Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 46 of 255
Found at i:12592668 original size:30 final size:30
Alignment explanation
Indices: 12592611--12592668 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12592601 TTTTCGAGCT
* **
12592611 TAGGGGCAAAATGGTTATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
12592641 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
12592669 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:12593176 original size:94 final size:96
Alignment explanation
Indices: 12593006--12593369 Score: 387
Period size: 94 Copynumber: 3.9 Consensus size: 96
12592996 GGTGAATTGT
* * *
12593006 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGCGT-CTATGAGAGCCAATATAAGACC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-ACGCGTACTATGAGAGCCAGTGTAAGACC
*
12593070 ATGTCTGGGACATGGCATCGGCATCCAGACGA
65 ATGTCTGGGACATGGCATCGGCATCAAGACGA
* * * * * * *
12593102 GGGCTAGTGCAAGACATGTCCGGGACATGCATCAG-C-CATACTATGATAGCCAGTGTAACACAA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGACGCGTACTATGAGAGCCAGTGTAAGACCA
12593165 TGTCTGGGACATGGCATCGGCA-CAGAGACGA
66 TGTCTGGGACATGGCATCGGCATCA-AGACGA
* * * * *
12593196 GTGCCAGTGTAAAACATGTCTGGGACATGCATCTGCCTCG-AC-A-GAGATAGCCAGTGTAAGA-
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGACGCGTACTATGAG--AGCCAGTGTAAGAC
* *
12593257 CGTGTCTGGGACA-CGCATCGGC-T-AAGA-GTTA
64 CATGTCTGGGACATGGCATCGGCATCAAGACG--A
* *
12593288 -TGCTAGTGTAAGACATGTCTAGGACATACATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-ACGCGTACTATGAGAGCCAGTGTAAGACC
12593351 ATGTCTGGGACATGGCATC
65 ATGTCTGGGACATGGCATC
12593370 AGCAATATAT
Statistics
Matches: 221, Mismatches: 32, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
90 1 0.00
91 32 0.14
92 18 0.08
93 27 0.12
94 96 0.43
95 15 0.07
96 32 0.14
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (96 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGACGCGTACTATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCATCAAGACGA
Found at i:12593215 original size:47 final size:45
Alignment explanation
Indices: 12593006--12593369 Score: 234
Period size: 47 Copynumber: 7.7 Consensus size: 45
12592996 GGTGAATTGT
* *
12593006 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGCGTCTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAG---ATGA
* * * * *
12593054 GAGCCAATATAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CGAGATGA
* * * * * * *
12593102 GGGCTAGTGCAAGACATGTCCGGGACATGCATCAGC-CATACTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-GA-GATGA
* *
12593148 -TAGCCAGTGTAACACAATGTCTGGGACATGGCATCGGCACAGAGACGA
1 GT-GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCAC-GAGATGA
* * * *
12593196 GTGCCAGTGTAAAACATGTCTGGGACATGCATCTGCCTCGACA-GA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCACGAGATGA
* * * *
12593241 GATAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAG-TTA
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAGATGA
* * * * *
12593288 -TGCTAGTGTAAGACATGTCTAGGACATACATCAGCACGCGTATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CG-AGATGA
*
12593335 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
12593370 AGCAATATAT
Statistics
Matches: 243, Mismatches: 51, Indels: 42
0.72 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 6 0.02
46 32 0.13
47 74 0.30
48 55 0.23
49 31 0.13
50 13 0.05
51 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGA
Found at i:12600799 original size:94 final size:94
Alignment explanation
Indices: 12600613--12600974 Score: 348
Period size: 94 Copynumber: 3.8 Consensus size: 94
12600603 TGATTTGTGT
* *
12600613 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTATATGAGAGCCAGTATAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATAC---TATGAGAGCCAGTGTAAGACCAT
* * *
12600677 GTCTGGGACATGGCATCGACTTC-CAGACGAAG
63 GTCTGGGACATGGCATCGGCTACAGAGACG-AG
* * * *
12600709 GCTAGTGTAAGACATGTCCGGGACATGCATCAGCCATACTATGATAGCCAGTGTAACACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
12600774 TGGGACATGGCATCGGC-ACAGAGACGAG
66 TGGGACATGGCATCGGCTACAGAGACGAG
* * * * *
12600802 TGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCTTGAC-A-GAGATAGCCAGTGTAAGA-CG
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTATGAG--AGCCAGTGTAAGACCA
* * * ** *
12600864 TGTCTAGAACA-CGCATCGGCTA-AGAGTTG-T
62 TGTCTGGGACATGGCATCGGCTACAGAGACGAG
* * *
12600894 GCTAGTGCAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCAT
12600958 GTCTGGGACATGGCATC
63 GTCTGGGACATGGCATC
12600975 AGCAATATAT
Statistics
Matches: 218, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
91 29 0.13
92 12 0.06
93 31 0.14
94 96 0.44
95 14 0.06
96 32 0.15
97 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCTACAGAGACGAG
Found at i:12600820 original size:47 final size:45
Alignment explanation
Indices: 12600611--12600930 Score: 159
Period size: 47 Copynumber: 6.9 Consensus size: 45
12600601 GGTGATTTGT
* * * * *
12600611 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCGTATATGA
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCA--CG-AGACGA
* * * * * *
12600659 GAGCCAGTATAAGACCATGTCTGGGACATGGCATCGACTTCCAGACGAA
1 GTGCCAGTGTAA-AACATGTCTGGGACAT-GCATCGGC-ACGAGACG-A
* * * * * *
12600708 G-GCTAGTGTAAGACATGTCCGGGACATGCATCAGC-C-ATACTA
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCACGAGACGA
*
12600750 TGATAGCCAGTGTAACACAATGTCTGGGACATGGCATCGGCACAGAGACGA
1 -G-T-GCCAGTGTAAAAC-ATGTCTGGGACAT-GCATCGGCAC-GAGACGA
**
12600801 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGC-CTTGACAGA
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCACGAGAC-GA
* * * * * *
12600846 GATAGCCAGTGTAAGACGTGTCTAGAACACGCATCGGCTA--AGA-GTT
1 G-T-GCCAGTGTAAAACATGTCTGGGACATGCATCGGC-ACGAGACG-A
* * * *
12600892 GTGCTAGTGCAAGACATGTCTGGGACATGCATCAGCACG
1 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCACG
12600931 CGTATATGAG
Statistics
Matches: 208, Mismatches: 43, Indels: 45
0.70 0.15 0.15
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 31 0.15
45 6 0.03
46 27 0.13
47 69 0.33
48 39 0.19
49 19 0.09
50 7 0.03
51 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (45 bp):
GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCACGAGACGA
Found at i:12606720 original size:90 final size:91
Alignment explanation
Indices: 12606598--12606838 Score: 396
Period size: 90 Copynumber: 2.7 Consensus size: 91
12606588 TGCTAATAAC
* * * *
12606598 TATGTTTCTTAAATAAGCGGGTACTTAGTTGTGCCGTGGATGGTGATTTGATATTTGTTTTG-TT
1 TATGTTTCTTAAATAAACGGGCACTTAATTGTGCCTTGGATGGTGATTTGATATTTGTTTTGTTT
12606662 TAAGGAGTGGAATTAATTATAATTTT
66 TAAGGAGTGGAATTAATTATAATTTT
*
12606688 TATGTTTCTTAAATAAATGGGCACTTAATTGTG-CTTGGATGGTGATTTGATATTTGTTTTGTTT
1 TATGTTTCTTAAATAAACGGGCACTTAATTGTGCCTTGGATGGTGATTTGATATTTGTTTTGTTT
* *
12606752 TAAGGTGTGGAATTAATTGTAATTTT
66 TAAGGAGTGGAATTAATTATAATTTT
*
12606778 TATGTTTCTTAAATAAACCGGCACTTAATTGTGCCTTGGATGGTGATTTGATATTTGTTTT
1 TATGTTTCTTAAATAAACGGGCACTTAATTGTGCCTTGGATGGTGATTTGATATTTGTTTT
12606839 TTCCCTTAAT
Statistics
Matches: 140, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 27 0.19
90 86 0.61
91 27 0.19
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (91 bp):
TATGTTTCTTAAATAAACGGGCACTTAATTGTGCCTTGGATGGTGATTTGATATTTGTTTTGTTT
TAAGGAGTGGAATTAATTATAATTTT
Found at i:12608226 original size:39 final size:40
Alignment explanation
Indices: 12608143--12608254 Score: 124
Period size: 39 Copynumber: 2.8 Consensus size: 40
12608133 CTTTAGTGGC
12608143 TTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTA
1 TTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTA
* * *
12608183 -TTAGCAGCGCTTTTTAAAAACGCCGCTGTATG-TAC-A-TA
1 TTTAGCGGCGCTTTTTAAAAACGCCGCT-AAAGAT-CGAGTA
* *
12608221 TTTAGCGGCGTTTTTTAGAAAATGCCGCTAAAGA
1 TTTAGCGGCGCTTTTTA-AAAACGCCGCTAAAGA
12608255 ATTTTGCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
38 2 0.03
39 44 0.75
40 13 0.22
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTA
Found at i:12608546 original size:21 final size:21
Alignment explanation
Indices: 12608500--12608551 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
12608490 TTAATTATCA
* *
12608500 TTATAGTTTAGGGTTTACAGT
1 TTATGGTTAAGGGTTTACAGT
*
12608521 ATATGGTTAAGGGTTTA-ATGT
1 TTATGGTTAAGGGTTTACA-GT
12608542 TTATGAGTTA
1 TTATG-GTTA
12608552 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTACAGT
Found at i:12608581 original size:15 final size:14
Alignment explanation
Indices: 12608561--12608595 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12608551 ACTATTTTAA
*
12608561 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
12608575 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
12608590 GGTTTA
1 GGTTTA
12608596 AAGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:12608636 original size:21 final size:21
Alignment explanation
Indices: 12608612--12608662 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
12608602 GTTTAATGGT
12608612 TAGGGTTTAAGGGTTAGGTGC
1 TAGGGTTTAAGGGTTAGGTGC
*
12608633 TAGGGTTTAAGGGTTAGGTGT
1 TAGGGTTTAAGGGTTAGGTGC
12608654 TAGGGTTTA
1 TAGGGTTTA
12608663 GGATTTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.37
Consensus pattern (21 bp):
TAGGGTTTAAGGGTTAGGTGC
Found at i:12608676 original size:14 final size:14
Alignment explanation
Indices: 12608657--12608697 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
12608647 TAGGTGTTAG
12608657 GGTTTAGGATTTAT
1 GGTTTAGGATTTAT
* *
12608671 GTTTTAAGATTTAT
1 GGTTTAGGATTTAT
*
12608685 GGTTTAGGGTTTA
1 GGTTTAGGATTTA
12608698 AGAATTTGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
GGTTTAGGATTTAT
Found at i:12609214 original size:14 final size:14
Alignment explanation
Indices: 12609197--12609223 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12609187 TTGGGGTTTA
12609197 GGGGTTTAAGGGTT
1 GGGGTTTAAGGGTT
12609211 GGGGTTTAAGGGT
1 GGGGTTTAAGGGT
12609224 AAATATAGTG
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:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (14 bp):
GGGGTTTAAGGGTT
Found at i:12609426 original size:25 final size:23
Alignment explanation
Indices: 12609383--12609434 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
12609373 ACATCATTTT
*
12609383 ATATTTATATATTGCATATATAA
1 ATATTTATATATTGCATATAAAA
12609406 ATATTTATATTTATT-CAATATAAAA
1 ATATTTATA--TATTGC-ATATAAAA
12609431 ATAT
1 ATAT
12609435 ATTGATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 1 0.04
25 15 0.60
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATTTATATATTGCATATAAAA
Found at i:12611726 original size:20 final size:20
Alignment explanation
Indices: 12611701--12611742 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12611691 GTACTACATT
12611701 TTTCAGTCAAGTTTGTTTCA
1 TTTCAGTCAAGTTTGTTTCA
12611721 TTTCAGTCAAGTTTGTTTCA
1 TTTCAGTCAAGTTTGTTTCA
12611741 TT
1 TT
12611743 CCCAACCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTCAGTCAAGTTTGTTTCA
Found at i:12613495 original size:24 final size:24
Alignment explanation
Indices: 12613467--12613517 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
12613457 TTCAAAAATT
12613467 TAACATAATATT-AATTAAAATAAA
1 TAACA-AATATTAAATTAAAATAAA
12613491 TAACAAATATTAAATTAAAATAAA
1 TAACAAATATTAAATTAAAATAAA
12613515 TAA
1 TAA
12613518 TATTAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TAACAAATATTAAATTAAAATAAA
Found at i:12613536 original size:20 final size:20
Alignment explanation
Indices: 12613486--12613537 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
12613476 ATTAATTAAA
* **
12613486 ATAAATAACAAATATTAAATT
1 ATAAATAA-TAATATTAAAGC
12613507 A-AAATAAATAATATTAAAGC
1 ATAAAT-AATAATATTAAAGC
12613527 ATAAATAATAA
1 ATAAATAATAA
12613538 ATAATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAATAATAATATTAAAGC
Found at i:12613538 original size:14 final size:14
Alignment explanation
Indices: 12613516--12613562 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12613506 TAAAATAAAT
*
12613516 AATATTAAAGCATA
1 AATATTAAAGAATA
* *
12613530 AATAATAAATAATA
1 AATATTAAAGAATA
*
12613544 AATATTAAAGTAT-
1 AATATTAAAGAATA
12613557 AATATT
1 AATATT
12613563 TATCATAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (14 bp):
AATATTAAAGAATA
Found at i:12613790 original size:43 final size:42
Alignment explanation
Indices: 12613676--12613808 Score: 124
Period size: 43 Copynumber: 3.1 Consensus size: 42
12613666 TATAGCAGCG
** * * *
12613676 TTTGTGGAAAAAGCACCGCTAAAAATTATAATTTTTAACGGCT
1 TTTGTGGGCAAAGCACCGCTAAAAGTCAT-GTTTTTAACGGCT
* *
12613719 TTTGTGGGCAAAGCACTGCTAAAAGTCATGGTTTTTATCGGCT
1 TTTGTGGGCAAAGCACCGCTAAAAGTCAT-GTTTTTAACGGCT
* * *
12613762 TTTGTGAGG-AAAGCGCCGCTAAATGTCATGTTCTTTAGCGGCAT
1 TTTGTG-GGCAAAGCACCGCTAAAAGTCATGTT-TTTAACGGC-T
12613806 TTT
1 TTT
12613809 TTGCAGCGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.04
43 66 0.88
44 6 0.08
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (42 bp):
TTTGTGGGCAAAGCACCGCTAAAAGTCATGTTTTTAACGGCT
Found at i:12625034 original size:36 final size:36
Alignment explanation
Indices: 12624994--12625067 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
12624984 AGTATTGAAT
*
12624994 TTGATTTATAAATTTTGCTTGATACATTATTTAAAA
1 TTGATTTATAAACTTTGCTTGATACATTATTTAAAA
* * *
12625030 TTGATTTATAAACTTTGTTTGTTATATTATTTAAAA
1 TTGATTTATAAACTTTGCTTGATACATTATTTAAAA
12625066 TT
1 TT
12625068 AAGTATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (36 bp):
TTGATTTATAAACTTTGCTTGATACATTATTTAAAA
Found at i:12627353 original size:37 final size:37
Alignment explanation
Indices: 12627269--12627390 Score: 111
Period size: 37 Copynumber: 3.2 Consensus size: 37
12627259 TTTCTTGTAC
* * * * *
12627269 CAATATATCAAAGATAATCACATATTTACATGTCACTTTT
1 CAATATATCAAATA-AAT-ATA-ATTTCCATATCACGTTT
* *
12627309 TAATATATTAAATAAATATAATTTCCATATCACGTTT
1 CAATATATCAAATAAATATAATTTCCATATCACGTTT
* * *
12627346 CAATATATCAAGTAAATATCATTTCCA-AGACACGTTT
1 CAATATATCAAATAAATATAATTTCCATA-TCACGTTT
12627383 CAATATAT
1 CAATATAT
12627391 ATATACCGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
36 1 0.01
37 52 0.75
38 2 0.03
39 3 0.04
40 11 0.16
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (37 bp):
CAATATATCAAATAAATATAATTTCCATATCACGTTT
Found at i:12635762 original size:7 final size:7
Alignment explanation
Indices: 12635750--12635775 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12635740 TAGTCGTTTC
12635750 GTATTTA
1 GTATTTA
12635757 GTATTTA
1 GTATTTA
12635764 GTATTTA
1 GTATTTA
12635771 GTATT
1 GTATT
12635776 ACCTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:12636338 original size:30 final size:30
Alignment explanation
Indices: 12636273--12636339 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
12636263 ATGATAATGT
* * * *
12636273 GGGCCCATTAGCAGTGCCCACACAATCACC
1 GGGCCCATCAACAGCGCCCACACAACCACC
*
12636303 GGGCCCATCAACAGCGCCCACACAGCCACC
1 GGGCCCATCAACAGCGCCCACACAACCACC
*
12636333 TGGCCCA
1 GGGCCCA
12636340 ACACTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.45, G:0.21, T:0.09
Consensus pattern (30 bp):
GGGCCCATCAACAGCGCCCACACAACCACC
Found at i:12636417 original size:18 final size:18
Alignment explanation
Indices: 12636394--12636435 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
12636384 GCTAGATGCA
*
12636394 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
12636412 TATCCTAACCCTTTTATG
1 TATCCTAACCCTTATATG
*
12636430 TTTCCT
1 TATCCT
12636436 TTTCCTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:12637165 original size:128 final size:130
Alignment explanation
Indices: 12636844--12637343 Score: 739
Period size: 128 Copynumber: 3.9 Consensus size: 130
12636834 TAGAAACTTA
* * * *
12636844 TTTTATATGGTTT-CATATAATAAAATAAAAATTGTTTTTATTATTTTAATTGTACTTTACTTTT
1 TTTTATATAGTTTGAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
*
12636908 TTT-ACTTTATTAAAATAAATGTTCTTTTAAATTAAGAAATATTTTTTATTATTTTTATATTTAA
65 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAAGAAATATTTTTTATTATTTTTATATTTAA
12636972 T
130 T
12636973 TTTTATATAGTTTGAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
1 TTTTATATAGTTTGAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
* * *
12637038 TTAGTTTTATTAAAATAAATTTTCTTTTAAATTAAGAAATATTTTTTATT-TTTTTGTATTTAAT
66 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAAGAAATATTTTTTATTATTTTTATATTTAAT
*
12637102 TTTTATATAGTTTGAATTGA-AAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTA-TTTTT
1 TTTTATATAGTTTGAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
* * **
12637165 TTAATTTTATTAAAATAAATGTTATTTTAAATT-AGCCAATA-TTTTTATTATTTTTATATTTGT
66 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAAG-AAATATTTTTTATTATTTTTATATTTAA
12637228 T
130 T
* *
12637229 TTTTATATAGTTTTAAATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTAC-TTACTTTTT
1 TTTTATATAGTTTGAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
* * * *
12637293 TTAATTTTAATACAATAAATGTTCTTTTAAATT-AGCTAATAATTTTTATTA
66 TTAATTTTATTAAAATAAATGTTCTTTTAAATTAAG-AAATATTTTTTATTA
12637344 AAATAAGTGT
Statistics
Matches: 341, Mismatches: 23, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
126 10 0.03
127 70 0.21
128 114 0.33
129 101 0.30
130 46 0.13
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (130 bp):
TTTTATATAGTTTGAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTT
TTAATTTTATTAAAATAAATGTTCTTTTAAATTAAGAAATATTTTTTATTATTTTTATATTTAAT
Found at i:12640480 original size:126 final size:126
Alignment explanation
Indices: 12640255--12640688 Score: 654
Period size: 126 Copynumber: 3.5 Consensus size: 126
12640245 AGTCTAAGTC
* * * *
12640255 TTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTAAGAGATTTTTTCCTTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
* * *
12640320 AGTGCATCCTTCTTGAAGTATTTTTGAAACTATTTGTTCAAAAACATCTTATCAAAATTAA
66 AGTGCATCCTTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAA
* * *
12640381 TTTTTCAGATACTACTGTAGCAAAAGAGCGCCCACGTGAGAGCTGTTTTCCGTAATTTTACTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
*
12640446 AGTGCATCCTTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAT
66 AGTGCATCCTTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAA
* * *
12640507 TTTTTCAGATACTACTGTAGTAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
* * ** * *
12640572 AGTGTATCATTCTTGAAGCATTTTTGACACTATTCATTCAGAAACATCTTCTCAAAGTT-A
66 AGTGCATCCTTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAA
* * *
12640632 TTTTTCAGATACTATTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATT
12640689 AATAGTTAAT
Statistics
Matches: 280, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
125 53 0.19
126 227 0.81
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (126 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTAA
Found at i:12640837 original size:16 final size:17
Alignment explanation
Indices: 12640818--12640852 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12640808 AAAAAATACT
12640818 AAAACCCAAAACC-CTA
1 AAAACCCAAAACCACTA
*
12640834 AAAACCCTAAACCACTA
1 AAAACCCAAAACCACTA
12640851 AA
1 AA
12640853 CCCTAGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAACCCAAAACCACTA
Found at i:12642055 original size:70 final size:67
Alignment explanation
Indices: 12641932--12642064 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
12641922 ATAAACAATA
* **
12641932 TAATGGTTTTGCCTTTTAACTTAATTAGTAAACATTTATCAAAACAACATAGTTTTACCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAGTTTTACCTTTTAA
12641997 CT
66 CT
** * *
12641999 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAACAACATAGTTTTACCTTT
12642064 T
63 T
12642065 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 19 0.34
68 3 0.05
69 2 0.04
70 32 0.57
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACATAGTTTTACCTTTTAA
CT
Found at i:12642707 original size:30 final size:30
Alignment explanation
Indices: 12642673--12642732 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
12642663 ACTTAACAAG
12642673 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
12642703 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
12642733 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:12644405 original size:22 final size:23
Alignment explanation
Indices: 12644382--12644507 Score: 116
Period size: 22 Copynumber: 5.5 Consensus size: 23
12644372 TGAGTTGATG
12644382 AACAGTAAGCTCTAATGAGCTGA
1 AACAGTAAGCTCTAATGAGCTGA
*
12644405 AACGGTAAGCTCT-ATCGAGCTG-
1 AACAGTAAGCTCTAAT-GAGCTGA
* * *
12644427 AATAGTAAGCTCTATTGAGTTG-
1 AACAGTAAGCTCTAATGAGCTGA
* *
12644449 AATAGTAAGCTC-ATACGAGCTGA
1 AACAGTAAGCTCTA-ATGAGCTGA
* * *
12644472 AACGGTAAGCTCCAATTAGCTGAA
1 AACAGTAAGCTCTAATGAGCTG-A
12644496 AACAGTAAGCTC
1 AACAGTAAGCTC
12644508 CTACGAGCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.01
22 35 0.42
23 35 0.42
24 13 0.15
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTAATGAGCTGA
Found at i:12646146 original size:14 final size:14
Alignment explanation
Indices: 12646127--12646156 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12646117 TGATAAATTG
12646127 ATTATGAATTTAGC
1 ATTATGAATTTAGC
12646141 ATTATGAATTTAGC
1 ATTATGAATTTAGC
12646155 AT
1 AT
12646157 GATAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTATGAATTTAGC
Found at i:12650400 original size:159 final size:154
Alignment explanation
Indices: 12650215--12650604 Score: 513
Period size: 159 Copynumber: 2.5 Consensus size: 154
12650205 CAAAAAAATC
* **
12650215 CTTTGTTTTAAAAAATTAAACTTTCCTTTAAAATGTCTTAAAAAAACAGATATTTATTTTTCAAA
1 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAAC-TAAAAAAACAGATATTTATTTTTCAAA
*
12650280 TTCTAAACTTTCTCCCTTTTTTTTTTTTAAAAAATACACTATTTTTTCTTAAAGATTAAAGCTTT
65 ATCTAAACTTTCT-CC----TTTTTTTTAAAAAATACACTA-TTTTTCTTAAAGATTAAAGCTTT
* *
12650345 TATTTTGAAGTAGTT-AAAAA-AAATAAAAA
124 TACTTTGAAATAGTTGAAAAACAAATAAAAA
12650374 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTACAAAAAACA-ATTATTTATTTTTCAA
1 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTA-AAAAAACAGA-TATTTATTTTTCAA
* * *
12650438 AATCTAAA-TTTCT-CTTTTTTTTAAAAAATACATTATTTTTCTTAAATATTAAAGTTTTTACTT
64 AATCTAAACTTTCTCCTTTTTTTTAAAAAATACACTATTTTTCTTAAAGATTAAAGCTTTTACTT
12650501 TGAAATAGTTGAAAAACAAATAAAAA
129 TGAAATAGTTGAAAAACAAATAAAAA
* * * * *
12650527 TTTTGTTTTAAAAATTTAAACTTTCCTTTTAGATAACT-AAAAAATAGATTTTTATTTCTTCAAA
1 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAGATATTTATTT-TTCAAA
*
12650591 ATCTAATCTTTCTC
65 ATCTAAACTTTCTC
12650605 ATTTAAAAAA
Statistics
Matches: 208, Mismatches: 15, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
151 49 0.24
152 38 0.18
153 49 0.24
156 1 0.00
158 8 0.04
159 63 0.30
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (154 bp):
CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAGATATTTATTTTTCAAAA
TCTAAACTTTCTCCTTTTTTTTAAAAAATACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTG
AAATAGTTGAAAAACAAATAAAAA
Found at i:12650968 original size:9 final size:9
Alignment explanation
Indices: 12650950--12650984 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
12650940 TAATAGTATT
12650950 TAATAATAG
1 TAATAATAG
*
12650959 TAATAGTAG
1 TAATAATAG
*
12650968 TGATAATAG
1 TAATAATAG
12650977 TAATAATA
1 TAATAATA
12650985 ATTTGGGCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (9 bp):
TAATAATAG
Found at i:12662527 original size:36 final size:36
Alignment explanation
Indices: 12662459--12662544 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
12662449 TCGAGGCCAT
* * * *
12662459 TGGTGTGTTATAGGGTGGATTGGCTCGTATGAGCATC
1 TGGTGTGTT-TCGGATGGATTAGCTCGTATGAGCATA
12662496 TGGTGTGTTTCGGATGGATTAGCTC-TCATGAGCATA
1 TGGTGTGTTTCGGATGGATTAGCTCGT-ATGAGCATA
12662532 TGGTGTGTTTCGG
1 TGGTGTGTTTCGG
12662545 TTGTAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 34 0.77
37 9 0.20
ACGTcount: A:0.15, C:0.12, G:0.36, T:0.37
Consensus pattern (36 bp):
TGGTGTGTTTCGGATGGATTAGCTCGTATGAGCATA
Found at i:12663476 original size:76 final size:75
Alignment explanation
Indices: 12663350--12663493 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 75
12663340 AATCTGAGAC
* * *
12663350 ATGAGTTCTTTAGGATTCAAGTCAGTGAGTTACAGGGCCTAACACACGGCCTGGCGATAC-GGCT
1 ATGAGTTCTTTAGGATGCAAGTCAATGAGTTACACGGCCTAACACACGGCCTGGC-ATACAGGCT
12663414 GTGTGTCATCTG
65 -TGTGTCATCTG
*
12663426 ATGAGTTCTTTAGGGTGCAAGTCAATGAGTTACACGGCCTAACACACGGCCTGGCATACAGGCTT
1 ATGAGTTCTTTAGGATGCAAGTCAATGAGTTACACGGCCTAACACACGGCCTGGCATACAGGCTT
12663491 GTG
66 GTG
12663494 ACACGGCCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 8 0.13
76 55 0.87
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (75 bp):
ATGAGTTCTTTAGGATGCAAGTCAATGAGTTACACGGCCTAACACACGGCCTGGCATACAGGCTT
GTGTCATCTG
Found at i:12670448 original size:3 final size:3
Alignment explanation
Indices: 12670440--12670474 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
12670430 TTTGTTAAGT
*
12670440 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
12670475 GGTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:12670460 original size:16 final size:15
Alignment explanation
Indices: 12670439--12670474 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
12670429 TTTTGTTAAG
12670439 TTTATTATTATTATT
1 TTTATTATTATTATT
12670454 ATTTATTATTATTATT
1 -TTTATTATTATTATT
12670470 TTTAT
1 TTTAT
12670475 GGTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:12670461 original size:13 final size:13
Alignment explanation
Indices: 12670443--12670474 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12670433 GTTAAGTTTA
12670443 TTATTATTATTAT
1 TTATTATTATTAT
12670456 TTATTATTATTAT
1 TTATTATTATTAT
12670469 TT-TTAT
1 TTATTAT
12670475 GGTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:12671038 original size:60 final size:59
Alignment explanation
Indices: 12670966--12671151 Score: 180
Period size: 60 Copynumber: 3.1 Consensus size: 59
12670956 CGTGTCCATT
* * *
12670966 GGACACATAGCCATGTGACTGCTTTGGGCAATTAGGGCTTCCACACGGGCGTGTGTTATG
1 GGACACACAGCCATGTGACTGATTTGGGCAATTAGGG-TTCCACACGGGCATGTGTTATG
* * * * *
12671026 GGACACACAGCCATGTAACTGAGTTGGGAAATTAGGGTTCCCACACTGGCATGTGCTT-CG
1 GGACACACAGCCATGTGACTGATTTGGGCAATTAGGGTT-CCACACGGGCATGTG-TTATG
* * ** * *
12671086 GGACATACGGCGGTGTGACTGATTTGGGGC--CTAGAGATTCCACACGGGCATGTGTTATG
1 GGACACACAGCCATGTGACTGATTT-GGGCAATTAG-GGTTCCACACGGGCATGTGTTATG
12671145 GGACACA
1 GGACACA
12671152 TGGCAGTGAC
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
58 2 0.02
59 26 0.26
60 68 0.67
61 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (59 bp):
GGACACACAGCCATGTGACTGATTTGGGCAATTAGGGTTCCACACGGGCATGTGTTATG
Found at i:12687769 original size:44 final size:44
Alignment explanation
Indices: 12687719--12687807 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
12687709 GAAAAAATGT
*
12687719 ATGATATATAGAATGAATTTATGGTCATGTTTGTGTGTGTTGGA
1 ATGATATATAGAATCAATTTATGGTCATGTTTGTGTGTGTTGGA
12687763 ATGATATATAGAATCAATTTATGGTCATGTTTGTGTGTGTTGGA
1 ATGATATATAGAATCAATTTATGGTCATGTTTGTGTGTGTTGGA
12687807 A
1 A
12687808 GTTGGTTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (44 bp):
ATGATATATAGAATCAATTTATGGTCATGTTTGTGTGTGTTGGA
Found at i:12697335 original size:47 final size:46
Alignment explanation
Indices: 12697275--12697445 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 46
12697265 TTAGGATTTT
**
12697275 ATGTGATGGATGTGAATGTGTATATATGTGATAAGACCGAATGGCCA
1 ATGTGATAAATGTGAATGTGTATATATGTGATAAG-CCGAATGGCCA
** * *
12697322 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATAAATGTGAATGTGTATATATGTGATAA-GCCGAATGGCCA
* * *
12697369 ATGTGATGAACGTGGAA-GTGTATATATGTGGGA-AAGCCGAATGGCTA
1 ATGTGATAAATGT-GAATGTGTATATATGT--GATAAGCCGAATGGCCA
* *
12697416 ATGTGAGATATGTATGAGATGTGTATATAT
1 ATGTGATAAATG--TGA-ATGTGTATATAT
12697446 ATATTGTGGC
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
47 78 0.78
48 8 0.08
49 4 0.04
50 10 0.10
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (46 bp):
ATGTGATAAATGTGAATGTGTATATATGTGATAAGCCGAATGGCCA
Found at i:12713508 original size:80 final size:80
Alignment explanation
Indices: 12713392--12713576 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 80
12713382 AGTAACTCAT
* * * *
12713392 ACAATGCCTTCGGGACTTAACCCTGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
12713456 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
12713471 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
12713535 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
12713552 ACAAAGCCTTCGGGACTTAGCCCGG
1 ACAAAGCCTTCGGGACTTAACCCGG
12713577 GCAGCATTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 70 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:12713537 original size:40 final size:40
Alignment explanation
Indices: 12713394--12713576 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
12713384 TAACTCATAC
* * *
12713394 AATGCCTTCGGGACTTAACCCTGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
12713434 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
12713474 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
12713514 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
12713555 AA-GCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAACCCGG
12713577 GCAGCATTCA
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.07
40 104 0.85
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:12715993 original size:40 final size:40
Alignment explanation
Indices: 12715936--12716289 Score: 559
Period size: 40 Copynumber: 8.9 Consensus size: 40
12715926 TTCAGTATGT
*
12715936 TATATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
*
12715976 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* *
12716016 TATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* *
12716056 TATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* * *
12716096 TGTATCCGGGCTAAGTACCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
12716136 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
*
12716176 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* *
12716216 TATATCCTGGCTAAGTCCCGAAAAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* *
12716256 TAAATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
12716290 GGAATCATGA
Statistics
Matches: 292, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.04
40 279 0.96
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
Found at i:12716369 original size:57 final size:57
Alignment explanation
Indices: 12716297--12716464 Score: 212
Period size: 57 Copynumber: 2.9 Consensus size: 57
12716287 GCTGGAATCA
* * * * * *
12716297 TGAGGCATTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCTAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
12716354 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * * *
12716411 TAAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGA-TATGTGTACGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGC-ACTATGTGTGCGAGATCAGT
12716465 TAGTGGGCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 95 0.99
58 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:12716398 original size:28 final size:27
Alignment explanation
Indices: 12716307--12716453 Score: 116
Period size: 29 Copynumber: 5.2 Consensus size: 27
12716297 TGAGGCATTG
* *
12716307 TGTGTGCAAGTTCTTCAACCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
* * * * *
12716335 TGTGTGCTAGATCAGTAGTTGAGGCACTA
1 TGTGTGCGAGTTC-TTAATCGA-GCACTA
12716364 TGTGTGCGAGTTCTTCAATCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
** **
12716392 TGTGTGCGAGATTGGTAATTAAGGCACTA
1 TGTGTGCGAG-TTCTTAATCGA-GCACTA
12716421 TGTGTGCGAGTTCTTTAATCGAGCGA-TA
1 TGTGTGCGAGTTC-TTAATCGAGC-ACTA
12716449 TGTGT
1 TGTGT
12716454 ACGAAATCAG
Statistics
Matches: 93, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
28 46 0.49
29 47 0.51
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (27 bp):
TGTGTGCGAGTTCTTAATCGAGCACTA
Found at i:12720150 original size:47 final size:46
Alignment explanation
Indices: 12720090--12720260 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 46
12720080 TTAGGATTTT
**
12720090 ATGTGATGGATGTGAATGTGTATATATGTGATAAGACCGAATGGCCA
1 ATGTGATAAATGTGAATGTGTATATATGTGATAAG-CCGAATGGCCA
** * *
12720137 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATAAATGTGAATGTGTATATATGTGATAA-GCCGAATGGCCA
* * *
12720184 ATGTGATGAACGTGGAA-GTGTATATATGTGGGA-AAGCCGAATGGCTA
1 ATGTGATAAATGT-GAATGTGTATATATGT--GATAAGCCGAATGGCCA
* *
12720231 ATGTGAGATATGTATGAGATGTGTATATAT
1 ATGTGATAAATG--TGA-ATGTGTATATAT
12720261 ATATATTGTG
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
47 78 0.78
48 8 0.08
49 4 0.04
50 10 0.10
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (46 bp):
ATGTGATAAATGTGAATGTGTATATATGTGATAAGCCGAATGGCCA
Found at i:12723936 original size:49 final size:49
Alignment explanation
Indices: 12723879--12723976 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
12723869 ATTAATCATC
12723879 AATTGGAGTAAGGCATTTTACATCA-TTTTTAAATTCTATTTTTGATGGA
1 AATTGGAGTAAGGCATTTTACAT-ATTTTTTAAATTCTATTTTTGATGGA
12723928 AATTGGAGTAAGGCATTTTACATATTTTTTAAATTCTATTTTTGATGGA
1 AATTGGAGTAAGGCATTTTACATATTTTTTAAATTCTATTTTTGATGGA
12723977 GTTTCTTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 1 0.02
49 47 0.98
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (49 bp):
AATTGGAGTAAGGCATTTTACATATTTTTTAAATTCTATTTTTGATGGA
Found at i:12726433 original size:20 final size:20
Alignment explanation
Indices: 12726408--12726445 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12726398 AAATTAAATT
12726408 AATAAAATTTTTCTATTATC
1 AATAAAATTTTTCTATTATC
12726428 AATAAAATTTTTCTATTA
1 AATAAAATTTTTCTATTA
12726446 ACTTAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
AATAAAATTTTTCTATTATC
Found at i:12730512 original size:83 final size:83
Alignment explanation
Indices: 12730381--12730551 Score: 220
Period size: 83 Copynumber: 2.1 Consensus size: 83
12730371 CTGTGTCCTT
* *
12730381 CACACGGCTGAGACACACGGCCGTGACTCTACCAGTGTGTTTACTACTGGGCATTCTATTTTGTA
1 CACACGGCTGAGACACACAGCCGTGACTCTACCAGTGTGTTTACTACTGGGCATTCTATTTTGCA
*
12730446 TAATTAGGGTGTAGGGGA
66 TAATTAGGGTGCAGGGGA
** * * * *
12730464 CACACGGCTGAGACACACAGTTGTGTCTCTGCCCA-TGT-TTTAAGTACTGGGCATTCTGTTTTG
1 CACACGGCTGAGACACACAGCCGTGACTCT-ACCAGTGTGTTT-ACTACTGGGCATTCTATTTTG
*
12730527 CATAATTATGGTGCAGGGGA
64 CATAATTAGGGTGCAGGGGA
12730547 CACAC
1 CACAC
12730552 AGTCGGATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
82 3 0.04
83 70 0.92
84 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (83 bp):
CACACGGCTGAGACACACAGCCGTGACTCTACCAGTGTGTTTACTACTGGGCATTCTATTTTGCA
TAATTAGGGTGCAGGGGA
Found at i:12733427 original size:21 final size:21
Alignment explanation
Indices: 12733401--12733450 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
12733391 CCCATATGGT
*
12733401 CATGTACCTTAGCCACAC-ATC
1 CATGTACCTCAGCCACACGA-C
* *
12733422 CATGTATCTCAGCCATACGAC
1 CATGTACCTCAGCCACACGAC
12733443 CATGTACC
1 CATGTACC
12733451 CCTGTCACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (21 bp):
CATGTACCTCAGCCACACGAC
Found at i:12739822 original size:20 final size:20
Alignment explanation
Indices: 12739799--12739904 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
12739789 CACATATGTG
12739799 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
** * * *
12739819 CCCCTGGTTGCACATAC-GTG
1 CCCCTATTTGTAC-TTCGGTA
*
12739839 CCCTTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* ** *
12739859 CCCCTATTT-TCACATATGTG
1 CCCCTATTTGT-ACTTCGGTA
*
12739879 CCCCTATTTGTACTTTGGTA
1 CCCCTATTTGTACTTCGGTA
12739899 CCCCTA
1 CCCCTA
12739905 AATACATTTA
Statistics
Matches: 62, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 56 0.90
21 3 0.05
ACGTcount: A:0.16, C:0.31, G:0.15, T:0.38
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:12739841 original size:40 final size:40
Alignment explanation
Indices: 12739786--12739904 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 40
12739776 TATTGAATGT
*
12739786 TTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTGG
1 TTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTAG
* * *
12739826 TTGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTAT
1 TTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTAG
* *
12739866 TTTCACATATGTGCCCCTATTTGTACTTTGGTACCCCTA
1 TTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTA
12739905 AATACATTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (40 bp):
TTGCACATATGTGCCCCTATTTGTACTTCGGTACCCCTAG
Found at i:12750415 original size:6 final size:6
Alignment explanation
Indices: 12750404--12750431 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
12750394 TTTTGAATTT
12750404 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
12750432 CTTACATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:12767270 original size:79 final size:80
Alignment explanation
Indices: 12767138--12767325 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 80
12767128 CTAACGGGGT
* *
12767138 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
12767203 TTACTAATTCTGGGC
66 TTACTAAATCCGGGC
* * *
12767218 -AAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTTCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
12767282 TTACTAAATCCGGGC
66 TTACTAAATCCGGGC
*
12767297 TAAGTCCCGAAGACATTTGTGCTAGTGAC
1 TAAGTCCCGAAGACATTTGTGCGAGTGAC
12767326 CATATCCGGG
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 72 0.74
80 25 0.26
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGGC
Found at i:12767346 original size:40 final size:40
Alignment explanation
Indices: 12767138--12767318 Score: 283
Period size: 40 Copynumber: 4.5 Consensus size: 40
12767128 CTAACGGGGT
* * * *
12767138 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
12767178 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
12767218 -AAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
12767257 TAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
12767297 TAAGTCCCGAAGACATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
12767319 TAGTGACCAT
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 38 0.29
40 92 0.71
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:12800675 original size:21 final size:22
Alignment explanation
Indices: 12800651--12800696 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12800641 TTATTCAATA
* *
12800651 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACGAAAATT
*
12800672 AAAATAATAATAAAGGAAAATT
1 AAAATAATAATAAACGAAAATT
12800694 AAA
1 AAA
12800697 TAAAAAGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATAATAATAAACGAAAATT
Found at i:12812187 original size:203 final size:203
Alignment explanation
Indices: 12811798--12812212 Score: 573
Period size: 203 Copynumber: 2.0 Consensus size: 203
12811788 CGTGTTGGTG
12811798 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCGGTGTT
1 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCGGTGTT
* ** * *
12811863 ATTTTGGAAGGTTTGCCCACGGTTGCTTGGCACGGGCATGTCGCATGCCTATGTTAATTTGACAG
66 ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
* * **
12811928 GTTCAGCCACAATTTCAAGGCACGGGCGTGTTACACGTCAGTCTTGTTTCGGCATGTTTGCCCAC
131 GTTCAGCCACAATTTCAAGGCACGGGCATGTTACACGCCAGTCTTGTTTCGGCATGTTCACCCAC
12811993 GGCCATAT
196 GGCCATAT
* *
12812001 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAGTAGGTCCACGCCTGTGTT
1 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCGGTGTT
* * * *
12812066 GTTTTGGCAGGTTCGCCCACGGTTGCTTGGCATAAGCGCGTCGCATGCCTATGTTAATTTGACAA
66 ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
* * * ** * * *
12812131 GTTCGGCCA-AGGTTTCAAGGCATGGGCATGTTGTACGCCCA-TGTTGTTTTGGCATGTTCATCC
131 GTTCAGCCACA-ATTTCAAGGCACGGGCATGTTACACG-CCAGTCTTGTTTCGGCATGTTCACCC
*
12812194 ACGGCCATGT
194 ACGGCCATAT
*
12812204 CACATGGCC
1 CACACGGCC
12812213 TTGGCGATTT
Statistics
Matches: 185, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
202 1 0.01
203 182 0.98
204 2 0.01
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (203 bp):
CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCGGTGTT
ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
GTTCAGCCACAATTTCAAGGCACGGGCATGTTACACGCCAGTCTTGTTTCGGCATGTTCACCCAC
GGCCATAT
Found at i:12817593 original size:23 final size:23
Alignment explanation
Indices: 12817567--12817615 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
12817557 TATAAAACCT
12817567 AAAAATAAG-CTTAAAGA-AAAATA
1 AAAAAT-AGTCTTAAA-ATAAAATA
*
12817590 AAAAGTAGTCTTAAAATAAAATA
1 AAAAATAGTCTTAAAATAAAATA
12817613 AAA
1 AAA
12817616 GTAAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAAATAGTCTTAAAATAAAATA
Found at i:12823144 original size:5 final size:5
Alignment explanation
Indices: 12823133--12823188 Score: 71
Period size: 5 Copynumber: 11.6 Consensus size: 5
12823123 AAATAGAAAG
* * *
12823133 ATTTT GTTTT GTTTT ATTTT ATTTT ATTTT -TTAT -TTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
12823181 ATTTT ATT
1 ATTTT ATT
12823189 AATTTAGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
4 6 0.13
5 40 0.87
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:12823172 original size:18 final size:17
Alignment explanation
Indices: 12823144--12823188 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
12823134 TTTTGTTTTG
12823144 TTTTATTTTATTTTATT
1 TTTTATTTTATTTTATT
12823161 TTTTATTTTTATTTTA--
1 TTTTA-TTTTATTTTATT
12823177 TTTTATTTTATT
1 TTTTATTTTATT
12823189 AATTTAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.26
16 5 0.19
17 5 0.19
18 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTATTTTATT
Found at i:12823194 original size:23 final size:23
Alignment explanation
Indices: 12823145--12823194 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12823135 TTTGTTTTGT
*
12823145 TTTATTTTATTTTATTTTTTATT
1 TTTATTTTATTTTATTTTTTATA
12823168 TTTATTTTATTTTATTTTATTA-A
1 TTTATTTTATTTTATTTT-TTATA
12823191 TTTA
1 TTTA
12823195 GGTTAGGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTATTTTATTTTATTTTTTATA
Found at i:12831004 original size:13 final size:13
Alignment explanation
Indices: 12830986--12831012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12830976 GCTCGGTAAG
12830986 GACACGCCCATGT
1 GACACGCCCATGT
12830999 GACACGCCCATGT
1 GACACGCCCATGT
12831012 G
1 G
12831013 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:12836491 original size:22 final size:22
Alignment explanation
Indices: 12836463--12836525 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
12836453 CATGAGTACA
12836463 AAGCCTGAATAACACTGGCACT
1 AAGCCTGAATAACACTGGCACT
* *
12836485 AAGCCTG-CT---A--GGCACA
1 AAGCCTGAATAACACTGGCACT
12836501 AAGCCTGAATAACACTGGCACT
1 AAGCCTGAATAACACTGGCACT
12836523 AAG
1 AAG
12836526 TCTGCTAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
18 1 0.03
20 1 0.03
21 1 0.03
22 15 0.48
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.16
Consensus pattern (22 bp):
AAGCCTGAATAACACTGGCACT
Found at i:12836502 original size:38 final size:38
Alignment explanation
Indices: 12836460--12836552 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
12836450 TAGCATGAGT
12836460 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
1 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
*
12836498 ACAAAGCCTGAATAACACTGGCACTAAGTCTGCTAGGC
1 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
12836536 ACAAAGCCTGAATAACA
1 ACAAAGCCTGAATAACA
12836553 ATATAATTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (38 bp):
ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
Found at i:12839912 original size:55 final size:54
Alignment explanation
Indices: 12839853--12839971 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 54
12839843 CGTGTGCGAC
* * * *
12839853 ACTAACTTTAGGGCACGGCCATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTAACTTTA-GACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
* *
12839908 ACTAACTTATAGACACAGCTATGGCACACGCCCGTGTGGCCTAACCGTGGACAAT
1 ACTAACTT-TAGACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
12839963 ACTAA-TTTA
1 ACTAACTTTA
12839972 AAAGTTTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 51 0.89
56 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (54 bp):
ACTAACTTTAGACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
Found at i:12840939 original size:47 final size:47
Alignment explanation
Indices: 12840738--12841047 Score: 213
Period size: 47 Copynumber: 6.6 Consensus size: 47
12840728 TTGCCGCTGC
* ** *
12840738 CATGTCCTAGACATGGTCTTACGTTGGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CATCGAGGCCGATG
* * * * * *
12840786 CCATGTCCCATACATGATCTTACACTAGCTCTCGTGTATGCG-TGCTGATG
1 -CATGTCCCAGACATG-TCTTACACTAGCTATCAT-CAT-CGAGGCCGATG
* ** **
12840836 CATGTCCTAGACATGTCTTACACTAGC-A-CAAAATTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
12840880 CATGTCCTAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
12840927 CATGTCCCAGACATGTCTTACATTAGC-ACTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCGAGGCCGATG
* * ** * * *
12840973 CCATGTCCCGGACATGGTCATGTACTGGCTATCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGCCGATG
**
12841021 CATGTCCCAGACACATCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
12841048 CCTTGTCTCA
Statistics
Matches: 201, Mismatches: 48, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
44 31 0.15
45 3 0.01
46 25 0.12
47 60 0.30
48 32 0.16
49 39 0.19
50 9 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:12841018 original size:141 final size:140
Alignment explanation
Indices: 12840738--12841044 Score: 325
Period size: 141 Copynumber: 2.2 Consensus size: 140
12840728 TTGCCGCTGC
* ** *
12840738 CATGTCCTAGACATGGTCTTACGTTGGCTATCTCCATCGAGGCCGATGCCATGTCCCATACATGA
1 CATGTCCTAGACA-CGTCTTACACTGGCTATCTCCATCGAGGCCGATGCCATGTCCCAGACATGA
* * * * * * *
12840803 TCTTACACTAGCTCTCGTGTATGCGTGCTGATGCATGTCCTAGACATGTCTTACACTAGCACAAA
65 TCTTACACTAGCACTCATCTATACG-GCCGATGCATGTCCCAGACATGTCATACACTAGCACAAA
*
12840868 ATTTAGCCGATG
129 ATGTAGCCGATG
12840880 CATGTCCTAGACACGTCTTACACTGGCTATCAT-CATCGAGGCCGATG-CATGTCCCAGACATG-
1 CATGTCCTAGACACGTCTTACACTGGCTATC-TCCATCGAGGCCGATGCCATGTCCCAGACATGA
* * * ** *
12840942 TCTTACATTAGCACTCATCTCTAC-GCCGATGCCATGTCCCGGACATGGTCATGTACTGGCTATC
65 TCTTACACTAGCACTCATCTATACGGCCGATG-CATGTCCCAGACAT-GTCATACACTAGC-A-C
* *
12841006 ATAATGTGGCCGATG
126 AAAATGTAGCCGATG
* *
12841021 CATGTCCCAGACACATCTTACACT
1 CATGTCCTAGACACGTCTTACACT
12841045 AGCCCTTGTC
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
137 6 0.04
138 12 0.09
139 27 0.20
140 15 0.11
141 64 0.46
142 14 0.10
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
CATGTCCTAGACACGTCTTACACTGGCTATCTCCATCGAGGCCGATGCCATGTCCCAGACATGAT
CTTACACTAGCACTCATCTATACGGCCGATGCATGTCCCAGACATGTCATACACTAGCACAAAAT
GTAGCCGATG
Found at i:12841025 original size:94 final size:94
Alignment explanation
Indices: 12840832--12841096 Score: 306
Period size: 94 Copynumber: 2.8 Consensus size: 94
12840822 TATGCGTGCT
* *
12840832 GATGCATGTCCTAGACATGTCTTACACTAGCACAAAAT-T-TAGCCGATG-CATGTCCTAGACA-
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC-TAATCTCTAGCCGATGCCATGTCCTAGACAT
* * *
12840893 CGTCTTACACTGGCTATCATCATCGAGGCC
65 GGTCTTATACTGGCTATCATAATCGAGGCC
* * **
12840923 GATGCATGTCCCAGACATGTCTTACATTAGCACTCATCTCTACGCCGATGCCATGTCCCGGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTA-GCCGATGCCATGTCCTAGACAT
* * *
12840988 GGTCATGTACTGGCTATCATAAT-GTGGCC
65 GGTCTTATACTGGCTATCATAATCGAGGCC
** * ** *
12841017 GATGCATGTCCCAGACACATCTTACACTAGCCCTTGTCTCAATGCCGATGCCATGTCCTAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTA-GCCGATGCCATGTCCTAGACAT
12841082 GGTCTTATACTGGCT
65 GGTCTTATACTGGCT
12841097 CTCACATAAC
Statistics
Matches: 145, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
90 2 0.01
91 32 0.22
92 2 0.01
93 7 0.05
94 84 0.58
95 18 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTAGCCGATGCCATGTCCTAGACATG
GTCTTATACTGGCTATCATAATCGAGGCC
Found at i:12843084 original size:27 final size:27
Alignment explanation
Indices: 12843054--12843231 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12843044 ATATTGAGTC
* * * *
12843054 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12843081 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12843108 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12843136 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12843163 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12843190 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12843217 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12843232 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12843193 original size:82 final size:81
Alignment explanation
Indices: 12843075--12843230 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12843065 TGCTATATAA
* *
12843075 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12843140 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12843157 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12843221 CACTTAGTGC
65 CACTTAGTGC
12843231 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12853401 original size:48 final size:48
Alignment explanation
Indices: 12853185--12853407 Score: 147
Period size: 49 Copynumber: 4.7 Consensus size: 48
12853175 TTGCCGCTAC
* * * *
12853185 CATGTCCTAGACAAGGTCTTACGCTGGCTATC-TCTATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATC-ATCAAGGCCGATG
* * * * * * **
12853233 CCATTTCCCAGACATGGTCTTACACTAGCTCTCGTGTAT-ACGTGCTTATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTATCAT-CATCAAG-GCCGATG
* * * *** **
12853283 CATGTCCCAAACAT-GTCTTACACTAGC-A-CGA--AACTTTGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATC-ATCATCAAGGCCGATG
* *
12853327 CATGTCCCAAACA-CGTCTTACACTGGCTATCATCATCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGCCGATG
12853374 CATGTCCCAGACATGGTCTTACACTGGCTATCAT
1 CATGTCCCAGACATGGTCTTACACTGGCTATCAT
12853408 AATGTGGCTG
Statistics
Matches: 133, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
44 31 0.23
45 2 0.02
46 2 0.02
47 19 0.14
48 32 0.24
49 39 0.29
50 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGCCGATG
Found at i:12853425 original size:47 final size:47
Alignment explanation
Indices: 12853322--12853444 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 47
12853312 GAAACTTTGT
*
12853322 TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCAAGGC
1 TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATAATCAAGGC
* * * **
12853369 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGC
1 TGATGCATGTCCCAAACA-CGTCTTACACTGGCTATCATAATCAAGGC
*
12853416 TGATACATGTCCCAAACACGTCTTACACT
1 TGATGCATGTCCCAAACACGTCTTACACT
12853445 AGCCCTTGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 10 0.15
47 34 0.52
48 21 0.32
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATAATCAAGGC
Found at i:12863797 original size:18 final size:18
Alignment explanation
Indices: 12863762--12863820 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
12863752 GTTAGACGAC
*
12863762 TACTACTACTATTACTAT
1 TACTACTACTACTACTAT
* *
12863780 TACTACTACTCCTCCTAT
1 TACTACTACTACTACTAT
* * * *
12863798 TAATACTATTACCACTAG
1 TACTACTACTACTACTAT
12863816 TACTA
1 TACTA
12863821 TTAATATTTA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (18 bp):
TACTACTACTACTACTAT
Found at i:12865732 original size:51 final size:51
Alignment explanation
Indices: 12865656--12865759 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
12865646 ATTGAGTGTG
12865656 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
1 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
**
12865707 CAGAAAATTGTTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
1 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
12865758 CA
1 CA
12865760 CCCAACTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (51 bp):
CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
Found at i:12870735 original size:27 final size:26
Alignment explanation
Indices: 12870687--12870746 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
12870677 GCGAGGCTGC
*
12870687 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
12870714 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
12870740 CATATAT
1 CAGATAT
12870747 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:12870847 original size:27 final size:26
Alignment explanation
Indices: 12870799--12870850 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12870789 GCGAGGCTGC
*
12870799 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
12870825 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
12870851 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:12881200 original size:24 final size:24
Alignment explanation
Indices: 12881154--12881201 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12881144 ATAAAAGGTT
*
12881154 AATAATAATAATAGTTAAGTAAGA
1 AATAATAATAATAATTAAGTAAGA
*
12881178 AATAATAATAGTACATTAA-TAAGA
1 AATAATAATAATA-ATTAAGTAAGA
12881202 CAAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.29
Consensus pattern (24 bp):
AATAATAATAATAATTAAGTAAGA
Found at i:12881275 original size:30 final size:30
Alignment explanation
Indices: 12881211--12881281 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
12881201 ACAAACAATT
** *
12881211 TAATAATAACGATAGTACTAAATAAAATAA
1 TAATAATAATAATAGTAATAAATAAAATAA
* * **
12881241 TAATACTAATAATAGTAATAAATATAATGG
1 TAATAATAATAATAGTAATAAATAAAATAA
12881271 TAATAATAATA
1 TAATAATAATA
12881282 GTTAATGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (30 bp):
TAATAATAATAATAGTAATAAATAAAATAA
Found at i:12881397 original size:3 final size:3
Alignment explanation
Indices: 12881391--12881556 Score: 113
Period size: 3 Copynumber: 54.7 Consensus size: 3
12881381 GTGGTAGTAG
* *
12881391 TAA TAA TACA TTAA TAA GAA TAA TAG TAA TAA TAA -AA TAA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
12881437 TAA TAAA TAG TAG TAG TAAA TAA AAA TAA TAA TAG TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
12881484 TGAA -AA TAG CAA AAA TAA TAA TAG TAA T-A TAA TAG TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
12881528 CAA TAA TAA TTA TTA TTA TAA TAG TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
12881557 CAAATAAGTA
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.05
3 113 0.87
4 9 0.07
5 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12881417 original size:26 final size:26
Alignment explanation
Indices: 12881388--12881536 Score: 103
Period size: 26 Copynumber: 5.8 Consensus size: 26
12881378 AAAGTGGTAG
* *
12881388 TAGTAATAATACATTAATAAGAATAA
1 TAGTAATAATAAAATAATAAGAATAA
*
12881414 TAGTAATAATAAAATAATAATAATAA
1 TAGTAATAATAAAATAATAAGAATAA
* * * * *
12881440 TAAATAGTAGTAGTAAATAAAAATAATAA
1 T-AGTAATAATA--AAATAATAAGAATAA
12881469 TAGTAATAAT--AATAAT--GAA-AA
1 TAGTAATAATAAAATAATAAGAATAA
* * * *
12881490 TAGCAAAAATAATAATAGTAA-TATAA
1 TAGTAATAATAA-AATAATAAGAATAA
12881516 TAGTAATAATAACAATAATAA
1 TAGTAATAATAA-AATAATAA
12881537 TTATTATTAT
Statistics
Matches: 94, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
21 10 0.11
22 2 0.02
24 10 0.11
25 1 0.01
26 43 0.46
27 7 0.07
28 6 0.06
29 15 0.16
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
TAGTAATAATAAAATAATAAGAATAA
Found at i:12881457 original size:29 final size:30
Alignment explanation
Indices: 12881384--12881476 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 30
12881374 GTAGAAAGTG
*
12881384 GTAGTAGT-AATAATACATTAATAAGAATAATA
1 GTAGTAGTAAATAATA-A-TAATAA-TATAATA
* *
12881416 GTAATAATAAAATAATAATAATAATA-AATA
1 GTAGTAGT-AAATAATAATAATAATATAATA
*
12881446 GTAGTAGTAAATAAAAATAATAATAGTAATA
1 GTAGTAGTAAATAATAATAATAATA-TAATA
12881477 ATAATAATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
29 16 0.31
30 10 0.20
31 5 0.10
32 12 0.24
33 1 0.02
34 7 0.14
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (30 bp):
GTAGTAGTAAATAATAATAATAATATAATA
Found at i:12881625 original size:3 final size:3
Alignment explanation
Indices: 12881617--12881651 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12881607 TATGATAAAC
* *
12881617 ATA ATA ATA ATG ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12881652 GGTAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12883093 original size:49 final size:49
Alignment explanation
Indices: 12883021--12883116 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
12883011 AGAACAACGA
12883021 TGAAACTGTGAAGTAAAACAACAAATCACAGTTAATTGGTTTCTTATGG
1 TGAAACTGTGAAGTAAAACAACAAATCACAGTTAATTGGTTTCTTATGG
12883070 TGAAACTGTGAAGTAAAACAACAAATCACAGTTAATTGGTTTCTTAT
1 TGAAACTGTGAAGTAAAACAACAAATCACAGTTAATTGGTTTCTTAT
12883117 TTACACCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (49 bp):
TGAAACTGTGAAGTAAAACAACAAATCACAGTTAATTGGTTTCTTATGG
Found at i:12886835 original size:15 final size:13
Alignment explanation
Indices: 12886808--12886852 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
12886798 TAACTAATAT
12886808 TAATATTTAATTA
1 TAATATTTAATTA
12886821 TAATAGTTATAATTAA
1 TAATA-TT-TAATT-A
12886837 TTAATATTTAATTA
1 -TAATATTTAATTA
12886851 TA
1 TA
12886853 TTAAATAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 10 0.36
16 3 0.11
17 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TAATATTTAATTA
Found at i:12886865 original size:30 final size:30
Alignment explanation
Indices: 12886806--12886865 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12886796 AATAACTAAT
** *
12886806 ATTAATATTTAATTATAATAGTTATAATTA
1 ATTAATATTTAATTATAATAAATAGAATTA
*
12886836 ATTAATATTTAATTATATTAAATAGAATTA
1 ATTAATATTTAATTATAATAAATAGAATTA
12886866 TAGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTAATATTTAATTATAATAAATAGAATTA
Found at i:12890155 original size:42 final size:42
Alignment explanation
Indices: 12890108--12890187 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
12890098 AACCATACAC
12890108 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
1 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
* * *
12890150 TGGTTTTGCTTCTCCTTGTGGCTTTGGCTTGTAATCAG
1 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAG
12890188 TGCTTGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (42 bp):
TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
Found at i:12890200 original size:42 final size:42
Alignment explanation
Indices: 12890116--12890200 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
12890106 ACTGGTTTTA
*
12890116 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGTTTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
* * * *
12890158 CTTCTCCTTGTGGCTTTGGCTTGTAATCAGTGCTTGGATTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
12890200 C
1 C
12890201 ATCATATTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.44
Consensus pattern (42 bp):
CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
Found at i:12890530 original size:40 final size:41
Alignment explanation
Indices: 12890479--12890619 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
12890469 TGTAAAACAT
* *
12890479 AGAGCAATAGCGGCG-TTTTACCAAAAATGTCGCTAAAAAC
1 AGAGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAAC
* * ****
12890519 AGAGTAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAAC
***
12890560 AGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAATC
1 AGAGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAA-C
*
12890601 -GAAGCATTAGCGGCGCTTT
1 AG-AGCAATAGCGGCGCTTT
12890620 CGGTAAAACG
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 33 0.38
41 54 0.62
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (41 bp):
AGAGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAAC
Found at i:12890554 original size:41 final size:40
Alignment explanation
Indices: 12890509--12890638 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 40
12890499 CCAAAAATGT
* * *
12890509 CGCTAAAAACAGAGTAATAGCGGCGTTTTTTGTTAAAACGC
1 CGCTAAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAACGC
12890550 CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
1 CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
* *
12890590 CGCTAAAAATC-GAAGCATTAGCGGCGCTTTCGGTAAAACGC
1 CGCTAAAAA-CAG-AGCAATAGCGGCGCTTTTGGTAAAACGC
*
12890631 CACTAAAA
1 CGCTAAAA
12890639 GTCATATAAC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 23 0.28
41 58 0.72
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
CGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGC
Found at i:12891260 original size:22 final size:22
Alignment explanation
Indices: 12891212--12891260 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
12891202 TTGGTTAAGG
* *
12891212 GTTTAATGTTTATGAGTTACTA
1 GTTTAAGGTTTATGAATTACTA
*
12891234 TTTTAAGGTTTATGAATTA-TGA
1 GTTTAAGGTTTATGAATTACT-A
12891256 GTTTA
1 GTTTA
12891261 GTGATTATGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (22 bp):
GTTTAAGGTTTATGAATTACTA
Found at i:12891526 original size:7 final size:7
Alignment explanation
Indices: 12891511--12891573 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
12891501 TAGGTTAATA
12891511 TTTAGGG
1 TTTAGGG
*
12891518 TTTATGG
1 TTTAGGG
*
12891525 TTTAGGA
1 TTTAGGG
* *
12891532 TTTATGA
1 TTTAGGG
12891539 TTTAGGG
1 TTTAGGG
*
12891546 TTTTGGG
1 TTTAGGG
12891553 TTTAAGGG
1 TTT-AGGG
*
12891561 -TTGGGG
1 TTTAGGG
12891567 TTTAGGG
1 TTTAGGG
12891574 GTTAATATAG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
6 3 0.07
7 38 0.86
8 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:12896108 original size:43 final size:43
Alignment explanation
Indices: 12896006--12896120 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
12895996 ATAATTTTTT
* *
12896006 TAAAGTTCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * ** * *
12896049 TAAAAGTTATTTTCTTTAGTGGCGTTTTTTG-GAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCG-TTTGTGAGAAAAGCGCCGC
*
12896092 TAAAGGTCATGATCTTTAGCGCCGTTTGT
1 TAAAGGTCATGATCTTTAGCGGCGTTTGT
12896121 TAAAAAACAC
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
42 4 0.07
43 47 0.84
44 5 0.09
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:12896636 original size:6 final size:6
Alignment explanation
Indices: 12896625--12896650 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12896615 TACTTGAGAT
12896625 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
12896651 ATGTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:12898209 original size:20 final size:20
Alignment explanation
Indices: 12898184--12898237 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
12898174 AAAATATCGA
12898184 TTTACCAATATTTATAAGAC
1 TTTACCAATATTTATAAGAC
* *
12898204 TTTACCAAAAATTTATAAGAT
1 TTTACC-AATATTTATAAGAC
*
12898225 TTTATCAATATTT
1 TTTACCAATATTT
12898238 TCAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTATAAGAC
Found at i:12899075 original size:20 final size:20
Alignment explanation
Indices: 12899042--12899080 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12899032 CTTTATCAAA
*
12899042 ATATCTAATAATTTACCAAT
1 ATATCTAACAATTTACCAAT
*
12899062 ATATCTAACGATTTACCAA
1 ATATCTAACAATTTACCAA
12899081 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATCTAACAATTTACCAAT
Found at i:12899224 original size:20 final size:20
Alignment explanation
Indices: 12899199--12899313 Score: 142
Period size: 20 Copynumber: 5.8 Consensus size: 20
12899189 ATATTAACAA
12899199 TTACCAAAATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
12899219 TTACCAATATTTCTAA-GAA
1 TTACCAAAATTTCTAAGGAT
* * *
12899238 TTCCCTAAAATATCTAACGAT
1 TTACC-AAAATTTCTAAGGAT
*
12899259 TTACCGAAATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
12899279 TTACCAAAATATCTAATGAT
1 TTACCAAAATTTCTAAGGAT
12899299 TTACCAAAATTTCTA
1 TTACCAAAATTTCTA
12899314 TCGTTTTTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
19 6 0.08
20 67 0.85
21 6 0.08
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TTACCAAAATTTCTAAGGAT
Found at i:12899308 original size:60 final size:59
Alignment explanation
Indices: 12899187--12899313 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 59
12899177 ACCCTATACT
* * *
12899187 AAATAT-TAACAATTACCAAAATTTCTAAGGATTTACCAATATTTCTAAGAATTCCCTA
1 AAATATCTAACAATTACCAAAATTTCTAAGGATTTACCAAAATATCTAAGAATTACCTA
* * *
12899245 AAATATCTAACGATTTACCGAAATTTCTAAGGATTTACCAAAATATCTAATGATTTACC-A
1 AAATATCTAAC-AATTACCAAAATTTCTAAGGATTTACCAAAATATCTAA-GAATTACCTA
*
12899305 AAATTTCTA
1 AAATATCTA
12899314 TCGTTTTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 6 0.10
59 4 0.07
60 43 0.73
61 6 0.10
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (59 bp):
AAATATCTAACAATTACCAAAATTTCTAAGGATTTACCAAAATATCTAAGAATTACCTA
Found at i:12900788 original size:93 final size:93
Alignment explanation
Indices: 12900629--12900800 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
12900619 GCCCATAAGT
* *
12900629 GAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
12900694 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
** * * *
12900722 GAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATATGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
12900787 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
12900801 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:12900789 original size:46 final size:46
Alignment explanation
Indices: 12900621--12900796 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
12900611 TGTAACCCGC
* * *
12900621 CCATAAGTGAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12900667 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
12900713 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12900760 CCATATGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
12900797 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:12904682 original size:17 final size:16
Alignment explanation
Indices: 12904660--12904710 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
12904650 TCTAAAGGTG
*
12904660 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTT-TT
12904677 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
*
12904694 ACTTTTATTTTATTTTT
1 A-TTTTATCTTATTTTT
12904711 TCCCTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:12904776 original size:14 final size:13
Alignment explanation
Indices: 12904748--12904799 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
12904738 TATATACATC
12904748 ATAATAAAAATAT
1 ATAATAAAAATAT
12904761 ATAATAAAATATAT
1 ATAATAAAA-ATAT
* *
12904775 ATATACAAAACAAAT
1 ATA-ATAAAA-ATAT
12904790 ATAA-AAAAAT
1 ATAATAAAAAT
12904800 TACCTTTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 13 0.39
14 8 0.24
15 11 0.33
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAATAAAAATAT
Found at i:12905482 original size:22 final size:22
Alignment explanation
Indices: 12905440--12905484 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12905430 TTCTAATACG
*
12905440 TATATATATACTATATGTATTT
1 TATATATATACTATATATATTT
*
12905462 TATATATATTA-TGTATATATTT
1 TATATATA-TACTATATATATTT
12905484 T
1 T
12905485 TTTTAATGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATATATATACTATATATATTT
Found at i:12907805 original size:21 final size:20
Alignment explanation
Indices: 12907761--12907823 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
12907751 TTCTAAAATA
*
12907761 TCTAACAATTTACCAA-ATTT
1 TCTAACATTTTACCAATA-TT
*
12907781 TCTATCATTTTACCAATACTT
1 TCTAACATTTTACCAATA-TT
* *
12907802 TCTAAGATTTTACTAATATT
1 TCTAACATTTTACCAATATT
12907822 TC
1 TC
12907824 CAAATTTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (20 bp):
TCTAACATTTTACCAATATT
Found at i:12907900 original size:20 final size:20
Alignment explanation
Indices: 12907858--12907972 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
12907848 GTCTTAACAA
* *
12907858 TTACCAAAATTTCTATAAC-T
1 TTACCAATATTTCTA-AGCAT
12907878 TTACCAATATTTCTAAGCAT
1 TTACCAATATTTCTAAGCAT
** * *
12907898 TTATTAATGTATCTAATG-AT
1 TTACCAATATTTCTAA-GCAT
* *
12907918 TTACCAATATTTCTAAGAAC
1 TTACCAATATTTCTAAGCAT
*
12907938 TTACCAATATATCTAA-CTAT
1 TTACCAATATTTCTAAGC-AT
* *
12907958 TTATCAAAATTTCTA
1 TTACCAATATTTCTA
12907973 TCTTTTTATC
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.04
20 70 0.95
21 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (20 bp):
TTACCAATATTTCTAAGCAT
Found at i:12907951 original size:40 final size:40
Alignment explanation
Indices: 12907877--12907972 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
12907867 TTTCTATAAC
* * ** *
12907877 TTTACCAATATTTCTAAGCATTTATTAATGTATCTAA-TGA
1 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACT-A
12907917 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
1 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
* *
12907957 TTTATCAAAATTTCTA
1 TTTACCAATATTTCTA
12907973 TCTTTTTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
Found at i:12908070 original size:20 final size:20
Alignment explanation
Indices: 12908045--12908339 Score: 141
Period size: 20 Copynumber: 14.8 Consensus size: 20
12908035 GTCTTAACAA
12908045 TTACCAAAATATCTAAGGAT
1 TTACCAAAATATCTAAGGAT
* *
12908065 TTACCAAAATATATAAGGAA
1 TTACCAAAATATCTAAGGAT
* * **
12908085 TTACCAATATGTCTAACAAT
1 TTACCAAAATATCTAAGGAT
* * *
12908105 TTACCAATATTTCCAAGGAT
1 TTACCAAAATATCTAAGGAT
**
12908125 TTACCAAAATATCTAACAAT
1 TTACCAAAATATCTAAGGAT
* * * **
12908145 ATATCAAAATTTCTATCGAT
1 TTACCAAAATATCTAAGGAT
* * *
12908165 TTACC--AATATTTATGAAACT
1 TTACCAAAATATCTAAG-GA-T
* * *
12908185 TTACCAATATTTCTAAGAAT
1 TTACCAAAATATCTAAGGAT
* **
12908205 TTACTAAAATAT-TTGGCGAT
1 TTACCAAAATATCTAAG-GAT
*
12908225 TTACCAATATATCTAACGG-T
1 TTACCAAAATATCTAA-GGAT
* * *
12908245 TTACCAAAATTTTTAAGGTT
1 TTACCAAAATATCTAAGGAT
** * *
12908265 TTA-CTGAACATCTAATGAT
1 TTACCAAAATATCTAAGGAT
* * * *
12908284 TTACCAAAATTTTTAATGTT
1 TTACCAAAATATCTAAGGAT
* * *
12908304 TTACTAAAATATGTAACGAT
1 TTACCAAAATATCTAAGGAT
* *
12908324 TTGCCAAAATTTCTAA
1 TTACCAAAATATCTAA
12908340 AATTTTACAA
Statistics
Matches: 199, Mismatches: 67, Indels: 18
0.70 0.24 0.06
Matches are distributed among these distances:
18 7 0.04
19 17 0.09
20 164 0.82
21 4 0.02
22 7 0.04
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (20 bp):
TTACCAAAATATCTAAGGAT
Found at i:12908124 original size:60 final size:60
Alignment explanation
Indices: 12908039--12908176 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
12908029 TGTGAAGTCT
* * * * *
12908039 TAACAA-TTACCAAAATATCTAAGGATTTACCAAAATATATAAGGAAT-TACCAATATGTC
1 TAACAATTTACCAATATTTCCAAGGATTTACCAAAATATATAA-CAATATACCAAAATGTC
* * *
12908098 TAACAATTTACCAATATTTCCAAGGATTTACCAAAATATCTAACAATATATCAAAATTTC
1 TAACAATTTACCAATATTTCCAAGGATTTACCAAAATATATAACAATATACCAAAATGTC
* *
12908158 TATCGATTTACCAATATTT
1 TAACAATTTACCAATATTT
12908177 ATGAAACTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 9 0.13
60 58 0.87
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (60 bp):
TAACAATTTACCAATATTTCCAAGGATTTACCAAAATATATAACAATATACCAAAATGTC
Found at i:12908131 original size:187 final size:187
Alignment explanation
Indices: 12907755--12908212 Score: 508
Period size: 187 Copynumber: 2.4 Consensus size: 187
12907745 TACATTTTCT
* * * * * *
12907755 AAAATATCTAACAATTTACCAAATTTTCTATCATTTTACCAATACTTTCTAAGATTTTACTAATA
1 AAAATATCTAACAATTTATCAAAATTTCTATCATTTTACCAATA-TTTATGAGACTTTACCAATA
** ** * *
12907820 TTTCCAAATTTTCTAAATTCTACATCAAGTCTTAACAATTACCAAAATTTCTATAACTTTACCAA
65 TTTTAAAATTTTCTAAACACCACATCAAGTCTTAACAATTACCAAAATATCTATAACTTTACCAA
* * * * ** * ** *
12907885 TATTTCTAAGCATTTATTAATGTATCTAATGATTTACCAATATTTCTAAGAACTTACC
130 AATATATAAGCAATTACCAATATATCTAACAATTTACCAATATTTCCAAGAACTTACC
* * * * *
12907943 AATATATCTAACTATTTATCAAAATTTCTATCTTTTTATCAATATTTATGAGACTTCACCAATAT
1 AAAATATCTAACAATTTATCAAAATTTCTATCATTTTACCAATATTTATGAGACTTTACCAATAT
** *
12908008 TTTAAAATTTTCTAAACACCATGTGAAGTCTTAACAATTACCAAAATATCTA-AGGA-TTTACCA
66 TTTAAAATTTTCTAAACACCACATCAAGTCTTAACAATTACCAAAATATCTATA--ACTTTACCA
* * * *
12908071 AAATATATAAGGAATTACCAATATGTCTAACAATTTACCAATATTTCCAAGGATTTACC
129 AAATATATAAGCAATTACCAATATATCTAACAATTTACCAATATTTCCAAGAACTTACC
* *
12908130 AAAATATCTAACAATATATCAAAATTTCTATCGA-TTTACCAATATTTATGAAACTTTACCAATA
1 AAAATATCTAACAATTTATCAAAATTTCTATC-ATTTTACCAATATTTATGAGACTTTACCAATA
*
12908194 TTTCTAAGAATTTACTAAA
65 TTT-TAA-AATTTTCTAAA
12908213 ATATTTGGCG
Statistics
Matches: 223, Mismatches: 42, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
186 1 0.00
187 170 0.76
188 42 0.19
189 10 0.04
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.39
Consensus pattern (187 bp):
AAAATATCTAACAATTTATCAAAATTTCTATCATTTTACCAATATTTATGAGACTTTACCAATAT
TTTAAAATTTTCTAAACACCACATCAAGTCTTAACAATTACCAAAATATCTATAACTTTACCAAA
ATATATAAGCAATTACCAATATATCTAACAATTTACCAATATTTCCAAGAACTTACC
Found at i:12908268 original size:40 final size:39
Alignment explanation
Indices: 12908224--12908352 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 39
12908214 TATTTGGCGA
* *
12908224 TTTACCAATATATCTAACGGTTTACCAAAATTTTTAAGGT
1 TTTACTAA-ATATCTAACGATTTACCAAAATTTTTAAGGT
* * * *
12908264 TTTACTGAACATCTAATGATTTACCAAAATTTTTAATGT
1 TTTACTAAATATCTAACGATTTACCAAAATTTTTAAGGT
* * * **
12908303 TTTACTAAAATATGTAACGATTTGCCAAAATTTCTAAAAT
1 TTTACT-AAATATCTAACGATTTACCAAAATTTTTAAGGT
12908343 TTTAC-AAATA
1 TTTACTAAATA
12908353 CTTCCAAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
38 5 0.07
39 33 0.45
40 36 0.49
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (39 bp):
TTTACTAAATATCTAACGATTTACCAAAATTTTTAAGGT
Found at i:12908288 original size:39 final size:40
Alignment explanation
Indices: 12908235--12908335 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
12908225 TTACCAATAT
* *
12908235 ATCTAACGGTTTACCAAAATTTTTAAGGTTTTACT-GAAC
1 ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
* * *
12908274 ATCTAATGATTTACCAAAATTTTTAATGTTTTACTAAAAT
1 ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
* *
12908314 ATGTAACGATTTGCCAAAATTT
1 ATCTAACGATTTACCAAAATTT
12908336 CTAAAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.60
40 21 0.40
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (40 bp):
ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
Found at i:12908458 original size:20 final size:20
Alignment explanation
Indices: 12908410--12908542 Score: 92
Period size: 20 Copynumber: 6.7 Consensus size: 20
12908400 TTTCTATAAC
* * *
12908410 TTTACCAAAATATCCAATGA
1 TTTACCAATATTTCTAATGA
* * *
12908430 CTTATCAATATGTCTAATGA
1 TTTACCAATATTTCTAATGA
*
12908450 TTTCCCAATATTTCTAAAT-A
1 TTTACCAATATTTCT-AATGA
*
12908470 TTTACCAATATTTCTAAGGA
1 TTTACCAATATTTCTAATGA
* * *
12908490 TTTATCATTATATT-TGATGA
1 TTTACCAATAT-TTCTAATGA
* *
12908510 TTTACCAAAATTT-TAAAGA
1 TTTACCAATATTTCTAATGA
*
12908529 TTTTACTAATATTT
1 -TTTACCAATATTT
12908543 TTAAAATTTC
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
19 8 0.09
20 74 0.85
21 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTCTAATGA
Found at i:12916378 original size:51 final size:51
Alignment explanation
Indices: 12916323--12916450 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
12916313 GCCGCCATGT
* * *
12916323 CATCTTTCATCTATGGCCTTAGGCTACATA-CTTCATACCAGACTGCCATAG
1 CATCTTTCATTTATGGTCTTACGCTACATACCTT-ATACCAGACTGCCATAG
* * * *
12916374 CATCTTTCATTTTTGGTCTTACGCCATATACCTTATACTAGACTGCCATAG
1 CATCTTTCATTTATGGTCTTACGCTACATACCTTATACCAGACTGCCATAG
* *
12916425 CCTCTTTTATTTATGGTCTTACGCTA
1 CATCTTTCATTTATGGTCTTACGCTA
12916451 TACACCATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 62 0.95
52 3 0.05
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (51 bp):
CATCTTTCATTTATGGTCTTACGCTACATACCTTATACCAGACTGCCATAG
Found at i:12919966 original size:46 final size:46
Alignment explanation
Indices: 12919816--12920077 Score: 199
Period size: 46 Copynumber: 5.5 Consensus size: 46
12919806 TTTGTGCGCC
* *
12919816 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCT
* *** * * *
12919862 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATTATGAGTGCT
* *
12919910 AGTGTAAGACATGTCTGGGACATTCATCAGCCACATTATTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
* *
12919956 AGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-TATGAGTGCT
* * * * * ** *
12920004 AGTGTAAGACCATGTTTGAGACATGGCATCGGACTCGAAGATGA-TAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGT-GCT
12920053 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12920078 GCGTCGGCAA
Statistics
Matches: 172, Mismatches: 32, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
45 4 0.02
46 50 0.29
47 30 0.17
48 39 0.23
49 40 0.23
50 7 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
Found at i:12919999 original size:94 final size:94
Alignment explanation
Indices: 12919816--12920079 Score: 311
Period size: 94 Copynumber: 2.8 Consensus size: 94
12919806 TTTGTGCGCC
*
12919816 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
* *
12919881 GACATGGCATCGGCGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
* * *
12919910 AGTGTAAGACATGTCTGGGACATTCATCAGCCACATTATTAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
*
12919973 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
* * * * * **
12920004 AGTGTAAGACCATGTTTGAGACATGGCATCGGACTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
12920069 TGGGACATGGC
63 TGGGACATGGC
12920080 GTCGGCAACT
Statistics
Matches: 143, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
92 5 0.03
93 15 0.10
94 70 0.49
95 14 0.10
96 8 0.06
97 15 0.10
98 14 0.10
99 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:12925982 original size:46 final size:46
Alignment explanation
Indices: 12925838--12926050 Score: 216
Period size: 46 Copynumber: 4.5 Consensus size: 46
12925828 TTTGTGCGCC
* *
12925838 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGT-GCT
* **** * *
12925884 AGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCACATTACGAGTGCT
**
12925932 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGTGCT
* *
12925978 AGTGTAAGACATGTCTAGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-TACGAGTGCT
12926026 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12926051 GCGTCAGCAA
Statistics
Matches: 137, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
45 4 0.03
46 50 0.36
47 30 0.22
48 38 0.28
49 15 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGTGCT
Found at i:12926021 original size:94 final size:94
Alignment explanation
Indices: 12925838--12926050 Score: 290
Period size: 94 Copynumber: 2.3 Consensus size: 94
12925828 TTTGTGCGCC
* *
12925838 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCTAG
** *
12925903 GACATGGCATCGGTGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
*
12925932 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGT-GCTAGTGTAAGA-CATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCTAGTGTAAGACCATGTCTA
*
12925995 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
12926026 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12926051 GCGTCAGCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
92 5 0.05
93 14 0.13
94 71 0.66
95 17 0.16
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCTAG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:12926480 original size:19 final size:19
Alignment explanation
Indices: 12926456--12926511 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
12926446 ATAATCTTCA
12926456 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12926475 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12926494 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
12926512 AGATATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12926537 original size:22 final size:22
Alignment explanation
Indices: 12926456--12926534 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 22
12926446 ATAATCTTCA
12926456 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12926475 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12926494 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
12926516 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
12926535 GATTTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.63
22 8 0.15
23 12 0.22
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:12936379 original size:219 final size:220
Alignment explanation
Indices: 12935808--12936396 Score: 939
Period size: 220 Copynumber: 2.7 Consensus size: 220
12935798 CAGGCTAAAG
* * * * * *
12935808 CATAGTAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATTTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTA
*
12935873 TTGTCAGAGAACAAATCGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
12935938 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* *
12936003 GCGTTGACAAGGAGCAGATCGAAGA
196 GCGTTGACAAGGAGAAAATCGAAGA
* * *
12936028 CATA-TCATATTTGGGTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGAATTGACATCTCTGT
1 CATAGT-AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGT
* * * *
12936092 ACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAAAGTAGATTGAA
65 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
12936157 GACATAGTAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGCAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
*
12936222 TGGGTTGACAA-GAGAAAATCGAAGA
195 TGCGTTGACAAGGAGAAAATCGAAGA
*
12936247 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTA
* * *
12936312 TTGTCAAAAAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCATATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
12936377 ACATAGCAGATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
12936397 ATTGCAGCAG
Statistics
Matches: 335, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
219 148 0.44
220 187 0.56
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTGACAAGGAGAAAATCGAAGA
Found at i:12936467 original size:78 final size:78
Alignment explanation
Indices: 12936338--12936632 Score: 412
Period size: 78 Copynumber: 3.8 Consensus size: 78
12936328 CGAAGAAACA
** * * * * * *
12936338 GATTTGGCATCTCCATATTCGACGGAGAGCATATCGAAGACATAGCAGATCTGACCTTCATTGCA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
12936403 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
12936416 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATTGAAGACACAGCAGATCTGACCTTAATTGAA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
12936481 GCAAATCTAAGAT
66 GCAGATCCAAGAT
* * *
12936494 GATTTGGCATCTCTGTATTAGACGGGGAGTAAATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
12936558 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
12936572 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGACCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCAT
12936633 GTGTTTACAT
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 187 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Done.