Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 146 of 276
Found at i:47550914 original size:61 final size:60
Alignment explanation
Indices: 47550810--47550974 Score: 158
Period size: 64 Copynumber: 2.6 Consensus size: 60
47550800 TTAGACAGTA
* * * *
47550810 AAAATAATAATAATAATAGTAAA-AAAAATGATAATAGTGATATTAGT-A-GTAATAATAAT
1 AAAA-AATAATAATAATAGTAAATAATAATAATAATAAT-ATATTACTAAGGTAATAATAAT
*
47550869 AATAGGAAATAATAATAATAGTAAATAATAATAATAATAATATATTACTAAGGGTAATGATAAT
1 AA-A--AAATAATAATAATAGTAAATAATAATAATAATAATATATTACTAA-GGTAATAATAAT
*
47550933 AAAAACAGTAATATACTAATAAT-AATAATAATAATAATAATA
1 AAAAA-A-TAATA-A-TAATAGTAAATAATAATAATAATAATA
47550975 ATGAAAATAA
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
59 2 0.02
60 1 0.01
61 27 0.30
62 15 0.17
63 6 0.07
64 32 0.36
65 6 0.07
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (60 bp):
AAAAAATAATAATAATAGTAAATAATAATAATAATAATATATTACTAAGGTAATAATAAT
Found at i:47552750 original size:3 final size:3
Alignment explanation
Indices: 47552744--47552777 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
47552734 TGTTTTTTGC
*
47552744 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47552778 GAGACATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:47558662 original size:58 final size:58
Alignment explanation
Indices: 47558586--47558765 Score: 342
Period size: 58 Copynumber: 3.1 Consensus size: 58
47558576 ATGAAGGTCT
* *
47558586 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGTTTGGTTTTGAATGAAGAACAGATG
1 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
47558644 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
1 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
47558702 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
1 GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
47558760 GAAAAA
1 GAAAAA
47558766 CGTAGTGTTT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 120 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (58 bp):
GAAAAAACCCCAATAAGGTGTAAGAAAAGATAGCTTGGTTTTCAATGAAGAACAGATG
Found at i:47559541 original size:23 final size:23
Alignment explanation
Indices: 47559515--47559569 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
47559505 ATAATAAATA
* *
47559515 TATATATATTTTTTATTTTTAAT
1 TATATATATATTTTAATTTTAAT
*
47559538 TATATTTATATTTTAATTTTAAT
1 TATATATATATTTTAATTTTAAT
*
47559561 TTTA-ATATA
1 TATATATATA
47559570 ATCAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATATATATTTTAATTTTAAT
Found at i:47561953 original size:40 final size:40
Alignment explanation
Indices: 47561895--47561986 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
47561885 AACAACATTT
* * *
47561895 TTAGCGGCGTTTTAACAAAAAACGTCACTAAAAAA-GAGCA
1 TTAGCGGCGCTTCAAC-AAAAACGCCACTAAAAAACGAGCA
*
47561935 TTAGCGGCGCTTCCACAAAAACGCCACTAAAAAACGAGCA
1 TTAGCGGCGCTTCAACAAAAACGCCACTAAAAAACGAGCA
47561975 TTAGCGGCGCTT
1 TTAGCGGCGCTT
47561987 ATAAGGAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
39 17 0.36
40 30 0.64
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (40 bp):
TTAGCGGCGCTTCAACAAAAACGCCACTAAAAAACGAGCA
Found at i:47561999 original size:40 final size:38
Alignment explanation
Indices: 47561912--47561986 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 38
47561902 CGTTTTAACA
*
47561912 AAAAACGTCACTAAAAAAGAGCATTAGCGGCGCTTCCAC
1 AAAAACGCCACTAAAAAAGAGCATTAGCGGCGCTT-CAC
47561951 AAAAACGCCACTAAAAAACGAGCATTAGCGGCGCTT
1 AAAAACGCCACTAAAAAA-GAGCATTAGCGGCGCTT
47561987 ATAAGGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
39 17 0.50
40 17 0.50
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (38 bp):
AAAAACGCCACTAAAAAAGAGCATTAGCGGCGCTTCAC
Found at i:47562695 original size:21 final size:21
Alignment explanation
Indices: 47562669--47562718 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
47562659 GATTAGGGTT
47562669 GGGTTAGGGGTTAGGGGTTTA-
1 GGGTTAGGGGTTA-GGGTTTAG
* *
47562690 GGGTTAAGGGTTTATGGTTTAG
1 GGGTT-AGGGGTTAGGGTTTAG
47562712 GGGTTAG
1 GGGTTAG
47562719 AGTTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (21 bp):
GGGTTAGGGGTTAGGGTTTAG
Found at i:47562723 original size:14 final size:14
Alignment explanation
Indices: 47562669--47562724 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
47562659 GATTAGGGTT
*
47562669 GGGTTAGGGGTTAG
1 GGGTTAGGGTTTAG
*
47562683 GGGTTTAGGGTTAAG
1 GGG-TTAGGGTTTAG
* *
47562698 GGTTTATGGTTTAG
1 GGGTTAGGGTTTAG
*
47562712 GGGTTAGAGTTTA
1 GGGTTAGGGTTTA
47562725 ATTAGATATG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.38
Consensus pattern (14 bp):
GGGTTAGGGTTTAG
Found at i:47562723 original size:21 final size:21
Alignment explanation
Indices: 47562684--47562724 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47562674 AGGGGTTAGG
*
47562684 GGTTTAGGGTTAAGGGTTTAT
1 GGTTTAGGGTTAAGAGTTTAT
47562705 GGTTTAGGGGTT-AGAGTTTA
1 GGTTTA-GGGTTAAGAGTTTA
47562725 ATTAGATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGTTAAGAGTTTAT
Found at i:47562991 original size:25 final size:26
Alignment explanation
Indices: 47562950--47562998 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
47562940 AGATTTAAGT
*
47562950 GTTAGGGGTTAATGA-TTAGGGTTGG
1 GTTAGGGGTTAAGGATTTAGGGTTGG
*
47562975 GTTAGGGGTTAGGGATTTAGGGTT
1 GTTAGGGGTTAAGGATTTAGGGTT
47562999 AAGGGCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (26 bp):
GTTAGGGGTTAAGGATTTAGGGTTGG
Found at i:47562999 original size:21 final size:21
Alignment explanation
Indices: 47562973--47563022 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
47562963 GATTAGGGTT
*
47562973 GGGTTAGGGGTTAGGGATTTA-
1 GGGTTAGGGCTTAGGG-TTTAG
*
47562994 GGGTTAAGGGCTTATGGTTTAG
1 GGGTT-AGGGCTTAGGGTTTAG
47563016 GGGTTAG
1 GGGTTAG
47563023 AGTTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.18, C:0.02, G:0.46, T:0.34
Consensus pattern (21 bp):
GGGTTAGGGCTTAGGGTTTAG
Found at i:47563119 original size:304 final size:304
Alignment explanation
Indices: 47562570--47563176 Score: 1187
Period size: 304 Copynumber: 2.0 Consensus size: 304
47562560 GTGTAGGAGT
*
47562570 TACTAATTTAAGGGTTACAATTATGTAGTTTAAGGTATTGATTTAGGGTTTAACAGTTAGAGTTT
1 TACTAATTTAAGGGTTACAATTATGTAGTTTAAGGTATTGATTTAGGGTTTAACAATTAGAGTTT
*
47562635 AAGATTTAAGTGTTAGGGGTTAATGATTAGGGTTGGGTTAGGGGTTAGGGGTTTAGGGTTAAGGG
66 AAGATTTAAGTGTTAGGGGTTAATGATTAGGGTTGGGTTAGGGGTTAGGGATTTAGGGTTAAGGG
*
47562700 TTTATGGTTTAGGGGTTAGAGTTTAATTAGATATGTGTGTATTGTGAAATTTAGGGTATCAAGTT
131 CTTATGGTTTAGGGGTTAGAGTTTAATTAGATATGTGTGTATTGTGAAATTTAGGGTATCAAGTT
47562765 TAGGGTTTAGGATTTTAAGGCCAGATAGGGGTTAGAGGTTTAGGGTTTTGATTAATTATCATTTT
196 TAGGGTTTAGGATTTTAAGGCCAGATAGGGGTTAGAGGTTTAGGGTTTTGATTAATTATCATTTT
47562830 TTAATTTATATATTAAATGATTTCTTATATAATTGTAAAAGAGG
261 TTAATTTATATATTAAATGATTTCTTATATAATTGTAAAAGAGG
47562874 TACTAATTTAAGGGTTACAATTATGTAGTTTAAGGTATTGATTTAGGGTTTAACAATTAGAGTTT
1 TACTAATTTAAGGGTTACAATTATGTAGTTTAAGGTATTGATTTAGGGTTTAACAATTAGAGTTT
47562939 AAGATTTAAGTGTTAGGGGTTAATGATTAGGGTTGGGTTAGGGGTTAGGGATTTAGGGTTAAGGG
66 AAGATTTAAGTGTTAGGGGTTAATGATTAGGGTTGGGTTAGGGGTTAGGGATTTAGGGTTAAGGG
47563004 CTTATGGTTTAGGGGTTAGAGTTTAATTAGATATGTGTGTATTGTGAAATTTAGGGTATCAAGTT
131 CTTATGGTTTAGGGGTTAGAGTTTAATTAGATATGTGTGTATTGTGAAATTTAGGGTATCAAGTT
47563069 TAGGGTTTAGGATTTTAAGGCCAGATAGGGGTTAGAGGTTTAGGGTTTTGATTAATTATCATTTT
196 TAGGGTTTAGGATTTTAAGGCCAGATAGGGGTTAGAGGTTTAGGGTTTTGATTAATTATCATTTT
47563134 TTAATTTATATATTAAATGATTTCTTATATAATTGTAAAAGAG
261 TTAATTTATATATTAAATGATTTCTTATATAATTGTAAAAGAG
47563177 ATATATAATA
Statistics
Matches: 300, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
304 300 1.00
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.41
Consensus pattern (304 bp):
TACTAATTTAAGGGTTACAATTATGTAGTTTAAGGTATTGATTTAGGGTTTAACAATTAGAGTTT
AAGATTTAAGTGTTAGGGGTTAATGATTAGGGTTGGGTTAGGGGTTAGGGATTTAGGGTTAAGGG
CTTATGGTTTAGGGGTTAGAGTTTAATTAGATATGTGTGTATTGTGAAATTTAGGGTATCAAGTT
TAGGGTTTAGGATTTTAAGGCCAGATAGGGGTTAGAGGTTTAGGGTTTTGATTAATTATCATTTT
TTAATTTATATATTAAATGATTTCTTATATAATTGTAAAAGAGG
Found at i:47564426 original size:25 final size:26
Alignment explanation
Indices: 47564385--47564433 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
47564375 AGATTTAAGT
*
47564385 GTTAGGGGTTAATGA-TTAGGGTTGG
1 GTTAGGGGTTAAGGATTTAGGGTTGG
*
47564410 GTTAGGGGTTAGGGATTTAGGGTT
1 GTTAGGGGTTAAGGATTTAGGGTT
47564434 AAGGGCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (26 bp):
GTTAGGGGTTAAGGATTTAGGGTTGG
Found at i:47564434 original size:21 final size:21
Alignment explanation
Indices: 47564408--47564457 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
47564398 GATTAGGGTT
*
47564408 GGGTTAGGGGTTAGGGATTTA-
1 GGGTTAGGGCTTAGGG-TTTAG
*
47564429 GGGTTAAGGGCTTATGGTTTAG
1 GGGTT-AGGGCTTAGGGTTTAG
47564451 GGGTTAG
1 GGGTTAG
47564458 AGTTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.18, C:0.02, G:0.46, T:0.34
Consensus pattern (21 bp):
GGGTTAGGGCTTAGGGTTTAG
Found at i:47565472 original size:158 final size:156
Alignment explanation
Indices: 47565252--47565598 Score: 423
Period size: 158 Copynumber: 2.2 Consensus size: 156
47565242 AGAGATCAGT
* *
47565252 GGCGTTTTTTAAAAAAACGCCGCAAAAAAACAGTATAGCTGAAAGAAAACGGCGTCGTTTTAGT-
1 GGCGTTTTTT-AAAAAACGCCGC-AAAAAACAGTATAGCTGAAAGAAAACGACGCCGTTTTAGTA
* * *
47565316 TGGAT-AGAGTATTAGTGGCG-TTTTGAAAAACGTCGCAACAGAAGTAAAGTGTACTGGA-AGCG
64 T--ATGAGAGTATTAGTGGCGCTTTT-AAAAACGCCGCAAAAGAAGTAAAGTCTACTGGACA-CG
47565378 TCATCGTTTTAGTTGAAAATATAGGGGATTAGC
125 TCATCGTTTTAGTTGAAAATATA-GGGATTAGC
* * * * * *
47565411 GGCGTTTTTATAGAAAACGCCACAAAAGACAGTTTAGTTTAAAGAAAACGACGCCGTTTTAGTAT
1 GGCGTTTTT-TAAAAAACGCCGCAAAAAACAGTATAGCTGAAAGAAAACGACGCCGTTTTAGTAT
* * * * *
47565476 ATGAGGGTATTAGTGGCGCTTTTAAAAACGCCGCAAAATAATTAAAGTCTACTGTACACGTCGTC
65 ATGAGAGTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGAAGTAAAGTCTACTGGACACGTCATC
*
47565541 GTTTTAGTTGAATATATAGGGATTAGC
130 GTTTTAGTTGAAAATATAGGGATTAGC
*
47565568 GGTGTTTTTTAAATAAACGCCGCAAAAAACA
1 GGCGTTTTTTAAA-AAACGCCGCAAAAAACA
47565599 TTAGTGCTTA
Statistics
Matches: 161, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
156 3 0.02
157 34 0.21
158 98 0.61
159 25 0.16
160 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (156 bp):
GGCGTTTTTTAAAAAACGCCGCAAAAAACAGTATAGCTGAAAGAAAACGACGCCGTTTTAGTATA
TGAGAGTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGAAGTAAAGTCTACTGGACACGTCATCG
TTTTAGTTGAAAATATAGGGATTAGC
Found at i:47567605 original size:8 final size:8
Alignment explanation
Indices: 47567592--47567641 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
47567582 TGATTATAAT
47567592 AATAGTGG
1 AATAGTGG
47567600 AATAGTGG
1 AATAGTGG
*
47567608 AATAGTGT
1 AATAGTGG
47567616 AAT--TGCG
1 AATAGTG-G
* *
47567623 TATAGTGT
1 AATAGTGG
47567631 AATAGTGG
1 AATAGTGG
47567639 AAT
1 AAT
47567642 TTTTTGATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
6 2 0.06
7 2 0.06
8 27 0.82
9 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (8 bp):
AATAGTGG
Found at i:47568403 original size:16 final size:16
Alignment explanation
Indices: 47568369--47568403 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47568359 ATTTTATTTT
* *
47568369 ATTTTTAAATTACCTA
1 ATTTTTAAATTAACAA
47568385 ATTTTTAAATTAACAA
1 ATTTTTAAATTAACAA
47568401 ATT
1 ATT
47568404 AATAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTTAAATTAACAA
Found at i:47568416 original size:99 final size:97
Alignment explanation
Indices: 47568300--47568484 Score: 277
Period size: 99 Copynumber: 1.9 Consensus size: 97
47568290 ATGTTTACTT
* *
47568300 AAATTAATAAATGCAAATTAAAAGAAAGACTTAGCAA-GTTTAATATCATTAATT-TAAATA-TT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAAT-ATT--TTGT--ATACTT
47568362 TTATTTTATTTTTAAATTACCTAATTTTTAAATTAAC
61 TTATTTTATTTTTAAATTACCTAATTTTTAAATTAAC
*
47568399 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAATATTTTGTCTACTTTTATT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAATATTTTGTATACTTTTATT
47568464 TTATTTTTAAATTACCTAATT
66 TTATTTTTAAATTACCTAATT
47568485 AAATTAAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
96 2 0.03
97 30 0.38
98 1 0.01
99 39 0.49
100 8 0.10
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (97 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAATATTTTGTATACTTTTATT
TTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:47568598 original size:5 final size:5
Alignment explanation
Indices: 47568590--47568614 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47568580 GTATTTAAAG
47568590 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
47568615 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:47568766 original size:91 final size:91
Alignment explanation
Indices: 47568505--47568812 Score: 429
Period size: 91 Copynumber: 3.3 Consensus size: 91
47568495 GTATTTAAAG
* **** *
47568505 TTTTATTTCATTTTAATCACG-AATTTTTTTTGTCAACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
47568569 TAAATTAAATTGTATTTAAAGTTTTATTTTA
66 TAAATTAAATTGTATTTAAAG-----TTTTA
* **
47568600 TTTTATTTTATTTTAATCACGAAAAAAACCTTTGTCTACTTTTATTTTATTTTTAAATTGTCTAA
1 TTTTATTTTATTTTAATCACG-AAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAA
* *
47568665 TTAAAGTAAATTGTATTTAAAGTTTCA
65 TTAAATTAAATTGTATTTAAAGTTTTA
* *
47568692 TTTTATTTTATTTTAATCAGGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAA
1 TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
*
47568757 TAAATTAAATTATATTTAAAGTTTTA
66 TAAATTAAATTGTATTTAAAGTTTTA
47568783 TTTTATTTTATTTTAATCACGAAAAAACTT
1 TTTTATTTTATTTTAATCACGAAAAAACTT
47568813 GTAAATAATT
Statistics
Matches: 191, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
91 92 0.48
92 24 0.13
95 20 0.10
97 55 0.29
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (91 bp):
TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTGTATTTAAAGTTTTA
Found at i:47568779 original size:188 final size:182
Alignment explanation
Indices: 47568448--47568797 Score: 538
Period size: 188 Copynumber: 1.9 Consensus size: 182
47568438 TTTAAAATAT
*
47568448 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATTT
**** *
47568513 CATTTTAATCACGAATTTTTTTTGTCAACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAA
66 CATTTTAATCACGAAAAACTTTTGTCAACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAA
*
47568578 TTGTATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCACGAAAAAAACC
131 TTATATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCACGAAAAAAACC
**
47568630 TTTGTCTACTTTTATTTTATTTTTAAATTGTCTAATTAAAGTAAATTGTATTTAAAGTTTCATTT
1 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG-----TTT
* * *
47568695 TATTTTATTTTAATCAGGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAA
61 TATTTCATTTTAATCACG-AAAAACTTTTGTCAACTTTTATTTTATTTTTAAATTACCTAAATAA
47568760 ATTAAATTATATTTAAAGTTTTATTTTATTTTATTTTA
125 ATTAAATTATATTTAAAGTTTTATTTTATTTTATTTTA
47568798 ATCACGAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
182 54 0.36
187 19 0.13
188 77 0.51
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (182 bp):
TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAGTTTTATTT
CATTTTAATCACGAAAAACTTTTGTCAACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAA
TTATATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCACGAAAAAAACC
Found at i:47569002 original size:9 final size:9
Alignment explanation
Indices: 47568990--47569096 Score: 94
Period size: 9 Copynumber: 11.7 Consensus size: 9
47568980 AAATATATAT
*
47568990 CATATTTTA
1 CATAATTTA
47568999 CATAATTTA
1 CATAATTTA
*
47569008 CATAACTTA
1 CATAATTTA
47569017 CATAA--TA
1 CATAATTTA
47569024 CATAAATATATA
1 CAT-AAT-T-TA
47569036 TCAT-ATCTTA
1 -CATAAT-TTA
47569046 CATAATTTA
1 CATAATTTA
*
47569055 CATAATTTG
1 CATAATTTA
* *
47569064 GATAACTTA
1 CATAATTTA
47569073 CATAATTTA
1 CATAATTTA
*
47569082 CATAACTTA
1 CATAATTTA
47569091 CATAAT
1 CATAAT
47569097 ACATAAATAT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 61 0.76
10 4 0.05
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:47569017 original size:18 final size:18
Alignment explanation
Indices: 47568996--47569096 Score: 107
Period size: 18 Copynumber: 5.5 Consensus size: 18
47568986 ATATCATATT
47568996 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
*
47569014 TTACATAA--TACATAAA
1 TTACATAATTTACATAAC
* *
47569030 TATATATCATATCTTACATAAT
1 T-TACAT-A-AT-TTACATAAC
**
47569052 TTACATAATTTGGATAAC
1 TTACATAATTTACATAAC
47569070 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
47569088 TTACATAAT
1 TTACATAAT
47569097 ACATAAATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
16 8 0.12
17 4 0.06
18 40 0.59
19 3 0.04
20 1 0.01
21 4 0.06
22 8 0.12
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:47572786 original size:49 final size:49
Alignment explanation
Indices: 47572709--47572953 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
47572699 TAGCCGAAGC
* * *
47572709 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
47572758 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
47572808 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
47572859 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
47572908 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
47572954 TCACAATAGC
Statistics
Matches: 169, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:47575833 original size:9 final size:9
Alignment explanation
Indices: 47575819--47575848 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
47575809 AATTCATCAA
47575819 TTAAACAAC
1 TTAAACAAC
47575828 TTAAACAAC
1 TTAAACAAC
47575837 TTAAACAAC
1 TTAAACAAC
47575846 TTA
1 TTA
47575849 TTACCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (9 bp):
TTAAACAAC
Found at i:47591357 original size:13 final size:14
Alignment explanation
Indices: 47591341--47591369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47591331 TTATAAATAT
47591341 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
47591354 TTATAATGGTTTAA
1 TTATAATGGTTTAA
47591368 TT
1 TT
47591370 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:47591805 original size:21 final size:22
Alignment explanation
Indices: 47591778--47591839 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
47591768 AACTTAGAGC
*
47591778 AGAGGCAGCAGCAGCAGCGAGG
1 AGAGGCAGCAGCAGCAGCGAAG
* *
47591800 A-AGGCAGCGGCAGTAGC-AAG
1 AGAGGCAGCAGCAGCAGCGAAG
47591820 AGAGGCAG-AGGCAGCAGCGA
1 AGAGGCAGCA-GCAGCAGCGA
47591840 TGGCAGTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.09
21 27 0.84
22 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.44, T:0.02
Consensus pattern (22 bp):
AGAGGCAGCAGCAGCAGCGAAG
Found at i:47595825 original size:14 final size:14
Alignment explanation
Indices: 47595803--47595837 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
47595793 ATGTTATTTA
47595803 TGTATATCTGTTATT
1 TGTATATCTG-TATT
47595818 TG-ATATCTGTATT
1 TGTATATCTGTATT
47595831 TGTATAT
1 TGTATAT
47595838 GGGGTAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.32
14 11 0.58
15 2 0.11
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (14 bp):
TGTATATCTGTATT
Found at i:47619841 original size:48 final size:48
Alignment explanation
Indices: 47619781--47620101 Score: 324
Period size: 48 Copynumber: 6.7 Consensus size: 48
47619771 TATGTGTGCT
*
47619781 AGTGTAAGACCATGTCTGGGACATGGCATTGACCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* * * * * * *
47619829 AGTGTAAGACCATGTTTGGAACATGGCATTGGCTATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* ** * * *
47619877 AGTGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* * *
47619925 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCCA-CATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGAT-ATGAGAGCC
** * * * * *
47619973 AGTGTAAGACTGTGTCTGGGACGTGGCATC-AGCAATGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCATGATATGAGAGCC
* * * *
47620021 AGTGTAAGACCATGTCTAGGACATGGCATCGGCC-TCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT-GATATGAGAGCC
* *
47620069 AGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
47620102 AATTCACCCT
Statistics
Matches: 217, Mismatches: 51, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
47 3 0.01
48 213 0.98
49 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
Found at i:47619949 original size:96 final size:96
Alignment explanation
Indices: 47619781--47620104 Score: 373
Period size: 96 Copynumber: 3.4 Consensus size: 96
47619771 TATGTGTGCT
* * * *
47619781 AGTGTAAGACCATGTCTGGGACATGGCATTGACCATGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCTAGTGTAAGACCATGTCT
* * * **
47619846 GGAACATGGCATTGGCTATGTTGTGAGAGCC
66 GGGACATGGCATCGGCTACGTCATGAGAGCC
* ** * * *
47619877 AGTGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGGCCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCTAGTGTAAGACCATGTCT
* *
47619942 GGGACATGGCATCGGCCACATCATGAGAGCC
66 GGGACATGGCATCGGCTACGTCATGAGAGCC
** * * *
47619973 AGTGTAAGACTGTGTCTGGGACGTGGCATC-AGCAATGAGACGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CAATGATATGAGAGCTAGTGTAAGACCATGTC
* * *
47620037 TAGGACATGGCATCGGCCT-CGACATGTGAGCC
65 TGGGACATGGCATCGG-CTACGTCATGAGAGCC
* *
47620069 AGTGTAAGACCATGTTTGGAACATGGCATCGACAAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
47620105 TCACCCTCTT
Statistics
Matches: 188, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
95 1 0.01
96 185 0.98
97 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCTACGTCATGAGAGCC
Found at i:47620030 original size:144 final size:144
Alignment explanation
Indices: 47619770--47620101 Score: 425
Period size: 144 Copynumber: 2.3 Consensus size: 144
47619760 CATTTGGGTA
* *
47619770 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACCATGATATGAGAGCCAGTGTA
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTGTA
* ** * * *
47619835 AGACCATGTTTGGAACATGGCATTGGCTATGTTGTGAGAGCCAGTGTAAGACCATGTCTAGGACA
66 AGACCATGTCTGGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTAGGACA
* *
47619900 TGGCATCGACGTTG
131 TGGCATCGACCTCG
* *
47619914 ATATGTGTGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCA-CATCATGAGAGCCAGTGT
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCAT-ATGAGAGCCAGTGT
** * * *
47619978 AAGACTGTGTCTGGGACGTGGCATCAGCAATG-AGACGAGAGCTAGTGTAAGACCATGTCTAGGA
65 AAGACCATGTCTGGAACATGGCATCAGCAATGTAG-CGAGAGCCAGTGTAAGACCATGTCTAGGA
*
47620042 CATGGCATCGGCCTCG
129 CATGGCATCGACCTCG
* * * * *
47620058 ACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAC
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
47620102 AATTCACCCT
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 3 0.02
144 158 0.98
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (144 bp):
ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTGTA
AGACCATGTCTGGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTAGGACA
TGGCATCGACCTCG
Found at i:47627185 original size:21 final size:21
Alignment explanation
Indices: 47627161--47627215 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
47627151 GTTAAGAAGA
* * * *
47627161 CACACGGGCGTGTTGCCTTTC
1 CACATGGGAGTGTCGCCATTC
47627182 CACATGGGAGTGTCGCCATTC
1 CACATGGGAGTGTCGCCATTC
*
47627203 CACATGGGTGTGT
1 CACATGGGAGTGT
47627216 GCCCCTGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (21 bp):
CACATGGGAGTGTCGCCATTC
Found at i:47627822 original size:50 final size:50
Alignment explanation
Indices: 47627742--47627990 Score: 208
Period size: 50 Copynumber: 5.1 Consensus size: 50
47627732 GAGATATGAG
* *
47627742 ATCGGCCTCGAGATATGAGAGTTAGCGTAAGACCATGTCTGGGACATGGC
1 ATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
* *
47627792 ATCGGCCTCAAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGAC
1 ATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
* ** * * *
47627842 AT---CATCTTGATCTGTG-TC-AGTGTAAGACCATGTCTGGGACATGGC
1 ATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
* * * * * *
47627887 ATCGGCCTCGATATACGAGTG-TCAGTGTAAGACCTTGTTTGGGACATGAC
1 ATCGGCCTCGAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGC
** ** * * * *
47627937 ATC-AACT-TTGATGTGTGAGCCAGTGTAAGACCATGTCAGGGACATGGC
1 ATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
*
47627985 GTCGGC
1 ATCGGC
47627991 ACCTTACCCT
Statistics
Matches: 152, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
45 28 0.18
46 1 0.01
47 9 0.06
48 37 0.24
49 2 0.01
50 75 0.49
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
ATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
Found at i:47627931 original size:95 final size:97
Alignment explanation
Indices: 47627768--47627990 Score: 308
Period size: 95 Copynumber: 2.3 Consensus size: 97
47627758 GAGAGTTAGC
*
47627768 GTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATATGAGAGCTAGTGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATACGAGAGCTAGTGTAAGACCATGTCTG
* *
47627833 GGACATGACATCATC-TTGATCTGT-GTCAGT
66 GGACATGACATCAACTTTGATCTGTAGCCAGT
* * * * *
47627863 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATACGAGTG-TCAGTGTAAGACCTTGTTT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATACGAGAGCT-AGTGTAAGACCATGTCT
*
47627927 GGGACATGACATCAACTTTGATGTGTGAGCCAGT
65 GGGACATGACATCAACTTTGATCTGT-AGCCAGT
* *
47627961 GTAAGACCATGTCAGGGACATGGCGTCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
47627991 ACCTTACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
94 1 0.01
95 71 0.63
96 8 0.07
98 33 0.29
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (97 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCTCAAGATACGAGAGCTAGTGTAAGACCATGTCTG
GGACATGACATCAACTTTGATCTGTAGCCAGT
Found at i:47633914 original size:40 final size:40
Alignment explanation
Indices: 47633870--47634131 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
47633860 GCTCCTCGTT
* *
47633870 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
47633910 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47633950 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47633989 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47634028 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
47634067 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
47634108 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47634132 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:47636875 original size:50 final size:50
Alignment explanation
Indices: 47636798--47636976 Score: 179
Period size: 50 Copynumber: 3.6 Consensus size: 50
47636788 ACATCAAAGT
* *
47636798 CGATACCATG-TCCTAGACATGGTCTTACAC-AGACTCTCATATATTGAGGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTA-ACTCTCATATATCGAGGC
* * *
47636848 CGATGCCATGTTCCAGACATGGTCTTACACTATCTTTCATATCTCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAACTCTCATATATCGAGGC
* * * * * * * *
47636898 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTATC--GTCTCAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAACTCTCATATATCGAGGC
47636946 CGATGCCATG-TCCTAGACATGGTCTTACACT
1 CGATGCCATGTTCC-AGACATGGTCTTACACT
47636977 GGCCCTCATA
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.02
48 33 0.29
50 73 0.65
51 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAACTCTCATATATCGAGGC
Found at i:47636965 original size:48 final size:49
Alignment explanation
Indices: 47636752--47636976 Score: 205
Period size: 48 Copynumber: 4.6 Consensus size: 49
47636742 TAAGATGCCA
* * *
47636752 ATGCCATGTCCTGGACATGGTCTTACACT-GACTCA-CA-CATCAAAGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGACT-ATCATC-TCAAGGCCG
* * *
47636800 ATACCATGTCCTAGACATGGTCTTACAC-AGACTCTCATAT-ATTGAGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGACTATCATCTCA---AGGCCG
* * *
47636850 ATGCCATGTTCC-AGACATGGTCTTACACTA-TCTTTCATATCTCGAGGCCG
1 ATGCCATG-TCCTAGACATGGTCTTACACTAGACTATC--ATCTCAAGGCCG
** * *
47636900 ATGCCATGTCCCGGACATGGTCTTACACTAG-CTATCGTCTCAATGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGACTATCATCTCAAGGCCG
47636948 ATGCCATGTCCTAGACATGGTCTTACACT
1 ATGCCATGTCCTAGACATGGTCTTACACT
47636977 GGCCCTCATA
Statistics
Matches: 146, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
47 1 0.01
48 69 0.47
49 3 0.02
50 66 0.45
51 4 0.03
52 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGACTATCATCTCAAGGCCG
Found at i:47636998 original size:48 final size:47
Alignment explanation
Indices: 47636752--47637022 Score: 169
Period size: 48 Copynumber: 5.6 Consensus size: 47
47636742 TAAGATGCCA
* * * * ** *
47636752 ATGCCATGTCCTGGACATGGTCTTACACTGACTCACACATCAAAGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGACCCTCATAT-ATGGCCG
* * *
47636800 ATACCATGTCCTAGACATGGTCTTACACAGACTCTCATATATTGAGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGACCCTCATATA-T--GGCCG
** *
47636850 ATGCCATGTTCC-AGACATGGTCTTACACT-ATCTTTCATATCTCGAGGCCG
1 ATGCCATG-TCCTAGACATGGTCTTACACTGA-CCCTCATATAT---GGCCG
** * *
47636900 ATGCCATGTCCCGGACATGGTCTTACACTAGCTATCGTC-TCA-AT-GCCG
1 ATGCCATGTCCTAGACATGGTCTTACACT-G--ACCCTCAT-ATATGGCCG
* *
47636948 ATGCCATGTCCTAGACATGGTCTTACACTGGCCCTCATAATATGGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGACCCTCAT-ATATGGCCG
* * *
47636996 ATG-CATGTCCCAAACAT-GTCTAACACT
1 ATGCCATGTCCTAGACATGGTCTTACACT
47637023 AGCACACATG
Statistics
Matches: 181, Mismatches: 27, Indels: 32
0.75 0.11 0.13
Matches are distributed among these distances:
45 3 0.02
46 11 0.06
47 16 0.09
48 72 0.40
49 5 0.03
50 65 0.36
51 3 0.02
52 2 0.01
53 3 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGACCCTCATATATGGCCG
Found at i:47640652 original size:15 final size:15
Alignment explanation
Indices: 47640613--47640654 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
47640603 ATACATAAAT
* *
47640613 TATAAAAATAGTTTA
1 TATAAAAATAATATA
*
47640628 -ATATAAATAATATA
1 TATAAAAATAATATA
47640642 TATAAAAATAATA
1 TATAAAAATAATA
47640655 ATGTATAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAAAATAATATA
Found at i:47642110 original size:14 final size:14
Alignment explanation
Indices: 47642076--47642112 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
47642066 ATTTGGTTTA
47642076 TTATTTGTT-TGGTT
1 TTATTT-TTGTGGTT
47642090 TTA-TTTTGTGGTT
1 TTATTTTTGTGGTT
47642103 TTATTTTTGT
1 TTATTTTTGT
47642113 ATGGGCCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 10 0.48
14 9 0.43
ACGTcount: A:0.08, C:0.00, G:0.19, T:0.73
Consensus pattern (14 bp):
TTATTTTTGTGGTT
Found at i:47642447 original size:44 final size:44
Alignment explanation
Indices: 47642397--47642482 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
47642387 TAATTTCAAC
* *
47642397 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTGACTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAGT
*
47642441 CTGCTCCACTGCAACTTCAGGGAGATATGACTTGTAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
47642483 ACCTATTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAGT
Found at i:47643005 original size:178 final size:178
Alignment explanation
Indices: 47642821--47643156 Score: 503
Period size: 178 Copynumber: 1.9 Consensus size: 178
47642811 GTCTGTTCTA
* * * ** * *
47642821 TTGCTACCTCAGTATGATAAGATTACAATC-TTCAATTTGCTCCCTCGCTACCTCAGGGAAATAA
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTTC-ACCTGCTCCCTCGCTACATCAAGGAAATAA
*
47642885 GGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCACCGTCTTCGATCTAC
65 GGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCACCATCTTCGATCTAC
*
47642950 GCCACTGCTATCTGAAGGAGATAAGATCTACAATCTTCAGTCTACTTCC
130 GCCACTGCTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTACTTCC
* * *
47642999 TTGCTACCTCAGGAAGATAAGACTACAATCTTTCGCCTGCTCCCTTGCTACATCAAGGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTTCACCTGCTCCCTCGCTACATCAAGGAAATAAG
* * * *
47643064 GCTGGTGGCTAAAATTTGCTCCTCTGCTACCTCGGGAAGATAAGATTCGCCATCTTCGATCTACT
66 GCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCACCATCTTCGATCTACG
*
47643129 CCACTGCTATCTCAGGGAGATAAGATCT
131 CCACTGCTATCTCAAGGAGATAAGATCT
47643157 GAATTTACCA
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
178 137 0.98
179 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (178 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTTCACCTGCTCCCTCGCTACATCAAGGAAATAAG
GCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCACCATCTTCGATCTACG
CCACTGCTATCTCAAGGAGATAAGATCTACAATCTTCAGTCTACTTCC
Found at i:47643045 original size:44 final size:45
Alignment explanation
Indices: 47642964--47643063 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 45
47642954 CTGCTATCTG
* * *
47642964 AAGGAGATAAGATCTACAATCTTCAGTCTACTTCCTTGCTACCTC
1 AAGGAGATAAGATCTACAATCTTCAGCCTACTCCCTTGCTACATC
*
47643009 -AGGAAGATAAGA-CTACAATCTTTC-GCCTGCTCCCTTGCTACATC
1 AAGG-AGATAAGATCTACAATC-TTCAGCCTACTCCCTTGCTACATC
47643053 AAGGAGATAAG
1 AAGGAGATAAG
47643064 GCTGGTGGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 34 0.71
45 14 0.29
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (45 bp):
AAGGAGATAAGATCTACAATCTTCAGCCTACTCCCTTGCTACATC
Found at i:47654951 original size:15 final size:15
Alignment explanation
Indices: 47654912--47654953 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
47654902 ATACATAAAT
* *
47654912 TATAAAAATAGTTTA
1 TATAAAAATAATATA
*
47654927 -ATATAAATAATATA
1 TATAAAAATAATATA
47654941 TATAAAAATAATA
1 TATAAAAATAATA
47654954 ATGTATAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAAAATAATATA
Found at i:47655042 original size:31 final size:31
Alignment explanation
Indices: 47655006--47655067 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
47654996 GAACAAAGTA
47655006 ATATAA-AAGAGAAATTCAAAATAAATA-AAAT
1 ATATAATAA-AGAAATT-AAAATAAATACAAAT
* *
47655037 ATATAATAAAGTAATTAAAATATATACAAAT
1 ATATAATAAAGAAATTAAAATAAATACAAAT
47655068 GAAAGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.33
31 16 0.59
32 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (31 bp):
ATATAATAAAGAAATTAAAATAAATACAAAT
Found at i:47676222 original size:23 final size:22
Alignment explanation
Indices: 47676165--47676222 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
47676155 CACAGTCCTT
47676165 TTAAAATTTATTACAAATCCAA
1 TTAAAATTTATTACAAATCCAA
** *
47676187 TTGAAAACATATTATCAAACTTC-A
1 TT-AAAATTTATTA-CAAA-TCCAA
47676211 TTAAAATTTATT
1 TTAAAATTTATT
47676223 TAAAAACCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 2 0.07
23 17 0.61
24 7 0.25
25 2 0.07
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (22 bp):
TTAAAATTTATTACAAATCCAA
Found at i:47682849 original size:18 final size:19
Alignment explanation
Indices: 47682826--47682864 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47682816 TGTAAAAATT
* *
47682826 TTGAAATTAGG-GGTTTAA
1 TTGAAAATAGGAGGTTAAA
47682844 TTGAAAATAGGAGGTTAAA
1 TTGAAAATAGGAGGTTAAA
47682863 TT
1 TT
47682865 TAGTTTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (19 bp):
TTGAAAATAGGAGGTTAAA
Found at i:47684381 original size:46 final size:46
Alignment explanation
Indices: 47684331--47684506 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
47684321 TGGTTGAGCA
47684331 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47684377 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47684422 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47684470 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47684507 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47684487 original size:93 final size:93
Alignment explanation
Indices: 47684328--47684498 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47684318 GGATGGTTGA
* *
47684328 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47684393 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
47684421 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47684486 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47684499 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47687450 original size:15 final size:15
Alignment explanation
Indices: 47687430--47687498 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
47687420 GTATCTTGGG
47687430 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
47687445 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
47687460 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
47687475 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
47687490 TTTCTTTAT
1 TTTCTTTAT
47687499 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:47687499 original size:30 final size:30
Alignment explanation
Indices: 47687421--47687508 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
47687411 CATAGTATCG
* * * *
47687421 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
47687451 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
47687481 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
47687509 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:47689952 original size:46 final size:46
Alignment explanation
Indices: 47689902--47690077 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
47689892 TGGTTGAGCA
47689902 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
47689948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--TA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA-T--G
* *
47689993 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47690041 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47690078 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 5, Indels: 22
0.81 0.04 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 66 0.58
47 29 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47690058 original size:93 final size:93
Alignment explanation
Indices: 47689899--47690069 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
47689889 GGATGGTTGA
* *
47689899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47689964 TGAGTCCGAGTTCGATAGATGTAACTAG
66 TGAGTCCGAGTTCGATAGATGTAACTAG
* *
47689992 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47690057 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47690070 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGATAGATGTAACTAG
Found at i:47706666 original size:18 final size:19
Alignment explanation
Indices: 47706643--47706678 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47706633 AACTTGGCAC
*
47706643 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
47706661 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
47706679 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:47707008 original size:30 final size:30
Alignment explanation
Indices: 47706974--47707034 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47706964 TCCTTAACTC
47706974 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
47707004 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
47707034 A
1 A
47707035 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:47710395 original size:55 final size:54
Alignment explanation
Indices: 47710205--47710459 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
47710195 ACACGGGTAC
* * * * * *
47710205 CTTACCATTGCAATGACTTGTCATGGTGTTACATGGTATCCTTG---T-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
47710254 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
47710307 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* *
47710362 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCC--ATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AA
* *
47710415 CCTTACCAATTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
47710460 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 39 0.23
52 3 0.02
53 49 0.28
54 8 0.05
55 72 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:47717727 original size:16 final size:16
Alignment explanation
Indices: 47717708--47717738 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47717698 CTTCTTCACT
47717708 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47717724 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47717739 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47717744 original size:20 final size:20
Alignment explanation
Indices: 47717705--47717744 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47717695 AAACTTCTTC
* *
47717705 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
47717725 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
47717745 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:47718125 original size:55 final size:53
Alignment explanation
Indices: 47717992--47718189 Score: 202
Period size: 55 Copynumber: 3.7 Consensus size: 53
47717982 AACTTACTTT
* *
47717992 TGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAA
* * * *
47718045 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAA
* * * *
47718100 TGCCATGTCTTGACATAGTCTTACATAGTATCCTTGCCTTA-GAAACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA
* * * *
47718154 TTGCCATGCCTTGGCATGGTCTTAGATGGTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
47718190 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 38 0.31
54 8 0.07
55 71 0.59
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAA
Found at i:47720371 original size:28 final size:28
Alignment explanation
Indices: 47720329--47720382 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
47720319 ATAGAGTCTG
47720329 GGGCCTGAGCCCATTACAGATT-CAGTTT
1 GGGCCTGAGCCCATT-CAGATTACAGTTT
* *
47720357 GGGCCTTAGCGCATTCAGATTACAGT
1 GGGCCTGAGCCCATTCAGATTACAGT
47720383 CTAAGATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (28 bp):
GGGCCTGAGCCCATTCAGATTACAGTTT
Found at i:47721083 original size:31 final size:31
Alignment explanation
Indices: 47721042--47721135 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
47721032 CCTGCGCGCA
*
47721042 CAGCCTAGCCTCATTGTTCACACGGCCGTGT
1 CAGCCTAGCCTCGTTGTTCACACGGCCGTGT
*
47721073 CAGCCCAGCCTCGTTGTTCACACGGCCGTGT
1 CAGCCTAGCCTCGTTGTTCACACGGCCGTGT
* * *
47721104 CAGCCTAGCCTCGTCGTTCACATGGTCGTGT
1 CAGCCTAGCCTCGTTGTTCACACGGCCGTGT
47721135 C
1 C
47721136 CCCTCACACG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.26
Consensus pattern (31 bp):
CAGCCTAGCCTCGTTGTTCACACGGCCGTGT
Found at i:47724699 original size:33 final size:33
Alignment explanation
Indices: 47724657--47724722 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
47724647 TCTCACATTT
**
47724657 TCCAAATTTTGTTATTTTTTATCCAAGCCTTAC
1 TCCAAATTTTGTTAAATTTTATCCAAGCCTTAC
47724690 TCCAAATTTTGTTAAATTTTATCCAAGCCTTAC
1 TCCAAATTTTGTTAAATTTTATCCAAGCCTTAC
47724723 CCTAGTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (33 bp):
TCCAAATTTTGTTAAATTTTATCCAAGCCTTAC
Found at i:47735340 original size:18 final size:18
Alignment explanation
Indices: 47735317--47735353 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47735307 ATTAAACTTA
47735317 AGCCTACTGAGCATGGTT
1 AGCCTACTGAGCATGGTT
47735335 AGCCTACTGAGCATGGTT
1 AGCCTACTGAGCATGGTT
47735353 A
1 A
47735354 AGGCTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (18 bp):
AGCCTACTGAGCATGGTT
Found at i:47742422 original size:19 final size:18
Alignment explanation
Indices: 47742398--47742433 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47742388 TTTCGTAAAA
47742398 ATATTTATTTTAATTTTTC
1 ATATTT-TTTTAATTTTTC
*
47742417 ATATTTTTTTTATTTTT
1 ATATTTTTTTAATTTTT
47742434 AAACTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
ATATTTTTTTAATTTTTC
Found at i:47742570 original size:17 final size:17
Alignment explanation
Indices: 47742548--47742583 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
47742538 TTAATTAACT
*
47742548 TTTCAAAATTTTAAAAA
1 TTTCAAAAGTTTAAAAA
47742565 TTTCAAAAGTTTAAAAA
1 TTTCAAAAGTTTAAAAA
47742582 TT
1 TT
47742584 AATAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
TTTCAAAAGTTTAAAAA
Found at i:47742972 original size:16 final size:16
Alignment explanation
Indices: 47742947--47742983 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47742937 ATATATTTTG
47742947 AGAGAATAAAGAAGAA
1 AGAGAATAAAGAAGAA
*
47742963 AGAGAGTAAAGAAGAA
1 AGAGAATAAAGAAGAA
47742979 A-AGAA
1 AGAGAA
47742984 ATAAGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (16 bp):
AGAGAATAAAGAAGAA
Found at i:47747570 original size:21 final size:22
Alignment explanation
Indices: 47747544--47747591 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
47747534 GTAAGGAGTA
* *
47747544 GCACATGGCCGTGTGG-CAGAG
1 GCACATGACCATGTGGACAGAG
47747565 GCACATGACCATGTGGTACAGAG
1 GCACATGACCATGTGG-ACAGAG
47747588 GCAC
1 GCAC
47747592 GGCCATGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (22 bp):
GCACATGACCATGTGGACAGAG
Found at i:47758539 original size:17 final size:17
Alignment explanation
Indices: 47758519--47758579 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
47758509 CATAAATAAG
47758519 ATTTTTATATAATTTTT
1 ATTTTTATATAATTTTT
* *
47758536 ATTTTTATGTATTCTTTT
1 ATTTTTATATAAT-TTTT
47758554 ATATTTTA-A-AATTTTAT
1 AT-TTTTATATAATTTT-T
*
47758571 ATATTTATA
1 ATTTTTATA
47758580 ATTTTCTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.20
17 17 0.49
18 6 0.17
19 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTTATATAATTTTT
Found at i:47758582 original size:16 final size:16
Alignment explanation
Indices: 47758550--47758590 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47758540 TTATGTATTC
47758550 TTTTATAT-TTTAAAA
1 TTTTATATATTTAAAA
*
47758565 TTTTATATATTTATAA
1 TTTTATATATTTAAAA
*
47758581 TTTTCTATAT
1 TTTTATATAT
47758591 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATATATTTAAAA
Found at i:47758844 original size:85 final size:84
Alignment explanation
Indices: 47758662--47758915 Score: 364
Period size: 84 Copynumber: 3.0 Consensus size: 84
47758652 AAAATTTGGT
* * * * *
47758662 CCAAATTGATAGAAAGTATAAAAGTTGAAGACTAAATTTAAAAAGGGTTACATGAGCGTTTTGTT
1 CCAAATTGATAGAAAGTATAAAAGTTGAGGACTAAATTTAAAAAGGGTTGCATCATCGTTATGTT
*
47758727 AGTCACTTAATGATTAGCG
66 AGTCACTTAATGATTAGGG
* * * * *
47758746 CCAAATTGATAGAAAGTATAAAAGTTGAGGTCTAAATTTAAAAAAGGGTCGTATCATCATTATAT
1 CCAAATTGATAGAAAGTATAAAAGTTGAGGACTAAATTT-AAAAAGGGTTGCATCATCGTTATGT
*
47758811 TAGTCACTTAATAATTAGGG
65 TAGTCACTTAATGATTAGGG
* *
47758831 CTAAATTGATAGAAAGTATAAAAGTTGAGGACTAAATTTAAAAAGGGTTGCATCATCGTTATGGT
1 CCAAATTGATAGAAAGTATAAAAGTTGAGGACTAAATTTAAAAAGGGTTGCATCATCGTTATGTT
*
47758896 AGTCACTTAAGGATTAGGG
66 AGTCACTTAATGATTAGGG
47758915 C
1 C
47758916 GATAAAAAGT
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
84 76 0.51
85 72 0.49
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (84 bp):
CCAAATTGATAGAAAGTATAAAAGTTGAGGACTAAATTTAAAAAGGGTTGCATCATCGTTATGTT
AGTCACTTAATGATTAGGG
Found at i:47763215 original size:44 final size:43
Alignment explanation
Indices: 47763143--47763256 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 43
47763133 TATGTGATAT
* *
47763143 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TTTGTTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGA-TGTTTG-ATTA
47763187 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATGTTTGATTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATGTTTGATTA
* *
47763230 CATGTAAGACCACGTATAGGACGTTGG
1 CGTGTAAGACCACGTCTAGGACGTTGG
47763257 AATTGTATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
42 1 0.02
43 26 0.43
44 33 0.54
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATGTTTGATTA
Found at i:47773295 original size:85 final size:85
Alignment explanation
Indices: 47773166--47773344 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
47773156 TATTTTATTG
*
47773166 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47773231 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47773251 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
47773316 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
47773336 CCCATGCTC
1 CCCATGCTC
47773345 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:47779671 original size:32 final size:32
Alignment explanation
Indices: 47779608--47779671 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
47779598 CATAAATAGA
* *
47779608 TTTCATAAGATACATAACATATGCATCAACTT
1 TTTCATAAAATACATAACATATCCATCAACTT
* *
47779640 TTTCATAAAAT-CATGAACATTTCCATTAACTT
1 TTTCATAAAATACAT-AACATATCCATCAACTT
47779672 ACTTACCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.38
Consensus pattern (32 bp):
TTTCATAAAATACATAACATATCCATCAACTT
Found at i:47783228 original size:15 final size:15
Alignment explanation
Indices: 47783208--47783264 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
47783198 TAGATTAGAT
47783208 AATTAAATAATTAAA
1 AATTAAATAATTAAA
* *
47783223 AATTAATTAAATAAA
1 AATTAAATAATTAAA
*
47783238 ATATTAAAATAATT-AG
1 A-ATT-AAATAATTAAA
47783254 AATT-AATAATT
1 AATTAAATAATT
47783265 TTAGGTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 7 0.20
15 17 0.49
16 5 0.14
17 6 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AATTAAATAATTAAA
Found at i:47783237 original size:23 final size:22
Alignment explanation
Indices: 47783211--47783264 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
47783201 ATTAGATAAT
47783211 TAAATAATTAAAAATTAATTA-AA
1 TAAATAATT-AAAA-TAATTAGAA
47783234 TAAA-ATATTAAAATAATTAGAA
1 TAAATA-ATTAAAATAATTAGAA
*
47783256 TTAATAATT
1 TAAATAATT
47783265 TTAGGTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAATAATTAAAATAATTAGAA
Found at i:47786298 original size:17 final size:16
Alignment explanation
Indices: 47786256--47786298 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
47786246 TCTCTCCCTC
47786256 AACTAAAATAAAAATA
1 AACTAAAATAAAAATA
47786272 AACTAGAAATAAAATAATA
1 AACTA-AAAT-AAA-AATA
47786291 AAC-AAAAT
1 AACTAAAAT
47786299 CTACTATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 4 0.17
19 7 0.29
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (16 bp):
AACTAAAATAAAAATA
Found at i:47797141 original size:13 final size:13
Alignment explanation
Indices: 47797103--47797144 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
47797093 AGAAACCACA
* *
47797103 TGCCCATGTGGCA
1 TGCCCGTGTGGCG
*
47797116 TGCCCGTATGGCG
1 TGCCCGTGTGGCG
47797129 TGCCCGTGTGGCG
1 TGCCCGTGTGGCG
47797142 TGC
1 TGC
47797145 ACCACACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.07, C:0.31, G:0.38, T:0.24
Consensus pattern (13 bp):
TGCCCGTGTGGCG
Found at i:47802820 original size:27 final size:27
Alignment explanation
Indices: 47802789--47802966 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47802779 TAAATTGTAC
47802789 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47802816 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47802842 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47802870 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47802898 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47802925 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47802952 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47802967 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47802903 original size:82 final size:81
Alignment explanation
Indices: 47802790--47802945 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47802780 AAATTGTACA
* *
47802790 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47802854 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47802871 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47802936 TGCGAGTTGA
65 TGCGAATTGA
47802946 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47802957 original size:82 final size:81
Alignment explanation
Indices: 47802786--47802966 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47802776 GATTAAATTG
* *
47802786 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47802851 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47802867 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47802931 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47802949 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47802967 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47806203 original size:24 final size:25
Alignment explanation
Indices: 47806152--47806206 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
47806142 TTAGATAGTA
*
47806152 CTATCTATAGTGTTTTCAAAATATG
1 CTATCTATAGTGTTTTCAAAATAAG
*
47806177 CTATCTATAGT-TTTTCAAATTAAG
1 CTATCTATAGTGTTTTCAAAATAAG
47806201 CTATCT
1 CTATCT
47806207 GAGTTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 17 0.61
25 11 0.39
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (25 bp):
CTATCTATAGTGTTTTCAAAATAAG
Found at i:47806211 original size:23 final size:24
Alignment explanation
Indices: 47806152--47806213 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
47806142 TTAGATAGTA
* *
47806152 CTATCTATAGTGTTTTCAAAATATG
1 CTATCTAGAGT-TTTTCAAAATAAG
* *
47806177 CTATCTATAGTTTTTCAAATTAAG
1 CTATCTAGAGTTTTTCAAAATAAG
47806201 CTATCT-GAGTTTT
1 CTATCTAGAGTTTT
47806214 AGAATACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 6 0.18
24 17 0.50
25 11 0.32
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (24 bp):
CTATCTAGAGTTTTTCAAAATAAG
Found at i:47806947 original size:12 final size:12
Alignment explanation
Indices: 47806930--47806954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47806920 CTAAGCCCAT
47806930 TACAGATGCAGA
1 TACAGATGCAGA
47806942 TACAGATGCAGA
1 TACAGATGCAGA
47806954 T
1 T
47806955 TCGAGCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (12 bp):
TACAGATGCAGA
Found at i:47809634 original size:24 final size:24
Alignment explanation
Indices: 47809606--47809651 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
47809596 TAAGGTTAGG
47809606 GTTTAGTGGTTTGAG-GTTTTTAAA
1 GTTTAG-GGTTTGAGTGTTTTTAAA
*
47809630 GTTTAGGGTTTTAGTGTTTTTA
1 GTTTAGGGTTTGAGTGTTTTTA
47809652 GGAGAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.54
Consensus pattern (24 bp):
GTTTAGGGTTTGAGTGTTTTTAAA
Found at i:47809812 original size:15 final size:15
Alignment explanation
Indices: 47809763--47809814 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
47809753 GGTTTTGATT
47809763 GTTTTAGGG-TTAA-
1 GTTTTAGGGTTTAAG
* *
47809776 GTTTTAATGGTTTAGGG
1 GTTTT-AGGGTTTA-AG
47809793 GTTTTAGGGTTTAAG
1 GTTTTAGGGTTTAAG
47809808 GTTTTAG
1 GTTTTAG
47809815 TATTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 5 0.16
14 3 0.10
15 11 0.35
16 7 0.23
17 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (15 bp):
GTTTTAGGGTTTAAG
Found at i:47809931 original size:157 final size:158
Alignment explanation
Indices: 47809678--47809993 Score: 483
Period size: 157 Copynumber: 2.0 Consensus size: 158
47809668 ATTAGAGTTG
47809678 AGGGTTAATTAATTAAATTAACTATGAAATTTAAAAAATAAATTAAATTAGGGTTTAAGGTTTTT
1 AGGGTTAATTAATTAAATTAACTATGAAATTTAAAAAATAAATTAAATTAGGGTTTAAGGTTTTT
* * * * *
47809743 TATGATTAGGGGTTTTGATTGTTTTAGGGTTAAGTTTTAATGGTTTAGGGGTTTTAGGGTTTAAG
66 TATGATTAGGGGTTTTAATTGGTTTAAGGTTAAGGTTTAATGGTTTAGGGGTTTTAAGGTTTAAG
47809808 GTTTTAGTATTTTTTAAGGGAAAAATTA
131 GTTTTAGTATTTTTTAAGGGAAAAATTA
* *
47809836 AGGGTTAATTAATTAAATTAACTATGAAA-TTAAAAAATCAATTAAATTAGGGTTTAGGGTTTTT
1 AGGGTTAATTAATTAAATTAACTATGAAATTTAAAAAATAAATTAAATTAGGGTTTAAGGTTTTT
* * * * * *
47809900 T-TGGGTTAGGGTTTTTAATTGGTTTAAGGTTAGGGTTTAGTGGTTTAGGGTTTTTAAGGTTTAG
66 TAT-GATTAGGGGTTTTAATTGGTTTAAGGTTAAGGTTTAATGGTTTAGGGGTTTTAAGGTTTAA
*
47809964 GGTTTTAGTGTTTTTTAAGGGAAAAATTA
130 GGTTTTAGTATTTTTTAAGGGAAAAATTA
47809993 A
1 A
47809994 TTTAATTAGA
Statistics
Matches: 143, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
156 1 0.01
157 113 0.79
158 29 0.20
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (158 bp):
AGGGTTAATTAATTAAATTAACTATGAAATTTAAAAAATAAATTAAATTAGGGTTTAAGGTTTTT
TATGATTAGGGGTTTTAATTGGTTTAAGGTTAAGGTTTAATGGTTTAGGGGTTTTAAGGTTTAAG
GTTTTAGTATTTTTTAAGGGAAAAATTA
Found at i:47809960 original size:24 final size:25
Alignment explanation
Indices: 47809933--47809983 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
47809923 TTAAGGTTAG
47809933 GGTTTAGTGG-TTTAG-GGTTTTTAA
1 GGTTTAG-GGTTTTAGTGGTTTTTAA
*
47809957 GGTTTAGGGTTTTAGTGTTTTTTAA
1 GGTTTAGGGTTTTAGTGGTTTTTAA
47809982 GG
1 GG
47809984 GAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 2 0.08
24 12 0.50
25 10 0.42
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (25 bp):
GGTTTAGGGTTTTAGTGGTTTTTAA
Found at i:47809962 original size:16 final size:16
Alignment explanation
Indices: 47809886--47809969 Score: 60
Period size: 16 Copynumber: 4.8 Consensus size: 16
47809876 ATTAAATTAG
**
47809886 GGTTTAGGGTTTTTTT
1 GGTTTAGGGTTTTTAA
*
47809902 GGGTTAGGGTTTTTAA
1 GGTTTAGGGTTTTTAA
* *
47809918 TTGGTTTAAGGTTAGGGTTTAGT
1 --GGTTTAGGGTT----TTTA-A
47809941 GGTTTAGGGTTTTTAA
1 GGTTTAGGGTTTTTAA
47809957 GGTTTAGGGTTTT
1 GGTTTAGGGTTTT
47809970 AGTGTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
16 26 0.49
17 4 0.08
18 9 0.17
21 10 0.19
22 4 0.08
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (16 bp):
GGTTTAGGGTTTTTAA
Found at i:47809969 original size:15 final size:15
Alignment explanation
Indices: 47809922--47809970 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
47809912 TTTTAATTGG
47809922 TTTAAGG-TTAGGG-
1 TTTAAGGTTTAGGGT
*
47809935 TTTAGTGGTTTAGGGTT
1 TTTA-AGGTTTAGGG-T
47809952 TTTAAGGTTTAGGGT
1 TTTAAGGTTTAGGGT
47809967 TTTA
1 TTTA
47809971 GTGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.13
14 2 0.07
15 11 0.37
16 9 0.30
17 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (15 bp):
TTTAAGGTTTAGGGT
Found at i:47809976 original size:15 final size:15
Alignment explanation
Indices: 47809929--47809976 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
47809919 TGGTTTAAGG
47809929 TTAGGG-TTTAGTGGT
1 TTAGGGTTTTAGT-GT
47809944 TTAGGGTTTTTAAG-GT
1 TTAGGG-TTTT-AGTGT
47809960 TTAGGGTTTTAGTGT
1 TTAGGGTTTTAGTGT
47809975 TT
1 TT
47809977 TTTAAGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.07
15 14 0.48
16 8 0.28
17 3 0.10
18 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAGTGT
Found at i:47810101 original size:56 final size:56
Alignment explanation
Indices: 47809984--47810101 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
47809974 TTTTTTAAGG
* * *
47809984 GAAAAATTAATTTAATTAGAGTTGAGGATTAATTAATTAAATTAACTATGAAATTA
1 GAAAAATCAATTAAATTAGAGTTGAAGATTAATTAATTAAATTAACTATGAAATTA
* * * * *
47810040 AAAAAATCAATTAAATTAGGGTTTAAGATTTATTAATTAAATTAACTAT-TAATTA
1 GAAAAATCAATTAAATTAGAGTTGAAGATTAATTAATTAAATTAACTATGAAATTA
47810095 CGAAAAA
1 -GAAAAA
47810102 AGCTCCCACG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 5 0.10
56 47 0.90
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.36
Consensus pattern (56 bp):
GAAAAATCAATTAAATTAGAGTTGAAGATTAATTAATTAAATTAACTATGAAATTA
Found at i:47810251 original size:126 final size:125
Alignment explanation
Indices: 47810090--47810395 Score: 440
Period size: 126 Copynumber: 2.5 Consensus size: 125
47810080 ATTAACTATT
*
47810090 AATTAC-GAAAAAAGCTCCCACGTGGATGCTTTTTTGCTACAGTAGTATCTGAAAAAGTAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGC-TTTTTGCTACAGTAGTATCTGAAAAAGTAATTTT
* * * *
47810154 GAAAAGATGTTTTTGAACAAATAGTATCAAAAACGCTTCAAGAAGGATGCACTATTAATAA
65 GAAAAGATATTTCTGAACAAATAGTATCAAAAACGCTTCAAGAAGGATGCACTATCAACAA
* *
47810215 AATTACGGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCT-TTTTGCTACAGTAGTATCTGAAAAAGTAATTTT
* * * *
47810280 GAGAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
65 GAAAAGATATTTCTGAACAAATAGTATCAAAAACGCTTCAAGAAGGATGCACTATCAACAA
* *
47810341 AATTACGG---AAAGCTCCCACGTGGACACATTTTTTCTACAGTAGTATCTGAAAAAG
1 AATTACGGAAAAAAGCTCCCACGTGGACGC-TTTTTGCTACAGTAGTATCTGAAAAAG
47810396 CCTTAGACTA
Statistics
Matches: 163, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
123 41 0.25
124 1 0.01
125 7 0.04
126 114 0.70
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (125 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTTTTTGCTACAGTAGTATCTGAAAAAGTAATTTTG
AAAAGATATTTCTGAACAAATAGTATCAAAAACGCTTCAAGAAGGATGCACTATCAACAA
Found at i:47823396 original size:40 final size:39
Alignment explanation
Indices: 47823359--47823450 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
47823349 GCTACTCGTT
*
47823359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
47823399 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
47823438 CAAATGCCTTCGG
1 CAAATGCCTTCGG
47823451 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:47823430 original size:39 final size:40
Alignment explanation
Indices: 47823340--47823503 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
47823330 CGGAATTTAA
** *
47823340 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
47823380 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47823419 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47823459 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47823499 CCGGA
1 CCGGA
47823504 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47825981 original size:129 final size:129
Alignment explanation
Indices: 47825592--47825967 Score: 718
Period size: 129 Copynumber: 2.9 Consensus size: 129
47825582 ACATTTATTT
47825592 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAA
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAA
47825657 AATTAAAATATCAAAAATTACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
65 AATTAAAATATCAAAAATTACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
47825722 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAAA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAAA
47825787 ATTAAAATATCAAAAATTACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
66 ATTAAAATATCAAAAATTACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
47825851 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAAA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAAA
*
47825916 ATTAAAATATCAAAAATTACTTTTATTTTATT-ATATGAAACTATATAAAAAA
66 ATTAAAATATCAAAAATTACTTTTATTTTATTAAT-TAAAACTATATAAAAAA
47825968 AGTTTATACA
Statistics
Matches: 244, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
128 2 0.01
129 233 0.95
130 9 0.04
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.36
Consensus pattern (129 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAAA
ATTAAAATATCAAAAATTACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
Found at i:47826400 original size:18 final size:18
Alignment explanation
Indices: 47826374--47826416 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
47826364 GACTAGGAAA
* *
47826374 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
47826392 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
47826410 AGGATAC
1 AGGATAC
47826417 GCACCTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:47828262 original size:20 final size:22
Alignment explanation
Indices: 47828233--47828274 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
47828223 CTTTAACAAA
47828233 AATTGAGAGA-AATT-TGAGAG
1 AATTGAGAGAGAATTGTGAGAG
*
47828253 AATTGTGAGAGAATTGTGAGAG
1 AATTGAGAGAGAATTGTGAGAG
47828275 GACTATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (22 bp):
AATTGAGAGAGAATTGTGAGAG
Found at i:47828284 original size:14 final size:11
Alignment explanation
Indices: 47828236--47828274 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
47828226 TAACAAAAAT
47828236 TGAGAGAAATT-
1 TGAGAG-AATTG
47828247 TGAGAGAATTG
1 TGAGAGAATTG
47828258 TGAGAGAATTG
1 TGAGAGAATTG
47828269 TGAGAG
1 TGAGAG
47828275 GACTATTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (11 bp):
TGAGAGAATTG
Found at i:47828982 original size:66 final size:66
Alignment explanation
Indices: 47828876--47829168 Score: 435
Period size: 66 Copynumber: 4.4 Consensus size: 66
47828866 GAGATGGAGT
* * * *
47828876 TGGAGCCCAAGGGTCAGATGGTGTTGTTGGCACAGAAGGTGTAGCTGGTGTCCATGGTGCAGGGC
1 TGGAGCCCAAGGTTCAGATGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAGGGTGCAGGGC
47828941 C
66 C
* * * *
47828942 TGGAGCCCAAGGTTGAGATGGTGTTGCTGGCACAGTAGGTGTAGTTGGTGCCCAAGGTGCAGGGC
1 TGGAGCCCAAGGTTCAGATGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAGGGTGCAGGGC
47829007 C
66 C
* *
47829008 TGGAGCCCAAGGTTCAGATTGTGTTGCTGGCACAGAAGTTGTAG-TCGGTGCCCAGGGTGCAGGG
1 TGGAGCCCAAGGTTCAGATGGTGTTGCTGGCACAGAAGGTGTAGCT-GGTGCCCAGGGTGCAGGG
*
47829072 GC
65 CC
* * *
47829074 TGGAGCCCAAGGTTCATATGGTGTTGCTGGCACAGAAGGTGTAGCCGGTGCCCAGGGTGCAGGGG
1 TGGAGCCCAAGGTTCAGATGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAGGGTGCAGGGC
47829139 C
66 C
*
47829140 TGGAGCCCAAGGTTCATATGGTGTTGCTG
1 TGGAGCCCAAGGTTCAGATGGTGTTGCTG
47829169 CTACTGCTGA
Statistics
Matches: 208, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
65 1 0.00
66 207 1.00
ACGTcount: A:0.18, C:0.19, G:0.40, T:0.23
Consensus pattern (66 bp):
TGGAGCCCAAGGTTCAGATGGTGTTGCTGGCACAGAAGGTGTAGCTGGTGCCCAGGGTGCAGGGC
C
Found at i:47829247 original size:48 final size:48
Alignment explanation
Indices: 47829195--47829295 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
47829185 GGATGGTGCC
* *
47829195 GAAGGTGCAGGAGCTGGAGTCCAAGGTTGAATTGGTGTTGTAGGCATT
1 GAAGGTGCAGGAGCTGGAGCCCAAGGTTGAATTGGTGTTGTAGGCACT
* * * *
47829243 GAAGGTGCAGGAGTTGGAGCCCAATGTTTAGTTGGTGTTGTAGGCACT
1 GAAGGTGCAGGAGCTGGAGCCCAAGGTTGAATTGGTGTTGTAGGCACT
47829291 GAAGG
1 GAAGG
47829296 AGTGACGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.11, G:0.40, T:0.27
Consensus pattern (48 bp):
GAAGGTGCAGGAGCTGGAGCCCAAGGTTGAATTGGTGTTGTAGGCACT
Found at i:47830569 original size:14 final size:13
Alignment explanation
Indices: 47830532--47830578 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
47830522 ATGATATATC
47830532 TAATA-TATATTT
1 TAATATTATATTT
*
47830544 AAAATATTATATTT
1 -TAATATTATATTT
*
47830558 TTATATTGATATTT
1 TAATATT-ATATTT
47830572 TAATATT
1 TAATATT
47830579 TTAATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:47832779 original size:16 final size:18
Alignment explanation
Indices: 47832758--47832795 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47832748 TTCCATATGG
47832758 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
47832774 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
47832792 ATTT
1 ATTT
47832796 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:47840094 original size:16 final size:18
Alignment explanation
Indices: 47840073--47840110 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47840063 TTCTATATGG
47840073 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
47840089 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
47840107 ATTT
1 ATTT
47840111 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:47843228 original size:15 final size:15
Alignment explanation
Indices: 47843208--47843236 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47843198 TTAAAATTTC
47843208 ATCACAAATGGTGGG
1 ATCACAAATGGTGGG
47843223 ATCACAAATGGTGG
1 ATCACAAATGGTGG
47843237 AACTAACTCC
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:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (15 bp):
ATCACAAATGGTGGG
Found at i:47848482 original size:15 final size:15
Alignment explanation
Indices: 47848464--47848511 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
47848454 AGATAGTATC
47848464 TTATCTTGGGTTTCT
1 TTATCTTGGGTTTCT
47848479 TTAT-TCTGGGTTTCT
1 TTATCT-TGGGTTTCT
* **
47848494 CTATCTTGAATTTCT
1 TTATCTTGGGTTTCT
47848509 TTA
1 TTA
47848512 CTCAGTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TTATCTTGGGTTTCT
Found at i:47853546 original size:71 final size:71
Alignment explanation
Indices: 47853433--47853673 Score: 243
Period size: 71 Copynumber: 3.4 Consensus size: 71
47853423 CATAACTAAG
* * ** * * * * * *
47853433 TTTTGCGCCTAGTGCTAGTCAGATAACCAGACCATAGGTGTGCCTTGCACTAATCGGATAAACCG
1 TTTTGTGCCCAGTGCTAGTTGGATAAACTGACGATAGGTGTGCCCTGCACTAGTCAGATAAACCG
47853498 ACAATA
66 ACAATA
* * * * * *
47853504 TTTTGTACCCAGCGCTAGTTGGATAAA-TAGATGATAGATGTGCCCTACACTAGTCTGATAAACC
1 TTTTGTGCCCAGTGCTAGTTGGATAAACT-GACGATAGGTGTGCCCTGCACTAGTCAGATAAACC
* *
47853568 GAAAATG
65 GACAATA
* * * *
47853575 TTTTGCGCCCAGTGCTAGTCGGATAAACTGACGATAGGTGTGCCCTGCACTAGTCAGATAAATCT
1 TTTTGTGCCCAGTGCTAGTTGGATAAACTGACGATAGGTGTGCCCTGCACTAGTCAGATAAACCG
47853640 ACAATGA
66 ACAAT-A
*
47853647 -TTTGTGCCCAGTACTAGTTGGATAAAC
1 TTTTGTGCCCAGTGCTAGTTGGATAAAC
47853674 CGACAAATAC
Statistics
Matches: 135, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
71 134 0.99
72 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (71 bp):
TTTTGTGCCCAGTGCTAGTTGGATAAACTGACGATAGGTGTGCCCTGCACTAGTCAGATAAACCG
ACAATA
Found at i:47853663 original size:36 final size:35
Alignment explanation
Indices: 47853552--47853673 Score: 84
Period size: 36 Copynumber: 3.4 Consensus size: 35
47853542 TGTGCCCTAC
* * * * *
47853552 ACTAGTCTGATAAACCGAAAATGTTTTGCGCCCAGT
1 ACTAGTCAGATAAA-CTACAATGATTTGTGCCCAGT
* * * ** * *
47853588 GCTAGTCGGATAAACTGACGAT-AGGTGTGCCCTGC
1 ACTAGTCAGATAAACT-ACAATGATTTGTGCCCAGT
47853623 ACTAGTCAGATAAATCTACAATGATTTGTGCCCAGT
1 ACTAGTCAGATAAA-CTACAATGATTTGTGCCCAGT
**
47853659 ACTAGTTGGATAAAC
1 ACTAGTCAGATAAAC
47853674 CGACAAATAC
Statistics
Matches: 63, Mismatches: 20, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
35 25 0.40
36 38 0.60
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (35 bp):
ACTAGTCAGATAAACTACAATGATTTGTGCCCAGT
Found at i:47859722 original size:30 final size:30
Alignment explanation
Indices: 47859678--47859766 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
47859668 CAAAGATAAC
47859678 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
47859707 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
47859737 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47859767 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47859726 original size:15 final size:15
Alignment explanation
Indices: 47859678--47859757 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
47859668 CAAAGATAAC
*
47859678 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47859692 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47859707 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
47859722 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47859737 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47859752 AAGAAA
1 AAGAAA
47859758 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47859766 original size:15 final size:15
Alignment explanation
Indices: 47859689--47859766 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
47859679 AGAAAACCGA
47859689 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47859704 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47859718 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47859733 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47859749 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47859764 ATA
1 ATA
47859767 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47862275 original size:46 final size:46
Alignment explanation
Indices: 47862199--47862326 Score: 202
Period size: 46 Copynumber: 2.8 Consensus size: 46
47862189 TGTAACCCGC
* * *
47862199 CCATAAGCGAACTCGGACTCAACTCGACGAGCTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
47862245 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
47862291 CCATAAGTGAACTCGGACTCAACTCAACCAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
47862327 ATGCCTAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:47867063 original size:46 final size:45
Alignment explanation
Indices: 47867013--47867180 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 45
47867003 ACGTTTAGCT
* *
47867013 GATGCATGTTCCAGACATGTCTTACACTGGCTTACGTCTCCAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAAGGCC
* * *
47867059 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCAAGGCC
47867105 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TC-TCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-TCAA---GGCC
47867153 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
47867181 AGCTCACACA
Statistics
Matches: 108, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
45 4 0.04
46 56 0.52
47 29 0.27
48 19 0.18
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAAGGCC
Found at i:47867138 original size:94 final size:92
Alignment explanation
Indices: 47866865--47867183 Score: 249
Period size: 94 Copynumber: 3.4 Consensus size: 92
47866855 GGGATAAGAT
* * * *
47866865 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAC-CATCATCGA-GACCAATGCCATGTC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTC-TCAATG-CCGATG-CATGTC
* * *
47866928 CCAGACATGGTCTTATACTAGCTCTCGCAT-ATCTG
60 CCAGACAT-GTCTTACACTGGCTCT--CATAATCAG
* * * * * * * * *
47866963 TGTCGATGCCATGTCCCAAACATAGTCTTGCACAAACACAACGT-T-TA-GCTGATGCATGTTCC
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCAATGCCGATGCATGTCCC
* *
47867025 AGACATGTCTTACACTGGCT-TACGT-CTCCAG
62 AGACATGTCTTACACTGGCTCT-CATAAT-CAG
47867056 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG-CATGTCCCAGA
**
47867121 CATGGTCTTACACTGGCTCTCATAATGTG
65 CAT-GTCTTACACTGGCTCTCATAATCAG
47867150 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
47867184 TCACACAAGT
Statistics
Matches: 179, Mismatches: 31, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
89 3 0.02
90 13 0.07
91 14 0.08
92 15 0.08
93 16 0.09
94 63 0.35
95 15 0.08
96 4 0.02
97 2 0.01
98 3 0.02
99 29 0.16
100 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTCTCATAATCAG
Found at i:47869361 original size:15 final size:15
Alignment explanation
Indices: 47869336--47869372 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
47869326 TCGTGTCCAA
47869336 CTCCTTCTTGACCAG
1 CTCCTTCTTGACCAG
*
47869351 CTCCTTTTTGACCAG
1 CTCCTTCTTGACCAG
*
47869366 TTCCTTC
1 CTCCTTC
47869373 ATTGTTAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.38, G:0.11, T:0.41
Consensus pattern (15 bp):
CTCCTTCTTGACCAG
Found at i:47870990 original size:16 final size:16
Alignment explanation
Indices: 47870937--47870989 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
47870927 ATTAAATAAT
47870937 TAAAATAAATAAATGA
1 TAAAATAAATAAATGA
*
47870953 TAAAATAAATAAACGA
1 TAAAATAAATAAATGA
*
47870969 TAAAATAAACAAATGA
1 TAAAATAAATAAATGA
47870985 CTAAA
1 -TAAA
47870990 TTGATAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAATAAATAAATGA
Found at i:47873934 original size:94 final size:94
Alignment explanation
Indices: 47873758--47873935 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 94
47873748 GAGGTTTAAG
* *
47873758 GTGTAAGACCATAGCTCGACTATGGCAACATACAGAGTTCGTTGGGATAATAAACATAGGGAAGT
1 GTGTAAGACCATAGCTCGACTATGGCAACATAAAGAGTTCGTTGGGATAATAAACATAGAGAAGT
* *
47873823 CTGCCATGACATTAAACATAGGGTCACAT
66 CTGCCAAGACATAAAACATAGGGTCACAT
* * *
47873852 GTGTAAGACCATAGCTTGACTATGGCAACATAAAGAG-TCTGTTGGGATAGTAAACA-CGAGATA
1 GTGTAAGACCATAGCTCGACTATGGCAACATAAAGAGTTC-GTTGGGATAATAAACATAGAGA-A
* *
47873915 GTCTGTCAAGACGTAAAACAT
64 GTCTGCCAAGACATAAAACAT
47873936 GGGATTACAC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 5 0.07
94 68 0.93
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (94 bp):
GTGTAAGACCATAGCTCGACTATGGCAACATAAAGAGTTCGTTGGGATAATAAACATAGAGAAGT
CTGCCAAGACATAAAACATAGGGTCACAT
Found at i:47875947 original size:17 final size:17
Alignment explanation
Indices: 47875925--47875957 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47875915 GCTACTGCCT
47875925 TTTAACTTGTTTAATTA
1 TTTAACTTGTTTAATTA
47875942 TTTAACTTGTTTAATT
1 TTTAACTTGTTTAATT
47875958 TTTCTTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTAACTTGTTTAATTA
Found at i:47879794 original size:17 final size:17
Alignment explanation
Indices: 47879772--47879805 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47879762 TGCTACAGCC
47879772 ATTTAACTTGTTTAATT
1 ATTTAACTTGTTTAATT
47879789 ATTTAACTTGTTTAATT
1 ATTTAACTTGTTTAATT
47879806 GTGCTTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTAACTTGTTTAATT
Found at i:47882640 original size:19 final size:19
Alignment explanation
Indices: 47882616--47882656 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
47882606 AATTTACTCT
* *
47882616 ATTTAATATATAAAGATTA
1 ATTTAACATATAAAAATTA
47882635 ATTTAACATATAAAAATTA
1 ATTTAACATATAAAAATTA
47882654 ATT
1 ATT
47882657 ATCCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTTAACATATAAAAATTA
Found at i:47887370 original size:23 final size:23
Alignment explanation
Indices: 47887342--47887388 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47887332 GAGCACCCAT
47887342 TTGAACATAAACAGTTATGAACA
1 TTGAACATAAACAGTTATGAACA
47887365 TTGAACATAAACAGTTATGAACA
1 TTGAACATAAACAGTTATGAACA
47887388 T
1 T
47887389 AGTTTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (23 bp):
TTGAACATAAACAGTTATGAACA
Done.