Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 103 of 292
Found at i:31494819 original size:110 final size:110
Alignment explanation
Indices: 31494687--31494900 Score: 410
Period size: 110 Copynumber: 1.9 Consensus size: 110
31494677 CACATCGGCC
*
31494687 ATTAGGCCTTATCACATATATACATACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACA
31494752 TATATACACACTTTCACATTCATCACATCGGCCATTAGGTGTGAT
66 TATATACACACTTTCACATTCATCACATCGGCCATTAGGTGTGAT
*
31494797 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACA
31494862 TATATACACACTTTCACATTCATCACATCGGCCATTAGG
66 TATATACACACTTTCACATTCATCACATCGGCCATTAGG
31494901 CCTTATCACA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.32
Consensus pattern (110 bp):
ATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACA
TATATACACACTTTCACATTCATCACATCGGCCATTAGGTGTGAT
Found at i:31498537 original size:31 final size:31
Alignment explanation
Indices: 31498499--31498577 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
31498489 TTTAACGGTT
31498499 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
31498530 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
31498561 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
31498578 ACTGTAAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:31498648 original size:42 final size:42
Alignment explanation
Indices: 31498601--31498692 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31498591 TGGCCCTTAG
* ** *
31498601 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31498643 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31498685 GCCCATTT
1 GCCCATTT
31498693 AGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31498866 original size:25 final size:26
Alignment explanation
Indices: 31498837--31499011 Score: 203
Period size: 26 Copynumber: 6.8 Consensus size: 26
31498827 CCTCTTTAAT
** *
31498837 AACTGGGGCA-AAGCCCAATTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31498862 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* ***
31498887 AATTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31498913 AATTGGGGCATAAGCCCTTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTTCAATA
* **
31498940 AACTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31498966 AACT-GGGCATAAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31498991 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31499012 ACACTTCCTC
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
25 53 0.41
26 55 0.43
27 21 0.16
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31499828 original size:27 final size:26
Alignment explanation
Indices: 31499798--31499921 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 26
31499788 TATTCGTCAT
* **
31499798 TTTACCATATAGGGGTATTACGGTCAC
1 TTTACCCTATAGGGGT-TTACGGTCTG
31499825 TTTACCCTATAGGGGCTTTACGGTCTG
1 TTTACCCTATAGGGG-TTTACGGTCTG
* *
31499852 TTTACCTTACAGGGGCTTTACGGTCTG
1 TTTACCCTATAGGGG-TTTACGGTCTG
* * *
31499879 TTTACCCTACAAGGGCTTTACGGTCTT
1 TTTACCCTA-TAGGGGTTTACGGTCTG
31499906 TTTA-CCTAATAGGGGT
1 TTTACCCT-ATAGGGGT
31499922 ATTTTAGTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.10
27 70 0.84
28 5 0.06
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
TTTACCCTATAGGGGTTTACGGTCTG
Found at i:31499883 original size:54 final size:54
Alignment explanation
Indices: 31499798--31499924 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
31499788 TATTCGTCAT
* * * *
31499798 TTTACCATATAGGGGTATTACGGTCACTTTACCCTATAGGGGCTTTACGGTCTG
1 TTTACCTTACAGGGGTATTACGGTCACTTTACCCTACAAGGGCTTTACGGTCTG
** *
31499852 TTTACCTTACAGGGGCT-TTACGGTCTGTTTACCCTACAAGGGCTTTACGGTCTT
1 TTTACCTTACAGGGG-TATTACGGTCACTTTACCCTACAAGGGCTTTACGGTCTG
* *
31499906 TTTACCTAATAGGGGTATT
1 TTTACCTTACAGGGGTATT
31499925 TTAGTCATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.02
54 60 0.97
55 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (54 bp):
TTTACCTTACAGGGGTATTACGGTCACTTTACCCTACAAGGGCTTTACGGTCTG
Found at i:31500003 original size:27 final size:26
Alignment explanation
Indices: 31499965--31500204 Score: 167
Period size: 27 Copynumber: 8.9 Consensus size: 26
31499955 GTAAATCTAC
* *
31499965 AACCAAGGTATTTCAGTAATTTTATA
1 AACCAAGGTATTTCGGTAATTTTACA
** *
31499991 AACCAATGGTATTTCCATAATTTTTAGA
1 AACCAA-GGTATTTCGGTAA-TTTTACA
* * * **
31500019 AAGTCAAGGTTATTTCTGTAACTTTGTA
1 AA-CCAAGG-TATTTCGGTAATTTTACA
** *
31500047 AATTAAGGGTATTTTGGTAA-TTTACA
1 AACCAA-GGTATTTCGGTAATTTTACA
** *
31500073 AATTAAGGGTATTTCGGTAATTTCACA
1 AACCAA-GGTATTTCGGTAATTTTACA
*
31500100 AACCAATGGTATTTTGGTAATTTTACA
1 AACCAA-GGTATTTCGGTAATTTTACA
* *
31500127 AACTAGAGGTATTTTGGTAATTTTACA
1 AACCA-AGGTATTTCGGTAATTTTACA
** *
31500154 AATTGAGGGTATTTCGGTAATTTTACA
1 AA-CCAAGGTATTTCGGTAATTTTACA
**
31500181 AACCAGAGGTATTTTAGTAATTTT
1 AACCA-AGGTATTTCGGTAATTTT
31500205 GTAAATCGAG
Statistics
Matches: 174, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
26 30 0.17
27 112 0.64
28 20 0.11
29 12 0.07
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (26 bp):
AACCAAGGTATTTCGGTAATTTTACA
Found at i:31500169 original size:81 final size:80
Alignment explanation
Indices: 31500054--31500204 Score: 250
Period size: 81 Copynumber: 1.9 Consensus size: 80
31500044 GTAAATTAAG
*
31500054 GGTATTTTGGTAATTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCA-ATGGTATTTTGGT
1 GGTATTTTGGTAATTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGA-GGTATTTTAGT
31500118 AATTTTACAAACTAGA
65 AATTTTACAAACTAGA
* *
31500134 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGAGGTATTTTAGT
1 GGTATTTTGGTAA-TTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGAGGTATTTTAGT
31500199 AATTTT
65 AATTTT
31500205 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
80 13 0.20
81 52 0.79
82 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTTGGTAATTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGAGGTATTTTAGTA
ATTTTACAAACTAGA
Found at i:31500204 original size:54 final size:54
Alignment explanation
Indices: 31500046--31500218 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 54
31500036 GTAACTTTGT
* * * *
31500046 AAATTAAGGGTATTTTGGTAA-TTTACAAATTA-AGGGTATTTCGGTAATTTCAC
1 AAATCAAGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTTGGTAATTTTAC
* *
31500099 AAACCAATGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTAC
** * * * **
31500153 AAATTGAGGGTATTTCGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTGT
1 AAATCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTAC
*
31500207 AAATCGAGGGTA
1 AAATCAAGGGTA
31500219 AAACAGTAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
53 18 0.18
54 83 0.81
55 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.39
Consensus pattern (54 bp):
AAATCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTAC
Found at i:31500226 original size:27 final size:27
Alignment explanation
Indices: 31500196--31500326 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
31500186 GAGGTATTTT
*
31500196 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
31500223 AGTAATTCTGTAAATCAAGCGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31500250 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31500277 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
31500304 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
31500327 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:31500228 original size:81 final size:81
Alignment explanation
Indices: 31500063--31500229 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
31500053 GGGTATTTTG
*
31500063 GTAA-TTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTAGTAATTTTACA
* *****
31500127 AACTAGAGGTATTTTG
66 AACGAGAGGTAAAACA
* * **
31500143 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGA-GGTATTTTAGTAATTTTGT
1 GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCA-ATGGTATTTTAGTAATTTTAC
31500207 AAATCGAG-GGTAAAACA
65 AAA-CGAGAGGTAAAACA
31500224 GTAATT
1 GTAATT
31500230 CTGTAAATCA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 4 0.05
81 65 0.89
82 4 0.05
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTAGTAATTTTACA
AACGAGAGGTAAAACA
Found at i:31501786 original size:28 final size:27
Alignment explanation
Indices: 31501754--31501817 Score: 101
Period size: 29 Copynumber: 2.3 Consensus size: 27
31501744 TTTAAAACCC
31501754 TAGGGGTATATCGGTAATTTTGCTCTTT
1 TAGGGGTATATCGGTAATTTTGCTC-TT
*
31501782 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
31501810 TAGGGGTA
1 TAGGGGTA
31501818 ATTTCGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 16 0.47
29 17 0.50
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:31501820 original size:28 final size:29
Alignment explanation
Indices: 31501754--31501823 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
31501744 TTTAAAACCC
*
31501754 TAGGGGT-ATATCGGTAATTTTGCTCTTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTTT
31501782 TAGGGGTAATTTCGGTAATTTTGCTC-TT
1 TAGGGGTAATTTCGGTAATTTTGCTCTTT
31501810 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31501824 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 23 0.57
29 17 0.43
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (29 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTTT
Found at i:31502381 original size:27 final size:26
Alignment explanation
Indices: 31502351--31502474 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 26
31502341 TATTCGTCAT
* **
31502351 TTTACCATATAGGGGTATTACGGTCAC
1 TTTACCCTATAGGGGT-TTACGGTCTG
*
31502378 TTTACCCTATAGAGGCTTTACGGTCTG
1 TTTACCCTATAG-GGGTTTACGGTCTG
* *
31502405 TTTACCTTACAGGGGCTTTACGGTCTG
1 TTTACCCTATAGGGG-TTTACGGTCTG
* * *
31502432 TTTACCCTACAAGGGCTTTACGGTCTT
1 TTTACCCTA-TAGGGGTTTACGGTCTG
31502459 TTTA-CCTAATAGGGGT
1 TTTACCCT-ATAGGGGT
31502475 ATTTTAGTCA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
26 10 0.12
27 63 0.79
28 7 0.09
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
TTTACCCTATAGGGGTTTACGGTCTG
Found at i:31502436 original size:54 final size:54
Alignment explanation
Indices: 31502351--31502477 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 54
31502341 TATTCGTCAT
* * *
31502351 TTTACCATATAGGGGTATTACGGTCACTTTACCCTA-TAGAGGCTTTACGGTCTG
1 TTTACCTTACAGGGGTATTACGGTCACTTTACCCTACAAG-GGCTTTACGGTCTG
** *
31502405 TTTACCTTACAGGGGCT-TTACGGTCTGTTTACCCTACAAGGGCTTTACGGTCTT
1 TTTACCTTACAGGGG-TATTACGGTCACTTTACCCTACAAGGGCTTTACGGTCTG
* *
31502459 TTTACCTAATAGGGGTATT
1 TTTACCTTACAGGGGTATT
31502478 TTAGTCATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
53 1 0.02
54 58 0.94
55 3 0.05
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (54 bp):
TTTACCTTACAGGGGTATTACGGTCACTTTACCCTACAAGGGCTTTACGGTCTG
Found at i:31502548 original size:27 final size:27
Alignment explanation
Indices: 31502515--31502774 Score: 182
Period size: 27 Copynumber: 9.6 Consensus size: 27
31502505 TTGGTAAATC
* *
31502515 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** * * **
31502542 TGTAAACCAATGGTATTTCCATAATTTT
1 TACAAATCAAGGGTATTTCGGTAA-TTT
* * * *
31502570 TAGAAAGTCAAGGTTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
** * * *
31502598 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
*
31502625 TACAAATTAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
31502652 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGGTAATTT
* *
31502679 TACAAA-CTAGAGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGGTAATTT
**
31502706 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * **
31502733 TACAAACCAGGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** *
31502760 TGTAAATCGAGGGTA
1 TACAAATCAAGGGTA
31502775 AAACAGTAAT
Statistics
Matches: 183, Mismatches: 46, Indels: 8
0.77 0.19 0.03
Matches are distributed among these distances:
26 2 0.01
27 153 0.84
28 15 0.08
29 13 0.07
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:31502706 original size:81 final size:81
Alignment explanation
Indices: 31502609--31502760 Score: 268
Period size: 81 Copynumber: 1.9 Consensus size: 81
31502599 GTAAATTAGG
* *
31502609 GGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGT
31502674 AATTTTACAAACTAGA
66 AATTTTACAAACTAGA
* *
31502690 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGT
31502755 AATTTT
66 AATTTT
31502761 GTAAATCGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGT
AATTTTACAAACTAGA
Found at i:31502760 original size:54 final size:54
Alignment explanation
Indices: 31502608--31502774 Score: 210
Period size: 54 Copynumber: 3.1 Consensus size: 54
31502598 TGTAAATTAG
* * * * *
31502608 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGA
* *
31502661 GTGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGA
* * * **
31502716 GGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGA
31502770 GGGTA
1 GGGTA
31502775 AAACAGTAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 95 0.97
55 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGA
Found at i:31502782 original size:27 final size:27
Alignment explanation
Indices: 31502752--31502882 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
31502742 GGGGTATTTT
*
31502752 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
31502779 AGTAATTCTGTAAATCAAGCGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31502806 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
31502833 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
31502860 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
31502883 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:31502784 original size:81 final size:81
Alignment explanation
Indices: 31502618--31502785 Score: 212
Period size: 81 Copynumber: 2.1 Consensus size: 81
31502608 GGGTATTTTG
* *
31502618 GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACA
* *****
31502683 AACTAGAGGTATTTTG
66 AACGAGAGGTAAAACA
* * **
31502699 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTA
1 GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACA
31502764 AATCGAG-GGTAAAACA
66 AA-CGAGAGGTAAAACA
31502780 GTAATT
1 GTAATT
31502786 CTGTAAATCA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 71 0.96
82 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
GTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACA
AACGAGAGGTAAAACA
Found at i:31506942 original size:17 final size:18
Alignment explanation
Indices: 31506920--31506962 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
31506910 TCAACAAGGT
*
31506920 AAATAAAATAATTAA-GA
1 AAATAAAACAATTAATGA
*
31506937 AAATAATACAATTAATGA
1 AAATAAAACAATTAATGA
*
31506955 ATATAAAA
1 AAATAAAA
31506963 ATTAGTACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (18 bp):
AAATAAAACAATTAATGA
Found at i:31511881 original size:29 final size:29
Alignment explanation
Indices: 31511849--31511916 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
31511839 AAGTCTACAT
*
31511849 ACATGCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
31511878 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
31511907 ACATTCATAT
1 ACATTCATAT
31511917 ACATGCTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:31512146 original size:16 final size:16
Alignment explanation
Indices: 31512125--31512160 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
31512115 GTAGCCAAAC
31512125 TTTCAGCTTTTCAGCA
1 TTTCAGCTTTTCAGCA
*
31512141 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCAGCA
31512157 TTTC
1 TTTC
31512161 GGGATTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:31516101 original size:40 final size:39
Alignment explanation
Indices: 31515999--31516140 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 39
31515989 CGATATCTCA
* *
31515999 CACACTAAGTGCCAATACATAGCCAAAGCTATTAT-AATCTCA
1 CACACTAAGTGCC-ATATATAGCCAAAGCTATT-TGAAT-T-G
*
31516041 CACACTAAGTGCCATATATAGCCGAAGCTATTTCGAATTG
1 CACACTAAGTGCCATATATAGCCAAAGCTATTT-GAATTG
* *
31516081 CACACTAAGTGCCATCTATAGCCAAAGCTATGTTGAATCG
1 CACACTAAGTGCCATATATAGCCAAAGCTAT-TTGAATTG
31516121 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
31516141 TATCCGAATC
Statistics
Matches: 90, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
40 54 0.60
41 20 0.22
42 16 0.18
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (39 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATTTGAATTG
Found at i:31529296 original size:44 final size:43
Alignment explanation
Indices: 31529242--31529343 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
31529232 TGCCGCAAAA
*
31529242 TTTT-GCGGCGTTTATTCAAAAAAACACCACTAAAAGTCATGGC
1 TTTTAGCGGCGTTT-GTCAAAAAAACACCACTAAAAGTCATGGC
*** * **
31529285 TTTTAGCGGCGTTTGTGGGAAAAACGCCGTTAAAAGTCATGGC
1 TTTTAGCGGCGTTTGTCAAAAAAACACCACTAAAAGTCATGGC
31529328 TTTTAGCGGCGTTTGT
1 TTTTAGCGGCGTTTGT
31529344 GGGAAAAGCG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 42 0.82
44 9 0.18
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTCAAAAAAACACCACTAAAAGTCATGGC
Found at i:31529322 original size:43 final size:43
Alignment explanation
Indices: 31529261--31529381 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 43
31529251 GTTTATTCAA
* *
31529261 AAAAACACCACTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
*
31529304 AAAAACGCCGTTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* ** *
31529347 AAAAGCGCCGCTAAAAGTCATAACCTTTAGCGGCG
1 AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCG
31529382 CTTTTCCCAC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:31530181 original size:23 final size:23
Alignment explanation
Indices: 31530155--31531003 Score: 667
Period size: 23 Copynumber: 37.1 Consensus size: 23
31530145 AAATAAGTAC
* *
31530155 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
31530178 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
31530201 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
31530225 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
31530248 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
31530270 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
31530292 TAAAACATTTCAATCTCCAGCAA
1 TTAAACACTTCAATTTACAGCAT
* * * *
31530315 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* * *
31530338 TTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
31530361 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530384 TTAAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530407 TTAAACAATTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530430 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
31530454 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530476 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
31530500 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
31530522 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
31530544 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * * *
31530567 CTAAACAATTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
31530590 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
31530613 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530636 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
31530660 TT-AACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530682 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
31530704 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
31530727 CTAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTACAGCAT
* *
31530750 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
31530773 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
31530796 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530819 TCAAACACTTCAATTTGCAGCAGT
1 TTAAACACTTCAATTTACAGCA-T
*
31530843 TT-AACACTTCAATTTACAGTAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530865 TAAAACACTTCAATTTTCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
31530889 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
31530911 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
31530933 TAAAACA-TCTCAATTTCCAGTAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
31530956 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
31530979 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
31531002 TT
1 TT
31531004 GCTACTAATA
Statistics
Matches: 664, Mismatches: 128, Indels: 68
0.77 0.15 0.08
Matches are distributed among these distances:
22 79 0.12
23 568 0.86
24 17 0.03
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:31530429 original size:160 final size:161
Alignment explanation
Indices: 31530155--31531003 Score: 739
Period size: 160 Copynumber: 5.3 Consensus size: 161
31530145 AAATAAGTAC
* * * *
31530155 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCA
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
* * * * *
31530220 GCACTT-TAACACTTCAATTTGCAGCACTTT-AAC-ATCTCAATTAACAACATTTATACACCTCA
66 GCA-TTAAAACACTTCAATTTCCAGCA-TTTAAACAAT-TCAATTTACAACATTTAAACACTTCA
* * * * *
31530282 A-TTACAGCGA-TAAAACATTTCAATCTCCAGCAA
128 ATTTGCAGC-ATTTAAACACTTCAATTTACAGCAA
* * * * * *
31530315 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCA
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
* * * * * *
31530380 ACATTTAAGCACTTCAATTTACAACATTTAAACAATTCAATTTACAACATTCAAACACTTCAATT
66 GCATTAAAACACTTCAATTTCCAGCATTTAAACAATTCAATTTACAACATTTAAACACTTCAATT
*
31530445 TGCAGCACTTT-AACACTTCAATTTACAGCAT
131 TGCAGCA-TTTAAACACTTCAATTTACAGCAA
* * * * * *
31530476 TTAAGCACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACACCTCAA-TTAC
1 TTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTAC
* ** * ** *
31530539 AGCGA-TAAAACA-TCTCAATGTCCAGCAACTAAACAATTCAATTTGCAGTACTTAAACACTTCA
65 AGC-ATTAAAACACT-TCAATTTCCAGCATTTAAACAATTCAATTTACAACATTTAAACACTTCA
* *
31530602 ATTTGCAACATTTAAGCACTTCAATTTACAGC-A
128 ATTTGCAGCATTTAAACACTTCAATTTACAGCAA
* * * * * *
31530635 TTCAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAA-TTAC
1 TT-AAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTAC
* ** * * * *
31530699 AGCGA-TAAAACA-TCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCA
65 AGC-ATTAAAACACT-TCAATTTCCAGCATTTAAACAATTCAATTTACAACATTTAAACACTTCA
* * *
31530762 ATTTGCAACATTTAAGCACTTCAATTTACAGCAT
128 ATTTGCAGCATTTAAACACTTCAATTTACAGCAA
* *
31530796 TTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCAGTTT-AACACTTCAATTTA
1 TTAAACACTTCAATTTGCAGCACTT-AAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTA
* * * * * *
31530859 CAGTATTAAAACACTTCAATTTTCAGCACTTT-AACATTTCAATTAACAACATTTATACACCTCA
64 CAGCATTAAAACACTTCAATTTCCAGCA-TTTAAACAATTCAATTTACAACATTTAAACACTTCA
* * * *
31530923 A-TTACAGCGA-TAAAACA-TCTCAATTTCCAGTAA
128 ATTTGCAGC-ATTTAAACACT-TCAATTTACAGCAA
* * * * *
31530956 CTAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAACATTT
1 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTT
31531004 GCTACTAATA
Statistics
Matches: 581, Mismatches: 86, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
159 17 0.03
160 432 0.74
161 129 0.22
162 3 0.01
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (161 bp):
TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACA
GCATTAAAACACTTCAATTTCCAGCATTTAAACAATTCAATTTACAACATTTAAACACTTCAATT
TGCAGCATTTAAACACTTCAATTTACAGCAA
Found at i:31531968 original size:22 final size:23
Alignment explanation
Indices: 31531915--31531971 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
31531905 GCAGCACTTT
*
31531915 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACATTAA
* *
31531938 TACAACTCAATT-ACAACGA-TAA
1 AACATCTCAATTAACAAC-ATTAA
31531960 AACATCTCAATT
1 AACATCTCAATT
31531972 TCCAACAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACATTAA
Found at i:31532073 original size:23 final size:23
Alignment explanation
Indices: 31531853--31532076 Score: 172
Period size: 23 Copynumber: 9.8 Consensus size: 23
31531843 ATATACAAAA
*
31531853 CAATTTACAGCATTTAAACAATT
1 CAATTTACAGCATTTAAACACTT
* *
31531876 CAATTTACAACATTTAAACAATT
1 CAATTTACAGCATTTAAACACTT
*
31531899 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
31531922 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* *
31531945 CAA-TTACAACGA-TAAAACA-TCT
1 CAATTTACAGC-ATTTAAACACT-T
* * ** *
31531967 CAATTTCCAACAACTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
** * *
31531990 CAATTTGTAGTACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
31532013 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
31532036 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
31532059 CAATTTGCAGTATTTAAA
1 CAATTTACAGCATTTAAA
31532077 TAACAGCAGC
Statistics
Matches: 161, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.01
22 19 0.12
23 136 0.84
24 5 0.03
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:31532076 original size:46 final size:45
Alignment explanation
Indices: 31531853--31532064 Score: 198
Period size: 46 Copynumber: 4.6 Consensus size: 45
31531843 ATATACAAAA
*
31531853 CAATTTACAGCATTTAAACAATTCAATTTACAACATTTAAACAATT
1 CAATTTACAGCATTTAAAC-ATTCAATTTACAACATTTAAACACTT
* * *
31531899 CAATTTGCAGCACTTT-AACATCTCAATTAACAACATTTATACAAC-T
1 CAATTTACAGCA-TTTAAACAT-TCAATTTACAACATTTAAAC-ACTT
* * * ** *
31531945 CAA-TTACAACGA-TAAAACATCTCAATTTCCAACAACTAAGCACTT
1 CAATTTACAGC-ATTTAAACAT-TCAATTTACAACATTTAAACACTT
** * *
31531990 CAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACA-TTCAATTTACAACATTTAAACACTT
31532036 CAATTTACAGCATTTAAACACTTCAATTT
1 CAATTTACAGCATTTAAACA-TTCAATTT
31532065 GCAGTATTTA
Statistics
Matches: 131, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 3 0.02
45 32 0.24
46 91 0.69
47 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.33
Consensus pattern (45 bp):
CAATTTACAGCATTTAAACATTCAATTTACAACATTTAAACACTT
Found at i:31534297 original size:30 final size:30
Alignment explanation
Indices: 31534258--31534317 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31534248 TTCCCGAGCC
* *
31534258 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGAGCAAAAATGTAATTATGCAAAAGTT
* *
31534288 TAGGAGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGAGCAAAAATGTAATTATGCAAAAGTT
31534318 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGAGCAAAAATGTAATTATGCAAAAGTT
Found at i:31541837 original size:28 final size:29
Alignment explanation
Indices: 31541785--31541839 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
31541775 CCGAGCCTAG
*
31541785 GGGCAAAAGTGTAATTATGCAAAAGTTTA
1 GGGCAAAAATGTAATTATGCAAAAGTTTA
* *
31541814 GGGCAAAAAT-TAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
31541840 CATATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (29 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:31542329 original size:47 final size:46
Alignment explanation
Indices: 31542256--31542380 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 46
31542246 ATGGTTGAGT
* * * * *
31542256 TCCGAACTCGTTGAATTGAGTTCGAGTTCA-TGA-GATGTAACTAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--ACGC
*
31542302 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAACGC
31542350 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
31542381 TATGGGCAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
46 31 0.45
47 27 0.39
48 5 0.07
50 6 0.09
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAACGC
Found at i:31545477 original size:14 final size:14
Alignment explanation
Indices: 31545458--31545484 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31545448 CACTATATTT
31545458 ACCCCTAAACCCCA
1 ACCCCTAAACCCCA
31545472 ACCCCTAAACCCC
1 ACCCCTAAACCCC
31545485 TAAACCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.59, G:0.00, T:0.07
Consensus pattern (14 bp):
ACCCCTAAACCCCA
Found at i:31545482 original size:8 final size:8
Alignment explanation
Indices: 31545458--31545491 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
31545448 CACTATATTT
31545458 ACCCCTAA
1 ACCCCTAA
31545466 ACCCC--A
1 ACCCCTAA
31545472 ACCCCTAA
1 ACCCCTAA
31545480 ACCCCTAA
1 ACCCCTAA
31545488 ACCC
1 ACCC
31545492 AAAATCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.35, C:0.56, G:0.00, T:0.09
Consensus pattern (8 bp):
ACCCCTAA
Found at i:31545500 original size:22 final size:22
Alignment explanation
Indices: 31545458--31545502 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
31545448 CACTATATTT
* *
31545458 ACCCCTAAACCCCAACCCCTAA
1 ACCCCTAAACCCAAAACCCTAA
*
31545480 ACCCCTAAACCCAAAATCCTAA
1 ACCCCTAAACCCAAAACCCTAA
31545502 A
1 A
31545503 TCATAAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (22 bp):
ACCCCTAAACCCAAAACCCTAA
Found at i:31545778 original size:7 final size:7
Alignment explanation
Indices: 31545766--31545819 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
31545756 CCCCAACCCT
31545766 TAAACCA
1 TAAACCA
31545773 TAAACCA
1 TAAACCA
* *
31545780 TAATCCC
1 TAAACCA
31545787 TAAACCCA
1 TAAA-CCA
*
31545795 TAATCCA
1 TAAACCA
*
31545802 TAATCCA
1 TAAACCA
*
31545809 TAAACCT
1 TAAACCA
31545816 TAAA
1 TAAA
31545820 ATAGTAACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:31545795 original size:15 final size:14
Alignment explanation
Indices: 31545773--31545811 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
31545763 CCTTAAACCA
31545773 TAAACCATAATCCC
1 TAAACCATAATCCC
*
31545787 TAAACCCATAATCCA
1 TAAA-CCATAATCCC
*
31545802 TAATCCATAA
1 TAAACCATAA
31545812 ACCTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:31545795 original size:22 final size:22
Alignment explanation
Indices: 31545766--31545814 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
31545756 CCCCAACCCT
*
31545766 TAAA-CCATAAACCATAATCCC
1 TAAACCCATAAACCATAATCCA
*
31545787 TAAACCCATAATCCATAATCCA
1 TAAACCCATAAACCATAATCCA
31545809 TAAACC
1 TAAACC
31545815 TTAAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCATAAACCATAATCCA
Found at i:31545819 original size:29 final size:29
Alignment explanation
Indices: 31545760--31545819 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
31545750 CTTACACCCC
* *
31545760 AACCCTTAAACCATAAACCATAATCCCTA
1 AACCCATAAACCATAAACCATAAACCCTA
* * *
31545789 AACCCATAATCCATAATCCATAAACCTTA
1 AACCCATAAACCATAAACCATAAACCCTA
31545818 AA
1 AA
31545820 ATAGTAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (29 bp):
AACCCATAAACCATAAACCATAAACCCTA
Found at i:31546184 original size:40 final size:40
Alignment explanation
Indices: 31546103--31546209 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
31546093 AAATTCTATT
* *
31546103 GCGGCGTTTTTTGAAAA-CGCCGCTAAAGAGAAAGCACTA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGAGAAAGCAATA
* *
31546142 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGATG-TA-CATATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGA-GAAAGCA-ATA
* * *
31546182 GCGGCGTGTTTAAAAAAGCGCCACTAAA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAA
31546210 ACTCGATCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 18 0.31
40 39 0.67
41 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAAAGAGAAAGCAATA
Found at i:31546360 original size:27 final size:27
Alignment explanation
Indices: 31546330--31546386 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
31546320 TAACGGCGTT
31546330 TTTAAAAAACGCCGCTAATACTCGATC
1 TTTAAAAAACGCCGCTAATACTCGATC
* *
31546357 TTT-AAAAGCGCCGCTAATACTCGTTC
1 TTTAAAAAACGCCGCTAATACTCGATC
31546383 TTTA
1 TTTA
31546387 GCAGCGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTAAAAAACGCCGCTAATACTCGATC
Found at i:31546516 original size:40 final size:40
Alignment explanation
Indices: 31546443--31546559 Score: 148
Period size: 40 Copynumber: 2.9 Consensus size: 40
31546433 TGCATAGCTA
* *
31546443 AAGCTATCTCGGTATC-CAACACTAAGTGTCATATATAGCCG
1 AAGCTATCTC-GAATCGC-ACACTAAGTGCCATATATAGCCG
* * *
31546484 AAGCTAT-TCCGGATCGCACACTAAGTGCCATATATTGCTG
1 AAGCTATCT-CGAATCGCACACTAAGTGCCATATATAGCCG
31546524 AAGCTATCTCGAATCGCACACTAAGTGCCATATATA
1 AAGCTATCTCGAATCGCACACTAAGTGCCATATATA
31546560 TATCCAAATC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
40 57 0.85
41 10 0.15
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
AAGCTATCTCGAATCGCACACTAAGTGCCATATATAGCCG
Found at i:31548489 original size:39 final size:39
Alignment explanation
Indices: 31548433--31548513 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
31548423 ATCATGAAAC
* *
31548433 TAGATAGCCATCGAAAAGCCATTAGAGTGACATTACTCA
1 TAGATAGCCATCAAAAAGCAATTAGAGTGACATTACTCA
31548472 TAGATAGCCATCAAAAAGCAATTAGAGTGACATTACTCA
1 TAGATAGCCATCAAAAAGCAATTAGAGTGACATTACTCA
31548511 TAG
1 TAG
31548514 CCTTATCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (39 bp):
TAGATAGCCATCAAAAAGCAATTAGAGTGACATTACTCA
Found at i:31551728 original size:45 final size:45
Alignment explanation
Indices: 31551678--31551767 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
31551668 GCCAAAACAT
*
31551678 GTGTCACATACATCATGAACTCAGACCATAACTCAATGAGTTCAG
1 GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAG
*
31551723 GTGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAG
1 GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAG
31551768 ATCACATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (45 bp):
GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAG
Found at i:31553438 original size:61 final size:61
Alignment explanation
Indices: 31553372--31553518 Score: 150
Period size: 61 Copynumber: 2.4 Consensus size: 61
31553362 AAGTTTTCAT
* *
31553372 TTACATTTAGTACTTGCCACAAAGGTTTTCCTGTCCAAAATAATTCCATAAAGGCTGTCAC
1 TTACATTTAGTACTTGCCAAAAAGGTTTTCCTGTCCAAAATAATGCCATAAAGGCTGTCAC
* * * * * * * * * **
31553433 TTACATTTAGTATTTACTAAAAAGGTTTTCTTGTCTAGAGTACTGCCATAAAGGTTGTCTT
1 TTACATTTAGTACTTGCCAAAAAGGTTTTCCTGTCCAAAATAATGCCATAAAGGCTGTCAC
* * *
31553494 TTGCATTTAGTACTCGCCATAAAGG
1 TTACATTTAGTACTTGCCAAAAAGG
31553519 CTTCCATTCT
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (61 bp):
TTACATTTAGTACTTGCCAAAAAGGTTTTCCTGTCCAAAATAATGCCATAAAGGCTGTCAC
Found at i:31556212 original size:48 final size:46
Alignment explanation
Indices: 31556138--31556268 Score: 172
Period size: 48 Copynumber: 2.8 Consensus size: 46
31556128 GAAATGAAAA
*
31556138 AATGTGGTGCTAAGTGAATATACCACGATTACACATATTGATACATGT
1 AATGTGGTGCTAAGTG-ATATACCACGGTTACACATATTGATACAT-T
* * *
31556186 AATGTGGTGCTAAAGTGATATGCCACGGTTACATATATTGATTCATT
1 AATGTGGTGCT-AAGTGATATACCACGGTTACACATATTGATACATT
* *
31556233 AACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AATGTGGTGCTAAGT-GATATACCACGGTTACACAT
31556269 GTAACGTGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 4 0.05
47 28 0.38
48 36 0.49
49 5 0.07
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (46 bp):
AATGTGGTGCTAAGTGATATACCACGGTTACACATATTGATACATT
Found at i:31556283 original size:38 final size:38
Alignment explanation
Indices: 31556232--31556308 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
31556222 ATTGATTCAT
31556232 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
31556270 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
31556308 T
1 T
31556309 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:31559620 original size:41 final size:41
Alignment explanation
Indices: 31559575--31559680 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
31559565 ATTACTTGAT
* *
31559575 AGCTTGTGTGAACAGCACCATGTAGCTACGTCCTGACTGAC
1 AGCTTGTGTGAGCAGCACCATGTAGCTACATCCTGACTGAC
*
31559616 AGCTTGTGTGAGTAGCACCATGTAGCTACATCCTGACTGAC
1 AGCTTGTGTGAGCAGCACCATGTAGCTACATCCTGACTGAC
31559657 AGCTTGTGTGAGCAG-ACCCATGTA
1 AGCTTGTGTGAGCAGCA-CCATGTA
31559681 TGGCTCAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
AGCTTGTGTGAGCAGCACCATGTAGCTACATCCTGACTGAC
Found at i:31564723 original size:40 final size:40
Alignment explanation
Indices: 31564638--31564788 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
31564628 AATCGAATGA
* * * **
31564638 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTT
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
31564678 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
31564719 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
31564758 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
31564789 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 77 0.85
41 5 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:31564802 original size:40 final size:40
Alignment explanation
Indices: 31564678--31564804 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
31564668 CTGGAAATTT
* * * * *
31564678 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
31564718 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
31564758 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
31564798 TATCCGG
1 TATCCGG
31564805 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:31570413 original size:49 final size:49
Alignment explanation
Indices: 31570346--31570695 Score: 552
Period size: 49 Copynumber: 7.3 Consensus size: 49
31570336 TACATGATAG
*
31570346 TATATGTGATAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31570395 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
31570444 TATATGTGATAAGGTCGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
31570493 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
31570542 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
31570589 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
31570636 TATATGTGATAGGGCC-AAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAA-TGGCCGATGTGATGAATGTGAAAGTGTATA
31570685 -A-ATGTGATAAG
1 TATATGTGATAAG
31570696 TCCCGAAGGG
Statistics
Matches: 285, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
46 2 0.01
47 95 0.33
48 1 0.00
49 187 0.66
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:31576311 original size:27 final size:28
Alignment explanation
Indices: 31576281--31576350 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
31576271 ATAGTGAATC
*
31576281 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
31576308 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
31576336 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31576351 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:31576422 original size:42 final size:42
Alignment explanation
Indices: 31576358--31576464 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
31576348 GCTGTACAAT
* *
31576358 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
31576400 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
31576442 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
31576465 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:31590675 original size:46 final size:46
Alignment explanation
Indices: 31590608--31590774 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
31590598 CAACCCGCCA
31590608 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
* *
31590654 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--TCC
* * *
31590700 ACT--CTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCC
1 A-TAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
31590746 ATAAGTGAACTCGGACTCAACTCAACGAG
1 ATAAGTGAACTCGGACTCAACTCAACGAG
31590775 TTCGGATGCC
Statistics
Matches: 103, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 86 0.83
47 3 0.03
48 4 0.04
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCC
Found at i:31590725 original size:92 final size:92
Alignment explanation
Indices: 31590614--31590784 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
31590604 GCCAATAAGT
*
31590614 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31590679 CGAGCTCGGATGCCTAGTTACACTCTC
66 CGAGCTCGGATGCCTAGTTACACTCTC
*
31590706 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31590771 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
31590785 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACACTCTC
Found at i:31597461 original size:28 final size:29
Alignment explanation
Indices: 31597429--31597527 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
31597419 ATAATAAGCC
*
31597429 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
31597457 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
31597485 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
31597514 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31597528 CAATTTATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:31605110 original size:28 final size:29
Alignment explanation
Indices: 31605078--31605176 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
31605068 ATAATAAGCC
*
31605078 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
31605106 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
31605134 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
31605163 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31605177 CAATTTATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:31609737 original size:26 final size:26
Alignment explanation
Indices: 31609706--31609763 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
31609696 AAAGACATGT
*
31609706 ATTAAAGATGTC-TAAACTAGGACAT-
1 ATTAAA-ATGTCATAAACCAGGACATA
* *
31609731 ATTTAAATGTCATAAACCATGACATA
1 ATTAAAATGTCATAAACCAGGACATA
31609757 ATTAAAA
1 ATTAAAA
31609764 ATCCCTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.19
25 16 0.59
26 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (26 bp):
ATTAAAATGTCATAAACCAGGACATA
Found at i:31609828 original size:38 final size:38
Alignment explanation
Indices: 31609749--31609845 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
31609739 GTCATAAACC
* * *
31609749 ATGACATAATTAAAAATCCCTTATTAAAGATGTTCAGATT
1 ATGACATAATT-AAAA-CTCATATTAAAGATGTTCAAATT
*
31609789 ATGACATAATTAAAACTCATATTAATGATGCTT-AAATT
1 ATGACATAATTAAAACTCATATTAAAGATG-TTCAAATT
*
31609827 ATGACATAATTAAGACTCA
1 ATGACATAATTAAAACTCA
31609846 AGCTAATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 34 0.67
39 6 0.12
40 11 0.22
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (38 bp):
ATGACATAATTAAAACTCATATTAAAGATGTTCAAATT
Found at i:31612245 original size:21 final size:20
Alignment explanation
Indices: 31612215--31612254 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
31612205 TTAGATTTTT
*
31612215 ATTATATTATTTTTAATATC
1 ATTATATTATTATTAATATC
31612235 ATTATCATTATTATTAATAT
1 ATTAT-ATTATTATTAATAT
31612255 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATATTATTATTAATATC
Found at i:31614130 original size:20 final size:20
Alignment explanation
Indices: 31614123--31614218 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
31614113 TCAGTAGCGA
31614123 CACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAATAGTGG
*
31614143 CACAAAGCCATCACTAGTGG
1 CACAAAGCCATCAATAGTGG
*
31614163 CACAAAGCCATCAATAATGG
1 CACAAAGCCATCAATAGTGG
*
31614183 CACAAAGCCATCAATAGCGG
1 CACAAAGCCATCAATAGTGG
*
31614203 CACAAAGCCATAAATA
1 CACAAAGCCATCAATA
31614219 TCACAGCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.43, C:0.27, G:0.17, T:0.14
Consensus pattern (20 bp):
CACAAAGCCATCAATAGTGG
Found at i:31614167 original size:40 final size:40
Alignment explanation
Indices: 31614107--31614218 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
31614097 TAGCGGCTTG
* * * *
31614107 AAGCTATCAGTAGCGACACAAAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGCGGCACAAAGCCATCAATAATGGCACA
* *
31614147 AAGCCATCACTAGTGGCACAAAGCCATCAATAATGGCACA
1 AAGCCATCAATAGCGGCACAAAGCCATCAATAATGGCACA
*
31614187 AAGCCATCAATAGCGGCACAAAGCCATAAATA
1 AAGCCATCAATAGCGGCACAAAGCCATCAATA
31614219 TCACAGCAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.14
Consensus pattern (40 bp):
AAGCCATCAATAGCGGCACAAAGCCATCAATAATGGCACA
Found at i:31616117 original size:40 final size:40
Alignment explanation
Indices: 31616021--31616220 Score: 273
Period size: 40 Copynumber: 5.0 Consensus size: 40
31616011 ATGATAACCA
*
31616021 GGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCG
* *
31616062 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
31616102 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
31616142 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
31616182 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
31616221 ATTAAATCCC
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 17 0.12
40 101 0.70
41 21 0.14
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:31620370 original size:25 final size:24
Alignment explanation
Indices: 31620337--31620386 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
31620327 TGTATTAAAG
* *
31620337 ATGTCTAAACTAGGACATATTTAA
1 ATGTCTAAACCAGGACATAATTAA
*
31620361 ATGTCATAAACCATGACATAATTAA
1 ATGTC-TAAACCAGGACATAATTAA
31620386 A
1 A
31620387 AATACCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (24 bp):
ATGTCTAAACCAGGACATAATTAA
Found at i:31620452 original size:38 final size:38
Alignment explanation
Indices: 31620373--31620469 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
31620363 GTCATAAACC
* * *
31620373 ATGACATAATTAAAAATACCTTATTAAAGATGTTCAGATT
1 ATGACATAATTAAAACT--CATATTAAAGATGCTCAGATT
* *
31620413 ATGACATAATTAAAACTCATATTAATGATGCTCATATT
1 ATGACATAATTAAAACTCATATTAAAGATGCTCAGATT
*
31620451 ATGACATAATTAAGACTCA
1 ATGACATAATTAAAACTCA
31620470 AACTAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 35 0.69
40 16 0.31
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (38 bp):
ATGACATAATTAAAACTCATATTAAAGATGCTCAGATT
Found at i:31625122 original size:29 final size:30
Alignment explanation
Indices: 31625082--31625155 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
31625072 TTATTGTTAT
* * *
31625082 TTTAATGTAATAATTGTTTTAGT-TAT-TTA
1 TTTAATTTAAT-ATAGTTTTAATATATATTA
31625111 TTTAATTTAATATAGTTTTAATATATATTA
1 TTTAATTTAATATAGTTTTAATATATATTA
*
31625141 TGTAATTTAAATATA
1 TTTAATTT-AATATA
31625156 ATACAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 9 0.24
29 13 0.34
30 10 0.26
31 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (30 bp):
TTTAATTTAATATAGTTTTAATATATATTA
Found at i:31629732 original size:46 final size:46
Alignment explanation
Indices: 31629680--31630367 Score: 865
Period size: 46 Copynumber: 15.0 Consensus size: 46
31629670 GCTTTCTGAA
*
31629680 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
31629726 ATGAAATGTGTAAGACCATGG-T------CACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
31629765 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
31629811 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
31629857 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
31629903 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
31629949 ATGAAATGTGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAA--TG-----TGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
31630002 ATGAAATGTGTAAGAACATGGTTGAAAGATACTATGG-AAAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAT--GAT
* *
31630049 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
31630095 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
31630141 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
31630187 ATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
31630232 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
31630278 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * * *
31630324 A-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
31630368 TCAAAGATAA
Statistics
Matches: 572, Mismatches: 51, Indels: 38
0.87 0.08 0.06
Matches are distributed among these distances:
39 36 0.06
40 1 0.00
45 41 0.07
46 405 0.71
47 37 0.06
48 6 0.01
51 2 0.00
53 44 0.08
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:31630196 original size:284 final size:276
Alignment explanation
Indices: 31629681--31630231 Score: 877
Period size: 284 Copynumber: 2.0 Consensus size: 276
31629671 CTTTCTGAAA
* *
31629681 TGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATG
1 TGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGAACATG
* * * *
31629746 GTCACCATGACAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGAT
66 GTCACCATGAAAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
* *
31629811 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCAT
131 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACAGGATATAAAATGTGTAAGACCAT
* * *
31629876 GGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGC
196 GGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGATTGAAAGACACCATGGC
31629941 AACATGATATGAAATG
261 AACATGATATGAAATG
31629957 TGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGAACATG
1 TGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGAACATG
* * *
31630022 GTTGAAAGATACTATGGAAAATAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
66 G-T------CACCAT-GAAAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGA
* *
31630087 AACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTGT
123 AACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACAGGATATAAAATGTGT
*
31630152 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGATTGAAAGAT
188 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGATTGAAAGAC
31630217 ACCATGGCAACATGA
253 ACCATGGCAACATGA
31630232 CGGGAATGAA
Statistics
Matches: 250, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
276 64 0.26
277 1 0.00
283 4 0.02
284 181 0.72
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (276 bp):
TGAAATATGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGAACATG
GTCACCATGAAAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACAGGATATAAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGATTGAAAGACACCATGGC
AACATGATATGAAATG
Found at i:31630381 original size:137 final size:137
Alignment explanation
Indices: 31629966--31630385 Score: 504
Period size: 137 Copynumber: 3.1 Consensus size: 137
31629956 GTGAAATATG
* *
31629966 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGAACATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * *
31630031 TACTATGG-AAAATAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAT
66 TACCATGGCAACAT--GATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATG-T
* **
31630095 -ATAAAATGTG
128 CA-AAGATGAA
*
31630105 TAAGACCATGGTTGAAAGATACCATGGAAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * *
31630170 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGAC-G
66 TACCATGGCAACATGATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGTCAA
*
31630234 GGAATGAA
131 AG-ATGAA
** * * ***
31630242 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * * * * * *
31630307 TACCATGGCAACCTGACAGAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATGTCAA
66 TACCATGGCAACATGATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGTCAA
*
31630372 AGATAAA
131 AGATGAA
31630379 TAAGACC
1 TAAGACC
31630386 GTGGATGGGA
Statistics
Matches: 242, Mismatches: 35, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
137 124 0.51
138 46 0.19
139 69 0.29
140 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATAAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGTCAA
AGATGAA
Found at i:31630669 original size:16 final size:17
Alignment explanation
Indices: 31630648--31630680 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31630638 ATGATGGAGC
31630648 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
31630664 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
31630681 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:31632215 original size:53 final size:53
Alignment explanation
Indices: 31632128--31632230 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
31632118 GGCACTGAAG
* * * *
31632128 GACCATATCGTGTAAAACTGTAACTGGTGGGTTATGGCATCATATGGAAAAAA
1 GACCATATAGTGTAAAACCGTAACTGATGGGTTATGACATCATATGGAAAAAA
* * *
31632181 GACCATATAGTGTTAGACCGTAATTGATGGGTTATGACATCATATGGAAA
1 GACCATATAGTGTAAAACCGTAACTGATGGGTTATGACATCATATGGAAA
31632231 TATTTAATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (53 bp):
GACCATATAGTGTAAAACCGTAACTGATGGGTTATGACATCATATGGAAAAAA
Found at i:31632525 original size:29 final size:29
Alignment explanation
Indices: 31632381--31632531 Score: 87
Period size: 29 Copynumber: 5.3 Consensus size: 29
31632371 TTAAGGACTT
* *
31632381 CTTTGCGGCAAAACTCTAGAAAGGTAAGT
1 CTTTGTGGCAAAACTCTAGAAAGGTAAGC
* * * *
31632410 TTTTGTGG-TAAAC-CTATTAAAGG-ACAAC
1 CTTTGTGGCAAAACTCTA-GAAAGGTA-AGC
* *
31632438 CTTTGTGGCAGAACTCTAGAAAGGTAAGT
1 CTTTGTGGCAAAACTCTAGAAAGGTAAGC
* * * * * * *
31632467 CTTTATGACGAACCTGT-TAAAGG-ACTGC
1 CTTTGTGGCAAAACTCTAGAAAGGTA-AGC
*
31632495 CTTTGCGGCAAAACTCTAGAAAGGTAAGC
1 CTTTGTGGCAAAACTCTAGAAAGGTAAGC
*
31632524 CTTAGTGG
1 CTTTGTGG
31632532 TGAACCTCTT
Statistics
Matches: 83, Mismatches: 31, Indels: 16
0.64 0.24 0.12
Matches are distributed among these distances:
27 5 0.06
28 34 0.41
29 39 0.47
30 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (29 bp):
CTTTGTGGCAAAACTCTAGAAAGGTAAGC
Found at i:31632537 original size:57 final size:56
Alignment explanation
Indices: 31632373--31632544 Score: 202
Period size: 57 Copynumber: 3.0 Consensus size: 56
31632363 ATCTCTTTTT
* * * *
31632373 AAGGACTTCTTTGCGGCAAAACTCTAGAAAGGTAAGTTTTTGTGGTAAACCTATTA
1 AAGGACTCCTTTGCGGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTA
* * * ** *
31632429 AAGGACAACCTTTGTGGCAGAACTCTAGAAAGGTAAGTCTTTA-TGACGAACCTGTTA
1 AAGGAC-TCCTTTGCGGCAAAACTCTAGAAAGGTAAG-CTTTAGTGGTGAACCTATTA
* *
31632486 AAGGACTGCCTTTGCGGCAAAACTCTAGAAAGGTAAGCCTTAGTGGTGAACCTCTTA
1 AAGGACT-CCTTTGCGGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTA
31632543 AA
1 AA
31632545 CAACGCCTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
56 10 0.11
57 82 0.86
58 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (56 bp):
AAGGACTCCTTTGCGGCAAAACTCTAGAAAGGTAAGCTTTAGTGGTGAACCTATTA
Found at i:31634980 original size:46 final size:46
Alignment explanation
Indices: 31634930--31635262 Score: 347
Period size: 46 Copynumber: 7.5 Consensus size: 46
31634920 CCATAGTGTT
* *
31634930 TTTCAACTATGGTCTTACTCATTTTCTATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* *
31634976 TTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* *
31635022 TTTCAACCATGG------TC---TTGTG-C--GTTGCCATGGCATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* * * * *
31635056 TTTCAACAATTGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
* *
31635101 TTTCAACCATGGTCTTA-TTATTTTCATGTCATGTTGCCATGATATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
* * *
31635147 TTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTTCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
* * *
31635193 TTACAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
*
31635239 TTTCAACCATGGTCTTACACATTT
1 TTTCAACCATGGTCTTACTCATTT
31635263 CATTTCAGAA
Statistics
Matches: 241, Mismatches: 30, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
34 23 0.10
36 1 0.00
37 3 0.01
40 4 0.02
42 2 0.01
43 1 0.00
44 2 0.01
45 31 0.13
46 171 0.71
47 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATC
Found at i:31635111 original size:79 final size:80
Alignment explanation
Indices: 31634962--31635116 Score: 267
Period size: 79 Copynumber: 1.9 Consensus size: 80
31634952 TTTCTATCAT
* * *
31634962 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCATGGTATCTTTCA
1 GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
31635027 ACCATGGTCTTGTGC
66 ACCATGGTCTTGTGC
*
31635042 GTTGCCATGGCATCTTTCAACAATTGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCA
1 GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
31635106 ACCATGGTCTT
66 ACCATGGTCTT
31635117 ATTATTTTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
79 39 0.55
80 32 0.45
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (80 bp):
GTTGCCATGGCATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCA
ACCATGGTCTTGTGC
Found at i:31637081 original size:30 final size:30
Alignment explanation
Indices: 31637024--31637092 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
31637014 ATACTAATAA
*
31637024 AATAATAATAAAATATCTTATTAAAAT-ATT
1 AATAA-AATAAAATATCTAATTAAAATAATT
31637054 AATAAAATAAAATTAATCTAATT-AAATAATT
1 AATAAAATAAAA-T-ATCTAATTAAAATAATT
31637085 -ATAAAATA
1 AATAAAATA
31637093 TCAAAATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 18 0.51
31 10 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAAATAAAATATCTAATTAAAATAATT
Found at i:31638248 original size:26 final size:27
Alignment explanation
Indices: 31638214--31638266 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
31638204 GATCTTGAGA
31638214 AAAGTTTAGA-TTTAAAAAAAAAATAG
1 AAAGTTTAGATTTTAAAAAAAAAATAG
*
31638240 AAAGTTTAGATTTTTAAAATAAAAATA
1 AAAGTTTAGA-TTTTAAAAAAAAAATA
31638267 TGTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.42
28 14 0.58
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAGTTTAGATTTTAAAAAAAAAATAG
Found at i:31638469 original size:153 final size:151
Alignment explanation
Indices: 31638224--31638526 Score: 414
Period size: 153 Copynumber: 2.0 Consensus size: 151
31638214 AAAGTTTAGA
* * *
31638224 TTTAAAAAAAAAATAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTTAGTCATATTGAA
1 TTTAAAAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATCTATTTTTTAGTCATATTGAA
31638289 AGAAAAGTCAAATTCTTAAAACAAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAATTTTGAT
66 AGAAAAGTCAAATTCTTAAAACAAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAATTTTGAT
31638354 TTTTAAGAAAAATAGTGATTC
131 TTTTAAGAAAAATAGTGATTC
* *
31638375 TTTAAATAAAAAATAGAGAAAGTTTAGATTTTTAAAAT-AAAA-ATCTATTTTTTAGTCGT-TTT
1 TTTAAA-AAAAAA-AGAGAAAGTTTAGATTTTTAAAATAAAAATATCTATTTTTTAGTCATATTG
* * * ** * * *
31638437 AAAGGAAAAGTTTTAATTTTTTAAAATGAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGTT
64 AAA-GAAAAG--TCAAATTCTTAAAACAAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAATT
*
31638502 TTGATTTTTAAGAAAAGTAGTGATT
126 TTGATTTTTAAGAAAAATAGTGATT
31638527 TTTTTTAAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
150 5 0.04
151 26 0.20
152 10 0.08
153 92 0.69
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (151 bp):
TTTAAAAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATCTATTTTTTAGTCATATTGAA
AGAAAAGTCAAATTCTTAAAACAAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAATTTTGAT
TTTTAAGAAAAATAGTGATTC
Found at i:31639080 original size:21 final size:21
Alignment explanation
Indices: 31639056--31639096 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31639046 TTATTCACAA
*
31639056 TTTTATAATTTTTATTTATTC
1 TTTTATAATTTTTACTTATTC
* *
31639077 TTTTTTCATTTTTACTTATT
1 TTTTATAATTTTTACTTATT
31639097 TTCATGTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTATAATTTTTACTTATTC
Found at i:31642512 original size:21 final size:21
Alignment explanation
Indices: 31642483--31642528 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31642473 TCTATCATTG
* *
31642483 TTATTATTTTTATTTCTTTTA-
1 TTATAATTTTT-TTTATTTTAC
31642504 TTATAATTTTTTTTATTTTAC
1 TTATAATTTTTTTTATTTTAC
31642525 TTAT
1 TTAT
31642529 TTTAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATAATTTTTTTTATTTTAC
Found at i:31643821 original size:12 final size:12
Alignment explanation
Indices: 31643804--31643833 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31643794 TGGTTTTATA
31643804 AAAATATTTTCT
1 AAAATATTTTCT
31643816 AAAATATTTTCT
1 AAAATATTTTCT
*
31643828 TAAATA
1 AAAATA
31643834 AACTCAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
AAAATATTTTCT
Found at i:31644017 original size:16 final size:16
Alignment explanation
Indices: 31643967--31644017 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
31643957 TTACTTAAAT
*
31643967 TTTCTCAGGCTCAGATC
1 TTTCTCAAGCTCAG-TC
*
31643984 TTT-TTAAGCTCAAG-C
1 TTTCTCAAGCTC-AGTC
31643999 TTTCTCAAGCTCAGTC
1 TTTCTCAAGCTCAGTC
31644015 TTT
1 TTT
31644018 TTAGACCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.21
16 17 0.61
17 5 0.18
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (16 bp):
TTTCTCAAGCTCAGTC
Found at i:31644043 original size:32 final size:32
Alignment explanation
Indices: 31643963--31644043 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
31643953 CTTCTTACTT
*
31643963 AAATTTTCTCAGGCTCAGATCTTTTTAAGCTC
1 AAATTTTCTCAGGCTCAGATCTTTTTAACCTC
** *
31643995 AAGCTTTCTCAAGCTCAG-TCTTTTTAGACCTC
1 AAATTTTCTCAGGCTCAGATCTTTTTA-ACCTC
*
31644027 AAATTTTCTTAGGCTCA
1 AAATTTTCTCAGGCTCA
31644044 AGCCCTTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 8 0.20
32 32 0.80
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (32 bp):
AAATTTTCTCAGGCTCAGATCTTTTTAACCTC
Found at i:31644539 original size:67 final size:67
Alignment explanation
Indices: 31644460--31644596 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
31644450 TCAAGTTCAA
*
31644460 AATAAAAAGAAATTAAGCCCAATACCCAAATACAATTTGTAAAAGTTAAAAGCTCAATTCAAAAT
1 AATAAAAAGAAATTAAGCCCAATACCCAAATACAATTTGTAAAAGTTAAAAGCCCAATTCAAAAT
31644525 CT
66 CT
*
31644527 AATAAAAAGAAATTAAGCCCAGTACCCAAATACAATTTGTAAAAGTTAAAAGCCCAATTCAAAAT
1 AATAAAAAGAAATTAAGCCCAATACCCAAATACAATTTGTAAAAGTTAAAAGCCCAATTCAAAAT
31644592 CT
66 CT
31644594 AAT
1 AAT
31644597 TTAATAAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (67 bp):
AATAAAAAGAAATTAAGCCCAATACCCAAATACAATTTGTAAAAGTTAAAAGCCCAATTCAAAAT
CT
Found at i:31647117 original size:29 final size:24
Alignment explanation
Indices: 31647053--31647111 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
31647043 ACCAAAGCAT
31647053 TCATATCATATTTCTCATTCATGA
1 TCATATCATATTTCTCATTCATGA
31647077 TCATATCATATTTCTCATTCATGA
1 TCATATCATATTTCTCATTCATGA
31647101 TCATATCATAT
1 TCATATCATAT
31647112 CATATTGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (24 bp):
TCATATCATATTTCTCATTCATGA
Found at i:31647937 original size:30 final size:30
Alignment explanation
Indices: 31647901--31647957 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
31647891 CCTTAACTCT
31647901 AACTTTTGCAAAATTACAATTTTGCCCTTA
1 AACTTTTGCAAAATTACAATTTTGCCCTTA
* * *
31647931 AACTTTTGCATATTTACACTTTTGCCC
1 AACTTTTGCAAAATTACAATTTTGCCC
31647958 CAAAGTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCTTA
Found at i:31655699 original size:2 final size:2
Alignment explanation
Indices: 31655692--31655720 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
31655682 CCCACTACGC
31655692 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31655721 CTTGACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31657534 original size:20 final size:18
Alignment explanation
Indices: 31657484--31657535 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
31657474 CTACAAGATA
31657484 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
31657501 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
31657521 AATATTAAATTAATA
1 AATATTAAATTAATA
31657536 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:31657912 original size:20 final size:20
Alignment explanation
Indices: 31657887--31657933 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31657877 CCGGTTCAAC
* *
31657887 CAATTTTTAGGTCTTGATCT
1 CAATTTTGAGGTCTTGAGCT
* *
31657907 CAATTTTGAGTTGTTGAGCT
1 CAATTTTGAGGTCTTGAGCT
31657927 CAATTTT
1 CAATTTT
31657934 CGATCTCAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (20 bp):
CAATTTTGAGGTCTTGAGCT
Found at i:31664490 original size:40 final size:40
Alignment explanation
Indices: 31664416--31664597 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
31664406 AAACCAAGTA
* *
31664416 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
31664455 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
31664495 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
31664535 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
31664575 CCTTCGGGACTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGTTAT
31664598 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 119 0.89
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:31668073 original size:136 final size:136
Alignment explanation
Indices: 31667833--31668087 Score: 334
Period size: 136 Copynumber: 1.9 Consensus size: 136
31667823 CGGTTATGGT
* * * * *
31667833 AACCAATCGAGTCTGCTAGGACATTAAACATAGGGTTTAAAGATGAAAGGCCATAGTTAGGCTAT
1 AACCAATAGAGTCTACTAGGAAATTAAACATAGGGTTTAAAGATGAAAGACCATAGCTAGGCTAT
* * * *
31667898 GACAACTAATAGAATCCACAAGGACCTTACATATTGGGTTACAAAGTGTAAGACTAGAGCTCGAC
66 GACAACTAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGACTAGAGCTCGAC
31667963 TACAAC
131 TACAAC
* * *
31667969 AACCAATAGAGTCTACTAGGAAATTAAACAT-GAGG-TTACAAGGTGTAAGACCATAGCTCGGCT
1 AACCAATAGAGTCTACTAGGAAATTAAACATAG-GGTTTA-AAGATGAAAGACCATAGCTAGGCT
* * * *
31668032 ATGACAACTAATAGAGTCTACAATGACATTAAACATGGGGTTACAAGGTGTAAGAC
64 ATGACAACTAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGAC
31668088 CATAGGTCAG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
135 4 0.04
136 97 0.96
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (136 bp):
AACCAATAGAGTCTACTAGGAAATTAAACATAGGGTTTAAAGATGAAAGACCATAGCTAGGCTAT
GACAACTAATAGAATCCACAAGGACATTAAACATGGGGTTACAAAGTGTAAGACTAGAGCTCGAC
TACAAC
Found at i:31668090 original size:68 final size:68
Alignment explanation
Indices: 31667804--31668106 Score: 293
Period size: 68 Copynumber: 4.5 Consensus size: 68
31667794 AAAGAGGTAT
* ** * * * *
31667804 AAGGTGTAAGACCATAGCTCGGTTATGGTAACCAATCGAGTCTGCTAGGACATTAAACATAGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACAT-GGGG
31667869 TTA-
65 TTAC
* * * * * * * * * * * *
31667872 AAGATGAAAGGCCATAGTTAGGCTATGACAACTAATAGAATCCACAAGGACCTTACATATTGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATGGGGT
31667937 TAC
66 TAC
* * * * ** * * *
31667940 AAAGTGTAAGACTAGAGCTCGACTACAACAACCAATAGAGTCTACTAGGAAATTAAACATGAGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATGGGGT
31668005 TAC
66 TAC
* *
31668008 AAGGTGTAAGACCATAGCTCGGCTATGACAACTAATAGAGTCTACAATGACATTAAACATGGGGT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATGGGGT
31668073 TAC
66 TAC
* * *
31668076 AAGGTGTAAGACCATAGGTCAGTTATGACAA
1 AAGGTGTAAGACCATAGCTCGGCTATGACAA
31668107 AAAAAATTTC
Statistics
Matches: 180, Mismatches: 54, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
67 5 0.03
68 175 0.97
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (68 bp):
AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTACAAGGACATTAAACATGGGGT
TAC
Found at i:31679296 original size:25 final size:25
Alignment explanation
Indices: 31679262--31679311 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
31679252 GGTGATTCAT
*
31679262 CCATGGAAAAATTAGAAAAGACTAA
1 CCATGGAAAAATTAAAAAAGACTAA
31679287 CCATGGAAAAATTAAAAAAGACTAA
1 CCATGGAAAAATTAAAAAAGACTAA
31679312 GGACTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (25 bp):
CCATGGAAAAATTAAAAAAGACTAA
Found at i:31680356 original size:25 final size:26
Alignment explanation
Indices: 31680328--31680379 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
31680318 AGCATCATGA
*
31680328 TTAAA-GGTTCTTTATGAACTTCCCG
1 TTAAATGGCTCTTTATGAACTTCCCG
*
31680353 TTAAATTGGCTCTTTATGAGCTTCCCG
1 TTAAA-TGGCTCTTTATGAACTTCCCG
31680380 ATATTGCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
27 18 0.78
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (26 bp):
TTAAATGGCTCTTTATGAACTTCCCG
Found at i:31680469 original size:48 final size:47
Alignment explanation
Indices: 31680357--31680473 Score: 121
Period size: 48 Copynumber: 2.4 Consensus size: 47
31680347 TTCCCGTTAA
* *
31680357 ATTGGCTCTTTATGAGCTTCCCGATATTGCTCTCTTGAACTTCCTGAT
1 ATTGGCTC-TTATGAGCTTCCCAATATAGCTCTCTTGAACTTCCTGAT
* * * * *
31680405 ATTGGCTATCCA-GAGCTTCCTAATATAGTTCTTTGTGAACTTCCTGAT
1 ATTGGCTCT-TATGAGCTTCCCAATATAGCTCTCT-TGAACTTCCTGAT
31680453 -TATGGCTCTTATGAGCTTCCC
1 AT-TGGCTCTTATGAGCTTCCC
31680474 GTTATATAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
47 20 0.36
48 35 0.64
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (47 bp):
ATTGGCTCTTATGAGCTTCCCAATATAGCTCTCTTGAACTTCCTGAT
Found at i:31680471 original size:24 final size:23
Alignment explanation
Indices: 31680359--31680472 Score: 70
Period size: 24 Copynumber: 4.8 Consensus size: 23
31680349 CCCGTTAAAT
*
31680359 TGGCTCTTTATGAGCTTCCCGATA
1 TGGCTC-TTATGAGCTTCCTGATA
* *
31680383 TTGCTCTCT-TGAACTTCCTGATA
1 TGGCTCT-TATGAGCTTCCTGATA
* * *
31680406 TTGGCTATCCA-GAGCTTCCTAATA
1 -TGGCTCT-TATGAGCTTCCTGATA
* * * *
31680430 TAGTTCTTTGTGAACTTCCTGATTA
1 TGGCTC-TTATGAGCTTCCTGA-TA
31680455 TGGCTCTTATGAGCTTCC
1 TGGCTCTTATGAGCTTCC
31680473 CGTTATATAG
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
23 16 0.25
24 43 0.66
25 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (23 bp):
TGGCTCTTATGAGCTTCCTGATA
Found at i:31684751 original size:2 final size:2
Alignment explanation
Indices: 31684746--31684788 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
31684736 CATATATAGG
31684746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31684788 T
1 T
31684789 GTATGCCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31686782 original size:2 final size:2
Alignment explanation
Indices: 31686775--31686806 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31686765 TATTCGAAGG
31686775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31686807 AGACAGCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31697928 original size:68 final size:68
Alignment explanation
Indices: 31697748--31698232 Score: 440
Period size: 68 Copynumber: 7.1 Consensus size: 68
31697738 GTATAATGTT
* * *
31697748 TAAGACCATAGCTTGACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTTAAAA
1 TAAGACCATAGCTTAACTATGAC-AACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAA
*
31697813 TGTG
65 GGTG
** * * * * *
31697817 TAAGACCATATATCT-ACTA-GACAACCAATAGAGTCTGCTAGGACATTCAATATGGGTTTACAA
1 TAAGACCATAGCT-TAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAA
*
31697880 GGTA
65 GGTG
* * * * *
31697884 TAAGACCATTGCTTAATTGTGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAAT
1 TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAAG
31697949 GTG
66 GTG
** * * * * *
31697952 TAAGACCATATATCT-ACTA-GACAACCAATATAGTCCGCTAGGACATTCAATATGGGTTTACAA
1 TAAGACCATAGCT-TAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAA
*
31698015 GGTT
65 GGTG
* * *
31698019 TAAGACCATAGCTCAACTAT-AGCAACCAATAGAGTCCGTCATGACATTAAACATGGGGTTACAA
1 TAAGACCATAGCTTAACTATGA-CAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAA
*
31698083 GATG
65 GGTG
* * * ** * * * * * ** *
31698087 TAAAACCATAGCTCAATTACAATAAGCAATAGAGTTCGTCAGGACATTAAATATAAGGTTATAAG
1 TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAAG
31698152 GTG
66 GTG
* ** ** * *
31698155 TAAGACCATAGCTTGACTACAACAACCAATAGAGTCTACTAGGATATTAAACATGGGGTTACAAG
1 TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAAG
**
31698220 GCA
66 GTG
31698223 TAAGACCATA
1 TAAGACCATA
31698233 AGTCGATTAT
Statistics
Matches: 329, Mismatches: 79, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
66 1 0.00
67 104 0.32
68 206 0.63
69 17 0.05
70 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (68 bp):
TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTACAAG
GTG
Found at i:31698014 original size:135 final size:135
Alignment explanation
Indices: 31697748--31698215 Score: 566
Period size: 135 Copynumber: 3.5 Consensus size: 135
31697738 GTATAATGTT
* *
31697748 TAAGACCATAGCTTGACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTTAAAA
1 TAAGACCATAGCTTAACTATGAC-AACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAA
*
31697813 TGTGTAAGACCATATATCTACTAGACAACCAATAGAGTCTGCTAGGACATTCAATATGGGTTTAC
65 TGTGTAAGACCATATATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATATGGGTTTAC
31697878 AAGGTA
130 AAGGTA
* * *
31697884 TAAGACCATTGCTTAATTGTGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAAT
1 TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAAT
*
31697949 GTGTAAGACCATATATCTACTAGACAACCAATATAGTCCGCTAGGACATTCAATATGGGTTTACA
66 GTGTAAGACCATATATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATATGGGTTTACA
*
31698014 AGGTT
131 AGGTA
* * * *
31698019 TAAGACCATAGCTCAACTAT-AGCAACCAATAGAGTCCGTCATGACATTAAACATGGGGTTACAA
1 TAAGACCATAGCTTAACTATGA-CAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAA
* ** * * * * * * * *
31698083 -GATGTAAAACCATAGCTCAATTACAATAAGCAATAGAGTTCG-TCAGGACATTAAATATAAGG-
65 TG-TGTAAGACCATATATCTACTA-GACAACCAATAGAGTCCGCT-AGGACATTCAATAT-GGGT
* *
31698145 TTATAAGGTG
126 TTACAAGGTA
* ** ** * *
31698155 TAAGACCATAGCTTGACTACAACAACCAATAGAGTCTACTAGGATATTAAACATGGGGTTA
1 TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTA
31698216 CAAGGCATAA
Statistics
Matches: 288, Mismatches: 38, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
134 2 0.01
135 180 0.62
136 103 0.36
137 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (135 bp):
TAAGACCATAGCTTAACTATGACAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTAAAAT
GTGTAAGACCATATATCTACTAGACAACCAATAGAGTCCGCTAGGACATTCAATATGGGTTTACA
AGGTA
Found at i:31698229 original size:271 final size:271
Alignment explanation
Indices: 31697745--31698232 Score: 592
Period size: 271 Copynumber: 1.8 Consensus size: 271
31697735 GAGGTATAAT
**
31697745 GTTTAAGACCATAGCTTGACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTTA
1 GTTTAAGACCATAGCTCAACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTTA
* * * * * *
31697810 AAATGTGTAAGACCATATATCTACTAGACAACCAATAGAGTCTGCTAGGACATTCAATATGGGTT
66 AAATGTGTAAAACCATAGATCAACTAAACAACCAATAGAGTCTGCTAGGACATTAAATATAGGTT
* * *** *
31697875 TACAAGGTATAAGACCATTGCTTAATTGTGACAACCAATAGAGTCCGCCAGGACATTAAACATGG
131 TACAAGGTATAAGACCATAGCTTAACTACAACAACCAATAGAGTCCACCAGGACATTAAACATGG
* **
31697940 GGTTAAAATGTGTAAGACCATATATCTACTAGACAACCAATATAGTCCGCTAGGACATTCAATAT
196 GGTTAAAAGGCATAAGACCATATATCTACTAGACAACCAATATAGTCCGCTAGGACATTCAATAT
31698005 GGGTTTACAAG
261 GGGTTTACAAG
* * *
31698016 GTTTAAGACCATAGCTCAACTAT-AGC-AACCAATAGAGTCCGTCATGACATTAAACATGGGGTT
1 GTTTAAGACCATAGCTCAACTATGA-CAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTT
* * * * *
31698079 ACAA-GATGTAAAACCATAGCTCAATTACAATAAGCAATAGAGT-T-CGTCAGGACATTAAATAT
65 AAAATG-TGTAAAACCATAGATCAACTA-AACAACCAATAGAGTCTGC-T-AGGACATTAAATAT
* * * * * *
31698141 AAGG-TTATAAGGTGTAAGACCATAGCTTGACTACAACAACCAATAGAGTCTACTAGGATATTAA
126 -AGGTTTACAAGGTATAAGACCATAGCTTAACTACAACAACCAATAGAGTCCACCAGGACATTAA
*
31698205 ACATGGGGTTACAAGGCATAAGACCATA
190 ACATGGGGTTAAAAGGCATAAGACCATA
31698233 AGTCGATTAT
Statistics
Matches: 179, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
269 2 0.01
270 56 0.31
271 119 0.66
272 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (271 bp):
GTTTAAGACCATAGCTCAACTATGACAAACCAATAGAGTCCGCCAGGACATTAAACATGAGGTTA
AAATGTGTAAAACCATAGATCAACTAAACAACCAATAGAGTCTGCTAGGACATTAAATATAGGTT
TACAAGGTATAAGACCATAGCTTAACTACAACAACCAATAGAGTCCACCAGGACATTAAACATGG
GGTTAAAAGGCATAAGACCATATATCTACTAGACAACCAATATAGTCCGCTAGGACATTCAATAT
GGGTTTACAAG
Found at i:31703477 original size:20 final size:20
Alignment explanation
Indices: 31703452--31703490 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31703442 AAAATTTCAA
31703452 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
31703472 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
31703491 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:31709014 original size:43 final size:42
Alignment explanation
Indices: 31708966--31709105 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 42
31708956 GTCCCGGAAG
*
31708966 TGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 TGGTCTTACACGTAATTCAATATCGATGCCT-TGTCCCAGACA
* * *
31709009 GGGTCTTACACG-AAATCAGATA-CGATACCATTGTCCCAGACA
1 TGGTCTTACACGTAATTCA-ATATCGATGCC-TTGTCCCAGACA
* *
31709051 TGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACA
1 TGGTCTTACACGT-AAT-TCAATATCGATGCCT-TGTCCCAGACA
*
31709094 TGATCTTACACG
1 TGGTCTTACACG
31709106 ATGTCTCAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
42 34 0.43
43 41 0.52
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACGTAATTCAATATCGATGCCTTGTCCCAGACA
Found at i:31711401 original size:22 final size:21
Alignment explanation
Indices: 31711376--31711416 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31711366 TCGAATTGGT
*
31711376 CACACGAGCGTGTTGCCCCTCC
1 CACACAAGCGTG-TGCCCCTCC
*
31711398 CACATAAGCGTGTGCCCCT
1 CACACAAGCGTGTGCCCCT
31711417 AGGTCTAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.20
Consensus pattern (21 bp):
CACACAAGCGTGTGCCCCTCC
Found at i:31718147 original size:21 final size:21
Alignment explanation
Indices: 31718122--31718163 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31718112 ACAACATTTA
31718122 AGATAAATTTTATATTTATAT
1 AGATAAATTTTATATTTATAT
31718143 AGATAAATTTTATATTTATAT
1 AGATAAATTTTATATTTATAT
31718164 TTTTCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
AGATAAATTTTATATTTATAT
Found at i:31719904 original size:29 final size:29
Alignment explanation
Indices: 31719872--31719949 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
31719862 ATACCCTCCG
** *
31719872 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
31719901 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
31719930 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
31719950 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:31721117 original size:14 final size:16
Alignment explanation
Indices: 31721098--31721129 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31721088 GCATCCATGC
31721098 TCATTT-TTT-TTTTT
1 TCATTTCTTTATTTTT
31721112 TCATTTCTTTATTTTT
1 TCATTTCTTTATTTTT
31721128 TC
1 TC
31721130 TACATAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (16 bp):
TCATTTCTTTATTTTT
Found at i:31730518 original size:2 final size:2
Alignment explanation
Indices: 31730506--31730547 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
31730496 TGTTGTCAAA
*
31730506 AT AT TT 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 AT
31730548 TGATACATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:31733039 original size:47 final size:47
Alignment explanation
Indices: 31732988--31733164 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
31732978 TGGTTGAACA
*
31732988 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
31733035 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* * *
31733082 TCCGAACTCGTTCAGTTGAGTCTGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
*
31733128 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31733165 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 3 0.03
46 34 0.31
47 56 0.52
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:31737159 original size:5 final size:5
Alignment explanation
Indices: 31737138--31737208 Score: 74
Period size: 5 Copynumber: 13.6 Consensus size: 5
31737128 TTTTTAGTTA
31737138 TTTAT TCTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTTGATT TTTAT
1 TTTAT T-TTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T TTTAT
*
31737187 TTCAAT TTTA- -TTAT TTTAT TTT
1 TT-TAT TTTAT TTTAT TTTAT TTT
31737209 GAAAGACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
3 3 0.05
5 36 0.63
6 12 0.21
7 6 0.11
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:31737201 original size:31 final size:31
Alignment explanation
Indices: 31737129--31737210 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 31
31737119 TCCTCCTATT
* *
31737129 TTTTAGTTA-TTTATTCTT-ATTTTTATTTTA
1 TTTTATTTATTTTATT-TTGATTTTTATTTAA
31737159 TTTTATTTTATTTTATTTTGATTTTTATTTCAA
1 TTTTA-TTTATTTTATTTTGATTTTTATTT-AA
31737192 TTTTA-TTATTTTATTTTGA
1 TTTTATTTATTTTATTTTGA
31737211 AAGACATATC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
30 5 0.11
31 19 0.41
32 16 0.35
33 6 0.13
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (31 bp):
TTTTATTTATTTTATTTTGATTTTTATTTAA
Found at i:31752304 original size:46 final size:45
Alignment explanation
Indices: 31752193--31752409 Score: 201
Period size: 46 Copynumber: 4.7 Consensus size: 45
31752183 GCATGTCTGT
*
31752193 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACGTCTCG-AG
** * *
31752239 GCCGATGCATGTCTTAGACATGTCTTACACTGACTTATGTTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TACGTCTCGAG
* * *
31752285 GCAGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTACGTCTCGAG
* * *
31752331 GCCGATGTCATGTCCCAGACATGGTCTTACACTGGCT-C-TCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACGTC-T--CGAG
31752379 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
31752410 AGCTCACACA
Statistics
Matches: 143, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 13 0.09
45 15 0.10
46 65 0.45
47 31 0.22
48 19 0.13
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTACGTCTCGAG
Found at i:31752359 original size:94 final size:92
Alignment explanation
Indices: 31752142--31752417 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 92
31752132 CAGGGTCAGG
* * * * *
31752142 TGCCGATGTCATGTCCCAGACATGGTCTTACAC-AAGTTCTAGCATGTCTGTGCCGATGCCATGT
1 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTAT-G--TATC-GGGCCGATG-CATGT
*
31752206 CCCAGACATGGTCTTACACT-G-ACACATCTCG
61 CCCAGACAT-GTCTTACACTAGCACACATCTCA
** * *
31752237 TAGCCGATG-CATGTCTTAGACAT-GTCTTACACTGACTTATGTTTCGAGGCAGATGCATGTCCC
1 T-GCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTATGTATCG-GGCCGATGCATGTCCC
* *
31752300 AGACATGTCTTACACTAGCACTCGTCTCAA
64 AGACATGTCTTACACTAGCACACATCTC-A
* *
31752330 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AAT-GTGGCCGATGCATGTCC
1 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACT-T-ATGTATCG-GGCCGATGCATGTCC
*
31752393 CAGACATGTCTTACACTAGCTCACA
63 CAGACATGTCTTACACTAGCACACA
31752418 CAAGTGACCC
Statistics
Matches: 150, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
90 10 0.07
91 16 0.11
92 23 0.15
93 13 0.09
94 60 0.40
95 19 0.13
96 9 0.06
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
TGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTTATGTATCGGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCA
Found at i:31755628 original size:12 final size:12
Alignment explanation
Indices: 31755597--31755631 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
31755587 TAGGTAGAAG
31755597 TAGTTTGTTTTT
1 TAGTTTGTTTTT
*
31755609 CAGTTTTGTTTTT
1 TAG-TTTGTTTTT
31755622 TAGTTTGTTT
1 TAGTTTGTTT
31755632 ACTGTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.09, C:0.03, G:0.17, T:0.71
Consensus pattern (12 bp):
TAGTTTGTTTTT
Found at i:31756270 original size:18 final size:18
Alignment explanation
Indices: 31756235--31756267 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
31756225 GAATGATGGT
31756235 TTTAACTATTATTTATAA
1 TTTAACTATTATTTATAA
31756253 TTTAA-TATT-TTTATA
1 TTTAACTATTATTTATA
31756268 TAACATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAACTATTATTTATAA
Found at i:31756947 original size:21 final size:21
Alignment explanation
Indices: 31756908--31756948 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31756898 GTTTAGGGGC
*
31756908 AGAGGTGATGGAGGGAGAGGG
1 AGAGGTGATGGAGGAAGAGGG
* *
31756929 AGAGGTGGTGGTGGAAGAGG
1 AGAGGTGATGGAGGAAGAGG
31756949 TGGCGATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (21 bp):
AGAGGTGATGGAGGAAGAGGG
Found at i:31763408 original size:33 final size:33
Alignment explanation
Indices: 31763366--31763432 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
31763356 AATGATAATA
*
31763366 GTCCATATTCCTATTTTTCCCACAGAACCAAGT
1 GTCCATATTCCTAGTTTTCCCACAGAACCAAGT
31763399 GTCCATATTCCTAGTTTTCCCACAGAACCAAGT
1 GTCCATATTCCTAGTTTTCCCACAGAACCAAGT
31763432 G
1 G
31763433 GAAACTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (33 bp):
GTCCATATTCCTAGTTTTCCCACAGAACCAAGT
Found at i:31766214 original size:20 final size:20
Alignment explanation
Indices: 31766191--31766240 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
31766181 AAATCCAAAT
31766191 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
31766211 TAAAATCCTGAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
31766231 TAAGAATACT
1 TAA-AATACT
31766241 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Done.