Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 174 of 255
Found at i:57303090 original size:2 final size:2
Alignment explanation
Indices: 57303083--57303109 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57303073 TATTTCAGTT
57303083 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
57303110 TGCGCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:57306897 original size:37 final size:37
Alignment explanation
Indices: 57306842--57306913 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
57306832 AAGTGTTAAA
* * *
57306842 TGTAGATAGAGAGTTTCTTATGGTTTGGAATTTAGTT
1 TGTAGACAGAGAGTTTCTTATAGTTTAGAATTTAGTT
*
57306879 TGTAGACAGAGAAG-TTCTTATAGTTTAGAGTTTAG
1 TGTAGACAGAG-AGTTTCTTATAGTTTAGAATTTAG
57306914 GGTTTTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.93
38 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (37 bp):
TGTAGACAGAGAGTTTCTTATAGTTTAGAATTTAGTT
Found at i:57308807 original size:23 final size:25
Alignment explanation
Indices: 57308781--57308828 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
57308771 TAAATTTTAT
57308781 CAGTTTAAAATTT-AA-TTATTAAA
1 CAGTTTAAAATTTCAATTTATTAAA
**
57308804 CAGTTTATTATTTCAATTTATTAAA
1 CAGTTTAAAATTTCAATTTATTAAA
57308829 GATGCACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
CAGTTTAAAATTTCAATTTATTAAA
Found at i:57309149 original size:30 final size:32
Alignment explanation
Indices: 57309082--57309154 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
57309072 TTTAAAAAAA
* *
57309082 TAAAAAAATTATAAAAATTATTTTCAAAAATT
1 TAAAAAAATAATAAAAATAATTTTCAAAAATT
**
57309114 T--AAAAATAATAAAAATAATTTT-AAATTTT
1 TAAAAAAATAATAAAAATAATTTTCAAAAATT
57309143 TAAAAAAATAAT
1 TAAAAAAATAAT
57309155 TAATTGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.17
30 19 0.54
31 9 0.26
32 1 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (32 bp):
TAAAAAAATAATAAAAATAATTTTCAAAAATT
Found at i:57309290 original size:10 final size:10
Alignment explanation
Indices: 57309275--57309299 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57309265 GTTTAAAAAT
57309275 TAAAATTAAA
1 TAAAATTAAA
57309285 TAAAATTAAA
1 TAAAATTAAA
57309295 TAAAA
1 TAAAA
57309300 GACTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATTAAA
Found at i:57309761 original size:2 final size:2
Alignment explanation
Indices: 57309754--57309784 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57309744 CTCCTCTTGT
57309754 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
57309785 AAAAGAGGAT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:57313999 original size:22 final size:22
Alignment explanation
Indices: 57313951--57314001 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
57313941 ATCTAGTAAC
**
57313951 AAATTATGTAATTTTTTAAAAA
1 AAATTATGTAATTTTAAAAAAA
*
57313973 TAATTATGTAA-TTTAAAATAAA
1 AAATTATGTAATTTTAAAA-AAA
57313995 AAATTAT
1 AAATTAT
57314002 TTAAAAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATTATGTAATTTTAAAAAAA
Found at i:57318515 original size:26 final size:26
Alignment explanation
Indices: 57318444--57318528 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
57318434 CATTAGGGTA
* *
57318444 TAGCAGGCTTTGTACCGGTGTATATT
1 TAGCAGGCTTTGTGCTGGTGTATATT
* *
57318470 TAGTAGGCTTTGAG-TCGGTGTATATT
1 TAGCAGGCTTTGTGCT-GGTGTATATT
*
57318496 TAGCAGGCTTTGTGCTGGTGTTTTATT
1 TAGCAGGCTTTGTGCTGGTG-TATATT
57318523 TAGCAG
1 TAGCAG
57318529 TACTATGCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
26 37 0.76
27 12 0.24
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (26 bp):
TAGCAGGCTTTGTGCTGGTGTATATT
Found at i:57324547 original size:45 final size:45
Alignment explanation
Indices: 57324483--57324573 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
57324473 CTAGGAATTT
* *
57324483 AGAAATCCGAGCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTTGTGATATATGTG
* *
57324528 AGAAATTCGAACTTGTTGAGCTGGTCCAAGTTTGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTTGTGATATATGTG
57324573 A
1 A
57324574 AGCATCTGCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.34
Consensus pattern (45 bp):
AGAAATCCGAACTCGTTGAGCTGGTCCAAGTTTGTGATATATGTG
Found at i:57324604 original size:45 final size:43
Alignment explanation
Indices: 57324493--57324597 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 43
57324483 AGAAATCCGA
57324493 GCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTGAGAAATTC
1 GCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTGAGAAATTC
* * *
57324536 GAACTTGTTGAGCTGGTCCAAGTTTGTGATATATGTGA-AGCATCTGC
1 G--CTCGTTGAGTTGGTCCAAGTTTGTGATATATGTGAGA-AAT-T-C
57324583 GCTCGTTGAGTTGGT
1 GCTCGTTGAGTTGGT
57324598 ATAAGTTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 47 0.90
46 1 0.02
47 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.36
Consensus pattern (43 bp):
GCTCGTTGAGTTGGTCCAAGTTTGTGATATATGTGAGAAATTC
Found at i:57324682 original size:52 final size:52
Alignment explanation
Indices: 57324613--57324720 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
57324603 TTCATTATGA
* * *
57324613 ATGTGAGCATCCGAGCTCACTGAGTTTATCCGAGTTTATTATGGATGTGATGC
1 ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGT-ATAC
* ** * *
57324666 ATGTGA-CATCTGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATGTATAC
1 ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGTATAC
57324717 ATGT
1 ATGT
57324721 TATGAGGTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 7 0.15
52 34 0.72
53 6 0.13
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (52 bp):
ATGTGAGCATCCGAGCTCACTGAGTTGATCCGAGTTCATTATGGATGTATAC
Found at i:57347096 original size:27 final size:26
Alignment explanation
Indices: 57347065--57347242 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
57347055 TAAATTGTAC
57347065 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
57347092 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
57347118 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
57347146 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
57347174 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
57347201 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
57347228 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57347243 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:57347181 original size:82 final size:81
Alignment explanation
Indices: 57347066--57347221 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
57347056 AAATTGTACA
* *
57347066 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57347130 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
57347147 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57347212 TGCGAGTTGA
65 TGCGAATTGA
57347222 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57347233 original size:82 final size:81
Alignment explanation
Indices: 57347062--57347242 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
57347052 GATTAAATTG
* *
57347062 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57347127 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
57347143 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57347207 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57347225 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57347243 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57347253 original size:27 final size:27
Alignment explanation
Indices: 57347147--57347253 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
57347137 TGACCATGCG
* * * *
57347147 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
57347175 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
57347202 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
57347229 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
57347254 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:57354016 original size:21 final size:20
Alignment explanation
Indices: 57353965--57354016 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
57353955 AAATTCAAAT
* *
57353965 TAAAATACTAAAATTTAGGA
1 TAAAATACTGAAATTTAAGA
*
57353985 TAAAATTCTGAAATTTAAGA
1 TAAAATACTGAAATTTAAGA
57354005 TAAAAATACTGA
1 T-AAAATACTGA
57354017 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (20 bp):
TAAAATACTGAAATTTAAGA
Found at i:57360679 original size:23 final size:23
Alignment explanation
Indices: 57360653--57360699 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57360643 CATTCTATTT
*
57360653 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
57360676 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
57360699 T
1 T
57360700 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:57362239 original size:15 final size:15
Alignment explanation
Indices: 57362219--57362253 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57362209 TCACTAACCA
*
57362219 ATACTTTTCTCGTTT
1 ATACTTTTCTCATTT
57362234 ATACTTTTCTCATTT
1 ATACTTTTCTCATTT
57362249 A-ACTT
1 ATACTT
57362254 AAACTGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (15 bp):
ATACTTTTCTCATTT
Found at i:57362697 original size:48 final size:48
Alignment explanation
Indices: 57362329--57362737 Score: 268
Period size: 45 Copynumber: 8.7 Consensus size: 48
57362319 GGGTATACTA
*
57362329 CCGATGCCATGTCCCAGACATGGTCTTACATTGG--CTCATCCATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TCAATG
** * ** * ** *
57362376 TTGATGCCATGTCCTAGACATGGTCTTACACTAACTATCGAAATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATG
* * * *
57362425 CCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CAT-ATTCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TCAAT-G
* * * * * *
57362473 TACCGATGCCATGTCCTATACATGGTTTTACACTGAAAC-CTC-TAT-ATGTG
1 --CCGATGCCATGTCCCAGACATGGTCTTACACTG--GCTCTCATCTCA-ATG
* * * * *
57362523 TCGGTGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-GTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-G
57362569 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATG
* * *
57362614 GCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
*
57362660 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCA--T-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAA--T-G
57362708 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
57362738 AGCACACAAA
Statistics
Matches: 289, Mismatches: 46, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.03
45 61 0.21
46 31 0.11
47 57 0.20
48 58 0.20
49 35 0.12
50 32 0.11
51 4 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:57363112 original size:30 final size:30
Alignment explanation
Indices: 57363076--57363132 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
57363066 CATAATTGGG
* *
57363076 CAAAATGACCATTTTGCCCTTAGACTTTCA
1 CAAAATGACCATTTTACCCCTAGACTTTCA
57363106 CAAAATGACCATTTTACCCCTAGACTT
1 CAAAATGACCATTTTACCCCTAGACTT
57363133 AAAAATCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTTCA
Found at i:57368692 original size:18 final size:20
Alignment explanation
Indices: 57368671--57368713 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
57368661 AAAATATTAA
*
57368671 AAAATAAAA-AGG-AAAAGT
1 AAAATAAAAGAGGTAAAAGC
57368689 AAAA-AAAAGAGGTAAAAGC
1 AAAATAAAAGAGGTAAAAGC
57368708 AAAATA
1 AAAATA
57368714 TAATTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 9 0.43
20 1 0.05
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.09
Consensus pattern (20 bp):
AAAATAAAAGAGGTAAAAGC
Found at i:57373775 original size:17 final size:17
Alignment explanation
Indices: 57373750--57373785 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57373740 TGTAGTGTTT
57373750 GAGTCCTATTTTACTGA
1 GAGTCCTATTTTACTGA
*
57373767 GAGTTCTATTTTACTGA
1 GAGTCCTATTTTACTGA
57373784 GA
1 GA
57373786 TACAATTGGC
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:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (17 bp):
GAGTCCTATTTTACTGA
Found at i:57377783 original size:46 final size:46
Alignment explanation
Indices: 57377733--57377908 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
57377723 TGATTGAGCA
57377733 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57377779 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
57377824 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57377872 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57377909 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57377889 original size:93 final size:93
Alignment explanation
Indices: 57377730--57377901 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
57377720 GGATGATTGA
* *
57377730 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
57377795 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57377823 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
57377887 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
57377902 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57385357 original size:46 final size:46
Alignment explanation
Indices: 57385307--57385482 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
57385297 TGATTGAGCA
57385307 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57385353 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57385398 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57385446 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57385483 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57385463 original size:93 final size:93
Alignment explanation
Indices: 57385304--57385475 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
57385294 GGATGATTGA
*
57385304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
57385369 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57385397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
57385461 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
57385476 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57397372 original size:21 final size:21
Alignment explanation
Indices: 57397346--57397389 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57397336 CAAACTGAAG
57397346 TAAAAATATTTATTTTATTAT
1 TAAAAATATTTATTTTATTAT
57397367 TAAAAATATTTATTTTATTAT
1 TAAAAATATTTATTTTATTAT
57397388 TA
1 TA
57397390 TTTTAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAAATATTTATTTTATTAT
Found at i:57398661 original size:48 final size:48
Alignment explanation
Indices: 57398520--57398650 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 48
57398510 TTAGGGGACA
* * *
57398520 CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGCGCAAGCTT
1 CATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGTGCAAGATT
* * *
57398568 CATTTATTTGGCTTTGGGCCATGATATTAGTACTTCGGGTGCAAGATAT
1 CATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGTGCAAGAT-T
* *
57398617 -ATTGAGTTGGCTTTGGGCCATGATAGTGGCACTT
1 CATTGATTTGGCTTTGGGCCATGATATTGGCACTT
57398651 AGTATGCAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 70 0.99
49 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (48 bp):
CATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGTGCAAGATT
Found at i:57403312 original size:16 final size:17
Alignment explanation
Indices: 57403276--57403313 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
57403266 CCATTTAAGG
57403276 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
57403293 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
57403310 AAAA
1 AAAA
57403314 TAAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:57403905 original size:26 final size:26
Alignment explanation
Indices: 57403869--57403978 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
57403859 TGATACAAAT
57403869 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57403895 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57403921 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57403947 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57403973 TGATAA
1 TGATAA
57403979 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:57405463 original size:28 final size:26
Alignment explanation
Indices: 57405431--57405494 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
57405421 AATTACTATA
* *
57405431 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
* *
57405459 GTACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
57405485 ATACCCCTAG
1 ATACCCCTAG
57405495 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 1 0.03
28 8 0.26
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:57405639 original size:27 final size:27
Alignment explanation
Indices: 57405598--57405711 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
57405588 GAGGAAGCGT
*
57405598 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57405625 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57405652 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
57405680 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
57405706 TCTGGT
1 TCTGGT
57405712 AGCCATGCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 6 0.08
27 55 0.72
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:57405703 original size:54 final size:54
Alignment explanation
Indices: 57405596--57405711 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
57405586 TGGAGGAAGC
*
57405596 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
57405650 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
57405704 GTTCTGGT
1 GTTCTGGT
57405712 AGCCATGCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:57409447 original size:26 final size:26
Alignment explanation
Indices: 57409411--57409520 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
57409401 TGATACAAAT
57409411 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57409437 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
57409463 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
57409489 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
57409515 TGATAA
1 TGATAA
57409521 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:57411027 original size:26 final size:26
Alignment explanation
Indices: 57410962--57411037 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
57410952 AAAAGTAGCT
* *
57410962 AAATTACTGTAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-GTGAA
*
57410990 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGAA
*
57411016 AAATTACCGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
57411038 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
27 1 0.02
28 19 0.43
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGAA
Found at i:57411181 original size:27 final size:27
Alignment explanation
Indices: 57411140--57411252 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
57411130 GAGGAAGCGT
*
57411140 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57411167 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57411194 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
57411222 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
57411248 TCTGG
1 TCTGG
57411253 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:57411245 original size:54 final size:54
Alignment explanation
Indices: 57411138--57411252 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
57411128 TGGAGGAAGC
*
57411138 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
57411192 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
57411246 GTTCTGG
1 GTTCTGG
57411253 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:57414811 original size:9 final size:9
Alignment explanation
Indices: 57414797--57414821 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57414787 TGCAAGCTAT
57414797 CAAACTGAA
1 CAAACTGAA
57414806 CAAACTGAA
1 CAAACTGAA
57414815 CAAACTG
1 CAAACTG
57414822 TTGTATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (9 bp):
CAAACTGAA
Found at i:57434207 original size:12 final size:12
Alignment explanation
Indices: 57434182--57434277 Score: 55
Period size: 12 Copynumber: 8.4 Consensus size: 12
57434172 ATCTAAAAGA
57434182 TAAATATTAAAT
1 TAAATATTAAAT
57434194 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
57434206 TAAGATAATCAAT
1 TAA-ATATTAAAT
*
57434219 TTAATATTAAAT
1 TAAATATTAAAT
57434231 T-AATA--AAA-
1 TAAATATTAAAT
* *
57434239 T-ACTATCAAA-
1 TAAATATTAAAT
*
57434249 TAAGTATTAAAT
1 TAAATATTAAAT
57434261 TAAAT-TTAATAT
1 TAAATATTAA-AT
57434273 TAAAT
1 TAAAT
57434278 TTATCAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 4 0.06
11 19 0.28
12 29 0.43
13 6 0.09
14 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:57434234 original size:20 final size:19
Alignment explanation
Indices: 57434184--57434236 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
57434174 CTAAAAGATA
57434184 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
57434201 AATATTAAGA-TAATCAATTT
1 AATATTAA-ATTAAT-AATTT
57434221 AATATTAAATTAATAA
1 AATATTAAATTAATAA
57434237 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:57437280 original size:55 final size:55
Alignment explanation
Indices: 57437219--57437338 Score: 181
Period size: 55 Copynumber: 2.2 Consensus size: 55
57437209 TCGATTTCAT
*
57437219 TTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTCAAATGATT-ATTTCTCCA
1 TTTTCATTTTCATTTTAGAGAAAACCACA-TCACTTTCAAATGATTCATTTCTCCA
* *
57437274 TTTTCATTTTCATTTTGGAGAAAACCATATCACTTTCAAATGATTCATTTCTCCA
1 TTTTCATTTTCATTTTAGAGAAAACCACATCACTTTCAAATGATTCATTTCTCCA
57437329 TTCTT-ATTTT
1 TT-TTCATTTT
57437339 TAGTTTGGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 15 0.25
55 43 0.72
56 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (55 bp):
TTTTCATTTTCATTTTAGAGAAAACCACATCACTTTCAAATGATTCATTTCTCCA
Found at i:57437346 original size:55 final size:55
Alignment explanation
Indices: 57437219--57437352 Score: 173
Period size: 55 Copynumber: 2.4 Consensus size: 55
57437209 TCGATTTCAT
* * *
57437219 TTTTCATTTTCATTTTAGAGAAAACCACATTCATTTTCAAATGATTATTTCTCCA
1 TTTTCATTTTCAGTTTGGAGAAAACCACATTCACTTTCAAATGATTATTTCTCCA
* *
57437274 TTTTCATTTTCATTTTGGAGAAAACCATA-TCACTTTCAAATGATTCATTTCTCCA
1 TTTTCATTTTCAGTTTGGAGAAAACCACATTCACTTTCAAATGATT-ATTTCTCCA
* *
57437329 TTCTT-ATTTTTAGTTTGGAAAAAA
1 TT-TTCATTTTCAGTTTGGAGAAAA
57437353 ACTATAATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 15 0.21
55 54 0.76
56 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (55 bp):
TTTTCATTTTCAGTTTGGAGAAAACCACATTCACTTTCAAATGATTATTTCTCCA
Found at i:57442420 original size:19 final size:20
Alignment explanation
Indices: 57442396--57442435 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
57442386 AAACTTGTTG
57442396 AATTTTTATATTTAG-GTCA
1 AATTTTTATATTTAGAGTCA
57442415 AATTTTTATATTTAGAGTCA
1 AATTTTTATATTTAGAGTCA
57442435 A
1 A
57442436 GTTAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTATATTTAGAGTCA
Found at i:57444719 original size:21 final size:20
Alignment explanation
Indices: 57444682--57444722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57444672 TTGAAGAAAA
57444682 ATAAAAAATAAAAATATTTT
1 ATAAAAAATAAAAATATTTT
* *
57444702 ATAAAATAATATATATATTTT
1 ATAAAA-AATAAAAATATTTT
57444723 TTGATAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAAATAAAAATATTTT
Found at i:57447934 original size:20 final size:18
Alignment explanation
Indices: 57447911--57447950 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
57447901 GTTTTGGTAA
57447911 AATTCTTATCGAAAATAATT
1 AATTCTTAT--AAAATAATT
*
57447931 AATTTTTATAAAATAATT
1 AATTCTTATAAAATAATT
57447949 AA
1 AA
57447951 AATTGTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTCTTATAAAATAATT
Found at i:57447954 original size:20 final size:21
Alignment explanation
Indices: 57447908--57447954 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
57447898 GCAGTTTTGG
57447908 TAAAATTCTTATCGAAAATAAT
1 TAAAATTCTTATC-AAAATAAT
*
57447930 T--AATTTTTAT-AAAATAAT
1 TAAAATTCTTATCAAAATAAT
57447948 TAAAATT
1 TAAAATT
57447955 GTACTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 9 0.41
20 12 0.55
22 1 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTCTTATCAAAATAAT
Found at i:57457696 original size:28 final size:27
Alignment explanation
Indices: 57457639--57457790 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
57457629 TAAATTGTGC
*
57457639 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
57457666 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
57457694 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
57457721 AGCACTAAGTGTGCGAGTTTAGTTATGT
1 AGCACTAAGTGTGCGAGTTGA-CTATGT
* *
57457749 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
57457776 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57457791 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:57457703 original size:55 final size:55
Alignment explanation
Indices: 57457639--57457790 Score: 243
Period size: 55 Copynumber: 2.8 Consensus size: 55
57457629 TAAATTGTGC
*
57457639 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTT-GACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAG-CTATGT
*
57457694 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGTTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGCTATGT
* * *
57457749 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
57457791 GACTTAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 90 0.99
56 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGCTATGT
Found at i:57464837 original size:27 final size:28
Alignment explanation
Indices: 57464783--57464846 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
57464773 TAAAGAAACA
* *
57464783 AAGTGTGCGAGTTTAGTTATGTAGCACT
1 AAGTGTGCGAGTTGAGTTATATAGCACT
57464811 AAGTGTGCGAGTTGA-TTATATAGCACT
1 AAGTGTGCGAGTTGAGTTATATAGCACT
*
57464838 GAGTGTGCG
1 AAGTGTGCG
57464847 GACTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (28 bp):
AAGTGTGCGAGTTGAGTTATATAGCACT
Found at i:57464857 original size:27 final size:27
Alignment explanation
Indices: 57464804--57464859 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
57464794 TTTAGTTATG
* *
57464804 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGACTTGAATATA
*
57464831 TAGCACTGAGTGTGCGGACTT-AATATA
1 TAGCACTAAGTGTGC-GACTTGAATATA
57464858 TA
1 TA
57464860 TTCTTGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTTGAATATA
Found at i:57466844 original size:29 final size:29
Alignment explanation
Indices: 57466802--57466873 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
57466792 ACACGGCCTG
57466802 GCACACGGGAGTGTATGACCATTTTTACC
1 GCACACGGGAGTGTATGACCATTTTTACC
57466831 GCACACGGGAGTGTATGACCATTTTTACC
1 GCACACGGGAGTGTATGACCATTTTTACC
* *
57466860 GCACATGGGCGTGT
1 GCACACGGGAGTGT
57466874 CTGTTGGCCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (29 bp):
GCACACGGGAGTGTATGACCATTTTTACC
Found at i:57478616 original size:96 final size:95
Alignment explanation
Indices: 57478468--57478742 Score: 327
Period size: 96 Copynumber: 2.9 Consensus size: 95
57478458 GACCATTGCG
* * * * * * *
57478468 ATATGAGAGTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCGATATGTGTCAATGTAAG
1 ATATGTGAGCCAGTGTAAGACCATATCTGAGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
* * *
57478533 ACCATGTCTGGGACATGGCATTGGCACCGGT
66 ACCATGTTTGGAACATGGCATCGGCA-CGGT
* * * *
57478564 ATATGTGAGCCAGTGTAAGACCATTTCTGAGACATGGCATCGGCCTCAATATGTGTCAGTCTAAT
1 ATATGTGAGCCAGTGTAAGACCATATCTGAGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
* * **
57478629 ACCATATTTGGAACAAGGCATCGGCATTGT
66 ACCATGTTTGGAACATGGCATCGGCACGGT
* * *
57478659 -TATGTGAGCCAGTGTAAGACCACATCTGAGACATGGCATCAGCCTCAATATGCGAGCCAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATATCTGAGACATGGCATCAGCCTCAATAT--GTGTCAGTGTA
57478723 AGACCATGTTTGGAACATGG
64 AGACCATGTTTGGAACATGG
57478743 AATCATTGTT
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
94 48 0.32
95 2 0.01
96 101 0.67
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (95 bp):
ATATGTGAGCCAGTGTAAGACCATATCTGAGACATGGCATCAGCCTCAATATGTGTCAGTGTAAG
ACCATGTTTGGAACATGGCATCGGCACGGT
Found at i:57478741 original size:48 final size:47
Alignment explanation
Indices: 57478468--57478747 Score: 183
Period size: 48 Copynumber: 5.9 Consensus size: 47
57478458 GACCATTGCG
* * * *
57478468 ATATGAGAGTCAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCG
1 ATATG-GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCA
* * * * ***
57478516 ATAT-GTGTCAATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCGGT
1 ATATGGAGCCAGTGTAAGACCATGTCTGGAACATGGCA-T--CAGCCTCA
* *
57478564 ATATGTGAGCCAGTGTAAGACCATTTCT-GAGACATGGCATCGGCCTCA
1 ATATG-GAGCCAGTGTAAGACCATGTCTGGA-ACATGGCATCAGCCTCA
* * * * * * * * * **
57478612 ATAT-GTGTCAGTCTAATACCATATTTGGAACAAGGCATCGGCATTG
1 ATATGGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCA
* **
57478658 TTATGTGAGCCAGTGTAAGACCACATCT-GAGACATGGCATCAGCCTCA
1 ATATG-GAGCCAGTGTAAGACCATGTCTGGA-ACATGGCATCAGCCTCA
* *
57478706 ATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCA
1 ATATG-GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCA
57478748 TTGTTAAATG
Statistics
Matches: 177, Mismatches: 43, Indels: 24
0.73 0.18 0.10
Matches are distributed among these distances:
46 62 0.35
47 6 0.03
48 77 0.44
49 6 0.03
50 26 0.15
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (47 bp):
ATATGGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCA
Found at i:57481449 original size:49 final size:48
Alignment explanation
Indices: 57481391--57481564 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 48
57481381 TATATGTCGA
*
57481391 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAGCCAG
* * * ** * * *
57481440 TGTAAGACCTATCTTGTACACAGCATCGACCTCGACATATGAAAGTC-G
1 TGTAAGACCTGTCTGGGACATGGCATCGACC-CGATAGATGAAAGCCAG
** **
57481488 ATGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCCAG
1 -TGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAGCCAG
57481536 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACC-TGTCTGGGACATGGCATCG
57481565 GCATCTTATC
Statistics
Matches: 99, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
47 14 0.14
48 22 0.22
49 63 0.64
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAGCCAG
Found at i:57485914 original size:43 final size:43
Alignment explanation
Indices: 57485857--57485972 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
57485847 CAATGTCATA
* * * *
57485857 TCCCAAACATGGTCTTACATGTTACCACATATCAATGCCACTG
1 TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
* *** * * *
57485900 TCCCAGACAGGGTCTTACACAAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
*
57485943 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACATGTAACCACAT
57485973 CTTAATAACC
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAACCACATAACAATGCCAATG
Found at i:57487975 original size:138 final size:138
Alignment explanation
Indices: 57487727--57488058 Score: 441
Period size: 138 Copynumber: 2.4 Consensus size: 138
57487717 ACAACATTTA
* * * * * * *
57487727 TATCATATTAAGGCTCATAGGATAAAAATCACAGTCTTTAACACAATTAGTGAGAGCAAAGCTCC
1 TATCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCACC
*
57487792 CAACTATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAG
66 CAACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAG
* *
57487857 CTCCTAGC
131 CTCCCAAC
57487865 TATCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCACC
1 TATCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCACC
* * * * *
57487930 CAATTGTCATATTAAGGCTCGCAGGATAAAATTAGTAGCCTCTAACATAGTTAGCGAGAGTAAAG
66 CAACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAG
*
57487995 CTCCCAAT
131 CTCCCAAC
* * * * * **
57488003 TGTCACACTAAGGCTCGTAGGATAAAGA-CTGTAGCCTCCAACATAGTTAGCGAGAG
1 TATCATATTAAGGCTCGTAGGATAAAAATC-GCAGCCTTTAACATAGTTAGCGAGAG
57488059 TTGAAAACTC
Statistics
Matches: 170, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 1 0.01
138 169 0.99
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (138 bp):
TATCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCACC
CAACTATCATATTAAGGCTCGCAGGATAAAAATAGTAGCCTCTAACACAGTTAGCGAGAGCAAAG
CTCCCAAC
Found at i:57488059 original size:69 final size:69
Alignment explanation
Indices: 57487727--57488058 Score: 396
Period size: 69 Copynumber: 4.8 Consensus size: 69
57487717 ACAACATTTA
** ** * * * * *
57487727 TATCATATTAAGGCTCATAGGATAAAAATCACAGTCTTTAACACAATTAGTGAGAGCAAAGCTCC
1 TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
57487792 CAAC
66 CAAC
*
57487796 TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACACAGTTAGCGAGAGCAAAGCTCC
1 TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
* *
57487861 TAGC
66 CAAC
* * * *
57487865 TATCATATTAAGGCTCGTAGGATAAAAATCGCAGCCTTTAACATAGTTAGCGAGAGCAAAGCACC
1 TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
*
57487930 CAAT
66 CAAC
* * * *
57487934 TGTCATATTAAGGCTCGCAGGATAAAATTAGTAGCCTCTAACATAGTTAGCGAGAGTAAAGCTCC
1 TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
*
57487999 CAAT
66 CAAC
* * * * * *
57488003 TGTCACACTAAGGCTCGTAGGATAAAGA-CTGTAGCCTCCAACATAGTTAGCGAGAG
1 TATCATATTAAGGCTCGCAGGATAAAAATC-GTAGCCTCTAACATAGTTAGCGAGAG
57488059 TTGAAAACTC
Statistics
Matches: 229, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
69 229 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (69 bp):
TATCATATTAAGGCTCGCAGGATAAAAATCGTAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCC
CAAC
Found at i:57502387 original size:18 final size:19
Alignment explanation
Indices: 57502357--57502392 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
57502347 TTTACCTTTT
57502357 TTTTATATTTATTTTTATG
1 TTTTATATTTATTTTTATG
57502376 TTTTAT-TTTATTTTTAT
1 TTTTATATTTATTTTTAT
57502393 TAACCACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTATATTTATTTTTATG
Found at i:57506555 original size:162 final size:162
Alignment explanation
Indices: 57506282--57506605 Score: 549
Period size: 162 Copynumber: 2.0 Consensus size: 162
57506272 AGGCATTTAG
* * *
57506282 AATCCTGAAAATCAACAAGACCAATCTAGCATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
57506347 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
66 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
* *
57506412 GCTTTGAAGCAATAAATCAAAAGTTAGTCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
* *
57506444 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCGACTCAACATGACACCTACAT
1 AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
* * * *
57506509 TCGTAATAAAGGATGAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGTTGA
66 TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
57506574 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
57506606 CAAAAAATTT
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 151 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.23
Consensus pattern (162 bp):
AATCCCGAAAATCAACAAGACCAATCTAACATCACTCATCTATCAACTCAACATGACAACTACAT
TCATAATAAAGGATGAGTGATACATTCCACTACAGAATGTATAAAGGCAAAGCTAAACAAGCTGA
ACTTTGAAGCAATAAATCAAAAGTTAGCCACT
Found at i:57510220 original size:21 final size:22
Alignment explanation
Indices: 57510180--57510220 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
57510170 AAATATTGTA
* *
57510180 AAAATATTTTTCTTTGATAACC
1 AAAATATGTTTCTATGATAACC
57510202 AAAATATGTTT-TATGATAA
1 AAAATATGTTTCTATGATAA
57510221 GATAATATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
AAAATATGTTTCTATGATAACC
Found at i:57510860 original size:20 final size:20
Alignment explanation
Indices: 57510825--57510867 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
57510815 TTTTTTCTAA
*
57510825 TAAAATATTAAGAATATTACT
1 TAAAATATTAAAAATATTA-T
57510846 TAAAAT-TTAAAAATATTAT
1 TAAAATATTAAAAATATTAT
57510865 TAA
1 TAA
57510868 TGTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:57510891 original size:18 final size:19
Alignment explanation
Indices: 57510859--57510895 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57510849 AATTTAAAAA
*
57510859 TATTATTAATGTTAAAATT
1 TATTATTAATATTAAAATT
57510878 TATTATTAA-ATTAAAATT
1 TATTATTAATATTAAAATT
57510896 GTAATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TATTATTAATATTAAAATT
Found at i:57517974 original size:5 final size:5
Alignment explanation
Indices: 57517964--57517995 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
57517954 ATTTGTGAAA
57517964 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
57517996 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:57518751 original size:51 final size:51
Alignment explanation
Indices: 57518675--57518791 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
57518665 CGGATCACAT
*
57518675 TTATCACTTGTCACTTGTCACTGATCAGATACGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * * * * *
57518726 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGTTGAGGTTGCGAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
57518777 TTATCACTTGTCACT
1 TTATCACTTGTCACT
57518792 GATTAGAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:57523341 original size:46 final size:46
Alignment explanation
Indices: 57523291--57523463 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
57523281 TGGTTGAGCA
57523291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
57523337 TCCGAACTCGTCGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57523382 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57523430 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57523464 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57523425 original size:93 final size:93
Alignment explanation
Indices: 57523288--57523458 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
57523278 GGATGGTTGA
* *
57523288 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTCGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
57523353 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
57523381 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
*
57523446 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
57523459 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:57530926 original size:46 final size:45
Alignment explanation
Indices: 57530876--57531048 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
57530866 TGGTTGAGCA
57530876 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
57530922 TCCGAACTCGTCGAGTTGAGTCCGAGTTC-GTGAAATGTGACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
*
57530969 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
57531015 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57531049 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 62 0.58
47 30 0.28
48 3 0.03
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:57531032 original size:93 final size:93
Alignment explanation
Indices: 57530873--57531043 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
57530863 GGATGGTTGA
* * *
57530873 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTCGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
57530938 TGAGTCCGAGTTCGTGAAATGTGACTAG
66 TGAGTCCGAGTTCGTGAAATGTGACTAG
* *
57530966 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
57531031 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57531044 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
TGAGTCCGAGTTCGTGAAATGTGACTAG
Found at i:57548100 original size:27 final size:27
Alignment explanation
Indices: 57548070--57548133 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
57548060 ATTGATTTAA
57548070 TCAATTAATTAAATTAAATTAATTATC
1 TCAATTAATTAAATTAAATTAATTATC
*
57548097 TCAATTAATTTAATTAAATTAATTATC
1 TCAATTAATTAAATTAAATTAATTATC
*
57548124 TAAATTAATT
1 TCAATTAATT
57548134 TCTCAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (27 bp):
TCAATTAATTAAATTAAATTAATTATC
Found at i:57548104 original size:13 final size:13
Alignment explanation
Indices: 57548084--57548143 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
57548074 TTAATTAAAT
57548084 TAAATTAATTATC
1 TAAATTAATTATC
*
57548097 TCAATTAATTTAAT-
1 TAAATTAA-TT-ATC
57548111 TAAATTAATTATC
1 TAAATTAATTATC
57548124 TAAATTAATT-TC
1 TAAATTAATTATC
*
57548136 TCAATTAA
1 TAAATTAA
57548144 ATAATTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 11 0.27
13 19 0.46
14 9 0.22
15 2 0.05
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATTAATTATC
Found at i:57552002 original size:6 final size:6
Alignment explanation
Indices: 57551991--57552015 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57551981 AGTAAAATAA
57551991 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
57552016 GCTCGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:57554200 original size:54 final size:54
Alignment explanation
Indices: 57554124--57554231 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
57554114 ACCCTTTGAC
*
57554124 AAATCTCCGATAATATCTCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
1 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
57554178 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
1 AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
57554232 CTTCGGTGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATCTCCGATAATATCCCGCTAGTCCCAGAAAACTTCTAATTTTTGAAACATT
Found at i:57557582 original size:19 final size:19
Alignment explanation
Indices: 57557555--57557592 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57557545 TTATTTTTAT
* *
57557555 TTTTTATTAGAATCGAAAA
1 TTTTAATTAGAATAGAAAA
57557574 TTTTAATTAGAATAGAAAA
1 TTTTAATTAGAATAGAAAA
57557593 GTGGAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTTAATTAGAATAGAAAA
Found at i:57560257 original size:48 final size:48
Alignment explanation
Indices: 57560199--57560632 Score: 733
Period size: 48 Copynumber: 9.0 Consensus size: 48
57560189 ATATACACAC
* *
57560199 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57560247 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57560295 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
57560343 ATCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57560391 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57560439 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
57560487 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
57560535 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
57560583 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
57560631 AT
1 AT
57560633 ATTTGTCTTG
Statistics
Matches: 365, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 365 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:57565076 original size:40 final size:40
Alignment explanation
Indices: 57564894--57565116 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57564884 TCCTCGTTCA
* * * * *
57564894 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
57564933 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
57564973 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
57565013 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
57565053 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
57565093 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57565117 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57565125 original size:41 final size:41
Alignment explanation
Indices: 57565048--57565125 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57565038 TTAGTATCTC
* * *
57565048 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57565089 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57565126 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57567425 original size:5 final size:5
Alignment explanation
Indices: 57567415--57567455 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
57567405 GATTCCAACC
57567415 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
57567456 GAAATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:57570842 original size:12 final size:12
Alignment explanation
Indices: 57570825--57570849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57570815 TAGGTTTCCA
57570825 AAAATGGAAATG
1 AAAATGGAAATG
57570837 AAAATGGAAATG
1 AAAATGGAAATG
57570849 A
1 A
57570850 TCCATTTGCA
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:57573173 original size:24 final size:24
Alignment explanation
Indices: 57573141--57573211 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
57573131 CTATCAGGAG
57573141 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
57573165 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* **
57573189 AGGATTTAAGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
57573212 GGAAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:57574689 original size:26 final size:27
Alignment explanation
Indices: 57574629--57574739 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
57574619 AGGAAGCCTC
* *
57574629 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
57574656 CTGATGGCTCTACCAC-ATTTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
57574682 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
* *
57574710 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
57574736 CTGG
1 CTGG
57574740 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.39
27 28 0.40
28 15 0.21
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:57574736 original size:54 final size:53
Alignment explanation
Indices: 57574629--57574739 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
57574619 AGGAAGCCTC
* *
57574629 CTGGTGGCTATGCCACAATTATCTGATCTGATGGCTCTACCACATTTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTACCACATTATCTGTT
* * * * **
57574682 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGATGACTCTACCACATTATCTGTT
57574736 CTGG
1 CTGG
57574740 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 22 0.45
54 27 0.55
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTACCACATTATCTGTT
Found at i:57578290 original size:56 final size:56
Alignment explanation
Indices: 57578204--57578316 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
57578194 TTCATCAAAT
* *
57578204 ATCCCCACAATTAAGCATTTTCTTGTCTTCAAGCAAAATCCTCAACTCATAATTAA
1 ATCCCCACAATTAAGCATTTGCTTGTCTTCAAGCAAAATCCTCAACTCACAATTAA
*
57578260 ATCCCCACACTTAAGCATTTGCTTGTCTTCAAGCAAAATCCTCAACTCACAATTAA
1 ATCCCCACAATTAAGCATTTGCTTGTCTTCAAGCAAAATCCTCAACTCACAATTAA
57578316 A
1 A
57578317 ATTAAACTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.30
Consensus pattern (56 bp):
ATCCCCACAATTAAGCATTTGCTTGTCTTCAAGCAAAATCCTCAACTCACAATTAA
Found at i:57579895 original size:6 final size:6
Alignment explanation
Indices: 57579884--57579945 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
57579874 CAAGAAGAAT
* * * *
57579884 AAAATA AAAATA AAAGTA AAAATA AAAGACA AAAATA AAGATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA
57579933 AACAA-A AAAATA A
1 AA-AATA AAAATA A
57579946 TTGGCCTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:57579896 original size:23 final size:23
Alignment explanation
Indices: 57579881--57579945 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
57579871 TAACAAGAAG
57579881 AATAAAATAAAAATAAAAGTAAA
1 AATAAAATAAAAATAAAAGTAAA
*
57579904 AATAAAAGACAAAA-ATAAAGATAAA
1 AATAAAATA-AAAATA-AAAG-TAAA
* *
57579929 CATAAACAAAAAAATAA
1 AATAAA-ATAAAAATAA
57579946 TTGGCCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 9 0.26
24 8 0.24
25 14 0.41
26 3 0.09
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (23 bp):
AATAAAATAAAAATAAAAGTAAA
Found at i:57591692 original size:24 final size:24
Alignment explanation
Indices: 57591656--57591701 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57591646 GTTTTATGGA
57591656 ACACTAAACTAGACTACGATCATG
1 ACACTAAACTAGACTACGATCATG
* *
57591680 ACACTAAATTAGACTATGATCA
1 ACACTAAACTAGACTACGATCA
57591702 CGACTAAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (24 bp):
ACACTAAACTAGACTACGATCATG
Found at i:57593253 original size:43 final size:43
Alignment explanation
Indices: 57593136--57593277 Score: 139
Period size: 41 Copynumber: 3.4 Consensus size: 43
57593126 TCAACGTCTT
* * *
57593136 AGACGTGGTCTTACATGCAA-CACATATCGATGCCACTGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
* * * * *
57593178 AG-CAGGGTTTTACACGGATCTA-ATA-CGATGCCAATGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
* *
57593218 AGACATGGTCTTACACGTAACCACATATCGATGCCAACGTCCC
1 AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
** *
57593261 AGATGTGGTCTTCCACG
1 AGACATGGTCTTACACG
57593278 AGAACAAATA
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
40 16 0.20
41 29 0.37
42 6 0.08
43 28 0.35
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
AGACATGGTCTTACACGCAACCACATATCGATGCCAATGTCCC
Found at i:57593558 original size:42 final size:42
Alignment explanation
Indices: 57593509--57593592 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
57593499 TTACCTCGGA
*
57593509 CAACGATAATTAGAACGGAACAACTAATCGACAACTTTGGTT
1 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
57593551 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
1 CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
57593593 TTCCCCCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (42 bp):
CAACGATAATCAGAACGGAACAACTAATCGACAACTTTGGTT
Found at i:57596163 original size:47 final size:46
Alignment explanation
Indices: 57595934--57596195 Score: 151
Period size: 46 Copynumber: 5.6 Consensus size: 46
57595924 TTCGTGTGTG
* * * * * *
57595934 AGCTAGTGTATGACATGTCTGGGACATGCATCGGC-CACATTACGA-G
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTC-GA-GACGATA
* * * * *
57595980 AGCCAGTGTAAGACCATGTCTAGGGCATGGCATCGATATTGAGACGA-G
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGA-CTCGAGACGATA
* * * * *
57596028 GGTTAGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGACG-TA
1 AGCTAGTGTAAGACATGTCTAGGACATGCAT-CGACTCGAGACGATA
* * *
57596074 AACTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGAT-
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACT-CGAGACGATA
* * * * *
57596120 AGTTAGTGTAAGACCATGTCT-GGCACATGGCATTGACTTGAGA-TATG
1 AGCTAGTGTAAGA-CATGTCTAGG-ACAT-GCATCGACTCGAGACGATA
*
57596167 AGCTAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGA-CATGTCTAGGACATG
57596196 ACATAGGCAC
Statistics
Matches: 168, Mismatches: 35, Indels: 26
0.73 0.15 0.11
Matches are distributed among these distances:
45 3 0.02
46 71 0.42
47 63 0.38
48 30 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTCGAGACGATA
Found at i:57596173 original size:93 final size:93
Alignment explanation
Indices: 57595979--57596195 Score: 224
Period size: 93 Copynumber: 2.3 Consensus size: 93
57595969 CACATTACGA
* * * *
57595979 GAGCCAGTGTAAGACCATGTCTAGGGCATGGCATCGATATTGAGACGAGGGTTAGTGTAAGACAT
1 GAGCTAGTGTAAGACCATGTCTAGGACAT-GCATCGATATCGAGACGAGAGTTAGTGTAAGACAT
* * *
57596044 GTCTGGGACATGCATAGGCCTCGAGACGT
65 GTCTGGCACATGCATAGGACTCGAGACAT
* * * * *
57596073 AAACTAGTGTAAGA-CATGTCTAGGACATGCATCGGCTA-CGAGATGATAGTTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGCATC-GATATCGAGACGAGAGTTAGTGTAAGA-CA
* * *
57596136 TGTCTGGCACATGGCAT-TGACTTGAGATAT
64 TGTCTGGCACAT-GCATAGGACTCGAGACAT
* *
57596166 GAGCTAGTGTAAGATCGTGTCTAGGACATG
1 GAGCTAGTGTAAGACCATGTCTAGGACATG
57596196 ACATAGGCAC
Statistics
Matches: 101, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
92 23 0.23
93 49 0.49
94 29 0.29
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (93 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGCATCGATATCGAGACGAGAGTTAGTGTAAGACATG
TCTGGCACATGCATAGGACTCGAGACAT
Found at i:57596187 original size:140 final size:141
Alignment explanation
Indices: 57595936--57596203 Score: 321
Period size: 140 Copynumber: 1.9 Consensus size: 141
57595926 CGTGTGTGAG
* * *
57595936 CTAGTGTATGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTCT
* * * *
57596001 AGGGCATGGCATCGATATTGAGACGAGGGTTAGTGTAAGACATGTCTGGGACATG-CATAGGCCT
66 AGGACATGGCATCGATATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGACATAGGCCT
57596065 CGAGACGTAAA
131 CGAGACGTAAA
* * * **
57596076 CTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGACGAGAGCCAGTGTAAGACCATGTC
* * * *
57596140 T-GGCACATGGCATTGA-CTTGAGA-TATGAGCTAGTGTAAGATCGTGTCTAGGACATGACATAG
65 TAGG-ACATGGCATCGATATTGAGACGA-GAGCTAGTGTAAGA-CATGTCTAGGACATGACATAG
57596202 GC
127 GC
57596204 ACCTTACCCT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 78 0.73
141 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (141 bp):
CTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGATATTGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGACATAGGCCT
CGAGACGTAAA
Found at i:57606334 original size:27 final size:27
Alignment explanation
Indices: 57606280--57606389 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
57606270 AGCATGGCTG
* *
57606280 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57606306 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57606333 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * * *
57606360 CCCGATCAGATAATTATGGCATATCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57606387 CCA
1 CCA
57606390 AGACGCTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57606370 original size:54 final size:53
Alignment explanation
Indices: 57606280--57606389 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 53
57606270 AGCATGGCTG
* *
57606280 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
* * * * *
57606333 CCAGAACAGATATATGTGGCAGAGCCACCCGATCAGATAATTATGGCATATCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
57606387 CCA
1 CCA
57606390 AGACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTATGGCAGAGCCA
Found at i:57607589 original size:16 final size:16
Alignment explanation
Indices: 57607565--57607596 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57607555 TAAAAGAGAC
57607565 AGAAAAGATGAGCAGA
1 AGAAAAGATGAGCAGA
*
57607581 AGAAGAGATGAGCAGA
1 AGAAAAGATGAGCAGA
57607597 GAATTTAGTT
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:0.53, C:0.06, G:0.34, T:0.06
Consensus pattern (16 bp):
AGAAAAGATGAGCAGA
Found at i:57608436 original size:38 final size:38
Alignment explanation
Indices: 57608385--57608568 Score: 242
Period size: 38 Copynumber: 4.8 Consensus size: 38
57608375 GATGTGTATT
*
57608385 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
*
57608423 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
*
57608461 CGAGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
1 CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
* * * * *
57608499 AGGGTTAAATCTTGTAGGCCTAGTGCTGGTATTATATC
1 CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
* * * *
57608537 TGAGCTTAAAGTCCTGCAGGTTTTGTGCTGGT
1 CG-GGTTAAA-TCCTGCAGGCTTCGTGCTGGT
57608569 GACTGGATTC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
38 107 0.83
39 6 0.05
40 16 0.12
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
CGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATC
Found at i:57612004 original size:38 final size:38
Alignment explanation
Indices: 57611949--57612021 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
57611939 AGTTCATCTT
* *
57611949 TCATAGCCTCAATTAATGATCATTACATTCACTCTCCA
1 TCATAGACTCAACTAATGATCATTACATTCACTCTCCA
57611987 TCATAGACTCAACTAATGATCATTACATTCACTCT
1 TCATAGACTCAACTAATGATCATTACATTCACTCT
57612022 TCATGGCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.34
Consensus pattern (38 bp):
TCATAGACTCAACTAATGATCATTACATTCACTCTCCA
Found at i:57615819 original size:14 final size:14
Alignment explanation
Indices: 57615800--57615837 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
57615790 GTTTGCTAGT
*
57615800 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
57615814 AAAATGATTTCTGG
1 AAAATGATTTCCGG
57615828 AAAATGATTT
1 AAAATGATTT
57615838 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:57615853 original size:19 final size:20
Alignment explanation
Indices: 57615821--57615866 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
57615811 CGGAAAATGA
57615821 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
57615841 TTTCTGG-AAATGATTTGCT
1 TTTCTGGAAAATGATTTACT
57615860 TTTCTGG
1 TTTCTGG
57615867 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:57615968 original size:18 final size:19
Alignment explanation
Indices: 57615942--57615986 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
57615932 AAAAACTGTT
*
57615942 TTTACATATA-TTAATAAA
1 TTTATATATACTTAATAAA
57615960 TTTATATATATCTTAATAAA
1 TTTATATATA-CTTAATAAA
*
57615980 ATTATAT
1 TTTATAT
57615987 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATATATACTTAATAAA
Found at i:57615975 original size:20 final size:20
Alignment explanation
Indices: 57615947--57615986 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57615937 CTGTTTTTAC
*
57615947 ATATATTAATAAATTTATAT
1 ATATATTAATAAAATTATAT
*
57615967 ATATCTTAATAAAATTATAT
1 ATATATTAATAAAATTATAT
57615987 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAAATTATAT
Found at i:57618528 original size:40 final size:40
Alignment explanation
Indices: 57618444--57618664 Score: 213
Period size: 40 Copynumber: 5.5 Consensus size: 40
57618434 TTGAATGCTG
* * * *
57618444 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
57618483 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
57618524 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
57618564 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
57618604 TCCGGGTTAAGTCCCGAAGGCA-TTGTACGAGTTACTATAA-
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-T-TAAT
* *
57618644 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
57618665 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 30 0.19
40 111 0.72
41 13 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:57618581 original size:80 final size:79
Alignment explanation
Indices: 57618444--57618664 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 79
57618434 TTGAATGCTG
* * *
57618444 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGA-T-ACTATATCCGGGCTAAG-TCCCGAAGGCAT
* *
57618507 TTGTGCGAGTTATT-AAT
63 TCGTGCGAGTT-TTAAAA
*
57618524 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-ATTCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGATACTATA-TCCGGGCTAAGTCCCGAAGGCATT
57618588 CGTGCGAGTTTTAAAA
64 CGTGCGAGTTTTAAAA
* * * * *
57618604 TCCGGGTTAAGTCCCGAAGGCATTGTACGAGTTACTATAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTATATCCGGGCTAAGTCCCGAAGGCA
57618665 CTTGAACGAG
Statistics
Matches: 123, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
79 37 0.30
80 75 0.61
81 10 0.08
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATACTATATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGTTTTAAAA
Found at i:57628224 original size:45 final size:45
Alignment explanation
Indices: 57628173--57628287 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
57628163 GTGTAACACT
* * *
57628173 ATAGTTGAAATATATTATGACATTAAATC-TTATACAAAT-AAGACC
1 ATAGTTGAAAGATACTATGACATTAAATCGGTA-AC-AATCAAGACC
* * *
57628218 ATAGTTGAAAGATACTATGGCATCACATCGGTAACAATCAAGACC
1 ATAGTTGAAAGATACTATGACATTAAATCGGTAACAATCAAGACC
57628263 ATAGTTGAAAGATACTATGACATTA
1 ATAGTTGAAAGATACTATGACATTA
57628288 CTTCAGGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 3 0.05
45 55 0.92
46 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (45 bp):
ATAGTTGAAAGATACTATGACATTAAATCGGTAACAATCAAGACC
Found at i:57628306 original size:45 final size:44
Alignment explanation
Indices: 57628173--57628331 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 44
57628163 GTGTAACACT
* * * * ** *
57628173 ATAGTTGAAATATATTATGACATTAAATCTTATACAAATAAGACC
1 ATAGTTGAAAGATACTATGACATCACATCGGAAAC-AATAAGACC
* *
57628218 ATAGTTGAAAGATACTATGGCATCACATCGGTAACAATCAAGACC
1 ATAGTTGAAAGATACTATGACATCACATCGGAAACAAT-AAGACC
* *
57628263 ATAGTTGAAAGATACTATGACATTACTTCAGGAATAC-ATAAGACC
1 ATAGTTGAAAGATACTATGACATCACATC-GGAA-ACAATAAGACC
* * * *
57628308 ATGGTTGGAAGATACCATGGCATC
1 ATAGTTGAAAGATACTATGACATC
57628332 CTTTGAAACG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
44 3 0.03
45 83 0.89
46 5 0.05
47 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (44 bp):
ATAGTTGAAAGATACTATGACATCACATCGGAAACAATAAGACC
Found at i:57630654 original size:21 final size:21
Alignment explanation
Indices: 57630630--57630677 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
57630620 CAAGAGATAC
*
57630630 AATTATCATTCATCACTCAAT
1 AATTATAATTCATCACTCAAT
*
57630651 AATTATAATTCATCAGTCAAT
1 AATTATAATTCATCACTCAAT
57630672 AATTAT
1 AATTAT
57630678 TTTCCAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTATAATTCATCACTCAAT
Found at i:57633666 original size:36 final size:36
Alignment explanation
Indices: 57633624--57633695 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
57633614 TATGAAAATT
*
57633624 ATGATAAAGATATATGTGAGTCTAGTTTCTGGAAAA
1 ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
*
57633660 ATGATAAATATATATGTCAGTCTAGTTTCTGGAAAA
1 ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
57633696 TATTAACGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (36 bp):
ATGATAAAGATATATGTCAGTCTAGTTTCTGGAAAA
Found at i:57635061 original size:53 final size:53
Alignment explanation
Indices: 57635000--57635106 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
57634990 AATCAATAGA
57635000 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
1 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
57635053 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
1 GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
57635106 G
1 G
57635107 TCTCGACTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (53 bp):
GATAACTCTAGTTGAGATCAATTATCTTATGGGATTGTGCCGACGACGCATGT
Found at i:57658926 original size:46 final size:45
Alignment explanation
Indices: 57658840--57659054 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 45
57658830 CTATATGTGT
* *
57658840 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCA-AGC
*
57658886 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-AAGC
* ** * * * * *
57658932 TGATGCATGAACTAGACATGTATTACACTAGCTCTCGTTTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA-GC
* * ***
57658978 CGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAGC
57659026 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
57659055 AGCACACAAA
Statistics
Matches: 135, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 59 0.44
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGC
Found at i:57659031 original size:94 final size:92
Alignment explanation
Indices: 57658884--57659057 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 92
57658874 ACATCTCATA
* * *
57658884 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGAACTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGAACCAGAC
57658949 ATGTATTACACTAGCTCTCGTTTCAAT
66 ATGTATTACACTAGCTCTCGTTTCAAT
* * **
57658976 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGAACC
*
57659039 AGACATGTCTTACACTAGC
62 AGACATGTATTACACTAGC
57659058 ACACAAATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 47 0.67
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGAACCAGAC
ATGTATTACACTAGCTCTCGTTTCAAT
Found at i:57663624 original size:43 final size:43
Alignment explanation
Indices: 57663577--57663687 Score: 204
Period size: 43 Copynumber: 2.6 Consensus size: 43
57663567 CGGCATTACG
57663577 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
57663620 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
57663663 CCTGCTAGGCACAAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
57663688 TAATACTAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.32, C:0.34, G:0.24, T:0.10
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:57663728 original size:38 final size:38
Alignment explanation
Indices: 57663680--57663919 Score: 300
Period size: 38 Copynumber: 6.3 Consensus size: 38
57663670 GGCACAAAGG
* * * * *
57663680 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
57663718 CCTGGATATAATACCAGCAGGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
57663756 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
57663795 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
57663834 CCCGGATATAATGCCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * ** *
57663872 CTCGAATATTTTACCAGCACGAAGCCTGGGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
57663910 TCCTGATATA
1 CCCGGATATA
57663920 CATCGAATAT
Statistics
Matches: 173, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
38 133 0.77
39 10 0.06
40 30 0.17
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:57663883 original size:116 final size:116
Alignment explanation
Indices: 57663679--57663899 Score: 352
Period size: 116 Copynumber: 1.9 Consensus size: 116
57663669 AGGCACAAAG
* * * * * *
57663679 GCCCGAATATAATACTAGCACTAGGCCTGCGGGATTTATCCTGGATATAATACCAGCAGGAAGCC
1 GCCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
*
57663744 TGCGGGATTTAACCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
66 TGCGGGATTTAACCCGAATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
* *
57663795 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATGCCAGCACGAAGCC
1 GCCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
*
57663860 TGCGGGATTTAACTCGAATATTTTACCAGCACGAAGCCTG
66 TGCGGGATTTAACCCGAATATTTTACCAGCACGAAGCCTG
57663900 GGGGATTTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 95 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (116 bp):
GCCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
TGCGGGATTTAACCCGAATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
Found at i:57668341 original size:53 final size:54
Alignment explanation
Indices: 57668261--57668467 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
57668251 TTCCTTTTTA
* * * *
57668261 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
57668314 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
57668368 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
57668423 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57668468 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.37
54 37 0.31
55 39 0.32
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:57670298 original size:30 final size:30
Alignment explanation
Indices: 57670262--57670322 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
57670252 GTCACCATCC
*
57670262 TATGGCCTTGCTTTAGCTCTAAAAATTCTT
1 TATGGCCTTGCTTCAGCTCTAAAAATTCTT
57670292 TATGGCCTTGCTTCAGCTCTAAAAATTCTT
1 TATGGCCTTGCTTCAGCTCTAAAAATTCTT
57670322 T
1 T
57670323 CCTTTTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (30 bp):
TATGGCCTTGCTTCAGCTCTAAAAATTCTT
Found at i:57673348 original size:27 final size:26
Alignment explanation
Indices: 57673311--57673422 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
57673301 AGCATGACTG
* *
57673311 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
57673337 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
57673365 CCAGAACAGA-AATTTGTGGCAGAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
* *
57673392 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
57673419 CCAG
1 CCAG
57673423 GATGCTTCCT
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 18 0.23
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:57673402 original size:54 final size:54
Alignment explanation
Indices: 57673311--57673422 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
57673301 AGCATGACTG
*
57673311 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
57673365 CCAGAACAGA-AATTTGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
57673419 CCAG
1 CCAG
57673423 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 2 0.04
54 33 0.63
55 17 0.33
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:57675445 original size:50 final size:50
Alignment explanation
Indices: 57675315--57675447 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 50
57675305 CATCCATCAA
57675315 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCAAAATCGAG
* ** * * * *
57675364 GCCGACACTATGCCCCAGACATGGTCTTACACTAG-CTCTCATATATCG-G
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCA-AAATCGAG
*
57675413 TGTCGATGCCATGTCCCAAACATGGTCTTACACTA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTA
57675448 ACACATCTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
49 34 0.50
50 34 0.50
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCAAAATCGAG
Found at i:57685284 original size:40 final size:40
Alignment explanation
Indices: 57685229--57685374 Score: 215
Period size: 40 Copynumber: 3.7 Consensus size: 40
57685219 ATTTGAATGA
*
57685229 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
57685269 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
57685309 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
*
57685349 TATCCGGGCTAAGACCTGAA-GCATTT
1 TATCCGGGCTAAGACCCGAAGGCATTT
57685375 GTGTGAGTTG
Statistics
Matches: 100, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
39 6 0.06
40 91 0.91
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:57685384 original size:39 final size:40
Alignment explanation
Indices: 57685228--57685411 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
57685218 CATTTGAATG
*
57685228 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* *
57685268 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * *
57685308 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * *
57685348 ATATCCGGGCTAAGACCTGAA-GCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AG-TGATT
* *
57685387 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
57685412 ACTGTGCTTG
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 33 0.25
40 94 0.72
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:57693455 original size:40 final size:40
Alignment explanation
Indices: 57693400--57693689 Score: 329
Period size: 40 Copynumber: 7.3 Consensus size: 40
57693390 ATTTGAATGA
*
57693400 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
57693440 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
57693480 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * *
57693520 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGC-TAGTGATTT
* * *
57693560 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
57693600 TATCCGGGCTAAGACCCGAA-GCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * ** * * *
57693639 TACCCGGGTTAAGACCCGAAGGCAACTGTGCTTGTGGTTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
57693679 TATCC-GGCTAA
1 TATCCGGGCTAA
57693690 ATTCCGAAGA
Statistics
Matches: 228, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
39 44 0.19
40 180 0.79
41 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:57709752 original size:25 final size:25
Alignment explanation
Indices: 57709724--57709772 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
57709714 TACAGTCTAT
*
57709724 CTATAGTAGTCTCAGCATATACTAC
1 CTATAGCAGTCTCAGCATATACTAC
* * *
57709749 CTATAGCAGTTTTAGGATATACTA
1 CTATAGCAGTCTCAGCATATACTA
57709773 TCAAAAACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGCATATACTAC
Done.