Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 97 of 311
Found at i:32130662 original size:19 final size:20
Alignment explanation
Indices: 32130640--32130677 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32130630 TAATTTCTTC
*
32130640 TTTTATTCCTATT-TTTATT
1 TTTTATTCATATTATTTATT
32130659 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
32130678 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTCATATTATTTATT
Found at i:32137652 original size:65 final size:65
Alignment explanation
Indices: 32137542--32137670 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
32137532 AAAATGTAAC
* *
32137542 ACCCCTAACCCATAACCGACATCGAATTAGGGTTACGAGGCATTACCAGACAGACATAACATTTT
1 ACCCCTAACCCATAACCGACATCGAATTAGGGTTACAAGGAATTACCAGACAGACATAACATTTT
** * *
32137607 ACCCCTAACCTGTAACCGACATCGGATTAGGGTTACAAGGAATTACTAGACAGACATAACATTT
1 ACCCCTAACCCATAACCGACATCGAATTAGGGTTACAAGGAATTACCAGACAGACATAACATTT
32137671 AATTCAGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (65 bp):
ACCCCTAACCCATAACCGACATCGAATTAGGGTTACAAGGAATTACCAGACAGACATAACATTTT
Found at i:32138856 original size:42 final size:43
Alignment explanation
Indices: 32138779--32138880 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
32138769 TCCTGGACGT
* * **
32138779 GGTCTTACATGTAATTCAATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATATCCCAGACAG
*
32138822 GGTCTTACACG-AAATCAA-ATACGATGCCGATATCCCAGACAT
1 GGTCTTACACGTAAATCAATAT-CGATGCCGATATCCCAGACAG
* *
32138864 GGTCTTATACATAAATC
1 GGTCTTACACGTAAATC
32138881 TCAATCAAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.66
43 15 0.30
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATATCCCAGACAG
Found at i:32140206 original size:41 final size:43
Alignment explanation
Indices: 32140161--32140262 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
32140151 TCCCAGATAG
*
32140161 GGTCTTACAC-AAAATCA-AAAT-GATGCCAACATCGC-AGGCGT
1 GGTCTTACACGAAAA-CATAAATCGATGCCAACATC-CTAGACGT
*
32140202 GGTCTTACACGTAAAACATAAGTCGATGCCAACATCCTAGACGT
1 GGTCTTACACG-AAAACATAAATCGATGCCAACATCCTAGACGT
* *
32140246 GGTCTTAAACGATAACA
1 GGTCTTACACGAAAACA
32140263 CATATCGGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
41 10 0.19
42 2 0.04
43 13 0.25
44 27 0.52
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
GGTCTTACACGAAAACATAAATCGATGCCAACATCCTAGACGT
Found at i:32140235 original size:44 final size:45
Alignment explanation
Indices: 32140182--32140266 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
32140172 AAATCAAAAT
* *
32140182 GATGCCAACATCGC-AGGCGTGGTCTTACACG-TAAAACATAAGTC
1 GATGCCAACATC-CTAGACGTGGTCTTAAACGATAAAACATAAGTC
*
32140226 GATGCCAACATCCTAGACGTGGTCTTAAACGATAACACATA
1 GATGCCAACATCCTAGACGTGGTCTTAAACGATAAAACATA
32140267 TCGGATCCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 27 0.75
45 8 0.22
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (45 bp):
GATGCCAACATCCTAGACGTGGTCTTAAACGATAAAACATAAGTC
Found at i:32144557 original size:45 final size:48
Alignment explanation
Indices: 32144507--32144634 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 48
32144497 ATGGTTGAGC
32144507 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACTAG
* * *
32144553 -TCCGAACTCGTTGAGTTGAGTCCGAGTT--GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACTA-G
32144597 CATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32144635 GCGGGTTACA
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
41 6 0.09
42 1 0.01
43 2 0.03
44 1 0.01
45 51 0.75
46 4 0.06
47 2 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACTAG
Found at i:32147594 original size:15 final size:15
Alignment explanation
Indices: 32147555--32147632 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
32147545 GTATCTTGGG
*
32147555 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
32147570 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
32147585 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
32147598 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
32147613 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
32147627 TTTCTT
1 TTTCTT
32147633 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32147621 original size:28 final size:28
Alignment explanation
Indices: 32147546--32147628 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
32147536 CATAGTATCG
* * * *
32147546 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
32147576 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
32147604 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
32147629 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:32150128 original size:47 final size:47
Alignment explanation
Indices: 32150010--32150182 Score: 189
Period size: 47 Copynumber: 3.7 Consensus size: 47
32150000 GGATGGTTGA
* *
32150010 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
32150058 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
32150103 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
32150150 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
32150183 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
45 32 0.30
46 30 0.28
47 34 0.31
48 1 0.01
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:32150179 original size:92 final size:93
Alignment explanation
Indices: 32150010--32150179 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
32150000 GGATGGTTGA
* *
32150010 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32150075 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
32150103 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32150167 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32150180 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32155531 original size:40 final size:40
Alignment explanation
Indices: 32155368--32155539 Score: 211
Period size: 40 Copynumber: 4.3 Consensus size: 40
32155358 CATTTGAATG
* * * *
32155368 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * *
32155408 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
32155448 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* **
32155488 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
32155528 ATATCC-GGCTAA
1 ATATCCGGGCTAA
32155540 ATTCTGAAGA
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 6 0.05
40 108 0.95
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:32164481 original size:20 final size:20
Alignment explanation
Indices: 32164458--32164504 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32164448 GGGTTAAGAT
*
32164458 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
32164478 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
32164498 TGAGCTG
1 TGAGCTG
32164505 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:32170371 original size:27 final size:27
Alignment explanation
Indices: 32170341--32170472 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
32170331 ATAAATACTT
* * *
32170341 CACATAGGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
32170368 CACATAAGTGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
32170395 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
32170422 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
32170449 CACAT-AGGGTAAAATAGTCATTTT
1 CACATAAGGGCAAAACAGTCATTTT
32170473 GTCAATTTAG
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 18 0.19
27 76 0.81
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:32170631 original size:18 final size:19
Alignment explanation
Indices: 32170591--32170631 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
32170581 CATAATGCGG
32170591 GCCCATGTGGGCCCACACA
1 GCCCATGTGGGCCCACACA
* *
32170610 -CCCATGT-GGTCCACATA
1 GCCCATGTGGGCCCACACA
32170627 GCCCA
1 GCCCA
32170632 GAAATGGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15
Consensus pattern (19 bp):
GCCCATGTGGGCCCACACA
Found at i:32175317 original size:20 final size:20
Alignment explanation
Indices: 32175294--32175339 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
32175284 CCAGCTCGAA
*
32175294 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
32175314 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
32175334 TTAGCT
1 TTAGCT
32175340 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:32175321 original size:30 final size:30
Alignment explanation
Indices: 32175286--32175359 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
32175276 AGTTTTTCCC
32175286 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
32175316 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
32175346 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
32175360 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:32177794 original size:29 final size:29
Alignment explanation
Indices: 32177728--32177784 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32177718 GATTCAAAGA
*
32177728 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
32177757 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
32177785 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:32181476 original size:26 final size:27
Alignment explanation
Indices: 32181440--32181518 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 27
32181430 AATACCCTTA
32181440 ATTTGTAAAATTACTAAAATACCCCCG
1 ATTTGTAAAATTACTAAAATACCCCCG
* *
32181467 ATTTGT-AAATTACTAAAACACCCTCG
1 ATTTGTAAAATTACTAAAATACCCCCG
* *
32181493 ATTTGTGAAATTACTGAAATACCCCC
1 ATTTGTAAAATTACTAAAATACCCCC
32181519 AGTTTTCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCCCG
Found at i:32181559 original size:27 final size:27
Alignment explanation
Indices: 32181529--32181580 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
32181519 AGTTTTCAAA
*
32181529 ATTACCGAGATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
32181556 ATTATCGAAATACCCTTGTGGGGTA
1 ATTACCGAAATACCCCTGTAGGGTA
32181581 AAATGACCGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGG
Found at i:32181633 original size:26 final size:26
Alignment explanation
Indices: 32181576--32181640 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
32181566 TACCCTTGTG
**
32181576 GGGTAAAATGACCGTTTTGCCCTAAA
1 GGGTAAAATGACTATTTTGCCCTAAA
* * * *
32181602 GAGTAAAATGACTATTTTTCCCTTAT
1 GGGTAAAATGACTATTTTGCCCTAAA
32181628 GGGT-AAATGACTA
1 GGGTAAAATGACTA
32181641 ACTTGGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (26 bp):
GGGTAAAATGACTATTTTGCCCTAAA
Found at i:32183668 original size:54 final size:53
Alignment explanation
Indices: 32183603--32183736 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 53
32183593 CATCATTAAA
* *
32183603 TTATTCTAGCAACTAAATTAACTAAGAA-GAACTTAATTAACTAACATGAATAAT
1 TTATTCCAGCAACT-AATTAACTAA-AATGAACTCAATTAACTAACATGAATAAT
* *
32183657 TTATTCCAGCAACCTAATTAACTAAAATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAA-CTAATTAACTAAAATGAACTCAATTAACTAACATGAATAAT
* * *
32183711 TTACTCCAGTAACTTAATTAATTAAA
1 TTATTCCAGCAAC-TAATTAACTAAA
32183737 CTAAGTATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 65 0.93
55 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (53 bp):
TTATTCCAGCAACTAATTAACTAAAATGAACTCAATTAACTAACATGAATAAT
Found at i:32206682 original size:14 final size:14
Alignment explanation
Indices: 32206660--32206696 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
32206650 ACCTCTTGTA
*
32206660 AAAAGAAAACGA-G
1 AAAAGAAAAAGATG
32206673 AAAAGAAAAAGATG
1 AAAAGAAAAAGATG
32206687 AAAAGAAAAA
1 AAAAGAAAAA
32206697 AGGGATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAGATG
Found at i:32210581 original size:29 final size:29
Alignment explanation
Indices: 32210543--32210599 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32210533 ATACCCAAAC
*
32210543 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
32210572 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
32210600 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:32223554 original size:27 final size:26
Alignment explanation
Indices: 32223524--32223637 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 26
32223514 GTGACGAAGT
*
32223524 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATA-ATGTGGCATAGC
*
32223551 CACCAGATCAGATAATCGTGGCATAGC
1 CACCAGAACAGATAAT-GTGGCATAGC
*
32223578 CACCAGAACAGATATATGTGGCAAAGC
1 CACCAGAACAGATA-ATGTGGCATAGC
32223605 CACCA-AATCAGATAATTGTGGCATAGC
1 CACCAGAA-CAGATAA-TGTGGCATAGC
32223632 CACCAG
1 CACCAG
32223638 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.06
27 70 0.91
28 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (26 bp):
CACCAGAACAGATAATGTGGCATAGC
Found at i:32223587 original size:54 final size:54
Alignment explanation
Indices: 32223524--32223637 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
32223514 GTGACGAAGT
* *
32223524 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
1 CACCAGAACAGATATATGTGGCAAAGCCACCAAATCAGATAATCGTGGCATAGC
*
32223578 CACCAGAACAGATATATGTGGCAAAGCCACCAAATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATATATGTGGCAAAGCCACCAAATCAGATAATCGTGGCATAGC
32223632 CACCAG
1 CACCAG
32223638 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (54 bp):
CACCAGAACAGATATATGTGGCAAAGCCACCAAATCAGATAATCGTGGCATAGC
Found at i:32225296 original size:26 final size:26
Alignment explanation
Indices: 32225260--32225315 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
32225250 TGAAATTCCA
32225260 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32225286 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32225312 ATCA
1 ATCA
32225316 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32226732 original size:22 final size:20
Alignment explanation
Indices: 32226700--32226748 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
32226690 GCCGAATTTA
32226700 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
32226723 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
32226743 TGAACA
1 TGAACA
32226749 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:32227459 original size:29 final size:29
Alignment explanation
Indices: 32227393--32227449 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32227383 GATTCAAAGA
*
32227393 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
32227422 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
32227450 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:32228469 original size:14 final size:14
Alignment explanation
Indices: 32228427--32228471 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
32228417 TTAAAGAAGC
32228427 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
32228441 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
32228454 AACTCATTTAATTA
1 AACTCATTAAATTA
32228468 AACT
1 AACT
32228472 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:32229138 original size:19 final size:19
Alignment explanation
Indices: 32229102--32229141 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32229092 AAAAAAAATC
*
32229102 AAAAAAAAATTTCGAAAAG
1 AAAAAAAAATCTCGAAAAG
32229121 AAAAAAAAATCT-GAAAA-
1 AAAAAAAAATCTCGAAAAG
32229138 AAAA
1 AAAA
32229142 GTGTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 5 0.25
19 11 0.55
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATCTCGAAAAG
Found at i:32230061 original size:9 final size:10
Alignment explanation
Indices: 32230054--32230110 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
32230044 AAGAGAAAAT
32230054 AAAGAAAAGA
1 AAAGAAAAGA
32230064 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
32230076 AAAGAAGA-A
1 AAAGAAAAGA
32230085 AAAGAAAATGA
1 AAAGAAAA-GA
32230096 AATA-AAAAGA
1 AA-AGAAAAGA
32230106 AAAGA
1 AAAGA
32230111 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:32230078 original size:6 final size:5
Alignment explanation
Indices: 32230054--32230110 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
32230044 AAGAGAAAAT
*
32230054 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
32230101 AAAGA AAAGA
1 AAAGA AAAGA
32230111 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:32230085 original size:15 final size:14
Alignment explanation
Indices: 32230054--32230110 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
32230044 AAGAGAAAAT
32230054 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
32230070 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
32230085 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
32230101 AAAGAAAAGA
1 AAAGAAAAGA
32230111 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:32230187 original size:12 final size:12
Alignment explanation
Indices: 32230179--32230203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32230169 TTTGAAAAGC
32230179 AAAAAGAAAATG
1 AAAAAGAAAATG
32230191 AAAAAGAAAATG
1 AAAAAGAAAATG
32230203 A
1 A
32230204 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:32230200 original size:18 final size:18
Alignment explanation
Indices: 32230173--32230228 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
32230163 AAAGCCTTTG
32230173 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
32230192 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
32230210 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
32230227 AA
1 AA
32230229 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:32230213 original size:30 final size:31
Alignment explanation
Indices: 32230179--32230260 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
32230169 TTTGAAAAGC
*
32230179 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
32230209 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
**
32230239 AAAAAGAAGTTGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
32230261 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.63, C:0.01, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:32232528 original size:30 final size:31
Alignment explanation
Indices: 32232494--32232590 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
32232484 AGCTCACTCC
*
32232494 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
32232524 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
32232554 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
32232584 TAGCTCA
1 TAGCTCA
32232591 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:32242449 original size:23 final size:22
Alignment explanation
Indices: 32242398--32242449 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
32242388 CCTCGTCTTT
*
32242398 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTATTTCTTTTTCTAAC
32242420 -TCATTTTATCTTCTTTCTTC-AAC
1 TTC-TTTTAT-TTCTTT-TTCTAAC
32242443 TTCTTTT
1 TTCTTTT
32242450 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTATTTCTTTTTCTAAC
Found at i:32248619 original size:14 final size:14
Alignment explanation
Indices: 32248597--32248644 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32248587 ACCTAAACCG
* *
32248597 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
32248611 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
32248625 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
32248639 ACCATT
1 ACCATT
32248645 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:32249053 original size:14 final size:15
Alignment explanation
Indices: 32249036--32249071 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
32249026 AAAATTGAAA
32249036 AAAAAATC-AAAATC
1 AAAAAATCAAAAATC
32249050 AAAAAATCAAAAAATC
1 AAAAAATC-AAAAATC
32249066 AAAAAA
1 AAAAAA
32249072 AAAGAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAATCAAAAATC
Found at i:32249053 original size:16 final size:17
Alignment explanation
Indices: 32249034--32249073 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
32249024 AAAAAATTGA
32249034 AAAAAAAATC-AAAATC
1 AAAAAAAATCAAAAATC
32249050 --AAAAAATCAAAAAATC
1 AAAAAAAATC-AAAAATC
32249066 AAAAAAAA
1 AAAAAAAA
32249074 AGAGTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.40
16 6 0.30
18 6 0.30
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAAATCAAAAATC
Found at i:32258712 original size:20 final size:21
Alignment explanation
Indices: 32258681--32258725 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
32258671 AGCTCCGTCC
*
32258681 AGCTCAAATCCAGCTTATTC-G
1 AGCTCAAATCCAACTT-TTCTG
32258702 AGCTC-AATCCAACTTTTCTG
1 AGCTCAAATCCAACTTTTCTG
32258722 AGCT
1 AGCT
32258726 AAACTGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (21 bp):
AGCTCAAATCCAACTTTTCTG
Found at i:32258776 original size:30 final size:30
Alignment explanation
Indices: 32258742--32258838 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
32258732 AGCTCACTCC
32258742 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
32258772 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
32258802 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
32258832 TAGCTCA
1 TAGCTCA
32258839 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:32267008 original size:13 final size:14
Alignment explanation
Indices: 32266990--32267023 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
32266980 ATACTTCAAA
32266990 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
32267004 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
32267018 TTTTTT
1 TTTTTT
32267024 CAAATTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTGAATT
Found at i:32268820 original size:17 final size:18
Alignment explanation
Indices: 32268798--32268833 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32268788 TGCCCATTGT
*
32268798 AGTAACA-TACACAGTGC
1 AGTAACAGTAAACAGTGC
32268815 AGTAACAGTAAACAGTGC
1 AGTAACAGTAAACAGTGC
32268833 A
1 A
32268834 TATTTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (18 bp):
AGTAACAGTAAACAGTGC
Found at i:32269121 original size:27 final size:26
Alignment explanation
Indices: 32269086--32269137 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
32269076 AGTCATACAT
* *
32269086 CTCATAAGGGCATAATAGTCACTTTAC
1 CTCACAAGGGCATAACAGTCA-TTTAC
32269113 CTCACAAGGGCATAACAGTCATTTA
1 CTCACAAGGGCATAACAGTCATTTA
32269138 TTAGTTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
CTCACAAGGGCATAACAGTCATTTAC
Found at i:32278340 original size:15 final size:15
Alignment explanation
Indices: 32278320--32278367 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32278310 TCAAAGATGG
32278320 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
32278335 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
32278349 GTTTATGGATATAAA
1 GTTTATGGATATGAA
32278364 GTTT
1 GTTT
32278368 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:32278354 original size:14 final size:14
Alignment explanation
Indices: 32278314--32278357 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32278304 AAGGATTCAA
32278314 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
32278328 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
32278343 AGATGGGTTTATGG
1 AGATGGGTTTATGG
32278357 A
1 A
32278358 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:32278383 original size:29 final size:29
Alignment explanation
Indices: 32278314--32278373 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
32278304 AAGGATTCAA
*
32278314 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
32278343 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
32278372 AG
1 AG
32278374 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:32279390 original size:14 final size:14
Alignment explanation
Indices: 32279348--32279392 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
32279338 TTAAAGAAGC
32279348 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
32279362 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
32279375 AACTCATTTAATTA
1 AACTCATTAAATTA
32279389 AACT
1 AACT
32279393 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:32282907 original size:13 final size:12
Alignment explanation
Indices: 32282891--32282935 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
32282881 TCAGATTTTG
32282891 TTTTATTTTTCAA
1 TTTT-TTTTTCAA
*
32282904 TTTTTTTTTGAA
1 TTTTTTTTTCAA
*
32282916 TTTTTTTTTCGA
1 TTTTTTTTTCAA
32282928 TTTTTTTT
1 TTTTTTTT
32282936 GAAACTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:32282919 original size:19 final size:19
Alignment explanation
Indices: 32282876--32282919 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
32282866 ACTATGTTCA
32282876 AATTTTCAGATTTTGTTTT
1 AATTTTCAGATTTTGTTTT
* *
32282895 ATTTTTCA-ATTTTTTTTT
1 AATTTTCAGATTTTGTTTT
32282913 GAATTTT
1 -AATTTT
32282920 TTTTTCGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (19 bp):
AATTTTCAGATTTTGTTTT
Found at i:32284165 original size:14 final size:14
Alignment explanation
Indices: 32284123--32284167 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
32284113 TTAAAGAAGC
32284123 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
32284137 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
32284150 AACTCATTTAATTA
1 AACTCATTAAATTA
32284164 AACT
1 AACT
32284168 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:32288130 original size:13 final size:13
Alignment explanation
Indices: 32288112--32288136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32288102 TAACCTACAA
32288112 AATTAAATAACAT
1 AATTAAATAACAT
32288125 AATTAAATAACA
1 AATTAAATAACA
32288137 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:32290602 original size:17 final size:19
Alignment explanation
Indices: 32290572--32290612 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
32290562 TTGCCTCTCA
32290572 TTTCTTTTGATCTT-TT-T
1 TTTCTTTTGATCTTCTTCT
32290589 TTTCTTTTCG-TCTTCTTCT
1 TTTCTTTT-GATCTTCTTCT
32290608 TTTCT
1 TTTCT
32290613 CGCTTGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTCTTTTGATCTTCTTCT
Found at i:32292936 original size:10 final size:10
Alignment explanation
Indices: 32292903--32292951 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
32292893 AAAAAGGAAT
*
32292903 GAGCTGAAAC
1 GAGCTCAAAC
32292913 GAGCT-AAATTC
1 GAGCTCAAA--C
32292924 GAGCTCAAAC
1 GAGCTCAAAC
*
32292934 GAGCTAAAAC
1 GAGCTCAAAC
32292944 GAGCTCAA
1 GAGCTCAA
32292952 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:32292958 original size:20 final size:21
Alignment explanation
Indices: 32292903--32292951 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
32292893 AAAAAGGAAT
* *
32292903 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
32292924 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
32292944 GAGCTCAA
1 GAGCTCAA
32292952 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:32295862 original size:47 final size:48
Alignment explanation
Indices: 32295789--32296007 Score: 197
Period size: 47 Copynumber: 4.7 Consensus size: 48
32295779 TAAGGTGCCA
* * *
32295789 ATGCCTTGTCCCAGACATGGTTTTACACTAGCTCAT-ATCTCAAGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATCTCAAGTCG
* **
32295836 ATGCCATGTCCCAAACATGGTCTTACACTAACT-ATCATCTTGTAG-CTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATC-TCAAGTC-G
*
32295884 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTC-TCGTCTCAA-TACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATCTCAAGT--CG
* * * *** *
32295930 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCAT-CTCAAGTCG
32295978 ATG-CATGTCCCAAACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGC
32296008 CGACAATAAC
Statistics
Matches: 141, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.01
46 35 0.25
47 74 0.52
48 29 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCATCTCAAGTCG
Found at i:32295956 original size:94 final size:93
Alignment explanation
Indices: 32295795--32296007 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 93
32295785 GCCAATGCCT
* *
32295795 TGTCCCAGACATGGTTTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTCTT
1 TGTCCCAAACAT-GTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTCTT
** *
32295860 ACACTAACTATCATCTTGTAGCTGATGCA
65 ACACTAACTATCATAATGTAGCCGATGCA
* *
32295889 TGTCCCAAACATGTCTTACACTAGCTC-TCGTCTCAA-TACCGATGCCATGTCCCAGACATGGTC
1 TGTCCCAAACATGTCTTACACTAGCTCAT-ATCTCAAGT--CGATGCCATGTCCCAAACATGGTC
** * *
32295952 TTACACTGGCTCTCATAATGTGGCCGATGCA
63 TTACACTAACTATCATAATGTAGCCGATGCA
32295983 TGTCCCAAACATGTCTTACACTAGC
1 TGTCCCAAACATGTCTTACACTAGC
32296008 CGACAATAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
92 2 0.02
93 20 0.19
94 83 0.79
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (93 bp):
TGTCCCAAACATGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAAACATGGTCTTA
CACTAACTATCATAATGTAGCCGATGCA
Found at i:32304956 original size:14 final size:14
Alignment explanation
Indices: 32304937--32304967 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
32304927 CTATTTGAAC
32304937 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
32304951 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
32304965 CTT
1 CTT
32304968 CAACTATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (14 bp):
CTTTCTTAACCTTT
Found at i:32308154 original size:30 final size:30
Alignment explanation
Indices: 32308120--32308216 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
32308110 AGCTCACTCC
32308120 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
32308150 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
** *
32308180 CCGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
32308210 TAGCTCA
1 TAGCTCA
32308217 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:32309936 original size:12 final size:11
Alignment explanation
Indices: 32309919--32309962 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
32309909 AAGAAATTCG
*
32309919 AAAAAAAAATT
1 AAAAAAAAAAT
*
32309930 TAAAAAAAAAT
1 AAAAAAAAAAT
**
32309941 CGAAAAAAAAT
1 AAAAAAAAAAT
32309952 AAAAAAAAAAT
1 AAAAAAAAAAT
32309963 CGAAGTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:32309949 original size:22 final size:22
Alignment explanation
Indices: 32309920--32309966 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32309910 AGAAATTCGA
*
32309920 AAAAAAAATTTAAAAAAAAATCG
1 AAAAAAAA-TAAAAAAAAAATCG
32309943 AAAAAAAATAAAAAAAAAATCG
1 AAAAAAAATAAAAAAAAAATCG
32309965 AA
1 AA
32309967 GTATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAAAAAATAAAAAAAAAATCG
Found at i:32310917 original size:37 final size:37
Alignment explanation
Indices: 32310866--32310936 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
32310856 CATTCTTGTA
32310866 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
32310903 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
32310937 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:32310936 original size:6 final size:6
Alignment explanation
Indices: 32310876--32310925 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
32310866 AAGAGAAAAC
*
32310876 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
32310925 A
1 A
32310926 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:32313182 original size:30 final size:30
Alignment explanation
Indices: 32313148--32313244 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
32313138 AGCTCACTCC
32313148 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
32313178 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
32313208 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
32313238 TAGCTCA
1 TAGCTCA
32313245 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:32315039 original size:24 final size:24
Alignment explanation
Indices: 32315012--32315067 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
32315002 TCTTCTCACA
*
32315012 TTCTTTTTCGC-TCTCGATCTCTTT
1 TTCTTTTTC-CTTCTCGATCTCTAT
**
32315036 TTCTTTTTCCTTCTCTTTCTCTAT
1 TTCTTTTTCCTTCTCGATCTCTAT
32315060 TTCTTTTT
1 TTCTTTTT
32315068 TTTTCACACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.04, C:0.27, G:0.04, T:0.66
Consensus pattern (24 bp):
TTCTTTTTCCTTCTCGATCTCTAT
Found at i:32316298 original size:11 final size:10
Alignment explanation
Indices: 32316273--32316297 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32316263 CGAATTTTTC
32316273 TTTTTCAATT
1 TTTTTCAATT
32316283 TTTTTCAATT
1 TTTTTCAATT
32316293 TTTTT
1 TTTTT
32316298 TACAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCAATT
Found at i:32317827 original size:20 final size:21
Alignment explanation
Indices: 32317804--32317849 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
32317794 AGCTCCAACC
32317804 AGCTCACTTGAGCTTG-TTTT
1 AGCTCACTTGAGCTTGATTTT
**
32317824 AGCTCGTTTGAGCTTGATTTT
1 AGCTCACTTGAGCTTGATTTT
32317845 AGCTC
1 AGCTC
32317850 GTTTCAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (21 bp):
AGCTCACTTGAGCTTGATTTT
Found at i:32317846 original size:21 final size:20
Alignment explanation
Indices: 32317811--32317858 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
32317801 ACCAGCTCAC
32317811 TTGAGCTTGTTTTAGCTCGT
1 TTGAGCTTGTTTTAGCTCGT
32317831 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTTG-TTTTAGCTCGT
*
32317852 TTCAGCT
1 TTGAGCT
32317859 CATTTCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.48
Consensus pattern (20 bp):
TTGAGCTTGTTTTAGCTCGT
Found at i:32319055 original size:20 final size:19
Alignment explanation
Indices: 32319030--32319069 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32319020 CTTATCACTA
*
32319030 CCCTTTACATTTCTTTGAAC
1 CCCTTT-CATTTATTTGAAC
*
32319050 CCCTTTCGTTTATTTGAAC
1 CCCTTTCATTTATTTGAAC
32319069 C
1 C
32319070 TATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (19 bp):
CCCTTTCATTTATTTGAAC
Found at i:32319871 original size:27 final size:26
Alignment explanation
Indices: 32319820--32319872 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
32319810 ATGCATTCAG
*
32319820 CTAGGACACATTAAAACAAGTAATAA
1 CTAGGACACATTAAAACAAATAATAA
* *
32319846 CTAGGACATATTGAACACAAATAATAA
1 CTAGGACACATT-AAAACAAATAATAA
32319873 ATTAAGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.53, C:0.15, G:0.11, T:0.21
Consensus pattern (26 bp):
CTAGGACACATTAAAACAAATAATAA
Found at i:32324008 original size:12 final size:13
Alignment explanation
Indices: 32323991--32324018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32323981 AGGAAATTTG
32323991 AAAAAAAAATTCA
1 AAAAAAAAATTCA
32324004 AAAAAAAAATTCA
1 AAAAAAAAATTCA
32324017 AA
1 AA
32324019 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:32327691 original size:12 final size:12
Alignment explanation
Indices: 32327638--32327691 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
32327628 ACGGTATTGT
32327638 AAAAAAA-T-AA
1 AAAAAAATTCAA
*
32327648 AAAAAAACTTGAA
1 AAAAAAA-TTCAA
*
32327661 AAAAAAATTCGA
1 AAAAAAATTCAA
32327673 AAAAAAATTCAA
1 AAAAAAATTCAA
32327685 AAAAAAA
1 AAAAAAA
32327692 GTTTGTATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 7 0.18
12 22 0.58
13 9 0.24
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:32327782 original size:27 final size:28
Alignment explanation
Indices: 32327735--32327806 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
32327725 TAGTATTGAA
32327735 GAAAAAAGAAGAAGAAGAAAAAATTC-AGAATT
1 GAAAAAA-AA-AAGAA-AAAAAA-TCGA-AATT
32327767 -AAAAAAAAAAGAAAAAAAATCGAAATT
1 GAAAAAAAAAAGAAAAAAAATCGAAATT
32327794 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
32327807 GTGATTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 6 0.16
28 19 0.50
29 5 0.13
30 2 0.05
31 6 0.16
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.10
Consensus pattern (28 bp):
GAAAAAAAAAAGAAAAAAAATCGAAATT
Found at i:32328714 original size:17 final size:15
Alignment explanation
Indices: 32328694--32328732 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
32328684 GCGAACGAGA
32328694 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
32328711 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
32328726 AAGATGA
1 AA-ATGA
32328733 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:32340615 original size:19 final size:19
Alignment explanation
Indices: 32340591--32340630 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32340581 AGCTCCCATG
32340591 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
32340610 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
32340629 TA
1 TA
32340631 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:32341906 original size:14 final size:14
Alignment explanation
Indices: 32341883--32341926 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32341873 TTGTTCATAT
*
32341883 CCTTTTATTCCTAC
1 CCTTTCATTCCTAC
32341897 CCTTTCATTCCTAC
1 CCTTTCATTCCTAC
* * *
32341911 CATTCCATTCGTAC
1 CCTTTCATTCCTAC
32341925 CC
1 CC
32341927 CTCTTTCTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.41, G:0.02, T:0.41
Consensus pattern (14 bp):
CCTTTCATTCCTAC
Found at i:32343455 original size:10 final size:10
Alignment explanation
Indices: 32343439--32343496 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32343429 CAACTCCGAC
32343439 CAGCTCAATT
1 CAGCTCAATT
* *
32343449 GAGCTCATTT
1 CAGCTCAATT
32343459 CAGCTCAA-T
1 CAGCTCAATT
32343468 CGAGCTCAATT
1 C-AGCTCAATT
*
32343479 TAGCTACAATT
1 CAGCT-CAATT
32343490 CAGCTCA
1 CAGCTCA
32343497 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32343462 original size:20 final size:20
Alignment explanation
Indices: 32343439--32343499 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32343429 CAACTCCGAC
32343439 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32343459 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32343480 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32343500 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32345067 original size:14 final size:14
Alignment explanation
Indices: 32345048--32345095 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
32345038 CAATCCATTG
32345048 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
* *
32345062 AAAGAGCAAAATAA
1 AAAGAGAAAAAGAA
32345076 AAAGA-ATGAAAAGAA
1 AAAGAGA--AAAAGAA
32345091 AAAGA
1 AAAGA
32345096 ATGGAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:32345087 original size:15 final size:16
Alignment explanation
Indices: 32345055--32345103 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
32345045 TTGAAAGAGA
*
32345055 AAAAGAAAAAG-A-GC
1 AAAAGAAAAAGAATGG
*
32345069 AAAATAAAAAGAAT-G
1 AAAAGAAAAAGAATGG
32345084 AAAAGAAAAAGAATGG
1 AAAAGAAAAAGAATGG
32345100 AAAA
1 AAAA
32345104 AGTGAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAATGG
Found at i:32345649 original size:13 final size:13
Alignment explanation
Indices: 32345617--32345689 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
32345607 TTGGAGTAAC
32345617 AAAAAAAA-TC-A
1 AAAAAAAATTCGA
32345628 AAAAAAAATTCGA
1 AAAAAAAATTCGA
*
32345641 AAAAAAAATTTGA
1 AAAAAAAATTCGA
*
32345654 TTAAAACAAAATTTCAA
1 --AAAA-AAAA-TTCGA
*
32345671 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
32345683 AAAAAAA
1 AAAAAAA
32345690 TCGAGCAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
11 8 0.16
12 10 0.20
13 14 0.27
14 4 0.08
15 8 0.16
16 4 0.08
17 3 0.06
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:32345731 original size:16 final size:16
Alignment explanation
Indices: 32345692--32345735 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
32345682 AAAAAAAATC
32345692 GAGCAAAAAAAAAGAA
1 GAGCAAAAAAAAAGAA
* * **
32345708 AAGAAAAAAAAAAGGT
1 GAGCAAAAAAAAAGAA
32345724 GAGCAAAAAAAA
1 GAGCAAAAAAAA
32345736 TCAAGTTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (16 bp):
GAGCAAAAAAAAAGAA
Found at i:32346254 original size:10 final size:10
Alignment explanation
Indices: 32346238--32346295 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32346228 CAACTCCGAC
32346238 CAGCTCAATT
1 CAGCTCAATT
* *
32346248 GAGCTCATTT
1 CAGCTCAATT
32346258 CAGCTCAA-T
1 CAGCTCAATT
32346267 CGAGCTCAATT
1 C-AGCTCAATT
*
32346278 TAGCTACAATT
1 CAGCT-CAATT
32346289 CAGCTCA
1 CAGCTCA
32346296 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32346261 original size:20 final size:20
Alignment explanation
Indices: 32346238--32346298 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32346228 CAACTCCGAC
32346238 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32346258 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32346279 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32346299 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32347677 original size:11 final size:12
Alignment explanation
Indices: 32347651--32347676 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32347641 AAAAGAGAAG
32347651 AAATTCAAAAAA
1 AAATTCAAAAAA
32347663 AAATTCAAAAAA
1 AAATTCAAAAAA
32347675 AA
1 AA
32347677 TCGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:32348771 original size:11 final size:12
Alignment explanation
Indices: 32348755--32348785 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32348745 AAAGAAATTG
32348755 AAAGAAAAC-AA
1 AAAGAAAACAAA
32348766 AAAGAAAACAAA
1 AAAGAAAACAAA
32348778 AAAGAAAA
1 AAAGAAAA
32348786 AGAAATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAGAAAACAAA
Found at i:32348785 original size:18 final size:18
Alignment explanation
Indices: 32348759--32348814 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
32348749 AAATTGAAAG
* *
32348759 AAAACAAAAAGAAAACAA
1 AAAAGAAAAAGAAATCAA
***
32348777 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCAA
32348795 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAATCAA
32348813 AA
1 AA
32348815 TAGTGAGAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.77, C:0.07, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCAA
Found at i:32348868 original size:18 final size:18
Alignment explanation
Indices: 32348847--32348881 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32348837 AGAAAAGAAA
32348847 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
32348865 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
32348882 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:32350959 original size:10 final size:10
Alignment explanation
Indices: 32350943--32351000 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32350933 CAACTCCGAC
32350943 CAGCTCAATT
1 CAGCTCAATT
* *
32350953 GAGCTCATTT
1 CAGCTCAATT
32350963 CAGCTCAA-T
1 CAGCTCAATT
32350972 CGAGCTCAATT
1 C-AGCTCAATT
*
32350983 TAGCTACAATT
1 CAGCT-CAATT
32350994 CAGCTCA
1 CAGCTCA
32351001 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32350966 original size:20 final size:20
Alignment explanation
Indices: 32350943--32351003 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32350933 CAACTCCGAC
32350943 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32350963 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32350984 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32351004 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32352570 original size:14 final size:14
Alignment explanation
Indices: 32352551--32352598 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
32352541 CAATCCATTG
32352551 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
* *
32352565 AAAGAGCAAAATAA
1 AAAGAGAAAAAGAA
32352579 AAAGA-ATGAAAAGAA
1 AAAGAGA--AAAAGAA
32352594 AAAGA
1 AAAGA
32352599 ATGGAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:32352590 original size:15 final size:16
Alignment explanation
Indices: 32352558--32352606 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
32352548 TTGAAAGAGA
*
32352558 AAAAGAAAAAG-A-GC
1 AAAAGAAAAAGAATGG
*
32352572 AAAATAAAAAGAAT-G
1 AAAAGAAAAAGAATGG
32352587 AAAAGAAAAAGAATGG
1 AAAAGAAAAAGAATGG
32352603 AAAA
1 AAAA
32352607 AGTGAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAATGG
Found at i:32354798 original size:66 final size:66
Alignment explanation
Indices: 32354671--32354798 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
32354661 TACTATGTGT
* ** * *
32354671 ACACCATGTAGACAAGAGAGCTACGGGATAATGTAGCTAGGTCGCATGAGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAACTAGCTAGGTCACATGAGTGGTACCAAGTGAAG
32354736 G
66 G
* * *
32354737 ACACCATGTAGACAAGAGAGCTACGAGATAAACTGGCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAACTAGCTAGGTCACATGAGTGGTACCAAGTG
32354799 TTCACCATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAACTAGCTAGGTCACATGAGTGGTACCAAGTGAAG
G
Found at i:32359965 original size:14 final size:14
Alignment explanation
Indices: 32359918--32359965 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32359908 GTACGAATGG
*
32359918 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
32359932 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
32359946 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
32359960 ATTGGT
1 AATGGT
32359966 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:32364660 original size:13 final size:13
Alignment explanation
Indices: 32364642--32364670 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
32364632 AATAGTTGTG
32364642 TGTTATTTAATTA
1 TGTTATTTAATTA
32364655 TGTTATTTAATTA
1 TGTTATTTAATTA
32364668 TGT
1 TGT
32364671 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:32366245 original size:14 final size:14
Alignment explanation
Indices: 32366226--32366252 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32366216 GAGTGAACTT
32366226 GTGAGGATTTTGTA
1 GTGAGGATTTTGTA
32366240 GTGAGGATTTTGT
1 GTGAGGATTTTGT
32366253 GTCTATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GTGAGGATTTTGTA
Found at i:32366769 original size:17 final size:17
Alignment explanation
Indices: 32366733--32366779 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
32366723 AAAGCAAGCG
*
32366733 AGAAAAGAAGAAGATGAAA
1 AGAAAA-AAG-AGATCAAA
32366752 AGAAAAAAGAGATCAAA
1 AGAAAAAAGAGATCAAA
*
32366769 AGAAAAGAGAG
1 AGAAAAAAGAG
32366780 GCAAGAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 17 0.65
18 3 0.12
19 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.26, T:0.04
Consensus pattern (17 bp):
AGAAAAAAGAGATCAAA
Found at i:32366858 original size:19 final size:20
Alignment explanation
Indices: 32366826--32366866 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
32366816 GAATGAAATC
32366826 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
32366846 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
32366865 GA
1 GA
32366867 AATTGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:32369218 original size:21 final size:22
Alignment explanation
Indices: 32369174--32369218 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
32369164 ATGTGTTCAA
*
32369174 ATTTAGTTAATGATATTAAGTT
1 ATTTAGTTAATGATATTAAATT
* *
32369196 ATTTAGTT-ATTATTTTAAATT
1 ATTTAGTTAATGATATTAAATT
32369217 AT
1 AT
32369219 AATTATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (22 bp):
ATTTAGTTAATGATATTAAATT
Found at i:32369256 original size:13 final size:13
Alignment explanation
Indices: 32369238--32369266 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
32369228 AATAGTTGTG
32369238 TGTTATTTAATTA
1 TGTTATTTAATTA
32369251 TGTTATTTAATTA
1 TGTTATTTAATTA
32369264 TGT
1 TGT
32369267 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:32374108 original size:17 final size:19
Alignment explanation
Indices: 32374088--32374127 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
32374078 TTGTACACTT
32374088 TCTC-TTCTTTATTT-TTC
1 TCTCTTTCTTTATTTCTTC
32374105 TCTCTTTCTTTATTTCTTC
1 TCTCTTTCTTTATTTCTTC
32374124 TCTC
1 TCTC
32374128 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTCTTTCTTTATTTCTTC
Found at i:32377268 original size:22 final size:22
Alignment explanation
Indices: 32377218--32377268 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
32377208 CCTCGTCTTT
*
32377218 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
32377240 -TCATTTTCTTTCTTTCTTC-AAC
1 TTC-TTTTCTTTCTTT-TTCTAAC
32377262 TTCTTTT
1 TTCTTTT
32377269 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:32382539 original size:25 final size:25
Alignment explanation
Indices: 32382511--32382564 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
32382501 AGTATAAAAC
32382511 TAAAACTTAGTTTAATTTATTCAAA
1 TAAAACTTAGTTTAATTTATTCAAA
*
32382536 TAAAACTTAGTTTAATTTATTGAAA
1 TAAAACTTAGTTTAATTTATTCAAA
32382561 TAAA
1 TAAA
32382565 GAACGAGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (25 bp):
TAAAACTTAGTTTAATTTATTCAAA
Found at i:32382612 original size:20 final size:20
Alignment explanation
Indices: 32382589--32382634 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
32382579 TAAGCTCGGT
32382589 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
32382609 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
32382629 TGAGCT
1 TGAGCT
32382635 GGACGGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:32382635 original size:10 final size:10
Alignment explanation
Indices: 32382589--32382635 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
32382579 TAAGCTCGGT
*
32382589 TGAGCTCAAA
1 TGAGCTGAAA
*
32382599 CGAGCTGAAA
1 TGAGCTGAAA
*
32382609 TGAGCTCAAA
1 TGAGCTGAAA
*
32382619 TGAGCTGAAT
1 TGAGCTGAAA
32382629 TGAGCTG
1 TGAGCTG
32382636 GACGGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:32384774 original size:15 final size:15
Alignment explanation
Indices: 32384754--32384796 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
32384744 TTTTCTTGCC
*
32384754 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
*
32384769 TCTCTTTTTTTTTCA
1 TCTCTTTTCTTTTCA
32384784 TCT-TTTTCTTTTC
1 TCTCTTTTCTTTTC
32384797 TCGTTTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:32386971 original size:19 final size:19
Alignment explanation
Indices: 32386947--32386986 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32386937 AGCTCCCATG
32386947 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
32386966 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
32386985 TA
1 TA
32386987 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:32393183 original size:17 final size:18
Alignment explanation
Indices: 32393161--32393201 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
32393151 CATTTCTTTT
32393161 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
32393178 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
32393196 T-TTTTG
1 TCTTTTG
32393202 TTTTCTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:32395464 original size:23 final size:22
Alignment explanation
Indices: 32395434--32395486 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
32395424 AGACCGTATG
32395434 CAATTTTTTTTTCAAATTTTTTT
1 CAATTTTTTTTTC-AATTTTTTT
*
32395457 CAATTTTTTTTTCGATTTTTTT
1 CAATTTTTTTTTCAATTTTTTT
*
32395479 -GATTTTTT
1 CAATTTTTT
32395487 GAATCTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 13 0.46
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.72
Consensus pattern (22 bp):
CAATTTTTTTTTCAATTTTTTT
Found at i:32395467 original size:11 final size:11
Alignment explanation
Indices: 32395438--32395478 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
32395428 CGTATGCAAT
32395438 TTTTTTTTCAA
1 TTTTTTTTCAA
*
32395449 ATTTTTTTCAA
1 TTTTTTTTCAA
*
32395460 TTTTTTTTTCGA
1 -TTTTTTTTCAA
32395472 TTTTTTT
1 TTTTTTT
32395479 GATTTTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:32395486 original size:11 final size:12
Alignment explanation
Indices: 32395434--32395478 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
32395424 AGACCGTATG
32395434 CAATTTTTTTTT
1 CAATTTTTTTTT
*
32395446 CAA-ATTTTTTT
1 CAATTTTTTTTT
32395457 CAATTTTTTTTT
1 CAATTTTTTTTT
*
32395469 CGATTTTTTT
1 CAATTTTTTT
32395479 GATTTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:32397840 original size:44 final size:42
Alignment explanation
Indices: 32397771--32397853 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 42
32397761 AACTTTCAGT
*
32397771 GGAACAAGCGAGAGAAAAAGAAAAAATGCAAAGAGAAAATTAA
1 GGAACAAGAGAGAGAAAAAGAAAAAATGC-AAGAGAAAATTAA
* *
32397814 GGAA-AAGAGAGAGAGAAAGACTAAAAATGCGAGAGAAAAT
1 GGAACAAGAGAGAGAAAAAGA--AAAAATGCAAGAGAAAAT
32397854 GAAAAGAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 14 0.40
43 13 0.37
44 8 0.23
ACGTcount: A:0.60, C:0.06, G:0.27, T:0.07
Consensus pattern (42 bp):
GGAACAAGAGAGAGAAAAAGAAAAAATGCAAGAGAAAATTAA
Found at i:32402012 original size:40 final size:40
Alignment explanation
Indices: 32401928--32402111 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
32401918 TTGAATGCTG
* * * *
32401928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
32401967 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
32402008 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
32402048 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
32402088 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32402112 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:32402065 original size:80 final size:81
Alignment explanation
Indices: 32401928--32402108 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
32401918 TTGAATGCTG
* * *
32401928 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
32401992 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
32402008 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
32402069 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
32402088 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
32402109 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:32402132 original size:39 final size:38
Alignment explanation
Indices: 32402009--32402158 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
32401999 GTTATTAATT
* ** * *
32402009 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
32402049 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
32402088 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
32402128 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
32402159 GAGCTAAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:32406425 original size:29 final size:29
Alignment explanation
Indices: 32406359--32406415 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32406349 GATTCAAAGA
*
32406359 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
32406388 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
32406416 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:32418910 original size:29 final size:29
Alignment explanation
Indices: 32418877--32418933 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32418867 ATAACCAAAC
*
32418877 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
32418906 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
32418934 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:32419165 original size:10 final size:10
Alignment explanation
Indices: 32419150--32419177 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32419140 AAGTAAGTTT
32419150 AAAAAAATGA
1 AAAAAAATGA
32419160 AAAAAAATGA
1 AAAAAAATGA
32419170 AAAAAAAT
1 AAAAAAAT
32419178 TCAAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAAAAATGA
Done.