Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 7 of 402
Found at i:1195343 original size:22 final size:23
Alignment explanation
Indices: 1195317--1195361 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1195307 ATAATATCTG
1195317 ACAAATTTCAAACAAAT-TTTTA
1 ACAAATTTCAAACAAATCTTTTA
* *
1195339 ACAAATTTTAAATAAATCTTTTA
1 ACAAATTTCAAACAAATCTTTTA
1195362 TGAAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (23 bp):
ACAAATTTCAAACAAATCTTTTA
Found at i:1195347 original size:11 final size:11
Alignment explanation
Indices: 1195317--1195355 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1195307 ATAATATCTG
*
1195317 ACAAATTTCAA
1 ACAAATTTTAA
*
1195328 ACAAATTTTTA
1 ACAAATTTTAA
1195339 ACAAATTTTAA
1 ACAAATTTTAA
*
1195350 ATAAAT
1 ACAAAT
1195356 CTTTTATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (11 bp):
ACAAATTTTAA
Found at i:1195881 original size:33 final size:33
Alignment explanation
Indices: 1195844--1195926 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
1195834 GGATGAACGG
*
1195844 TAAAATATATTATGA-TAAAATTTTAAAAAA-TAA
1 TAAAATATATTATAATTAAAA--TTAAAAAATTAA
* *
1195877 TAAAATTTATTATAATTATAATTAAAAAATTAA
1 TAAAATATATTATAATTAAAATTAAAAAATTAA
*
1195910 TAAAAAAT-TTAT-ATTAA
1 TAAAATATATTATAATTAA
1195927 TTTAATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
31 4 0.10
32 12 0.29
33 22 0.52
34 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
TAAAATATATTATAATTAAAATTAAAAAATTAA
Found at i:1207096 original size:29 final size:30
Alignment explanation
Indices: 1207040--1207144 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 30
1207030 GATATGAATC
* * *
1207040 TAAT-TTTAAATTATAATATAATATTTAATA
1 TAATATTTAATTTTTAAAATAAT-TTTAATA
**
1207070 CGATATTTAATTTTTAAAA-AATTTTAATA
1 TAATATTTAATTTTTAAAATAATTTTAATA
* * *
1207099 TAATATTTAAATTATAAAATTATTAATTAATA
1 TAATATTTAATTTTTAAAATAATT--TTAATA
1207131 TAATATTTAATTTT
1 TAATATTTAATTTT
1207145 ATGTAATTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
29 22 0.37
30 8 0.14
31 11 0.19
32 18 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TAATATTTAATTTTTAAAATAATTTTAATA
Found at i:1207140 original size:16 final size:16
Alignment explanation
Indices: 1207093--1207142 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
1207083 TTAAAAAATT
1207093 TTAATATAATATTTAAA
1 TTAATATAATATTT-AA
*
1207110 TT-ATAAAAT-TATTAA
1 TTAATATAATAT-TTAA
1207125 TTAATATAATATTTAA
1 TTAATATAATATTTAA
1207141 TT
1 TT
1207143 TTATGTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.18
16 20 0.71
17 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATATAATATTTAA
Found at i:1207670 original size:19 final size:17
Alignment explanation
Indices: 1207625--1207708 Score: 66
Period size: 17 Copynumber: 4.9 Consensus size: 17
1207615 TGATTAATAG
*
1207625 TAATACATATTAAAAAA
1 TAATACATAATAAAAAA
**
1207642 TAATTTATAATAAAAAA
1 TAATACATAATAAAAAA
* *
1207659 TATGATACATAACAAAAAG
1 TA--ATACATAATAAAAAA
1207678 T-ATA-ATAA-AAAATAA
1 TAATACATAATAAAA-AA
*
1207693 TAATTCATAATAAAAA
1 TAATACATAATAAAAA
1207709 TGTAACGCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
14 4 0.08
15 6 0.12
16 5 0.10
17 21 0.40
18 4 0.08
19 12 0.23
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (17 bp):
TAATACATAATAAAAAA
Found at i:1211425 original size:2 final size:2
Alignment explanation
Indices: 1211412--1211467 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
1211402 TTTGAGTTCT
* *
1211412 AG AG AG AA AG AG AG A- AA AG AG A- AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1211451 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
1211468 AAATCTGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1216649 original size:28 final size:29
Alignment explanation
Indices: 1216581--1216684 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 29
1216571 GATAGGCTCA
*
1216581 TATTTTTTTATTTTATTTTA-TATTATTA-T
1 TATTTTTTTA--TTATTTTATTATCATTATT
* * * * ** *
1216610 TAGTATTATTATTATTTTCTTTTTTTTGTT
1 TA-TTTTTTTATTATTTTATTATCATTATT
*
1216640 TA-TTTTTTATTTTTTTATTATCATTATT
1 TATTTTTTTATTATTTTATTATCATTATT
1216668 TATTTTTTTATTATTTT
1 TATTTTTTTATTATTTT
1216685 TTAGATTTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
28 27 0.48
29 20 0.36
30 9 0.16
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (29 bp):
TATTTTTTTATTATTTTATTATCATTATT
Found at i:1216658 original size:48 final size:48
Alignment explanation
Indices: 1216583--1216687 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
1216573 TAGGCTCATA
*
1216583 TTTTTTTATTTTATTTTATATTATTATTAGT-ATTA-TTATTATTTTCT
1 TTTTTTTATTTTATTTTATATTATTATTA-TCATTATTTATTATTTTAT
* * * * *
1216630 TTTTTTTGTTTATTTTTTATTTTTTTATTATCATTATTTATTTTTTTAT
1 TTTTTTTATTT-TATTTTATATTATTATTATCATTATTTATTATTTTAT
1216679 TATTTTTTA
1 T-TTTTTTA
1216688 GATTTTTATC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
47 11 0.23
48 19 0.40
49 11 0.23
50 6 0.13
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (48 bp):
TTTTTTTATTTTATTTTATATTATTATTATCATTATTTATTATTTTAT
Found at i:1216694 original size:21 final size:20
Alignment explanation
Indices: 1216615--1216694 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 20
1216605 ATTATTAGTA
*
1216615 TTATTATTATTTT-CTTTTTT
1 TTATTATT-TTTTAATTTTTT
* *
1216635 TTGTTTATTTTTTATTTTTTT
1 TT-ATTATTTTTTAATTTTTT
* *
1216656 ATTATCATTATTT-A-TTTTT
1 -TTATTATTTTTTAATTTTTT
1216675 TTATTATTTTTTAGATTTTT
1 TTATTATTTTTTA-ATTTTT
1216695 ATCTTTTCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
18 10 0.22
19 5 0.11
20 7 0.15
21 22 0.48
22 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (20 bp):
TTATTATTTTTTAATTTTTT
Found at i:1216696 original size:18 final size:18
Alignment explanation
Indices: 1216618--1216687 Score: 81
Period size: 18 Copynumber: 3.7 Consensus size: 18
1216608 ATTAGTATTA
1216618 TTATTATTTTCTT-TTTTT
1 TTATTATTTT-TTATTTTT
1216636 TGT-TTATTTTTTATTTTT
1 T-TATTATTTTTTATTTTT
1216654 TTATTATCATTATTTATTTTT
1 TTATTAT--TT-TTTATTTTT
1216675 TTATTATTTTTTA
1 TTATTATTTTTTA
1216688 GATTTTTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.07
18 22 0.48
19 3 0.07
20 2 0.04
21 16 0.35
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (18 bp):
TTATTATTTTTTATTTTT
Found at i:1217613 original size:63 final size:62
Alignment explanation
Indices: 1217533--1217718 Score: 225
Period size: 63 Copynumber: 3.0 Consensus size: 62
1217523 AAAATAAAAA
* *
1217533 TTTTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT
1 TTTTTAAAAAAATATTTTT-AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
* * * ****
1217596 TTTTTAAAAAAATATTTTTTAAAAAAAGTTGAAAGTATCAA-TTTCCCTAAAAATAAAAAAAA
1 TTTTTAAAAAAATA-TTTTTAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
**
1217658 AGTTT-AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTT
1 TTTTTAAAAAAATATTTTTA-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
1217719 CTAAAATAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
60 6 0.06
61 30 0.29
62 28 0.27
63 33 0.32
64 5 0.05
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (62 bp):
TTTTTAAAAAAATATTTTTAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
Found at i:1217615 original size:18 final size:18
Alignment explanation
Indices: 1217572--1217615 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1217562 TGAAAGTATC
*
1217572 AATTTTTCTTGAAAATAA
1 AATTTTTTTTGAAAATAA
*
1217590 AATTTTTTTTTAAAA-AA
1 AATTTTTTTTGAAAATAA
1217607 ATATTTTTT
1 A-ATTTTTT
1217616 AAAAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTTTTTTGAAAATAA
Found at i:1217838 original size:25 final size:24
Alignment explanation
Indices: 1217784--1217838 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
1217774 TCTCTGAAAA
* * * *
1217784 TAAAAAAGTTTAAAAAATATTTTT
1 TAAAAAAGTTGAAAAAAAAGTTTC
1217808 TGAAAAAAGTTGAAAAATAAAGTTTC
1 T-AAAAAAGTTGAAAAA-AAAGTTTC
1217834 TAAAA
1 TAAAA
1217839 TAAAAATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 18 0.72
26 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (24 bp):
TAAAAAAGTTGAAAAAAAAGTTTC
Found at i:1217932 original size:112 final size:113
Alignment explanation
Indices: 1217706--1217934 Score: 340
Period size: 112 Copynumber: 2.0 Consensus size: 113
1217696 AATTTTTCTT
* * *
1217706 AAAAATAAATTTTCTAAAATAAAAAAATTTCAAAAACATTTTGGAAGGGAAAGTTGAAAGTATTA
1 AAAAATAAAGTTTCTAAAAT-AAAAAATTCCAAAAACATTTTGGAAGGGAAAGTTGAAAGTATCA
*
1217771 ATTTCTCTGAAAATAAAAAAGTTTAAAAAATATTTTTTGAAAAAAGTTG
65 ATTTCTCTGAAAATAAAAAAGTTTAAAAAATATTTTTAGAAAAAAGTTG
*
1217820 AAAAATAAAGTTTCTAAAAT-AAAAATTGCCAAAAACATTTTGG-GGGGAAAAGTTGAAAGTATC
1 AAAAATAAAGTTTCTAAAATAAAAAATT-CCAAAAACATTTTGGAAGGG-AAAGTTGAAAGTATC
*
1217883 AATTTC-CTTGAAAAT-AAAAAGTTTAAAAAATATTTTTAGGAAAAAGTTG
64 AATTTCTC-TGAAAATAAAAAAGTTTAAAAAATATTTTTAGAAAAAAGTTG
1217932 AAA
1 AAA
1217935 GTATCAATTT
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
112 46 0.43
113 41 0.39
114 19 0.18
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (113 bp):
AAAAATAAAGTTTCTAAAATAAAAAATTCCAAAAACATTTTGGAAGGGAAAGTTGAAAGTATCAA
TTTCTCTGAAAATAAAAAAGTTTAAAAAATATTTTTAGAAAAAAGTTG
Found at i:1217947 original size:58 final size:56
Alignment explanation
Indices: 1217755--1217968 Score: 202
Period size: 58 Copynumber: 3.8 Consensus size: 56
1217745 TTTGGAAGGG
* * *
1217755 AAAGTTGAAAGTATTAATTTCTCTGAAAATAAAAAAGTTTAAAAAATATTTTTTGAAA
1 AAAGTTGAAAGTATCAATTTCT-TGAAAAT-AAAAAGTTTAAAAAATATTTTTAGGAA
* * ** * ** *
1217813 AAAGTTGAAA-AATAAAGTTTC-T-AAAATAAAAA-TTGCCAAAAACATTTTGGGGGGA
1 AAAGTTGAAAGTATCAA-TTTCTTGAAAATAAAAAGTT-TAAAAAATATTTT-TAGGAA
1217868 AAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTT-CTTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAA
* **
1217925 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTTAAAA
1 AAAGTTGAAAGTATCAA-TTT-CTTGAAAATAAAAAGTTTAAAA
1217969 TAAAAAATTT
Statistics
Matches: 127, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
53 2 0.02
54 15 0.12
55 20 0.16
56 6 0.05
57 25 0.20
58 57 0.45
59 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.33
Consensus pattern (56 bp):
AAAGTTGAAAGTATCAATTTCTTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAA
Found at i:1221234 original size:15 final size:15
Alignment explanation
Indices: 1221214--1221242 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1221204 TTCGCATACA
1221214 TGCATTTTCATTCAT
1 TGCATTTTCATTCAT
1221229 TGCATTTTCATTCA
1 TGCATTTTCATTCA
1221243 ACATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (15 bp):
TGCATTTTCATTCAT
Found at i:1229129 original size:30 final size:30
Alignment explanation
Indices: 1229087--1229142 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
1229077 CTATGCTTGA
1229087 AAAAAAAGAAAAAATG-AAAAAATAAAAAT
1 AAAAAAAGAAAAAATGAAAAAAATAAAAAT
1229116 AAAAATAA-AAAAAATGAAAAAAATAAA
1 AAAAA-AAGAAAAAATGAAAAAAATAAA
1229143 GAAGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (30 bp):
AAAAAAAGAAAAAATGAAAAAAATAAAAAT
Found at i:1229139 original size:9 final size:9
Alignment explanation
Indices: 1229084--1229139 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
1229074 GTACTATGCT
1229084 TGAAAAAAA
1 TGAAAAAAA
*
1229093 AG-AAAAAA
1 TGAAAAAAA
1229101 TGAAAAAATA
1 TGAAAAAA-A
**
1229111 AAAATAAAAA
1 TGAA-AAAAA
*
1229121 TAAAAAAAA
1 TGAAAAAAA
1229130 TGAAAAAAA
1 TGAAAAAAA
1229139 T
1 T
1229140 AAAGAAGGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 7 0.18
9 20 0.53
10 7 0.18
11 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:1230215 original size:42 final size:42
Alignment explanation
Indices: 1230158--1230383 Score: 227
Period size: 43 Copynumber: 5.2 Consensus size: 42
1230148 AGAGCATTTG
*
1230158 TTTATTTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * *
1230200 TTTATTTTTTCAAAGTTATGGTGCCTTTGTTTAGATGAGCAA
1 TTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * *
1230242 TTTATTTTTTCAAAAGTCGTGGTTACCTCTGTTTAGAAGAGTAA
1 TTTATTTTTT-AAAAGTTGTGG-TGCCTCTGTTTAGAGGAGCAA
* * * * *
1230286 TTTATTTTTTTAAAAATTGTGATGCCACTGTTTAGAGGTGCAG
1 TTTA-TTTTTTAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * * *
1230329 TTTATTCTTTTAAAAGGTGTTGAGCCTCTGATTAGAGGAGCTTTA
1 TTTATT-TTTTAAAAGTTGTGGTGCCTCTGTTTAGAGGAGC--AA
1230374 TTTATTTTTT
1 TTTATTTTTT
1230384 TTCAAAAGTC
Statistics
Matches: 148, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 50 0.34
43 53 0.36
44 33 0.22
45 12 0.08
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (42 bp):
TTTATTTTTTAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:1230357 original size:86 final size:85
Alignment explanation
Indices: 1230157--1230384 Score: 219
Period size: 87 Copynumber: 2.6 Consensus size: 85
1230147 AAGAGCATTT
* * * * * * * *
1230157 GTTTATTTTTTTAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTTCAAAGTTATGG
1 GTTTATTTTTTAAAAGGTGTTGAGCCTCTGTTTAGAGGAGTAATTTATTTTTTTAAAAATTATGA
** *
1230221 TGCCTTTGTTTAGATGAGCA
66 TGCCACTGTTTAGAGGAGCA
* *
1230241 ATTTATTTTTTCAAAAGTCGTGGTT-A-CCTCTGTTTAGAAGAGTAATTTATTTTTTTAAAAATT
1 GTTTATTTTTT-AAAAG--GT-GTTGAGCCTCTGTTTAGAGGAGTAATTTATTTTTTTAAAAATT
* *
1230304 GTGATGCCACTGTTTAGAGGTGCA
62 ATGATGCCACTGTTTAGAGGAGCA
* *
1230328 GTTTATTCTTTTAAAAGGTGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTTT
1 GTTTATT-TTTTAAAAGGTGTTGAGCCTCTGTTTAGAGGAG--TAATTTATTTTTTT
1230385 TCAAAAGTCG
Statistics
Matches: 115, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
84 13 0.11
85 7 0.06
86 35 0.30
87 41 0.36
88 19 0.17
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (85 bp):
GTTTATTTTTTAAAAGGTGTTGAGCCTCTGTTTAGAGGAGTAATTTATTTTTTTAAAAATTATGA
TGCCACTGTTTAGAGGAGCA
Found at i:1230497 original size:44 final size:44
Alignment explanation
Indices: 1230348--1230768 Score: 453
Period size: 43 Copynumber: 9.6 Consensus size: 44
1230338 TTAAAAGGTG
* *
1230348 TTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTTTTCAAAAGTCG
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTA---TTTTTCAAAAGTCA
* **
1230395 TTGAGCCTCTAATTAGATAAGCTTTGTTTATTTTTTCAAAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTCA
* **
1230440 TTGAGTCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTTG
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
* *
1230484 TTGAGCCTTTGATTAGAGGAACTTTG-TTATTTCTT--AAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTT-TTCAAAAGTCA
* *
1230526 TTGAGCCTCT-AGTTAGAGGAGCCTTGTTTATTTTTC-AAAGTCG
1 TTGAGCCTCTGA-TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
** * * * *
1230569 TTGAGCCTCTGCCTAGAGGAGCGTTATTTA-TTTTCCAAAGTCG
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
* * * *
1230612 TTGAGCCTATGTTTAGAGAAGCTTTGTTTATTTCTC-AAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
* * *
1230655 TTGAGCCTCTGCTTAGAGGAGCTTTGTTTATCTTTCCCAAA-TCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTAT-TTTTCAAAAGTCA
* * * **
1230699 TTAAGCCTCTGCTTAGAGGAGCCTTGTTTATTTTTTTAAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
1230743 TTGAGCCTCTGATTAGAGGAGCTTTG
1 TTGAGCCTCTGATTAGAGGAGCTTTG
1230769 ATGAAGAAAA
Statistics
Matches: 319, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 33 0.10
43 114 0.36
44 102 0.32
45 43 0.13
47 26 0.08
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.41
Consensus pattern (44 bp):
TTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCA
Found at i:1230971 original size:3 final size:3
Alignment explanation
Indices: 1230950--1231027 Score: 88
Period size: 3 Copynumber: 25.7 Consensus size: 3
1230940 CCCATATTTT
* *
1230950 TTA TT- TTA TTTA ATA TTA TTA TTA GTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
1230996 TTA TTA TCA TTA TTTA TT- TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
1231028 TTTTGAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.06
3 51 0.80
4 9 0.14
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1231039 original size:24 final size:22
Alignment explanation
Indices: 1230965--1231041 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
1230955 TTATTTAATA
* * *
1230965 TTATTATTAGTATTATTATTA-
1 TTATTTTTATTATTATCATTAT
1230986 TTATTTATTATTATTATCATTAT
1 TTATTT-TTATTATTATCATTAT
* *
1231009 TTA-TTTTATTATTATTATTTT
1 TTATTTTTATTATTATCATTAT
1231030 TTGAATTTTTAT
1 TT--ATTTTTAT
1231042 CTTTTATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 21 0.46
22 15 0.33
23 4 0.09
24 6 0.13
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (22 bp):
TTATTTTTATTATTATCATTAT
Found at i:1231948 original size:60 final size:57
Alignment explanation
Indices: 1231874--1232010 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 57
1231864 ATTTTTAATG
* * *
1231874 ATTTTCCT-AAAATAAAAATTCCAAAA-AAATATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTAAAAATAAAAA----AAAATAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
1231933 ATTTTCCTAAAAATAAAAAAAAATTTTAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTAAAAATAAAAAAAAA---TAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
*
1231993 ATTTTTCTTAAAAATAAA
1 A-TTTTCCTAAAAATAAA
1232011 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 4 0.06
59 8 0.12
60 41 0.60
61 15 0.22
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (57 bp):
ATTTTCCTAAAAATAAAAAAAAATAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
Found at i:1232137 original size:79 final size:78
Alignment explanation
Indices: 1231974--1232214 Score: 296
Period size: 79 Copynumber: 3.2 Consensus size: 78
1231964 ATATTTTTAA
**
1231974 GAAAAAGTTGAAAGTATCAA-TTTTTCTTAAAAATAAAGTTTCTAAAATAAAAAATTTTCAAAAA
1 GAAAAAGTTGAAAGTATCAATTTTTTC-TAAAAATAAAGTTTCTAAAAT-AAAAATTGCCAAAAA
1232038 C-----ATTTGGGGG
64 CATTTTATTTGGGGG
*
1232048 G----AGTTGAAAGTATCAATTTTTTCTAAAAATAAAGTTTTTAAAATAAAAATTGCCAAAAACA
1 GAAAAAGTTGAAAGTATCAATTTTTTCTAAAAATAAAGTTTCTAAAATAAAAATTGCCAAAAACA
1232109 TTTTATTTTGGGGG
66 TTTTA-TTTGGGGG
**
1232123 GAAAAAGTTGAAAGTATCAATTTTCCCTAAAAATAAAGTTTCTAAAATAAAAATTGCCAAAAACA
1 GAAAAAGTTGAAAGTATCAATTTTTTCTAAAAATAAAGTTTCTAAAATAAAAATTGCCAAAAACA
1232188 ---T-TTTGGGGG
66 TTTTATTTGGGGG
*
1232197 G-GAAAGTTGAAAGTATCA
1 GAAAAAGTTGAAAGTATCA
1232215 GTTTCCCTGA
Statistics
Matches: 149, Mismatches: 7, Indels: 23
0.83 0.04 0.13
Matches are distributed among these distances:
69 14 0.09
70 35 0.23
71 6 0.04
73 16 0.11
74 11 0.07
75 9 0.06
76 1 0.01
79 57 0.38
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (78 bp):
GAAAAAGTTGAAAGTATCAATTTTTTCTAAAAATAAAGTTTCTAAAATAAAAATTGCCAAAAACA
TTTTATTTGGGGG
Found at i:1232329 original size:55 final size:57
Alignment explanation
Indices: 1232199--1232331 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 57
1232189 TTTGGGGGGG
* * * *
1232199 AAAGTTGAAAGTATC-AGTTTCCCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCCCTGAAAATAAAAAATTT-AAAAATACTTTAAGGAA
* * * * *
1232256 AAAATTGAAAGTATCAATTTTCCTTTAAAATAAAAAATTT-CAATTACTTTAAGG-A
1 AAAGTTGAAAGTATCAATTTTCCCTGAAAATAAAAAATTTAAAAATACTTTAAGGAA
1232311 AAAGTTGAAAGTATCAATTTT
1 AAAGTTGAAAGTATCAATTTT
1232332 TCTTATACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 21 0.32
56 10 0.15
57 14 0.22
58 20 0.31
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.35
Consensus pattern (57 bp):
AAAGTTGAAAGTATCAATTTTCCCTGAAAATAAAAAATTTAAAAATACTTTAAGGAA
Found at i:1232428 original size:14 final size:13
Alignment explanation
Indices: 1232397--1232435 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
1232387 AAGGTGAATC
1232397 ATTATTCTT-TTTT
1 ATTATT-TTATTTT
1232410 ATTATTTTATTTT
1 ATTATTTTATTTT
1232423 ATTTATTTTATTT
1 A-TTATTTTATTT
1232436 CTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 11 0.46
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:1232444 original size:22 final size:21
Alignment explanation
Indices: 1232406--1232457 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
1232396 CATTATTCTT
1232406 TTTTATTATTTTATTTTATT-TA
1 TTTTATT-TTTTATTTT-TTGTA
*
1232428 TTTTATTTCTTTCTTTTTTGTA
1 TTTTATTT-TTTATTTTTTGTA
*
1232450 ATTTATTT
1 TTTTATTT
1232458 AATGTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTATTTTTTATTTTTTGTA
Found at i:1235023 original size:9 final size:9
Alignment explanation
Indices: 1235011--1235049 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
1235001 GGAAAAACTG
1235011 AAAAATGAA
1 AAAAATGAA
*
1235020 AAAAATAAA
1 AAAAATGAA
1235029 AAAAAGTG-A
1 AAAAA-TGAA
1235038 AAAAATGAA
1 AAAAATGAA
1235047 AAA
1 AAA
1235050 TAAAAATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 2 0.08
9 23 0.88
10 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAATGAA
Found at i:1235071 original size:23 final size:22
Alignment explanation
Indices: 1235026--1235078 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1235016 TGAAAAAAAT
1235026 AAAAAAAA-GTGAAAAAATGAAA
1 AAAAAAAATG-GAAAAAATGAAA
*
1235048 AATAAAAATGGAAAAAATGTAAA
1 AAAAAAAATGGAAAAAATG-AAA
1235071 AAAAAAAA
1 AAAAAAAA
1235079 AAAGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAAAAAATGGAAAAAATGAAA
Found at i:1236084 original size:32 final size:32
Alignment explanation
Indices: 1236048--1236110 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
1236038 ACATTAGCAT
**
1236048 AGCATACA-TAGCATTTTTAAATGTTTAGTGCG
1 AGCATACATTA-CATTTAGAAATGTTTAGTGCG
* *
1236080 AGCATGCATTACATTTAGGAATGTTTAGTGC
1 AGCATACATTACATTTAGAAATGTTTAGTGC
1236111 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (32 bp):
AGCATACATTACATTTAGAAATGTTTAGTGCG
Found at i:1236532 original size:43 final size:43
Alignment explanation
Indices: 1236443--1236680 Score: 212
Period size: 43 Copynumber: 5.5 Consensus size: 43
1236433 CTCTACTTAA
* * *
1236443 AAGAGCTTTATTTA-TTTTCAAAGTCATTAAGCCTTTGCTTAT
1 AAGAGCTTTATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAG
* ** *
1236485 AAGAACTTTATTTATTTTTTGAAGTCATTAAGCATCTGTTTAG
1 AAGAGCTTTATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAG
* * * * *
1236528 AAGAACTTTATTTATTTTTCAAAAATCGTTGAGCCT-TCATTTAG
1 AAGAGCTTTATTTATTTTTC-AAAGTCATTAAGCCTCT-GTTTAG
* ** * * * *
1236572 ATGAGTCTTT-TTTATTTTTTGAAGTCATTGAGCATTTATTTAG
1 AAGAG-CTTTATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAG
** * *
1236615 ATTAGCCTTATTTATTTTTCAAAGTCGTTAAGCCTCTGTTTAG
1 AAGAGCTTTATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAG
*
1236658 AGGAGCTTTATTTATTTTTCAAA
1 AAGAGCTTTATTTATTTTTCAAA
1236681 AATTGTTGAG
Statistics
Matches: 157, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
42 16 0.10
43 109 0.69
44 28 0.18
45 4 0.03
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (43 bp):
AAGAGCTTTATTTATTTTTCAAAGTCATTAAGCCTCTGTTTAG
Found at i:1236590 original size:87 final size:86
Alignment explanation
Indices: 1236405--1236676 Score: 239
Period size: 87 Copynumber: 3.2 Consensus size: 86
1236395 TATTTATTTA
* * * * * *
1236405 TTTATTTATTTTTTAGAAG-CTATTGAA-CCTCTACTTAAAAGAGCTTTATTTA-TTTTCAAAGT
1 TTTATTTATTTTTT-GAAGTC-ATT-AAGCATCTATTTAGAAGAACCTTATTTATTTTTCAAAAT
* * ** * * *
1236467 CATTAAGCCTTTGCTTATAAGAAC
63 CGTTAAGCCTCTATTTAGAGGAGC
* *
1236491 TTTATTTATTTTTTGAAGTCATTAAGCATCTGTTTAGAAGAACTTTATTTATTTTTCAAAAATCG
1 TTTATTTATTTTTTGAAGTCATTAAGCATCTATTTAGAAGAACCTTATTTATTTTTC-AAAATCG
* *
1236556 TTGAGCCT-TCATTTAGATGAGTC
65 TTAAGCCTCT-ATTTAGAGGAG-C
* * ** * *
1236579 TTT-TTTATTTTTTGAAGTCATTGAGCATTTATTTAGATTAGCCTTATTTATTTTTCAAAGTCGT
1 TTTATTTATTTTTTGAAGTCATTAAGCATCTATTTAGAAGAACCTTATTTATTTTTCAAAATCGT
*
1236643 TAAGCCTCTGTTTAGAGGAGC
66 TAAGCCTCTATTTAGAGGAGC
1236664 TTTATTTATTTTT
1 TTTATTTATTTTT
1236677 CAAAAATTGT
Statistics
Matches: 154, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
84 2 0.01
85 31 0.20
86 52 0.34
87 65 0.42
88 4 0.03
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (86 bp):
TTTATTTATTTTTTGAAGTCATTAAGCATCTATTTAGAAGAACCTTATTTATTTTTCAAAATCGT
TAAGCCTCTATTTAGAGGAGC
Found at i:1236712 original size:44 final size:44
Alignment explanation
Indices: 1236622--1236730 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
1236612 TAGATTAGCC
* ** *
1236622 TTATTTATTTTTC-AAAGTCGTTAAGCCTCTGTTTAGAGGAGCT
1 TTATTTATTTTTCAAAAGTTGTTAAGCCTCTGCCTAGAGGAGAT
* * *
1236665 TTATTTATTTTTCAAAAATTGTTGAGTCTCTGCCTAGAGGAGAT
1 TTATTTATTTTTCAAAAGTTGTTAAGCCTCTGCCTAGAGGAGAT
*
1236709 TTATTTATTTCTCAAAAGTTGT
1 TTATTTATTTTTCAAAAGTTGT
1236731 AGAGCTTCTA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
43 13 0.23
44 43 0.77
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.46
Consensus pattern (44 bp):
TTATTTATTTTTCAAAAGTTGTTAAGCCTCTGCCTAGAGGAGAT
Found at i:1237825 original size:25 final size:27
Alignment explanation
Indices: 1237797--1237861 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 27
1237787 ATAATTATCC
*
1237797 AATGATGAAATTTTTA-AAAATT-TTA
1 AATGATGAAATTTTTATAAAATTCCTA
1237822 AATGAT-AAATTTTTATAAAATTCCTA
1 AATGATGAAATTTTTATAAAATTCCTA
*
1237848 TATGA-GAAATTTTT
1 AATGATGAAATTTTT
1237862 TCTAAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 9 0.26
25 12 0.34
26 14 0.40
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (27 bp):
AATGATGAAATTTTTATAAAATTCCTA
Found at i:1242331 original size:2 final size:2
Alignment explanation
Indices: 1242324--1242350 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1242314 AATAGACTTT
1242324 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
1242351 TGGAGATGCC
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:1246609 original size:26 final size:23
Alignment explanation
Indices: 1246568--1246621 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
1246558 TATTTAAGTC
*
1246568 AAAATAAAATATATCATACAATTT
1 AAAATAAAATAAATCATA-AATTT
*
1246592 AAAATAAATAATAAATCATATATTT
1 AAAAT-AA-AATAAATCATAAATTT
1246617 AAAAT
1 AAAAT
1246622 GATCTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 11 0.42
26 10 0.38
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAAAATAAATCATAAATTT
Found at i:1248703 original size:60 final size:57
Alignment explanation
Indices: 1248638--1248994 Score: 224
Period size: 59 Copynumber: 6.0 Consensus size: 57
1248628 TGCTTTTGTA
* * *
1248638 TAAGAAAAATTAATACTTTTAATTTTTCCTTAAAATATTTTTCTTGATAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTT-CTTAAAATATTTTT-TTGA-AATTTTTATTTT
* * * * * *
1248698 TAAGAAAAATTGGTACTTCCAATTTTTCCTCAAAAGGCATTTTTTTGAAA-TTTTAATTT
1 TAAGAAAAATTGATACTTTCAACTTTT-CTTAAAA--TATTTTTTTGAAATTTTTATTTT
* * *
1248757 AAAAAAAAATTGATACTTTCAACTTTTCTTCAAAATA--CTTTTGAAAATTTTTA-TTT
1 TAAGAAAAATTGATACTTTCAACTTTTCTT-AAAATATTTTTTTG-AAATTTTTATTTT
* * * * * * * *
1248813 T-AGGACAATTTATACTTTCAACTTTTCTTAAATTTTTTTTTATTTTAAA-TTTTGTTGT
1 TAAGAAAAATTGATACTTTCAACTTTTCTTAAA--ATATTTT-TTTGAAATTTTTATTTT
* * * * ** *
1248871 TAAGAAAAATTAATACTTTTAACTTTTTCTCAAAAATTATTTTTTTAAAAAAAAATTTATCTT
1 TAAGAAAAATTGATACTTTCAAC-TTTTCT-TAAAA-TATTTTTTT---GAAATTTTTATTTT
*
1248934 TAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATTTTT-AAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTT-CT-TAAAATAT-T-TTTTTGAAATTTTTATTTT
1248994 T
1 T
1248995 TCTTAAATTT
Statistics
Matches: 231, Mismatches: 44, Indels: 44
0.72 0.14 0.14
Matches are distributed among these distances:
54 3 0.01
55 29 0.13
56 7 0.03
57 10 0.04
58 9 0.04
59 57 0.25
60 54 0.23
61 7 0.03
62 16 0.07
63 34 0.15
64 5 0.02
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.50
Consensus pattern (57 bp):
TAAGAAAAATTGATACTTTCAACTTTTCTTAAAATATTTTTTTGAAATTTTTATTTT
Found at i:1249034 original size:20 final size:19
Alignment explanation
Indices: 1249011--1249079 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
1249001 ATTTAATCAT
*
1249011 AAAAGAAAAAATACCAAAA
1 AAAAAAAAAAATACCAAAA
*
1249030 AAAAAAACTAAATA--AAAA
1 AAAAAAA-AAAATACCAAAA
* *
1249048 AAATAAAAAAATACCAATGA
1 AAAAAAAAAAATACCAA-AA
*
1249068 AAAACAAAAAAT
1 AAAAAAAAAAAT
1249080 GGTTCGACAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 8 0.21
20 16 0.41
ACGTcount: A:0.78, C:0.09, G:0.03, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAATACCAAAA
Found at i:1249078 original size:23 final size:23
Alignment explanation
Indices: 1249025--1249078 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
1249015 GAAAAAATAC
1249025 CAAAAAAAAAAACTAAATAAAAA
1 CAAAAAAAAAAACTAAATAAAAA
*
1249048 -AAATAAAAAAATAC-CAATGAAAAA
1 CAAA-AAAAAAA-ACTAAAT-AAAAA
1249072 CAAAAAA
1 CAAAAAA
1249079 TGGTTCGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 3 0.12
23 10 0.38
24 10 0.38
25 3 0.12
ACGTcount: A:0.80, C:0.09, G:0.02, T:0.09
Consensus pattern (23 bp):
CAAAAAAAAAAACTAAATAAAAA
Found at i:1249165 original size:19 final size:20
Alignment explanation
Indices: 1249129--1249166 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1249119 AGAAGTGGCT
*
1249129 CGCAATCTCGGCTCAAGGGA
1 CGCAATCTCGGCACAAGGGA
*
1249149 CGCAA-CTCGGCAGAAGGG
1 CGCAATCTCGGCACAAGGG
1249167 TTGGTTGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.26, C:0.29, G:0.34, T:0.11
Consensus pattern (20 bp):
CGCAATCTCGGCACAAGGGA
Found at i:1250595 original size:114 final size:114
Alignment explanation
Indices: 1250462--1250813 Score: 519
Period size: 114 Copynumber: 3.1 Consensus size: 114
1250452 TCAAAAATTT
* * * *
1250462 AAAGTTTTTCGTTTAAATTTTAAATG-TTCATATTCAAGAAATCTTAGAGTTTTACATCTAAGTT
1 AAAGCTTTTCGTTTGAATTTTGAA-GATTCATATTCAAGAAATCTTAGAGTTTCACATCTAAGTT
* * * *
1250526 CAAAGGTTTTCACTCACAAATTTAGAAATTCACATCCAAAAGTTAAGTTC
65 CAAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCCAAAAGTTGAGTTC
* * *
1250576 AAAGCTTTTCGTTTGAATTTTGGAGATTCATATCCAAAAAATCTTAGAGTTTCACATCTAAGTTC
1 AAAGCTTTTCGTTTGAATTTTGAAGATTCATATTCAAGAAATCTTAGAGTTTCACATCTAAGTTC
*
1250641 AAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCTAAAAGTTGAGTTC
66 AAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCCAAAAGTTGAGTTC
* *
1250690 AAAGCTTTTCATTTGAATTTTGAAGATTCACA-TCTAAGAAATCTTAGAGTTTCACATCTAAGTT
1 AAAGCTTTTCGTTTGAATTTTGAAGATTCATATTC-AAGAAATCTTAGAGTTTCACATCTAAGTT
* *
1250754 CAAAGGTTCTCACTCAAAAATTTAGAGATTCGTATCCAAAAGTTGAGTTC
65 CAAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCCAAAAGTTGAGTTC
*
1250804 AAAACTTTTC
1 AAAGCTTTTC
1250814 ATTAGTTCAA
Statistics
Matches: 215, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
113 2 0.01
114 213 0.99
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (114 bp):
AAAGCTTTTCGTTTGAATTTTGAAGATTCATATTCAAGAAATCTTAGAGTTTCACATCTAAGTTC
AAAGGTTCTCACTCAAAAATTTAGAAATTCGCATCCAAAAGTTGAGTTC
Found at i:1250941 original size:21 final size:22
Alignment explanation
Indices: 1250917--1250962 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
1250907 GTTTCACACC
1250917 TCAAATATGCTTATTTGAA-AT
1 TCAAATATGCTTATTTGAAGAT
*
1250938 TCAAATATTCTTATTTGAAGAT
1 TCAAATATGCTTATTTGAAGAT
1250960 TCA
1 TCA
1250963 CATTCAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
TCAAATATGCTTATTTGAAGAT
Found at i:1250984 original size:73 final size:73
Alignment explanation
Indices: 1250877--1251029 Score: 225
Period size: 73 Copynumber: 2.1 Consensus size: 73
1250867 TCTCATTTGA
* ** * * *
1250877 ATTTAAAGATTCACATTTGATAAATTTTTGGTTTCACACCTCAAATATGCTTATTTGAAATTCAA
1 ATTTGAAGATTCACATTCAATAAATTTTGGGTTTCACACCTCAAAGATGCTCATTTGAAATTCAA
* *
1250942 ATATTCTT
66 AGATTCTC
*
1250950 ATTTGAAGATTCACATTCAATAAATTTTGGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAA
1 ATTTGAAGATTCACATTCAATAAATTTTGGGTTTCACACCTCAAAGATGCTCATTTGAAATTCAA
1251015 AGATTCTC
66 AGATTCTC
1251023 ATTTGAA
1 ATTTGAA
1251030 TTCAAAGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (73 bp):
ATTTGAAGATTCACATTCAATAAATTTTGGGTTTCACACCTCAAAGATGCTCATTTGAAATTCAA
AGATTCTC
Found at i:1251014 original size:21 final size:21
Alignment explanation
Indices: 1250990--1251115 Score: 164
Period size: 21 Copynumber: 5.9 Consensus size: 21
1250980 GTTTCACACC
1250990 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
1251011 TCAAAGATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
1251031 TCAAAGATTCACATTCGACAAACT
1 TCAAAGATTCTCATTTG--AAA-T
*
1251055 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
1251076 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
1251097 TTAAATATTCTCATTTGAA
1 TCAAAGATTCTCATTTGAA
1251116 TTTGAAGATT
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.19
21 55 0.59
22 3 0.03
23 2 0.02
24 15 0.16
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:1251041 original size:73 final size:74
Alignment explanation
Indices: 1250859--1251041 Score: 210
Period size: 73 Copynumber: 2.4 Consensus size: 74
1250849 GTTTCACATC
* * *
1250859 TCAAAGATTCTCATTTGAATTTAAAGATTCACATTTGATAAATTTTTGGTTTCACACCTCAAATA
1 TCAAAGATTCTCATTTGAATTCAAAGATT--CA--T-ATAAATTTTGGGTTTCACACCTCAAAGA
*
1250924 TGCTTATTTGAAAT
61 TGCTCATTTGAAAT
* * * *
1250938 TCAAATATTCTTATTTGAAGATTC--ACATTCA-ATAAATTTTGGGTTTCACACCTCAAAGATTC
1 TCAAAGATTCTCATTTG-A-ATTCAAAGATTCATATAAATTTTGGGTTTCACACCTCAAAGATGC
1251000 TCATTTGAAAT
64 TCATTTGAAAT
1251011 TCAAAGATTCTCATTTGAATTCAAAGATTCA
1 TCAAAGATTCTCATTTGAATTCAAAGATTCA
1251042 CATTCGACAA
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
71 4 0.04
72 1 0.01
73 59 0.66
77 2 0.02
79 19 0.21
80 1 0.01
81 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (74 bp):
TCAAAGATTCTCATTTGAATTCAAAGATTCATATAAATTTTGGGTTTCACACCTCAAAGATGCTC
ATTTGAAAT
Found at i:1251133 original size:21 final size:21
Alignment explanation
Indices: 1250992--1251133 Score: 110
Period size: 21 Copynumber: 6.7 Consensus size: 21
1250982 TTCACACCTC
* *
1250992 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTAATTTGAAATTT
* *
1251013 AAAGATTCTCATTTG-AATTC
1 AAAGATTCTAATTTGAAATTT
* *
1251033 AAAGATTC-ACATTCGACAAACTTC
1 AAAGATTCTA-ATTTG--AAA-TTT
* *
1251057 AAAGATTCTTATTTGAAATTC
1 AAAGATTCTAATTTGAAATTT
*
1251078 AAAGATTCTTATTTGAAATTT
1 AAAGATTCTAATTTGAAATTT
* *
1251099 AAATATTCTCATTTG-AATTT
1 AAAGATTCTAATTTGAAATTT
*
1251119 GAAGATTCATAATTT
1 AAAGATTC-TAATTT
1251134 CTTTTTCAGG
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
20 28 0.27
21 56 0.54
22 3 0.03
23 2 0.02
24 15 0.14
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAGATTCTAATTTGAAATTT
Found at i:1252232 original size:32 final size:32
Alignment explanation
Indices: 1252183--1252251 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
1252173 AATTTGAGTC
*
1252183 TTTTTTTTTCATCTTTTTGTCATTTTT-TCTT
1 TTTTTTTTTCATATTTTTGTCATTTTTCTCTT
* *
1252214 TTTTTTTTCTCTTATTTTTTTCATTTTTCTCTT
1 TTTTTTTT-TCATATTTTTGTCATTTTTCTCTT
1252247 TTTTT
1 TTTTT
1252252 CATCCATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 8 0.24
32 16 0.48
33 9 0.27
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.80
Consensus pattern (32 bp):
TTTTTTTTTCATATTTTTGTCATTTTTCTCTT
Found at i:1252241 original size:50 final size:48
Alignment explanation
Indices: 1252187--1252291 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 48
1252177 TGAGTCTTTT
* *
1252187 TTTTTCATCTTTTTGTCAT-TTTTTCTTTTTTTTTTCTCTTATTTTTTTCA
1 TTTTTC-TCTTTTTGTCATCATTTTC-CTTTTTTTTCTCTT-TTTTTTTCA
*
1252237 TTTTTCTCTTTTTTTCATCCATTTTCCTTTTTTTTCTCTTTTTTTTTCA
1 TTTTTCTCTTTTTGTCAT-CATTTTCCTTTTTTTTCTCTTTTTTTTTCA
1252286 TCTTTT
1 T-TTTT
1252292 TTCATCCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
49 21 0.43
50 23 0.47
51 5 0.10
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (48 bp):
TTTTTCTCTTTTTGTCATCATTTTCCTTTTTTTTCTCTTTTTTTTTCA
Found at i:1252279 original size:12 final size:13
Alignment explanation
Indices: 1252264--1252293 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1252254 TCCATTTTCC
1252264 TTTTTTTTC-TCT
1 TTTTTTTTCATCT
1252276 TTTTTTTTCATCT
1 TTTTTTTTCATCT
1252289 TTTTT
1 TTTTT
1252294 CATCCATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTCATCT
Found at i:1252281 original size:20 final size:20
Alignment explanation
Indices: 1252184--1252281 Score: 55
Period size: 20 Copynumber: 4.9 Consensus size: 20
1252174 ATTTGAGTCT
* *
1252184 TTTTTTTTCATCTTTTTGTCA
1 TTTTTTTTC-TCTTTTTTTCC
1252205 TTTTTTCTT-T-TTTTTTTCTC
1 TTTTTT-TTCTCTTTTTTTC-C
*
1252225 TTATTTTTT-TC-ATTTTT-C
1 TT-TTTTTTCTCTTTTTTTCC
**
1252243 TCTTTTTTTCATC-CATTTTCC
1 T-TTTTTTTC-TCTTTTTTTCC
1252264 TTTTTTTTCTCTTTTTTT
1 TTTTTTTTCTCTTTTTTT
1252282 TTCATCTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
18 8 0.13
19 10 0.16
20 29 0.48
21 12 0.20
22 2 0.03
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCTCTTTTTTTCC
Found at i:1252294 original size:32 final size:31
Alignment explanation
Indices: 1252181--1252294 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 31
1252171 TCAATTTGAG
*
1252181 TCTTTTTTTTTCATCTTTTTGTC-ATTTTTTC
1 TCTTTTTTTTTCATCTTTTT-TCTTTTTTTTC
1252212 T-TTTTTTTTTC-TCTTATTTT-TTTCATTTTTC
1 TCTTTTTTTTTCATCTT-TTTTCTTT--TTTTTC
* *
1252243 TC--TTTTTTTCATCCATTTTCCTTTTTTTTC
1 TCTTTTTTTTTCAT-CTTTTTTCTTTTTTTTC
1252273 TCTTTTTTTTTCATCTTTTTTC
1 TCTTTTTTTTTCATCTTTTTTC
1252295 ATCCATTGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
29 6 0.09
30 29 0.43
31 18 0.26
32 15 0.22
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.75
Consensus pattern (31 bp):
TCTTTTTTTTTCATCTTTTTTCTTTTTTTTC
Found at i:1255884 original size:17 final size:18
Alignment explanation
Indices: 1255857--1255891 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1255847 TTAATTCATG
1255857 TTATCCAAGTAATTAATT
1 TTATCCAAGTAATTAATT
1255875 TTAT-CAAGTAATTAATT
1 TTATCCAAGTAATTAATT
1255892 ATTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (18 bp):
TTATCCAAGTAATTAATT
Found at i:1256260 original size:59 final size:59
Alignment explanation
Indices: 1256170--1256504 Score: 274
Period size: 59 Copynumber: 5.6 Consensus size: 59
1256160 ATTTGAGAGT
*
1256170 TTTTATTTTTAA-AAAAATTGATACTTTCAATTTTTCCTT-AAAATTTTTTTTTGATAAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTT-CTTAAAAATTTTTTTTTGATAAA
* * * ** *
1256228 TTTTATTTTTAAGAAAAATTGGTACTTCCAATTTTTCCTCAAAAGGCTTTTTTCTG--AAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTT-CTTAAAA-ATTTTTTTTTGATAAA
* * * * * *
1256287 TTTTAATTTCAAGAAAAATTGATAGTTTCAATTTTTTTTAAAAAAATATTTTTTTAATTTCAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCTT--AAAAATTTTTTTTTGA--T-AAA
* * * * *
1256351 TTTTATTATCAAGAAAAATTGATACTTTCAACTTTTT-TTCAAAATTTATTTTTTTAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAA-TTTTTCTTAAAAATTT-TTTTTTGATAAA
** * * * *
1256411 AATTATTTTTAAGAAAAATTGATACTTTTAACTTTTCTTAAAAAAATATTTTTT-A-AAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCTT-AAAAATTTTTTTTTGATAAA
*
1256469 --TTATTTTTAAGAAAAAATTGATACTTTCAACTTTTC
1 TTTTATTTTTAAG-AAAAATTGATACTTTCAATTTTTC
1256505 CTCAAAAAAA
Statistics
Matches: 226, Mismatches: 36, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
56 11 0.05
57 23 0.10
58 16 0.07
59 68 0.30
60 44 0.19
61 13 0.06
62 6 0.03
63 7 0.03
64 33 0.15
65 5 0.02
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (59 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCTTAAAAATTTTTTTTTGATAAA
Found at i:1256366 original size:64 final size:61
Alignment explanation
Indices: 1256284--1256522 Score: 251
Period size: 64 Copynumber: 3.9 Consensus size: 61
1256274 CTTTTTTCTG
* * **
1256284 AAATTTTAATTTCAAGAAAAATTGATAGTTTCAATTTTTTTTAAAAAAATATTTTTTTAATTTC
1 AAATTTT-ATTTCAAGAAAAATTGATACTTTCAACTTTTTTTAAAAAAATATTTTTTTAA--AA
* **
1256348 AAATTTTATTATCAAGAAAAATTGATACTTTCAACTTTTTTTCAAAATTTATTTTTTTAAAA
1 AAATTTTATT-TCAAGAAAAATTGATACTTTCAACTTTTTTTAAAAAAATATTTTTTTAAAA
* *
1256410 AAATTATT-TTT-AAGAAAAATTGATACTTTTAACTTTTCTTAAAAAAATA-TTTTTT---A
1 AAATT-TTATTTCAAGAAAAATTGATACTTTCAACTTTTTTTAAAAAAATATTTTTTTAAAA
* *
1256466 AAATTATT-TTT-AAGAAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATATTTTTT
1 AAATT-TTATTTCAAG-AAAAATTGATACTTTCAACTTTT-TTTAAAAAAATATTTTTT
1256523 AGAAATATTA
Statistics
Matches: 156, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
56 15 0.10
57 22 0.14
58 11 0.07
59 11 0.07
60 33 0.21
61 1 0.01
62 7 0.04
63 5 0.03
64 51 0.33
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (61 bp):
AAATTTTATTTCAAGAAAAATTGATACTTTCAACTTTTTTTAAAAAAATATTTTTTTAAAA
Found at i:1256380 original size:32 final size:31
Alignment explanation
Indices: 1256284--1256392 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 31
1256274 CTTTTTTCTG
*
1256284 AAATTTTAATTTCAAGAAAAATTGATAGTTTC
1 AAATTTT-ATTTCAAGAAAAATTGATAATTTC
* * **
1256316 -AATTTT-TTTTAAAAAAATATTTTTTTAATTTC
1 AAATTTTATTTCAAGAAAA-A--TTGATAATTTC
*
1256348 AAATTTTATTATCAAGAAAAATTGATACTTTC
1 AAATTTTATT-TCAAGAAAAATTGATAATTTC
*
1256380 AACTTTT-TTTCAA
1 AAATTTTATTTCAA
1256393 AATTTATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 9 0.15
30 5 0.08
31 8 0.13
32 22 0.37
33 6 0.10
34 3 0.05
35 7 0.12
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (31 bp):
AAATTTTATTTCAAGAAAAATTGATAATTTC
Found at i:1256419 original size:15 final size:16
Alignment explanation
Indices: 1256401--1256430 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1256391 AAAATTTATT
1256401 TTTTTAA-AAAAATTA
1 TTTTTAAGAAAAATTA
1256416 TTTTTAAGAAAAATT
1 TTTTTAAGAAAAATT
1256431 GATACTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTAAGAAAAATTA
Found at i:1256483 original size:29 final size:31
Alignment explanation
Indices: 1256409--1256495 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 31
1256399 TTTTTTTAAA
*
1256409 AAAATTATTTTTAAGAAAAATTGATACTTTT
1 AAAATTATTTTTAAGAAAAAATGATACTTTT
* * *
1256440 -AACTT-TTCTT-A-AAAAAAT-AT-TTTTT
1 AAAATTATTTTTAAGAAAAAATGATACTTTT
1256465 AAAATTATTTTTAAGAAAAAATTGATACTTT
1 AAAATTATTTTTAAGAAAAAA-TGATACTTT
1256496 CAACTTTTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
25 4 0.10
26 6 0.14
27 10 0.24
28 2 0.05
29 10 0.24
30 5 0.12
31 2 0.05
32 3 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (31 bp):
AAAATTATTTTTAAGAAAAAATGATACTTTT
Found at i:1256550 original size:41 final size:41
Alignment explanation
Indices: 1256493--1256577 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
1256483 AAATTGATAC
*
1256493 TTTCAACTTTTCCTCAAAAAAATATTTTTTAGAAA-TATTAT
1 TTTCAACTTTTCCTCAAAAAAATATATTTTA-AAATTATTAT
* * *
1256534 TTTCAACTTTTTCTCAAAAATATATATTTTAAAATTTTTAT
1 TTTCAACTTTTCCTCAAAAAAATATATTTTAAAATTATTAT
1256575 TTT
1 TTT
1256578 TTTTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.08
41 36 0.92
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.52
Consensus pattern (41 bp):
TTTCAACTTTTCCTCAAAAAAATATATTTTAAAATTATTAT
Found at i:1256615 original size:12 final size:12
Alignment explanation
Indices: 1256600--1256677 Score: 72
Period size: 12 Copynumber: 6.7 Consensus size: 12
1256590 ATCATAAAAG
1256600 AAAAAAAA-ACT
1 AAAAAAAATACT
1256611 -AAAAAAATACT
1 AAAAAAAATACT
*
1256622 AAGAAAAATACT
1 AAAAAAAATACT
* *
1256634 AAATAAAGTACT
1 AAAAAAAATACT
* *
1256646 AAATAAAATA-A
1 AAAAAAAATACT
*
1256657 ATAAAAAAATACC
1 A-AAAAAAATACT
1256670 AAAAAAAA
1 AAAAAAAA
1256678 AAAAGACTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
10 7 0.13
11 4 0.07
12 43 0.78
13 1 0.02
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAAAAAATACT
Found at i:1256677 original size:24 final size:24
Alignment explanation
Indices: 1256600--1256677 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
1256590 ATCATAAAAG
1256600 AAAAAAA-AACTAAAAAAATACTA
1 AAAAAAATAACTAAAAAAATACTA
* *
1256623 AGAAAAAT-ACTAAATAAAGTACTA
1 AAAAAAATAACTAAA-AAAATACTA
* * *
1256647 AATAAAATAAATAAAAAAATACCA
1 AAAAAAATAACTAAAAAAATACTA
1256671 AAAAAAA
1 AAAAAAA
1256678 AAAAGACTCG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 12 0.27
24 27 0.61
25 5 0.11
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (24 bp):
AAAAAAATAACTAAAAAAATACTA
Found at i:1261000 original size:27 final size:28
Alignment explanation
Indices: 1260945--1261023 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 28
1260935 TTTGGTTAAG
* *
1260945 AATGATTGTATGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGGGCA
*
1260973 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATCTTACAAGGGCA
* *
1261000 AAGGATTGGTTGAAATCTTACAAG
1 AATGATTGTTTGAAATCTTACAAG
1261024 TGATGATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 23 0.52
28 21 0.48
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGGGCA
Found at i:1267536 original size:47 final size:48
Alignment explanation
Indices: 1267451--1267546 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 48
1267441 TCCAGATTAC
* *
1267451 AGCTTACCCTTCAACAGGACCCTGCGTGCTATATCATTACCAAGGTAA
1 AGCTTACCCTTCAAAAGGACCCTGCATGCTATATCATTACCAAGGTAA
*
1267499 AGCTTACCCTTCAAAAGG-CCCTGCATGCTCTATCATTACCAAGGTAA
1 AGCTTACCCTTCAAAAGGACCCTGCATGCTATATCATTACCAAGGTAA
1267546 A
1 A
1267547 ACCAGAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 28 0.62
48 17 0.38
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
AGCTTACCCTTCAAAAGGACCCTGCATGCTATATCATTACCAAGGTAA
Found at i:1268899 original size:90 final size:90
Alignment explanation
Indices: 1268746--1268927 Score: 364
Period size: 90 Copynumber: 2.0 Consensus size: 90
1268736 TTAAAAAACC
1268746 CATTTATCTTGTAATTCCAGAAACCATAAAACATAACAAACAAGGACAACCACCTGATAACTTTG
1 CATTTATCTTGTAATTCCAGAAACCATAAAACATAACAAACAAGGACAACCACCTGATAACTTTG
1268811 TTGGTCCCCAACAAAGAACTGCAAG
66 TTGGTCCCCAACAAAGAACTGCAAG
1268836 CATTTATCTTGTAATTCCAGAAACCATAAAACATAACAAACAAGGACAACCACCTGATAACTTTG
1 CATTTATCTTGTAATTCCAGAAACCATAAAACATAACAAACAAGGACAACCACCTGATAACTTTG
1268901 TTGGTCCCCAACAAAGAACTGCAAG
66 TTGGTCCCCAACAAAGAACTGCAAG
1268926 CA
1 CA
1268928 ACAGCTAGAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (90 bp):
CATTTATCTTGTAATTCCAGAAACCATAAAACATAACAAACAAGGACAACCACCTGATAACTTTG
TTGGTCCCCAACAAAGAACTGCAAG
Found at i:1270148 original size:28 final size:28
Alignment explanation
Indices: 1270100--1270154 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1270090 GATCCTTGTA
* *
1270100 ATATTTTTTTATACGTACTAAATTTATC
1 ATATTTTTATATACGTACTAAAATTATC
*
1270128 ATATTTTATATATATGT-CTAAAATTAT
1 ATATTTT-TATATACGTACTAAAATTAT
1270155 GTTCATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (28 bp):
ATATTTTTATATACGTACTAAAATTATC
Found at i:1272585 original size:19 final size:19
Alignment explanation
Indices: 1272563--1272600 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1272553 ATTAGAAAGT
*
1272563 GGCTGCATCGACCATCTGA
1 GGCTGCATCAACCATCTGA
1272582 GGCTGCATCAACCATCTGA
1 GGCTGCATCAACCATCTGA
1272601 AGATGCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (19 bp):
GGCTGCATCAACCATCTGA
Found at i:1272607 original size:19 final size:19
Alignment explanation
Indices: 1272566--1272608 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
1272556 AGAAAGTGGC
* * *
1272566 TGCATCGACCATCTGAGGC
1 TGCATCAACCATCTGAAGA
1272585 TGCATCAACCATCTGAAGA
1 TGCATCAACCATCTGAAGA
1272604 TGCAT
1 TGCAT
1272609 GCCATGGGCC
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:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (19 bp):
TGCATCAACCATCTGAAGA
Found at i:1283188 original size:14 final size:14
Alignment explanation
Indices: 1283169--1283217 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1283159 AAGTGTTTAC
1283169 AAATATTAATATTT
1 AAATATTAATATTT
*
1283183 AAATATTAAAATATT
1 AAATATTAATAT-TT
* * *
1283198 AGATATTATTTTTT
1 AAATATTAATATTT
1283212 AAATAT
1 AAATAT
1283218 AATTGTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAATATTAATATTT
Found at i:1292465 original size:5 final size:5
Alignment explanation
Indices: 1292452--1292492 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
1292442 GCAGCGAACA
*
1292452 GCAAA GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT G
1 GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT G
1292493 GCGTTGTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (5 bp):
GCAAT
Found at i:1293796 original size:10 final size:9
Alignment explanation
Indices: 1293781--1293805 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1293771 TATCTTACTG
1293781 TTTTTTTGT
1 TTTTTTTGT
1293790 TTTTTTTGT
1 TTTTTTTGT
1293799 TTTTTTT
1 TTTTTTT
1293806 AACAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:1301507 original size:6 final size:6
Alignment explanation
Indices: 1301496--1301553 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
1301486 TCTTATTATA
* *
1301496 GAGGTG GAGGT- GATGGTG GA---G GAGGCG GCGGTG GAGGTG GAGGTG
1 GAGGTG GAGGTG GA-GGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
*
1301541 GAGGTG GGGGTG G
1 GAGGTG GAGGTG G
1301554 CAGTTTTGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 3 0.07
5 2 0.05
6 36 0.84
7 2 0.05
ACGTcount: A:0.14, C:0.03, G:0.67, T:0.16
Consensus pattern (6 bp):
GAGGTG
Found at i:1301520 original size:21 final size:21
Alignment explanation
Indices: 1301496--1301538 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1301486 TCTTATTATA
*
1301496 GAGGTGGAGGT-GATGGTGGAG
1 GAGGCGGAGGTGGA-GGTGGAG
*
1301517 GAGGCGGCGGTGGAGGTGGAG
1 GAGGCGGAGGTGGAGGTGGAG
1301538 G
1 G
1301539 TGGAGGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.16, C:0.05, G:0.65, T:0.14
Consensus pattern (21 bp):
GAGGCGGAGGTGGAGGTGGAG
Found at i:1301597 original size:21 final size:21
Alignment explanation
Indices: 1301573--1301628 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1301563 ATGGGGATGG
*
1301573 GGTGGGGGTGGAGGAGGGGGA
1 GGTGGAGGTGGAGGAGGGGGA
* *
1301594 GGTGGAGGTGGGGGATGGGGA
1 GGTGGAGGTGGAGGAGGGGGA
*
1301615 TGG-GGAGGAGGAGG
1 -GGTGGAGGTGGAGG
1301629 TGGTGGTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.73, T:0.11
Consensus pattern (21 bp):
GGTGGAGGTGGAGGAGGGGGA
Found at i:1301599 original size:15 final size:15
Alignment explanation
Indices: 1301579--1301628 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1301569 ATGGGGTGGG
1301579 GGTGGAGGAGGGGGA
1 GGTGGAGGAGGGGGA
*
1301594 GGTGGAGGTGGGGGA
1 GGTGGAGGAGGGGGA
*
1301609 --TGG-GGATGGGGA
1 GGTGGAGGAGGGGGA
*
1301621 GGAGGAGG
1 GGTGGAGG
1301629 TGGTGGTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 2 0.07
15 16 0.57
ACGTcount: A:0.18, C:0.00, G:0.72, T:0.10
Consensus pattern (15 bp):
GGTGGAGGAGGGGGA
Found at i:1302278 original size:2 final size:2
Alignment explanation
Indices: 1302271--1302308 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1302261 GCTTGTGTTA
*
1302271 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1302309 CTTAGATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1303441 original size:62 final size:63
Alignment explanation
Indices: 1303354--1303498 Score: 163
Period size: 63 Copynumber: 2.3 Consensus size: 63
1303344 ATTGAAAATG
* * *
1303354 GATTATTTAATGTA-TTTTTG-CTAAAAATACCTTGAAAAATCTATTT-AAT-TTTTTATAAGA
1 GATTATTTAAGGTATTTTTTGAATAAAAATACCTTGAAAAATCTATTTCAATATTTAT-TAAGA
* ** * * *
1303414 GATTATTTAAGGTATTTTTTGAATAAAAATATCTTGAGTAATCTCTTTCAATATTTATTAGGG
1 GATTATTTAAGGTATTTTTTGAATAAAAATACCTTGAAAAATCTATTTCAATATTTATTAAGA
*
1303477 GATTATTTAAGATATTTTTTGA
1 GATTATTTAAGGTATTTTTTGA
1303499 CAAAAAAACC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
60 13 0.18
61 6 0.08
62 21 0.30
63 27 0.38
64 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (63 bp):
GATTATTTAAGGTATTTTTTGAATAAAAATACCTTGAAAAATCTATTTCAATATTTATTAAGA
Found at i:1306977 original size:20 final size:21
Alignment explanation
Indices: 1306952--1306997 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1306942 CTATTGATAA
1306952 AATAATAAAATTTT-AATTTT
1 AATAATAAAATTTTAAATTTT
*
1306972 AATAATTAAATTTTAAATTTT
1 AATAATAAAATTTTAAATTTT
*
1306993 GATAA
1 AATAA
1306998 AATTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAATAAAATTTTAAATTTT
Found at i:1307910 original size:3 final size:3
Alignment explanation
Indices: 1307902--1307934 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1307892 ATTCAAAGTC
1307902 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1307935 ATATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1312108 original size:18 final size:19
Alignment explanation
Indices: 1312087--1312136 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
1312077 GAAATTTTTA
*
1312087 ATTTTTTTATATATT-ATT
1 ATTTTTTTATATATTAAGT
1312105 ATTTTTGTTAT-T-TTAAGT
1 ATTTTT-TTATATATTAAGT
1312123 ATTTTTTT-TATATT
1 ATTTTTTTATATATT
1312137 CATGCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 17 0.63
19 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTTTATATATTAAGT
Found at i:1312408 original size:19 final size:19
Alignment explanation
Indices: 1312377--1312413 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1312367 GATGTTGGGG
1312377 AATTATAAATAAAAAAATT
1 AATTATAAATAAAAAAATT
1312396 AATTA-AAATTAAAAAAAT
1 AATTATAAA-TAAAAAAAT
1312414 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTATAAATAAAAAAATT
Found at i:1312409 original size:18 final size:19
Alignment explanation
Indices: 1312377--1312421 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1312367 GATGTTGGGG
*
1312377 AATTATAAATAAAAAAATT
1 AATTATAAATAAAAAAAAT
*
1312396 AATTA-AAATTAAAAAAAT
1 AATTATAAATAAAAAAAAT
*
1312414 AATAATAA
1 AATTATAA
1312422 TATGTTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTATAAATAAAAAAAAT
Found at i:1312601 original size:13 final size:14
Alignment explanation
Indices: 1312562--1312599 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1312552 TAAAAAACCT
*
1312562 AAACCCTAAAATCGA
1 AAACCCTAAAA-CTA
1312577 AAA-CCTAAAACTA
1 AAACCCTAAAACTA
1312590 AAACCCTAAA
1 AAACCCTAAA
1312600 CTCTTCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 13 0.62
15 3 0.14
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:1312728 original size:15 final size:15
Alignment explanation
Indices: 1312708--1312747 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1312698 ATTAAAATCA
1312708 AAACCCTAAACATCC
1 AAACCCTAAACATCC
*
1312723 AAACCCTAAA-ATCG
1 AAACCCTAAACATCC
*
1312737 AAAACCTAAAC
1 AAACCCTAAAC
1312748 CCCAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.12
Consensus pattern (15 bp):
AAACCCTAAACATCC
Found at i:1312732 original size:29 final size:28
Alignment explanation
Indices: 1312562--1312753 Score: 113
Period size: 29 Copynumber: 6.6 Consensus size: 28
1312552 TAAAAAACCT
* * *
1312562 AAACCCTAAA-ATCGAAAACCTAAAACTA
1 AAACCCTAAACCTCCAAACCCTAAAAC-A
* *
1312590 AAACCCTAAACTCTTCAAA-CCTCAAAACC
1 AAACCCTAAAC-CTCCAAACCCT-AAAACA
* * *
1312619 AAACCTTAAATCCTTCAAACCCTGAAATCA
1 AAACCCTAAA-CCTCCAAACCCT-AAAACA
* ** *
1312649 AATCCCTAAATCCTATAAACCCTAAAACT
1 AAACCCTAAA-CCTCCAAACCCTAAAACA
****
1312678 AAACCCTAAACCCTCCAAGTATTAAAATCA
1 AAACCCTAAA-CCTCCAAACCCTAAAA-CA
*
1312708 AAACCCTAAACATCCAAACCCTAAAATCGA
1 AAACCCTAAACCTCCAAACCCTAAAA-C-A
1312738 AAA-CCTAAACC-CCAAA
1 AAACCCTAAACCTCCAAA
1312754 ATATGAAGCT
Statistics
Matches: 128, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
28 15 0.12
29 62 0.48
30 51 0.40
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (28 bp):
AAACCCTAAACCTCCAAACCCTAAAACA
Found at i:1314647 original size:12 final size:12
Alignment explanation
Indices: 1314630--1314666 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1314620 GTCATTGGAA
1314630 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
1314642 AAAAAAGAAAGG
1 AAAAAAGAAAAG
*
1314654 AAAAAAAAAAAG
1 AAAAAAGAAAAG
1314666 A
1 A
1314667 GTTCTCATTG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:1314662 original size:17 final size:16
Alignment explanation
Indices: 1314628--1314666 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1314618 CAGTCATTGG
*
1314628 AAAAA-AAAGAAAAGA
1 AAAAAGAAAGAAAAAA
1314643 AAAAAGAAAGGAAAAAA
1 AAAAAGAAA-GAAAAAA
1314660 AAAAAGA
1 AAAAAGA
1314667 GTTCTCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 3 0.14
17 13 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAA
Found at i:1316122 original size:4 final size:4
Alignment explanation
Indices: 1316106--1316197 Score: 114
Period size: 4 Copynumber: 23.0 Consensus size: 4
1316096 GTCAGCCATG
* * * * *
1316106 CATT CACT CATT CATT CATT TATG CATT CACTT -ATT CATT CATT TATG
1 CATT CATT CATT CATT CATT CATT CATT CA-TT CATT CATT CATT CATT
*
1316154 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATC CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
1316198 TATGTATACA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
3 2 0.03
4 70 0.95
5 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:1316209 original size:24 final size:24
Alignment explanation
Indices: 1316103--1316211 Score: 148
Period size: 24 Copynumber: 4.5 Consensus size: 24
1316093 TTTGTCAGCC
*
1316103 ATGCATTCACTCATTCATTCATTT
1 ATGCATTCATTCATTCATTCATTT
1316127 ATGCATTCACTT-ATTCATTCATTT
1 ATGCATTCA-TTCATTCATTCATTT
*
1316151 ATGCATTCATTCATTCATTCATTC
1 ATGCATTCATTCATTCATTCATTT
* *
1316175 ATTCATTCATTCATTCATCCATTT
1 ATGCATTCATTCATTCATTCATTT
* *
1316199 ATGTATACATTCA
1 ATGCATTCATTCA
1316212 GTATAATGCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 2 0.03
24 72 0.96
25 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.47
Consensus pattern (24 bp):
ATGCATTCATTCATTCATTCATTT
Found at i:1318038 original size:25 final size:25
Alignment explanation
Indices: 1318010--1318058 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1318000 CTTTTTCTAA
* *
1318010 TTCACTCCATATGATCATTTTCTTG
1 TTCACTCCATATAACCATTTTCTTG
* *
1318035 TTCATTCTATATAACCATTTTCTT
1 TTCACTCCATATAACCATTTTCTT
1318059 TCATTAAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.51
Consensus pattern (25 bp):
TTCACTCCATATAACCATTTTCTTG
Found at i:1318170 original size:17 final size:15
Alignment explanation
Indices: 1318148--1318187 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
1318138 TGGGTATGCA
1318148 AAAAAAAAAAGCCAAAG
1 AAAAAAAAAA--CAAAG
1318165 AAAAAAAAAACAAAG
1 AAAAAAAAAACAAAG
1318180 AGAAAAAA
1 A-AAAAAA
1318188 TGGTTATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 10 0.45
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAG
Found at i:1318653 original size:5 final size:5
Alignment explanation
Indices: 1318636--1318689 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
1318626 AGAATACACA
* * * * *
1318636 AAAAA AAAAG AAATG AAAAG AAAGG AAGAAT AAAAG AAAAA AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG
1318687 AAA
1 AAA
1318690 TGAATGGGTG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 36 0.92
6 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:1319768 original size:22 final size:23
Alignment explanation
Indices: 1319726--1319769 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1319716 CTAGTTCAAC
*
1319726 TGGCACAATAAGCCTATATTAGT
1 TGGCACAATAAGCCGATATTAGT
1319749 TGGCACAA-AAGCTCGA-ATTAG
1 TGGCACAATAAGC-CGATATTAG
1319770 GTAAAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (23 bp):
TGGCACAATAAGCCGATATTAGT
Found at i:1320078 original size:32 final size:32
Alignment explanation
Indices: 1320042--1320146 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 32
1320032 TTAAACCTGA
1320042 TTTATCTGGCCATCAATGAGGTTTAAGCCCAG
1 TTTATCTGGCCATCAATGAGGTTTAAGCCCAG
* * *
1320074 TTTATCTGGCCATCAATGAAGTCTTAAGCCTAA
1 TTTATCTGGCCATCAATGAGGT-TTAAGCCCAG
*
1320107 TTTATCTGGCC-CCAAATGAGGTTTTAAGCCCAG
1 TTTATCTGGCCATC-AATGAGG-TTTAAGCCCAG
1320140 TTTATCT
1 TTTATCT
1320147 AGCCTTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 22 0.35
33 40 0.63
34 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (32 bp):
TTTATCTGGCCATCAATGAGGTTTAAGCCCAG
Found at i:1320111 original size:33 final size:32
Alignment explanation
Indices: 1320031--1320117 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
1320021 GCAATCAATC
* * *
1320031 TTTAAACCTGATTTATCTGGCCATCAATGAGG
1 TTTAAGCCTAATTTATCTGGCCATCAATGAAG
* *
1320063 TTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 TTTAAGCCTAATTTATCTGGCCATCAATGAAG
1320095 TCTTAAGCCTAATTTATCTGGCC
1 T-TTAAGCCTAATTTATCTGGCC
1320118 CCAAATGAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 28 0.60
33 19 0.40
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (32 bp):
TTTAAGCCTAATTTATCTGGCCATCAATGAAG
Found at i:1320341 original size:15 final size:15
Alignment explanation
Indices: 1320321--1320352 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1320311 ATGAAAGGGA
*
1320321 CATTTGCATTTGCAT
1 CATTTGCATCTGCAT
1320336 CATTTGCATCTGCAT
1 CATTTGCATCTGCAT
1320351 CA
1 CA
1320353 CAAGAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (15 bp):
CATTTGCATCTGCAT
Found at i:1320779 original size:22 final size:22
Alignment explanation
Indices: 1320715--1320781 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
1320705 AAATTTTGAG
* * *
1320715 ATCTGTAAGAC-TTCGAGCATG
1 ATCTTTAAGACTTTCGAGTATA
* * *
1320736 ATTTTTAAGACCTCTGGA-TATA
1 ATCTTTAAGA-CTTTCGAGTATA
1320758 ATCTTTAAGACTTTCGAGTATA
1 ATCTTTAAGACTTTCGAGTATA
1320780 AT
1 AT
1320782 TTTGATTCGC
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
21 13 0.38
22 18 0.53
23 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (22 bp):
ATCTTTAAGACTTTCGAGTATA
Found at i:1321006 original size:21 final size:23
Alignment explanation
Indices: 1320973--1321023 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
1320963 TGTCTCAGTC
*
1320973 GATTTTGTAAGACCT-TTGGCAT
1 GATTTTGTAAGACCTCTAGGCAT
1320995 GATTTT-TAAGACCTCTAGGCAT
1 GATTTTGTAAGACCTCTAGGCAT
*
1321017 AATTTTG
1 GATTTTG
1321024 ATTCGCGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (23 bp):
GATTTTGTAAGACCTCTAGGCAT
Found at i:1321233 original size:71 final size:69
Alignment explanation
Indices: 1321116--1321272 Score: 176
Period size: 71 Copynumber: 2.3 Consensus size: 69
1321106 TAATCTCGGT
* * * *
1321116 CTCTTTA-TTTTCTTAACTCTGGTTCAATCCTGATCTTTTTAATTCTAAGTTACGGTTTAATCCC
1 CTCTTTATTTTTCTTAACTCTAGTTCAATCCTAATCTCTTTAATTCTAAGTCACGGTTTAATCCC
1321180 AATC
66 AATC
* **
1321184 CTCTTTATTTTTCTTTAACTCGTAGTTCAAT-CTCAATCTCTTTACTTCTAAGTCGTGGTTTAAT
1 CTCTTTATTTTTC-TTAACTC-TAGTTCAATCCT-AATCTCTTTAATTCTAAGTCACGGTTTAAT
*
1321248 CCCGATC
63 CCCAATC
* *
1321255 CTCATTATTTCTC-TAACT
1 CTCTTTATTTTTCTTAACT
1321273 TATGATTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
68 7 0.09
69 10 0.13
70 9 0.12
71 49 0.65
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (69 bp):
CTCTTTATTTTTCTTAACTCTAGTTCAATCCTAATCTCTTTAATTCTAAGTCACGGTTTAATCCC
AATC
Found at i:1321386 original size:36 final size:36
Alignment explanation
Indices: 1321241--1321389 Score: 105
Period size: 35 Copynumber: 4.2 Consensus size: 36
1321231 CTAAGTCGTG
* *
1321241 GTTTAATCCCGATCCTCATTATTTCTCTAACTTA-T
1 GTTTAATCTCGATCCTCATTATTTCTCTAACTTACA
* * * * *
1321276 GATTTAATCACGAT-CTCTTTATTTTTTTTACTTACA
1 G-TTTAATCTCGATCCTCATTATTTCTCTAACTTACA
* * * *
1321312 GTTTAATC-CTGATCCT-TTTA-AT-TCTAAGC-CACG
1 GTTTAATCTC-GATCCTCATTATTTCTCTAA-CTTACA
* *
1321345 GTTTAATCTCGATCCTCATTATTTCTCTTATTTACA
1 GTTTAATCTCGATCCTCATTATTTCTCTAACTTACA
1321381 GTTTAATCT
1 GTTTAATCT
1321390 AAATTTTTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
33 19 0.22
34 7 0.08
35 32 0.37
36 29 0.33
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.48
Consensus pattern (36 bp):
GTTTAATCTCGATCCTCATTATTTCTCTAACTTACA
Found at i:1321451 original size:106 final size:105
Alignment explanation
Indices: 1321224--1321514 Score: 383
Period size: 106 Copynumber: 2.8 Consensus size: 105
1321214 TCTCAATCTC
* ** * * * *
1321224 TTTACTTCTAAGTCGTGGTTTAATCCCGATCCTCATTATTTCTCTAACTTA-TGATTTAATC-AC
1 TTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTTATTTACAG-TTTAATCTA-
* * *
1321287 GATCTCTTTA-TTTTTTTTACTTACAGTTTAATCCTGATCCT
64 GATTTTTTTATTTTTTTTTACTTACAGTTTAATCCTGATACT
* *
1321328 TTTAATTCTAAGCCACGGTTTAATCTCGATCCTCATTATTTCTCTTATTTACAGTTTAATCTAAA
1 TTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTTATTTACAGTTTAATCTAGA
*
1321393 TTTTTTTTATTTTTTTTTACTTACAGTTTAATCCTGATATT
66 -TTTTTTTATTTTTTTTTACTTACAGTTTAATCCTGATACT
* *
1321434 TTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTT-TTTTGATTTACAGTTTAATCTGG
1 TTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTT-ATTTACAGTTTAATCTAG
1321498 ATTTTTTTATTTTTTTT
65 ATTTTTTTATTTTTTTT
1321515 GACTCGTGGC
Statistics
Matches: 165, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
104 52 0.32
105 27 0.16
106 86 0.52
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (105 bp):
TTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTTATTTACAGTTTAATCTAGA
TTTTTTTATTTTTTTTTACTTACAGTTTAATCCTGATACT
Found at i:1321599 original size:36 final size:35
Alignment explanation
Indices: 1321551--1322175 Score: 157
Period size: 35 Copynumber: 18.1 Consensus size: 35
1321541 TACATCTAAG
* *
1321551 TCACGACTTAATCCCGATCTTTATTCTTTCTCTGAC
1 TCACGATTTAATCCCGATCTTT-TTATTTCTCTGAC
* * * *
1321587 TTACGATTTAATCTCGATCTTTTTATTTTTTTGAC
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * * *
1321622 TCATGATTCAATCCCGATCTCTTTA-CT-TCT-AC
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * **
1321654 ATCGCGATTTAATCTCGATCCTCATTATTTCT-TGAC
1 -TCACGATTTAATCCCGAT-CTTTTTATTTCTCTGAC
* * * ** * * *
1321690 TCATGGTTCAATCATGATCTTTTTA-AT-TCTAAG
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * ** *
1321723 TCATGATTTAATCTCGATCCTCATTATTTCTCTGAT
1 TCACGATTTAATCCCGAT-CTTTTTATTTCTCTGAC
* * ** *
1321759 TTACGGTTTAATCCCTTTCTTTTTATTTTTCTTGAC
1 TCACGATTTAATCCCGATCTTTTTATTTCTC-TGAC
* * * * * * *
1321795 TCGC-AGTTCAATCTCGATCTCTTTA-CT-TCTAAG
1 TCACGA-TTTAATCCCGATCTTTTTATTTCTCTGAC
* * * *
1321828 TCACGGTTTAATCTCGATGCTTATTCTTTCTCTGAC
1 TCACGATTTAATCCCGAT-CTTTTTATTTCTCTGAC
* * * * *
1321864 TTACGATTTAATCTCGATCTCTTTATTTTTTTGAC
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* ** * * * *
1321899 TCGCGGCTCAATCCCCATCTCTTTACTT-T-T-AC
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * * *
1321931 ATCACGGTTTAATCCTGGTCTCTTTATTT-TCTTGA-
1 -TCACGATTTAATCCCGATCTTTTTATTTCTC-TGAC
* * * * * *
1321966 TTAGCAATTCAATCCTGGT-TTCTTTA-CT-TCT-AC
1 TCA-CGATTTAATCCCGATCTT-TTTATTTCTCTGAC
* * **
1321999 ATCGC-AGTTTAATCCTGATCCTCATTATTTCTCTGAC
1 -TCACGA-TTTAATCCCGAT-CTTTTTATTTCTCTGAC
* *
1322036 TTACGATTTAATCCCGATCTTTTTGTTTCT-TGAC
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * * * * * *
1322070 TCACGGTTCAATCTCGATCTCTTTACTT-T-TAAG
1 TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
* * * *
1322103 TCACGATTTAATCTCGATCTTCATTCTTTTTCTGAC
1 TCACGATTTAATCCCGATCTT-TTTATTTCTCTGAC
* *
1322139 TTGCAC--TTTAATCTCGATCTCTTTATTT-TCTTGAC
1 -T-CACGATTTAATCCCGATCTTTTTATTTCTC-TGAC
1322174 TC
1 TC
1322176 GTGGTTCAAT
Statistics
Matches: 423, Mismatches: 130, Indels: 75
0.67 0.21 0.12
Matches are distributed among these distances:
32 7 0.02
33 106 0.25
34 66 0.16
35 127 0.30
36 110 0.26
37 4 0.01
38 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (35 bp):
TCACGATTTAATCCCGATCTTTTTATTTCTCTGAC
Found at i:1321666 original size:104 final size:105
Alignment explanation
Indices: 1321207--1321690 Score: 437
Period size: 104 Copynumber: 4.6 Consensus size: 105
1321197 TTTAACTCGT
* * ** * *
1321207 AGTTCAATCTCAATCTCTTTACTTCTAAGTCGTGGTTTAATCCCGATCCTCATTATTTCTCTAAC
1 AGTTCAATCCCGATCTCTTTACTTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTGAC
* * *
1321272 TTA-TGATTTAATCACGATCTCTTTATTTTTTTT-ACTTAC
66 TTACAG-TTTAATCTCGATCTTTTTATTTTTTTTGACTTAC
* * * * *
1321311 AGTTTAATCCTGATC-CTTTTAATTCTAAGCCACGGTTTAATCTCGATCCTCATTATTTCTCTTA
1 AGTTCAATCCCGATCTC-TTTACTTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTGA
* ** * *
1321375 TTTACAGTTTAATCTAAATTTTTTTTATTTTTTTTTACTTAC
65 CTTACAGTTTAATCTCGA-TCTTTTTATTTTTTTTGACTTAC
* * * * * * * *
1321417 AGTTTAATCCTGATATTTTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTTTTTGAT
1 AGTTCAATCCCGATCTCTTTACTTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTGAC
* * ***
1321482 TTACAGTTTAATCTGGATTTTTTTATTTTTTTTGACTCGT
66 TTACAGTTTAATCTCGATCTTTTTATTTTTTTTGACTTAC
* * ** * ** * * * *
1321522 GGCTCAATATCGATCTCTTTACATCTAAGTCACGACTTAATCCCGATCTTTATTCTTTCTCTGAC
1 AGTTCAATCCCGATCTCTTTACTTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTGAC
1321587 TTAC-GATTTAATCTCGATCTTTTTA-TTTTTTTGAC-T-C
66 TTACAG-TTTAATCTCGATCTTTTTATTTTTTTTGACTTAC
* *
1321624 ATGATTCAATCCCGATCTCTTTACTTCTACA-TCGCGATTTAATCTCGATCCTCATTATTTCT-T
1 A-G-TTCAATCCCGATCTCTTTACTTCTA-AGTCACGGTTTAATCTCGATCCTCATTATTTCTCT
1321687 GACT
63 GACT
1321691 CATGGTTCAA
Statistics
Matches: 308, Mismatches: 63, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
103 7 0.02
104 120 0.39
105 102 0.33
106 79 0.26
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (105 bp):
AGTTCAATCCCGATCTCTTTACTTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTGAC
TTACAGTTTAATCTCGATCTTTTTATTTTTTTTGACTTAC
Found at i:1321668 original size:68 final size:67
Alignment explanation
Indices: 1321589--1321753 Score: 197
Period size: 68 Copynumber: 2.4 Consensus size: 67
1321579 TCTCTGACTT
** * * *
1321589 ACGATTTAATCTCGATCTTTTTATTTTTTTGACTCATGATTCAATCCCGATCTCTTTACTTCTAC
1 ACGATTTAATCTCGATCTCATTA-TTTCTTGACTCATGATTCAATCACGATCTCTTTAATTCTA-
1321654 A-TC
64 AGTC
* * * *
1321657 GCGATTTAATCTCGATCCTCATTATTTCTTGACTCATGGTTCAATCATGATCTTTTTAATTCTAA
1 ACGATTTAATCTCGAT-CTCATTATTTCTTGACTCATGATTCAATCACGATCTCTTTAATTCTAA
1321722 GTC
65 GTC
*
1321725 ATGATTTAATCTCGATCCTCATTATTTCT
1 ACGATTTAATCTCGAT-CTCATTATTTCT
1321754 CTGATTTACG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
67 1 0.01
68 78 0.93
69 5 0.06
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (67 bp):
ACGATTTAATCTCGATCTCATTATTTCTTGACTCATGATTCAATCACGATCTCTTTAATTCTAAG
TC
Found at i:1321785 original size:277 final size:275
Alignment explanation
Indices: 1321422--1322197 Score: 921
Period size: 277 Copynumber: 2.8 Consensus size: 275
1321412 CTTACAGTTT
* * * * *
1321422 AATCCTGATATTTTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTTTTTGATTTACA
1 AATCCTGAT-TTTTTAATTCTAAGTCATGATTTAATCTCGATCCTCATTATTTCTCTGATTTACG
** * * * * *
1321487 GTTTAATCTGGATT-TTTTTATTTTTTTTGACTCGTGGCTCAATATCGATCTCTTTACATCTAAG
65 GTTTAATC-CCATTCTTTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTACTTCTAAG
* * *
1321551 TCACGACTTAATCCCGATCTTTATTCTTTCTCTGACTTACGATTTAATCTCGATCTTTTTATTTT
129 TCACGATTTAATCTCGATCTTTATTCTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTT
* * *
1321616 TTTGACTCATGATTCAATCCCGATCTCTTTACTTCTACATCGCGATTTAAT-CTCGATCCTCATT
194 TTTGACTCGTGGTTCAATCCCGATCTCTTTACTTCTACATCACGATTTAATCCT-GAT-CTCATT
*
1321680 A-TTTCTTGACTCATG-GTTC
257 ATTTTCTTGA-TCA-GAATTC
*
1321699 AATCATGATCTTTTTAATTCTAAGTCATGATTTAATCTCGATCCTCATTATTTCTCTGATTTACG
1 AATCCTGAT-TTTTTAATTCTAAGTCATGATTTAATCTCGATCCTCATTATTTCTCTGATTTACG
* *
1321764 GTTTAATCCCTTTCTTTTTATTTTTCTTGACTCGCAGTTCAATCTCGATCTCTTTACTTCTAAGT
65 GTTTAATCCCATTCTTTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTACTTCTAAGT
*
1321829 CACGGTTTAATCTCGATGC-TTATTCTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTT
130 CACGATTTAATCTCGAT-CTTTATTCTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTT
* * * * * * *
1321893 TTTGACTCGCGGCTCAATCCCCATCTCTTTACTTTTACATCACGGTTTAATCCTGGTCTCTTTAT
194 TTTGACTCGTGGTTCAATCCCGATCTCTTTACTTCTACATCACGATTTAATCCTGATCTCATTAT
*
1321958 TTTCTTGATTAGCAATTC
259 TTTCTTGATCAG-AATTC
* * *
1321976 AATCCTGGTTTCTTTACTTCT-A--CATCGCAGTTTAATC-CTGATCCTCATTATTTCTCTGACT
1 AATCCTGATTT-TTTAATTCTAAGTCAT-G-A-TTTAATCTC-GATCCTCATTATTTCTCTGATT
* * * *
1322037 TACGATTTAATCCCGA-TC-TTTT-TGTTTCTTGACTCACGGTTCAATCTCGATCTCTTTACTTT
61 TACGGTTTAATCCC-ATTCTTTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTACTTC
* * *
1322099 TAAGTCACGATTTAATCTCGATCTTCATTCTTTTTCTGACTTGC-ACTTTAATCTCGATCTCTTT
125 TAAGTCACGATTTAATCTCGATCTTTATTCTTTCTCTGACTTACGA-TTTAATCTCGATCTCTTT
* **
1322163 ATTTTCTTGACTCGTGGTTCAATTTCGATCTCTTT
189 ATTTTTTTGACTCGTGGTTCAATCCCGATCTCTTT
1322198 TACATTTAAG
Statistics
Matches: 433, Mismatches: 52, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
274 5 0.01
275 123 0.28
276 19 0.04
277 283 0.65
278 3 0.01
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (275 bp):
AATCCTGATTTTTTAATTCTAAGTCATGATTTAATCTCGATCCTCATTATTTCTCTGATTTACGG
TTTAATCCCATTCTTTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTACTTCTAAGTC
ACGATTTAATCTCGATCTTTATTCTTTCTCTGACTTACGATTTAATCTCGATCTCTTTATTTTTT
TGACTCGTGGTTCAATCCCGATCTCTTTACTTCTACATCACGATTTAATCCTGATCTCATTATTT
TCTTGATCAGAATTC
Found at i:1321804 original size:105 final size:105
Alignment explanation
Indices: 1321658--1321923 Score: 297
Period size: 105 Copynumber: 2.6 Consensus size: 105
1321648 TTCTACATCG
* * ** *
1321658 CGATTTAATCTCGATC-C-TCATTATTTCTTGACTCATGGTTCAATCAT-GATCTTTTTAATTCT
1 CGATTTAATCCCGATCTCTTTATT-TTTCTTGACTCGCGGTTCAATC-TCGATCTCTTTAATTCT
* *
1321720 AAGTCATGATTTAATCTCGATCCTCATTATTTCTCTGATTTA
64 AAGTCACGATTTAATCTCGATCCTCATTATTTCTCTGACTTA
* ** * * *
1321762 CGGTTTAATCCCTTTCTTTTTATTTTTCTTGACTCGCAGTTCAATCTCGATCTCTTTACTTCTAA
1 CGATTTAATCCCGATCTCTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTAATTCTAA
* * * *
1321827 GTCACGGTTTAATCTCGATGCTTATTCTTTCTCTGACTTA
66 GTCACGATTTAATCTCGATCCTCATTATTTCTCTGACTTA
* * * *
1321867 CGATTTAATCTCGATCTCTTTATTTTT-TTGACTCGCGGCTCAATCCCCATCTCTTTA
1 CGATTTAATCCCGATCTCTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTA
1321924 CTTTTACATC
Statistics
Matches: 133, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
104 39 0.29
105 90 0.68
106 4 0.03
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (105 bp):
CGATTTAATCCCGATCTCTTTATTTTTCTTGACTCGCGGTTCAATCTCGATCTCTTTAATTCTAA
GTCACGATTTAATCTCGATCCTCATTATTTCTCTGACTTA
Found at i:1322011 original size:172 final size:171
Alignment explanation
Indices: 1321761--1322163 Score: 435
Period size: 172 Copynumber: 2.3 Consensus size: 171
1321751 TCTCTGATTT
* * * *
1321761 ACGGTTTAATCCCTTTCTTTTTATTTTTCTTGACTCGCAGTTCAATCTCGATCTCTTTACTTCTA
1 ACGGTTTAAT-CCTGTCTCTTTATTTTTCTTGACTAGCAATTCAATCTCGATCTCTTTACTTCTA
* * * * *
1321826 AGTCACGGTTTAAT-CTCGATGCTTATTCTTTCTCTGACTTACGATTTAATCTCGATCTCTTTAT
65 AGTCACAGTTTAATCCT-GATCCTCATTATTTCTCTGACTTACGATTTAATCCCGATCT-TTT-T
* *
1321890 -TTTTTTGACTCGCGGCTCAATCCCCATCTCTTTACTTTTACA-TC
127 GTTTCTTGACTCACGGCTCAATCCCCATCTCTTTACTTTTA-AGTC
* * *
1321934 ACGGTTTAATCCTGGTCTCTTTA-TTTTCTTGATTAGCAATTCAATC-CTGGTTTCTTTACTTCT
1 ACGGTTTAATCCT-GTCTCTTTATTTTTCTTGACTAGCAATTCAATCTC-GATCTCTTTACTTCT
*
1321997 ACA-TCGCAGTTTAATCCTGATCCTCATTATTTCTCTGACTTACGATTTAATCCCGATCTTTTTG
64 A-AGTCACAGTTTAATCCTGATCCTCATTATTTCTCTGACTTACGATTTAATCCCGATCTTTTTG
* * *
1322061 TTTCTTGACTCACGGTTCAATCTCGATCTCTTTACTTTTAAGTC
128 TTTCTTGACTCACGGCTCAATCCCCATCTCTTTACTTTTAAGTC
* * * * * *
1322105 ACGATTTAAT-CTCGATCTTCATTCTTTTTC-TGACTTGCACTTTAATCTCGATCTCTTTA
1 ACGGTTTAATCCT-G-TC-TCTTTATTTTTCTTGACTAGCAATTCAATCTCGATCTCTTTA
1322164 TTTTCTTGAC
Statistics
Matches: 192, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
170 5 0.03
171 52 0.27
172 109 0.57
173 26 0.14
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (171 bp):
ACGGTTTAATCCTGTCTCTTTATTTTTCTTGACTAGCAATTCAATCTCGATCTCTTTACTTCTAA
GTCACAGTTTAATCCTGATCCTCATTATTTCTCTGACTTACGATTTAATCCCGATCTTTTTGTTT
CTTGACTCACGGCTCAATCCCCATCTCTTTACTTTTAAGTC
Found at i:1322088 original size:34 final size:33
Alignment explanation
Indices: 1322026--1322175 Score: 101
Period size: 34 Copynumber: 4.3 Consensus size: 33
1322016 ATCCTCATTA
* *
1322026 TTTCTCTGACTTACGATTTAATCCCGATCTTTTT
1 TTTCT-TGACTCACGATTTAATCTCGATCTTTTT
* * *
1322060 GTTTCTTGACTCACGGTTCAATCTCGATCTCTTTA
1 -TTTCTTGACTCACGATTTAATCTCGATCT-TTTT
* * *
1322095 CTT-TTAAGTCACGATTTAATCTCGATCTTCATTCT
1 TTTCTTGACTCACGATTTAATCTCGATCTT--TT-T
1322130 TTT-TCTGACTTGCAC--TTTAATCTCGATCTCTTTAT
1 TTTCT-TGAC-T-CACGATTTAATCTCGATCT-TTT-T
1322165 TTTCTTGACTC
1 TTTCTTGACTC
1322176 GTGGTTCAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
32 1 0.01
33 22 0.24
34 25 0.27
35 21 0.23
36 17 0.19
37 2 0.02
38 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.10, T:0.48
Consensus pattern (33 bp):
TTTCTTGACTCACGATTTAATCTCGATCTTTTT
Found at i:1322116 original size:33 final size:34
Alignment explanation
Indices: 1321531--1322122 Score: 135
Period size: 33 Copynumber: 17.2 Consensus size: 34
1321521 TGGCTCAATA
* * *
1321531 TCGATCTCTTTACATC-TAAGTCACGACTTAATC
1 TCGATCTCTTTACTTCTTAACTCACGATTTAATC
* * * *
1321564 CCGATCT-TTATTCTTTCTCTGACTTACGATTTAATC
1 TCGATCTCTT-TAC-TTCT-TAACTCACGATTTAATC
* * * * * *
1321600 TCGATCTTTTTATTTTTTTGACTCATGATTCAATC
1 TCGATCTCTTTA-CTTCTTAACTCACGATTTAATC
* *
1321635 CCGATCTCTTTACTTC-T-ACATCGCGATTTAATC
1 TCGATCTCTTTACTTCTTAAC-TCACGATTTAATC
* * * * * *
1321668 TCGATCCTCATTATTTCTTGACTCATGGTTCAATC
1 TCGAT-CTCTTTACTTCTTAACTCACGATTTAATC
* * * *
1321703 AT-GATCTTTTTAATTC-TAAGTCATGATTTAATC
1 -TCGATCTCTTTACTTCTTAACTCACGATTTAATC
* * * * * *
1321736 TCGATCCTCATTATTTCTCTGATTTACGGTTTAATC
1 TCGAT-CTCTTTACTTCT-TAACTCACGATTTAATC
* ** * * * * *
1321772 CCTTTCTTTTTATTTTTCTTGACTCGC-AGTTCAATC
1 TCGATCTCTTTA--CTTCTTAACTCACGA-TTTAATC
* *
1321808 TCGATCTCTTTACTTC-TAAGTCACGGTTTAATC
1 TCGATCTCTTTACTTCTTAACTCACGATTTAATC
* *
1321841 TCGATGCT-TATT-CTTTCTCTGACTTACGATTTAATC
1 TCGAT-CTCT-TTAC-TTCT-TAACTCACGATTTAATC
* * * * ** *
1321877 TCGATCTCTTTATTTTTTTGACTCGCGGCTCAATC
1 TCGATCTCTTTA-CTTCTTAACTCACGATTTAATC
* * *
1321912 CCCATCTCTTTACTT-TT-ACATCACGGTTTAATC
1 TCGATCTCTTTACTTCTTAAC-TCACGATTTAATC
* * * * * *
1321945 -CTGGTCTCTTTATTTTCTTGA-TTAGCAATTCAATC
1 TC-GATCTCTTTA-CTTCTTAACTCA-CGATTTAATC
* * *
1321980 -CTGGTTTCTTTACTTC-T-ACATCGC-AGTTTAATC
1 TC-GATCTCTTTACTTCTTAAC-TCACGA-TTTAATC
* * * *
1322013 -CTGATCCTCATTATTTCTCTGACTTACGATTTAATC
1 TC-GAT-CTCTTTACTTCT-TAACTCACGATTTAATC
* * ** * * *
1322049 CCGATCTTTTTGTTTCTTGACTCACGGTTCAATC
1 TCGATCTCTTTACTTCTTAACTCACGATTTAATC
*
1322083 TCGATCTCTTTACTT-TTAAGTCACGATTTAATC
1 TCGATCTCTTTACTTCTTAACTCACGATTTAATC
1322116 TCGATCT
1 TCGATCT
1322123 TCATTCTTTT
Statistics
Matches: 405, Mismatches: 112, Indels: 84
0.67 0.19 0.14
Matches are distributed among these distances:
32 10 0.02
33 110 0.27
34 82 0.20
35 97 0.24
36 95 0.23
37 11 0.03
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (34 bp):
TCGATCTCTTTACTTCTTAACTCACGATTTAATC
Found at i:1322132 original size:33 final size:33
Alignment explanation
Indices: 1322070--1322132 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1322060 GTTTCTTGAC
* *
1322070 TCACGGTTCAATCTCGATCTCTTTACTTTTAAG
1 TCACGATTCAATCTCGATCTCATTACTTTTAAG
*
1322103 TCACGATTTAATCTCGATCTTCATT-CTTTT
1 TCACGATTCAATCTCGATC-TCATTACTTTT
1322133 TCTGACTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.46
Consensus pattern (33 bp):
TCACGATTCAATCTCGATCTCATTACTTTTAAG
Found at i:1322218 original size:105 final size:104
Alignment explanation
Indices: 1321986--1322487 Score: 451
Period size: 105 Copynumber: 4.8 Consensus size: 104
1321976 AATCCTGGTT
* *
1321986 TCTTTAC-TTCTACA-TCGCAGTTTAATC-CTGATCCTCATTATTTCTCTGACTTACGATTTAAT
1 TCTTTACATTCTA-AGTCACAGTTTAATCTC-GATCTTCATTATTTCTCTGACTTAC-ATTTAAT
* *
1322048 CCCGATCT-TTT-TGTTTCTTGACTCACGGTTCAATCTCGATC
63 CTCGATCTCTTTAT-TTTCTTGACTCATGGTTCAATCTCGATC
* * * *
1322089 TCTTTAC-TTTTAAGTCAC-GATTTAATCTCGATCTTCATTCTTTTTCTGACTTGCACTTTAATC
1 TCTTTACATTCTAAGTCACAG-TTTAATCTCGATCTTCATTATTTCTCTGACTTACA-TTTAATC
* *
1322152 TCGATCTCTTTATTTTCTTGACTCGTGGTTCAATTTCGATC
64 TCGATCTCTTTATTTTCTTGACTCATGGTTCAATCTCGATC
* ** * *
1322193 TCTTTTACATT-TAAGTCACAGTTTAATCCCGATCCCCATTCTTTCTTTGACTTACGATTTAATC
1 TC-TTTACATTCTAAGTCACAGTTTAATCTCGATCTTCATTATTTCTCTGACTTAC-ATTTAATC
* * * * **
1322257 T-TAGTCTCTTTATTTTTCTTAATTCATGGATCAATCTTAATC
64 TCGA-TCTCTTTA-TTTTCTTGACTCATGGTTCAATCTCGATC
* *
1322299 TTTTTA-ATTCTAAGTCACAGTTTAATCTCGATCTTCATTATTTCTCTGACTTACGGTTTAATCT
1 TCTTTACATTCTAAGTCACAGTTTAATCTCGATCTTCATTATTTCTCTGACTTAC-ATTTAATCT
** * * *
1322363 TAATCTTTTTATTTTTCTTGACTC-TCGGTTAAATCTCGATA
65 CGATCTCTTTA-TTTTCTTGACTCAT-GGTTCAATCTCGATC
* * * *
1322404 TCTTTAC-TTCTAAGTTAC-GATTTAATCTCGATCGTT-GTTA-TTCTCTGACTCATGATTTAAT
1 TCTTTACATTCTAAGTCACAG-TTTAATCTCGATC-TTCATTATTTCTCTGACTTA-CATTTAAT
*
1322465 CTCGATCTCCTTATTTT-TTGACT
63 CTCGATCTCTTTATTTTCTTGACT
1322488 TGTGATTCAA
Statistics
Matches: 330, Mismatches: 50, Indels: 39
0.79 0.12 0.09
Matches are distributed among these distances:
102 9 0.03
103 59 0.18
104 63 0.19
105 169 0.51
106 30 0.09
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.48
Consensus pattern (104 bp):
TCTTTACATTCTAAGTCACAGTTTAATCTCGATCTTCATTATTTCTCTGACTTACATTTAATCTC
GATCTCTTTATTTTCTTGACTCATGGTTCAATCTCGATC
Found at i:1322359 original size:36 final size:35
Alignment explanation
Indices: 1322318--1322488 Score: 111
Period size: 36 Copynumber: 4.9 Consensus size: 35
1322308 CTAAGTCACA
*
1322318 GTTTAATCTCGATCTTCATTATTTCTCTGACTTACG
1 GTTTAATCTCGATCTTCTTTATTT-TCTGACTTACG
**
1322354 GTTTAATCTTAATCTT-TTTATTTTTCTTGACTCT-CG
1 GTTTAATCTCGATCTTCTTTA-TTTTC-TGACT-TACG
* * * * *
1322390 GTTAAATCTCGAT-ATCTTTA-CTTCTAAGTTACG
1 GTTTAATCTCGATCTTCTTTATTTTCTGACTTACG
* * * * *
1322423 ATTTAATCTCGATCGTT-GTTATTCTCTGACTCATG
1 GTTTAATCTCGATC-TTCTTTATTTTCTGACTTACG
* * *
1322458 ATTTAATCTCGATC-TCCTTATTTTTTGACTT
1 GTTTAATCTCGATCTTCTTTATTTTCTGACTT
1322489 GTGATTCAAT
Statistics
Matches: 102, Mismatches: 24, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
32 1 0.01
33 17 0.17
34 17 0.17
35 28 0.27
36 38 0.37
37 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.50
Consensus pattern (35 bp):
GTTTAATCTCGATCTTCTTTATTTTCTGACTTACG
Found at i:1323991 original size:22 final size:20
Alignment explanation
Indices: 1323948--1323999 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
1323938 ATTTTGAATT
*
1323948 TTTAGGTTTTGGATTTAAGG
1 TTTAGGTTTTGAATTTAAGG
*
1323968 TTTAGGATTTTGAATTTTAGGG
1 TTTAGG-TTTTGAA-TTTAAGG
1323990 TTTAGTGTTT
1 TTTAG-GTTT
1324000 GGGGTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 14 0.52
23 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (20 bp):
TTTAGGTTTTGAATTTAAGG
Found at i:1324006 original size:14 final size:14
Alignment explanation
Indices: 1323987--1324036 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1323977 TTGAATTTTA
1323987 GGGTTTAGTGTTTG
1 GGGTTTAGTGTTTG
*
1324001 GGGTTT-GAAGTTTG
1 GGGTTTAG-TGTTTG
*
1324015 GGGTTTTAGT-TTTA
1 GGG-TTTAGTGTTTG
1324029 GGGTTTAG
1 GGGTTTAG
1324037 AAGACTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.20
14 20 0.67
15 3 0.10
16 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (14 bp):
GGGTTTAGTGTTTG
Found at i:1324007 original size:28 final size:28
Alignment explanation
Indices: 1323976--1324048 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
1323966 GGTTTAGGAT
* *
1323976 TTTGAATTTTAGGG-TTTAGTGTTTGGGG
1 TTTGAAGTTTAGGGTTTTAGT-TTTAGGG
*
1324004 TTTGAAGTTTGGGGTTTTAGTTTTAGGG
1 TTTGAAGTTTAGGGTTTTAGTTTTAGGG
*
1324032 TTTAGAAGACTTAGGGT
1 TTT-GAAG-TTTAGGGT
1324049 ATGATTTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 21 0.57
29 10 0.27
30 6 0.16
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (28 bp):
TTTGAAGTTTAGGGTTTTAGTTTTAGGG
Found at i:1324154 original size:23 final size:22
Alignment explanation
Indices: 1324124--1324179 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
1324114 GGGACTGGAA
*
1324124 TTTAGGGTTTGAGATTTTGGATT
1 TTTAGGGTTTAAGATTTT-GATT
* *
1324147 TTTAGGGTTTAAGGTTTTGTTT
1 TTTAGGGTTTAAGATTTTGATT
*
1324169 TTTAAGGTTTA
1 TTTAGGGTTTA
1324180 GAGTGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (22 bp):
TTTAGGGTTTAAGATTTTGATT
Found at i:1324168 original size:56 final size:55
Alignment explanation
Indices: 1324054--1324168 Score: 133
Period size: 56 Copynumber: 2.1 Consensus size: 55
1324044 AGGGTATGAT
* * ** * *
1324054 TTTAGGGATTGGAATTTAAGGTTTGGGATTTTTTATTTTTATTTTAGGGTTTAGTG
1 TTTAGGGACTGGAATTTAAGGTTTGAGATTTTGGATTTTTAGTTTAAGGTTTA-TG
*
1324110 TTTAGGGACTGGAATTTAGGGTTTGAGATTTTGGATTTTTAGGGTTTAAGGTTT-TG
1 TTTAGGGACTGGAATTTAAGGTTTGAGATTTTGGATTTTTA--GTTTAAGGTTTATG
1324166 TTT
1 TTT
1324169 TTTAAGGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 41 0.82
58 9 0.18
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.51
Consensus pattern (55 bp):
TTTAGGGACTGGAATTTAAGGTTTGAGATTTTGGATTTTTAGTTTAAGGTTTATG
Found at i:1324246 original size:28 final size:27
Alignment explanation
Indices: 1324215--1324309 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
1324205 GTTTAGAGGG
* *
1324215 TTTACGGTTTAATTTAGGGTTTAAAGTA
1 TTTAAGGTTTAATTTAGGGTTTGAAG-A
* *
1324243 TTTAAGGTTTCATTTTTAGGGTTTGAAGG
1 TTTAAGGTTT-A-ATTTAGGGTTTGAAGA
*
1324272 TTT-GGGTTTAATTTAGGGGTTTGAAGGA
1 TTTAAGGTTTAATTTA-GGGTTTGAA-GA
*
1324300 TTTAAAGTTT
1 TTTAAGGTTT
1324310 GGAGGTTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
26 4 0.08
27 10 0.19
28 18 0.34
29 8 0.15
30 13 0.25
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.47
Consensus pattern (27 bp):
TTTAAGGTTTAATTTAGGGTTTGAAGA
Found at i:1324259 original size:58 final size:56
Alignment explanation
Indices: 1324144--1324309 Score: 169
Period size: 58 Copynumber: 3.0 Consensus size: 56
1324134 GAGATTTTGG
* * * * *
1324144 ATTTTTAGGGTTT-AAGGTTT-TGTTT--TTTAAGGTTTAGAGTGTTTAGGGTTTC
1 ATTTTTAGGGTTTGAAGGTTTCGGTTTAATTTAGGGTTTAAAGTATTTAAGGTTTC
* * *
1324196 GTTTTTAGTGTTTAGAGGGTTTACGGTTTAATTTAGGGTTTAAAGTATTTAAGGTTTC
1 ATTTTTAGGGTTT-GAAGGTTT-CGGTTTAATTTAGGGTTTAAAGTATTTAAGGTTTC
* * * *
1324254 ATTTTTAGGGTTTGAAGGTTTGGGTTTAATTTAGGGGTTTGAAGGATTTAAAGTTT
1 ATTTTTAGGGTTTGAAGGTTTCGGTTTAATTTA-GGGTTTAAAGTATTTAAGGTTT
1324310 GGAGGTTTGG
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
52 11 0.12
54 6 0.07
56 15 0.16
57 26 0.28
58 34 0.37
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (56 bp):
ATTTTTAGGGTTTGAAGGTTTCGGTTTAATTTAGGGTTTAAAGTATTTAAGGTTTC
Found at i:1324263 original size:30 final size:30
Alignment explanation
Indices: 1324153--1324266 Score: 106
Period size: 30 Copynumber: 3.8 Consensus size: 30
1324143 GATTTTTAGG
** *
1324153 GTTTAAGGTTTTGTTTTTTAAGGTTTAGAGT
1 GTTTAAGG-TTTCATTTTTAGGGTTTAGAGT
* * * *
1324184 GTTTAGGGTTTCGTTTTTAGTGTTTAGAGG
1 GTTTAAGGTTTCATTTTTAGGGTTTAGAGT
* * *
1324214 GTTTACGGTTT-A-ATTTAGGGTTTAAAGT
1 GTTTAAGGTTTCATTTTTAGGGTTTAGAGT
*
1324242 ATTTAAGGTTTCATTTTTAGGGTTT
1 GTTTAAGGTTTCATTTTTAGGGTTT
1324267 GAAGGTTTGG
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 21 0.32
29 1 0.02
30 37 0.56
31 7 0.11
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (30 bp):
GTTTAAGGTTTCATTTTTAGGGTTTAGAGT
Done.