Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 200 of 228
Found at i:58733811 original size:14 final size:14
Alignment explanation
Indices: 58733794--58733823 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58733784 ACTTGAGCCA
*
58733794 CAAGCCTTGTGGGC
1 CAAGCCGTGTGGGC
58733808 CAAGCCGTGTGGGC
1 CAAGCCGTGTGGGC
58733822 CA
1 CA
58733824 CACGGGTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.30, G:0.37, T:0.17
Consensus pattern (14 bp):
CAAGCCGTGTGGGC
Found at i:58736070 original size:18 final size:18
Alignment explanation
Indices: 58736044--58736133 Score: 144
Period size: 18 Copynumber: 5.0 Consensus size: 18
58736034 GACCGTTTAA
58736044 GGTACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
58736062 GGCACTATTCACGTATAC
1 GGTACTATTCACGTATAC
*
58736080 GGTACTATTTACGTATAC
1 GGTACTATTCACGTATAC
*
58736098 GGTACTATTCATGTATAC
1 GGTACTATTCACGTATAC
*
58736116 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
58736134 AGTAGTTAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:58749806 original size:8 final size:8
Alignment explanation
Indices: 58749789--58749847 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
58749779 GGCAACCCAA
58749789 TTTTTA-T
1 TTTTTATT
58749796 TTTTTATT
1 TTTTTATT
58749804 TTTTTATT
1 TTTTTATT
*
58749812 TTTTTCTT
1 TTTTTATT
*
58749820 TACTTTA-T
1 T-TTTTATT
*
58749828 TTATTACTT
1 TTTTTA-TT
58749837 TATTTTATT
1 T-TTTTATT
58749846 TT
1 TT
58749848 ATTTTACTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 9 0.22
8 20 0.49
9 8 0.20
10 4 0.10
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:58749826 original size:17 final size:17
Alignment explanation
Indices: 58749791--58749847 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
58749781 CAACCCAATT
*
58749791 TTTATTTTTTA-TTT-T
1 TTTATTTTTTACTTTAC
*
58749806 TTTATTTTTTTCTTTAC
1 TTTATTTTTTACTTTAC
* *
58749823 TTTATTTATTACTTTAT
1 TTTATTTTTTACTTTAC
58749840 TTTATTTT
1 TTTATTTT
58749848 ATTTTACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 10 0.29
16 3 0.09
17 21 0.62
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTTACTTTAC
Found at i:58749854 original size:32 final size:32
Alignment explanation
Indices: 58749791--58749860 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
58749781 CAACCCAATT
* *
58749791 TTTATTTTTTATTTTTTTATTTTTTTCTTTAC
1 TTTATTTATTATTTTTTTATTTTTATCTTTAC
58749823 TTTATTTATTACTTTATTTTA-TTTTAT-TTTAC
1 TTTATTTATTA-TTT-TTTTATTTTTATCTTTAC
58749855 -TTATTT
1 TTTATTT
58749861 GGATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 6 0.18
32 15 0.44
33 8 0.24
34 5 0.15
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTATTTATTATTTTTTTATTTTTATCTTTAC
Found at i:58757618 original size:21 final size:22
Alignment explanation
Indices: 58757573--58757619 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
58757563 TAACATGTTG
58757573 AATTTTAATTAATTTTATAATA
1 AATTTTAATTAATTTTATAATA
* * *
58757595 AATTTTGATTTATTTT-TGATA
1 AATTTTAATTAATTTTATAATA
58757616 AATT
1 AATT
58757620 CACACAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
AATTTTAATTAATTTTATAATA
Found at i:58760171 original size:27 final size:27
Alignment explanation
Indices: 58760141--58760192 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
58760131 AAATGTTTAT
*
58760141 TTTAAGTCATTTTATGTTAGAGTCTGG
1 TTTAAGTCAATTTATGTTAGAGTCTGG
*
58760168 TTTAAGTCAATTTATGTTAGTGTCT
1 TTTAAGTCAATTTATGTTAGAGTCT
58760193 CGAAACATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (27 bp):
TTTAAGTCAATTTATGTTAGAGTCTGG
Found at i:58763338 original size:20 final size:21
Alignment explanation
Indices: 58763315--58763355 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
58763305 TTCTTTTAAT
*
58763315 GCTTTTTTTAA-TGTTTTTTA
1 GCTTATTTTAAGTGTTTTTTA
58763335 GCTTATTTTAAGTTGTTTTTT
1 GCTTATTTTAAG-TGTTTTTT
58763356 CCTCTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (21 bp):
GCTTATTTTAAGTGTTTTTTA
Found at i:58763903 original size:15 final size:14
Alignment explanation
Indices: 58763876--58763902 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58763866 AGAGTTAGTA
58763876 AAATATTAAAAAAT
1 AAATATTAAAAAAT
58763890 AAATATTAAAAAA
1 AAATATTAAAAAA
58763903 ACACAAGACA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:58764843 original size:29 final size:29
Alignment explanation
Indices: 58764780--58764849 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
58764770 GTTAATGATT
58764780 TGTA-AAAATTGAATAAAATAAAAAATTCA
1 TGTATAAAATT-AATAAAATAAAAAATTCA
* * *
58764809 TATATAAAATTACATAAAAT-CAAAATTTA
1 TGTATAAAATTA-ATAAAATAAAAAATTCA
*
58764838 TGTATAACATTA
1 TGTATAAAATTA
58764850 TACATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (29 bp):
TGTATAAAATTAATAAAATAAAAAATTCA
Found at i:58767250 original size:36 final size:36
Alignment explanation
Indices: 58767202--58767273 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
58767192 GAGTGAGACA
58767202 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
* * *
58767238 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
58767274 GCGTATTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (36 bp):
TTGAATGGGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:58770669 original size:72 final size:71
Alignment explanation
Indices: 58770482--58770679 Score: 199
Period size: 72 Copynumber: 2.8 Consensus size: 71
58770472 AAAATAAGTA
* * *
58770482 TTAGCGGCGTTTTACTG-AAAGCGCCGC--AAAAACCAAAGACAAACGATGCCGTTTCTGAGTTT
1 TTAGCGGCGTTTT--TGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTT
58770544 TTGGGGAT
64 TTGGGGAT
* * **** *
58770552 TTAGCGACGTTTTT-AATCAAGCGCCACTAATTTTCTTAAGACAAACGGTGCCGTTTCGGTAGTT
1 TTAGCGGCGTTTTTGAA--AAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGG-AGTT
58770616 TTT-GGGAT
63 TTTGGGGAT
* *
58770624 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAAAACCTAAGCCAAACGGTGTCGTTT
1 TTAGCGGCGTTTTT-GAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTT
58770680 TCCAAGCTTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
68 2 0.02
70 20 0.20
72 70 0.69
73 7 0.07
74 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (71 bp):
TTAGCGGCGTTTTTGAAAAGCGCCGCTAAAAAACCTAAGACAAACGGTGCCGTTTCGGAGTTTTT
GGGGAT
Found at i:58771312 original size:7 final size:7
Alignment explanation
Indices: 58771300--58771341 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
58771290 GTGTCATGCT
58771300 TTAGGGG
1 TTAGGGG
58771307 TTAGGGG
1 TTAGGGG
58771314 TTAGGGG
1 TTAGGGG
58771321 ATTTAGGGG
1 --TTAGGGG
*
58771330 TTA-CGG
1 TTAGGGG
58771336 TTAGGG
1 TTAGGG
58771342 TTTCAACGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 5 0.17
7 18 0.60
9 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.50, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:58771329 original size:23 final size:22
Alignment explanation
Indices: 58771299--58771341 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
58771289 GGTGTCATGC
*
58771299 TTTAGGGGTTAGGGGTTAGGGGA
1 TTTAGGGGTTA-CGGTTAGGGGA
58771322 TTTAGGGGTTACGGTTAGGG
1 TTTAGGGGTTACGGTTAGGG
58771342 TTTCAACGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.16, C:0.02, G:0.49, T:0.33
Consensus pattern (22 bp):
TTTAGGGGTTACGGTTAGGGGA
Found at i:58771524 original size:13 final size:13
Alignment explanation
Indices: 58771502--58771543 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
58771492 TGAGTTTGGG
* *
58771502 GTTTAAGGTTTGA
1 GTTTAGGGTTTTA
58771515 GTTTAGGGTTTTA
1 GTTTAGGGTTTTA
*
58771528 G-CTAGGGTTTTA
1 GTTTAGGGTTTTA
58771540 GTTT
1 GTTT
58771544 GGAAATTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTTA
Found at i:58771700 original size:14 final size:14
Alignment explanation
Indices: 58771672--58771760 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
58771662 TTCCCAAAAA
58771672 TATGGTTTA-GGTT
1 TATGGTTTAGGGTT
58771685 TATGGTTTAGGGTT
1 TATGGTTTAGGGTT
** *
58771699 TACAGTTTAGAGTT
1 TATGGTTTAGGGTT
58771713 TA-GAGTTTTA-GGTT
1 TATG-G-TTTAGGGTT
** *
58771727 TGGGGTTTAGGATT
1 TATGGTTTAGGGTT
* * *
58771741 TAAGATTTAAGGTT
1 TATGGTTTAGGGTT
58771755 TATGGT
1 TATGGT
58771761 ATATATATTG
Statistics
Matches: 57, Mismatches: 14, Indels: 9
0.71 0.17 0.11
Matches are distributed among these distances:
13 13 0.23
14 39 0.68
15 5 0.09
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (14 bp):
TATGGTTTAGGGTT
Found at i:58771727 original size:21 final size:19
Alignment explanation
Indices: 58771675--58771756 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 19
58771665 CCAAAAATAT
58771675 GGTTTAGGTTTATGGTTTAG
1 GGTTTAGGTTTA-GGTTTAG
*
58771695 GGTTTACAGTTTAGAGTTTAG
1 GGTTTA-GGTTTAG-GTTTAG
* *
58771716 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTT-AGGTTTAG
* *
58771737 GATTTAAGATTTAAGGTTTA
1 GGTTT-AGGTTT-AGGTTTA
58771757 TGGTATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.22
21 32 0.65
22 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (19 bp):
GGTTTAGGTTTAGGTTTAG
Found at i:58772324 original size:115 final size:114
Alignment explanation
Indices: 58772194--58772433 Score: 381
Period size: 115 Copynumber: 2.1 Consensus size: 114
58772184 GGCGCTTCAG
* * ** *
58772194 AAAAAACGTCGCTAAAGGTCATATATTACCGGCGTTTTGTGAAGAAACGCCACAAATTTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
*
58772259 ACTGTGACAAAGACAGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTT
66 ACTGTGACAAAGACAGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACA-TT
*
58772309 AAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
* *
58772374 ACTGTGACAAAGACGGTGTCGTTTTGTTGTTTTCTTTTAGTGGCACATT
66 ACTGTGACAAAGACAGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATT
58772423 ATAAAAACGCC
1 A-AAAAACGCC
58772434 ACAAATTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
114 3 0.03
115 112 0.97
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (114 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
ACTGTGACAAAGACAGTGCCGTTTTGTTGTTTTCTTTTAGTGGCACATT
Found at i:58772837 original size:261 final size:261
Alignment explanation
Indices: 58772295--58773005 Score: 1131
Period size: 261 Copynumber: 2.7 Consensus size: 261
58772285 TTGTTTTCTT
* *
58772295 TTAGTGGCGCATTTAAAAAACGCCGCTAAAA-GTGATATATTACCGGCGTTTTACGAAGAAACGC
1 TTAGTGGCGCATTTGAAAATCGCCGC-AAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGC
* * * * *
58772359 CACAAATTGCCTTTAACTGTGACAAAGACGGTGTCGTTTTGTTGTTTTCTTTTAGTGGCACATTA
65 CACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTA
* * * * * *
58772424 TAAAAACGCCACAAAT-TCGCAAATCACGAGCTGAGGAAACGGTGTCGTTTCCTTTTTTTATTAG
130 TAAAAACGCCACAAATATTG---TTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAG
* *
58772488 TGGCGCTTTAGCTAAAGCGCCGCAACAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCT
192 TGGCGCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCT
*
58772553 TGTTA
257 TGATA
* *
58772558 TTAGTGGCGCAGTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTATGAAGAAACGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* *
58772623 AGAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
58772688 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
131 AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
58772753 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
196 GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
58772818 A
261 A
*
58772819 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAATGCC
1 TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
58772884 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
66 ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
** * *
58772949 AAAAACGCCACAAATATT-TATTAATAGCTGAGGAAACAGCGCCGTTTCCTATTTTTA
131 AAAAACGCCACAAATATTGT-TTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTA
58773006 TTAGCTGAAG
Statistics
Matches: 416, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
260 1 0.00
261 280 0.67
262 4 0.01
263 129 0.31
264 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (261 bp):
TTAGTGGCGCATTTGAAAATCGCCGCAAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTTCCTTTAACTGTAACGAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
AAAAACGCCACAAATATTGTTTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTAGTAGTGGC
GCTTTAGCTAAAGCGCCACAAAAATGTTTAATGTTATCTTATAACGGTGCCGTTTTGTCCTTGAT
A
Found at i:58773612 original size:34 final size:34
Alignment explanation
Indices: 58773562--58773673 Score: 197
Period size: 34 Copynumber: 3.3 Consensus size: 34
58773552 CGTAAAAAAT
* *
58773562 GATTTTCCATCTGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAATTGATTTTGCATTTA
58773596 GATTTTGCATCCGTAAAAATTGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAATTGATTTTGCATTTA
*
58773630 GATTTTGCATCCGTAAAAAATGATTTTGCATTTA
1 GATTTTGCATCCGTAAAAATTGATTTTGCATTTA
58773664 GATTTTGCAT
1 GATTTTGCAT
58773674 GCTGGAAGAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 75 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
GATTTTGCATCCGTAAAAATTGATTTTGCATTTA
Found at i:58775087 original size:11 final size:9
Alignment explanation
Indices: 58775060--58775091 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
58775050 GATTACTTTA
58775060 AATTTATAT
1 AATTTATAT
58775069 AATTTATAT
1 AATTTATAT
*
58775078 AATTAATAT
1 AATTTATAT
58775087 AATTT
1 AATTT
58775092 TATTTACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTATAT
Found at i:58775149 original size:24 final size:25
Alignment explanation
Indices: 58775116--58775174 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
58775106 TAATATTCCG
*
58775116 ATATTAATTTTATTTACCTTGAATT
1 ATATTAATTTTATTTACCTTAAATT
58775141 ATA-TAA-TTTATTTACCTTAAATT
1 ATATTAATTTTATTTACCTTAAATT
*
58775164 TTATTAATTTT
1 ATATTAATTTT
58775175 TTAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 18 0.60
24 6 0.20
25 6 0.20
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTAATTTTATTTACCTTAAATT
Found at i:58775394 original size:9 final size:9
Alignment explanation
Indices: 58775380--58775505 Score: 162
Period size: 9 Copynumber: 14.0 Consensus size: 9
58775370 AATTAAATAT
58775380 CTTACATAA
1 CTTACATAA
58775389 CTTACATAA
1 CTTACATAA
* * *
58775398 ATTAAATAT
1 CTTACATAA
58775407 CTTACATAA
1 CTTACATAA
58775416 CTTACATAA
1 CTTACATAA
* *
58775425 ATTAAATAA
1 CTTACATAA
58775434 CTTACATAA
1 CTTACATAA
58775443 CTTACATAA
1 CTTACATAA
* *
58775452 CTTAAATAT
1 CTTACATAA
58775461 CTTACATAA
1 CTTACATAA
58775470 CTTACATAA
1 CTTACATAA
* * *
58775479 ATTAAATAT
1 CTTACATAA
58775488 CTTACATAA
1 CTTACATAA
58775497 CTTACATAA
1 CTTACATAA
58775506 ATTAAGTAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 97 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
CTTACATAA
Found at i:58775526 original size:27 final size:27
Alignment explanation
Indices: 58775368--58775510 Score: 268
Period size: 27 Copynumber: 5.3 Consensus size: 27
58775358 TTATGACATT
58775368 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
58775395 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
*
58775422 TAAATTAAATAACTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
*
58775449 TAACTTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
58775476 TAAATTAAATATCTTACATAACTTACA
1 TAAATTAAATATCTTACATAACTTACA
58775503 TAAATTAA
1 TAAATTAA
58775511 GTAAATTAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAATTAAATATCTTACATAACTTACA
Found at i:58781069 original size:42 final size:40
Alignment explanation
Indices: 58781010--58781155 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 40
58781000 CAGCAACTTA
* * * *
58781010 AAGCAGAGGCGGTAGCGAGGGAAGCAGCGGCTACAACGAGAG
1 AAGCAGAGGCCGCAGCGAGAGAAGCAGCGGC--CAGCGAGAG
*
58781052 AAGCAGAGGCCGCAGC--GA-AAG-A--AG-CAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAGAAGCAGCGGCCAGCGAGAG
* * *
58781085 AAGCAGAGGCCGCAGCGAGAGAAGTAGAGGCCGCAGCAAGAG
1 AAGCAGAGGCCGCAGCGAGAGAAGCAGCGG-C-CAGCGAGAG
58781127 AAGCAGAGGCCGCAGCGAGAGAAGCAGCG
1 AAGCAGAGGCCGCAGCGAGAGAAGCAGCG
58781156 AGAGAAGTAG
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
33 24 0.28
35 2 0.02
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 1 0.01
42 49 0.57
ACGTcount: A:0.36, C:0.21, G:0.41, T:0.02
Consensus pattern (40 bp):
AAGCAGAGGCCGCAGCGAGAGAAGCAGCGGCCAGCGAGAG
Found at i:58781084 original size:33 final size:33
Alignment explanation
Indices: 58781046--58781162 Score: 135
Period size: 33 Copynumber: 3.3 Consensus size: 33
58781036 GCGGCTACAA
58781046 CGAGAGAAGCAGAGGCCGCAGCGAAAGAAGCAG
1 CGAGAGAAGCAGAGGCCGCAGCGAAAGAAGCAG
58781079 CGAGAGAAGCAGAGGCCGCAGCGAGAGAAGTAGAGGCCGCAG
1 CGAGAGAAGCAGAGGCCGCAGC--GA-AAG-A-A----GCAG
* *
58781121 CAAGAGAAGCAGAGGCCGCAGCGAGAGAAGCAG
1 CGAGAGAAGCAGAGGCCGCAGCGAAAGAAGCAG
58781154 CGAGAGAAG
1 CGAGAGAAG
58781163 TAGCAATAGA
Statistics
Matches: 72, Mismatches: 3, Indels: 18
0.77 0.03 0.19
Matches are distributed among these distances:
33 34 0.47
35 2 0.03
36 3 0.04
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
42 25 0.35
ACGTcount: A:0.38, C:0.21, G:0.41, T:0.01
Consensus pattern (33 bp):
CGAGAGAAGCAGAGGCCGCAGCGAAAGAAGCAG
Found at i:58781088 original size:54 final size:54
Alignment explanation
Indices: 58781023--58781132 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
58781013 CAGAGGCGGT
* * *
58781023 AGCGAGGGAAGCAGCGGCTACAACGAGAGAAGCAGAGGCCGCAGCGAA-AGAAGC
1 AGCGAGAGAAGCAGAGGCCACAACGAGAGAAGCAGAGGCCGCAGC-AAGAGAAGC
* * *
58781077 AGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAGTAGAGGCCGCAGCAAGAGAAGC
1 AGCGAGAGAAGCAGAGGCCACAACGAGAGAAGCAGAGGCCGCAGCAAGAGAAGC
58781131 AG
1 AG
58781133 AGGCCGCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 2 0.04
54 47 0.96
ACGTcount: A:0.37, C:0.21, G:0.40, T:0.02
Consensus pattern (54 bp):
AGCGAGAGAAGCAGAGGCCACAACGAGAGAAGCAGAGGCCGCAGCAAGAGAAGC
Found at i:58781099 original size:21 final size:21
Alignment explanation
Indices: 58781075--58781153 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
58781065 AGCGAAAGAA
58781075 GCAGCGAGAGAAGCAGAGGCC
1 GCAGCGAGAGAAGCAGAGGCC
*
58781096 GCAGCGAGAGAAGTAGAGGCC
1 GCAGCGAGAGAAGCAGAGGCC
*
58781117 GCAGCAAGAGAAGCAGAGGCC
1 GCAGCGAGAGAAGCAGAGGCC
58781138 GCAGCGAGAGAAGCAG
1 GCAGCGAGAGAAGCAG
58781154 CGAGAGAAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.35, C:0.22, G:0.42, T:0.01
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCC
Found at i:58781155 original size:12 final size:12
Alignment explanation
Indices: 58781138--58781177 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
58781128 AGCAGAGGCC
58781138 GCAGCGAGAGAA
1 GCAGCGAGAGAA
58781150 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* * *
58781162 GTAGCAATAGAA
1 GCAGCGAGAGAA
58781174 GCAG
1 GCAG
58781178 AGGTTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:58781644 original size:42 final size:42
Alignment explanation
Indices: 58781595--58781909 Score: 334
Period size: 42 Copynumber: 7.4 Consensus size: 42
58781585 GCGTTTGTGA
58781595 AATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTT
* * ** *
58781637 AATAAGCGCCGCTATAGAACATTA-CTTTTAGAAGCGCTTTCTTC
1 AATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTT
* * *
58781681 CA-AATCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
* *
58781722 ACAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
1 A-ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
** * *
58781765 CCTAAGCGTCGCTAAAGAACATGATCTTTAGCAGCGTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
* *
58781807 TATAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT
* *
58781850 -CTAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTT
1 AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
* *
58781892 ATGTAAGCGCCGCAAAAG
1 A-ATAAGCGCCGCTAAAG
58781910 TTAGTGACGT
Statistics
Matches: 231, Mismatches: 32, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
41 3 0.01
42 140 0.61
43 70 0.30
44 18 0.08
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
AATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:58781710 original size:85 final size:85
Alignment explanation
Indices: 58781597--58781909 Score: 361
Period size: 85 Copynumber: 3.7 Consensus size: 85
58781587 GTTTGTGAAA
* *
58781597 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTTA-ATAAGCGCCGCTATAGAACAT
1 TAAGCGTCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTACATAAGCGCCGCTAAAGAACAT
*
58781659 TA-CTTTTAGAAGCGCTTTCTTCC
64 GATC-TTTAG-AGCGCTTTCTTCC
* * *
58781682 AAATCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACAAAAGCGCCGCTAAAGAACATGA
1 TAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACATAAGCGCCGCTAAAGAACATGA
* *
58781747 TCTTTAGCG-GCATTTTTTCC
66 TCTTTAGAGCGC-TTTCTTCC
* *
58781767 TAAGCGTCGCTAAAGAACATGATCTTTAGCAGCGTTTTTT-TATAAGCGCCGCTAAAGAACATGA
1 TAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACATAAGCGCCGCTAAAGAACATGA
* *
58781831 TCTTTAG-GGGCGTTTCTTTC
66 TCTTTAGAGCGC-TTTCTTCC
* * ** *
58781851 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 TAAGCGTCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTACATAAGCGCCGCTAAAG
58781910 TTAGTGACGT
Statistics
Matches: 199, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 71 0.36
85 85 0.43
86 41 0.21
87 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (85 bp):
TAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACATAAGCGCCGCTAAAGAACATGA
TCTTTAGAGCGCTTTCTTCC
Found at i:58781854 original size:84 final size:84
Alignment explanation
Indices: 58781597--58781909 Score: 373
Period size: 84 Copynumber: 3.7 Consensus size: 84
58781587 GTTTGTGAAA
* * *
58781597 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTTAATAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATG
* *
58781660 A-CTTTTAGAAGCGCTTTCTTCC
64 ATC-TTTAGAGGCG-TTTCTTTC
* * * * *
58781682 AAATCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACAAAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TATAAGCGCCGCTAAAGAACATGA
* *
58781747 TCTTTAGCGGCATTT-TTTCC
65 TCTTTAGAGGCGTTTCTTT-C
* *
58781767 TAAGCGTCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
*
58781832 CTTTAGGGGCGTTTCTTTC
66 CTTTAGAGGCGTTTCTTTC
* *
58781851 TAAGCGCCGCTAAAGAGCATGATCTTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA--TAAGCGCCGCTAAAG
58781910 TTAGTGACGT
Statistics
Matches: 198, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
84 78 0.39
85 77 0.39
86 42 0.21
87 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGAT
CTTTAGAGGCGTTTCTTTC
Found at i:58782012 original size:22 final size:22
Alignment explanation
Indices: 58781981--58782023 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
58781971 TAGTGGCGTT
* *
58781981 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
58782003 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
58782024 GTTCTGCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:58786515 original size:43 final size:42
Alignment explanation
Indices: 58786384--58786518 Score: 150
Period size: 42 Copynumber: 3.2 Consensus size: 42
58786374 TTGTCTGATG
** *
58786384 ATGCACTTATGTG-CTTGTATATTTGCTTCGGTTCATCCAATG
1 ATGCACTTATGTGTC-AATATATTTGCTTCGGTTCATCCAATA
* *
58786426 ATGCACTTATGTGTCAATATATTTGTTTCAGTTCATCCAA-A
1 ATGCACTTATGTGTCAATATATTTGCTTCGGTTCATCCAATA
* *
58786467 TATGCA-TTATGTGTGCCAATATATTTGCTTCGGTTTATCTAATA
1 -ATGCACTTATGTGT--CAATATATTTGCTTCGGTTCATCCAATA
58786511 ATGCACTT
1 ATGCACTT
58786519 CGGTGCCAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
41 8 0.10
42 39 0.50
43 28 0.36
44 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (42 bp):
ATGCACTTATGTGTCAATATATTTGCTTCGGTTCATCCAATA
Found at i:58790201 original size:19 final size:19
Alignment explanation
Indices: 58790177--58790214 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58790167 GAGAAGGATT
*
58790177 ATTATGCCGTCTACAATTC
1 ATTATGCCATCTACAATTC
58790196 ATTATGCCATCTACAATTC
1 ATTATGCCATCTACAATTC
58790215 CAATTAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (19 bp):
ATTATGCCATCTACAATTC
Found at i:58791496 original size:31 final size:29
Alignment explanation
Indices: 58791461--58791518 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
58791451 AATATTATTT
*
58791461 TATTAATTTTATATTAAAGTGATTATCTTAA
1 TATTAAATTTA-ATTAAA-TGATTATCTTAA
* *
58791492 TATTAAATTTAATTTAATGTTTATCTT
1 TATTAAATTTAATTAAATGATTATCTT
58791519 GTAGATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (29 bp):
TATTAAATTTAATTAAATGATTATCTTAA
Found at i:58791582 original size:17 final size:16
Alignment explanation
Indices: 58791548--58791602 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
58791538 TTTTGATAAG
58791548 ATTTAATATTTAATTTA
1 ATTTAATATTT-ATTTA
58791565 ATTTAATATTTATCTTA
1 ATTTAATATTTAT-TTA
*
58791582 A-TAAATA-TTATATTA
1 ATTTAATATTTAT-TTA
58791597 ATTTAA
1 ATTTAA
58791603 AACTAAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 10 0.30
17 15 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATATTTATTTA
Found at i:58792106 original size:14 final size:14
Alignment explanation
Indices: 58792087--58792113 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58792077 TGTTATATCT
58792087 ATAAGCAAAAATAG
1 ATAAGCAAAAATAG
58792101 ATAAGCAAAAATA
1 ATAAGCAAAAATA
58792114 AATTTCTCTT
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:0.67, C:0.07, G:0.11, T:0.15
Consensus pattern (14 bp):
ATAAGCAAAAATAG
Found at i:58808004 original size:24 final size:23
Alignment explanation
Indices: 58807843--58808013 Score: 96
Period size: 24 Copynumber: 7.3 Consensus size: 23
58807833 TGTTACATAT
58807843 ATGCTGTCCAATTTTGATGCT-TAA
1 ATGCTGTCC-ATTTTGATG-TATAA
* * * ** *
58807867 ATGCTGCCCAATTTGTTACATAT
1 ATGCTGTCCATTTTGATGTATAA
*
58807890 ATGCTGTCCAATTTTAATGCT-TAA
1 ATGCTGTCC-ATTTTGATG-TATAA
* * * * *
58807914 ATGCTGCCCAATTTGTTGCATAT
1 ATGCTGTCCATTTTGATGTATAA
58807937 ATGCTGTCCAATTTTGATGCT-TAA
1 ATGCTGTCC-ATTTTGATG-TATAA
* * * *
58807961 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGTCCATTTTGATGTATAA
* *
58807984 ATGCTGTCCAGTTTTGGTGTAAAA
1 ATGCTGTCCA-TTTTGATGTATAA
58808008 ATGCTG
1 ATGCTG
58808014 CTCAAACTGT
Statistics
Matches: 106, Mismatches: 33, Indels: 16
0.68 0.21 0.10
Matches are distributed among these distances:
22 1 0.01
23 50 0.47
24 55 0.52
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCCATTTTGATGTATAA
Found at i:58808025 original size:94 final size:94
Alignment explanation
Indices: 58807806--58808032 Score: 294
Period size: 94 Copynumber: 2.4 Consensus size: 94
58807796 ATATATACAT
* * * ** *
58807806 ATTTTGATGCTTAAATGCTTCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGC
1 ATTTTAATGCTAAAATGCTGCCCAAACTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGC
58807871 TGCCCAATTTGTTACATATATGCTGTCCA
66 TGCCCAATTTGTTACATATATGCTGTCCA
* **
58807900 ATTTTAATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGC
1 ATTTTAATGCTAAAATGCTGCCCAAACTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGC
**
58807965 TGCCCAATTTGTTGTATATATGCTGTCCA
66 TGCCCAATTTGTTACATATATGCTGTCCA
* ** * *
58807994 GTTTTGGTG-TAAAAATGCTGCTCAAACTGTTGTATATAT
1 ATTTTAATGCT-AAAATGCTGCCCAAACTGTTGCATATAT
58808033 ATGCTGCCCA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 1 0.01
94 118 0.99
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (94 bp):
ATTTTAATGCTAAAATGCTGCCCAAACTGTTGCATATATGCTGTCCAATTTTGATGCTTAAATGC
TGCCCAATTTGTTACATATATGCTGTCCA
Found at i:58808032 original size:47 final size:47
Alignment explanation
Indices: 58807806--58807999 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
58807796 ATATATACAT
* *
58807806 ATTTTGATGCTTAAATGCTTCCCAATTTGTTACATATATGCTGTCCA
1 ATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
*
58807853 ATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCA
1 ATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
*
58807900 ATTTTAATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
1 ATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
*
58807947 ATTTTGATGCTTAAATGCTGCCCAATTTGTTGTATATATGCTGTCCA
1 ATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
*
58807994 GTTTTG
1 ATTTTG
58808000 GTGTAAAAAT
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 141 1.00
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (47 bp):
ATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCCA
Found at i:58808037 original size:25 final size:23
Alignment explanation
Indices: 58808008--58808067 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
58807998 TGGTGTAAAA
*
58808008 ATGCTGCTCAAACTGTTGTATATAT
1 ATGCTGCCCAAACTGTTGTAT-T-T
*
58808033 ATGCTGCCCAAATTGTTGTATTT
1 ATGCTGCCCAAACTGTTGTATTT
*
58808056 ATGCTGTCCAAA
1 ATGCTGCCCAAA
58808068 TTTTGGTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 12 0.38
24 1 0.03
25 19 0.59
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (23 bp):
ATGCTGCCCAAACTGTTGTATTT
Found at i:58808049 original size:72 final size:71
Alignment explanation
Indices: 58807958--58808139 Score: 206
Period size: 71 Copynumber: 2.5 Consensus size: 71
58807948 TTTTGATGCT
* * *
58807958 TAAATGCTGCCCAATTTGTTGTATATATGCTGTCC-AGTTTTGGTGTAAAAATGCTGCTCAAACT
1 TAAATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATACTG-TC-AACT
58808022 GTT-GTATA
64 -TTGGTATA
* * * * *
58808030 TATATGCTGCCCAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTGAAAATATTGTCTACTTT
1 TAAATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATACTGTCAACTTT
58808095 GGTATA
66 GGTATA
* * * * *
58808101 TAAATGCTGTCCAAATTGATGTATAAAAGTTGTCCAAAT
1 TAAATGCTGCCCAAATTGTTGTATATATGCTGTCCAAAT
58808140 AGGGTAGATT
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
70 2 0.02
71 40 0.43
72 34 0.37
73 17 0.18
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (71 bp):
TAAATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATACTGTCAACTTT
GGTATA
Found at i:58808125 original size:23 final size:23
Alignment explanation
Indices: 58807817--58808137 Score: 152
Period size: 23 Copynumber: 13.6 Consensus size: 23
58807807 TTTTGATGCT
**
58807817 TAAATGCT-TCCCAATTTGTTACA
1 TAAATGCTGT-CCAATTTGTTGTA
* *
58807840 TATATGCTGTCCAATTTTGATGCT-
1 TAAATGCTGTCCAA-TTTGTTG-TA
* **
58807864 TAAATGCTGCCCAATTTGTTACA
1 TAAATGCTGTCCAATTTGTTGTA
*
58807887 TATATGCTGTCCAATTT-TAATGCT-
1 TAAATGCTGTCCAATTTGT--TG-TA
* *
58807911 TAAATGCTGCCCAATTTGTTGCA
1 TAAATGCTGTCCAATTTGTTGTA
* *
58807934 TATATGCTGTCCAATTTTGATGCT-
1 TAAATGCTGTCCAA-TTTGTTG-TA
*
58807958 TAAATGCTGCCCAATTTGTTGTA
1 TAAATGCTGTCCAATTTGTTGTA
* * *
58807981 TATATGCTGTCCAGTTTTGGTGTA
1 TAAATGCTGTCCA-ATTTGTTGTA
* **
58808005 AAAATGCTG-CTCAAACTGTTGTA
1 TAAATGCTGTC-CAATTTGTTGTA
* *
58808028 TATATATGCTGCCCAAATTGTTGTA
1 TA-A-ATGCTGTCCAATTTGTTGTA
** *
58808053 TTTATGCTGTCCAAATTTTGGTGTGA
1 TAAATGCTGTCC-AA-TTTGTTGT-A
** * * * *
58808079 -AAATATTGTCTACTTTGGTATA
1 TAAATGCTGTCCAATTTGTTGTA
* *
58808101 TAAATGCTGTCCAAATTGATGTA
1 TAAATGCTGTCCAATTTGTTGTA
* *
58808124 TAAAAGTTGTCCAA
1 TAAATGCTGTCCAA
58808138 ATAGGGTAGA
Statistics
Matches: 221, Mismatches: 56, Indels: 42
0.69 0.18 0.13
Matches are distributed among these distances:
22 3 0.01
23 112 0.51
24 73 0.33
25 31 0.14
26 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (23 bp):
TAAATGCTGTCCAATTTGTTGTA
Found at i:58808437 original size:2 final size:2
Alignment explanation
Indices: 58808430--58808460 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58808420 AAGAAAATGT
58808430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58808461 TCGAACATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58809798 original size:16 final size:16
Alignment explanation
Indices: 58809777--58809807 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58809767 TTCACTATTA
*
58809777 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
58809793 TATCTTTTATATTTT
1 TATCTTTTATATTTT
58809808 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:58816423 original size:11 final size:11
Alignment explanation
Indices: 58816409--58816495 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
58816399 GAGAAATTTA
58816409 AGAGGAAATTG
1 AGAGGAAATTG
*
58816420 AGAGCAAATTG
1 AGAGGAAATTG
**
58816431 AGATTAAA-T-
1 AGAGGAAATTG
* *
58816440 A-TGG-ATTTG
1 AGAGGAAATTG
58816449 AGA-GAAATTTG
1 AGAGGAAA-TTG
58816460 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
58816471 AGAGCAATTTG
1 AGAGGAAATTG
58816482 AGAGGAAATTG
1 AGAGGAAATTG
58816493 AGA
1 AGA
58816496 AATGATTAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 42 0.76
12 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:58816440 original size:51 final size:51
Alignment explanation
Indices: 58816385--58816484 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
58816375 TAAAAATTAA
58816385 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
58816436 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
58816485 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:58816471 original size:22 final size:22
Alignment explanation
Indices: 58816446--58816495 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
58816436 AAATATGGAT
58816446 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
58816468 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
58816490 TTGAGA
1 TTGAGA
58816496 AATGATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:58880637 original size:81 final size:81
Alignment explanation
Indices: 58880541--58880702 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
58880531 TTACATACAT
* *
58880541 AATAAAGAAAGAAAGGGTTAAAAGTAGAAGCTATATACCTGCCATTATTAGAGAATGTGGTGCTA
1 AATAAAGAAAGAAAGGGTTAAAAGTAGAAGCTATATACCTGCCATTATGAGAGAATGTAGTGCTA
*
58880606 CCTGCACTGCAGAAAC
66 CCTGCAATGCAGAAAC
*
58880622 AATAAAGAAAGAAAGGGTTATAAGTAGAAGCTATATACCTGCCATTATGAGAGAATGTAGTGCTA
1 AATAAAGAAAGAAAGGGTTAAAAGTAGAAGCTATATACCTGCCATTATGAGAGAATGTAGTGCTA
58880687 CCTGCAATGCAGAAAC
66 CCTGCAATGCAGAAAC
58880703 GTGGAGGGGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (81 bp):
AATAAAGAAAGAAAGGGTTAAAAGTAGAAGCTATATACCTGCCATTATGAGAGAATGTAGTGCTA
CCTGCAATGCAGAAAC
Found at i:58881233 original size:16 final size:16
Alignment explanation
Indices: 58881212--58881243 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58881202 TTTTTCCCTT
58881212 AAAAATCATAAAAATA
1 AAAAATCATAAAAATA
*
58881228 AAAAATTATAAAAATA
1 AAAAATCATAAAAATA
58881244 TTTAAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATCATAAAAATA
Found at i:58881876 original size:21 final size:21
Alignment explanation
Indices: 58881829--58881922 Score: 60
Period size: 21 Copynumber: 4.7 Consensus size: 21
58881819 ATGGTTCATG
* *
58881829 ATTTTTTTAGTATTTTAATAC
1 ATTTTTATAATATTTTAATAC
*
58881850 ATTTTTATAATATTTTAA-AT
1 ATTTTTATAATATTTTAATAC
* *
58881870 ATGTTTTATTA-ATTAT-ATA-
1 AT-TTTTATAATATTTTAATAC
58881889 ATTTATTAT-AT-TTTT--TAC
1 ATTT-TTATAATATTTTAATAC
58881907 ATCTTTTATAATATTT
1 AT-TTTTATAATATTT
58881923 ATATTTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
17 2 0.03
18 12 0.20
19 11 0.19
20 11 0.19
21 23 0.39
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTATAATATTTTAATAC
Found at i:58881953 original size:27 final size:26
Alignment explanation
Indices: 58881882--58881958 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 26
58881872 GTTTTATTAA
58881882 TTATATAATTTATTATATTTTTTACATC
1 TTATATAA-TT-TTATATTTTTTACATC
*
58881910 TTTTATAATATTTATATTTTTTA-AGT-
1 TTATATAAT-TTTATATTTTTTACA-TC
58881936 TTATATCAATTTTCATATTTTTT
1 TTATAT-AATTTT-ATATTTTTT
58881959 TGATAATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
26 9 0.21
27 26 0.60
28 8 0.19
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTATATAATTTTATATTTTTTACATC
Found at i:58895784 original size:49 final size:50
Alignment explanation
Indices: 58895729--58895825 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
58895719 TTTATTTTCT
* * *
58895729 CGATGCCATAGTCAAACTATGGTCTTACATGTAGTCACAT-ATCACATAC
1 CGATGCCATAGCCAAACTATGGTCTTACATGGAATCACATAATCACATAC
* *
58895778 CGATGCCATAGCCCAGCTATGGTCTTACATGGAATCACATAATCACAT
1 CGATGCCATAGCCAAACTATGGTCTTACATGGAATCACATAATCACAT
58895826 TTTCACATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 35 0.83
50 7 0.17
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (50 bp):
CGATGCCATAGCCAAACTATGGTCTTACATGGAATCACATAATCACATAC
Found at i:58914517 original size:27 final size:29
Alignment explanation
Indices: 58914468--58914531 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
58914458 TTTTTCATCT
* **
58914468 GAAGAAGATGAAGAGGTGACTTCTTCTGAG
1 GAAGAAGAAGAAGAGGT-ACTTCAACTGAG
58914498 GAAGAAGAAGAAG-GGT-CTTCAACTGAG
1 GAAGAAGAAGAAGAGGTACTTCAACTGAG
58914525 GAAGAAG
1 GAAGAAG
58914532 GTGAGGAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.52
29 3 0.10
30 12 0.39
ACGTcount: A:0.39, C:0.09, G:0.34, T:0.17
Consensus pattern (29 bp):
GAAGAAGAAGAAGAGGTACTTCAACTGAG
Found at i:58920398 original size:10 final size:10
Alignment explanation
Indices: 58920385--58920452 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
58920375 ATCATAAAAA
58920385 ATAAAAAATT
1 ATAAAAAATT
58920395 ATAAAAAGA-T
1 ATAAAAA-ATT
* *
58920405 ATTAAAATTT
1 ATAAAAAATT
* *
58920415 ATATAAACTT
1 ATAAAAAATT
*
58920425 AT-AAATATT
1 ATAAAAAATT
58920434 AT-AAAAA-T
1 ATAAAAAATT
58920442 ATAAAAAATT
1 ATAAAAAATT
58920452 A
1 A
58920453 ATGAAACCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
8 3 0.07
9 15 0.33
10 26 0.58
11 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:58923254 original size:18 final size:19
Alignment explanation
Indices: 58923231--58923276 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
58923221 TGGCAAATAT
*
58923231 AATAAAAAG-AAATCAACA
1 AATAAAAAGTAAATAAACA
58923249 AAT-AAAAGTAAATAAACA
1 AATAAAAAGTAAATAAACA
58923267 AATAATAAAG
1 AATAA-AAAG
58923277 CACTTTAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 1 0.04
20 4 0.17
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.15
Consensus pattern (19 bp):
AATAAAAAGTAAATAAACA
Found at i:58923410 original size:11 final size:10
Alignment explanation
Indices: 58923394--58923457 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 10
58923384 ATGTTAGAAT
58923394 TATAAAGTATA
1 TATAAA-TATA
58923405 TATAAA-ATA
1 TATAAATATA
58923414 TATATAATATA
1 TATA-AATATA
*
58923425 TTTTAAA-ATA
1 -TATAAATATA
58923435 TA-AAGA-ATA
1 TATAA-ATATA
58923444 TATAAATATA
1 TATAAATATA
58923454 TATA
1 TATA
58923458 TATAAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
8 2 0.04
9 15 0.33
10 14 0.31
11 11 0.24
12 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TATAAATATA
Found at i:58923433 original size:21 final size:21
Alignment explanation
Indices: 58923407--58923446 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58923397 AAAGTATATA
* *
58923407 TAAAATATATATAATATATTT
1 TAAAATATAAAGAATATATTT
58923428 TAAAATATAAAGAATATAT
1 TAAAATATAAAGAATATAT
58923447 AAATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATATAAAGAATATATTT
Found at i:58923456 original size:21 final size:20
Alignment explanation
Indices: 58923394--58923457 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
58923384 ATGTTAGAAT
58923394 TATAAAGTATATATAAAATA
1 TATAAAGTATATATAAAATA
* *
58923414 TATATAA-TATATTTTAAA-A
1 TATA-AAGTATATATAAAATA
*
58923433 TATAAAGAATATATAAATATA
1 TATAAAGTATATATAAA-ATA
58923454 TATA
1 TATA
58923458 TATAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 14 0.40
21 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TATAAAGTATATATAAAATA
Found at i:58923467 original size:11 final size:11
Alignment explanation
Indices: 58923394--58923467 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
58923384 ATGTTAGAAT
*
58923394 TATAAAGTATA
1 TATAAAATATA
58923405 TATAAAATATA
1 TATAAAATATA
*
58923416 TATAATATAT-
1 TATAAAATATA
*
58923426 TTTAAAATATA
1 TATAAAATATA
*
58923437 -A-AGAATATA
1 TATAAAATATA
58923446 TA-AATATATATA
1 TATAA-A-ATATA
58923458 TATAAAATAT
1 TATAAAATAT
58923468 GTACATATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
9 7 0.14
10 10 0.20
11 24 0.47
12 8 0.16
13 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TATAAAATATA
Found at i:58923641 original size:3 final size:3
Alignment explanation
Indices: 58923633--58923743 Score: 63
Period size: 3 Copynumber: 37.3 Consensus size: 3
58923623 AAACTATCAT
* * *
58923633 ATA ATA ATA AT- ATG ATGA ATA AAA ATG AT- ATAA ATA ATA ATA GA-A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA -ATA
* * * * *
58923678 ATA ATA ATC ATA ATA ATA AAA GATA ATA ACA TTA A-A ATA ATGA AGA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA
58923724 A-A A-A ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
58923744 AAGTGTTAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
2 11 0.13
3 65 0.76
4 9 0.11
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:58924385 original size:15 final size:15
Alignment explanation
Indices: 58924365--58924393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58924355 ATAGTTCGAA
58924365 AGAAAAAAAATAAAG
1 AGAAAAAAAATAAAG
58924380 AGAAAAAAAATAAA
1 AGAAAAAAAATAAA
58924394 AATAGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AGAAAAAAAATAAAG
Found at i:58924389 original size:17 final size:17
Alignment explanation
Indices: 58924365--58924402 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
58924355 ATAGTTCGAA
58924365 AGAAAAAAAAT--AAAG
1 AGAAAAAAAATAAAAAG
*
58924380 AGAAAAAAAATAAAAAT
1 AGAAAAAAAATAAAAAG
58924397 AGAAAA
1 AGAAAA
58924403 GGAAAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (17 bp):
AGAAAAAAAATAAAAAG
Found at i:58924402 original size:15 final size:15
Alignment explanation
Indices: 58924363--58924395 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58924353 AAATAGTTCG
58924363 AAAGAAAAAAAATAA
1 AAAGAAAAAAAATAA
*
58924378 AGAGAAAAAAAATAA
1 AAAGAAAAAAAATAA
58924393 AAA
1 AAA
58924396 TAGAAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (15 bp):
AAAGAAAAAAAATAA
Found at i:58924971 original size:22 final size:24
Alignment explanation
Indices: 58924946--58924990 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
58924936 TAATACATAA
*
58924946 AGATAAATA-AA-TGATTTATCTT
1 AGATAAATAGAAGTAATTTATCTT
58924968 AGATAAATAGAAGTAATTTATCT
1 AGATAAATAGAAGTAATTTATCT
58924991 CCTATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (24 bp):
AGATAAATAGAAGTAATTTATCTT
Found at i:58925096 original size:108 final size:103
Alignment explanation
Indices: 58924960--58925157 Score: 260
Period size: 102 Copynumber: 1.9 Consensus size: 103
58924950 AAATAAATGA
* *
58924960 TTTATCTTAGATAAATAGAAGTAATTTATCTCCTAT-TATATGTATATCCACAATAATTTATTAT
1 TTTATCTTAGATAAATAGAAATAATTTATCTCC-ATGGATA---AT-T--ACAATAATTTATTAT
58925024 TTATAA-ATATTAAATATTAAATTAAAAATAATGTAAATATATATT
59 TTATAACA-ATTAAATATTAAATTAAAAATAATGTAAATATATATT
58925069 TTTATCTT-GATAGAA-AGAAATAATTTATCTCCATGGATAATTACAATAATTTATTATTTATAA
1 TTTATCTTAGATA-AATAGAAATAATTTATCTCCATGGATAATTACAATAATTTATTATTTATAA
*
58925132 CAATTAAATGTTAAATTAAAAATAAT
65 CAATTAAATATTAAATTAAAAATAAT
58925158 AATATGACGG
Statistics
Matches: 83, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
102 44 0.53
103 1 0.01
104 1 0.01
105 2 0.02
107 2 0.02
108 23 0.28
109 10 0.12
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (103 bp):
TTTATCTTAGATAAATAGAAATAATTTATCTCCATGGATAATTACAATAATTTATTATTTATAAC
AATTAAATATTAAATTAAAAATAATGTAAATATATATT
Found at i:58928335 original size:20 final size:19
Alignment explanation
Indices: 58928297--58928370 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
58928287 CTTAAAAATC
*
58928297 ATAAAAA-ATA-AAAAATT
1 ATAAAAACATATAAAATTT
*
58928314 ATAAAAAGATATTAAAATTT
1 ATAAAAACATA-TAAAATTT
*
58928334 ATATAAACATAT-AAATATT
1 ATAAAAACATATAAAAT-TT
* *
58928353 ATAAAAATATAAAAAATT
1 ATAAAAACATATAAAATT
58928371 AACGAAACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 7 0.15
18 7 0.15
19 13 0.28
20 19 0.41
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAACATATAAAATTT
Found at i:58928413 original size:21 final size:21
Alignment explanation
Indices: 58928389--58928436 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
58928379 CTATTTAAAA
* *
58928389 TAAAATATATATTAGAATTAT
1 TAAAATAAATATTAAAATTAT
*
58928410 TAAAAAAAATATTAAAATTAT
1 TAAAATAAATATTAAAATTAT
58928431 TAAAAT
1 TAAAAT
58928437 TGTATAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATAAATATTAAAATTAT
Found at i:58930292 original size:22 final size:24
Alignment explanation
Indices: 58930267--58930311 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
58930257 TAATACATAA
*
58930267 AGATAAATA-AA-TGATTTATCTT
1 AGATAAATAGAAGTAATTTATCTT
58930289 AGATAAATAGAAGTAATTTATCT
1 AGATAAATAGAAGTAATTTATCT
58930312 CCTATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (24 bp):
AGATAAATAGAAGTAATTTATCTT
Found at i:58933642 original size:20 final size:20
Alignment explanation
Indices: 58933617--58933672 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
58933607 ATCATAAAAA
*
58933617 ATTAAAAATTATAAAAAGAT
1 ATTAAAAATTATAAAAACAT
* * *
58933637 ATTAAAATTTATATAAACTT
1 ATTAAAAATTATAAAAACAT
*
58933657 A-TAAATATTATAAAAA
1 ATTAAAAATTATAAAAA
58933673 TATAAAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTAAAAATTATAAAAACAT
Found at i:58933744 original size:9 final size:9
Alignment explanation
Indices: 58933732--58933785 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
58933722 CTTTAAAAAA
58933732 ATTAAAATT
1 ATTAAAATT
58933741 ATTAAAATT
1 ATTAAAATT
58933750 ATTAAAATT
1 ATTAAAATT
* *
58933759 GTATAAACTT
1 AT-TAAAATT
58933769 A-TAAATATT
1 ATTAAA-ATT
*
58933778 ATAAAAAT
1 ATTAAAAT
58933786 ATAAAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
8 4 0.11
9 24 0.65
10 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
ATTAAAATT
Found at i:58933747 original size:18 final size:18
Alignment explanation
Indices: 58933724--58933758 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58933714 TTAGAATTCT
58933724 TTAAAAAAATTAAAATTA
1 TTAAAAAAATTAAAATTA
**
58933742 TTAAAATTATTAAAATT
1 TTAAAAAAATTAAAATT
58933759 GTATAAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAAAATTAAAATTA
Found at i:58933840 original size:22 final size:21
Alignment explanation
Indices: 58933814--58933862 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
58933804 CTATTTAAAA
58933814 TAAAATACATATTAGAATTCT-T
1 TAAAATACATATTA-AATT-TAT
* *
58933836 TAAAAAATATATTAAATTTAT
1 TAAAATACATATTAAATTTAT
58933857 TAAAAT
1 TAAAAT
58933863 TGTATAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAATACATATTAAATTTAT
Found at i:58938979 original size:14 final size:14
Alignment explanation
Indices: 58938958--58938990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
58938948 TATAATATCC
58938958 AAAA-AATAATAAT
1 AAAATAATAATAAT
58938971 AAAATAATAATAAT
1 AAAATAATAATAAT
*
58938985 ATAATA
1 AAAATA
58938991 GCAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:58938999 original size:11 final size:11
Alignment explanation
Indices: 58938960--58938990 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
58938950 TAATATCCAA
58938960 AAAATAATAAT
1 AAAATAATAAT
58938971 AAAATAATAAT
1 AAAATAATAAT
*
58938982 AATATAATA
1 AAAATAATA
58938991 GCAAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:58939027 original size:21 final size:22
Alignment explanation
Indices: 58938990--58939044 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
58938980 ATAATATAAT
* * *
58938990 AGCAAAATAACATCAAAATGGC
1 AGCAAAACAACAACAAAATAGC
58939012 AGC-AAACAACAACAAAATAGC
1 AGCAAAACAACAACAAAATAGC
58939033 AGCAAAACAACA
1 AGCAAAACAACA
58939045 GTGAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.60, C:0.22, G:0.11, T:0.07
Consensus pattern (22 bp):
AGCAAAACAACAACAAAATAGC
Found at i:58939396 original size:60 final size:61
Alignment explanation
Indices: 58939309--58939479 Score: 166
Period size: 60 Copynumber: 2.8 Consensus size: 61
58939299 GAGGTTTGAA
* * * * * *
58939309 CTTTTTTTGTCCAAATTAAGTCATGAACTTGACAGTTGTTCCCACATTGGGGCCTGAA-CC
1 CTTTTTTTGTCCAAGTTAGGCCTTGAACTTGACAATTGTTCCCACATTGGGACCTGAATCC
* * * **
58939369 CTTTTTTTGTCCAAGTTAGGCCTTGAACTT-AGCAAATGTTCCCACGTTGGGACTTGAATTT
1 CTTTTTTTGTCCAAGTTAGGCCTTGAACTTGA-CAATTGTTCCCACATTGGGACCTGAATCC
* * * *
58939430 TTTTTCTTTGGTCCAAGTTAGGCCTTAAACTTGGCAATTGTTCTCACATT
1 CTTTT-TTT-GTCCAAGTTAGGCCTTGAACTTGACAATTGTTCCCACATT
58939480 AGAATTTGAA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
59 1 0.01
60 47 0.53
61 4 0.04
62 3 0.03
63 34 0.38
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (61 bp):
CTTTTTTTGTCCAAGTTAGGCCTTGAACTTGACAATTGTTCCCACATTGGGACCTGAATCC
Found at i:58939489 original size:63 final size:61
Alignment explanation
Indices: 58939370--58939497 Score: 157
Period size: 63 Copynumber: 2.1 Consensus size: 61
58939360 GCCTGAACCC
* * * * *
58939370 TTTTTTTGTCCAAGTTAGGCCTTGAACTTAGCAAATGTTCCCACGTTGGGACTTGAATTTT
1 TTTTTTTGTCCAAGTTAGGCCTTAAACTTAGCAAATGTTCCCACATTAGAACTTGAACTTT
* * * *
58939431 TTTTCTTTGGTCCAAGTTAGGCCTTAAACTTGGCAATTGTTCTCACATTAGAATTTGAACTTT
1 TTTT-TTT-GTCCAAGTTAGGCCTTAAACTTAGCAAATGTTCCCACATTAGAACTTGAACTTT
58939494 TTTT
1 TTTT
58939498 ATTCAAGTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 4 0.07
62 3 0.05
63 49 0.88
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (61 bp):
TTTTTTTGTCCAAGTTAGGCCTTAAACTTAGCAAATGTTCCCACATTAGAACTTGAACTTT
Found at i:58943492 original size:34 final size:35
Alignment explanation
Indices: 58943449--58943521 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 35
58943439 TTTCTTTCTT
* *
58943449 AATTTA-TTTTTTCCTAATGATAAATTTGGCCCTC
1 AATTTATTTTTTTCATAATGATAAATTTGACCCTC
*
58943483 AATTTATTTTTTTTCATAATGATAAATTTGACTCTC
1 AATTTA-TTTTTTTCATAATGATAAATTTGACCCTC
58943519 AAT
1 AAT
58943522 ATTTATACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 6 0.18
36 28 0.82
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (35 bp):
AATTTATTTTTTTCATAATGATAAATTTGACCCTC
Found at i:58947119 original size:3 final size:3
Alignment explanation
Indices: 58947111--58947139 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58947101 TCTTCAACTC
58947111 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
58947140 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:58955007 original size:18 final size:18
Alignment explanation
Indices: 58954984--58955018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58954974 AAAAATGAGG
* *
58954984 TTTAGAGGAAAGTAAAAA
1 TTTAGAAGAAAATAAAAA
58955002 TTTAGAAGAAAATAAAA
1 TTTAGAAGAAAATAAAA
58955019 GAAAAAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (18 bp):
TTTAGAAGAAAATAAAAA
Found at i:58955331 original size:15 final size:16
Alignment explanation
Indices: 58955306--58955335 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58955296 TGTTTAGTTT
58955306 TTATATTTTAATTTAG
1 TTATATTTTAATTTAG
58955322 TTAT-TTTTAATTTA
1 TTATATTTTAATTTA
58955336 AAATTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTATATTTTAATTTAG
Found at i:58957856 original size:20 final size:18
Alignment explanation
Indices: 58957833--58957929 Score: 65
Period size: 20 Copynumber: 5.2 Consensus size: 18
58957823 TTTCTCAATA
58957833 AAAATTTTAAAATGATTTT
1 AAAATTTTAAAAT-ATTTT
* *
58957852 CAAAAATTCAAAATAATTTT
1 -AAAATTTTAAAAT-ATTTT
*
58957872 TAAATTTTAAAATATTTAT
1 AAAATTTTAAAATATTT-T
*
58957891 AAAAATTCTAAAA-A-TTT
1 -AAAATTTTAAAATATTTT
* *
58957908 -ATATTTTAAAAAATTTAT
1 AAAATTTTAAAATATTT-T
58957926 AAAA
1 AAAA
58957930 ATTCTAAAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
15 9 0.15
16 1 0.02
17 3 0.05
18 7 0.12
19 14 0.23
20 26 0.43
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
AAAATTTTAAAATATTTT
Found at i:58957924 original size:35 final size:36
Alignment explanation
Indices: 58957870--58957946 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
58957860 CAAAATAATT
* *
58957870 TTTAAATTTTAAAATATTTATAAAAATTCTAAA-AA
1 TTTATATTTTAAAAAATTTATAAAAATTCTAAAGAA
58957905 TTTATATTTTAAAAAATTTATAAAAATTCTAAAGAA
1 TTTATATTTTAAAAAATTTATAAAAATTCTAAAGAA
*
58957941 TATATA
1 TTTATA
58957947 AAGAAAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (36 bp):
TTTATATTTTAAAAAATTTATAAAAATTCTAAAGAA
Found at i:58957929 original size:10 final size:10
Alignment explanation
Indices: 58957873--58957932 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
58957863 AATAATTTTT
58957873 AAATTT-TAA
1 AAATTTATAA
58957882 AATATTTATAA
1 AA-ATTTATAA
*
58957893 AAA-TTCTAA
1 AAATTTATAA
58957902 AAATTTAT--
1 AAATTTATAA
*
58957910 -ATTTTA-AA
1 AAATTTATAA
58957918 AAATTTATAA
1 AAATTTATAA
58957928 AAATT
1 AAATT
58957933 CTAAAGAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
7 5 0.12
9 15 0.38
10 15 0.38
11 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
AAATTTATAA
Found at i:58958420 original size:15 final size:16
Alignment explanation
Indices: 58958400--58958433 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
58958390 GGTCATGACT
58958400 AAAAAATTAA-AATTA
1 AAAAAATTAAGAATTA
58958415 AAAAAATTAAGAATTA
1 AAAAAATTAAGAATTA
58958431 AAA
1 AAA
58958434 TTGATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAGAATTA
Found at i:58962041 original size:44 final size:43
Alignment explanation
Indices: 58961946--58962071 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
58961936 TCGTACAATG
* * * *
58961946 CCAATGTCCCAGACGTGGTCTTACATGTAAT-TAAATATCGATG
1 CCAATGTCCCAGACGTGGTCTTACACGAAATCTCAA-ATCGATA
* *
58961989 CCATTGTCCTAGACAG-GGTCTTACACGAAAGTCTCAAATCGATA
1 CCAATGTCCCAGAC-GTGGTCTTACACGAAA-TCTCAAATCGATA
58962033 CCAATGTCCCAGACGTGGTCTTACACGAAATCTCAAATC
1 CCAATGTCCCAGACGTGGTCTTACACGAAATCTCAAATC
58962072 AAAATCCTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
43 34 0.48
44 34 0.48
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAGACGTGGTCTTACACGAAATCTCAAATCGATA
Found at i:58969495 original size:19 final size:19
Alignment explanation
Indices: 58969468--58969511 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
58969458 TTAGCTTTTT
*
58969468 AGAGCTTAATCCGGGTTTA
1 AGAGTTTAATCCGGGTTTA
*
58969487 AGAGTTTAATCTGGGTTTA
1 AGAGTTTAATCCGGGTTTA
58969506 AGAGTT
1 AGAGTT
58969512 GATTTAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (19 bp):
AGAGTTTAATCCGGGTTTA
Found at i:58969650 original size:16 final size:18
Alignment explanation
Indices: 58969629--58969661 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58969619 TTAAACGAAA
58969629 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
58969645 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
58969662 TTCTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:58978776 original size:18 final size:19
Alignment explanation
Indices: 58978750--58978786 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
58978740 CATAACTGGA
58978750 AAATCTAAAAA-AGGTTTT
1 AAATCTAAAAATAGGTTTT
*
58978768 AAATGTAAAAATAGGTTTT
1 AAATCTAAAAATAGGTTTT
58978787 CATAGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (19 bp):
AAATCTAAAAATAGGTTTT
Found at i:58981234 original size:12 final size:12
Alignment explanation
Indices: 58981219--58981259 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
58981209 TTCAGTTTCC
58981219 GGTTTGGTCTCT
1 GGTTTGGTCTCT
58981231 GGTTTGGTCTCCT
1 GGTTTGGTCT-CT
*
58981244 -GTTTGGCCTCT
1 GGTTTGGTCTCT
58981255 GGTTT
1 GGTTT
58981260 AGGAATTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.00, C:0.20, G:0.32, T:0.49
Consensus pattern (12 bp):
GGTTTGGTCTCT
Found at i:58982644 original size:18 final size:18
Alignment explanation
Indices: 58982605--58982651 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
58982595 TAACTTTCTT
* *
58982605 TATATATTCTTAAAAGAG
1 TATATATTTTTAAAAGAA
58982623 TATATATTTTTAAAA-ATA
1 TATATATTTTTAAAAGA-A
*
58982641 TATACATTTTT
1 TATATATTTTT
58982652 GAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (18 bp):
TATATATTTTTAAAAGAA
Found at i:58984170 original size:17 final size:18
Alignment explanation
Indices: 58984148--58984190 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
58984138 GTTTAGAAAT
*
58984148 TATTTTTATCAT-ACTAA
1 TATTTTTATAATAACTAA
*
58984165 TATTTTTATAATAATTAA
1 TATTTTTATAATAACTAA
58984183 TATTTTTA
1 TATTTTTA
58984191 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTTATAATAACTAA
Found at i:58985781 original size:33 final size:33
Alignment explanation
Indices: 58985739--58985839 Score: 103
Period size: 33 Copynumber: 3.0 Consensus size: 33
58985729 CTATGGCATT
*
58985739 AAAAGAGTAAGTCTATTGGGATAGTAAACACAA
1 AAAAGAGTAAGTCTATTGGGACAGTAAACACAA
* ** * **
58985772 AAAAGAGTAAGCCTGCTAGGACAGTAAACACGG
1 AAAAGAGTAAGTCTATTGGGACAGTAAACACAA
* *
58985805 AATAGAGATGAAGTCTATCGGGACAGTAAACACAA
1 AAAAGAG-T-AAGTCTATTGGGACAGTAAACACAA
58985840 TGCAAGTTGA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
33 32 0.63
34 1 0.02
35 18 0.35
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.17
Consensus pattern (33 bp):
AAAAGAGTAAGTCTATTGGGACAGTAAACACAA
Found at i:58986697 original size:22 final size:24
Alignment explanation
Indices: 58986672--58986718 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
58986662 CACAAGATAT
58986672 AAAGAAACTT-AATAAA-A-CTTCG
1 AAAGAAA-TTAAATAAAGATCTTCG
58986694 AAAGAAATTAAATAAAGATCTTCG
1 AAAGAAATTAAATAAAGATCTTCG
58986718 A
1 A
58986719 TCTTGAGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 1 0.05
24 6 0.27
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (24 bp):
AAAGAAATTAAATAAAGATCTTCG
Found at i:58990673 original size:20 final size:20
Alignment explanation
Indices: 58990648--58990741 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
58990638 TGAGGGGGCA
58990648 ATTTGTTGCCACGTAACGCG
1 ATTTGTTGCCACGTAACGCG
* *
58990668 ATTTGTTGCCACGTCA-GCA
1 ATTTGTTGCCACGTAACGCG
*** * *
58990687 AAGCG-TGCTGACGTGGACGCG
1 ATTTGTTGC-CACGT-AACGCG
*
58990708 ATTTGTTGTCACGTAACGCG
1 ATTTGTTGCCACGTAACGCG
58990728 ATTTGTTGCCACGT
1 ATTTGTTGCCACGT
58990742 CAGCAAAGCG
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
18 3 0.05
19 8 0.15
20 34 0.62
21 8 0.15
22 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (20 bp):
ATTTGTTGCCACGTAACGCG
Found at i:58990721 original size:60 final size:60
Alignment explanation
Indices: 58990648--58990771 Score: 221
Period size: 60 Copynumber: 2.1 Consensus size: 60
58990638 TGAGGGGGCA
58990648 ATTTGTTGCCACGTAACGCGATTTGTTGCCACGTCAGCAAAGCGTGCTGACGTGGACGCG
1 ATTTGTTGCCACGTAACGCGATTTGTTGCCACGTCAGCAAAGCGTGCTGACGTGGACGCG
* * *
58990708 ATTTGTTGTCACGTAACGCGATTTGTTGCCACGTCAGCAAAGCGTGTTGACGTGGCCGCG
1 ATTTGTTGCCACGTAACGCGATTTGTTGCCACGTCAGCAAAGCGTGCTGACGTGGACGCG
58990768 ATTT
1 ATTT
58990772 CTCCCCTCAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.28
Consensus pattern (60 bp):
ATTTGTTGCCACGTAACGCGATTTGTTGCCACGTCAGCAAAGCGTGCTGACGTGGACGCG
Found at i:58990859 original size:11 final size:11
Alignment explanation
Indices: 58990837--58990880 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
58990827 AACTAATCCT
58990837 CTCTCAAATTTC
1 CTCTC-AATTTC
58990849 CTCTCAATTTC
1 CTCTCAATTTC
*
58990860 CTCTAAATTTC
1 CTCTCAATTTC
58990871 CTCTCAATTT
1 CTCTCAATTT
58990881 TAGTGTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 25 0.83
12 5 0.17
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:58990870 original size:22 final size:23
Alignment explanation
Indices: 58990837--58990880 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
58990827 AACTAATCCT
58990837 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
58990860 CTCT-AAATTTCCTCTCAATTT
1 CTCTCAAATTTCCTCTCAATTT
58990881 TAGTGTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:58991013 original size:25 final size:24
Alignment explanation
Indices: 58990971--58991020 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 24
58990961 AATAAAGTTC
58990971 AAAAAAATTAAGAGAAATTTTTAA
1 AAAAAAATTAAGAGAAATTTTTAA
58990995 AAAAAAATT-AGAGTCAAATTTTTAA
1 AAAAAAATTAAGAG--AAATTTTTAA
58991020 A
1 A
58991021 TGGTCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 9 0.38
25 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (24 bp):
AAAAAAATTAAGAGAAATTTTTAA
Found at i:58991533 original size:23 final size:24
Alignment explanation
Indices: 58991505--58991552 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
58991495 GTTTTGGTGC
58991505 TGTTATTTTT-CTACTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
*
58991528 TGTTATTTTTGCTATTGTTTTTGT
1 TGTTATTTTTGCTACTGTTTTTGT
58991552 T
1 T
58991553 ATTTGTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.08, C:0.06, G:0.15, T:0.71
Consensus pattern (24 bp):
TGTTATTTTTGCTACTGTTTTTGT
Found at i:58991553 original size:21 final size:23
Alignment explanation
Indices: 58991505--58991556 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
58991495 GTTTTGGTGC
*
58991505 TGTTATTTTTCTACTGTTTTTGT
1 TGTTATTTTTCTACTGTGTTTGT
58991528 TGTTATTTTTGCTA-T-TGTTT-T
1 TGTTATTTTT-CTACTGTGTTTGT
58991549 TGTTATTT
1 TGTTATTT
58991557 GTACTGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 9 0.33
22 4 0.15
23 11 0.41
24 3 0.11
ACGTcount: A:0.10, C:0.06, G:0.13, T:0.71
Consensus pattern (23 bp):
TGTTATTTTTCTACTGTGTTTGT
Found at i:58996285 original size:15 final size:15
Alignment explanation
Indices: 58996265--58996294 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58996255 ACTATTAGTA
58996265 ATTTTTTTAATATTT
1 ATTTTTTTAATATTT
*
58996280 ATTTTTTTATTATTT
1 ATTTTTTTAATATTT
58996295 TACCATACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTTAATATTT
Found at i:58997866 original size:16 final size:16
Alignment explanation
Indices: 58997845--58997875 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58997835 CATGTCGGAG
58997845 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
58997861 CATATATATTTGAAA
1 CATATAAATTTGAAA
58997876 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:58998030 original size:22 final size:21
Alignment explanation
Indices: 58998004--58998046 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
58997994 TCTTTATATA
*
58998004 TTTTATAGATTTTTTTTGAAAT
1 TTTTATAAATTTTTTTT-AAAT
58998026 TTTTATAAATTTTTTTTAAAT
1 TTTTATAAATTTTTTTTAAAT
58998047 ATATAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTATAAATTTTTTTTAAAT
Found at i:58998069 original size:18 final size:19
Alignment explanation
Indices: 58998048--58998102 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
58998038 TTTTTAAATA
58998048 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
58998066 TATAAATATTTTGAA-TTT
1 TATAAATATTTGGAATTTT
* *
58998084 TAAAAATTATTTTGAATTT
1 TATAAA-TATTTGGAATTT
58998103 AATTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 15 0.47
19 15 0.47
20 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:58998083 original size:19 final size:20
Alignment explanation
Indices: 58998017--58998102 Score: 74
Period size: 19 Copynumber: 4.5 Consensus size: 20
58998007 TATAGATTTT
*
58998017 TTTTGAAATTTTTATAAATTT
1 TTTTG-AATTTTTATAAATTA
* * *
58998038 TTTTTAA-ATATATAAA-T-
1 TTTTGAATTTTTATAAATTA
*
58998055 TTTGGAATTTTTATAAA-TA
1 TTTTGAATTTTTATAAATTA
*
58998074 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTATAAATTA
58998093 TTTTGAATTT
1 TTTTGAATTT
58998103 AATTTTTTGT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
17 5 0.10
18 17 0.33
19 22 0.42
20 4 0.08
21 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:58999863 original size:14 final size:13
Alignment explanation
Indices: 58999819--58999855 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
58999809 CAAATAAATT
58999819 GAAGAAAAAAGAAA
1 GAAG-AAAAAGAAA
58999833 GAATGAAAAAGAAA
1 GAA-GAAAAAGAAA
58999847 GAAGAAAAA
1 GAAGAAAAA
58999856 TGAGAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 15 0.68
15 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (13 bp):
GAAGAAAAAGAAA
Found at i:59004141 original size:51 final size:50
Alignment explanation
Indices: 59004061--59004239 Score: 195
Period size: 51 Copynumber: 3.5 Consensus size: 50
59004051 TACTTATGAA
* *
59004061 CACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCGATAGATGATTGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGATAGATG-TTGT
* * *
59004112 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGCT-TTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATC-GATAGATGTT-GT
* * *
59004163 CACGTGTGTAGTACTATGTGCAGGCTACTACGTG-AAC--TAGAAAGCTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGATAG-ATG-TTG-T
*
59004213 CACGTGTGTAGTACTATGTGTAGGCTA
1 CACGTGTGTAGTACTATGTGCAGGCTA
59004240 TTGCATGTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
47 2 0.02
49 1 0.01
50 33 0.30
51 69 0.63
52 5 0.05
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGATAGATGTTGT
Found at i:59004264 original size:101 final size:101
Alignment explanation
Indices: 59004061--59004266 Score: 240
Period size: 101 Copynumber: 2.0 Consensus size: 101
59004051 TACTTATGAA
* * * *
59004061 CACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCGATAGATGATTGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAAC-ATAGAAGATTGTCACATGTGTAGTAC
* **
59004126 TATGTGCAGGCTACTATGTGTATCGGATGGCTTTGGT
65 TATGTGCAGGCTACTATGTGTATCGGATGACAATGGT
* * *
59004163 CACGTGTGTAGTACTATGTGCAGGCTACTACGTG-AAC-TAGAAAGCTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACATAG-AAGATTG-TCACATGTGTAGTA
*
59004226 CTATGTGTAGGCTA-T-TGCATGTATCGGATGACAATGGT
64 CTATGTGCAGGCTACTATG--TGTATCGGATGACAATGGT
59004264 CAC
1 CAC
59004267 AGATGACAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
99 5 0.06
100 6 0.07
101 47 0.53
102 31 0.35
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACATAGAAGATTGTCACATGTGTAGTACT
ATGTGCAGGCTACTATGTGTATCGGATGACAATGGT
Found at i:59004273 original size:16 final size:16
Alignment explanation
Indices: 59004252--59004283 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59004242 GCATGTATCG
59004252 GATGACAATGGTCACA
1 GATGACAATGGTCACA
59004268 GATGACAATGGTCACA
1 GATGACAATGGTCACA
59004284 TGGGTGGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
GATGACAATGGTCACA
Found at i:59008960 original size:77 final size:77
Alignment explanation
Indices: 59008866--59009023 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
59008856 TAATGAGATT
* *
59008866 TTGTATGCCTTTAAAAAGAAATTAGGGCTACCTAGAGAGGAAAGACGAAT-AGAAGCTTTTAGAG
1 TTGTATACCTTTAAAAAGAAATGAGGGCTACCTAGAGAGGAAAGACGAATGA-AAGCTTTTAGAG
59008930 AGGTTCTTAGTGA
65 AGGTTCTTAGTGA
59008943 TTGTATACCTTTAAAAAGAAATGAGGGCTACCTAGAGAGGAAAGACGAATGAAAGCTTTTAGAGA
1 TTGTATACCTTTAAAAAGAAATGAGGGCTACCTAGAGAGGAAAGACGAATGAAAGCTTTTAGAGA
59009008 GGTTCTTAGTGA
66 GGTTCTTAGTGA
59009020 TTGT
1 TTGT
59009024 CAATTGGTGG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
77 77 0.99
78 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (77 bp):
TTGTATACCTTTAAAAAGAAATGAGGGCTACCTAGAGAGGAAAGACGAATGAAAGCTTTTAGAGA
GGTTCTTAGTGA
Found at i:59012992 original size:14 final size:15
Alignment explanation
Indices: 59012973--59013009 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
59012963 GCCCGTATGA
59012973 TTATTTTTTA-TTGT
1 TTATTTTTTATTTGT
59012987 TTATTTTTTATTTGT
1 TTATTTTTTATTTGT
59013002 TTCATTTT
1 TT-ATTTT
59013010 ATCTACATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 6 0.29
16 5 0.24
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (15 bp):
TTATTTTTTATTTGT
Found at i:59014223 original size:23 final size:22
Alignment explanation
Indices: 59014179--59014223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
59014169 CACCTACATC
*
59014179 ACTGGACACGGCGGTGCCAGTG
1 ACTGGACACGGCGGTCCCAGTG
59014201 ACTGCGACGACGGC-GTCCCAGTG
1 ACTG-GAC-ACGGCGGTCCCAGTG
59014224 GCCGGCTACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.18, C:0.31, G:0.38, T:0.13
Consensus pattern (22 bp):
ACTGGACACGGCGGTCCCAGTG
Found at i:59014465 original size:62 final size:60
Alignment explanation
Indices: 59014326--59014458 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 60
59014316 TCCAAAAATA
* * *
59014326 ATATTATTTTAAT--AGTTTAATATTAAATTTAATTTAATATTTATCTTGCAGATAAACATT
1 ATATTATTTTAATAAAATTTAAAATTAAATTTAATCTAATATTTATCTT--AGATAAACATT
* *
59014386 ATATTATTTTAATAAAATTTAAAATTTAATTTAATCTAATATTTATCTT-GATAAATATT
1 ATATTATTTTAATAAAATTTAAAATTAAATTTAATCTAATATTTATCTTAGATAAACATT
*
59014445 ATATTAATTTAATA
1 ATATTATTTTAATA
59014459 TTAAAATGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
59 22 0.34
60 13 0.20
62 30 0.46
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (60 bp):
ATATTATTTTAATAAAATTTAAAATTAAATTTAATCTAATATTTATCTTAGATAAACATT
Found at i:59020203 original size:31 final size:31
Alignment explanation
Indices: 59020163--59020230 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
59020153 TTAATAGCCT
*
59020163 AGTGACTTAAATAAAAACTTTTGAATTGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
* * *
59020194 AGTGGCTTAAATGAAAAGTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
59020225 AGTGAC
1 AGTGAC
59020231 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTC
Found at i:59021643 original size:3 final size:3
Alignment explanation
Indices: 59021637--59021694 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
59021627 AATAATGATG
*
59021637 ACA ACA ACA ACA ACA ACA ACA ACA ACA ATA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
59021685 ACA ACA ACA A
1 ACA ACA ACA A
59021695 GAGTTGCTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.31, G:0.00, T:0.02
Consensus pattern (3 bp):
ACA
Found at i:59023093 original size:29 final size:30
Alignment explanation
Indices: 59023034--59023100 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
59023024 AATACTTATA
* *
59023034 TTATATTATATTATTTTAATATTTAATATTT
1 TTATA-TATATTATTTTAATATTGAAAATTT
*
59023065 TTATATATATT-TTTTATTATTGAAAATTT
1 TTATATATATTATTTTAATATTGAAAATTT
59023094 TTATATA
1 TTATATA
59023101 GTCATCTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 22 0.67
30 6 0.18
31 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (30 bp):
TTATATATATTATTTTAATATTGAAAATTT
Found at i:59025220 original size:14 final size:14
Alignment explanation
Indices: 59025201--59025231 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59025191 GGAATTGTTT
*
59025201 TAATCTAAATTTAC
1 TAATCTAAATTAAC
59025215 TAATCTAAATTAAC
1 TAATCTAAATTAAC
59025229 TAA
1 TAA
59025232 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Done.