Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 6 of 84
Found at i:625921 original size:6 final size:6
Alignment explanation
Indices: 625910--625937 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
625900 TATTATAAAA
625910 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
625938 AGTATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:625975 original size:22 final size:22
Alignment explanation
Indices: 625950--625994 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
625940 TATAAAAAGA
625950 TAATAAATAATA-AATAATAAAT
1 TAAT-AATAATATAATAATAAAT
* *
625972 TAATAATATTATTATAATAAAT
1 TAATAATAATATAATAATAAAT
625994 T
1 T
625995 TTCATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAATATAATAATAAAT
Found at i:626123 original size:7 final size:7
Alignment explanation
Indices: 626113--626172 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
626103 CATAAACCTT
626113 AAAATCC
1 AAAATCC
626120 AAAATCC
1 AAAATCC
*
626127 AATAAT-T
1 AA-AATCC
626134 AAAA-CC
1 AAAATCC
*
626140 ATAAATCTT
1 A-AAATC-C
626149 AAAATCC
1 AAAATCC
626156 AAAATCC
1 AAAATCC
626163 AAAAT-C
1 AAAATCC
626169 AAAA
1 AAAA
626173 CCGTAAACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
6 8 0.18
7 26 0.59
8 9 0.20
9 1 0.02
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATCC
Found at i:626150 original size:36 final size:35
Alignment explanation
Indices: 626102--626187 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 35
626092 TTTGTGTTTT
*
626102 CCATAAACCTTAAAATCCAAAATCCAATAATTAAAA
1 CCATAAACCTTAAAATCCAAAATCCAA-AATCAAAA
*
626138 CCATAAATCTTAAAATCCAAAATCCAAAATCAAAA
1 CCATAAACCTTAAAATCCAAAATCCAAAATCAAAA
* *
626173 CCGTAAACCCTAAAA
1 CCATAAACCTTAAAA
626188 AACTATATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 19 0.42
36 26 0.58
ACGTcount: A:0.55, C:0.24, G:0.01, T:0.20
Consensus pattern (35 bp):
CCATAAACCTTAAAATCCAAAATCCAAAATCAAAA
Found at i:626433 original size:12 final size:13
Alignment explanation
Indices: 626418--626456 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
626408 AAATAAAACC
626418 AACAAAAA-AAGA
1 AACAAAAAGAAGA
*
626430 AACAAAAAGAAAA
1 AACAAAAAGAAGA
*
626443 AAGAAAAAGAAGA
1 AACAAAAAGAAGA
626456 A
1 A
626457 GGAAAATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (13 bp):
AACAAAAAGAAGA
Found at i:627547 original size:20 final size:20
Alignment explanation
Indices: 627492--627558 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
627482 ATAAAATAGG
627492 ATAATAA-CTAAAAA-AATA
1 ATAATAATCTAAAAATAATA
* * *
627510 TTAAAAATGCTTAAAATAATA
1 ATAATAAT-CTAAAAATAATA
627531 ATAATAATCTAAAAATAATA
1 ATAATAATCTAAAAATAATA
627551 ATAATAAT
1 ATAATAAT
627559 TGAATAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.12
20 25 0.62
21 10 0.25
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (20 bp):
ATAATAATCTAAAAATAATA
Found at i:627702 original size:3 final size:3
Alignment explanation
Indices: 627694--627724 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
627684 ATAAAAAGGT
627694 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
627725 GAACTTTCAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:627960 original size:27 final size:28
Alignment explanation
Indices: 627900--627964 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
627890 TCAAAACTCC
* *
627900 AAAATTAAGCCCCAAACTTCCAAACCCT
1 AAAATTAAACCCCAAACCTCCAAACCCT
* *
627928 AAAATTAAACCCTAAACCTCC-AACCTT
1 AAAATTAAACCCCAAACCTCCAAACCCT
627955 AAAATTAAAC
1 AAAATTAAAC
627965 TGTAAACCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATTAAACCCCAAACCTCCAAACCCT
Found at i:627970 original size:27 final size:28
Alignment explanation
Indices: 627848--628118 Score: 129
Period size: 30 Copynumber: 9.4 Consensus size: 28
627838 CGTATTTTTT
* * *
627848 TTAAACCCTAAA-ATCCAAATCCTAAAT
1 TTAAACCCTAAACCTCCAAACCCTAAAA
* ** *
627875 TTCAAAACCTAAAAATCAAAACTCC-AAAA
1 TT-AAACCCTAAACCTCCAAAC-CCTAAAA
* * *
627904 TTAAGCCCCAAACTTCCAAACCCTAAAA
1 TTAAACCCTAAACCTCCAAACCCTAAAA
*
627932 TTAAACCCTAAACCTCC-AACCTTAAAA
1 TTAAACCCTAAACCTCCAAACCCTAAAA
** * *
627959 TTAAACTGTAAACCCCCTGAACCCTAAAAA
1 TTAAACCCTAAACCTCC-AAACCCT-AAAA
* * ** *
627989 TGAAACCATAAACCTTCTGAATCCTAAAAA
1 TTAAACCCTAAACC-TCCAAACCCT-AAAA
** * *
628019 CGAAACCTTAAACCCTCCAAACCATAAAA
1 TTAAACCCTAAA-CCTCCAAACCCTAAAA
* * *
628048 TCAAATCCTTAAAACATCCAAACCCTAAAA
1 TTAAA-CCCT-AAACCTCCAAACCCTAAAA
* * *
628078 CTAAAACCAC-AAATCT-CAAACCCCAAAA
1 -TTAAACC-CTAAACCTCCAAACCCTAAAA
628106 TTGAAACCCTAAA
1 TT-AAACCCTAAA
628119 ATCCAAAATC
Statistics
Matches: 189, Mismatches: 40, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
27 29 0.15
28 59 0.31
29 27 0.14
30 64 0.34
31 10 0.05
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (28 bp):
TTAAACCCTAAACCTCCAAACCCTAAAA
Found at i:628125 original size:28 final size:27
Alignment explanation
Indices: 628063--628140 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
628053 TCCTTAAAAC
*
628063 ATCCAAACCCTAAAACTAAAACCACAA
1 ATCCAAACCCCAAAACTAAAACCACAA
* *
628090 ATCTCAAACCCCAAAATTGAAACC-CTAAA
1 ATC-CAAACCCCAAAACTAAAACCAC--AA
* *
628119 ATCCAAAATCCCAAACCTAAAA
1 ATCC-AAACCCCAAAACTAAAA
628141 ATTCAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.53, C:0.32, G:0.01, T:0.14
Consensus pattern (27 bp):
ATCCAAACCCCAAAACTAAAACCACAA
Found at i:628189 original size:22 final size:22
Alignment explanation
Indices: 628115--628194 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
628105 ATTGAAACCC
** *
628115 TAAAATCCAAAATCCCAAACCT
1 TAAAATCCAAAATCTTAAAACT
* * * *
628137 AAAAATTCAAATTTTTAAAACCT
1 TAAAATCCAAAATCTTAAAA-CT
628160 CTAAAATCCAAAATCTTAAAACT
1 -TAAAATCCAAAATCTTAAAACT
628183 TAAAATCCAAAA
1 TAAAATCCAAAA
628195 CCTAAAAATC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 25 0.56
23 4 0.09
24 16 0.36
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAATCCAAAATCTTAAAACT
Found at i:628202 original size:22 final size:23
Alignment explanation
Indices: 628152--628210 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
628142 TTCAAATTTT
* *
628152 TAAAACCTCTAAAATCCAAAATC
1 TAAAAACTCTAAAATCCAAAACC
*
628175 TTAAAACT-TAAAATCCAAAACC
1 TAAAAACTCTAAAATCCAAAACC
628197 TAAAAA-TCTAAAAT
1 TAAAAACTCTAAAAT
628211 TCTAAAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.77
23 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAAACTCTAAAATCCAAAACC
Found at i:629375 original size:30 final size:29
Alignment explanation
Indices: 629319--629414 Score: 122
Period size: 30 Copynumber: 3.3 Consensus size: 29
629309 ATTTTTAAAT
*
629319 CCTAAAATCAAAA-CCTCAAACTTCAAAC
1 CCTAAAATCAAAACCCTAAAACTTCAAAC
**
629347 TTTAAAATCAAAACCCTAAAATCTTCAAAC
1 CCTAAAATCAAAACCCTAAAA-CTTCAAAC
* *
629377 CCTAAAATTAAAACCCTAAACCTTCCAAAC
1 CCTAAAATCAAAACCCTAAAACTT-CAAAC
629407 CCTAAAAT
1 CCTAAAAT
629415 TCAAGCCTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.19
29 9 0.16
30 38 0.66
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (29 bp):
CCTAAAATCAAAACCCTAAAACTTCAAAC
Found at i:629378 original size:16 final size:16
Alignment explanation
Indices: 629357--629414 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
629347 TTTAAAATCA
629357 AAACCCTAAAATCTTC
1 AAACCCTAAAATCTTC
*
629373 AAACCCTAAAA--TTA
1 AAACCCTAAAATCTTC
*
629387 AAACCCT-AAACCTTCC
1 AAACCCTAAAATCTT-C
629403 AAACCCTAAAAT
1 AAACCCTAAAAT
629415 TCAAGCCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 2 0.06
16 18 0.51
17 3 0.09
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACCCTAAAATCTTC
Found at i:629441 original size:31 final size:30
Alignment explanation
Indices: 629349--629442 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
629339 CTTCAAACTT
* ** *
629349 TAAAATCAAAACCCTAAAATCTTCAAACCC
1 TAAAATTAAAACCCTAAACCCTCCAAACCC
*
629379 TAAAATTAAAACCCTAAACCTTCCAAACCC
1 TAAAATTAAAACCCTAAACCCTCCAAACCC
* * * *
629409 TAAAATTCAAGCCTTAAGACCCTCTAAACCC
1 TAAAATTAAAACCCTAA-ACCCTCCAAACCC
629440 TAA
1 TAA
629443 GATCGAACCA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
30 39 0.74
31 14 0.26
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (30 bp):
TAAAATTAAAACCCTAAACCCTCCAAACCC
Found at i:633142 original size:17 final size:17
Alignment explanation
Indices: 633052--633162 Score: 74
Period size: 17 Copynumber: 6.9 Consensus size: 17
633042 CCCTAAGATT
*
633052 TCTAGACCCT-AAA-CC
1 TCTAAACCCTAAAACCC
* *
633067 TCTAAA-TCTTAAACCC
1 TCTAAACCCTAAAACCC
* * * *
633083 TCAAAACCCCAAAATCT
1 TCTAAACCCTAAAACCC
*
633100 TCCAAACCCTAAAA---
1 TCTAAACCCTAAAACCC
* *
633114 TCCAAGCCCTAAAACCC
1 TCTAAACCCTAAAACCC
633131 TCTAAACCCTAAAACCC
1 TCTAAACCCTAAAACCC
633148 TC-AAACCCTTAAAAC
1 TCTAAACCC-TAAAAC
633163 TCAAACCAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
14 15 0.20
15 8 0.11
16 13 0.17
17 40 0.53
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.19
Consensus pattern (17 bp):
TCTAAACCCTAAAACCC
Found at i:633145 original size:8 final size:8
Alignment explanation
Indices: 633103--633162 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
633093 AAAATCTTCC
633103 AAACCCTA
1 AAACCCTA
*
633111 AAATCC--
1 AAACCCTA
*
633117 AAGCCCTA
1 AAACCCTA
*
633125 AAACCCTCT
1 AAACCCT-A
633134 AAACCCTA
1 AAACCCTA
*
633142 AAACCCTC
1 AAACCCTA
633150 AAACCCTTA
1 AAACCC-TA
633159 AAAC
1 AAAC
633163 TCAAACCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
6 4 0.10
8 24 0.60
9 12 0.30
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.15
Consensus pattern (8 bp):
AAACCCTA
Found at i:636304 original size:68 final size:69
Alignment explanation
Indices: 636195--636334 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 69
636185 ACATAATTAC
* *
636195 TTCCCTAATTAAATTTGGAGCAGTTCTTAATGAAATTAAAAAAAAT-ATGGTGCCTAACT-CATG
1 TTCCCTAATTAAATTTAGAGAAGTTCTTAATGAAATTAAAAAAAATAATGGTGCCTAACTAC-TG
636258 AAATT
65 AAATT
636263 TTCCCTAATTAAATTTAGAGAAGTTCTTAATGAAATTAAAAAAAATAAATGGTGCCTAACTACTG
1 TTCCCTAATTAAATTTAGAGAAGTTCTTAATGAAATTAAAAAAAAT-AATGGTGCCTAACTACTG
636328 AAATT
65 AAATT
636333 TT
1 TT
636335 GATCTGCTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
68 44 0.66
70 22 0.33
71 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (69 bp):
TTCCCTAATTAAATTTAGAGAAGTTCTTAATGAAATTAAAAAAAATAATGGTGCCTAACTACTGA
AATT
Found at i:641555 original size:2 final size:2
Alignment explanation
Indices: 641548--641594 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
641538 AGTGTCCACT
* *
641548 TA TA TA TA TA TA TA TA TA TT TA TA TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
641590 T- TA TA
1 TA TA TA
641595 ACTGTCTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:654722 original size:24 final size:24
Alignment explanation
Indices: 654690--654742 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
654680 ATAAACATCA
654690 ACTTTGAGAGAGTTCTTTAGATC-C
1 ACTTTGAGAGAGTTCTTTAG-TCAC
654714 ACTTTGAGAGAGTTCTTTAGTCAC
1 ACTTTGAGAGAGTTCTTTAGTCAC
654738 ACTTT
1 ACTTT
654743 CCAATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
ACTTTGAGAGAGTTCTTTAGTCAC
Found at i:656665 original size:2 final size:2
Alignment explanation
Indices: 656660--656687 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
656650 CGCGTGCATG
656660 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
656688 TATAGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:659643 original size:68 final size:68
Alignment explanation
Indices: 659534--659668 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
659524 TTTGCTTTAG
*
659534 TCTGTAAAAGAAAGAAAATAAATATCATCAATATTCGTTGTTCTGTCTCCAAATCAATTTTCTGG
1 TCTGTAAAAGAAAGAAAATAAATATCATCAATATTCCTTGTTCTGTCTCCAAATCAATTTTCTGG
659599 TAC
66 TAC
* *
659602 TCTGTAAAAGGAAGAAATTAAATATCATCAATATTCCTTGTTCTGTCTCCAAATCAATTTTCTGG
1 TCTGTAAAAGAAAGAAAATAAATATCATCAATATTCCTTGTTCTGTCTCCAAATCAATTTTCTGG
659667 TA
66 TA
659669 TATCAAGTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (68 bp):
TCTGTAAAAGAAAGAAAATAAATATCATCAATATTCCTTGTTCTGTCTCCAAATCAATTTTCTGG
TAC
Found at i:673663 original size:15 final size:16
Alignment explanation
Indices: 673638--673670 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
673628 TTTGTACATG
673638 AAAATTTAATAAATAT
1 AAAATTTAATAAATAT
*
673654 AAAA-TTAATATATAT
1 AAAATTTAATAAATAT
673669 AA
1 AA
673671 TTTTCACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTTAATAAATAT
Found at i:680637 original size:21 final size:21
Alignment explanation
Indices: 680598--680637 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
680588 AATCAAATTT
* * *
680598 ATTAAATTAATTTTGAATTGA
1 ATTAAATTAAATATAAATTGA
680619 ATTAAATTAAATATAAATT
1 ATTAAATTAAATATAAATT
680638 ATGTATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTAAATTAAATATAAATTGA
Found at i:682085 original size:32 final size:34
Alignment explanation
Indices: 682044--682107 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
682034 ATTTCACATT
*
682044 AAATATATG-TAAAATAT-AAAAATTATATATCA
1 AAATATATGTTAAAATATCAAAAATTAAATATCA
* *
682076 AAATTTATGTTAAAATATCAAATATTAAATAT
1 AAATATATGTTAAAATATCAAAAATTAAATAT
682108 ATTTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 8 0.30
33 8 0.30
34 11 0.41
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
AAATATATGTTAAAATATCAAAAATTAAATATCA
Found at i:695891 original size:35 final size:34
Alignment explanation
Indices: 695815--695892 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 34
695805 TCTTCCATGA
695815 ATTTTAT-TATATATATATATATATATAATTTTT
1 ATTTTATATATATATATATATATATATAATTTTT
** *
695848 CAGGTTATATATATATTCATATATATATATGATTTTT
1 -ATTTTATATATATA-T-ATATATATATATAATTTTT
695885 -TTTTATAT
1 ATTTTATAT
695893 TTTTCAGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
34 5 0.14
35 12 0.33
36 1 0.03
37 18 0.50
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (34 bp):
ATTTTATATATATATATATATATATATAATTTTT
Found at i:696760 original size:19 final size:20
Alignment explanation
Indices: 696738--696778 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
696728 TACATAATAC
*
696738 TAGTT-ATTTTCATTAATTT
1 TAGTTGATTTTCATAAATTT
*
696757 TAGTTGATTTTGATAAATTT
1 TAGTTGATTTTCATAAATTT
696777 TA
1 TA
696779 ATTAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (20 bp):
TAGTTGATTTTCATAAATTT
Found at i:706531 original size:13 final size:13
Alignment explanation
Indices: 706513--706542 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
706503 TAATAGAACC
706513 TAAACTAATACCA
1 TAAACTAATACCA
*
706526 TAAACTAATACTA
1 TAAACTAATACCA
706539 TAAA
1 TAAA
706543 AGAATGTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAACTAATACCA
Found at i:707929 original size:32 final size:34
Alignment explanation
Indices: 707859--707930 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
707849 AAATAAGGAG
*
707859 TTTTTTATTTAATTTTTTAAAAACGATATACGAA
1 TTTTTTATTTAATTTTTTAAAAACGATATACAAA
* *
707893 -TTTTTATTTAATTTTTT-AAAATGTTATA-AAA
1 TTTTTTATTTAATTTTTTAAAAACGATATACAAA
707924 TTTTTTA
1 TTTTTTA
707931 AAAAAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 2 0.06
32 15 0.44
33 17 0.50
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (34 bp):
TTTTTTATTTAATTTTTTAAAAACGATATACAAA
Found at i:712056 original size:38 final size:38
Alignment explanation
Indices: 712014--712087 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
712004 CTTGATCTAG
* *
712014 CCCCTGCCCTGAGCATTTGAAAAGTTTGATTTTTTTGC
1 CCCCTGCCCTAAGCATTTGAAAAGTTTGATATTTTTGC
* *
712052 CCCCTGCTCTAAGCCTTTGAAAAGTTTGATATTTTT
1 CCCCTGCCCTAAGCATTTGAAAAGTTTGATATTTTT
712088 CTGTCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (38 bp):
CCCCTGCCCTAAGCATTTGAAAAGTTTGATATTTTTGC
Found at i:720121 original size:23 final size:23
Alignment explanation
Indices: 720091--720138 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
720081 CAAAGAGAAA
**
720091 ACCTAGGCACGTTGTTTAGCACT
1 ACCTAGGCACGCAGTTTAGCACT
720114 ACCTAGGCACGCAGTTTAGCACT
1 ACCTAGGCACGCAGTTTAGCACT
720137 AC
1 AC
720139 AAAAGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (23 bp):
ACCTAGGCACGCAGTTTAGCACT
Found at i:725711 original size:22 final size:22
Alignment explanation
Indices: 725686--725729 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
725676 TATATATTTA
* *
725686 TATTTGTATTTCTAGAATTAAG
1 TATTTGTATCTCTAAAATTAAG
725708 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCTCTAAAATTAAG
725730 GACAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (22 bp):
TATTTGTATCTCTAAAATTAAG
Found at i:727274 original size:2 final size:2
Alignment explanation
Indices: 727267--727295 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
727257 ATAATTCTAC
727267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
727296 CTAAGAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:738785 original size:20 final size:20
Alignment explanation
Indices: 738760--738806 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
738750 AATACTCTGG
*
738760 CTCTCTC-TCC-TCTCCTTT
1 CTCTCTCTTCCATCTCCATT
*
738778 TTCTCTCTTCCATCTCCATT
1 CTCTCTCTTCCATCTCCATT
738798 CTCTCTCTT
1 CTCTCTCTT
738807 TGTGGTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.25
19 3 0.12
20 15 0.62
ACGTcount: A:0.04, C:0.45, G:0.00, T:0.51
Consensus pattern (20 bp):
CTCTCTCTTCCATCTCCATT
Found at i:753733 original size:20 final size:18
Alignment explanation
Indices: 753710--753752 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
753700 GGTAGAATAT
753710 TAAATTTTTAATTTTAATGA
1 TAAATTTTTAATTTT--TGA
*
753730 TAAA-ATTTAATTTTTGA
1 TAAATTTTTAATTTTTGA
753747 TAAATT
1 TAAATT
753753 CAATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TAAATTTTTAATTTTTGA
Found at i:754594 original size:1 final size:1
Alignment explanation
Indices: 754588--754613 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
754578 TGATAACTAC
754588 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
754614 CAATTATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:756091 original size:2 final size:2
Alignment explanation
Indices: 756079--756108 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
756069 CATAACCTTT
*
756079 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
756109 ACTTAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:757642 original size:84 final size:88
Alignment explanation
Indices: 757494--757659 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 88
757484 ATATATAAAT
* *
757494 ATATATGTTTTTAAATTGTTTATTAAATGTGTTTGTTTGTATAAAATTATTTACATGCATTTTTT
1 ATATATGTTTTTAAAGTGTTTATTAAA-GTGTTTGTTTGTATAAAATAATTTACATGCA-TTTTT
*
757559 TGCATTTGTTGATTAAATTACCAAA
64 TGCATTTGTTGAATAAATTACCAAA
757584 ATATATGTTTTTAAAGTGTTTATT-AA-T-TTT-TTT-TATAAAATAATTTACATGCATTTTTTG
1 ATATATGTTTTTAAAGTGTTTATTAAAGTGTTTGTTTGTATAAAATAATTTACATGCATTTTTTG
*
757644 CCTTTGTTGAATAAAT
66 CATTTGTTGAATAAAT
757660 AAAGTTTGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
83 21 0.29
84 19 0.26
85 3 0.04
86 3 0.04
87 1 0.01
89 2 0.03
90 23 0.32
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.53
Consensus pattern (88 bp):
ATATATGTTTTTAAAGTGTTTATTAAAGTGTTTGTTTGTATAAAATAATTTACATGCATTTTTTG
CATTTGTTGAATAAATTACCAAA
Found at i:758084 original size:23 final size:23
Alignment explanation
Indices: 758025--758089 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
758015 ATGATGGTAA
*
758025 AACTTTT-TTTTATTATGTTTTT
1 AACTTTTATTTTATTATATTTTT
* **
758047 TA-TATTTATCATATTATATTTTT
1 AACT-TTTATTTTATTATATTTTT
*
758070 AACTTTTATTTTATTTTATT
1 AACTTTTATTTTATTATATT
758090 ATAAATAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 26 0.81
24 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (23 bp):
AACTTTTATTTTATTATATTTTT
Found at i:760190 original size:30 final size:30
Alignment explanation
Indices: 760156--760216 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
760146 AGTCCTTTAG
760156 ATTGCTGTTTCGAATAAGCAGTCCACTGTT
1 ATTGCTGTTTCGAATAAGCAGTCCACTGTT
760186 ATTGCTGTTTCGAATAAGCAGTCCACTGTT
1 ATTGCTGTTTCGAATAAGCAGTCCACTGTT
760216 A
1 A
760217 GGAGATAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (30 bp):
ATTGCTGTTTCGAATAAGCAGTCCACTGTT
Found at i:778018 original size:19 final size:19
Alignment explanation
Indices: 777996--778034 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
777986 AATTTTTTAA
*
777996 AAATTAAAAAATTAAAATT
1 AAATCAAAAAATTAAAATT
**
778015 AAATCAAAATTTTAAAATT
1 AAATCAAAAAATTAAAATT
778034 A
1 A
778035 CTTATGCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATCAAAAAATTAAAATT
Found at i:787972 original size:52 final size:52
Alignment explanation
Indices: 787894--788001 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
787884 AAATTAAAGG
787894 TTTAGAAACCATTTATACTTTTACATTACAAGCAAAATGAATACAAATAAAT
1 TTTAGAAACCATTTATACTTTTACATTACAAGCAAAATGAATACAAATAAAT
* *
787946 TTTAGAAACCGTTTATACTTTTACATTACAAGCAAAATGAATATAAATAAAT
1 TTTAGAAACCATTTATACTTTTACATTACAAGCAAAATGAATACAAATAAAT
787998 TTTA
1 TTTA
788002 TTATATTCGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (52 bp):
TTTAGAAACCATTTATACTTTTACATTACAAGCAAAATGAATACAAATAAAT
Found at i:795244 original size:504 final size:504
Alignment explanation
Indices: 794297--795299 Score: 1828
Period size: 504 Copynumber: 2.0 Consensus size: 504
794287 CCATTCCGTG
*
794297 CTGTTCTTGAACAGGCAGGCCAGACTGGCGGCTACCATGCACTATTGGTGATGTACCAGAAAGAC
1 CTGTTCTTGAACAGGCAGGCCAGACTGGCGGCTACCATGCACTATTAGTGATGTACCAGAAAGAC
** *
794362 TATGAAAGCCTTGATTAGGAGGCAGTCCAGATTGGCGTCTAATATGCTCTACATTAGAAGATACA
66 TACAAAAGCCTTGATTAGAAGGCAGTCCAGATTGGCGTCTAATATGCTCTACATTAGAAGATACA
794427 CCAGAAAGACCATGAAAGCCTTGATTGGGATCTATATTTGCAAATCCAGCACCAAATTTCTGATA
131 CCAGAAAGACCATGAAAGCCTTGATTGGGATCTATATTTGCAAATCCAGCACCAAATTTCTGATA
*
794492 ACCTGGTGAAAGAAAGGGATGTGGAAAATGGCTTTGTGGAATTGGTAGCATTTGCAATGGACTTA
196 ACCTGGTGAAAGAAAGGGATGTGGAAAATGGCTTTGGGGAATTGGTAGCATTTGCAATGGACTTA
794557 AACTAAAGTTGGAGCTAGTATTACCAGCAACTCCAAGATCATATTTAGAAAGAGTGCAAGCATCT
261 AACTAAAGTTGGAGCTAGTATTACCAGCAACTCCAAGATCATATTTAGAAAGAGTGCAAGCATCT
*
794622 ACATTCTGCATTGAACCAGCAAATGAACTCATATTAGATGATTCACCTGCATTCTGCACTATACT
326 ACATTCTGCATTGAACCAGCAAATGAACTCACATTAGATGATTCACCTGCATTCTGCACTATACT
794687 AGGAAGTCCACGAAAATTATGTTTTAGACTGGATAATCCAACTGCATTCTCTTCTATGCTAGAAA
391 AGGAAGTCCACGAAAATTATGTTTTAGACTGGATAATCCAACTGCATTCTCTTCTATGCTAGAAA
794752 ATCCACCAGCATAGGTTTGGAAATCTGATAAACCAGCTGACATTCTGCA
456 ATCCACCAGCATAGGTTTGGAAATCTGATAAACCAGCTGACATTCTGCA
* * *
794801 CTGTTCTTGAACAGGCAGGCCAGACTGGCTGCTACTATGCACTATTAGTGATGTACCGGAAAGAC
1 CTGTTCTTGAACAGGCAGGCCAGACTGGCGGCTACCATGCACTATTAGTGATGTACCAGAAAGAC
794866 TACAAAAGCCTTGATTAGAAGGCAGTCCAGATTGGCGTCTAATATGCTCTACATTAGAAGATACA
66 TACAAAAGCCTTGATTAGAAGGCAGTCCAGATTGGCGTCTAATATGCTCTACATTAGAAGATACA
* *
794931 CCAGAAAGACCATGAAATCCTTGATTGGGATCTATATTTGCAAATCCAGCACCAAATTTCTGATC
131 CCAGAAAGACCATGAAAGCCTTGATTGGGATCTATATTTGCAAATCCAGCACCAAATTTCTGATA
* *
794996 ACCTGGTGTAAGAAAGGGATGTGGAAAATGGCTTTGGGGAGTTGGTAGCATTTG-AGATGGACTT
196 ACCTGGTGAAAGAAAGGGATGTGGAAAATGGCTTTGGGGAATTGGTAGCATTTGCA-ATGGACTT
* *
795060 AAACTAAAGTTGGAGCTAGTATTACCAGCAACTCCAATATCATATTTAGAAAGAGTGCAATCATC
260 AAACTAAAGTTGGAGCTAGTATTACCAGCAACTCCAAGATCATATTTAGAAAGAGTGCAAGCATC
795125 TACATTCTGCATTGAACCAGCAAATGAACTCACATTAGATGATTCACCTGCATTCTGCACTATAC
325 TACATTCTGCATTGAACCAGCAAATGAACTCACATTAGATGATTCACCTGCATTCTGCACTATAC
*
795190 TAGGAAGTCCACGAAAATTATGTTTTAGACTGGATAATCCAACTGCATTCTCTTCTATGGTAGAA
390 TAGGAAGTCCACGAAAATTATGTTTTAGACTGGATAATCCAACTGCATTCTCTTCTATGCTAGAA
* *
795255 AATCCACCAGCGTAGGTTTGGAAATCTGATAAACCAGCTGCCATT
455 AATCCACCAGCATAGGTTTGGAAATCTGATAAACCAGCTGACATT
795300 TGAAAATCAG
Statistics
Matches: 480, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
503 1 0.00
504 479 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (504 bp):
CTGTTCTTGAACAGGCAGGCCAGACTGGCGGCTACCATGCACTATTAGTGATGTACCAGAAAGAC
TACAAAAGCCTTGATTAGAAGGCAGTCCAGATTGGCGTCTAATATGCTCTACATTAGAAGATACA
CCAGAAAGACCATGAAAGCCTTGATTGGGATCTATATTTGCAAATCCAGCACCAAATTTCTGATA
ACCTGGTGAAAGAAAGGGATGTGGAAAATGGCTTTGGGGAATTGGTAGCATTTGCAATGGACTTA
AACTAAAGTTGGAGCTAGTATTACCAGCAACTCCAAGATCATATTTAGAAAGAGTGCAAGCATCT
ACATTCTGCATTGAACCAGCAAATGAACTCACATTAGATGATTCACCTGCATTCTGCACTATACT
AGGAAGTCCACGAAAATTATGTTTTAGACTGGATAATCCAACTGCATTCTCTTCTATGCTAGAAA
ATCCACCAGCATAGGTTTGGAAATCTGATAAACCAGCTGACATTCTGCA
Found at i:796491 original size:1 final size:1
Alignment explanation
Indices: 796455--796480 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
796445 ACCCAATCTC
796455 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
796481 CGAACAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:797542 original size:29 final size:29
Alignment explanation
Indices: 797472--797542 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
797462 TAAATCTATT
*
797472 TTAGGTTATTGAACTTTAATTTATTTCAA
1 TTAGGTTATTAAACTTTAATTTATTTCAA
* * * * *
797501 TCAGATTACTAAATTTTAATTT-GTTCTAA
1 TTAGGTTATTAAACTTTAATTTATTTC-AA
797530 TTAGGTTATTAAA
1 TTAGGTTATTAAA
797543 GTTTGTTAAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (29 bp):
TTAGGTTATTAAACTTTAATTTATTTCAA
Found at i:812178 original size:1 final size:1
Alignment explanation
Indices: 812172--812237 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
812162 ATAAATAAGT
* * * * * * * * *
812172 AAAAAAAAGAAAACAACAAAAGAAAAAGAAAACAAAAAACAAAAAAAATAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
812237 A
1 A
812238 TTTACTAAAC
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:812199 original size:19 final size:17
Alignment explanation
Indices: 812172--812236 Score: 87
Period size: 16 Copynumber: 3.8 Consensus size: 17
812162 ATAAATAAGT
812172 AAAAAAAAGAAAACAACA
1 AAAAAAAAGAAAACAA-A
812190 AAAGAAAAAGAAAACAAA
1 AAA-AAAAAGAAAACAAA
* *
812208 AAACAAAA-AAAATAAA
1 AAAAAAAAGAAAACAAA
812224 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
812237 ATTTACTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 14 0.33
17 8 0.19
18 7 0.17
19 13 0.31
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAACAAA
Found at i:812237 original size:19 final size:18
Alignment explanation
Indices: 812172--812237 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
812162 ATAAATAAGT
*
812172 AAAAAAAAGAAAACAACAA
1 AAAAAAAAGAAAA-AAAAA
*
812191 AAGAAAAAGAAAACAAAAA
1 AAAAAAAAGAAAA-AAAAA
812210 ACAAAAAAA-ATAAAAAAAA
1 A-AAAAAAAGA-AAAAAAAA
812229 AAAGAAAAA
1 AAA-AAAAA
812238 TTTACTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.05
19 30 0.73
20 9 0.22
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAA
Found at i:814281 original size:20 final size:19
Alignment explanation
Indices: 814256--814363 Score: 70
Period size: 18 Copynumber: 6.0 Consensus size: 19
814246 TGCAAGAATG
814256 TCATGCAAATATATTAATTA
1 TCATGCAAATATATTAA-TA
*
814276 TCATGC-AATA-A-TAACAA
1 TCATGCAAATATATTAA-TA
* *
814293 TCAAGTAAATATATT-ATA
1 TCATGCAAATATATTAATA
* *
814311 TCATGC-AA-ATA-GAGTA
1 TCATGCAAATATATTAATA
*
814327 TCATGCAAATATA-AAATA
1 TCATGCAAATATATTAATA
* *
814345 CCATACAAATATATTAATA
1 TCATGCAAATATATTAATA
814364 ACTATTCATG
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
16 11 0.16
17 12 0.18
18 27 0.40
19 10 0.15
20 7 0.10
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
TCATGCAAATATATTAATA
Found at i:814523 original size:24 final size:24
Alignment explanation
Indices: 814493--814555 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
814483 AATATCAGTC
* *
814493 AAATATAATATTA-ATCATGTAAT
1 AAATATAATATCATATCATGCAAT
814516 AACATATAATATCATATCATGCAAT
1 AA-ATATAATATCATATCATGCAAT
*
814541 AAATATAAAATCATA
1 AAATATAATATCATA
814556 CAATAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.06
24 22 0.63
25 11 0.31
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:814678 original size:33 final size:33
Alignment explanation
Indices: 814635--814725 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
814625 TAAATTAATT
* * * *
814635 AATAATCATGCAATTAACA-ATGTAAATCATGCA
1 AATAAACATGCAATTAA-ATATATAAACCAAGCA
814668 AATAAACATGCAATTAAATATATAAACCAAGCA
1 AATAAACATGCAATTAAATATATAAACCAAGCA
* *
814701 AATAAATATACAATTAAATATATAA
1 AATAAACATGCAATTAAATATATAA
814726 TCATGTAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 1 0.02
33 50 0.98
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.26
Consensus pattern (33 bp):
AATAAACATGCAATTAAATATATAAACCAAGCA
Found at i:814706 original size:21 final size:20
Alignment explanation
Indices: 814669--814710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
814659 AATCATGCAA
* *
814669 ATAAACATGCAATTAAATAT
1 ATAAACAAGCAAATAAATAT
814689 ATAAACCAAGCAAATAAATAT
1 ATAAA-CAAGCAAATAAATAT
814710 A
1 A
814711 CAATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (20 bp):
ATAAACAAGCAAATAAATAT
Found at i:815520 original size:12 final size:12
Alignment explanation
Indices: 815503--815528 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
815493 AGAAAACAAT
815503 AATTAAACTAAA
1 AATTAAACTAAA
815515 AATTAAACTAAA
1 AATTAAACTAAA
815527 AA
1 AA
815529 AAATTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AATTAAACTAAA
Found at i:815755 original size:12 final size:13
Alignment explanation
Indices: 815737--815762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
815727 TGTTTTTTTT
815737 TTTTTTTCAAAAA
1 TTTTTTTCAAAAA
815750 TTTTTTTCAAAAA
1 TTTTTTTCAAAAA
815763 GATTTATGTG
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTTTCAAAAA
Found at i:816778 original size:12 final size:11
Alignment explanation
Indices: 816752--816788 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
816742 TAAAATACCT
816752 AAAAATTTCTC
1 AAAAATTTCTC
816763 AAAAATTTCTC
1 AAAAATTTCTC
* *
816774 AAAAAATTCCC
1 AAAAATTTCTC
816785 AAAA
1 AAAA
816789 TGATCTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATTTCTC
Found at i:820324 original size:13 final size:12
Alignment explanation
Indices: 820308--820371 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 12
820298 TCTTCTTTTG
820308 TATTATGTATGTA
1 TATTATGTAT-TA
* *
820321 TATTTTTTATTA
1 TATTATGTATTA
820333 GTATTATGTATTA
1 -TATTATGTATTA
820346 -ATATATGTA-TA
1 TAT-TATGTATTA
*
820357 TATTATTTATT-
1 TATTATGTATTA
820368 TATT
1 TATT
820372 TTTTGTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 13 0.31
12 11 0.26
13 18 0.43
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (12 bp):
TATTATGTATTA
Found at i:820359 original size:36 final size:35
Alignment explanation
Indices: 820319--820438 Score: 93
Period size: 36 Copynumber: 3.3 Consensus size: 35
820309 ATTATGTATG
820319 TATATTTTTTATTAGTATTATGTATTAATATATGTA
1 TATATTTTTTATTAGTATTAT-TATTAATATATGTA
* * * *
820355 TATATTATTTATT--TATTTTTTGTTAATATTTATGTG
1 TATATTTTTTATTAGTA-TTATTATTAATA--TATGTA
* * * *
820391 TAT-TTTATTATTTATGTATTATTACTAATATGTATA
1 TATATTTTTTA-TTA-GTATTATTATTAATATATGTA
820427 TATATTTTTTAT
1 TATATTTTTTAT
820439 CTTTTTTATT
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
34 9 0.14
35 8 0.13
36 29 0.46
37 6 0.10
38 9 0.14
39 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (35 bp):
TATATTTTTTATTAGTATTATTATTAATATATGTA
Found at i:820395 original size:70 final size:69
Alignment explanation
Indices: 820315--820444 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 69
820305 TTGTATTATG
820315 TATGTATATTTT-TTATTAGTAT-TATGTATTAAT-ATATGTATATATTATTTATTTAT-TTTTT
1 TATGTATATTTTATTATT--TATGTAT-TATTAATAATATGTATATA-TATTT-TTTATCTTTTT
820376 GTTAATATT
61 GTTAATATT
* *
820385 TATGTGTATTTTATTATTTATGTATTATTACTAATATGTATATATATTTTTTATCTTTTT
1 TATGTATATTTTATTATTTATGTATTATTAATAATATGTATATATATTTTTTATCTTTTT
820445 TATTTTATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
68 5 0.09
69 19 0.35
70 25 0.46
71 5 0.09
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (69 bp):
TATGTATATTTTATTATTTATGTATTATTAATAATATGTATATATATTTTTTATCTTTTTGTTAA
TATT
Found at i:820445 original size:70 final size:71
Alignment explanation
Indices: 820298--820445 Score: 166
Period size: 70 Copynumber: 2.1 Consensus size: 71
820288 TTTTTTTTCT
* *
820298 TCTTCTTTTGTATTATGTATGTATATTTTTTATTAGTATTATGTATTAATATATGTATATATTAT
1 TCTT-TTTTGTAATATGTATGTATATTTTTTATTAGTATTATGTACTAATATATGTATATATTAT
820363 TTATTTA
65 TTATTTA
* *
820370 --TTTTTTGTTAATATTTATGTGTATTTTATTATTTATGTATTAT-TACT-A-ATATGTATATA-
1 TCTTTTTTG-TAATATGTATGTATATTTT-TTA-TTA-GTATTATGTACTAATATATGTATATAT
820429 TATTT-TTTA
62 TATTTATTTA
820438 TCTTTTTT
1 TCTTTTTT
820446 ATTTTATTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
68 4 0.06
69 10 0.15
70 35 0.53
71 4 0.06
72 6 0.09
73 7 0.11
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (71 bp):
TCTTTTTTGTAATATGTATGTATATTTTTTATTAGTATTATGTACTAATATATGTATATATTATT
TATTTA
Found at i:821559 original size:57 final size:57
Alignment explanation
Indices: 821489--821895 Score: 471
Period size: 57 Copynumber: 6.8 Consensus size: 57
821479 TAAAAATAAA
* *
821489 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAT
1 AAATTTC-CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
821547 AAATTTCCAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCCAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
821604 AAATTTCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAAT
1 AAATTTC-CAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AAT
*
821663 AAATTTTCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
1 AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAAT
* *
821725 AAATTTCCAAAAAAAATATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCC--AAAAAATAT-TTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
** * *
821786 AAATTTAAAAAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTT-GAAAAT
1 AAATTT-CCAAAAAATA---TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* *
821847 CGAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 --AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
821896 TCCTACAAAA
Statistics
Matches: 307, Mismatches: 18, Indels: 47
0.83 0.05 0.13
Matches are distributed among these distances:
56 3 0.01
57 88 0.29
58 18 0.06
59 72 0.23
60 13 0.04
61 40 0.13
62 22 0.07
63 10 0.03
64 9 0.03
65 6 0.02
66 26 0.08
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (57 bp):
AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:824857 original size:49 final size:49
Alignment explanation
Indices: 824804--824953 Score: 160
Period size: 49 Copynumber: 3.1 Consensus size: 49
824794 CATGAATGCA
* * * * * *
824804 GAACAGAACAGAGACATCAGAAAGAAATGCACAACACACAAAAAAGCAC
1 GAACAAAATAGAGACAACAGACAGAAAGGCACAACACACAAAAAGGCAC
* *
824853 GAACAAAATAGAGACAACAGACAGAAAGGCGCAGA-ACGCAAAAAGGCAC
1 GAACAAAATAGAGACAACAGACAGAAAGGCACA-ACACACAAAAAGGCAC
* * * *
824902 GAACATAATAGAGACAGCACG-CAGAAAGGCACAGCACACAGAAAGGCAC
1 GAACAAAATAGAGACAACA-GACAGAAAGGCACAACACACAAAAAGGCAC
824951 GAA
1 GAA
824954 GGCAGCACGC
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
49 82 0.98
50 2 0.02
ACGTcount: A:0.53, C:0.22, G:0.22, T:0.03
Consensus pattern (49 bp):
GAACAAAATAGAGACAACAGACAGAAAGGCACAACACACAAAAAGGCAC
Found at i:824937 original size:17 final size:17
Alignment explanation
Indices: 824915--824950 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
824905 CATAATAGAG
*
824915 ACAGCACGCAGAAAGGC
1 ACAGCACACAGAAAGGC
824932 ACAGCACACAGAAAGGC
1 ACAGCACACAGAAAGGC
824949 AC
1 AC
824951 GAAGGCAGCA
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:0.44, C:0.31, G:0.25, T:0.00
Consensus pattern (17 bp):
ACAGCACACAGAAAGGC
Found at i:825332 original size:22 final size:22
Alignment explanation
Indices: 825307--825363 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
825297 GACAATTAGT
*
825307 GAATTGAATTCGAACTTTAATC
1 GAATCGAATTCGAACTTTAATC
825329 GAATCGAATTCGAACTTTAATC
1 GAATCGAATTCGAACTTTAATC
825351 GAATCGAATTCGA
1 GAATCGAATTCGA
825364 GTGCCTTGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (22 bp):
GAATCGAATTCGAACTTTAATC
Found at i:825866 original size:3 final size:3
Alignment explanation
Indices: 825858--825889 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
825848 TATGATTAAC
825858 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
825890 TATGAACCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:826557 original size:19 final size:19
Alignment explanation
Indices: 826533--826571 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
826523 GTGGGTGATT
826533 GGCAATGAAAAATGGGATA
1 GGCAATGAAAAATGGGATA
826552 GGCAATGAAAAATGGGATA
1 GGCAATGAAAAATGGGATA
826571 G
1 G
826572 ATGGTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.33, T:0.15
Consensus pattern (19 bp):
GGCAATGAAAAATGGGATA
Found at i:838608 original size:2 final size:2
Alignment explanation
Indices: 838601--838627 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
838591 CGGAATGAAT
838601 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
838628 TATGGATTGT
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:853660 original size:26 final size:26
Alignment explanation
Indices: 853612--853664 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
853602 ATCTCACAAG
* * *
853612 TTTAGGTTTAAATCTCTATATATATA
1 TTTAGGTTTAAATATCAACATATATA
*
853638 TTTAGGTTTAGATATCAACATATATA
1 TTTAGGTTTAAATATCAACATATATA
853664 T
1 T
853665 CATTTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTAGGTTTAAATATCAACATATATA
Found at i:861492 original size:26 final size:26
Alignment explanation
Indices: 861458--861509 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
861448 TACATTACAA
*
861458 GTTTAGATTTAGA-TCTTTACATATAT
1 GTTTAGATTTA-ATTCTCTACATATAT
*
861484 GTTTGGATTTAATTCTCTACATATAT
1 GTTTAGATTTAATTCTCTACATATAT
861510 ATTTTTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (26 bp):
GTTTAGATTTAATTCTCTACATATAT
Found at i:862252 original size:14 final size:13
Alignment explanation
Indices: 862233--862263 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
862223 AAATAAATTT
862233 ATTTTTTATTTAAA
1 ATTTTTT-TTTAAA
862247 ATTTTTTTTTAAA
1 ATTTTTTTTTAAA
862260 ATTT
1 ATTT
862264 GAAAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTTTTTAAA
Found at i:863557 original size:15 final size:17
Alignment explanation
Indices: 863527--863558 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
863517 AAATTAATAA
863527 TTTTATATTATCATTAT
1 TTTTATATTATCATTAT
863544 TTTTA-ATT-TCATTAT
1 TTTTATATTATCATTAT
863559 AAATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATATTATCATTAT
Found at i:869935 original size:2 final size:2
Alignment explanation
Indices: 869928--869953 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
869918 TGGAATGAAT
869928 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
869954 AATGTTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:872164 original size:14 final size:14
Alignment explanation
Indices: 872145--872171 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
872135 TTTAAATCAA
872145 ATTTAAAATAAATT
1 ATTTAAAATAAATT
872159 ATTTAAAATAAAT
1 ATTTAAAATAAAT
872172 CAAATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAATAAATT
Found at i:886021 original size:21 final size:23
Alignment explanation
Indices: 885982--886029 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
885972 TAAATAAAAG
*
885982 ATTATTTGTATATAGTTTAAATA
1 ATTATTTATATATAGTTTAAATA
*
886005 ATTATTTATAT-TA-TTTAAGTA
1 ATTATTTATATATAGTTTAAATA
886026 ATTA
1 ATTA
886030 AATTAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
ATTATTTATATATAGTTTAAATA
Found at i:886216 original size:105 final size:107
Alignment explanation
Indices: 886095--886310 Score: 278
Period size: 106 Copynumber: 2.0 Consensus size: 107
886085 GGTCAAATAA
* * *
886095 ATTTTAAAGTAAAAAATTAG-ACACTTTGACTTA-TTTGACAAATAAATATATTTTTTATTTAAA
1 ATTTAAAAGTAAAAAATTAGTACAATTGGAC-TAGTTTGACAAATAAATATA-TTTTTATTTAAA
* ** *
886158 TTTTTTGC-TTTTTAAAATTTGAAAATTAATAAAATATTATTTT
64 TCTTTTGCTTTTTTAAAATTAAAAAATAAATAAAATATTATTTT
* * * *
886201 ATTTAAAAGT-AAAAATTTGTATAATTGGACTAGTTTGATAAATAAATTTATTTTTATTTAAATC
1 ATTTAAAAGTAAAAAATTAGTACAATTGGACTAGTTTGACAAATAAATATATTTTTATTTAAATC
*
886265 TTTTGCTTTTTTAAAATTAAAAAATAAATAAAATTTTATTTT
66 TTTTGCTTTTTTAAAATTAAAAAATAAATAAAATATTATTTT
886307 ATTT
1 ATTT
886311 TAAATAAGCA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
105 29 0.31
106 66 0.69
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (107 bp):
ATTTAAAAGTAAAAAATTAGTACAATTGGACTAGTTTGACAAATAAATATATTTTTATTTAAATC
TTTTGCTTTTTTAAAATTAAAAAATAAATAAAATATTATTTT
Found at i:886408 original size:36 final size:35
Alignment explanation
Indices: 886324--886409 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 35
886314 ATAAGCATGC
* *
886324 TTAAATAAAAAAAATTGATTGTCTAAATAAATATGT
1 TTAAAT-AAAAAAATTGATTGTCCAAATAAATATAT
* * * * *
886360 TTGAGTAGAAAAATTTATATGTCCAAATAAATTTAT
1 TTAAATAAAAAAATTGAT-TGTCCAAATAAATATAT
886396 TTAAATAAAAAAAT
1 TTAAATAAAAAAAT
886410 GATGACACAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
35 10 0.26
36 29 0.74
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (35 bp):
TTAAATAAAAAAATTGATTGTCCAAATAAATATAT
Found at i:890879 original size:42 final size:42
Alignment explanation
Indices: 890820--890900 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
890810 GGCATATTCA
890820 ATTCAGCCACAAATATGTCATTCTTAGGCAATCCGCGTCTAC
1 ATTCAGCCACAAATATGTCATTCTTAGGCAATCCGCGTCTAC
890862 ATTCAGCCACAAATATGTCATTCTTAGGCAATCCGCGTC
1 ATTCAGCCACAAATATGTCATTCTTAGGCAATCCGCGTC
890901 AACGTGGAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
ATTCAGCCACAAATATGTCATTCTTAGGCAATCCGCGTCTAC
Found at i:894427 original size:18 final size:19
Alignment explanation
Indices: 894392--894430 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
894382 TAGTAAATAA
* *
894392 TTTTATTTTTATTTAAATT
1 TTTTACTTTTATTAAAATT
894411 TTTTACTTTT-TTAAAATT
1 TTTTACTTTTATTAAAATT
894429 TT
1 TT
894431 GAAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTACTTTTATTAAAATT
Found at i:900794 original size:18 final size:18
Alignment explanation
Indices: 900771--900806 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
900761 ATACTGTTAA
900771 TTATTTTATATTT-TTATT
1 TTATTTTAT-TTTATTATT
900789 TTATTTTATTTTATTATT
1 TTATTTTATTTTATTATT
900807 AATATGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTATTTTATTATT
Found at i:900798 original size:211 final size:201
Alignment explanation
Indices: 900425--900838 Score: 518
Period size: 206 Copynumber: 2.0 Consensus size: 201
900415 GATAATATAA
*
900425 AAATTAATATATATTTTTTATAACACCAATATTAATATACATAGTTAATAATAAAGCATAAATAT
1 AAATTAATATATATTTTTTATAACACCAATAGTAATATACATAGTTAATAATAAAGCATAAATAT
* * *
900490 TTTTAAAAATAAATATATAAATTATGTAAACAGTACATTAATGATATAAACAATGTAAGTTATAA
66 TTGT-AAAAT-AATATATAAATTATGTAAACAGTAC----AGGATATAAACAATGCAAGTTATAA
900555 TAAACTACTGTTAATATATTTTTTATTTTTATTTTATTTTATTATTAATATGAATATCGTTATTA
125 TAAACTACTGTTAATATA----TT-TTTTTATTTTATTTTATTATTAATATGAATATCGTTATTA
900620 AT-ACATATTAATTTTTT
185 ATAACATA-TAATTTTTT
900637 AAATTAATATATA-TTTTTATAACACCAATAGTAATATACATAGTTAATAATAAAGCATAAATA-
1 AAATTAATATATATTTTTTATAACACCAATAGTAATATACATAGTTAATAATAAAGCATAAATAT
* *
900700 TTGT-AAAT-ATATATTAATTATGTAAACAGTAC-GGATATAAACACTGCAAGTTATAA-ATAAC
66 TTGTAAAATAATATATAAATTATGTAAACAGTACAGGATATAAACAATGCAAGTTATAATA-AAC
900761 ATACTGTTAATTATTTTATATTTTTATTTTATTTTATTTTATTATTAATATGAATATCGTTATTA
130 -TACTGTT-A--A---TATA--TTT-TTTTATTTTATTTTATTATTAATATGAATATCGTTATTA
900826 ATAACATATAATT
185 ATAACATATAATT
900839 ATATTGATAT
Statistics
Matches: 186, Mismatches: 6, Indels: 26
0.85 0.03 0.12
Matches are distributed among these distances:
200 1 0.01
201 24 0.13
202 7 0.04
203 1 0.01
205 2 0.01
206 73 0.39
207 5 0.03
208 8 0.04
210 3 0.02
211 49 0.26
212 13 0.07
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (201 bp):
AAATTAATATATATTTTTTATAACACCAATAGTAATATACATAGTTAATAATAAAGCATAAATAT
TTGTAAAATAATATATAAATTATGTAAACAGTACAGGATATAAACAATGCAAGTTATAATAAACT
ACTGTTAATATATTTTTTTATTTTATTTTATTATTAATATGAATATCGTTATTAATAACATATAA
TTTTTT
Found at i:901085 original size:2 final size:2
Alignment explanation
Indices: 901078--901112 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
901068 TCATTCTCGC
901078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
901113 TTCATAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:902697 original size:197 final size:197
Alignment explanation
Indices: 902362--902757 Score: 756
Period size: 197 Copynumber: 2.0 Consensus size: 197
902352 GGTAGGATAT
902362 AATTTGACATTATAACAGAGAAGTTGAGTTTTTTTTTTGTTTCAGAACATAGTACTAAGTTAGTG
1 AATTTGACATTATAACAGAGAAGTTGAGTTTTTTTTTTGTTTCAGAACATAGTACTAAGTTAGTG
* *
902427 CTAAGAACCTGAATTTACTGTGTGGTATGTTTGTTCTAGAATTTGCAGTATCTCATGTATCTCAT
66 CTAAGAACCTGAATTTACTGTGTGGTACGTTTGTTCTAGAATTTGCAGGATCTCATGTATCTCAT
*
902492 ATGTTCATATCTGTATATGTATTTTGAATATTTAGTAATGTCCATTCATACTTCATATAAGATAT
131 ATGTTCATATCTGTATATGTATTCTGAATATTTAGTAATGTCCATTCATACTTCATATAAGATAT
902557 TC
196 TC
902559 AATTTGACATTATAACAGAGAAGTTGAGTTTTTTTTTTGTTTCAGAACATAGTACTAAGTTAGTG
1 AATTTGACATTATAACAGAGAAGTTGAGTTTTTTTTTTGTTTCAGAACATAGTACTAAGTTAGTG
*
902624 CTAAGAACCTGAATTTGCTGTGTGGTACGTTTGTTCTAGAATTTGCAGGATCTCATGTATCTCAT
66 CTAAGAACCTGAATTTACTGTGTGGTACGTTTGTTCTAGAATTTGCAGGATCTCATGTATCTCAT
902689 ATGTTCATATCTGTATATGTATTCTGAATATTTAGTAATGTCCATTCATACTTCATATAAGATAT
131 ATGTTCATATCTGTATATGTATTCTGAATATTTAGTAATGTCCATTCATACTTCATATAAGATAT
902754 TC
196 TC
902756 AA
1 AA
902758 GTGTCCTAGA
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 195 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (197 bp):
AATTTGACATTATAACAGAGAAGTTGAGTTTTTTTTTTGTTTCAGAACATAGTACTAAGTTAGTG
CTAAGAACCTGAATTTACTGTGTGGTACGTTTGTTCTAGAATTTGCAGGATCTCATGTATCTCAT
ATGTTCATATCTGTATATGTATTCTGAATATTTAGTAATGTCCATTCATACTTCATATAAGATAT
TC
Found at i:905481 original size:12 final size:11
Alignment explanation
Indices: 905458--905490 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
905448 TTAATATATA
905458 TTTAAAAAAAT
1 TTTAAAAAAAT
905469 TTTAAAAATAAT
1 TTTAAAAA-AAT
905481 TTTAAAAAAA
1 TTTAAAAAAA
905491 GTGGATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTTAAAAAAAT
Found at i:905629 original size:20 final size:20
Alignment explanation
Indices: 905604--905662 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
905594 ACTATTTTAA
*
905604 TAAAAATTTCTAATTTTCTT
1 TAAAAATTTCTAATTTTATT
*
905624 TAAAAA-CTCTTAATTATTATT
1 TAAAAATTTC-TAATT-TTATT
*
905645 TAATAATTT-TAATTTTAT
1 TAAAAATTTCTAATTTTAT
905663 GTGGTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 6 0.19
20 16 0.50
21 9 0.28
22 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAAATTTCTAATTTTATT
Found at i:910521 original size:19 final size:19
Alignment explanation
Indices: 910494--910538 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
910484 AATGATCGAA
*
910494 TTTAATTGAATTATATATT
1 TTTATTTGAATTATATATT
* * *
910513 TTTATTTGATTTTTATTTT
1 TTTATTTGAATTATATATT
910532 TTTATTT
1 TTTATTT
910539 TTATAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTATTTGAATTATATATT
Found at i:910638 original size:24 final size:25
Alignment explanation
Indices: 910598--910645 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
910588 AAGAATATAT
910598 TAAAATAATATATAAAA-AATAAAA
1 TAAAATAATATATAAAATAATAAAA
*
910622 TAAAATAA-ATTTCAAAATAATAAA
1 TAAAATAATATAT-AAAATAATAAA
910646 TAGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.57
25 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAAATAATATATAAAATAATAAAA
Found at i:910647 original size:24 final size:24
Alignment explanation
Indices: 910580--910629 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
910570 TATCTATTTA
* * * *
910580 AATATATTAAGAATATATTAAAAT
1 AATATATAAAAAATAAAATAAAAT
910604 AATATATAAAAAATAAAATAAAAT
1 AATATATAAAAAATAAAATAAAAT
910628 AA
1 AA
910630 ATTTCAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AATATATAAAAAATAAAATAAAAT
Found at i:910963 original size:33 final size:34
Alignment explanation
Indices: 910926--910998 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
910916 AAAATTTTGA
*
910926 ATAAATAT-ATTATTTATAC-ATATAATTA-ATCAT
1 ATAAATATAATTATGTATACAAT-TAATTACAT-AT
910959 ATAAA-ATAATTATGTATACAATTAATTACATAT
1 ATAAATATAATTATGTATACAATTAATTACATAT
910992 ATAAATA
1 ATAAATA
910999 AATAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
32 2 0.06
33 28 0.80
34 5 0.14
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (34 bp):
ATAAATATAATTATGTATACAATTAATTACATAT
Found at i:912605 original size:30 final size:30
Alignment explanation
Indices: 912535--912610 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
912525 AAAACAGTAC
* *
912535 TTTAAGGATTTACTTAGAAAAAAATAATAT
1 TTTAAGGATTTAATTAGAAAAAAATAATAA
* *
912565 TTTCAGGATTTAATTAGATAAAAATAATAA
1 TTTAAGGATTTAATTAGAAAAAAATAATAA
*
912595 TTTAAAGATTTAATTA
1 TTTAAGGATTTAATTA
912611 AATACAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (30 bp):
TTTAAGGATTTAATTAGAAAAAAATAATAA
Found at i:914303 original size:21 final size:21
Alignment explanation
Indices: 914257--914304 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
914247 AGTAAAATGT
*
914257 TAAAATTTTAATTTTAATAATC
1 TAAAA-TTTAATTTTAATAACC
914279 -AAAATTTAATATTT-ATAACC
1 TAAAATTTAAT-TTTAATAACC
914299 TAAAAT
1 TAAAAT
914305 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATTTAATTTTAATAACC
Found at i:921190 original size:27 final size:27
Alignment explanation
Indices: 921158--921211 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
921148 TTGACAATAC
921158 TGTTTTCTTCTACAGAACCTTTTCTGA
1 TGTTTTCTTCTACAGAACCTTTTCTGA
921185 TGTTTTCTTCTACAGAACCTTTTCTGA
1 TGTTTTCTTCTACAGAACCTTTTCTGA
921212 AGACCTCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (27 bp):
TGTTTTCTTCTACAGAACCTTTTCTGA
Found at i:929591 original size:17 final size:17
Alignment explanation
Indices: 929561--929598 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
929551 TAAATTAAAT
* *
929561 AATTTTAAATTTATTCA
1 AATTTCAAAATTATTCA
929578 AATTTCAAAATTATTCA
1 AATTTCAAAATTATTCA
929595 AATT
1 AATT
929599 ATAATTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTCAAAATTATTCA
Found at i:931794 original size:21 final size:23
Alignment explanation
Indices: 931770--931812 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
931760 TGATTAAATA
931770 TTATTAAAAT-ATTTT-ATATTT
1 TTATTAAAATAATTTTAATATTT
*
931791 TTATTAATATAATTTTAATATT
1 TTATTAAAATAATTTTAATATT
931813 CTTTTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTAAAATAATTTTAATATTT
Found at i:931864 original size:26 final size:26
Alignment explanation
Indices: 931835--931886 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
931825 TTATATTTGA
*
931835 GTATTGCTCACTGATTTAGAATTTAT
1 GTATTGCTCACTGACTTAGAATTTAT
* * *
931861 GTATTGTTCACTTACTTAGACTTTAT
1 GTATTGCTCACTGACTTAGAATTTAT
931887 AAAGCTTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (26 bp):
GTATTGCTCACTGACTTAGAATTTAT
Found at i:932007 original size:15 final size:15
Alignment explanation
Indices: 931989--932018 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
931979 ACTGTATATA
931989 AAGCTTGTGTTTATG
1 AAGCTTGTGTTTATG
932004 AAGCTTGTGTTTATG
1 AAGCTTGTGTTTATG
932019 GGAGAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
AAGCTTGTGTTTATG
Found at i:932422 original size:94 final size:94
Alignment explanation
Indices: 932299--932475 Score: 293
Period size: 94 Copynumber: 1.9 Consensus size: 94
932289 TTTGTTGATA
* * *
932299 AAAAAGTTGGTTTATTTATAGCGTTTAGCATAAAAAACGTCTTTAATAATCCTTTAGAAAAAATT
1 AAAAAGTTGATTTATTTATAGCGTTTAGCATAAAAAACCTCTTTAATAATCCCTTAGAAAAAATT
932364 GAAT-GAGATTATTCGAGGTGTTTCTAATC
66 GAATGGAG-TTATTCGAGGTGTTTCTAATC
* *
932393 AAAAAGTTGATTTATTTATAGTGTTTAGCATGAAAAACCTCTTTAATAATCCCTTAGAAAAAATT
1 AAAAAGTTGATTTATTTATAGCGTTTAGCATAAAAAACCTCTTTAATAATCCCTTAGAAAAAATT
932458 GAATGGAGTTATTCGAGG
66 GAATGGAGTTATTCGAGG
932476 CATTTCTAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 74 0.96
95 3 0.04
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (94 bp):
AAAAAGTTGATTTATTTATAGCGTTTAGCATAAAAAACCTCTTTAATAATCCCTTAGAAAAAATT
GAATGGAGTTATTCGAGGTGTTTCTAATC
Found at i:937286 original size:2 final size:2
Alignment explanation
Indices: 937275--937318 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
937265 CTTTGTATGT
937275 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
937316 TA T
1 TA T
937319 TAGATTGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:940418 original size:2 final size:2
Alignment explanation
Indices: 940411--940444 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
940401 CAATCTCTTT
* *
940411 TA TA TA TA GA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
940445 GAACAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:941038 original size:16 final size:15
Alignment explanation
Indices: 940985--941043 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
940975 ATTTATTTTA
*
940985 AAAAATAAGAAAAAAT
1 AAAAATAA-AAAAATT
* **
941001 AAACA-AAAAGGATT
1 AAAAATAAAAAAATT
941015 AAAAATAAAAAAATT
1 AAAAATAAAAAAATT
941030 AAAAGATAAAAAAA
1 AAAA-ATAAAAAAA
941044 ATAGTTGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
14 8 0.24
15 13 0.38
16 13 0.38
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAATAAAAAAATT
Found at i:943900 original size:18 final size:19
Alignment explanation
Indices: 943865--943906 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
943855 TTCATATATT
* * *
943865 TTTTTTTATCATTTTTGTG
1 TTTTATTATCATTATTGTA
943884 TTTTATTATCA-TATTGTA
1 TTTTATTATCATTATTGTA
943902 TTTTA
1 TTTTA
943907 GAGTATCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTTATTATCATTATTGTA
Found at i:944005 original size:20 final size:21
Alignment explanation
Indices: 943944--944007 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
943934 TAAATTTATT
943944 ATTA-TTTAATATTTTAA-AG
1 ATTATTTTAATATTTTAATAG
943963 ATTACTTTTATATTATATATTAATAG
1 ATTA-TTTTA-A-TAT-T-TTAATAG
943989 ATT-TTTTAATATTTTAATA
1 ATTATTTTAATATTTTAATA
944008 ACATTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
19 4 0.11
20 6 0.16
21 5 0.13
22 4 0.11
23 4 0.11
24 6 0.16
25 4 0.11
26 5 0.13
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (21 bp):
ATTATTTTAATATTTTAATAG
Found at i:946734 original size:9 final size:9
Alignment explanation
Indices: 946720--946747 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
946710 ACCACGCAGG
946720 ACCAACAAA
1 ACCAACAAA
946729 ACCAACAAA
1 ACCAACAAA
946738 ACCAACAAA
1 ACCAACAAA
946747 A
1 A
946748 ACACTCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (9 bp):
ACCAACAAA
Found at i:950858 original size:2 final size:2
Alignment explanation
Indices: 950851--950888 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
950841 CTGTTTTTGT
950851 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
950889 CTTCTTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:954201 original size:28 final size:28
Alignment explanation
Indices: 954167--954226 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 28
954157 GAAAGAAGTC
954167 AAGTT-CCTCCACTGTCATGGCAAAGTAA
1 AAGTTCCCT-CACTGTCATGGCAAAGTAA
954195 AAGTTCCCTCACTGTCATGGCAAAGTAA
1 AAGTTCCCTCACTGTCATGGCAAAGTAA
954223 AAGT
1 AAGT
954227 CCCCCCCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 28 0.90
29 3 0.10
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (28 bp):
AAGTTCCCTCACTGTCATGGCAAAGTAA
Found at i:961080 original size:20 final size:20
Alignment explanation
Indices: 961055--961095 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
961045 TAAGAATAAA
*
961055 TAAATGAAGTTTGGTTTTGG
1 TAAATGAAGTTTGGCTTTGG
961075 TAAATGAAGTTTGGCTTTGG
1 TAAATGAAGTTTGGCTTTGG
961095 T
1 T
961096 TTTGGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (20 bp):
TAAATGAAGTTTGGCTTTGG
Found at i:961669 original size:27 final size:30
Alignment explanation
Indices: 961639--961694 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 30
961629 GTTAATTAAT
*
961639 ATTTAATAAT-TGTAA-AT-TAAATAAAAA
1 ATTTAATAATATATAATATATAAATAAAAA
*
961666 ATTTATTAATATATAATATATAAATAAAA
1 ATTTAATAATATATAATATATAAATAAAA
961695 TGTTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 4 0.17
29 2 0.08
30 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
ATTTAATAATATATAATATATAAATAAAAA
Found at i:962091 original size:17 final size:17
Alignment explanation
Indices: 962069--962111 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
962059 GATCAGAATT
962069 ATTTAAAGTTATTTGAA
1 ATTTAAAGTTATTTGAA
* * *
962086 ATTTAAA-TTTTTTTAG
1 ATTTAAAGTTATTTGAA
962102 ATTTAAAGTT
1 ATTTAAAGTT
962112 TGATTTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
ATTTAAAGTTATTTGAA
Found at i:966816 original size:15 final size:15
Alignment explanation
Indices: 966796--966825 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
966786 TTCTTGCATC
966796 TTCCTATTTCTTCTT
1 TTCCTATTTCTTCTT
*
966811 TTCCTATTTTTTCTT
1 TTCCTATTTCTTCTT
966826 CCTTTTGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCCTATTTCTTCTT
Found at i:973948 original size:16 final size:17
Alignment explanation
Indices: 973917--973956 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
973907 ATTTTTCCAA
973917 AAATATTTACAAAAAAT
1 AAATATTTACAAAAAAT
*
973934 AAATATTT-TAAAAAAT
1 AAATATTTACAAAAAAT
973950 AAATATT
1 AAATATT
973957 AGTGTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATTTACAAAAAAT
Found at i:974890 original size:21 final size:21
Alignment explanation
Indices: 974866--974915 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
974856 TAAAGTTTTT
*
974866 AAAATAATC-CAAATTATAATA
1 AAAATAATCGCAAACTA-AATA
974887 AAAATCAA-CGCAAACTAAATA
1 AAAAT-AATCGCAAACTAAATA
974908 AAAATAAT
1 AAAATAAT
974916 TTAATTTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 15 0.60
22 8 0.32
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATAATCGCAAACTAAATA
Found at i:985323 original size:32 final size:32
Alignment explanation
Indices: 985287--985350 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
985277 GTTATATAAA
*
985287 ATAATAAAATT-TAT-TCATTTATATCATATTTT
1 ATAATAAAATTATATATCA-TAATA-CATATTTT
985319 ATAATAAAATTATATATCATAATACATATTTT
1 ATAATAAAATTATATATCATAATACATATTTT
985351 TTATTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 19 0.66
33 7 0.24
34 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATAAAATTATATATCATAATACATATTTT
Found at i:998498 original size:22 final size:22
Alignment explanation
Indices: 998473--998516 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
998463 ATTTTATGTC
*
998473 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
998495 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
998517 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:1002598 original size:2 final size:2
Alignment explanation
Indices: 1002593--1002619 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1002583 AAAAAAAAAA
1002593 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
1002620 CAGATTACAA
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:1014843 original size:23 final size:22
Alignment explanation
Indices: 1014812--1014859 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
1014802 ATCACTATTA
*
1014812 TTTTCAAAA-AACTATTATTATCT
1 TTTTCAAAATAA-TATCATTA-CT
*
1014835 TTTTGAAAATAATATCATTACT
1 TTTTCAAAATAATATCATTACT
1014857 TTT
1 TTT
1014860 ATTCTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 15 0.68
24 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTCAAAATAATATCATTACT
Found at i:1022659 original size:3 final size:3
Alignment explanation
Indices: 1022651--1022689 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1022641 AAATCATGAC
1022651 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1022690 GACATATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1025274 original size:22 final size:22
Alignment explanation
Indices: 1025246--1025287 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1025236 TCTTTCCGCC
1025246 AAATACCCTCTATAGGGCATGG
1 AAATACCCTCTATAGGGCATGG
1025268 AAATACCCTCTATAGGGCAT
1 AAATACCCTCTATAGGGCAT
1025288 CTCCACAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (22 bp):
AAATACCCTCTATAGGGCATGG
Found at i:1026271 original size:2 final size:2
Alignment explanation
Indices: 1026264--1026302 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1026254 GGATCTTTTG
* *
1026264 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1026303 CCTGATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1026555 original size:12 final size:12
Alignment explanation
Indices: 1026520--1026556 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1026510 TTAATATTAA
*
1026520 TAATAATAACAT
1 TAATAATAATAT
*
1026532 TAATAATGATAT
1 TAATAATAATAT
1026544 TAATAATAATAT
1 TAATAATAATAT
1026556 T
1 T
1026557 GATTTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:1031001 original size:57 final size:56
Alignment explanation
Indices: 1030937--1031208 Score: 339
Period size: 57 Copynumber: 4.7 Consensus size: 56
1030927 TTGTGTAAGG
* *
1030937 AAAATTGATACTTTCAACTTTTCTCCAAAATATTCTTTT-AAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAATATT-TTTTGAAAA-TTTATTTTCAAGA
* *
1030994 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTCC-AAAATATTTTTTGAAAA-TTT-ATTTTCAAGA
* * * *
1031053 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTC--CAAAA-TATTTTTTGAAAATTTATTTTCAAGA
* *
1031113 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCTCC-AAAATATTTTTTGAAAATTTATTTTCAAGA
*
1031170 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAAC-TTTTCTCCAAAATATTTTTT
1031209 TTGATTTTTA
Statistics
Matches: 192, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
57 83 0.43
58 26 0.14
59 31 0.16
60 33 0.17
61 7 0.04
62 12 0.06
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAATATTTTTTGAAAATTTATTTTCAAGA
Found at i:1031222 original size:119 final size:119
Alignment explanation
Indices: 1030937--1031212 Score: 395
Period size: 119 Copynumber: 2.4 Consensus size: 119
1030927 TTGTGTAAGG
* * * * ** *
1030937 AAAATTGATACTTTCAACTTTT-CTCCAAAATA--TTCTTTT-AAAACTTTAATTTCGAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAA-TTTATTTTTAAGGAAAA
*
1030998 TTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGG
65 TTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
1031053 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
*
1031118 TGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAA-TTT-ATTTTTAAGA
66 TGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
* *
1031170 AAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGA
1031213 TTTTTATTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
116 32 0.22
117 47 0.32
118 3 0.02
119 59 0.41
120 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
Found at i:1031236 original size:5 final size:5
Alignment explanation
Indices: 1031226--1031310 Score: 65
Period size: 5 Copynumber: 17.6 Consensus size: 5
1031216 TTATTTAAAG
* *
1031226 AAAAT AAAAT --AAT GAAAC AAAAT AAAAGT GAAAAT AAAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* *
1031275 AAAGA- AAAGT AAAAT AAAA- ATAA- AAAAT AAAAT AAA
1 AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1031311 GGTAAAAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
3 3 0.05
4 10 0.15
5 45 0.69
6 3 0.05
7 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Done.