTCTCTATTT
Statistics
Matches: 273, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
275 76 0.28
276 192 0.70
277 5 0.02
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (275 bp):
AAACTTTTGAAACAAAGCATATGAATATAAACAACTAACTCATAAAAGGATTATCAAGGTTTTTT
TTTTTTTTTTTTAGTTATAGATTATCAAGGTTTAAGACTTGAGTGCAAATTGTAATTGATCAAGT
TAATGTTTTGTTCATGGTCGTAGACAGTTTATTTAGACTTGGGCTTTATTAGTTAGAATTAATTT
TAGTCCTAATTTGATCTAAACTTAGGAGTGTTATTTTTAATAAAATTAGGTTCAATTAAAAAATT
TACACGTAATTGTAG
Found at i:2651333 original size:13 final size:12
Alignment explanation
Indices: 2651305--2651350 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
2651295 TTTGGCTTAA
*
2651305 TTTTTAGTTTAG
1 TTTTTAGTTTAT
2651317 TTTTTAGTTTAT
1 TTTTTAGTTTAT
*
2651329 TTTTTATTTTTAT
1 TTTTTA-GTTTAT
2651342 TTTTT-GTTT
1 TTTTTAGTTT
2651351 TATTGTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 3 0.10
12 17 0.57
13 10 0.33
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (12 bp):
TTTTTAGTTTAT
Found at i:2651340 original size:18 final size:18
Alignment explanation
Indices: 2651312--2651361 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
2651302 TAATTTTTAG
2651312 TTTAGTTTTTAGTTTATT-T
1 TTTA-TTTTTA-TTTATTGT
*
2651331 TTTATTTTTATTTTTTGT
1 TTTATTTTTATTTATTGT
*
2651349 TTTATTGTTATTT
1 TTTATTTTTATTT
2651362 TTTTAAGGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.18
18 19 0.68
19 4 0.14
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTATTTTTATTTATTGT
Found at i:2651362 original size:18 final size:18
Alignment explanation
Indices: 2651330--2651364 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2651320 TTAGTTTATT
*
2651330 TTTTATTTTTATTTTTTG
1 TTTTATTGTTATTTTTTG
2651348 TTTTATTGTTATTTTTT
1 TTTTATTGTTATTTTTT
2651365 TAAGGTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTATTGTTATTTTTTG
Found at i:2651728 original size:16 final size:15
Alignment explanation
Indices: 2651703--2651732 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2651693 GAAGAAATCA
2651703 AGCAATAAACAATTG
1 AGCAATAAACAATTG
2651718 AGCACATAAACAATT
1 AGCA-ATAAACAATT
2651733 TAAGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (15 bp):
AGCAATAAACAATTG
Found at i:2653493 original size:15 final size:15
Alignment explanation
Indices: 2653475--2653558 Score: 55
Period size: 15 Copynumber: 5.4 Consensus size: 15
2653465 AGAGTTTCAA
2653475 AGTTTAAGGTTTTAG
1 AGTTTAAGGTTTTAG
*
2653490 AGTTTCAA-GATTTAG
1 AGTTT-AAGGTTTTAG
*
2653505 -GATTTCAAGGTTTTAT
1 AG-TTT-AAGGTTTTAG
* * *
2653521 AGTTTCAGGGTGTAG
1 AGTTTAAGGTTTTAG
2653536 AGTTTTTAAGGTTTTAG
1 AG--TTTAAGGTTTTAG
*
2653553 GGTTTA
1 AGTTTA
2653559 TGATTTTAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
14 1 0.02
15 29 0.56
16 10 0.19
17 12 0.23
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.45
Consensus pattern (15 bp):
AGTTTAAGGTTTTAG
Found at i:2653549 original size:24 final size:23
Alignment explanation
Indices: 2653522--2653572 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2653512 AGGTTTTATA
2653522 GTTTCAGGGTGTA-GAGTTTTTAAG
1 GTTTCAGGGTGTATGA--TTTTAAG
* *
2653546 GTTTTAGGGTTTATGATTTTAAG
1 GTTTCAGGGTGTATGATTTTAAG
2653569 GTTT
1 GTTT
2653573 ACGATTCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 11 0.46
25 2 0.08
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (23 bp):
GTTTCAGGGTGTATGATTTTAAG
Found at i:2653596 original size:30 final size:31
Alignment explanation
Indices: 2653560--2653634 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
2653550 TAGGGTTTAT
*
2653560 GATTTTAAGGTTTACGATTCA-AGTTCTTAG
1 GATTTTAAGGTTTAAGATTCAGAGTTCTTAG
*
2653590 GATTTT-AGGATTTAAGGTTCAGAGTTCTTAG
1 GATTTTAAGG-TTTAAGATTCAGAGTTCTTAG
*
2653621 AATTTTAAGGTTTA
1 GATTTTAAGGTTTA
2653635 GGGTTTAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.08
30 15 0.38
31 18 0.46
32 3 0.08
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (31 bp):
GATTTTAAGGTTTAAGATTCAGAGTTCTTAG
Found at i:2656079 original size:18 final size:19
Alignment explanation
Indices: 2656056--2656093 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2656046 ATTAATAAAA
2656056 TTAAAAATGAAAT-TGGGT
1 TTAAAAATGAAATATGGGT
*
2656074 TTAAAATTGAAATATGGGT
1 TTAAAAATGAAATATGGGT
2656093 T
1 T
2656094 CTATTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
TTAAAAATGAAATATGGGT
Found at i:2656628 original size:19 final size:19
Alignment explanation
Indices: 2656606--2656679 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
2656596 AATATTTATA
2656606 ATTTGCATGTTTTGATTTT
1 ATTTGCATGTTTTGATTTT
* *
2656625 ATTTGCATTTTTTTGTGATATT
1 ATTTGCA--TGTTT-TGATTTT
*
2656647 -TTTGCATGTTGTT-AATTT
1 ATTTGCATGTT-TTGATTTT
2656665 ATTTGCATGATTTTG
1 ATTTGCATG-TTTTG
2656680 CATAAATCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
18 3 0.07
19 21 0.49
20 3 0.07
21 10 0.23
22 6 0.14
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (19 bp):
ATTTGCATGTTTTGATTTT
Found at i:2656731 original size:30 final size:29
Alignment explanation
Indices: 2656695--2656751 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2656685 ATCTAATTTT
* *
2656695 TTTTGGCCTAATTATTATATTTGCATGACA
1 TTTTGGCATAA-TATTATAGTTGCATGACA
*
2656725 TTTTGGCATGATATTATAGTTGCATGA
1 TTTTGGCATAATATTATAGTTGCATGA
2656752 TTTATTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.46
Consensus pattern (29 bp):
TTTTGGCATAATATTATAGTTGCATGACA
Found at i:2657856 original size:33 final size:31
Alignment explanation
Indices: 2657819--2657879 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
2657809 CTCCCTATTA
*
2657819 AAAATGTTTAAGAGAAAAATAAAAAACATTAAT
1 AAAAT-TTTAA-AGAAAAAAAAAAAACATTAAT
2657852 AAAATTTTAAAGAAAAAAAAAAAACATT
1 AAAATTTTAAAGAAAAAAAAAAAACATT
2657880 GGCAGCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 17 0.63
32 5 0.19
33 5 0.19
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (31 bp):
AAAATTTTAAAGAAAAAAAAAAAACATTAAT
Found at i:2662996 original size:6 final size:6
Alignment explanation
Indices: 2662985--2663016 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2662975 TTTTCTATAG
*
2662985 TTTTTC TTTTTC TTTTTC TTTTCC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
2663017 GCTTTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:2663611 original size:11 final size:11
Alignment explanation
Indices: 2663592--2663635 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
2663582 AATTATAATT
2663592 TAAAA-TTATA
1 TAAAATTTATA
2663602 TAAAATTTAT-
1 TAAAATTTATA
*
2663612 TAAAATTTTGTA
1 TAAAA-TTTATA
2663624 TAAAATTTATA
1 TAAAATTTATA
2663635 T
1 T
2663636 TTATAAGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 10 0.34
11 14 0.48
12 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:2664702 original size:23 final size:22
Alignment explanation
Indices: 2664675--2664737 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
2664665 TAGATGTTTC
2664675 AAAATTATATCATTTTAATATTT
1 AAAATTATAT-ATTTTAATATTT
* * * *
2664698 AAAATTTTTATTTTTTTATTTTT
1 AAAA-TTATATATTTTAATATTT
*
2664721 AAAATTATA-ATTATAAT
1 AAAATTATATATTTTAAT
2664738 TTTTTTATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 5 0.16
22 4 0.13
23 17 0.55
24 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATTATATATTTTAATATTT
Found at i:2665107 original size:15 final size:16
Alignment explanation
Indices: 2665078--2665107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2665068 TGTAAAAGGT
2665078 AAAAGAAATTTGATTG
1 AAAAGAAATTTGATTG
2665094 AAAAGAAA-TTGATT
1 AAAAGAAATTTGATT
2665108 AATATTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (16 bp):
AAAAGAAATTTGATTG
Found at i:2666078 original size:20 final size:20
Alignment explanation
Indices: 2666042--2666111 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
2666032 TGTACTTTGA
*
2666042 ATAAATATTTTTTATTATTAT
1 ATAAATA-TTATTATTATTAT
2666063 ATAAATATTATTATTATTAT
1 ATAAATATTATTATTATTAT
* *
2666083 AT-ATTATTATATATT-TTTT
1 ATAAATATTAT-TATTATTAT
*
2666102 ATCAATATTA
1 ATAAATATTA
2666112 AGTTTATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
19 12 0.28
20 24 0.56
21 7 0.16
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
ATAAATATTATTATTATTAT
Found at i:2666111 original size:30 final size:30
Alignment explanation
Indices: 2666045--2666111 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
2666035 ACTTTGAATA
* * *
2666045 AATATTTTTTATTATTATATAAATATTATT
1 AATATTATATATTATTATATAAATATTATC
* ** *
2666075 ATTATTATATATTATTATATATTTTTTATC
1 AATATTATATATTATTATATAAATATTATC
2666105 AATATTA
1 AATATTA
2666112 AGTTTATGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
AATATTATATATTATTATATAAATATTATC
Found at i:2667287 original size:18 final size:20
Alignment explanation
Indices: 2667259--2667298 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2667249 TGGTACTATG
2667259 AAAACAA-TTTTAAGAAAAT
1 AAAACAATTTTTAAGAAAAT
*
2667278 AAAA-AATTTTTTAGAAAAT
1 AAAACAATTTTTAAGAAAAT
2667297 AA
1 AA
2667299 TTGTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAACAATTTTTAAGAAAAT
Found at i:2671403 original size:21 final size:21
Alignment explanation
Indices: 2671379--2671445 Score: 84
Period size: 23 Copynumber: 3.1 Consensus size: 21
2671369 TTTTTATCTG
2671379 AATTCATATTTTTTCTCTAAA
1 AATTCATATTTTTTCTCTAAA
*
2671400 AATTTATACTTTCTTTCTCTAAA
1 AATTCATA-TTT-TTTCTCTAAA
2671423 AATTC--ATTTTTTCTCTTAAA
1 AATTCATATTTTTTCTC-TAAA
2671443 AAT
1 AAT
2671446 CAAACAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.15
20 10 0.24
21 8 0.20
22 3 0.07
23 14 0.34
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTCATATTTTTTCTCTAAA
Found at i:2671594 original size:21 final size:21
Alignment explanation
Indices: 2671565--2671604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2671555 CATCCTTAAC
*
2671565 TCATTCTCTCTCTCTAAAAAT
1 TCATACTCTCTCTCTAAAAAT
*
2671586 TCATACTCTCTCTTTAAAA
1 TCATACTCTCTCTCTAAAA
2671605 CCACTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCATACTCTCTCTCTAAAAAT
Found at i:2674078 original size:21 final size:20
Alignment explanation
Indices: 2674037--2674088 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
2674027 TATGTGTGAG
2674037 TTTAGTTTAATTTAATGTTAAA
1 TTTA-TTTAATTTAATGTT-AA
*
2674059 TTTATTTAA-TTATATTTTAA
1 TTTATTTAATTTA-ATGTTAA
2674079 TTTA-TTAATT
1 TTTATTTAATT
2674089 GATTGTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 10 0.37
21 9 0.33
22 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTATTTAATTTAATGTTAA
Found at i:2676120 original size:25 final size:26
Alignment explanation
Indices: 2676091--2676146 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
2676081 ATTTATAAAC
*
2676091 TTTATTAATTTTAT-TT-AAATAAGTA
1 TTTATT-ATTTTATATTCAAATAAATA
*
2676116 TTTA-TATTTTATATTCAAATAAATT
1 TTTATTATTTTATATTCAAATAAATA
2676141 TTTATT
1 TTTATT
2676147 TCAAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 3 0.12
25 15 0.58
26 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATTATTTTATATTCAAATAAATA
Found at i:2676205 original size:30 final size:30
Alignment explanation
Indices: 2676169--2676234 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
2676159 TCAAATTAAT
*
2676169 TTAAAAGCTT-ATTTAAATA-CAAATTAAAAG
1 TTAAAAG-TTAATTTAAATATC-AATTAAAAA
*
2676199 TTAAAAGTTAATTTAAGTATCAATTAAAAA
1 TTAAAAGTTAATTTAAATATCAATTAAAAA
2676229 TTAAAA
1 TTAAAA
2676235 ATTTATTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.06
30 29 0.91
31 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (30 bp):
TTAAAAGTTAATTTAAATATCAATTAAAAA
Found at i:2676365 original size:52 final size:52
Alignment explanation
Indices: 2676278--2676377 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
2676268 TATTAAAATA
2676278 TAATAAAAATATAGAGATTTATTTAAGTAAAATGATAAAGTTATTTTTTTAAT
1 TAATAAAAATATAGAGATTTATTTAAGTAAAATGATAAAGTT-TTTTTTTAAT
*
2676331 TAATAAACATATAGAGA-TTATTTAAGTAAAATGATAAAGTTTTTTTT
1 TAATAAAAATATAGAGATTTATTTAAGTAAAATGATAAAGTTTTTTTT
2676378 AAAATTGTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 6 0.13
52 24 0.52
53 16 0.35
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.43
Consensus pattern (52 bp):
TAATAAAAATATAGAGATTTATTTAAGTAAAATGATAAAGTTTTTTTTTAAT
Found at i:2679376 original size:29 final size:28
Alignment explanation
Indices: 2679322--2679381 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
2679312 ATATTTTTAA
* **
2679322 TATTTCAATAATAAATAGTATTATATTAT
1 TATTTCAATAATAAATAATAACATA-TAT
*
2679351 TATTTTAATAATAAATAATAACATATAT
1 TATTTCAATAATAAATAATAACATATAT
2679379 TAT
1 TAT
2679382 AATATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
TATTTCAATAATAAATAATAACATATAT
Found at i:2679380 original size:36 final size:35
Alignment explanation
Indices: 2679328--2679433 Score: 99
Period size: 36 Copynumber: 2.8 Consensus size: 35
2679318 TTAATATTTC
2679328 AATAATAAATAGTATTATATTATTATTTTAATAATA
1 AATAATAAATA-TATTATATTATTATTTTAATAATA
2679364 AATAATAACATATATTATAATATTTTATTATTTTAATAATTA
1 AATAATAA-ATATA-T-T-ATA--TTATTATTTTAATAA-TA
*
2679406 ATATAATATAATATA--ATATTTTTATTTT
1 A-ATAATA-AATATATTATATTATTATTTT
2679434 CTTAATATGG
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
36 19 0.32
37 4 0.07
38 4 0.07
39 3 0.05
41 15 0.25
42 3 0.05
43 11 0.18
44 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (35 bp):
AATAATAAATATATTATATTATTATTTTAATAATA
Found at i:2679397 original size:41 final size:39
Alignment explanation
Indices: 2679347--2679440 Score: 120
Period size: 41 Copynumber: 2.4 Consensus size: 39
2679337 TAGTATTATA
*
2679347 TTATTATTTTAATAATAAATAATAACATATATTATAATA-TT
1 TTATTATTTTAATAATAAAT-AT-A-ATATAATATAATATTT
*
2679388 TTATTATTTTAATAATTAATATAATATAATATAATATTT
1 TTATTATTTTAATAATAAATATAATATAATATAATATTT
2679427 TTATT-TTCTTAATA
1 TTATTATT-TTAATA
2679441 TGGATTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
38 14 0.29
39 14 0.29
40 2 0.04
41 19 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (39 bp):
TTATTATTTTAATAATAAATATAATATAATATAATATTT
Found at i:2679598 original size:22 final size:22
Alignment explanation
Indices: 2679573--2679615 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2679563 TGATTTACTA
2679573 ATAAATACTTTAAAT-ATAAAAT
1 ATAAATA-TTTAAATAATAAAAT
*
2679595 ATAAATATTTTAATAATAAAA
1 ATAAATATTTAAATAATAAAA
2679616 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAATATTTAAATAATAAAAT
Found at i:2679625 original size:14 final size:15
Alignment explanation
Indices: 2679597--2679635 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
2679587 TATAAAATAT
*
2679597 AAATATTTTAATAATAA
1 AAATATTTTAAT-A-AC
2679614 AAATATTTTAATAAC
1 AAATATTTTAATAAC
2679629 AAATATT
1 AAATATT
2679636 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 1 0.05
17 12 0.57
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATTTTAATAAC
Found at i:2679635 original size:15 final size:17
Alignment explanation
Indices: 2679592--2679627 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2679582 TTAAATATAA
*
2679592 AATATAAATATTTTAAT
1 AATAAAAATATTTTAAT
2679609 AATAAAAATATTTTAAT
1 AATAAAAATATTTTAAT
2679626 AA
1 AA
2679628 CAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAAATATTTTAAT
Found at i:2679677 original size:23 final size:24
Alignment explanation
Indices: 2679623--2679677 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
2679613 AAAATATTTT
* * *
2679623 AATAACAAATATTATTATTTTAAT
1 AATAATAAATATTAATATTTTAAC
* *
2679647 ATTGATAAA-ATTAATATTTTAAC
1 AATAATAAATATTAATATTTTAAC
2679670 AATAATAA
1 AATAATAA
2679678 TACTATTTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
AATAATAAATATTAATATTTTAAC
Found at i:2679840 original size:26 final size:26
Alignment explanation
Indices: 2679811--2679867 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2679801 TATTAATAAT
2679811 TTTAATAATAAATAAT-TTTTATATAC
1 TTTAATAATAAATAATATTTTA-ATAC
***
2679837 TTTAATAATTTTTAATATTTTAATAC
1 TTTAATAATAAATAATATTTTAATAC
2679863 TTTAA
1 TTTAA
2679868 CAAGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTAATAATAAATAATATTTTAATAC
Found at i:2679843 original size:19 final size:18
Alignment explanation
Indices: 2679803--2679861 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
2679793 TTCTTGAATA
*
2679803 TTAATAA-TTTTAATA-A
1 TTAATAATTTTTAATACT
*
2679819 TAAATAATTTTTATATACT
1 TTAATAATTTTTA-ATACT
*
2679838 TTAATAATTTTTAATATT
1 TTAATAATTTTTAATACT
2679856 TTAATA
1 TTAATA
2679862 CTTTAACAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 6 0.17
17 5 0.14
18 13 0.36
19 12 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATAATTTTTAATACT
Found at i:2679852 original size:10 final size:9
Alignment explanation
Indices: 2679803--2679861 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
2679793 TTCTTGAATA
2679803 TTAATAATT
1 TTAATAATT
2679812 TTAATAA--
1 TTAATAATT
*
2679819 TAAATAATT
1 TTAATAATT
* *
2679828 TTTATATACT
1 TTAATA-ATT
2679838 TTAATAATTT
1 TTAATAA-TT
2679848 TTAAT-ATT
1 TTAATAATT
2679856 TTAATA
1 TTAATA
2679862 CTTTAACAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
7 6 0.15
8 7 0.18
9 13 0.33
10 13 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TTAATAATT
Found at i:2679875 original size:26 final size:26
Alignment explanation
Indices: 2679823--2679875 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2679813 TAATAATAAA
* *
2679823 TAATTTTTATATACTTTAATAATTTT
1 TAATTTTTATATACTTTAACAAGTTT
2679849 TAATATTTTA-ATACTTTAACAAGTTT
1 TAAT-TTTTATATACTTTAACAAGTTT
2679875 T
1 T
2679876 TAGAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATTTTTATATACTTTAACAAGTTT
Found at i:2684836 original size:112 final size:109
Alignment explanation
Indices: 2684596--2684871 Score: 268
Period size: 112 Copynumber: 2.5 Consensus size: 109
2684586 TAAAGTTCAC
* * *
2684596 GTTTTAAAGATAAAAATATGA-TTTTTTTTGTAAATATGAAAAAATATATTTCTAAAATTTAATA
1 GTTTTTAA-ATAAAAAT-TGAGTTTTTATTGAAAATATG-AAAAATATATTT-TAAAATTTAATA
** * * *
2684660 AAAATGATGTAAATAAGATAGAAAATGCAGTTTTTATTAAAAATACAAT
62 AAAATGACATAAATAAGATAAAAAAT-CAGTGTTTATTAAAAAGACAAT
* * *
2684709 GTTTCTAAATGAAAATTGTAGTTTTTGTTGAAAATATGAAAAATATAGTTTTAAAATTTAATAAA
1 GTTTTTAAATAAAAATTG-AGTTTTTATTGAAAATATGAAAAATATA-TTTTAAAATTTAATAAA
*** * * *
2684774 AATGACATTTTTAAGATAAAAACAT-AGTGTTTGTTGAAAAGACTAT
64 AATGACATAAATAAGATAAAAA-ATCAGTGTTTATTAAAAAGACAAT
** *
2684820 GTTTTTAATATAAAAATACAGTTTTTATTGAAAATATAAAAAAATATATTTT
1 GTTTTTAA-ATAAAAATTGAGTTTTTATTGAAAATAT-GAAAAATATATTTT
2684872 TTAGAATTCA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
111 46 0.34
112 63 0.47
113 26 0.19
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (109 bp):
GTTTTTAAATAAAAATTGAGTTTTTATTGAAAATATGAAAAATATATTTTAAAATTTAATAAAAA
TGACATAAATAAGATAAAAAATCAGTGTTTATTAAAAAGACAAT
Found at i:2684896 original size:111 final size:110
Alignment explanation
Indices: 2684728--2684970 Score: 255
Period size: 111 Copynumber: 2.2 Consensus size: 110
2684718 TGAAAATTGT
* * *
2684728 AGTTTTTGTTGAAAATAT-GAAAAATATAGTTTTAAAATTTAATAAAAATGACATTTTTAAGATA
1 AGTTTTTATTGAAAATATAAAAAAATATAGTTTTAAAATTCAATAAAAA-GACATTTTTAA-ATA
* * *
2684792 AAAACATAGTGTTTGTT-GAAAA-GACTATGTTTTTA-ATATAAAAATAC
64 AAAACATAATGTTTGTTAAAAAATGACT-T-TTTTAAGATA-AAAAATAC
* * ** *
2684839 AGTTTTTATTGAAAATATAAAAAAATATATTTTTTAGAATTCAATAAAAA-AGTTTTTTAAATTA
1 AGTTTTTATTGAAAATATAAAAAAATATA-GTTTTAAAATTCAATAAAAAGACATTTTTAAATAA
* * *
2684903 AAACTTAATTTTTGTTAAAAAATGACTTTTTTAAGATAAAAAATAT
65 AAACATAATGTTTGTTAAAAAATGACTTTTTTAAGATAAAAAATAC
*
2684949 AG-TTTTATTAAAAATATAAAAA
1 AGTTTTTATTGAAAATATAAAAA
2684971 TATAAAATAT
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
109 19 0.17
110 30 0.27
111 33 0.29
112 13 0.12
113 17 0.15
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (110 bp):
AGTTTTTATTGAAAATATAAAAAAATATAGTTTTAAAATTCAATAAAAAGACATTTTTAAATAAA
AACATAATGTTTGTTAAAAAATGACTTTTTTAAGATAAAAAATAC
Found at i:2685050 original size:37 final size:37
Alignment explanation
Indices: 2684972--2685052 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
2684962 ATATAAAAAT
** * * **
2684972 ATAAAATATAAAATATTTTTATTTAATATTATTACGT
1 ATAAAATATAAAATACATTTACTTAATATTATCACAC
*
2685009 ATAAAATCTAAAATACATTTACTTAATATTATCACAC
1 ATAAAATATAAAATACATTTACTTAATATTATCACAC
2685046 ATAAAAT
1 ATAAAAT
2685053 TTATTTCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (37 bp):
ATAAAATATAAAATACATTTACTTAATATTATCACAC
Found at i:2687848 original size:2 final size:2
Alignment explanation
Indices: 2687841--2687871 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2687831 TTAAGTTCAA
2687841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2687872 CAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2689710 original size:22 final size:21
Alignment explanation
Indices: 2689653--2689716 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
2689643 AAAATACAAA
* *
2689653 AATAATATAAATTA-AAATTTT
1 AATAAAATAAAATATAAA-TTT
* *
2689674 AATAAAATTATATATAAATTT
1 AATAAAATAAAATATAAATTT
*
2689695 AATAAAAATAAAATATACATTT
1 AAT-AAAATAAAATATAAATTT
2689717 TGTTTTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAAAATAAAATATAAATTT
Found at i:2690322 original size:21 final size:21
Alignment explanation
Indices: 2690297--2690341 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2690287 AAAAATTTAT
*
2690297 AATAAAT-ATCAACAATGATAA
1 AATAAATAATCAACAA-AATAA
2690318 AATAAATAATCAACAAAATAA
1 AATAAATAATCAACAAAATAA
2690339 AAT
1 AAT
2690342 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAAATAATCAACAAAATAA
Found at i:2695492 original size:34 final size:34
Alignment explanation
Indices: 2695444--2695510 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
2695434 ACCCAAATAT
2695444 AAACATTTACTGATGAGATTTTTTGTTGGTATAC
1 AAACATTTACTGATGAGATTTTTTGTTGGTATAC
*
2695478 AAACTTTTACTGATGAGATTTTTTGTTGGTATA
1 AAACATTTACTGATGAGATTTTTTGTTGGTATA
2695511 ACACTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.46
Consensus pattern (34 bp):
AAACATTTACTGATGAGATTTTTTGTTGGTATAC
Found at i:2695517 original size:33 final size:32
Alignment explanation
Indices: 2695441--2695517 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 32
2695431 CAAACCCAAA
*
2695441 TATAAACATTTACTGATGAGATTTTTTGTTGG
1 TATAAACTTTTACTGATGAGATTTTTTGTTGG
2695473 TATACAAACTTTTACTGATGAGATTTTTTGTTGG
1 TAT--AAACTTTTACTGATGAGATTTTTTGTTGG
2695507 TATAACACTTT
1 TATAA-ACTTT
2695518 ACAAAGGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 5 0.12
33 5 0.12
34 31 0.76
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (32 bp):
TATAAACTTTTACTGATGAGATTTTTTGTTGG
Found at i:2701238 original size:22 final size:23
Alignment explanation
Indices: 2701213--2701256 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2701203 ATGCAGTGAA
2701213 AAAAATGA-AAAGAAAAAAAAAG
1 AAAAATGAGAAAGAAAAAAAAAG
*
2701235 AAAAATGATGAAATAAAAAAAA
1 AAAAATGA-GAAAGAAAAAAAA
2701257 TTCAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAAATGAGAAAGAAAAAAAAAG
Found at i:2702285 original size:21 final size:21
Alignment explanation
Indices: 2702259--2702386 Score: 94
Period size: 23 Copynumber: 5.8 Consensus size: 21
2702249 TTTGAATCTT
*
2702259 TTTTAAATGCGAATCTTTGAA
1 TTTTAAATGTGAATCTTTGAA
* * * *
2702280 TTTTAAATATAAATCTCTAAA
1 TTTTAAATGTGAATCTTTGAA
* ** * *
2702301 TTTTTTGAATGAAAATCTCTAAA
1 --TTTTAAATGTGAATCTTTGAA
*
2702324 TTTTAAATGTGAATATTTGAA
1 TTTTAAATGTGAATCTTTGAA
2702345 TTTTTAAAATGTGAATCTTTGAAA
1 -TTTT-AAATGTGAATCTTTG-AA
*
2702369 TTTGAAAATGTGAATCTT
1 TTT-TAAATGTGAATCTT
2702387 AAATTTTTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
21 31 0.36
22 4 0.05
23 48 0.56
24 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (21 bp):
TTTTAAATGTGAATCTTTGAA
Found at i:2702659 original size:52 final size:49
Alignment explanation
Indices: 2702540--2702671 Score: 129
Period size: 52 Copynumber: 2.6 Consensus size: 49
2702530 AATTATTTAT
* * * * *
2702540 AAATCTTTATGGTTGTGAATTTTCAACTCTTATGAATTTTTAAATCTAC
1 AAATCTTTATGATTATGAATTTTGAACTCTTACGAATTTGTAAATCTAC
** * *
2702589 AAATCTTTGAGTTTTTATGAATATTTGAATTCTTGCGAATTTGTAAGATCTTAC
1 AAATCTTT-A-TGATTATGAAT-TTTGAACTCTTACGAATTTGTAA-ATC-TAC
2702643 AAATCTTTATGATTATGAATCTTTGAACT
1 AAATCTTTATGATTATGAAT-TTTGAACT
2702672 ATTGTGAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
49 8 0.12
50 1 0.02
51 8 0.12
52 34 0.52
53 4 0.06
54 11 0.17
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (49 bp):
AAATCTTTATGATTATGAATTTTGAACTCTTACGAATTTGTAAATCTAC
Found at i:2702723 original size:18 final size:18
Alignment explanation
Indices: 2702702--2702822 Score: 102
Period size: 18 Copynumber: 6.7 Consensus size: 18
2702692 GCAAATCTTA
*
2702702 GAATTTTTGTGAATCATT
1 GAATTCTTGTGAATCATT
*
2702720 GAATTCTTGAGAAT-ATTT
1 GAATTCTTGTGAATCA-TT
* *
2702738 GAATTCTTGCGAATCTTT
1 GAATTCTTGTGAATCATT
* *
2702756 GAAATCTTATGAAT-ATTT
1 GAATTCTTGTGAATCA-TT
**
2702774 GAATTCTTGTGAATTTTT
1 GAATTCTTGTGAATCATT
* * **
2702792 GAGTTTTTGCAAATCATT
1 GAATTCTTGTGAATCATT
2702810 GAATTCTTGTGAA
1 GAATTCTTGTGAA
2702823 CCTTTGGATT
Statistics
Matches: 78, Mismatches: 21, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
17 1 0.01
18 77 0.99
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (18 bp):
GAATTCTTGTGAATCATT
Found at i:2702755 original size:105 final size:103
Alignment explanation
Indices: 2702540--2702733 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 103
2702530 AATTATTTAT
* * * * * *
2702540 AAATCTTTATGGTTGTGAATTTTCAACTCTTATGAATTTTTAAATCTACAAATCTTTGAGTTTTT
1 AAATCTTTATGATTATGAATTTTCAACTATTATGAATATTTAAATCTACAAATCTTAGAATTTTT
*
2702605 ATGAATATTTGAATTCTTGCGAATTTGTAAGATCTTAC
66 ATGAATATTTGAATTCTTGAGAATTTGTAAGATCTTAC
* * *
2702643 AAATCTTTATGATTATGAATCTTTGAACTATTGTGAATATTTAAATCTCGCAAATCTTAGAATTT
1 AAATCTTTATGATTATGAAT-TTTCAACTATTATGAATATTTAAATCT-ACAAATCTTAGAATTT
*
2702708 TTGTGAATCA-TTGAATTCTTGAGAAT
64 TTATGAAT-ATTTGAATTCTTGAGAAT
2702734 ATTTGAATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 18 0.23
104 23 0.30
105 35 0.45
106 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (103 bp):
AAATCTTTATGATTATGAATTTTCAACTATTATGAATATTTAAATCTACAAATCTTAGAATTTTT
ATGAATATTTGAATTCTTGAGAATTTGTAAGATCTTAC
Found at i:2702793 original size:36 final size:36
Alignment explanation
Indices: 2702659--2702828 Score: 125
Period size: 36 Copynumber: 4.8 Consensus size: 36
2702649 TTATGATTAT
* * * * *
2702659 GAATCTTTGAACTATTGTGAATATTT-AAATCTCGCA
1 GAATATTTGAATTCTTGTGAATCTTTGAAATCTTG-A
* * * * *
2702695 -AATCTTAGAATTTTTGTGAATCATTGAATTCTTGA
1 GAATATTTGAATTCTTGTGAATCTTTGAAATCTTGA
*
2702730 GAATATTTGAATTCTTGCGAATCTTTGAAATCTT-A
1 GAATATTTGAATTCTTGTGAATCTTTGAAATCTTGA
* ** *
2702765 TGAATATTTGAATTCTTGTGAATTTTTGAGTTTTTGCA
1 -GAATATTTGAATTCTTGTGAATCTTTGAAATCTTG-A
*
2702803 -AATCA-TTGAATTCTTGTGAACCTTTG
1 GAAT-ATTTGAATTCTTGTGAATCTTTG
2702829 GATTTTTATG
Statistics
Matches: 108, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
35 22 0.20
36 84 0.78
37 1 0.01
38 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (36 bp):
GAATATTTGAATTCTTGTGAATCTTTGAAATCTTGA
Found at i:2702793 original size:54 final size:53
Alignment explanation
Indices: 2702567--2702787 Score: 175
Period size: 54 Copynumber: 4.2 Consensus size: 53
2702557 AATTTTCAAC
* * * ** *
2702567 TCTTATGAATTTTTAAATC-TACAAATCTTTGAGTTTTTATGAATATTTGAAT
1 TCTTGTGAATATTTAAATCTTGCAAATCTTTGAAATCTTATGAATATTTGAAT
* * * * *
2702619 TCTTGCGAAT-TTGTAAGATCTTACAAATCTTT---ATGATTATGAATCTTTGAAC
1 TCTTGTGAATATT-TAA-ATCTTGCAAATCTTTGAAAT-CTTATGAATATTTGAAT
* * * * * *
2702671 TATTGTGAATATTTAAATCTCGCAAATCTTAGAATTTTTGTGAATCA-TTGAAT
1 TCTTGTGAATATTTAAATCTTGCAAATCTTTGAAATCTTATGAAT-ATTTGAAT
* * *
2702724 TCTTGAGAATATTTGAATTCTTGCGAATCTTTGAAATCTTATGAATATTTGAAT
1 TCTTGTGAATATTT-AAATCTTGCAAATCTTTGAAATCTTATGAATATTTGAAT
2702778 TCTTGTGAAT
1 TCTTGTGAAT
2702788 TTTTGAGTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
51 15 0.11
52 36 0.27
53 30 0.23
54 51 0.39
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (53 bp):
TCTTGTGAATATTTAAATCTTGCAAATCTTTGAAATCTTATGAATATTTGAAT
Found at i:2702812 original size:54 final size:54
Alignment explanation
Indices: 2702655--2702822 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 54
2702645 ATCTTTATGA
* * * * * * * *
2702655 TTATGAATCTTTGAACTATTGTGAATATTT-AAATCTCGCAAATC-TTAGAATTT
1 TTATGAATATTTGAATTCTTGAGAATATTTGAATTCTTGCAAATCATT-GAAATC
* * *
2702708 TTGTGAATCA-TTGAATTCTTGAGAATATTTGAATTCTTGCGAATCTTTGAAATC
1 TTATGAAT-ATTTGAATTCTTGAGAATATTTGAATTCTTGCAAATCATTGAAATC
* * * * *
2702762 TTATGAATATTTGAATTCTTGTGAATTTTTGAGTTTTTGCAAATCATTGAATTC
1 TTATGAATATTTGAATTCTTGAGAATATTTGAATTCTTGCAAATCATTGAAATC
*
2702816 TTGTGAA
1 TTATGAA
2702823 CCTTTGGATT
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
53 25 0.27
54 65 0.71
55 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (54 bp):
TTATGAATATTTGAATTCTTGAGAATATTTGAATTCTTGCAAATCATTGAAATC
Found at i:2702859 original size:19 final size:19
Alignment explanation
Indices: 2702832--2702874 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2702822 ACCTTTGGAT
* *
2702832 TTTTATGAATCTTAAAAAC
1 TTTTGTGAATATTAAAAAC
*
2702851 TTTTGTGAATATTAAAAAT
1 TTTTGTGAATATTAAAAAC
2702870 TTTTG
1 TTTTG
2702875 CAAATCTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (19 bp):
TTTTGTGAATATTAAAAAC
Found at i:2702978 original size:22 final size:22
Alignment explanation
Indices: 2702953--2703044 Score: 53
Period size: 21 Copynumber: 4.2 Consensus size: 22
2702943 ATTATTGTTT
2702953 TGAATTTTTTAAATTCAAATTG
1 TGAATTTTTTAAATTCAAATTG
* * *
2702975 TGAA-CTTTTGAATTCCAAAATG
1 TGAATTTTTTAAATT-CAAATTG
** * * *
2702997 CAAAATTTTGAAGTTC-AATTG
1 TGAATTTTTTAAATTCAAATTG
** **
2703018 CAAATTTTTTATTTTCAAATTG
1 TGAATTTTTTAAATTCAAATTG
2703040 TGAAT
1 TGAAT
2703045 CCTTAATTTT
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
21 24 0.47
22 21 0.41
23 6 0.12
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (22 bp):
TGAATTTTTTAAATTCAAATTG
Found at i:2703330 original size:12 final size:12
Alignment explanation
Indices: 2703313--2703337 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2703303 TTAATCTTTG
2703313 TCATTATATTTA
1 TCATTATATTTA
2703325 TCATTATATTTA
1 TCATTATATTTA
2703337 T
1 T
2703338 TTATCTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTATATTTA
Found at i:2703340 original size:16 final size:16
Alignment explanation
Indices: 2703319--2703368 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
2703309 TTTGTCATTA
2703319 TATTTATCATTATATT
1 TATTTATCATTATATT
2703335 TATTTATC--T-TATT
1 TATTTATCATTATATT
* * *
2703348 TATTTTTTATTATATC
1 TATTTATCATTATATT
2703364 TATTT
1 TATTT
2703369 TTATTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATCATTATATT
Found at i:2703358 original size:20 final size:19
Alignment explanation
Indices: 2703328--2703379 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
2703318 ATATTTATCA
2703328 TTATATTTATTTATCTTATTT
1 TTAT-TTTATTTATC-TATTT
2703349 ATT-TTTTATTATATCTATTT
1 -TTATTTTATT-TATCTATTT
2703369 TTATTTTATTT
1 TTATTTTATTT
2703380 TATTTCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.11
20 18 0.64
21 5 0.18
22 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTATTTATCTATTT
Found at i:2703421 original size:3 final size:3
Alignment explanation
Indices: 2703413--2703450 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2703403 CTTTTTAACC
2703413 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2703451 GAAAAAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2710749 original size:117 final size:114
Alignment explanation
Indices: 2710208--2710832 Score: 756
Period size: 117 Copynumber: 5.4 Consensus size: 114
2710198 TTTTGTAGGA
2710208 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTGAAATTTCGATTT-TCAAGG-AAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTT--ATTTCT-AAGGAAAAT
* * *
2710269 TTATACTTTCAACTTTT-CCTCAAAACCCT-TTTTTTGAAAATTTATTTCTAAGG
63 TGATACTTTCAACTTTTCCCT-AAAA--ATATTTTTTGGAAATTTATTTCTAAGG
* *
2710322 AAAA-TGATACTTTCAACTTTTCCCTAAAAATA--TTTTTGGAATTTA-TTCTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTC-TAAGGAAAATTG
* * *
2710383 ATACTTTC-AC-TTTCCC-AAAAATATTTTTTTTTTG-AATTTATATCTGAGG
65 ATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTATTTCTAAGG
*
2710432 AAAAATTGATACTTTCAACTTTTCCCCAAAAAGTATTTTTTTGGAATTTTATTTCTAAGGAAAAT
1 -AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTT-GAAATTTATTTCTAAGGAAAAT
* * * *
2710497 TGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTTGAAATTTATTTATGAGG
63 TGATACTTTCAACTTTTCCCTAAAAATA----TTTTTTGGAAATTTATTTCTAAGG
* *
2710553 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATTGA
*
2710618 TACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* * *
2710667 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGAAATTTATTTCTAAGGAAAAT
* *
2710732 TGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
63 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
2710784 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTT
1 AAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATTTTTTTGAAATTT
2710833 TTTATTCTTA
Statistics
Matches: 456, Mismatches: 30, Indels: 48
0.85 0.06 0.09
Matches are distributed among these distances:
107 1 0.00
109 4 0.01
110 18 0.04
111 19 0.04
112 39 0.09
113 40 0.09
114 56 0.12
115 5 0.01
116 40 0.09
117 105 0.23
118 57 0.12
119 18 0.04
120 41 0.09
121 13 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:2710816 original size:57 final size:57
Alignment explanation
Indices: 2710208--2710832 Score: 756
Period size: 57 Copynumber: 10.8 Consensus size: 57
2710198 TTTTGTAGGA
*
2710208 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTT-GAAATTTCGATTT-TCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--ATTTCT-AAGG
* * *
2710265 -AAATTTATACTTTCAACTTTT-CCTCAAAACCCT-TTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAA--ATATTTTTTGGAAATTTATTTCTAAGG
2710322 AAAA-TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTGG-AATTTA-TTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAAGG
* * *
2710376 AAAATTGATACTTTC-AC-TTTCCC-AAAAATATTTTTTTTTTG-AATTTATATCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTATTTCTAAGG
* *
2710432 AAAAATTGATACTTTCAACTTTTCCCCAAAAAGTATTTTTTTGGAATTTTATTTCTAAGG
1 -AAAATTGATACTTTCAACTTTTCCCTAAAAA-TA-TTTTTTGGAAATTTATTTCTAAGG
* * * *
2710492 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTTGAAATTTATTTATGAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA----TTTTTTGGAAATTTATTTCTAAGG
* *
2710553 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
2710610 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
* * *
2710667 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTATTTCTAAGG
* *
2710727 AAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
2710784 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTT
1 AAAATTGATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTGGAAATTT
2710833 TTTATTCTTA
Statistics
Matches: 497, Mismatches: 41, Indels: 58
0.83 0.07 0.10
Matches are distributed among these distances:
52 7 0.01
53 9 0.02
54 17 0.03
55 19 0.04
56 40 0.08
57 198 0.40
58 21 0.04
59 65 0.13
60 68 0.14
61 53 0.11
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:2710870 original size:10 final size:10
Alignment explanation
Indices: 2710855--2710887 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2710845 TAAAGAAAAT
2710855 AAAATAATAA
1 AAAATAATAA
2710865 AAAATAAT-A
1 AAAATAATAA
2710874 AAAATAAATAA
1 AAAAT-AATAA
2710885 AAA
1 AAA
2710888 GAATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 11 0.52
11 4 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATAATAA
Found at i:2710892 original size:19 final size:19
Alignment explanation
Indices: 2710855--2710892 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2710845 TAAAGAAAAT
*
2710855 AAAATAATAAAAAATAATA
1 AAAATAATAAAAAAGAATA
2710874 AAAATAA-ATAAAAAGAATA
1 AAAATAATA-AAAAAGAATA
2710893 TTACATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATAATAAAAAAGAATA
Found at i:2710958 original size:23 final size:23
Alignment explanation
Indices: 2710932--2710975 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2710922 ATAAAATAAA
*
2710932 CAAATAAACAAAGAAAAAAAATT
1 CAAAGAAACAAAGAAAAAAAATT
*
2710955 CAAAGAAAGAAAGAAAAAAAA
1 CAAAGAAACAAAGAAAAAAAA
2710976 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (23 bp):
CAAAGAAACAAAGAAAAAAAATT
Found at i:2711992 original size:16 final size:16
Alignment explanation
Indices: 2711973--2712077 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
2711963 TATTAGTAAT
2711973 AATACATAAATAATAA
1 AATACATAAATAATAA
*
2711989 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
2712007 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
2712024 AATATATACAT-ATATT
1 AATACATAAATAATA-A
2712040 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
2712053 AATA-ATAAATAATAC
1 AATACATAAATAATAA
2712068 AATACATAAA
1 AATACATAAA
2712078 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:2712051 original size:35 final size:34
Alignment explanation
Indices: 2711941--2712068 Score: 95
Period size: 35 Copynumber: 3.6 Consensus size: 34
2711931 AATAAAAAAG
*
2711941 ATAAA-AAATATATATATATACATATTAGTAATAATA
1 ATAAATAAATA-A-ATATATACATA-TATTAATAATA
* * *
2711977 CATAAAT-AATAAA-ATACACATAAATATTAACAAAAA
1 -ATAAATAAATAAATATATACAT--ATATTAA-TAATA
2712013 ATAAATAAATAAATATATACATATATTAATACATA
1 ATAAATAAATAAATATATACATATATTAATA-ATA
2712048 AT-AATAATAATAAATA-ATACA
1 ATAAAT-A-AATAAATATATACA
2712069 ATACATAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
34 11 0.15
35 29 0.39
36 19 0.25
37 16 0.21
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAAATAAATAAATATATACATATATTAATAATA
Found at i:2718106 original size:11 final size:12
Alignment explanation
Indices: 2718091--2718119 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2718081 TTTATATTAT
2718091 TAATATAAATAA
1 TAATATAAATAA
2718103 -AATATAAATAA
1 TAATATAAATAA
2718114 TAATAT
1 TAATAT
2718120 TAGTACGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATATAAATAA
Found at i:2718354 original size:13 final size:12
Alignment explanation
Indices: 2718331--2718360 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2718321 TTAGTAATAC
2718331 ATATATACATAT
1 ATATATACATAT
2718343 ATATATTACATAT
1 ATATA-TACATAT
2718356 ATATA
1 ATATA
2718361 AATCTTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATACATAT
Found at i:2719235 original size:27 final size:27
Alignment explanation
Indices: 2719205--2719256 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
2719195 TATTATAATA
2719205 ATTTTGAAAAATTATGGTAG-AAGGGGC
1 ATTTT-AAAAATTATGGTAGTAAGGGGC
* *
2719232 ATTTTCATAATTATGGTAGTAAGGG
1 ATTTTAAAAATTATGGTAGTAAGGG
2719257 CAACAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (27 bp):
ATTTTAAAAATTATGGTAGTAAGGGGC
Found at i:2719688 original size:129 final size:131
Alignment explanation
Indices: 2719431--2719680 Score: 305
Period size: 129 Copynumber: 1.9 Consensus size: 131
2719421 ATGAGATTAA
* * *
2719431 TAATTTAATATATAATTAATTTTATATTATGTTAAAATTTAATATATGTAATTTAATAAGAATAT
1 TAATTTAATATATAATTAATTTTATATTATATTAAAATTTAATATACGTAATTAAATAAGAATAT
* * *
2719496 TATATCAATTTTCAAATAGAACTCTACATGTCAAATTTCTATAAAACGATAATAAGAGCATTTTA
66 TATATCAATTTTCAAATAGAAATCTACATATCAAATTTCTATAAAACAATAATAAGAGCATTTTA
2719561 G
131 G
* *
2719562 TAATTTAATATATGATTAATTTTATATTATATTAAAATTT-A-ATACGTAAATTAAAT-AGGATA
1 TAATTTAATATATAATTAATTTTATATTATATTAAAATTTAATATACGT-AATTAAATAAGAATA
* * * * *
2719624 TTATAGT-AATTTTTAAATA-AAATAGTACATAT-TAACTTCTTATGAAACAATAATAAG
65 TTATA-TCAATTTTCAAATAGAAAT-CTACATATCAAATTTC-TATAAAACAATAATAAG
2719681 GATATTTTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
128 8 0.08
129 47 0.46
130 9 0.09
131 38 0.37
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (131 bp):
TAATTTAATATATAATTAATTTTATATTATATTAAAATTTAATATACGTAATTAAATAAGAATAT
TATATCAATTTTCAAATAGAAATCTACATATCAAATTTCTATAAAACAATAATAAGAGCATTTTA
G
Found at i:2724217 original size:24 final size:25
Alignment explanation
Indices: 2724185--2724240 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
2724175 GCTTTAGCAC
2724185 AGTGTAAATTGAAG-AGGTAAAATT
1 AGTGTAAATTGAAGAAGGTAAAATT
2724209 AGTGTAAATTGAAGAAGGTAAAATT
1 AGTGTAAATTGAAGAAGGTAAAATT
2724234 AGTGTAA
1 AGTGTAA
2724241 GTTTCTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (25 bp):
AGTGTAAATTGAAGAAGGTAAAATT
Found at i:2731842 original size:11 final size:12
Alignment explanation
Indices: 2731820--2731848 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2731810 TATCATACTA
2731820 ATATTATTATTT
1 ATATTATTATTT
2731832 ATATT-TTATTT
1 ATATTATTATTT
2731843 ATATTA
1 ATATTA
2731849 ATAATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:2737248 original size:21 final size:21
Alignment explanation
Indices: 2737204--2737248 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2737194 TAATATTTGA
* * *
2737204 AATTATCAAAATTTAAATTTT
1 AATTATCAAAATTAAAAATAT
*
2737225 AATTATTAAAATTAAAAATAT
1 AATTATCAAAATTAAAAATAT
2737246 AAT
1 AAT
2737249 ACTCTATTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTATCAAAATTAAAAATAT
Found at i:2739344 original size:161 final size:163
Alignment explanation
Indices: 2739113--2739433 Score: 425
Period size: 161 Copynumber: 2.0 Consensus size: 163
2739103 AAATTGTCCC
*
2739113 AAATAGACGTAAATAATAAATTTTTCACACACATATCAATCGTAGAAACCAAGTTTAATCATTCG
1 AAATAGACGTAAACAATAAATTTTTCACACACATATCAATCGTAGAAACCAAGTTTAATCATTCG
* * * * * *
2739178 GATAAGTTTAATATCATGTATTGAAGCTATCCAAACTATTAAAATAGAATAATAAC-AACAATTT
66 GATAAGTTTAACATCATGTATTAAAACTATCAAAACAATTAAAATAGAACAATAACTAACAA-TT
* *
2739242 TGTATTTTTACCTATTAATGGCACAAAAAGTCTT
130 TGCATTTTTACCTATTAATAGCACAAAAAGTCTT
* * * * * *
2739276 AAATAGACGTAAACAAT-AATTTTT-TCATACATATCAATCGTGGCAACTAAGTTTAAT-ACTTT
1 AAATAGACGTAAACAATAAATTTTTCACACACATATCAATCGTAGAAACCAAGTTTAATCA-TTC
**
2739338 GGATAAGTTTAACATCATGTATTAAAACTATCAAAACAATTAAAATAGAACAATAACTATTAATT
65 GGATAAGTTTAACATCATGTATTAAAACTATCAAAACAATTAAAATAGAACAATAACTAACAATT
* *
2739403 TGCATTTTTACCTTTTAATAGCATAAAAAGT
130 TGCATTTTTACCTATTAATAGCACAAAAAGT
2739434 TCATTCATTC
Statistics
Matches: 137, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
160 1 0.01
161 110 0.80
162 10 0.07
163 16 0.12
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (163 bp):
AAATAGACGTAAACAATAAATTTTTCACACACATATCAATCGTAGAAACCAAGTTTAATCATTCG
GATAAGTTTAACATCATGTATTAAAACTATCAAAACAATTAAAATAGAACAATAACTAACAATTT
GCATTTTTACCTATTAATAGCACAAAAAGTCTT
Found at i:2746312 original size:493 final size:492
Alignment explanation
Indices: 2745386--2746319 Score: 1172
Period size: 493 Copynumber: 1.9 Consensus size: 492
2745376 ACATAATACG
* * * * **
2745386 CCTTCAATAATTCTCTAAAATTTTAATGAGATAATTTTTTTAAGGCATTTTTGACTAAAAATGTC
1 CCTTCAATAATTCTCTAAAATTTTAACGAGATAATTTTTTGAAAGCATTTCTGACTAAAAATCAC
** ** *
2745451 TTCAATAATCTCATTTTCAAAATTATTAGAGGTGTTTTTTATAAAATGCTTTTAACAATCATCAT
66 TTCAATAATCTCATTTTCAAAATTATTAGAGGCATTTTTTATAAAAAACCTTTAACAATCATCAT
* * * *
2745516 AATCTTTGTGGCCAAAATTATTGAAGGCGTTTTTGGCATAAAAGGCCTCCAATAAACAAGGTATT
131 AATCTTTATGGCCAAAATTATTGAAGGCGTTTTCGGCATAAAAGGCCTCCAATAAACAAAGCATT
* *
2745581 AAAAAAATAGACCGAATTATTAAAGGTATTTTCTAAAAAAAAATACTTTTAATAAATTCCTTTTA
196 AAAAAAATAGACCGAATTATTAAAGGCATTTTCTAAAAAAAAATACCTTTAATAAATTCCTTTTA
* * *
2745646 AAAATTATTGAGGATTATTAAAGGCATCTTTTAGAAAAAAAAATACCTTAAATAATCTCGTAGTA
261 AAAAATATTGAGGATTATTAAAGCCATCTTTTAG-AAAAAAAATACCTTAAATAATCTCATAGTA
* * * *
2745711 AAATTTTAATGAAATTATTGAAAGTGTTTTGCACTACAAATGCCTTCACTAATTCCCTAAATTTT
325 AAATTTTAATGAAATTATTAAAAGCGTTTTGCACTACAAACGCCTTCAATAATTCCCTAAATTTT
* * * * *
2745776 TTGAAAGAATTTATTGAAGGCATTTTTGGCATAATATGCCTTCAATAATCCTCTCTATTTTTATC
390 TTGAAAGAAATCATTGAAGGCATTTTTGACATAAAACGCCTTCAATAATCCTCTCTATTTTTATC
2745841 TAGAGAATATCAGTGTAGGTAATTTTTTACCAAAAATA
455 TAGAGAATATCAGTGTAGGTAATTTTTTACCAAAAATA
* *
2745879 CCTTCAATAA-TCTCCTTAAATTTTAACGAGATTATTTTTTGAAAGCATTTCTGACTAAAAA-CA
1 CCTTCAATAATTCT-CTAAAATTTTAACGAGATAATTTTTTGAAAGCATTTCTGACTAAAAATCA
* * *
2745942 CATTCAATAATCTCATTTTCAAAATTATTGGAGGCATTTTTTATAAAAAAACCTTTAATAATCGT
65 C-TTCAATAATCTCATTTTCAAAATTATTAGAGGCATTTTTTAT-AAAAAACCTTTAACAATCAT
* * * * *
2746007 CATAATGTTTATGGGCAGAATTATTGAAGGCGTTTTCGGCATAAAATGCTTCCAATAAACAAAGC
128 CATAATCTTTATGGCCAAAATTATTGAAGGCGTTTTCGGCATAAAAGGCCTCCAATAAACAAAGC
* * *
2746072 ATTCAAAAAATGGACCGAATTATTACAGGCATTTTCT-AAAAAAAATACCTTTAATAAATTCCTT
193 ATTAAAAAAATAGACCGAATTATTAAAGGCATTTTCTAAAAAAAAATACCTTTAATAAATTCCTT
* * * * * *
2746136 TTAAAAAATATTTGA-GATTATTAAAGCCGTCTTTTAG-TAAAAAATGCCTTTAATTATCTTATA
258 TTAAAAAATA-TTGAGGATTATTAAAGCCATCTTTTAGAAAAAAAATACCTTAAATAATCTCATA
* * *
2746199 GTTAAATTTTAA-GAAATTTATTAAAAGCGTTTTTGGCA-TA-ATACGTCTTCAATAA-TCCCTC
322 GTAAAATTTTAATGAAA-TTATTAAAAGCG-TTTT-GCACTACAAACGCCTTCAATAATTCCCT-
* * *
2746260 CATTTTTATCTGAAA-AAATCAGTT-AAGGCAGTTTTTTAC-TAAAAACGCCTTCAATAATCC
383 AAATTTT-T-TGAAAGAAATCA-TTGAAGGCA-TTTTTGACAT-AAAACGCCTTCAATAATCC
2746320 CCTTAAATTT
Statistics
Matches: 374, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
490 9 0.02
491 57 0.15
492 22 0.06
493 178 0.48
494 108 0.29
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (492 bp):
CCTTCAATAATTCTCTAAAATTTTAACGAGATAATTTTTTGAAAGCATTTCTGACTAAAAATCAC
TTCAATAATCTCATTTTCAAAATTATTAGAGGCATTTTTTATAAAAAACCTTTAACAATCATCAT
AATCTTTATGGCCAAAATTATTGAAGGCGTTTTCGGCATAAAAGGCCTCCAATAAACAAAGCATT
AAAAAAATAGACCGAATTATTAAAGGCATTTTCTAAAAAAAAATACCTTTAATAAATTCCTTTTA
AAAAATATTGAGGATTATTAAAGCCATCTTTTAGAAAAAAAATACCTTAAATAATCTCATAGTAA
AATTTTAATGAAATTATTAAAAGCGTTTTGCACTACAAACGCCTTCAATAATTCCCTAAATTTTT
TGAAAGAAATCATTGAAGGCATTTTTGACATAAAACGCCTTCAATAATCCTCTCTATTTTTATCT
AGAGAATATCAGTGTAGGTAATTTTTTACCAAAAATA
Found at i:2746394 original size:429 final size:428
Alignment explanation
Indices: 2745783--2746637 Score: 1103
Period size: 429 Copynumber: 2.0 Consensus size: 428
2745773 TTTTTGAAAG
* * * * *
2745783 AATTTATTGAAGGCATTTTTGGCATAATATGCCTTCAATAATCCTCTCTATTTTTATCTAGAGAA
1 AATTTATTAAAAGCATTTTTGGCATAATACGCCTTCAATAATCCTCTCCATTTTTATCTAGAAAA
* * * * * *
2745848 TATCAGTGTAGGTAATTTTTTACCAAAAATACCTTCAATAATCTCCTTAAATTTTAACGAGATTA
66 AATCAGTGTAGGCAATTTTTTACCAAAAACACCTTCAATAATCCCCTTAAATTTTAACGAAAGTA
* * *
2745913 TTTTTTGAAAGCATTTCTGACTAAAAACACATTCAATAATCTCATTTTCAAAATTATTGGAGGCA
131 TTTTTTGAAAGCATTTCTGACTAAAAACACATTCAATAATCTCATCTTCAAAATTATTAGAGGAA
* * * * *
2745978 TTTTTTATAAAAAAACCTTTAATAATCGTCATAATGTTTATGGGCAGAATTATTGAAGGCGTTTT
196 TTTTTTATAAAAAAACCTTTAATAATCCTCATAATGTTTATGAGAAAAATTATTGAAGGCATTTT
* * **
2746043 CGGCATAAAATGCTTCCAATAAACAAAG-CATTCAAAAAATGGACCGAATTATT-ACAGGCATTT
261 CGGCATAAAATGCCTCCAATAAA-AAAGACATTAAAAAAATAAACCGAATTATTGA-AGGCATTT
* * * *
2746106 TCTAAAAAAAATACCTTTAATAAAT-TCCTTTTAAAAAATATTTGAGATTATTAAAGCCGTCTTT
324 TCTAAAAAAAACACCTTCAATAAATCT-CTTTTAAAAAATATTTAAGATTA-TAAAGCCATCTTT
* * *
2746170 TAGTAAAAAATGCCTTTAATTATCTTATAGTTAAATTTTAAGA
387 TAGT-AAAAATGCCTTCAATTATCTCATAGTAAAATTTTAAGA
* *
2746213 AATTTATTAAAAGCGTTTTTGGCATAATACGTCTTCAATAATCC-CTCCATTTTTATCT-GAAAA
1 AATTTATTAAAAGCATTTTTGGCATAATACGCCTTCAATAATCCTCTCCATTTTTATCTAGAAAA
* * *
2746276 AATCAGT-TAAGGCAGTTTTTTACTAAAAACGCCTTCAATAATCCCCTTAAATTTTAACGAAAGT
66 AATCAGTGT-AGGCAATTTTTTACCAAAAACACCTTCAATAATCCCCTTAAATTTTAACGAAAGT
* * * *
2746340 ATTTTTT-AAATGCGTTTTTTTACTAAAAACACCTTCAATAATCTCATCTTCAAAATTATTAGAG
130 ATTTTTTGAAA-GC-ATTTCTGACTAAAAACACATTCAATAATCTCATCTTCAAAATTATTAGAG
* *
2746404 GAATTTTTTATAAAAACACCTTTAATAATCCTCATAATGTTTGTGAGAAAAATTATTGAAGGCAT
193 GAATTTTTTATAAAAAAACCTTTAATAATCCTCATAATGTTTATGAGAAAAATTATTGAAGGCAT
* * * * * **
2746469 TTTTGGCATAAAATGCCTCTAATAAATAAGATATTAAAAAAATAAACTGAATTATTGAAGGGGTT
258 TTTCGGCATAAAATGCCTCCAATAAAAAAGACATTAAAAAAATAAACCGAATTATTGAAGGCATT
* * * * **
2746534 TTTTTAAAAAAACACCTTCAATAAATCTCTTTTTAAAATTATTTAAGATTATAAAGGTATCTTTT
323 TTCTAAAAAAAACACCTTCAATAAATCTCTTTTAAAAAATATTTAAGATTATAAAGCCATCTTTT
2746599 AGTAAAAATGCCTTCAATTATCTCATAGTAAAATTTTAA
388 AGTAAAAATGCCTTCAATTATCTCATAGTAAAATTTTAA
2746638 TAGGATTATT
Statistics
Matches: 365, Mismatches: 54, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
427 37 0.10
428 83 0.23
429 204 0.56
430 41 0.11
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (428 bp):
AATTTATTAAAAGCATTTTTGGCATAATACGCCTTCAATAATCCTCTCCATTTTTATCTAGAAAA
AATCAGTGTAGGCAATTTTTTACCAAAAACACCTTCAATAATCCCCTTAAATTTTAACGAAAGTA
TTTTTTGAAAGCATTTCTGACTAAAAACACATTCAATAATCTCATCTTCAAAATTATTAGAGGAA
TTTTTTATAAAAAAACCTTTAATAATCCTCATAATGTTTATGAGAAAAATTATTGAAGGCATTTT
CGGCATAAAATGCCTCCAATAAAAAAGACATTAAAAAAATAAACCGAATTATTGAAGGCATTTTC
TAAAAAAAACACCTTCAATAAATCTCTTTTAAAAAATATTTAAGATTATAAAGCCATCTTTTAGT
AAAAATGCCTTCAATTATCTCATAGTAAAATTTTAAGA
Found at i:2747427 original size:28 final size:28
Alignment explanation
Indices: 2747380--2747490 Score: 154
Period size: 28 Copynumber: 3.9 Consensus size: 28
2747370 TTTTGTTTAA
* *
2747380 ATATTGTGGTTTGCTTAATGGTATTATATG
1 ATATTGT--TTTGCTGAATGGTATTGTATG
*
2747410 ATATTGTTTTGCTGAATGGTACTGTATG
1 ATATTGTTTTGCTGAATGGTATTGTATG
2747438 ATATTGTTTTGCTGAATGGTATTGTATG
1 ATATTGTTTTGCTGAATGGTATTGTATG
2747466 ATATTAG-TTTGCTGAATGGT-TTGTA
1 ATATT-GTTTTGCTGAATGGTATTGTA
2747491 AACACCATTT
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
27 5 0.07
28 63 0.83
29 1 0.01
30 7 0.09
ACGTcount: A:0.23, C:0.05, G:0.24, T:0.49
Consensus pattern (28 bp):
ATATTGTTTTGCTGAATGGTATTGTATG
Found at i:2747517 original size:3 final size:3
Alignment explanation
Indices: 2747511--2747536 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2747501 TTTTTATCTT
2747511 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2747537 TATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2747634 original size:22 final size:22
Alignment explanation
Indices: 2747594--2747635 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2747584 TTGTCTTCTT
*
2747594 CTCTTTTCTGCTTCTTTCTTTC
1 CTCTTTTCTGCTTCCTTCTTTC
**
2747616 CTCTTTTCTTTTTCCTTCTT
1 CTCTTTTCTGCTTCCTTCTT
2747636 CTTCATCCTT
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:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTTTTCTGCTTCCTTCTTTC
Done.