Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 42 of 204
Found at i:14345762 original size:16 final size:16
Alignment explanation
Indices: 14345738--14345774 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14345728 ATAAATTATT
*
14345738 AAAAGATTATAAAATA
1 AAAAGATTAAAAAATA
*
14345754 AAAATATTAAAAAATA
1 AAAAGATTAAAAAATA
14345770 AAAAG
1 AAAAG
14345775 CGGTTCAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAAGATTAAAAAATA
Found at i:14346690 original size:21 final size:23
Alignment explanation
Indices: 14346655--14346710 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
14346645 CACTTCAATC
*
14346655 TTTTAATATTGTCATC-TTTAATT
1 TTTTTATATT-TCATCATTTAATT
*
14346678 TTTTTA-ATTTCATCATTTAGTT
1 TTTTTATATTTCATCATTTAATT
14346700 TTTTTATATTT
1 TTTTTATATTT
14346711 ATTACATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 15 0.52
23 9 0.31
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTTTATATTTCATCATTTAATT
Found at i:14356841 original size:18 final size:19
Alignment explanation
Indices: 14356807--14356844 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14356797 AATAATTTTC
14356807 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
14356826 AAAAGTTCAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
14356844 A
1 A
14356845 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:14356851 original size:27 final size:26
Alignment explanation
Indices: 14356804--14356872 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
14356794 AAAAATAATT
* *
14356804 TTCAAAAATTCAAAATATTTATAAAAG
1 TTCAAAAATTTAAAATATTTA-AAAAC
*
14356831 TTCAAAAATTT-ATATATTTTAAAAAC
1 TTCAAAAATTTAAAATA-TTTAAAAAC
*
14356857 TATAAAAAATTTAAAA
1 T-TCAAAAATTTAAAA
14356873 AAAACTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 9 0.26
27 23 0.68
28 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (26 bp):
TTCAAAAATTTAAAATATTTAAAAAC
Found at i:14356892 original size:21 final size:21
Alignment explanation
Indices: 14356851--14356892 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14356841 TATATATTTT
*
14356851 AAAAACTATAAAAAATTTAAA
1 AAAAACTATAAAAAATATAAA
*
14356872 AAAAACTA-AAGAATATATAAA
1 AAAAACTATAA-AAAATATAAA
14356893 GAAAGTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAACTATAAAAAATATAAA
Found at i:14359188 original size:31 final size:30
Alignment explanation
Indices: 14359141--14359198 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
14359131 ATGGTTACTA
*
14359141 AACTGTTCAAAATTTTTCA-TTAAGTCACTG
1 AACTATTCAAAATTTTT-AGTTAAGTCACTG
14359171 AACTATTCAAATATTTTTAGTTAAGTCA
1 AACTATTCAAA-ATTTTTAGTTAAGTCA
14359199 TTGGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (30 bp):
AACTATTCAAAATTTTTAGTTAAGTCACTG
Found at i:14365256 original size:51 final size:50
Alignment explanation
Indices: 14365131--14365256 Score: 137
Period size: 51 Copynumber: 2.5 Consensus size: 50
14365121 ATTGGCATAA
* * * * *
14365131 TAATAATTTTAGCCTTTAAATTTATACATTTTGTCAGTTTAGTCTTAATT
1 TAATAAATTTAGTCTATAAATTTATACATTTTGTCAATTTAATCTTAATT
* * * *
14365181 TAACAAAGTTA-TTTCACAATATTTATACATTTTGTCAATTTAATCTTAATT
1 TAATAAATTTAGTCT-ATAA-ATTTATACATTTTGTCAATTTAATCTTAATT
14365232 TAATAAATTTAGTCTATAACATTTA
1 TAATAAATTTAGTCTATAA-ATTTA
14365257 CATACATATA
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
49 1 0.02
50 10 0.17
51 46 0.78
52 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (50 bp):
TAATAAATTTAGTCTATAAATTTATACATTTTGTCAATTTAATCTTAATT
Found at i:14365778 original size:52 final size:52
Alignment explanation
Indices: 14365691--14365792 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
14365681 TAAAAGCGCC
*
14365691 GCTAAAGAACATGTTCTTTAGCGGCGCTTTATACACAAACGCCGCTAAAGAA
1 GCTAAAGAACATGTTCTTTAGCGGCACTTTATACACAAACGCCGCTAAAGAA
*
14365743 GCTAAAGAACATGTTCTTTAGCGGCACTTTCTACACAAACGCCGCTAAAG
1 GCTAAAGAACATGTTCTTTAGCGGCACTTTATACACAAACGCCGCTAAAG
14365793 TAATGTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (52 bp):
GCTAAAGAACATGTTCTTTAGCGGCACTTTATACACAAACGCCGCTAAAGAA
Found at i:14365801 original size:42 final size:43
Alignment explanation
Indices: 14365743--14365827 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 43
14365733 CGCTAAAGAA
14365743 GCTAAAGAACATGTTCTTTAGCGGCACTTTCTACACAAACGCC
1 GCTAAAGAACATGTTCTTTAGCGGCACTTTCTACACAAACGCC
* * *
14365786 GCTAAAGTA-ATGTTCTTTAGCGGCGCTTTTTACACAAACGCC
1 GCTAAAGAACATGTTCTTTAGCGGCACTTTCTACACAAACGCC
14365828 ACTTTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 31 0.79
43 8 0.21
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
GCTAAAGAACATGTTCTTTAGCGGCACTTTCTACACAAACGCC
Found at i:14366275 original size:66 final size:66
Alignment explanation
Indices: 14366205--14366339 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
14366195 TTCTGTTCTG
* * *
14366205 CTCTGCTTCTCTGGATGCCGCATCAGCTTTAAGTTGTCGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
14366270 C
66 C
* *
14366271 CTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
14366336 C
66 C
14366337 CTC
1 CTC
14366340 AACTGTGGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
CTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
C
Found at i:14371732 original size:9 final size:9
Alignment explanation
Indices: 14371704--14372256 Score: 585
Period size: 9 Copynumber: 61.0 Consensus size: 9
14371694 ATTTGCACGG
14371704 GTAAGTTACT
1 GTAAGTTA-T
*
14371714 -TAATTTAT
1 GTAAGTTAT
14371722 GTAAGTTAT
1 GTAAGTTAT
14371731 GTAAGTTAT
1 GTAAGTTAT
* *
14371740 TTAATTTAT
1 GTAAGTTAT
* *
14371749 ATAGGTTAT
1 GTAAGTTAT
14371758 GTAAGTTAT
1 GTAAGTTAT
***
14371767 GTAACCCATT
1 GTAAGTTA-T
* *
14371777 GAAATTTAT
1 GTAAGTTAT
*
14371786 GTAGGTTAT
1 GTAAGTTAT
14371795 GTAAGTTAT
1 GTAAGTTAT
14371804 GTAAGTTAT
1 GTAAGTTAT
* *
14371813 TTAATTTAT
1 GTAAGTTAT
*
14371822 GCAAGTTTAT
1 GTAAG-TTAT
14371832 GTAAGTTAT
1 GTAAGTTAT
14371841 GTAAGTTACT
1 GTAAGTTA-T
*
14371851 -TAATTTAT
1 GTAAGTTAT
14371859 GTAAGTTAT
1 GTAAGTTAT
14371868 GTAAGTTAT
1 GTAAGTTAT
* *
14371877 TTAATTTAT
1 GTAAGTTAT
*
14371886 GTACGTTAT
1 GTAAGTTAT
14371895 GTAAGTTAT
1 GTAAGTTAT
14371904 GTAAGTTAT
1 GTAAGTTAT
* *
14371913 TTAATTTAT
1 GTAAGTTAT
*
14371922 GCAAGTTTAT
1 GTAAG-TTAT
14371932 GTAAGTTAT
1 GTAAGTTAT
14371941 GTAAGTTACT
1 GTAAGTTA-T
*
14371951 -TAATTTAT
1 GTAAGTTAT
14371959 GTAAGTTAT
1 GTAAGTTAT
14371968 GTAAGTTAT
1 GTAAGTTAT
* *
14371977 TTAATTTAT
1 GTAAGTTAT
*
14371986 GTACGTTAT
1 GTAAGTTAT
14371995 GTAAGTTAT
1 GTAAGTTAT
14372004 GTAAGTTAT
1 GTAAGTTAT
* *
14372013 TTAATTTAT
1 GTAAGTTAT
*
14372022 GCAAGTTTAT
1 GTAAG-TTAT
14372032 GTAAGTTAT
1 GTAAGTTAT
14372041 GTAAGTTAT
1 GTAAGTTAT
*
14372050 GTAGGTTAT
1 GTAAGTTAT
14372059 GTAAGTTAT
1 GTAAGTTAT
14372068 GTAAGTTACT
1 GTAAGTTA-T
* *
14372078 -TAATTTAC
1 GTAAGTTAT
14372086 GTAAGTTAT
1 GTAAGTTAT
*
14372095 GTAGGTTAT
1 GTAAGTTAT
14372104 GTAAGTTAT
1 GTAAGTTAT
14372113 GTAAGTTAT
1 GTAAGTTAT
* *
14372122 TTAATTTAT
1 GTAAGTTAT
* *
14372131 G-CATTTAT
1 GTAAGTTAT
14372139 GTAAGTTAT
1 GTAAGTTAT
*
14372148 GTAGGTTAT
1 GTAAGTTAT
14372157 GTAAGTTAT
1 GTAAGTTAT
14372166 GTAAGTTAT
1 GTAAGTTAT
* *
14372175 TTAATTTAT
1 GTAAGTTAT
*
14372184 GCAAGTTAT
1 GTAAGTTAT
* *
14372193 TTAATTTAT
1 GTAAGTTAT
*
14372202 GCAAGTTTAT
1 GTAAG-TTAT
14372212 GTAAGTTAT
1 GTAAGTTAT
14372221 GTAAGTTAT
1 GTAAGTTAT
*
14372230 TTAAGTTAT
1 GTAAGTTAT
*
14372239 TTAAGTTAT
1 GTAAGTTAT
14372248 GTAAGTTAT
1 GTAAGTTAT
14372257 TGTTTTTGTG
Statistics
Matches: 446, Mismatches: 84, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
8 10 0.02
9 396 0.89
10 40 0.09
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:14371885 original size:100 final size:100
Alignment explanation
Indices: 14371704--14372256 Score: 713
Period size: 100 Copynumber: 5.5 Consensus size: 100
14371694 ATTTGCACGG
* * * * *
14371704 GTAAGTTACTTAATTTATGTAAG-TTATGTAAGTTATTTAATTTATATAGGTTATGTAAGTTATG
1 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTATG
*** * *
14371768 TAACCCATTGAAATTTATGTAGGTTATGTAAGTTAT
66 TAAGTTATT-TAATTTATGTAAGTTATGTAAGTTAT
**
14371804 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTA-TGTAGGTTATGTAAGTTAT
*
14371868 GTAAGTTATTTAATTTATGTACGTTATGTAAGTTAT
65 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
**
14371904 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTA-TGTAGGTTATGTAAGTTAT
*
14371968 GTAAGTTATTTAATTTATGTACGTTATGTAAGTTAT
65 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
14372004 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTATG
1 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTATG
* * *
14372069 TAAGTTACTTAATTTACGTAAGTTATGTAGGTTAT
66 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
* * ** * *
14372104 GTAAGTTATGTAAGTTATTTAA-TTTATG-CATTTATGTAAGTTATGTAGGTTATGTAAGTTATG
1 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTATG
* * *
14372167 TAAGTTATTTAATTTATGCAAGTTATTTAATTTAT
66 TAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
* * * * * * *
14372202 GCAAGTTTATGTAAGTTATGTAAG-TTATTTAAGTTATTTAAGTTATGTAAGTTAT
1 GTAAG-TTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTAT
14372257 TGTTTTTGTG
Statistics
Matches: 411, Mismatches: 36, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
98 66 0.16
99 27 0.07
100 276 0.67
101 41 0.10
102 1 0.00
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (100 bp):
GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTATG
TAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
Found at i:14372308 original size:12 final size:12
Alignment explanation
Indices: 14372291--14372348 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
14372281 CTTTTTTAAT
*
14372291 TTATGTAGGTTA
1 TTATGTAAGTTA
14372303 TTATGTAAGTT-
1 TTATGTAAGTTA
14372314 TT-TGTAAGTTA
1 TTATGTAAGTTA
* *
14372325 TTATGTACGATA
1 TTATGTAAGTTA
*
14372337 CTATGTAAGTTA
1 TTATGTAAGTTA
14372349 GGATATTATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
10 8 0.21
11 4 0.11
12 26 0.68
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:14372455 original size:9 final size:9
Alignment explanation
Indices: 14372441--14372478 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
14372431 ATTATATATT
*
14372441 TAAATTTTG
1 TAAATTATG
14372450 TAAATTATG
1 TAAATTATG
14372459 --AATTATG
1 TAAATTATG
14372466 TAAATTATG
1 TAAATTATG
14372475 TAAA
1 TAAA
14372479 ATACGTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (9 bp):
TAAATTATG
Found at i:14372467 original size:16 final size:16
Alignment explanation
Indices: 14372443--14372474 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14372433 TATATATTTA
*
14372443 AATTTTGTAAATTATG
1 AATTATGTAAATTATG
14372459 AATTATGTAAATTATG
1 AATTATGTAAATTATG
14372475 TAAAATACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
AATTATGTAAATTATG
Found at i:14372668 original size:29 final size:29
Alignment explanation
Indices: 14372627--14372684 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
14372617 CAAAATATAT
14372627 TTTTGGAAATGAAATAGTTGACAAATGGA
1 TTTTGGAAATGAAATAGTTGACAAATGGA
14372656 TTTTGGAAATGAAATAGTTGACAAATGGA
1 TTTTGGAAATGAAATAGTTGACAAATGGA
14372685 AGAAGATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (29 bp):
TTTTGGAAATGAAATAGTTGACAAATGGA
Found at i:14376804 original size:22 final size:21
Alignment explanation
Indices: 14376765--14376805 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
14376755 ACTCTGACTA
14376765 TAAAAACTAAACTCCAAACTT
1 TAAAAACTAAACTCCAAACTT
14376786 TAAAACACTAAA-TCACAAAC
1 TAAAA-ACTAAACTC-CAAAC
14376806 CCAATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACTAAACTCCAAACTT
Found at i:14376907 original size:23 final size:23
Alignment explanation
Indices: 14376832--14376907 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
14376822 TAAACCATAA
*
14376832 ACTATGAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
*
14376855 ACTATAGTAAA-CATTAAACCTTA-A-
1 ACTATA--AAACCCTTAAA-C-TACAT
14376879 ACTATAAAACCCTTAAACTACAT
1 ACTATAAAACCCTTAAACTACAT
14376902 ACTATA
1 ACTATA
14376908 GCCCTTAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 17 0.40
24 12 0.28
25 5 0.12
26 2 0.05
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (23 bp):
ACTATAAAACCCTTAAACTACAT
Found at i:14380953 original size:41 final size:40
Alignment explanation
Indices: 14380908--14381107 Score: 283
Period size: 41 Copynumber: 4.9 Consensus size: 40
14380898 AGGCCTGCGA
* *
14380908 ATTAGCGGCGCATCAACAAAAACGCCGCTAAAGCCCAGAAC
1 ATTAGCGGCGC-TTAATAAAAACGCCGCTAAAGCCCAGAAC
* * * *
14380949 ATTAGCGGCGCTTTACTAAAAAAGCCACTAAATCCCAGAAC
1 ATTAGCGGCGC-TTAATAAAAACGCCGCTAAAGCCCAGAAC
*
14380990 ATTAGCGGCGCTTAAATAAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTT-AATAAAAACGCCGCTAAAGCCCAGAAC
14381031 ATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAAC
1 ATTAGCGGCGCTTA-ATAAAAACGCCGCTAAAGCCCAGAAC
*
14381072 ATTAGCGGCGCTTACATAAAAACACCGCTAAAGCCC
1 ATTAGCGGCGCTTA-ATAAAAACGCCGCTAAAGCCC
14381108 CCGAAAAGTC
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
40 3 0.02
41 142 0.98
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.15
Consensus pattern (40 bp):
ATTAGCGGCGCTTAATAAAAACGCCGCTAAAGCCCAGAAC
Found at i:14380980 original size:82 final size:81
Alignment explanation
Indices: 14380865--14381107 Score: 285
Period size: 82 Copynumber: 3.0 Consensus size: 81
14380855 AAATGAAGAG
** * * * * *
14380865 CATTAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAGGCCTGCGA-ATTAGCGGCGCATCAACAAA
1 CATTAGCGGCGCTTTACTAAAAAA--GCCGCTAAAGCCCAG-AACATTAGCGGCGC-TAAATAAA
14380928 AACGCCGCTAAAGCCCAGAA
62 AACGCCGCTAAAGCCCAGAA
* *
14380948 CATTAGCGGCGCTTTACTAAAAAAGCCACTAAATCCCAGAACATTAGCGGCGCTTAAATAAAAAC
1 CATTAGCGGCGCTTTACTAAAAAAGCCGCTAAAGCCCAGAACATTAGCGGCGC-TAAATAAAAAC
*
14381013 GCCGCTAAATCCCAGAA
65 GCCGCTAAAGCCCAGAA
* *
14381030 CATTAGCGGCGC-TTACATAAAAACGCCGCTAAAGCCCAGAACATTAGCGGCGCTTACATAAAAA
1 CATTAGCGGCGCTTTAC-TAAAAAAGCCGCTAAAGCCCAGAACATTAGCGGCGC-TAAATAAAAA
*
14381094 CACCGCTAAAGCCC
64 CGCCGCTAAAGCCC
14381108 CCGAAAAGTC
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
81 5 0.04
82 114 0.81
83 11 0.08
84 10 0.07
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (81 bp):
CATTAGCGGCGCTTTACTAAAAAAGCCGCTAAAGCCCAGAACATTAGCGGCGCTAAATAAAAACG
CCGCTAAAGCCCAGAA
Found at i:14381016 original size:123 final size:122
Alignment explanation
Indices: 14380832--14381093 Score: 309
Period size: 123 Copynumber: 2.1 Consensus size: 122
14380822 AATTTTTTTT
* * * * * * *
14380832 CGGCGCTTT-CCAAAAATGCCACTAAATGAAGAGCATTAGCGGCGTTTTTTAAAAAAGCGCCGCT
1 CGGCGCTTTACTAAAAAAGCCACTAAATCAAGAACATTAGCGGCG-TCTTAAAAAAAACGCCGCT
* * *
14380896 AAAGGCCTGCGA-ATTAGCGGCGCATCA-ACAAAAACGCCGCTAAAGCCCAGAACATTAG
65 AAAGCCCAG-AACATTAGCGGCGC-TCACACAAAAACGCCGCTAAAGCCCAGAACATTAG
*
14380954 CGGCGCTTTACTAAAAAAGCCACTAAATCCCAGAACATTAGCGGCG-CTTAAATAAAAACGCCGC
1 CGGCGCTTTACTAAAAAAGCCACTAAAT-CAAGAACATTAGCGGCGTCTTAAA-AAAAACGCCGC
* * *
14381018 TAAATCCCAGAACATTAGCGGCGCTTACATAAAAACGCCGCTAAAGCCCAGAACATTAG
64 TAAAGCCCAGAACATTAGCGGCGCTCACACAAAAACGCCGCTAAAGCCCAGAACATTAG
14381077 CGGCGC-TTACATAAAAA
1 CGGCGCTTTAC-TAAAAA
14381094 CACCGCTAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
122 20 0.17
123 86 0.72
124 14 0.12
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (122 bp):
CGGCGCTTTACTAAAAAAGCCACTAAATCAAGAACATTAGCGGCGTCTTAAAAAAAACGCCGCTA
AAGCCCAGAACATTAGCGGCGCTCACACAAAAACGCCGCTAAAGCCCAGAACATTAG
Found at i:14382057 original size:62 final size:60
Alignment explanation
Indices: 14381949--14382064 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
14381939 AATAAAAAAT
*** *
14381949 AAAAAATATAAAAAATATTTATATTTTATATTAAAAATCATAAAAAATTATAAATTCTAC
1 AAAAAATATAAAAAATATTTATAAAATATATTAAAAATCAGAAAAAATTATAAATTCTAC
14382009 AAAAAATCATAAAAATATATTTATAAAATATA-TAGAAATAT-AGAAAAAATTATAAA
1 AAAAAAT-ATAAAAA-ATATTTATAAAATATATTA-AAA-ATCAGAAAAAATTATAAA
14382065 CTTTTATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 7 0.15
61 9 0.19
62 30 0.62
63 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (60 bp):
AAAAAATATAAAAAATATTTATAAAATATATTAAAAATCAGAAAAAATTATAAATTCTAC
Found at i:14382126 original size:11 final size:10
Alignment explanation
Indices: 14382081--14382137 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
14382071 TAAAGTCGTA
14382081 AAAAAATTAT
1 AAAAAATTAT
14382091 AAAAAATGTA-
1 AAAAAAT-TAT
*
14382101 AAGAAA-TAT
1 AAAAAATTAT
14382110 --AAAATTCAT
1 AAAAAATT-AT
14382119 AAAAAATTAT
1 AAAAAATTAT
14382129 -AAAAATTAT
1 AAAAAATTAT
14382138 CGTACCGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 11 0.28
10 14 0.36
11 8 0.21
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:14382132 original size:9 final size:9
Alignment explanation
Indices: 14382082--14382137 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
14382072 AAAGTCGTAA
14382082 AAAAATTAT
1 AAAAATTAT
* *
14382091 AAAAAATGT
1 AAAAATTAT
*
14382100 AAAGAAATAT
1 AAA-AATTAT
14382110 -AAAATTCAT
1 AAAAATT-AT
14382119 AAAAAATTAT
1 -AAAAATTAT
14382129 AAAAATTAT
1 AAAAATTAT
14382138 CGTACCGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 3 0.08
9 23 0.59
10 7 0.18
11 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14382487 original size:22 final size:22
Alignment explanation
Indices: 14382462--14382508 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
14382452 AATTAGGATA
*
14382462 CATTCTGGGAAAATAAAACTTT
1 CATTATGGGAAAATAAAACTTT
14382484 CATTATGGGAAAATAAAACTTT
1 CATTATGGGAAAATAAAACTTT
14382506 CAT
1 CAT
14382509 CAAAGAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (22 bp):
CATTATGGGAAAATAAAACTTT
Found at i:14382858 original size:19 final size:20
Alignment explanation
Indices: 14382848--14382902 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
14382838 TTTATAATTT
14382848 TTTTCTATTTTT-TAATAAA
1 TTTTCTATTTTTATAATAAA
*
14382867 TTTTCTATTTTTATTA-AAA
1 TTTTCTATTTTTATAATAAA
**
14382886 TTTAATAATTTTTATAA
1 TTTTCT-ATTTTTATAA
14382903 CTTTTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTCTATTTTTATAATAAA
Found at i:14392555 original size:31 final size:31
Alignment explanation
Indices: 14392498--14392557 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
14392488 ATCATTCATT
* *
14392498 AAATTATTCAAAAGTTTTCATTTAAGTCACA
1 AAATTATGCAAAAGTTTTCATCTAAGTCACA
14392529 AAATTATGCAAAAG-TTTCTATCTAAGTCA
1 AAATTATGCAAAAGTTTTC-ATCTAAGTCA
14392558 TTAAACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (31 bp):
AAATTATGCAAAAGTTTTCATCTAAGTCACA
Found at i:14403126 original size:7 final size:7
Alignment explanation
Indices: 14403086--14403144 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
14403076 TTTTAAATAA
14403086 AAATATT
1 AAATATT
14403093 AAAT-TT
1 AAATATT
*
14403099 AAAT-TA
1 AAATATT
*
14403105 AAAAATT
1 AAATATT
14403112 ATAATATT
1 A-AATATT
14403120 AAATATTT
1 AAATA-TT
14403128 AAATATT
1 AAATATT
*
14403135 AAAAATT
1 AAATATT
14403142 AAA
1 AAA
14403145 AAAATCTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 10 0.23
7 21 0.48
8 13 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:14407182 original size:2 final size:2
Alignment explanation
Indices: 14407175--14407202 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14407165 CTAAAATGCC
14407175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14407203 AATTTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14408219 original size:2 final size:2
Alignment explanation
Indices: 14408212--14408239 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14408202 AATAATAACA
14408212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14408240 GATTTCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14417254 original size:21 final size:23
Alignment explanation
Indices: 14417228--14417274 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14417218 ATATAAACCT
14417228 TAAAAA-T-ATAAAATAAATATA
1 TAAAAATTCATAAAATAAATATA
*
14417249 TAAAAATTCATAAAATATATATA
1 TAAAAATTCATAAAATAAATATA
14417272 TAA
1 TAA
14417275 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 1 0.04
23 16 0.70
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAATTCATAAAATAAATATA
Found at i:14417312 original size:18 final size:18
Alignment explanation
Indices: 14417253--14417308 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
14417243 AATATATAAA
14417253 AATTCATAAAATATATATAT-
1 AATT-ATAAAA-A-ATATATG
14417273 AA-TATAAAAAATATATG
1 AATTATAAAAAATATATG
*
14417290 GATTATAAAAAAT-TATG
1 AATTATAAAAAATATATG
14417307 AA
1 AA
14417309 ATTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 6 0.19
17 7 0.22
18 16 0.50
19 1 0.03
20 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTATAAAAAATATATG
Found at i:14417955 original size:40 final size:39
Alignment explanation
Indices: 14417825--14417962 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 39
14417815 GCATTTGGAT
*
14417825 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTAC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTCC
** * *
14417865 TTAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTCC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCC
* * *
14417904 AGGAAAGCGCCGCGAAAAAT-GAGCATTAGCGGCGTTTTTCC
1 A-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG--TTTCC
*
14417945 AAAAAACGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
14417963 CCTAAGCCCA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 17 0.21
40 59 0.73
41 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTCC
Found at i:14418051 original size:41 final size:41
Alignment explanation
Indices: 14417994--14418294 Score: 512
Period size: 41 Copynumber: 7.3 Consensus size: 41
14417984 TTTTGACCTT
* *
14417994 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
14418035 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
**
14418076 TTAGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
*
14418117 TCGGGTCTTTAGCAGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
*
14418158 TCGGGTCTTTAGTGGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
*
14418199 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGTCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
* *
14418240 TCGGGTCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
*
14418281 TCGTGTCTTTAGCG
1 TCGGGTCTTTAGCG
14418295 ACTGTAATCA
Statistics
Matches: 244, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 244 1.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
Found at i:14418510 original size:30 final size:30
Alignment explanation
Indices: 14418474--14418573 Score: 114
Period size: 30 Copynumber: 3.3 Consensus size: 30
14418464 AAAAAAACAT
**
14418474 AAATTACATTTTGGCCCCTAAACTTTTCAA
1 AAATTACATTTTAACCCCTAAACTTTTCAA
**
14418504 AAATTACATTCCAACCCCTAAACTTTCTC-A
1 AAATTACATTTTAACCCCTAAACTTT-TCAA
* *
14418534 AAATTTCACTTTAACCCCTAAAC-TTTCTAA
1 AAATTACATTTTAACCCCTAAACTTTTC-AA
14418564 AAATTACATT
1 AAATTACATT
14418574 GTGGCCCCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 51 0.89
31 2 0.04
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAACTTTTCAA
Found at i:14419875 original size:25 final size:25
Alignment explanation
Indices: 14419831--14419898 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 25
14419821 GTATAAACAA
14419831 ATTAT-AAAATATGAAAGTATA-AAT
1 ATTATAAAAATAT-AAAGTATATAAT
14419855 ATTATAAAAATATAAATGTATATAAT
1 ATTATAAAAATATAAA-GTATATAAT
*
14419881 ATATATAAATTATATAAA
1 AT-TATAAA-AATATAAA
14419899 AAAAATATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 8 0.21
25 12 0.32
26 5 0.13
27 6 0.16
28 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTATAAAAATATAAAGTATATAAT
Found at i:14419894 original size:9 final size:10
Alignment explanation
Indices: 14419848--14419898 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 10
14419838 AATATGAAAG
14419848 TATAAATAT-
1 TATAAATATA
14419857 TATAAA-A-A
1 TATAAATATA
*
14419865 TATAAATGTA
1 TATAAATATA
14419875 TAT-AATATA
1 TATAAATATA
14419884 TATAAAT-TA
1 TATAAATATA
14419893 TATAAA
1 TATAAA
14419899 AAAAATATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 7 0.19
9 22 0.61
10 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
TATAAATATA
Found at i:14419960 original size:24 final size:24
Alignment explanation
Indices: 14419928--14419986 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
14419918 ATATACGCAC
* * *
14419928 TATATATATATTTA-AAACATTTA
1 TATATATATATATATTAACATATA
14419951 TATA-ATATATATATTAACATATA
1 TATATATATATATATTAACATATA
14419974 TATATATATATAT
1 TATATATATATAT
14419987 GCACACATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 8 0.26
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATATATATATATTAACATATA
Found at i:14419965 original size:26 final size:23
Alignment explanation
Indices: 14419928--14419986 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
14419918 ATATACGCAC
*
14419928 TATATATATATTTAAAACATTTATA
1 TATATATATATTT--AACATATATA
14419953 TA-ATATATATATTAACATATATA
1 TATATATATAT-TTAACATATATA
14419976 TATATATATAT
1 TATATATATAT
14419987 GCACACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 11 0.35
24 16 0.52
25 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
TATATATATATTTAACATATATA
Found at i:14419996 original size:22 final size:23
Alignment explanation
Indices: 14419949--14419997 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
14419939 TTAAAACATT
* *
14419949 TATATAATATATATATTAACATA
1 TATATAATATATATATGAACACA
*
14419972 TATAT-ATATATATATGCACACA
1 TATATAATATATATATGAACACA
14419994 TATA
1 TATA
14419998 CTCATACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (23 bp):
TATATAATATATATATGAACACA
Found at i:14421146 original size:12 final size:12
Alignment explanation
Indices: 14421131--14421172 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
14421121 AGCAGCCAAA
14421131 AAGAAAGAAGAG
1 AAGAAAGAAGAG
14421143 AAGAAAG-A-A-
1 AAGAAAGAAGAG
*
14421152 AAGAAAAAAGAG
1 AAGAAAGAAGAG
14421164 AAGAAAGAA
1 AAGAAAGAA
14421173 AAGAGAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 2 0.08
12 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAGAG
Found at i:14421150 original size:9 final size:9
Alignment explanation
Indices: 14421136--14421194 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
14421126 CCAAAAAGAA
14421136 AGAAGAGAAG
1 AGAAGA-AAG
14421146 A-AAGAAA-
1 AGAAGAAAG
*
14421153 AGAAAAAAG
1 AGAAGAAAG
14421162 AGAAGAAAG
1 AGAAGAAAG
* *
14421171 AAAAGAGAG
1 AGAAGAAAG
*
14421180 AGAGAGGAAG
1 AGA-AGAAAG
14421190 AGAAG
1 AGAAG
14421195 GGGGCGCGCC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
7 1 0.03
8 7 0.18
9 23 0.59
10 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (9 bp):
AGAAGAAAG
Found at i:14421151 original size:16 final size:16
Alignment explanation
Indices: 14421130--14421194 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
14421120 CAGCAGCCAA
14421130 AAAGAAAGAAGAGAAG
1 AAAGAAAGAAGAGAAG
*
14421146 AAAGAAAAGAA-AAAAG
1 AAAG-AAAGAAGAGAAG
*
14421162 AGAAGAAAGAAAAG-AG
1 A-AAGAAAGAAGAGAAG
* *
14421178 AGAGAGAGGAAGAGAAG
1 AAAGA-AAGAAGAGAAG
14421195 GGGGCGCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.08
16 24 0.62
17 12 0.31
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAGAAG
Found at i:14421154 original size:21 final size:21
Alignment explanation
Indices: 14421129--14421190 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
14421119 ACAGCAGCCA
14421129 AAAAGAAAGAAGAGAAGAAAG
1 AAAAGAAAGAAGAGAAGAAAG
*
14421150 AAAAGAAAAAAGAGAAGAAAG
1 AAAAGAAAGAAGAGAAGAAAG
*
14421171 AAAAGAGAGAGAGAGGAAGA
1 AAAAGAAAGA-AGA-GAAGA
14421191 GAAGGGGGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 28 0.78
22 3 0.08
23 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAAGAGAAGAAAG
Found at i:14421286 original size:9 final size:9
Alignment explanation
Indices: 14421268--14421333 Score: 64
Period size: 10 Copynumber: 7.1 Consensus size: 9
14421258 GTTCAGCCCG
*
14421268 AAGAAGAAA
1 AAGAAAAAA
14421277 AAGAAAAAA
1 AAGAAAAAA
*
14421286 AAG--AAAG
1 AAGAAAAAA
14421293 AAGAAAAAA
1 AAGAAAAAA
14421302 AAGGAAGAAAA
1 AA-GAA-AAAA
14421313 AAGAAGAAAA
1 AAGAA-AAAA
14421323 ATAGAAAAAA
1 A-AGAAAAAA
14421333 A
1 A
14421334 TATCACAGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
7 6 0.12
9 16 0.33
10 17 0.35
11 10 0.20
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:14421294 original size:13 final size:13
Alignment explanation
Indices: 14421268--14421321 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
14421258 GTTCAGCCCG
*
14421268 AAGAAGAAAAAGA
1 AAGAAAAAAAAGA
14421281 AA-AAAAAGAAAG-
1 AAGAAAAA-AAAGA
*
14421293 AAGAAAAAAAAGG
1 AAGAAAAAAAAGA
14421306 AAGAAAAAAGAAGA
1 AAGAAAAAA-AAGA
14421320 AA
1 AA
14421322 AATAGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 10 0.29
13 20 0.57
14 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:14421298 original size:16 final size:16
Alignment explanation
Indices: 14421271--14421333 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
14421261 CAGCCCGAAG
14421271 AAGAAA-AAGAAAAAA
1 AAGAAAGAAGAAAAAA
14421286 AAGAAAGAAGAAAAAA
1 AAGAAAGAAGAAAAAA
14421302 AAG---GAAGAAAAAA
1 AAGAAAGAAGAAAAAA
*
14421315 GAAGAAAAATAGAAAAAA
1 -AAGAAAGA-AGAAAAAA
14421333 A
1 A
14421334 TATCACAGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
13 10 0.24
14 3 0.07
15 6 0.15
16 12 0.29
17 2 0.05
18 8 0.20
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAGAAAAAA
Found at i:14421335 original size:10 final size:10
Alignment explanation
Indices: 14421267--14421333 Score: 70
Period size: 9 Copynumber: 6.9 Consensus size: 10
14421257 GGTTCAGCCC
*
14421267 GAAGAAGAAA
1 GAAGAAAAAA
14421277 -AAGAAAAAA
1 GAAGAAAAAA
*
14421286 -AAGAAAGAA
1 GAAGAAAAAA
14421295 GAA-AAAAAA
1 GAAGAAAAAA
14421304 GGAAGAAAAAA
1 -GAAGAAAAAA
14421315 GAAGAAAAATA
1 GAAGAAAAA-A
14421326 GAA-AAAAA
1 GAAGAAAAA
14421334 TATCACAGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 21 0.42
10 19 0.38
11 10 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (10 bp):
GAAGAAAAAA
Found at i:14421616 original size:15 final size:15
Alignment explanation
Indices: 14421595--14421629 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14421585 AATCTGCAAA
*
14421595 AAAAAAAGAGAAAAAG
1 AAAAAAATA-AAAAAG
14421611 AAAAAAATAAAAAAG
1 AAAAAAATAAAAAAG
14421626 AAAA
1 AAAA
14421630 GGCCCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAAAAATAAAAAAG
Found at i:14421975 original size:20 final size:20
Alignment explanation
Indices: 14421952--14421990 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14421942 GAAAATATTC
14421952 AAAAATCCTCGTGTTTTAAA
1 AAAAATCCTCGTGTTTTAAA
*
14421972 AAAAATTCTCGTGTTTTAA
1 AAAAATCCTCGTGTTTTAA
14421991 TAAGATCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATCCTCGTGTTTTAAA
Found at i:14422284 original size:36 final size:35
Alignment explanation
Indices: 14422172--14422470 Score: 200
Period size: 36 Copynumber: 8.4 Consensus size: 35
14422162 GTGTCGCCAA
* *
14422172 AAAAATTTTCGTTTTTTCTAAAAA-CTTCTGTGTTTC
1 AAAAATTTTCGTGTTTTC-AAAAATTTTC-GTGTTTC
* * * * *
14422208 ATAAATTTTCATGTTCTCAAAAA-TTCCGATG-ATC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCG-TGTTTC
*
14422242 AAAAAAATTTTCGTGTTTTCTAAAAATTTTTGTGTTTC
1 --AAAAATTTTCGTGTTTTC-AAAAATTTTCGTGTTTC
* *
14422280 AAAAATTTTCGTGTTTTCCAAAATTTTCTTGATTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTG-TTTC
* * * *
14422316 AACAATTCTCGTG-TTTCACAAATTTTCGCGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTC
*** *
14422350 AAAAAAAATCGTGTTTTCAAAAAAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTTC----AAAAATTTTCGTGTTTC
* *
14422389 -AAAATTCTT-GTG-TTTC-AAAATTGTCGCGTTTTC
1 AAAAATT-TTCGTGTTTTCAAAAATTTTCGTG-TTTC
* * *
14422422 AAAAATTTTCGTGTTTTTAAGAATTTTCGTGTCTC
1 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTC
* *
14422457 TAAAATTCTCGTGT
1 AAAAATTTTCGTGT
14422471 GTTAAAATTT
Statistics
Matches: 204, Mismatches: 41, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
32 10 0.05
33 6 0.03
34 25 0.12
35 54 0.26
36 71 0.35
37 11 0.05
38 12 0.06
39 15 0.07
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
AAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTC
Found at i:14422285 original size:17 final size:18
Alignment explanation
Indices: 14422172--14422497 Score: 174
Period size: 18 Copynumber: 18.3 Consensus size: 18
14422162 GTGTCGCCAA
*
14422172 AAAAATTTTCGTTTTTTC
1 AAAAATTTTCGTGTTTTC
*
14422190 TAAAAA-CTTC-TGTGTTTC
1 -AAAAATTTTCGTGT-TTTC
* * *
14422208 ATAAATTTTCATGTTCTC
1 AAAAATTTTCGTGTTTTC
* * ***
14422226 AAAAA-TTCCGATGATCAA
1 AAAAATTTTCG-TGTTTTC
14422244 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
14422262 TAAAAATTTTTGTG-TTTC
1 -AAAAATTTTCGTGTTTTC
14422280 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
14422298 CAAAATTTTCTTGATTTC
1 AAAAATTTTCGTGTTTTC
* *
14422316 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
14422333 ACAAATTTTCGCG-TTTC
1 AAAAATTTTCGTGTTTTC
***
14422350 AAAAAAAATCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
14422368 AAAAAAAAATTCTCGTG-TTTC
1 ----AAAAATTTTCGTGTTTTC
14422389 -AAAATTCTT-GTG-TTTC
1 AAAAATT-TTCGTGTTTTC
* *
14422405 -AAAATTGTCGCGTTTTC
1 AAAAATTTTCGTGTTTTC
*
14422422 AAAAATTTTCGTGTTTTT
1 AAAAATTTTCGTGTTTTC
* *
14422440 AAGAATTTTCGTG-TCTC
1 AAAAATTTTCGTGTTTTC
* * *
14422457 TAAAATTCTCGTGTGTT-
1 AAAAATTTTCGTGTTTTC
* * *
14422474 AAAATTTTTTTGTGTTTTT
1 AAAA-ATTTTCGTGTTTTC
14422493 AAAAA
1 AAAAA
14422498 AAATAATAAT
Statistics
Matches: 231, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
15 1 0.00
16 21 0.09
17 66 0.29
18 101 0.44
19 28 0.12
21 4 0.02
22 10 0.04
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:14422392 original size:16 final size:16
Alignment explanation
Indices: 14422373--14422479 Score: 90
Period size: 16 Copynumber: 6.4 Consensus size: 16
14422363 TTTTCAAAAA
14422373 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
14422389 AAAATTCTTGTGTTTC
1 AAAATTCTCGTGTTTC
* *
14422405 AAAATTGTCGCGTTTTC
1 AAAATTCTCGTG-TTTC
* *
14422422 AAAAATTTTCGTGTTTTT
1 -AAAATTCTCGTG-TTTC
* *
14422440 AAGAATTTTCGTGTCTC
1 AA-AATTCTCGTGTTTC
14422457 TAAAATTCTCGTGTGTT-
1 -AAAATTCTCGTGT-TTC
14422474 AAAATT
1 AAAATT
14422480 TTTTTGTGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
16 30 0.40
17 18 0.24
18 27 0.36
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:14422535 original size:18 final size:18
Alignment explanation
Indices: 14422514--14422548 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14422504 TAATTGTCTC
* *
14422514 AAAAATCTTCGTGTTTTA
1 AAAAATATTCGTATTTTA
14422532 AAAAATATTCGTATTTT
1 AAAAATATTCGTATTTT
14422549 GATCGGATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (18 bp):
AAAAATATTCGTATTTTA
Found at i:14423838 original size:15 final size:16
Alignment explanation
Indices: 14423811--14423840 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14423801 CTAACCAAGG
14423811 TTATTTCTTCTTCATT
1 TTATTTCTTCTTCATT
14423827 TTATTT-TTCTTCAT
1 TTATTTCTTCTTCAT
14423841 GCATCGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTCTTCTTCATT
Found at i:14430029 original size:11 final size:10
Alignment explanation
Indices: 14430013--14430048 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
14430003 TATTATACCT
14430013 AAAAAAACAA
1 AAAAAAACAA
14430023 CAAAAAAACAA
1 -AAAAAAACAA
*
14430034 AAAAAAAGAA
1 AAAAAAACAA
14430044 AAAAA
1 AAAAA
14430049 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:14430037 original size:18 final size:18
Alignment explanation
Indices: 14430013--14430059 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
14430003 TATTATACCT
14430013 AAAAAAACAACAAAAAAAC
1 AAAAAAA-AACAAAAAAAC
* *
14430032 AAAAAAAAAGAAAAAAAG
1 AAAAAAAAACAAAAAAAC
14430050 AAAAAGAAAA
1 AAAAA-AAAA
14430060 ATCGAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:14430055 original size:14 final size:14
Alignment explanation
Indices: 14430013--14430060 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14430003 TATTATACCT
14430013 AAAAAAACAACAAAA-
1 AAAAAAA-AA-AAAAG
*
14430028 AAACAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
14430042 AAAAAAAGAAAAAG
1 AAAAAAAAAAAAAG
14430056 AAAAA
1 AAAAA
14430061 TCGAGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 19 0.66
15 6 0.21
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:14431020 original size:75 final size:76
Alignment explanation
Indices: 14430934--14432052 Score: 1413
Period size: 75 Copynumber: 14.5 Consensus size: 76
14430924 CAATTACTAC
*
14430934 TTTTTTCAAAAATCAACTCATAATACGAGAGATGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
*
14430998 TTAATTTATGT
66 TTAATTTCTGT
*
14431009 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATTTT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TT
14431074 TTTTAATTTCTGTT
64 TTTTAATTTCTG-T
*
14431088 TTTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGGTATTT
1 TTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT
14431153 TTTTAAATTTCTG-
64 TTTT-AATTTCTGT
* * * * *
14431166 -TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACATGCCGAGGTATT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-T
14431229 TCTTTTAAATTTCTG-
63 T-TTTT-AATTTCTGT
* * * *
14431244 -TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATT
*
14431308 TTTTAAATTTATGTT
64 TTTT-AATTTCTG-T
14431323 TTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 TTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
*
14431387 TTAAATTTCTGTTTT
65 TTTAATTTCTG---T
14431402 TTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 TTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--T
14431466 TTTTTAATTTCTG-
63 TTTTTAATTTCTGT
14431479 TTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA----
14431543 TTTTAAATTTAATTTCTGT
62 -TTT---TTTAATTTCTGT
*
14431562 CTTTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 -TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
*
14431627 TTTAATTTCT-A
65 TTTAATTTCTGT
14431638 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTT
1 TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
14431702 TTAATTTCTGT
66 TTAATTTCTGT
*
14431713 CATTTTTT-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCATCGGGTCACGCTGAGGTA-T
1 --TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
*
14431776 CTTTAATTTCTGT
64 TTTTAATTTCTGT
*
14431789 CTTTTTT--TAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT
1 -TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
14431851 TTTAATTTCTGT
65 TTTAATTTCTGT
*
14431863 CTTTTTT-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCGCGCTGAGGTA-TT
1 -TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
14431926 TTTAATTTCTGT
65 TTTAATTTCTGT
* * * * * * *
14431938 CTTTTTT--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTCCTATGCCGAGGTGT
1 -TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT-C-ACGCTGAGGTAT
* *
14432001 TTTTCAA--TCTCT
63 TTTTTAATTTCTGT
* ** *
14432013 ATTTTTCAAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TTTTTTCAAAAATCAACTCATAATAC-GAGAGGTGAGTTGA
14432053 ACTTCGAATC
Statistics
Matches: 956, Mismatches: 49, Indels: 77
0.88 0.05 0.07
Matches are distributed among these distances:
74 125 0.13
75 207 0.22
76 188 0.20
77 65 0.07
78 88 0.09
79 91 0.10
80 89 0.09
81 33 0.03
82 11 0.01
84 25 0.03
85 34 0.04
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (76 bp):
TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
TTAATTTCTGT
Found at i:14431685 original size:236 final size:228
Alignment explanation
Indices: 14430917--14431986 Score: 1427
Period size: 236 Copynumber: 4.6 Consensus size: 228
14430907 TTTCAAGAAA
* * *
14430917 TATTTTTCAATTACTACTTTTTTCAAAAATCAACTCATAATACGAGAGATGAGTTGAGCCTCGGG
1 TATTTTTTAATTTCTA-TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
*
14430982 TCACGCTGAGGTATTTTTAATTTATGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTT
65 TCACGCTGAGGTATTTTTAATTTCTG-TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTT
*
14431047 GAGCCTCGGGTCACGTTGAGGTATTTTT-TTTAATTTCTGTTTTTTTTCAAAAAATCAACTCATA
129 GAGCCTCGGGTCACGCTGAGGTATTTTTATTTAATTTCTGTTTTTTTT--AAAAATCAACTCATA
*
14431111 ATACGAGAGGTGAGTTGAGCCTTGGGTCACGCTGAGG
192 ATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * * *
14431148 TATTTTTTTAAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A
1 TA-TTTTTT-AATTTCTATTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
* * * *
14431211 GACACATGCCGAGGTATTTCTTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGG
64 GTCAC--GCTGAGGTA--T-TTTT-AATTTCTGTTTTTTCAAAAATCAACTCATAATACGAGAGG
* * * *
14431275 TGAGTTGAGCCTCAGATCACACGCTGAGGTA-TTTT-TTAAATTTATGTTTTTTTTCAAAAAATC
123 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTATTTAATTTCTGTTTTTTTT--AAAAATC
14431338 AACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
184 AACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* *
14431382 TATTTTTAAATTTCTGTTTTTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
1 TATTTTTTAATTTC----TATTTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
14431446 CGGGTCACGCTGAGGTATTTTTTTTAATTTCTGTTTTTTCAAAAATCAACTCATAATAC-AGAGG
61 CGGGTCACGCTGAGGTA---TTTTTAATTTCTGTTTTTTCAAAAATCAACTCATAATACGAGAGG
14431510 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTAATTTCTGTCTTTTTTTAAAAA
123 TGAGTTGAGCCTCGGGTCACGCTGAGGTA---TTTTT--ATTTAATTTCTGT-TTTTTTTAAAAA
14431575 TCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
182 TCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
14431622 TATTTTTTAATTTCTATTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTATTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
*
14431687 CACGCTGAGGTATTTTTAATTTCTGTCATTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTT
66 CACGCTGAGGTATTTTTAATTTCTGT--TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTT
* *
14431752 GAGCATCGGGTCACGCTGAGGTA----TCTTTAATTTCTGTCTTTTTTT--AAATCAACTCATAA
129 GAGCCTCGGGTCACGCTGAGGTATTTTTATTTAATTTCTGT-TTTTTTTAAAAATCAACTCATAA
14431811 TACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
193 TACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* *
14431847 TA-TTTTTAATTTCTGTCTTTTTTAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTTAATTTCTAT-TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
* * * * *
14431911 TCGCGCTGAGGTATTTTTAATTTCTGTCTTTTT-TAAAATCAACTCATATTGCGAGAAGTGAGTT
65 TCACGCTGAGGTATTTTTAATTTCTGT-TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTT
*
14431975 GAGCCTTGGGTC
129 GAGCCTCGGGTC
14431987 CTATGCCGAG
Statistics
Matches: 760, Mismatches: 46, Indels: 74
0.86 0.05 0.08
Matches are distributed among these distances:
223 37 0.05
224 18 0.02
225 124 0.16
227 20 0.03
229 1 0.00
230 4 0.01
231 43 0.06
232 19 0.03
233 37 0.05
234 78 0.10
235 117 0.15
236 129 0.17
237 31 0.04
238 21 0.03
239 19 0.03
240 55 0.07
241 7 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (228 bp):
TATTTTTTAATTTCTATTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
CACGCTGAGGTATTTTTAATTTCTGTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGA
GCCTCGGGTCACGCTGAGGTATTTTTATTTAATTTCTGTTTTTTTTAAAAATCAACTCATAATAC
GAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
Found at i:14432116 original size:16 final size:16
Alignment explanation
Indices: 14432095--14432125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14432085 TCAGGCTTTG
14432095 AAAAAATATGGACAAA
1 AAAAAATATGGACAAA
*
14432111 AAAAAATTTGGACAA
1 AAAAAATATGGACAA
14432126 TCGAACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAAAATATGGACAAA
Found at i:14432410 original size:30 final size:30
Alignment explanation
Indices: 14432374--14432510 Score: 120
Period size: 30 Copynumber: 4.6 Consensus size: 30
14432364 AAAAAAACAT
**
14432374 AAATTACATTTTGGCCCCTAAACTTTTCAA
1 AAATTACATTTTAACCCCTAAACTTTTCAA
**
14432404 AAATTACATTCCAACCCCTAAACTTTCTC-A
1 AAATTACATTTTAACCCCTAAACTTT-TCAA
* *
14432434 AAATTTCACTTTAACCCCTAAAC-TTTCTAA
1 AAATTACATTTTAACCCCTAAACTTTTC-AA
** * *
14432464 AAATTACATTTTGGCCCC-ATA-TTTTCCTA
1 AAATTACATTTTAACCCCTAAACTTTT-CAA
*
14432493 AAATTACATTTTTACCCC
1 AAATTACATTTTAACCCC
14432511 AAATATTTAG
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.02
29 24 0.28
30 58 0.67
31 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTAACCCCTAAACTTTTCAA
Found at i:14433024 original size:21 final size:20
Alignment explanation
Indices: 14432998--14433061 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 20
14432988 GTTCAGCCTG
14432998 AAGAAGAAAAAGAAAAAAAGA
1 AAGAAGAAAAAGAAAAAAA-A
14433019 AAGAAGAAAAA-AAGGAAGAAAA
1 AAGAAGAAAAAGAA--AA-AAAA
14433041 AAGAAGAAAAATAGAAAAAAA
1 AAGAAG-AAAA-AGAAAAAAA
14433062 TCACAGTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
20 2 0.05
21 11 0.30
22 12 0.32
23 9 0.24
24 1 0.03
25 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (20 bp):
AAGAAGAAAAAGAAAAAAAA
Found at i:14433062 original size:10 final size:10
Alignment explanation
Indices: 14432998--14433061 Score: 60
Period size: 11 Copynumber: 6.1 Consensus size: 10
14432988 GTTCAGCCTG
14432998 AAGAAG-AAA
1 AAGAAGAAAA
*
14433007 AAGAAAAAAAGA
1 AAG-AAGAAA-A
14433019 AAGAAGAAAAA
1 AAGAAG-AAAA
14433030 AAGGAAGAAAA
1 AA-GAAGAAAA
14433041 AAGAAGAAAA
1 AAGAAGAAAA
14433051 ATAGAA-AAAA
1 A-AGAAGAAAA
14433061 A
1 A
14433062 TCACAGTCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
9 3 0.06
10 16 0.34
11 17 0.36
12 11 0.23
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAGAAGAAAA
Found at i:14433351 original size:17 final size:17
Alignment explanation
Indices: 14433326--14433368 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
14433316 CCCAATCTGC
14433326 AAAA-AAAAAAAAAGAGA
1 AAAAGAAAAAAAAAGA-A
14433343 AAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
14433360 AAAAGAAAA
1 AAAAGAAAA
14433369 GGCCCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:14434038 original size:18 final size:18
Alignment explanation
Indices: 14433990--14434223 Score: 148
Period size: 18 Copynumber: 13.2 Consensus size: 18
14433980 ATCAAAATTT
*
14433990 TTTTTGTGTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
14434009 -CTTC-TGTGTTTCAAAAA
1 TTTTCGTGT-TTTCAAAAA
*
14434026 TTTTCGTGTTTTCCAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
14434044 TTTTCTTGATTTCAACAA
1 TTTTCGTGTTTTCAAAAA
* *
14434062 TTCTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
14434079 TTTTCGCG-TTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
***
14434097 AAATCGTGTTTTCAAAAAAAA
1 TTTTCGTGTTTTC---AAAAA
14434118 TTTCTCGTG-TTTC-AAAA
1 TTT-TCGTGTTTTCAAAAA
*
14434135 TTCTCGTG-TTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
*
14434151 TTGTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
14434169 TTTTCGTGTTTTTAAGAA
1 TTTTCGTGTTTTCAAAAA
* * *
14434187 TTTCCGTG-TCTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
14434204 TTCTCGTGTTTT--AAAA
1 TTTTCGTGTTTTCAAAAA
14434220 TTTT
1 TTTT
14434224 TTTTGTGTTT
Statistics
Matches: 168, Mismatches: 36, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
16 27 0.16
17 46 0.27
18 73 0.43
19 7 0.04
21 10 0.06
22 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:14438139 original size:91 final size:91
Alignment explanation
Indices: 14438019--14438272 Score: 352
Period size: 91 Copynumber: 2.8 Consensus size: 91
14438009 GTAAATTTAA
* * *
14438019 GTGTTTAAATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTAAAGTATTT-AGTTGCTGGAA
1 GTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTAAAGTATTTAAG-TGCTGCAA
14438082 ATTG-AGATGTTTTATCACTGTAATTGAG
64 ATTGAAG-TGTTTTATCACTGTAATTGAG
* *
14438110 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTAAAGTATTTAAGTGCTGCAAAT
*
14438175 TGAAGTGTTTTATCGCTGTAATTGAG
66 TGAAGTGTTTTATCACTGTAATTGAG
** * * * *
14438201 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATGGAAGTGTTTAAATGTTGTAAAT
1 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTAAAGTATTTAAGTGCTGCAAAT
14438266 TGAAGTG
66 TGAAGTG
14438273 GTTAAGTGCT
Statistics
Matches: 150, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
91 145 0.97
92 5 0.03
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (91 bp):
GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTAAAGTATTTAAGTGCTGCAAAT
TGAAGTGTTTTATCACTGTAATTGAG
Found at i:14438197 original size:22 final size:23
Alignment explanation
Indices: 14438011--14438852 Score: 509
Period size: 23 Copynumber: 36.9 Consensus size: 23
14438001 GTGGGTTTGT
* * * *
14438011 AAATTTAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
14438034 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* * *
14438057 AAATTAAAGTATTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
* *
14438080 AAATTG-AGATGTTTTA-TCACTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
14438102 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438125 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
14438148 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438171 AAATTGAAGTGTTTTA-TCGCTG-
1 AAATTGAAGTGTTTAAGT-GCTGC
* * * * * *
14438193 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438216 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * *
14438239 AAATGGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438262 AAATTGAAGTGGTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438285 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
*
14438308 AAATTG-AGATGTTTTA-T-C-GC
1 AAATTGAAG-TGTTTAAGTGCTGC
* * * ** *
14438328 TATAATTGAGGTGTATAAATATTGT
1 -A-AATTGAAGTGTTTAAGTGCTGC
* *
14438353 TAATTGATA-TGTTTAAGTACTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * * *
14438376 AAATTTAAGTGTTTAAATACTGT
1 AAATTGAAGTGTTTAAGTGCTGC
14438399 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
14438422 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
14438445 AAATTGAAGTATTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
*
14438468 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
14438490 TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438513 TAATTGATA-TGTTTAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
*
14438536 AAATTTAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438559 AAATTGAAGTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
* *
14438582 AAATTG-AGATGTTTTATTGCTG-
1 AAATTGAAG-TGTTTAAGTGCTGC
* * * * *
14438604 TAATT-AAGGTGTATAAATGTTGT
1 AAATTGAA-GTGTTTAAGTGCTGC
* *
14438627 TAATTGATA-TGTTT-ACTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* *
14438649 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438672 AAATTGAAGCGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438695 AAATTGAAGTGTTTAAGTGCTAC
1 AAATTGAAGTGTTTAAGTGCTGC
* *
14438718 AAATTGAATTGTTT-AGTTGCTGG
1 AAATTGAAGTGTTTAAG-TGCTGC
*
14438741 AAATTG-AGATGTTTTA-TCGCTG-
1 AAATTGAAG-TGTTTAAGT-GCTGC
* * * * * *
14438763 TAATTGATGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* * * * *
14438786 TAATTGATGTGTTAAAGTGTTAC
1 AAATTGAAGTGTTTAAGTGCTGC
* * *
14438809 AAACTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
14438832 AAATTGAAGTGTTAAAGTGCT
1 AAATTGAAGTGTTTAAGTGCT
14438853 ACTTTCCATT
Statistics
Matches: 643, Mismatches: 125, Indels: 102
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.00
21 3 0.00
22 121 0.19
23 510 0.79
24 6 0.01
25 2 0.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGC
Found at i:14438257 original size:137 final size:137
Alignment explanation
Indices: 14438103--14438731 Score: 774
Period size: 137 Copynumber: 4.6 Consensus size: 137
14438093 TTATCACTGT
* * * *
14438103 AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
1 AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTG
14438167 CTGCAAATTGAAGTGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
65 CTGCAAATTGAAGTGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAA
14438232 GTGCTGCA
130 GTGCTGCA
* * *
14438240 AATGGAAGTGTTTAAATGTTGTAAATTGAAGTGGTTAAGTGCTGCAAATTGAAGTGTTT-AGTTG
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-TG
* * *
14438304 CTGGAAATTG-AGATGTTTTATCGCTATAATTGAGGTGTATAAATATTGTTAATTGATATGTTTA
65 CTGCAAATTGAAG-TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTA
*
14438368 AGTACTGCA
129 AGTGCTGCA
* *
14438377 AATTTAAGTGTTTAAATACTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
* * * * ** * ** *
14438442 TGCAAATTGAAGT-ATTTAGTTGCTGGAAATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTAT
66 TGCAAATTGAAGTGTTTTA-TCGCT-GTAATTGAGGTGTATAAAT-GTTGTTAATTGATATGTTT
* * **
14438504 AAATGTTGTT
128 AAGTGCTGCA
* * *
14438514 AATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTT
1 AATTGA-AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAG-T
* * *
14438577 GCTGGAAATTG-AGATGTTTTATTGCTGTAATTAAGGTGTATAAATGTTGTTAATTGATATGTTT
64 GCTGCAAATTGAAG-TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTT
*
14438641 -ACTGCTGCA
128 AAGTGCTGCA
*
14438650 AATTGAAGTGTTTAAATGCTGTAAATTGAAGCGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
1 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
* *
14438715 TACAAATTGAATTGTTT
66 TGCAAATTGAAGTGTTT
14438732 AGTTGCTGGA
Statistics
Matches: 416, Mismatches: 59, Indels: 35
0.82 0.12 0.07
Matches are distributed among these distances:
135 1 0.00
136 99 0.24
137 295 0.71
138 21 0.05
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.40
Consensus pattern (137 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGC
TGCAAATTGAAGTGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAG
TGCTGCA
Found at i:14438391 original size:160 final size:160
Alignment explanation
Indices: 14438225--14438588 Score: 593
Period size: 160 Copynumber: 2.3 Consensus size: 160
14438215 TTAATTGATA
* * *
14438225 TGTTTAAGTGCTGCAAATGGAAGTGTTTAAATGTTGTAAATTGAAGTGGTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGGTTAAGTGCTGCAAATT
*
14438290 GAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTATAATTGAGGTGTATAAATATTGTTA
66 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTATAATTGAGGTGTATAAATATTGTTA
14438355 ATTGATATGTTTAAGTACTGCAAATTTAAG
131 ATTGATATGTTTAAGTACTGCAAATTTAAG
* * * * *
14438385 TGTTTAAATACTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGGTTAAGTGCTGCAAATT
* *
14438450 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
66 GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTATAATTGAGGTGTATAAATATTGTTA
*
14438515 ATTGATATGTTTAAGTGCTGCAAATTTAAG
131 ATTGATATGTTTAAGTACTGCAAATTTAAG
** *
14438545 TGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGA
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGA
14438589 GATGTTTTAT
Statistics
Matches: 186, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
160 186 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (160 bp):
TGTTTAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGGTTAAGTGCTGCAAATT
GAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTATAATTGAGGTGTATAAATATTGTTA
ATTGATATGTTTAAGTACTGCAAATTTAAG
Found at i:14438507 original size:114 final size:114
Alignment explanation
Indices: 14438400--14438680 Score: 476
Period size: 114 Copynumber: 2.5 Consensus size: 114
14438390 AAATACTGTA
14438400 AATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTG
1 AATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTG
*
14438464 CTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
65 CTGGAAATTGAGATGTTTTATCGCTGTAATTAAGGTGTATAAATGTTGTT
* *
14438514 AATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGC
1 AATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGC
*
14438579 TGGAAATTGAGATGTTTTATTGCTGTAATTAAGGTGTATAAATGTTGTT
66 TGGAAATTGAGATGTTTTATCGCTGTAATTAAGGTGTATAAATGTTGTT
* * *
14438628 AATTGATATGTTT-ACTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
1 AATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAG
14438681 CGTTTAAGTG
Statistics
Matches: 158, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
113 36 0.23
114 121 0.77
115 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (114 bp):
AATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGC
TGGAAATTGAGATGTTTTATCGCTGTAATTAAGGTGTATAAATGTTGTT
Found at i:14439849 original size:43 final size:43
Alignment explanation
Indices: 14439756--14440002 Score: 331
Period size: 43 Copynumber: 5.8 Consensus size: 43
14439746 TTTTCGTGAC
* * **
14439756 CTTTAGTGGCGTTTTTGGGGAAAGCGCCGCTAAA-GT--TGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
* *
14439796 CTTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
* *
14439839 CTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
* * * *
14439882 CTTTAGCGGCGTTTGTGTAAAATGTGTCGCTAAAGGTCATGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
* *
14439925 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
14439968 CTTTAGCGGCGTTTGTAGG-AAAAGCGCCGCTAAAG
1 CTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAG
14440003 TTAGCGACAC
Statistics
Matches: 182, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
40 29 0.16
41 2 0.01
43 149 0.82
44 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
Found at i:14447358 original size:31 final size:31
Alignment explanation
Indices: 14447263--14447383 Score: 90
Period size: 31 Copynumber: 3.9 Consensus size: 31
14447253 AATATATTTA
* *
14447263 TTTTTAAA-ATTTAAAATATTTTT-ACATAC-
1 TTTTTAAATTTTTAAAA-ATTTTTAAAATACT
* *** *
14447292 TTTTTAATTTTTTAAAAATACTTTT-TTTTAAT
1 TTTTTAAATTTTTAAAAAT--TTTTAAAATACT
*
14447324 TTTTTTAA-TTTTAAAATATTTTTAAAATACT
1 TTTTTAAATTTTTAAAA-ATTTTTAAAATACT
*
14447355 TTTTTAAATTTTTTAAAATTTTTAAAATA
1 TTTTTAAATTTTTAAAAATTTTTAAAATA
14447384 AAAATGGGCC
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
29 9 0.13
30 11 0.15
31 36 0.51
32 15 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTAAATTTTTAAAAATTTTTAAAATACT
Found at i:14447363 original size:12 final size:11
Alignment explanation
Indices: 14447332--14447383 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
14447322 ATTTTTTTAA
14447332 TTTTAAAATAT
1 TTTTAAAATAT
14447343 TTTTAAAATACT
1 TTTTAAAATA-T
*
14447355 TTTTTAAAT-T
1 TTTTAAAATAT
14447365 TTTT-AAA-AT
1 TTTTAAAATAT
14447374 TTTTAAAATA
1 TTTTAAAATA
14447384 AAAATGGGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 8 0.22
10 8 0.22
11 11 0.31
12 9 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14447368 original size:41 final size:43
Alignment explanation
Indices: 14447300--14447383 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
14447290 ACTTTTTAAT
* **
14447300 TTTTTAAAAATACTTTTTTTTAATTTTTTTAA-TTTTAAAATA
1 TTTTTAAAAATACTTTTTTTAAATTTTTAAAATTTTTAAAATA
14447342 TTTTT-AAAATAC-TTTTTTAAATTTTTTAAAATTTTTAAAATA
1 TTTTTAAAAATACTTTTTTTAAA-TTTTTAAAATTTTTAAAATA
14447384 AAAATGGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 8 0.22
41 14 0.38
42 15 0.41
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (43 bp):
TTTTTAAAAATACTTTTTTTAAATTTTTAAAATTTTTAAAATA
Found at i:14450500 original size:25 final size:25
Alignment explanation
Indices: 14450471--14450551 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
14450461 AGACACACCA
* *
14450471 CAGCTCTCATGAGCTTCTCGATACTT
1 CAGCTCGCATGAGCTTCCCGATA-TT
*
14450497 -AGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGATATT
*
14450521 CAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGATATT
14450546 CAGCTC
1 CAGCTC
14450552 AGAGGAGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
24 2 0.04
25 49 0.96
ACGTcount: A:0.17, C:0.32, G:0.19, T:0.32
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCGATATT
Found at i:14450559 original size:25 final size:25
Alignment explanation
Indices: 14450471--14450567 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
14450461 AGACACACCA
* * * *
14450471 CAGCTCTCATGAGCTTCTCGATACTT
1 CAGCTCGCAGGAGCTTCCCGTTA-TT
*
14450497 -AGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCAGGAGCTTCCCGTTATT
*
14450521 CAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCAGGAGCTTCCCGTTATT
*
14450546 CAGCTCAG-AGGAGCTTCTCGTT
1 CAGCTC-GCAGGAGCTTCCCGTT
14450568 TATAGCTCGT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.03
25 61 0.95
26 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (25 bp):
CAGCTCGCAGGAGCTTCCCGTTATT
Found at i:14450560 original size:50 final size:50
Alignment explanation
Indices: 14450471--14450583 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
14450461 AGACACACCA
* * *
14450471 CAGCTCTCATGAGCTTCTCGATACTTAGCTCGCATGAGCTTCCCG-TTATT
1 CAGCTCGCATGAGCTTCCCGATACTTAGCTCGCAGGAGCTTCCCGTTTA-T
* *
14450521 CAGCTCGCATGAGCTTCCCGTTA-TTCAGCTCAG-AGGAGCTTCTCGTTTAT
1 CAGCTCGCATGAGCTTCCCGATACTT-AGCTC-GCAGGAGCTTCCCGTTTAT
*
14450571 -AGCTCGTATGAGC
1 CAGCTCGCATGAGC
14450584 ATACATGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
49 14 0.26
50 36 0.67
51 4 0.07
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (50 bp):
CAGCTCGCATGAGCTTCCCGATACTTAGCTCGCAGGAGCTTCCCGTTTAT
Found at i:14452883 original size:17 final size:18
Alignment explanation
Indices: 14452850--14452883 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14452840 TGTGGTATCA
*
14452850 ATACCACCTGGAAAAATG
1 ATACCACCTGCAAAAATG
14452868 ATACCACCT-CAAAAAT
1 ATACCACCTGCAAAAAT
14452884 TATCGGTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.18
Consensus pattern (18 bp):
ATACCACCTGCAAAAATG
Found at i:14453714 original size:39 final size:38
Alignment explanation
Indices: 14453590--14453715 Score: 103
Period size: 39 Copynumber: 3.2 Consensus size: 38
14453580 GTTCACTTTT
* * * *
14453590 AAGCATATATCA-TATTACACATATAATCACCTAACTTAC
1 AAGCATATATCACCA-TACTCATAAAATCACATAACTT-C
* *
14453629 AAGCATATATCACCATACTCATAAAATCTCATAACGTTT
1 AAGCATATATCACCATACTCATAAAATCACATAAC-TTC
* * *
14453668 GAGCATATGTCA-CATTACTCGTAAAATCACATAACATTC
1 AAGCATATATCACCA-TACTCATAAAATCACATAAC-TTC
*
14453707 AAACATATA
1 AAGCATATA
14453716 CCACAATAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
38 2 0.03
39 64 0.93
40 3 0.04
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (38 bp):
AAGCATATATCACCATACTCATAAAATCACATAACTTC
Found at i:14459805 original size:28 final size:28
Alignment explanation
Indices: 14459760--14459835 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 28
14459750 AATTATAAAT
14459760 TTTTAAAAGAATTAAATTATAGAA-TTATTTC
1 TTTTAAAA-AA-TAAATTAT-GAATTTA-TTC
*
14459791 TTTTAAAAAAT-AATTATGAATTTATTG
1 TTTTAAAAAATAAATTATGAATTTATTC
14459818 TTTTAAAGAAATCAAATT
1 TTTTAAA-AAAT-AAATT
14459836 TTAATTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
27 12 0.30
28 13 0.32
29 1 0.03
30 6 0.15
31 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (28 bp):
TTTTAAAAAATAAATTATGAATTTATTC
Found at i:14459821 original size:27 final size:29
Alignment explanation
Indices: 14459760--14459835 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 29
14459750 AATTATAAAT
14459760 TTTTAAAAGAATTAAATTATAGAATTATTTC
1 TTTTAAAA-AA-TAAATTATAGAATTATTTC
*
14459791 TTTTAAAAAAT-AATTAT-GAATT-TATTG
1 TTTTAAAAAATAAATTATAGAATTAT-TTC
14459818 TTTTAAAGAAATCAAATT
1 TTTTAAA-AAAT-AAATT
14459836 TTAATTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 1 0.03
27 14 0.35
28 10 0.25
29 1 0.03
30 6 0.15
31 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTAAAAAATAAATTATAGAATTATTTC
Found at i:14460686 original size:7 final size:7
Alignment explanation
Indices: 14460674--14460698 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14460664 GTTTACTATT
14460674 TTTCTTA
1 TTTCTTA
14460681 TTTCTTA
1 TTTCTTA
14460688 TTTCTTA
1 TTTCTTA
14460695 TTTC
1 TTTC
14460699 AAAACCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTTA
Found at i:14461510 original size:14 final size:15
Alignment explanation
Indices: 14461488--14461564 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
14461478 CAATCAAACA
14461488 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
14461502 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
14461517 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
14461537 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
14461551 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
14461565 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:14461529 original size:20 final size:20
Alignment explanation
Indices: 14461504--14461543 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14461494 AATATTTTCC
*
14461504 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
14461524 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
14461544 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:14461549 original size:34 final size:35
Alignment explanation
Indices: 14461492--14461558 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14461482 CAAACACCAG
*
14461492 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
14461527 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
14461559 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14464691 original size:29 final size:31
Alignment explanation
Indices: 14464634--14464694 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
14464624 TAGGTGACTA
*
14464634 ATTTGTCACTTTTCATAAATATTAGTAACTG
1 ATTTATCACTTTTCATAAATATTAGTAACTG
*
14464665 ATTTATCACTTTTGA-AAAT-TTAGTAACTG
1 ATTTATCACTTTTCATAAATATTAGTAACTG
14464694 A
1 A
14464695 AATGTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.39
30 4 0.14
31 13 0.46
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
ATTTATCACTTTTCATAAATATTAGTAACTG
Found at i:14479770 original size:19 final size:19
Alignment explanation
Indices: 14479746--14479839 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
14479736 AATTTTTGAG
14479746 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14479765 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
14479784 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14479803 GATATATACAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
14479824 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
14479840 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 50 0.74
21 18 0.26
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14479826 original size:40 final size:38
Alignment explanation
Indices: 14479746--14479839 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 38
14479736 AATTTTTGAG
*
14479746 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCCTAGATAT
*
14479784 GATATGCAATCTTAGATATGATATATACAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATACAATCCTAGATAT
*
14479824 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
14479840 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
38 20 0.39
40 31 0.61
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCCTAGATAT
Found at i:14479865 original size:22 final size:22
Alignment explanation
Indices: 14479818--14479862 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14479808 ATACAATCTT
*
14479818 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTCAGA
*
14479840 AGATATGATTTTGTAATCTCAGA
1 AGATATGA-TATGTAATCTCAGA
14479863 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTCAGA
Found at i:14479872 original size:22 final size:23
Alignment explanation
Indices: 14479828--14479872 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14479818 AGATATGATA
* *
14479828 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTCAGAAGATATAATTT
*
14479851 TGTAATCTCAG-AGATTTAATTT
1 TGTAATCTCAGAAGATATAATTT
14479873 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTCAGAAGATATAATTT
Found at i:14480507 original size:23 final size:25
Alignment explanation
Indices: 14480453--14480501 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
14480443 TGTACACATA
14480453 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAACGAATATTTTCC
*
14480478 TATATTTTTTTAATGAATATTTTC
1 TATATTTTTTTAACGAATATTTTC
14480502 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTTTTTTAACGAATATTTTCC
Found at i:14481301 original size:98 final size:98
Alignment explanation
Indices: 14481168--14481364 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
14481158 TTAAAAATAA
* *
14481168 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
14481233 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
* * *
14481266 TAAATGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTTTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
14481331 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
14481364 T
1 T
14481365 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
Found at i:14494307 original size:7 final size:7
Alignment explanation
Indices: 14494295--14494319 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14494285 AGTCGATTGA
14494295 TATTTAG
1 TATTTAG
14494302 TATTTAG
1 TATTTAG
14494309 TATTTAG
1 TATTTAG
14494316 TATT
1 TATT
14494320 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:14494996 original size:18 final size:18
Alignment explanation
Indices: 14494969--14495004 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14494959 CAGGTGCGTT
*
14494969 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
14494987 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
14495005 CCCTTTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:14495288 original size:21 final size:20
Alignment explanation
Indices: 14495264--14495311 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
14495254 AGATGTCGTA
* *
14495264 CCGGAAGAACCAGAATCCCCG
1 CCGGAAGAACAACAA-CCCCG
*
14495285 CCGGAGGAACAACAACCCCG
1 CCGGAAGAACAACAACCCCG
14495305 CCGGAAG
1 CCGGAAG
14495312 CTAGAGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.33, C:0.38, G:0.27, T:0.02
Consensus pattern (20 bp):
CCGGAAGAACAACAACCCCG
Found at i:14495559 original size:23 final size:23
Alignment explanation
Indices: 14495529--14496151 Score: 501
Period size: 23 Copynumber: 27.1 Consensus size: 23
14495519 AATACCCTTA
14495529 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
14495552 AATTAAAAAACCTTAAACCCTAA---
1 AATT-AAAAACCCT-AA-CCTAATTT
* ***
14495575 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
14495597 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* * *
14495621 AATTAAAAACCATAAACCCTAAACCCTA
1 AATTAAAAACCCT-AA-CCT-AA--TTT
*
14495649 AACTTAAAAATCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
*
14495673 AATTAAAAACTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
14495695 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
14495718 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
14495740 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
14495763 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
14495785 AATTAAAAATCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
14495808 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
14495830 ACTTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
14495853 AATTAAAAACCCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
*
14495875 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
14495899 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
14495921 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
14495944 AATTAAAATCCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
***
14495967 AATTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
14495989 AACTTAAAAACCCTAGCCTAA-TT
1 AA-TTAAAAACCCTAACCTAATTT
* *
14496012 AACTTAAAAACTCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
14496036 AATTAAAAACTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
14496058 ACTTAAAAACCCTAATCTAATTA
1 AATTAAAAACCCTAACCTAATTT
*
14496081 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
14496103 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
14496126 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
14496149 AAT
1 AAT
14496152 AATTTTACTT
Statistics
Matches: 490, Mismatches: 56, Indels: 108
0.75 0.09 0.17
Matches are distributed among these distances:
20 36 0.07
21 16 0.03
22 96 0.20
23 240 0.49
24 37 0.08
25 39 0.08
26 9 0.02
27 3 0.01
28 5 0.01
29 9 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:14495693 original size:45 final size:45
Alignment explanation
Indices: 14495634--14496142 Score: 708
Period size: 45 Copynumber: 11.2 Consensus size: 45
14495624 TAAAAACCAT
*
14495634 AAACCCTAAACCCTAAACTTAAAAATCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
*
14495679 AAACTCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
14495724 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
* * *
14495769 AAACCCTAAACCCTAAAATTAAAAATCCTAACCTAATTAAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
*
14495814 AAACCCTAAACCCTAAACTTAAAAATCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
*
14495859 AAACCCT-AA-CCTAATTAACTTAAAAACCCTAACCTAATTAAATTAA
1 AAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAA
14495905 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
* * ***
14495950 AATCCCT-AA-CCTAATTAAATTAAAAACCCTAACC-CCCTTAACTTAA
1 AAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAA-TTAA
* * *
14495996 AAACCCT--AGCCTAATTAACTTAAAAACTCTAACCTAATTAAATTAA
1 AAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAA
* * *
14496042 AAACTCTAAACCCTAAACTTAAAAACCCTAATCTAATTAAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
*
14496087 AAACCTTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
14496132 AAACCCTAAAC
1 AAACCCTAAAC
14496143 TAAATTAATA
Statistics
Matches: 419, Mismatches: 32, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
43 6 0.01
44 6 0.01
45 298 0.71
46 95 0.23
47 7 0.02
48 7 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (45 bp):
AAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAA
Found at i:14495731 original size:90 final size:90
Alignment explanation
Indices: 14495577--14496142 Score: 748
Period size: 90 Copynumber: 6.2 Consensus size: 90
14495567 AACCCTAAAC
* * *
14495577 TTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTA
1 TTAAAAACCCTAA-ACCCTAAACTTAAAAACCCTAACCTAATTAAATT----A--A-AAACCCTA
*
14495642 AACCCTAAACTTAAAAATCCTAACCTAATTTAA
58 AACCCTAAACTTAAAAACCCTAACCTAATTTAA
* *
14495675 TTAAAAACTCTAAACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 TTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA
14495740 ACTTAAAAACCCTAACCTAATTTAA
66 ACTTAAAAACCCTAACCTAATTTAA
* *
14495765 TTAAAAACCCTAAACCCTAAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA
1 TTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA
*
14495830 ACTTAAAAATCCTAACCTAATTTAA
66 ACTTAAAAACCCTAACCTAATTTAA
14495855 TTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
1 TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
14495918 TAAACTTAAAAACCCTAACCTAATTTAA
63 TAAACTTAAAAACCCTAACCTAATTTAA
* * *** * *
14495946 TTAAAATCCCT-AA-CCTAATTAAATTAAAAACCCTAACCCCCTTAACTTAAAAACCCT--AGCC
1 TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
* *
14496007 TAATTAACTTAAAAACTCTAACCTAATTAAA
63 T-A--AACTTAAAAACCCTAACCTAATTTAA
* * *
14496038 TTAAAAACTCTAAACCCTAAACTTAAAAACCCTAATCTAATTAAATTAAAAACCTTAAACCCTAA
1 TTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA
14496103 ACTTAAAAACCCTAACCTAATTTAA
66 ACTTAAAAACCCTAACCTAATTTAA
14496128 TTAAAAACCCTAAAC
1 TTAAAAACCCTAAAC
14496143 TAAATTAATA
Statistics
Matches: 424, Mismatches: 34, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
88 3 0.01
89 7 0.02
90 175 0.41
91 150 0.35
92 34 0.08
93 8 0.02
94 3 0.01
97 32 0.08
98 12 0.03
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (90 bp):
TTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA
ACTTAAAAACCCTAACCTAATTTAA
Found at i:14495769 original size:68 final size:67
Alignment explanation
Indices: 14495531--14496145 Score: 471
Period size: 68 Copynumber: 8.9 Consensus size: 67
14495521 TACCCTTAAA
* * * *
14495531 TTAAAAACCCTAACCTAATTTAATTAAAAAACCTTAAACCCTAA--ACTTAAAAACCCTAACCCC
1 TTAAAAACCCTAACCTAATTAAATT-AAAAACCCT-AA-CCTAATTAATTAAAAACCCTAA-CCT
**
14495594 CTTAAC
62 AATAAC
* * * *
14495600 TTAAAAACCCTAACCTAATTTAATTAAAAACCATAAACCCTAAACCCTAAACTTAAAAATCCTAA
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCT-AA---TTAA-TTAAAAACCCTAA
14495665 CCTAATTTAA-
59 CCTAA--TAAC
* *
14495675 TTAAAAACTCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CC
14495737 T-A-AAC
61 TAATAAC
* *
14495742 TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA--AATTAAAAATCCTAACCTAA
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAACCTAA
*
14495805 TTAAA
64 -TAAC
* *
14495810 TTAAAAACCCTAAACCCT-A--AACTTAAAAATCCTAACCTAATTTAATTAAAAACCCTAACCTA
1 TTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCTA
14495872 ATTAAC
63 A-TAAC
*
14495878 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA--ACTTAAAAACCCTAACCTAA
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAACCTAA
14495941 TTTAA-
64 --TAAC
* *** *
14495946 TTAAAATCCCTAACCTAATTAAATTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAGCCTAAT
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAA-TTAAAAACCCTAACCTAA-
14496011 TAAC
64 TAAC
* * * *
14496015 TTAAAAACTCTAACCTAATTAAATTAAAAACTCTAAACCCTAA--ACTTAAAAACCCTAATCTAA
1 TTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTAATTAAAAACCCTAACCTAA
*
14496078 TTAAA
64 -TAAC
* * *
14496083 TTAAAAACCTTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTA
1 TTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCTA
14496145 A
63 A
14496146 ATTAATAATT
Statistics
Matches: 454, Mismatches: 48, Indels: 89
0.77 0.08 0.15
Matches are distributed among these distances:
65 16 0.04
66 17 0.04
67 50 0.11
68 188 0.41
69 106 0.23
70 18 0.04
71 9 0.02
72 3 0.01
73 2 0.00
74 14 0.03
75 22 0.05
76 6 0.01
77 3 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (67 bp):
TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAATTAAAAACCCTAACCTAATA
AC
Found at i:14496354 original size:116 final size:116
Alignment explanation
Indices: 14496145--14496388 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
14496135 CCCTAAACTA
* **
14496145 AATTAATAATTTTACTTTCACATAATGTTAGATTTAGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTTGACTGGTACTAACAAT
* *
14496210 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAGTACAATTTATC
66 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
*
14496261 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTTGACTGGTACTAACAAT
*
14496325 TAATAATTTTATATAATTTGATAATTTTTAGTAACCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAA-TTTTACTAACCATTAATACAATTTATC
14496377 AATTAATAATTT
1 AATTAATAATTT
14496389 CACAAACTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 42 0.35
116 78 0.65
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTTGACTGGTACTAACAAT
TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:14499611 original size:124 final size:124
Alignment explanation
Indices: 14499390--14499762 Score: 539
Period size: 124 Copynumber: 3.0 Consensus size: 124
14499380 CAAACATGTT
* * * * *
14499390 ACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCAAAAATTCTTTTCAAATAGCATCTTGTT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCATGCT
*
14499455 AGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* **
14499515 ACTGTAGCAAAAGCGCGACCACGAGGGCGCGATTTTACAAATTGATCTCAAATAGCATCATGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
* * *
14499580 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAATTTATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* * * * *
14499639 ACTGTAGCAAATGCGCGTCCACAAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
* ** *
14499704 GAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTCTTCCAAGACC
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGACC
14499763 TAAAAACCCT
Statistics
Matches: 221, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
124 168 0.76
125 53 0.24
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:14512303 original size:21 final size:21
Alignment explanation
Indices: 14512264--14512303 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14512254 TTTATTTTAA
* *
14512264 AATATATATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
14512285 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
14512304 TACTGATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:14512648 original size:20 final size:19
Alignment explanation
Indices: 14512606--14512658 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
14512596 CTCTTTAGTT
**
14512606 TTTTTTTTTCATTTCTCTT
1 TTTTTTTTTCATTTCTCGG
*
14512625 TTTTTTTTTCATTTTTCAGG
1 TTTTTTTTTCATTTCTC-GG
*
14512645 TTTTTTTTTAATTT
1 TTTTTTTTTCATTT
14512659 GTGAATCGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCATTTCTCGG
Found at i:14513245 original size:33 final size:31
Alignment explanation
Indices: 14513208--14513288 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 31
14513198 GATATATTTT
14513208 TTTTAAATTATAAAAAATA-AAAACTCTTTAAA-A
1 TTTTAAA-TATAAAAAATAGAAAA---TTTAAATA
14513241 TTTTAAA-ATAAAAAATAGAAAATTTAAATA
1 TTTTAAATATAAAAAATAGAAAATTTAAATA
14513271 TTTTGAAAATATAAAAAA
1 TTTT--AAATATAAAAAA
14513289 ATTTAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
29 6 0.14
30 5 0.12
31 10 0.23
32 7 0.16
33 15 0.35
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (31 bp):
TTTTAAATATAAAAAATAGAAAATTTAAATA
Found at i:14513255 original size:31 final size:30
Alignment explanation
Indices: 14513208--14513287 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 30
14513198 GATATATTTT
14513208 TTTTAAATTATAAAAAATA-AAAACTCTTTAAA-A
1 TTTTAAA--ATAAAAAATAGAAAA---TTTAAATA
14513241 TTTTAAAATAAAAAATAGAAAATTTAAATA
1 TTTTAAAATAAAAAATAGAAAATTTAAATA
14513271 TTTTGAAAATATAAAAA
1 TTTT-AAAATA-AAAAA
14513288 AATTTAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.14
30 5 0.12
31 16 0.37
32 9 0.21
33 7 0.16
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (30 bp):
TTTTAAAATAAAAAATAGAAAATTTAAATA
Found at i:14518227 original size:21 final size:21
Alignment explanation
Indices: 14518201--14518255 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
14518191 AATAGCGGTG
*
14518201 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
14518222 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
14518243 GCGGTGAGATTAG
1 GCGGTGAGATTAG
14518256 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:14518569 original size:22 final size:22
Alignment explanation
Indices: 14518518--14518569 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
14518508 TTTTATAGTT
*
14518518 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
14518541 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
14518563 ATAATAA
1 ATAATAA
14518570 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:14522936 original size:16 final size:17
Alignment explanation
Indices: 14522915--14522952 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14522905 TTCTATATGG
*
14522915 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
14522931 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
14522949 ATTT
1 ATTT
14522953 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:14525185 original size:27 final size:27
Alignment explanation
Indices: 14525140--14525191 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
14525130 TTTTTTTAAA
14525140 AAAAGTTATAAAAATATAAAAAAATGC
1 AAAAGTTATAAAAATATAAAAAAATGC
*
14525167 AAAAGTTTTATAAAA-ATAAAAAAAT
1 AAAAGTTATA-AAAATATAAAAAAAT
14525192 TATTTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAGTTATAAAAATATAAAAAAATGC
Found at i:14529392 original size:14 final size:14
Alignment explanation
Indices: 14529348--14529404 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
14529338 TTAAATATAA
* *
14529348 ATAATAAAATTGAC
1 ATAAAAAAATTAAC
*
14529362 A-AAAAAAAGTAA-
1 ATAAAAAAATTAAC
14529374 A-AAAAAAATTAAC
1 ATAAAAAAATTAAC
14529387 ATAAAAAAATTAAC
1 ATAAAAAAATTAAC
14529401 ATAA
1 ATAA
14529405 TAGATTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.30
13 9 0.24
14 17 0.46
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (14 bp):
ATAAAAAAATTAAC
Found at i:14531540 original size:23 final size:23
Alignment explanation
Indices: 14531495--14531541 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14531485 GATCCAAAAG
* **
14531495 ATGAAAGTATAATTTCTCTCTGA
1 ATGAAAATATAATTTCTAACTGA
*
14531518 ATGAAAATATATTTTCTAACTGA
1 ATGAAAATATAATTTCTAACTGA
14531541 A
1 A
14531542 AAGCGGTTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (23 bp):
ATGAAAATATAATTTCTAACTGA
Found at i:14534047 original size:36 final size:36
Alignment explanation
Indices: 14534000--14534154 Score: 202
Period size: 36 Copynumber: 4.0 Consensus size: 36
14533990 GCTAGGCTAC
14534000 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
14534036 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG
* *
14534078 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTTTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
14534118 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
14534154 C
1 C
14534155 TAAAGCTACC
Statistics
Matches: 105, Mismatches: 4, Indels: 20
0.81 0.03 0.16
Matches are distributed among these distances:
36 65 0.62
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
44 2 0.02
46 29 0.28
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:14534087 original size:46 final size:46
Alignment explanation
Indices: 14534036--14534190 Score: 222
Period size: 46 Copynumber: 3.6 Consensus size: 46
14534026 ATAAGTGTAG
14534036 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14534082 CACTTATCACTTTGTCTCTTGATCAGATAAGT-T---T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
14534118 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14534164 CACTTATCACTTTGTCACCTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
14534191 AGTACTCAAA
Statistics
Matches: 96, Mismatches: 3, Indels: 20
0.81 0.03 0.17
Matches are distributed among these distances:
36 31 0.32
37 1 0.01
40 3 0.03
42 3 0.03
45 1 0.01
46 57 0.59
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:14534096 original size:82 final size:82
Alignment explanation
Indices: 14533959--14534190 Score: 398
Period size: 82 Copynumber: 2.9 Consensus size: 82
14533949 CGTATGATCG
* *
14533959 CTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
14534021 ATCAGATAAGTGTAGCA
66 ATCAGATAAGTGTAGCA
*
14534038 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
*
14534103 ATCAGATAAGTTTAGCA
66 ATCAGATAAGTGTAGCA
*
14534120 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACCTG
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
14534185 ATCAGA
66 ATCAGA
14534191 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
79 8 0.06
80 5 0.03
81 20 0.14
82 111 0.77
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (82 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
ATCAGATAAGTGTAGCA
Found at i:14538611 original size:46 final size:46
Alignment explanation
Indices: 14538544--14538729 Score: 327
Period size: 46 Copynumber: 4.0 Consensus size: 46
14538534 ACAATGCTAT
* * *
14538544 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
14538590 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
14538636 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
14538682 AACTTAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
14538728 AA
1 AA
14538730 TTTTCCATGG
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:14540682 original size:6 final size:6
Alignment explanation
Indices: 14540632--14540692 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
14540622 GACAATAAAG
* * *
14540632 AGAAAA AGAAAGA AGAGAA GGACAAA ACAAAA A-AAAA AGAAAA AGAAAA
1 AGAAAA AGAAA-A AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA AGAAAA
14540681 AGGAAAA AGAAA
1 A-GAAAA AGAAA
14540693 GAAAGTGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.11
6 27 0.59
7 14 0.30
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:14551940 original size:21 final size:23
Alignment explanation
Indices: 14551897--14551942 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14551887 AAAATACACT
14551897 TTTATTTGATAAACAAGTAATAC
1 TTTATTTGATAAACAAGTAATAC
14551920 TTTATTT-ATCAAA-AA-TAATAC
1 TTTATTTGAT-AAACAAGTAATAC
14551941 TT
1 TT
14551943 GAGTGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TTTATTTGATAAACAAGTAATAC
Found at i:14552749 original size:2 final size:2
Alignment explanation
Indices: 14552742--14552781 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14552732 TTACCAAAAC
14552742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14552782 GATACCTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14553925 original size:18 final size:18
Alignment explanation
Indices: 14553902--14553941 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14553892 TATAATTTTA
*
14553902 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
14553920 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
14553938 AAAA
1 AAAA
14553942 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Done.