Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 191 of 253
Found at i:62576256 original size:71 final size:71
Alignment explanation
Indices: 62576140--62576291 Score: 286
Period size: 71 Copynumber: 2.1 Consensus size: 71
62576130 ATACCATCTT
*
62576140 ATACATACACAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
1 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
62576205 TGACAC
66 TGACAC
62576211 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
1 ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
*
62576276 TGGCAC
66 TGACAC
62576282 ATACATACAT
1 ATACATACAT
62576292 GGATGAATAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (71 bp):
ATACATACATAAGACATTCATAAACATTCAATCATCAATAACCATAGGCCATATCATAATAGAAT
TGACAC
Found at i:62577053 original size:42 final size:42
Alignment explanation
Indices: 62576948--62577056 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
62576938 ATGGGTTGAT
* * *
62576948 GCCATATCCCAGATATGGTCTTATAAGAATTCTCATTTCGAA
1 GCCATATCCCAGATATGGTCTTACAAGAAATCTCATGTCGAA
* * ** * *
62576990 GCCATGTCCCAAACGTGGTCTTACACGAAATCTTATGTC-AA
1 GCCATATCCCAGATATGGTCTTACAAGAAATCTCATGTCGAA
*
62577031 CGCCATATCCCAGATATAGTCTTACA
1 -GCCATATCCCAGATATGGTCTTACA
62577057 TGATAACTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACAAGAAATCTCATGTCGAA
Found at i:62579010 original size:37 final size:37
Alignment explanation
Indices: 62578960--62579031 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
62578950 TAGTATGCTG
* *
62578960 TGGCAATCGACATGACCTCTTCGCTTGAATTTGCCTA
1 TGGCAATCAACATGACCTATTCGCTTGAATTTGCCTA
*
62578997 TGGCAGTCAACATGACCTATTCGCTTGAATTTGCC
1 TGGCAATCAACATGACCTATTCGCTTGAATTTGCC
62579032 AACTCTTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (37 bp):
TGGCAATCAACATGACCTATTCGCTTGAATTTGCCTA
Found at i:62597189 original size:40 final size:40
Alignment explanation
Indices: 62597140--62597278 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
62597130 AACACACCAG
* *
62597140 TTTGGCACCCACTGCCTCATCGGA-TAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATC-GACTAATTCAAAGTAATAA
* * ** *
62597180 TTTGACACCCAATGTCTCATCGACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGACTAATTCAAAGTAATAA
* * * *
62597218 -TTGGCACCCAGTGCCTCATCAAATTAATTCAAAGTAGTAA
1 TTTGACACCCAGTGCCTCATC-GACTAATTCAAAGTAATAA
* *
62597258 ATTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
62597279 AACTTGAAGT
Statistics
Matches: 77, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 3 0.04
40 28 0.36
41 18 0.23
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGACTAATTCAAAGTAATAA
Found at i:62598151 original size:4 final size:4
Alignment explanation
Indices: 62598135--62598175 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
62598125 AGCCTTCGTC
* *
62598135 TCTT TCGT TCTT TCTT TCTT TCTT TCTT T-TT TTTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC
62598176 CCTTTCCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:62598254 original size:5 final size:5
Alignment explanation
Indices: 62598244--62598280 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
62598234 CTTTATTATG
62598244 ATATA ATATA ATATA ATAT- ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
62598281 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:62598268 original size:19 final size:18
Alignment explanation
Indices: 62598244--62598291 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
62598234 CTTTATTATG
62598244 ATATAATATAATATAATA
1 ATATAATATAATATAATA
62598262 TATATAATATAATATAATA
1 -ATATAATATAATATAATA
62598281 ATATATATATA
1 ATATA-ATATA
62598292 CTTAACACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATATAATATAATA
Found at i:62598276 original size:24 final size:24
Alignment explanation
Indices: 62598244--62598291 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
62598234 CTTTATTATG
62598244 ATATAATATAAT-ATAATATATATA
1 ATATAATATAATAAT-ATATATATA
62598268 ATATAATATAATAATATATATATA
1 ATATAATATAATAATATATATATA
62598292 CTTAACACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAATATAATAATATATATATA
Found at i:62598712 original size:22 final size:22
Alignment explanation
Indices: 62598685--62598735 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
62598675 GATGAATATG
* *
62598685 GAAATTTATTTAGAACTTAT-A
1 GAAAATTATTTAGAAATTATAA
62598706 GAAAATTATTTAGAAATTATAA
1 GAAAATTATTTAGAAATTATAA
62598728 G-AAATTAT
1 GAAAATTAT
62598736 AAAAAAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (22 bp):
GAAAATTATTTAGAAATTATAA
Found at i:62598756 original size:10 final size:10
Alignment explanation
Indices: 62598707--62598762 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
62598697 GAACTTATAG
62598707 AAAATTATTTA
1 AAAATTA-TTA
*
62598718 GAAATTA-TA
1 AAAATTATTA
*
62598727 AGAAATTATAA
1 A-AAATTATTA
*
62598738 AAAAGTATTA
1 AAAATTATTA
*
62598748 CAAATTATTA
1 AAAATTATTA
62598758 AAAAT
1 AAAAT
62598763 AACGTTTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
9 2 0.06
10 25 0.71
11 8 0.23
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (10 bp):
AAAATTATTA
Found at i:62601910 original size:18 final size:17
Alignment explanation
Indices: 62601877--62601911 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
62601867 GCCTGCAAAA
*
62601877 AAAAATTATTGGGTTGG
1 AAAAATTATTGAGTTGG
62601894 AAAAATTATATGAGTTGG
1 AAAAATTAT-TGAGTTGG
62601912 TTTAGAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (17 bp):
AAAAATTATTGAGTTGG
Found at i:62604488 original size:47 final size:47
Alignment explanation
Indices: 62604399--62604488 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
62604389 GGTAAGGTGC
*
62604399 CGATGCCATGTTCCAGACATGGTCTTACAATGGCTCATATCTCAAGT
1 CGATGCCATGTTCCAGACATGGTCTTACAATGACTCATATCTCAAGT
*
62604446 CGATGCCATGTTCCAGACATGGTCTTACACTGACT-ATCATCTC
1 CGATGCCATGTTCCAGACATGGTCTTACAATGACTCAT-ATCTC
62604489 GTAGCCGATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 2 0.05
47 38 0.95
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTTCCAGACATGGTCTTACAATGACTCATATCTCAAGT
Found at i:62626669 original size:46 final size:47
Alignment explanation
Indices: 62626532--62626703 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
62626522 TAGGTAGGGT
* * *
62626532 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA
* * **
62626579 GTCGATGCCATGTTCCAGACATGGTCTTACACT-GAATATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-A
* * *
62626627 CCCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTTACATCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA
62626672 GGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
62626704 AGTACACACA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 46 0.44
47 51 0.49
48 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA
Found at i:62626684 original size:93 final size:94
Alignment explanation
Indices: 62626533--62626703 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 94
62626523 AGGTAGGGTG
* * * *
62626533 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTTCCAGA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGA
62626598 CATGGTCTTACACTGAATATCATCTCGTAC
66 CAT-GTCTTACACTGAATATCATCTCGTAC
* * *
62626628 CCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTTACATCTCGAGGCCGATG-CATGTCCCAG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTC-AAGCCGATGCCATGTCCCAG
62626690 ACATGTCTTACACT
65 ACATGTCTTACACT
62626704 AGTACACACA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 10 0.15
93 32 0.47
94 20 0.29
95 6 0.09
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGA
CATGTCTTACACTGAATATCATCTCGTAC
Found at i:62628036 original size:57 final size:57
Alignment explanation
Indices: 62627948--62628062 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
62627938 CCATAACATC
*
62627948 ACCCCCTCTAAGTGTGGGAACATCAACCTCAAGGTTTGGCATTGCATTGACGGACTG
1 ACCCCCTCCAAGTGTGGGAACATCAACCTCAAGGTTTGGCATTGCATTGACGGACTG
62628005 ACCCCCTCCAAGTGTGGGAACATCAACCTCAAGGTTTGGCATTGCATTGACGGACTG
1 ACCCCCTCCAAGTGTGGGAACATCAACCTCAAGGTTTGGCATTGCATTGACGGACTG
62628062 A
1 A
62628063 GGTTTCTCTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (57 bp):
ACCCCCTCCAAGTGTGGGAACATCAACCTCAAGGTTTGGCATTGCATTGACGGACTG
Found at i:62643793 original size:29 final size:30
Alignment explanation
Indices: 62643761--62643823 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
62643751 TACATACTTT
* *
62643761 ATAGTTCAAGA-GAACTTTCCACATATAAG
1 ATAGTTCAAGACAAACTTCCCACATATAAG
**
62643790 ATAG-TCTTGACAAACTTCCCACATATAAG
1 ATAGTTCAAGACAAACTTCCCACATATAAG
62643819 ATAGT
1 ATAGT
62643824 CCTAGCGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (30 bp):
ATAGTTCAAGACAAACTTCCCACATATAAG
Found at i:62643838 original size:57 final size:57
Alignment explanation
Indices: 62643777--62643994 Score: 258
Period size: 57 Copynumber: 3.8 Consensus size: 57
62643767 CAAGAGAACT
* *
62643777 TTCCACATATAAGATAGTCTTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * * * *
62643834 TTCCACATAGACGATAGTCCTGACGAACTTCTCGCATAAAAGATAGTCTTAGCGGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * * * *
62643891 TTCCACATTTACGATAGTCCTAACATACTTCCTATATATAAGATAGTCCTAGCAGAC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
* * * **
62643948 TTCCACATTTATGATAGCCCTGACAGGCTT-CCACATATAAGATAGTC
1 TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTC
62643995 TTGGAAGACT
Statistics
Matches: 134, Mismatches: 27, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
56 15 0.11
57 119 0.89
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (57 bp):
TTCCACATATACGATAGTCCTGACAAACTTCCCACATATAAGATAGTCCTAGCGGAC
Found at i:62643930 original size:114 final size:113
Alignment explanation
Indices: 62643777--62644014 Score: 289
Period size: 114 Copynumber: 2.1 Consensus size: 113
62643767 CAAGAGAACT
* * * *
62643777 TTCCACATATAAGATAGTCTTGACAAACTTCCCACATATAAGATAGTCCTAGCGGACTTCCACAT
1 TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
* * **
62643842 AGACGATAGTCCTGAC-GAACTTCTCGCATAAAAGATAGTCTTAGCGGAC
66 AGACGATAGCCCTGACAG-ACTTC-CACATAAAAGATAGTCTTAGAAGAC
* * * *
62643891 TTCCACATTTACGATAGTCCTAACATACTTCCTATATATAAGATAGTCCTAGCAGACTTCCACAT
1 TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
** * * * *
62643956 TTATGATAGCCCTGACAGGCTTCCACATATAAGATAGTCTTGGAAGAC
66 AGACGATAGCCCTGACAGACTTCCACATAAAAGATAGTCTTAGAAGAC
62644004 TTCCACATTTA
1 TTCCACATTTA
62644015 TGATCTTTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
113 31 0.30
114 73 0.70
115 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (113 bp):
TTCCACATTTAAGATAGTCCTAACAAACTTCCCACATATAAGATAGTCCTAGCAGACTTCCACAT
AGACGATAGCCCTGACAGACTTCCACATAAAAGATAGTCTTAGAAGAC
Found at i:62643978 original size:28 final size:28
Alignment explanation
Indices: 62643944--62644018 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
62643934 TAGTCCTAGC
62643944 AGACTTCCACATTTATGATAGCCCT-GA
1 AGACTTCCACATTTATGATAGCCCTGGA
* * * * *
62643971 CAGGCTTCCACATATAAGATAGTCTTGGA
1 -AGACTTCCACATTTATGATAGCCCTGGA
62644000 AGACTTCCACATTTATGAT
1 AGACTTCCACATTTATGAT
62644019 CTTTCATTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (28 bp):
AGACTTCCACATTTATGATAGCCCTGGA
Found at i:62650574 original size:15 final size:15
Alignment explanation
Indices: 62650554--62650618 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
62650544 GTATATTTGG
62650554 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
62650569 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
62650584 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
62650599 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62650613 TTTCTT
1 TTTCTT
62650619 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62650586 original size:30 final size:30
Alignment explanation
Indices: 62650552--62650618 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
62650542 TCGTATATTT
62650552 GGTTTCTT-TAT-TCTGGATTTCTTTATTCTG
1 GGTTTCTTCTATCT-TGGATTTCTTTATTC-G
62650582 GGTTT-TTCTATCTTGGATTTCTTTATTCG
1 GGTTTCTTCTATCTTGGATTTCTTTATTCG
*
62650611 GTTTTCTT
1 GGTTTCTT
62650619 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.21
30 25 0.76
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.16, T:0.61
Consensus pattern (30 bp):
GGTTTCTTCTATCTTGGATTTCTTTATTCG
Found at i:62652718 original size:22 final size:22
Alignment explanation
Indices: 62652688--62652759 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
62652678 TATTCTAAAT
*
62652688 TAGATATTATAGATGAAGGAAA
1 TAGAGATTATAGATGAAGGAAA
62652710 TAGAGATTAT---T--AGGCTAAA
1 TAGAGATTATAGATGAAGG--AAA
*
62652729 TTAGATATTATAGATGAAGGAAA
1 -TAGAGATTATAGATGAAGGAAA
62652752 TAGAGATT
1 TAGAGATT
62652760 CGGGCTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
17 3 0.08
19 4 0.10
20 9 0.23
22 16 0.41
23 4 0.10
25 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (22 bp):
TAGAGATTATAGATGAAGGAAA
Found at i:62652719 original size:42 final size:42
Alignment explanation
Indices: 62652673--62652759 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
62652663 AGTGTGACTA
**
62652673 ATTATTATTCTAAATTAGATATTATAGATGAAGGAAATAGAG
1 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
62652715 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
1 ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
62652757 ATT
1 ATT
62652760 CGGGCTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.34
Consensus pattern (42 bp):
ATTATTAGGCTAAATTAGATATTATAGATGAAGGAAATAGAG
Found at i:62653410 original size:50 final size:49
Alignment explanation
Indices: 62653291--62653480 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 49
62653281 TGAGGTCGCA
* * *
62653291 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCACG
* * * **
62653342 TGTGTAGTACTAAGTGCAGTCTACTGCGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
62653392 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
62653441 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
62653481 CCTTGTCTAC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 41 0.35
50 46 0.39
51 30 0.26
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:62656034 original size:15 final size:16
Alignment explanation
Indices: 62656014--62656046 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62656004 AAATATATAT
62656014 TTAAAA-TTAAAAAAA
1 TTAAAATTTAAAAAAA
*
62656029 TTAAAATTTTAAAAAA
1 TTAAAATTTAAAAAAA
62656045 TT
1 TT
62656047 TCTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAATTTAAAAAAA
Found at i:62674971 original size:26 final size:26
Alignment explanation
Indices: 62674935--62674984 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
62674925 TTGACATTAT
62674935 AGGGCTGCTAACACTAGATTCAGATC
1 AGGGCTGCTAACACTAGATTCAGATC
*
62674961 AGGGCTGCTAACACTAGCTTCAGA
1 AGGGCTGCTAACACTAGATTCAGA
62674985 GAATCCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (26 bp):
AGGGCTGCTAACACTAGATTCAGATC
Found at i:62675465 original size:19 final size:20
Alignment explanation
Indices: 62675410--62675472 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
62675400 TCACATGTAT
62675410 ATAAATTAATAAATATAATC
1 ATAAATTAATAAATATAATC
* *
62675430 ATACAATT--CAAACATAAT-
1 ATA-AATTAATAAATATAATC
*
62675448 ATAAGTTAATAAATATAATC
1 ATAAATTAATAAATATAATC
62675468 ATAAA
1 ATAAA
62675473 ATTCCATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 16 0.48
20 7 0.21
21 4 0.12
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAATTAATAAATATAATC
Found at i:62676372 original size:62 final size:62
Alignment explanation
Indices: 62676297--62676416 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
62676287 ACCTGACTAG
*
62676297 TGCATGGTGAACCTTGGGTCGAAAATGACTCACTACGCAGAAAGGCATGGTTTAGAGAGAAC
1 TGCATGGTGAACCTTGGGTCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
** * *
62676359 TGCATGGTGAACCTTGGGTCGGCAATGACTTACTACGCCGAAAAGCATGGTTTAGAGA
1 TGCATGGTGAACCTTGGGTCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGA
62676417 TGCTTTCGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (62 bp):
TGCATGGTGAACCTTGGGTCGAAAATGACTCACTACGCAGAAAAGCATGGTTTAGAGAGAAC
Found at i:62677016 original size:17 final size:18
Alignment explanation
Indices: 62676984--62677028 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
62676974 GTATATAGAT
*
62676984 TTTTAGTTTGTTTGTT-TG
1 TTTTA-TTTTTTTGTTATG
*
62677002 TTTTATTTTTTTGTTATT
1 TTTTATTTTTTTGTTATG
62677020 TTTTATTTT
1 TTTTATTTT
62677029 ATATACCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTTGTTATG
Found at i:62677587 original size:26 final size:27
Alignment explanation
Indices: 62677538--62677589 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
62677528 TTGAAACAAA
*
62677538 ACTAATTGACTAAGATATTTCTAATTT
1 ACTAATTGACTAAGATATTCCTAATTT
62677565 ACTAATT-ACTAATGA-ATTCCTAATT
1 ACTAATTGACTAA-GATATTCCTAATT
62677590 CCCAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (27 bp):
ACTAATTGACTAAGATATTCCTAATTT
Found at i:62681354 original size:49 final size:50
Alignment explanation
Indices: 62681292--62681433 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 50
62681282 CAAAGCTATT
62681292 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATC
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATC
* * * * * *
62681341 TGGTACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGTTATC
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATC
*
62681392 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
62681434 TCACAATAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 35 0.45
50 4 0.05
51 39 0.50
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (50 bp):
TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATC
Found at i:62683092 original size:26 final size:24
Alignment explanation
Indices: 62683048--62683097 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
62683038 ATTTGTTTTA
*
62683048 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
62683072 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
62683098 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:62684898 original size:21 final size:21
Alignment explanation
Indices: 62684872--62684926 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
62684862 ATTCTTCAGT
62684872 GGTATCACGATATCCACTTTA
1 GGTATCACGATATCCACTTTA
* *
62684893 GGTATCACAATATCCACTTTG
1 GGTATCACGATATCCACTTTA
62684914 GGTATCACGATAT
1 GGTATCACGATAT
62684927 TTGTAACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
GGTATCACGATATCCACTTTA
Found at i:62689966 original size:26 final size:27
Alignment explanation
Indices: 62689937--62690001 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
62689927 TTAGCTCTTA
* *
62689937 TGAGCATCCCGATATA-TGGCTCCTTG
1 TGAGCTTCCCGATAAATTGGCTCCTTG
* * *
62689963 TGAGCTTCCCGTTAAATTGGCTCTTTT
1 TGAGCTTCCCGATAAATTGGCTCCTTG
62689990 TGAGCTTCCCGA
1 TGAGCTTCCCGA
62690002 CAGTGCTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
TGAGCTTCCCGATAAATTGGCTCCTTG
Found at i:62699795 original size:29 final size:29
Alignment explanation
Indices: 62699728--62699797 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
62699718 GAAGGAAGCA
62699728 CCTTTGTGGCG-AACTCTACTGAAGAAAGG
1 CCTTTGTGGCGAAACTCTAC-GAAGAAAGG
* *
62699757 CCCTTATGGCGAAACTCTA-GACAGGAAA-G
1 CCTTTGTGGCGAAACTCTACGA-A-GAAAGG
62699786 CCTTTGTGGCGA
1 CCTTTGTGGCGA
62699798 TCTCTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.06
29 21 0.62
30 11 0.32
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (29 bp):
CCTTTGTGGCGAAACTCTACGAAGAAAGG
Found at i:62703305 original size:19 final size:19
Alignment explanation
Indices: 62703271--62703307 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62703261 TTGAACTAGT
**
62703271 ACTTTTTCTACTCTTTTTA
1 ACTTTTTCTAAACTTTTTA
62703290 ACTTTTTCTAAACTTTTT
1 ACTTTTTCTAAACTTTTT
62703308 TTTTGTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (19 bp):
ACTTTTTCTAAACTTTTTA
Found at i:62711135 original size:26 final size:26
Alignment explanation
Indices: 62711075--62711137 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
62711065 TTTTTTATTG
* *
62711075 GTGAACCCCAGTTCACAACTCAACTG
1 GTGAACCCTAGTTCACAACTCAACTA
* *
62711101 GTGAACCCTAGTTCACAACTTACCTA
1 GTGAACCCTAGTTCACAACTCAACTA
62711127 GTGAACCCTAG
1 GTGAACCCTAG
62711138 CTCGCCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (26 bp):
GTGAACCCTAGTTCACAACTCAACTA
Found at i:62716081 original size:17 final size:17
Alignment explanation
Indices: 62716059--62716092 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62716049 TAAAAAATTC
* *
62716059 ATTTATATATTTTTAAA
1 ATTTATAAAATTTTAAA
62716076 ATTTATAAAATTTTAAA
1 ATTTATAAAATTTTAAA
62716093 TTAATAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATAAAATTTTAAA
Found at i:62716178 original size:15 final size:16
Alignment explanation
Indices: 62716158--62716191 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
62716148 TATCCTTTAA
62716158 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
62716173 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
62716189 AAA
1 AAA
62716192 AATACATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:62718649 original size:29 final size:29
Alignment explanation
Indices: 62718603--62718666 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
62718593 TAAGAAATTA
*
62718603 ATATTA-TATATATGAAATATATAAACTT
1 ATATTATTATATATAAAATATATAAACTT
62718631 ATATTATTATATATAAAATATATAAACTT
1 ATATTATTATATATAAAATATATAAACTT
*
62718660 AAATTAT
1 ATATTAT
62718667 AATAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (29 bp):
ATATTATTATATATAAAATATATAAACTT
Found at i:62722443 original size:13 final size:14
Alignment explanation
Indices: 62722401--62722445 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
62722391 TAATAATGAT
62722401 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
62722416 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
62722429 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
62722442 TAAA
1 TAAA
62722446 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:62722512 original size:12 final size:12
Alignment explanation
Indices: 62722495--62722528 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
62722485 AGGAAAAGAA
62722495 AGAAAGAAAAAG
1 AGAAAGAAAAAG
62722507 AGAAAGAAAAAG
1 AGAAAGAAAAAG
62722519 A-AAAGGAAAA
1 AGAAA-GAAAA
62722529 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:62722522 original size:31 final size:31
Alignment explanation
Indices: 62722452--62722523 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
62722442 TAAAACAAAT
* * *
62722452 AAAATAAAAGAAAGAATGAAAATGAAACAGA
1 AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
** *
62722483 GCAGGAAAAGAAAGAAAGAAAAAGAGAA-AGA
1 AAAAGAAAAGAAAGAAAGAAAAAGA-AACAGA
62722514 AAAAGAAAAG
1 AAAAGAAAAG
62722524 GAAAATTTAG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (31 bp):
AAAAGAAAAGAAAGAAAGAAAAAGAAACAGA
Found at i:62722527 original size:16 final size:16
Alignment explanation
Indices: 62722487--62722527 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
62722477 AACAGAGCAG
*
62722487 GAAAA-GAAAGAAAGA
1 GAAAAGGAAAGAAAAA
62722502 -AAAAGAGAAAGAAAAA
1 GAAAAG-GAAAGAAAAA
62722518 GAAAAGGAAA
1 GAAAAGGAAA
62722528 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAAGGAAAGAAAAA
Found at i:62725205 original size:24 final size:25
Alignment explanation
Indices: 62725153--62725205 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
62725143 ATACATGTAT
* *
62725153 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTCTGAAACGGTAA
* *
62725178 GCTCTTACGAGCTGT-AAACGGTAA
1 GCTCATACGAGCTCTGAAACGGTAA
62725202 GCTC
1 GCTC
62725206 CTCCAAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTCTGAAACGGTAA
Found at i:62732989 original size:25 final size:25
Alignment explanation
Indices: 62732924--62732990 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
62732914 GCTATAAATG
* * *
62732924 GTAAGCTCCTCCGAGCTGAATAACT
1 GTAAGCTCATACGAGCTGAATAACA
** * *
62732949 GTAAGCTCATGTGAGCTGAGTATCA
1 GTAAGCTCATACGAGCTGAATAACA
62732974 GTAAGCTCATACGAGCT
1 GTAAGCTCATACGAGCT
62732991 AAAATCGGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATAACA
Found at i:62733158 original size:22 final size:19
Alignment explanation
Indices: 62733104--62733159 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
62733094 ATTCATGGAA
*
62733104 ATTATAGAATTTACAAACAT
1 ATTATACAATTTA-AAACAT
*
62733124 ATTATTCAATTTAAAACAT
1 ATTATACAATTTAAAACAT
62733143 ATAAGTATACAATTTAA
1 AT---TATACAATTTAA
62733160 TTACACGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.27
20 11 0.37
22 11 0.37
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATACAATTTAAAACAT
Found at i:62740990 original size:43 final size:42
Alignment explanation
Indices: 62740909--62741056 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
62740899 CGTACCAATA
** * ** *
62740909 CCATATCTTAGATATGGTCTTACATGTAA-TCTTGTATCGGTG
1 CCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGATG
* * *
62740951 CCAATAGCCCGGTTATGGTCTTACACGAAGTCTCATATCGATG
1 CC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG
* * * *
62740994 CTATATCCCAAATATGGTCTTACACGGAGTCTCAAATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG
62741036 CCATATCCCAGATATGGTCTT
1 CCATATCCCAGATATGGTCTT
62741057 GCACATAATT
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
42 57 0.66
43 29 0.34
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG
Found at i:62743622 original size:26 final size:26
Alignment explanation
Indices: 62743593--62743652 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
62743583 TCCCTTTGAA
* * *
62743593 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
62743619 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
62743647 CCATTC
1 TCATTC
62743653 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:62743638 original size:28 final size:28
Alignment explanation
Indices: 62743607--62743678 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
62743597 TCGATATTTT
*
62743607 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
62743635 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
62743663 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
62743679 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:62745916 original size:24 final size:24
Alignment explanation
Indices: 62745889--62745936 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62745879 AGTAATATAG
62745889 TTATACTTTTTTGTCAAAAATCAA
1 TTATACTTTTTTGTCAAAAATCAA
*
62745913 TTATACTTTTTTTTCAAAAATCAA
1 TTATACTTTTTTGTCAAAAATCAA
62745937 ATGATATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATACTTTTTTGTCAAAAATCAA
Found at i:62745956 original size:27 final size:27
Alignment explanation
Indices: 62745926--62745980 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62745916 TACTTTTTTT
* * *
62745926 TCAAAAATCAAATGATATAACTTTTGA
1 TCAAAAACCAAAAGATATAAATTTTGA
*
62745953 TCAATAACCAAAAGATATAAATTTTGA
1 TCAAAAACCAAAAGATATAAATTTTGA
62745980 T
1 T
62745981 TAATTACACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
TCAAAAACCAAAAGATATAAATTTTGA
Found at i:62746403 original size:26 final size:26
Alignment explanation
Indices: 62746374--62746425 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62746364 CACAAAGCAA
62746374 AATGGTAGCAAATGTTGCTCATTGGT
1 AATGGTAGCAAATGTTGCTCATTGGT
62746400 AATGGTAGCAAATGTTGCTCATTGGT
1 AATGGTAGCAAATGTTGCTCATTGGT
62746426 TGTCTAACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
AATGGTAGCAAATGTTGCTCATTGGT
Found at i:62747504 original size:13 final size:14
Alignment explanation
Indices: 62747481--62747513 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
62747471 TTGATTTCTC
62747481 GAAAT-AGAAATGA
1 GAAATGAGAAATGA
62747494 -AAATGAGAAATGA
1 GAAATGAGAAATGA
62747507 GAAATGA
1 GAAATGA
62747514 ATTCATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (14 bp):
GAAATGAGAAATGA
Found at i:62747506 original size:7 final size:7
Alignment explanation
Indices: 62747481--62747513 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
62747471 TTGATTTCTC
62747481 GAAAT-A
1 GAAATGA
62747487 GAAATGA
1 GAAATGA
62747494 -AAATGA
1 GAAATGA
62747500 GAAATGA
1 GAAATGA
62747507 GAAATGA
1 GAAATGA
62747514 ATTCATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.44
7 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
GAAATGA
Found at i:62748918 original size:68 final size:68
Alignment explanation
Indices: 62748809--62748944 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
62748799 TTCTTCGTTG
* *
62748809 TTCATTGCGACGATTGTACGATTGTTGTGTAAGTTCTATCATTATTTCATTTCGTTTCTGTGAGT
1 TTCATTGCGACGATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
62748874 TTT
66 TTT
62748877 TTCATTGCGACGATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
1 TTCATTGCGACGATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
62748942 TTT
66 TTT
62748945 CATCTTGTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.49
Consensus pattern (68 bp):
TTCATTGCGACGATTGTACGATTGTTGTGTAAGCTCTATCATTATTTCATTCCGTTTCTGTGAGT
TTT
Found at i:62749907 original size:43 final size:43
Alignment explanation
Indices: 62749841--62749926 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
62749831 GAATTGTGAG
*
62749841 TATGTAAATGGATACAAAATATCATAACTGTTGATGACATTGA
1 TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
*
62749884 TATGCAAATGGATACAAAATATCATGACTGTTGATGACATTGA
1 TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
62749927 CCTGTACTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (43 bp):
TATGCAAATGGATACAAAATATCATAACTGTTGATGACATTGA
Found at i:62756860 original size:21 final size:21
Alignment explanation
Indices: 62756813--62756869 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
62756803 AAATATTTCC
62756813 TATTAA-ATAT-TTA-T-AAA
1 TATTAATATATATTATTAAAA
* *
62756830 TTTTAGTATATATTATTAAAA
1 TATTAATATATATTATTAAAA
* *
62756851 TATTAATATAAAATATTAA
1 TATTAATATATATTATTAA
62756870 GTATATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 4 0.13
18 4 0.13
19 3 0.10
20 1 0.03
21 18 0.60
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTAATATATATTATTAAAA
Found at i:62756862 original size:13 final size:14
Alignment explanation
Indices: 62756846--62756874 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62756836 TATATATTAT
62756846 TAAAATATTAA-TA
1 TAAAATATTAAGTA
62756859 TAAAATATTAAGTA
1 TAAAATATTAAGTA
62756873 TA
1 TA
62756875 TATTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAAATATTAAGTA
Found at i:62761213 original size:47 final size:47
Alignment explanation
Indices: 62761150--62761279 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
62761140 GTGTGAATAA
* * * ** *
62761150 TACCTTGATTTGGCTACGGGCCATGATATATGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * * *
62761197 TACCTAGATTTGGCTACAGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
*
62761244 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
62761280 TATCGTTTGT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:62763082 original size:36 final size:36
Alignment explanation
Indices: 62763033--62763107 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
62763023 TTATGGTAAA
62763033 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
1 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
* * *
62763069 TGATTCATGTTGTTTGGTATTGTTTTGGCATGTAAT
1 TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
62763105 TGA
1 TGA
62763108 CTAAGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (36 bp):
TGATCCATATTGTTTGGTATTGTTTTGGCATCTAAT
Found at i:62774424 original size:3 final size:3
Alignment explanation
Indices: 62774418--62774451 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
62774408 AGCATATGTT
*
62774418 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62774452 ATGAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:62775304 original size:16 final size:15
Alignment explanation
Indices: 62775283--62775312 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62775273 GTGAGTTGGA
62775283 TATATATATGTATAAT
1 TATATATA-GTATAAT
62775299 TATATATAGTATAA
1 TATATATAGTATAA
62775313 ATGTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:62776800 original size:18 final size:18
Alignment explanation
Indices: 62776759--62777041 Score: 149
Period size: 18 Copynumber: 15.3 Consensus size: 18
62776749 GAACAATTAT
*
62776759 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
62776777 TCATTCGGTAATAATCAA
1 TTATTCAGTAATAATCAG
*
62776795 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
*
62776813 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---AT--A---ATCAG
* * * *
62776839 TTATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
62776857 TTATTCAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * *
62776874 ATATTCAGTAACAATTAAG
1 TTATTCAGTAATAA-TCAG
* *
62776893 TTATTCAGTAACAGTCA-
1 TTATTCAGTAATAATCAG
** *
62776910 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAATAATCAG
* *
62776929 TTATTCAGTAATGATCAA
1 TTATTCAGTAATAATCAG
*
62776947 TTATTCAGTAATATTCAG
1 TTATTCAGTAATAATCAG
* *
62776965 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAATAATC-AG
* * * * *
62776983 ATATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
* * * * *
62777001 TTATCCAGTAACAGTAAA
1 TTATTCAGTAATAATCAG
62777019 TTATTCAGTAATAATCAG
1 TTATTCAGTAATAATCAG
62777037 TTATT
1 TTATT
62777042 TTATACCTTT
Statistics
Matches: 206, Mismatches: 45, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
17 17 0.08
18 153 0.74
19 18 0.09
21 3 0.01
23 2 0.01
26 13 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:62776974 original size:72 final size:71
Alignment explanation
Indices: 62776840--62777041 Score: 210
Period size: 72 Copynumber: 2.8 Consensus size: 71
62776830 ATTGATCGGT
* * * *
62776840 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAA
1 TATCCAGCAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
62776904 CAGTC-AT
64 CAGTCTAA
* * * *
62776911 TCATTCAGCGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGCAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
62776976 CAGTCTAA
64 CAGTCTAA
* * * * * *
62776984 TATCCAGTAACAGTCAATTATCCAGTAACAGTAAATTATTCAGTAATAATCAGTTATT
1 TATCCAGCAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
62777042 TTATACCTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (71 bp):
TATCCAGCAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:62777215 original size:6 final size:6
Alignment explanation
Indices: 62777204--62777228 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62777194 ATAAATCCGG
62777204 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
62777229 TTCAACACAT
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:62777260 original size:45 final size:45
Alignment explanation
Indices: 62777209--62777318 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
62777199 TCCGGAACAG
* *
62777209 TAACAGTAACAGTAACAGTATTCAACACATAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * *
62777254 TAACAGTAACAATAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
62777299 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
62777319 ATAGTAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:62779235 original size:15 final size:15
Alignment explanation
Indices: 62779217--62779256 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
62779207 ATTTATTTCA
62779217 TAATAAATATCAAT-T
1 TAATAAATAT-AATAT
*
62779232 TAATAAAAATAATAT
1 TAATAAATATAATAT
62779247 TAATAAATAT
1 TAATAAATAT
62779257 TAAATGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAAATATAATAT
Found at i:62783728 original size:18 final size:18
Alignment explanation
Indices: 62783707--62783763 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
62783697 TAATAGTCAG
*
62783707 TTATTCGATAACAATCAA
1 TTATTCAATAACAATCAA
* *
62783725 TTATTCAATAATAACCAA
1 TTATTCAATAACAATCAA
* *
62783743 TTATTCAATATCGATCAA
1 TTATTCAATAACAATCAA
62783761 TTA
1 TTA
62783764 ATCGGTTATC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.37
Consensus pattern (18 bp):
TTATTCAATAACAATCAA
Found at i:62783729 original size:36 final size:36
Alignment explanation
Indices: 62783676--62783971 Score: 158
Period size: 36 Copynumber: 8.0 Consensus size: 36
62783666 TCATTAACAC
* * *
62783676 TCAG-AACAATTATTTATTCAGTAATAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
62783711 TC-GATAACAATCAATTATTCAATAATAACCAATTAT
1 TCAG-TAACAATCAATTATTCAGTAATAATCAGTTAT
* * * * *
62783747 TCAATATCGATCAATTAATCGGTTATCCAGTAA-CAGTTAATTAT
1 TCAGTAACAATCAATTATTCAG-TA---A-TAATCAG----TTAT
* * *
62783791 TTAGTAA-AATCAGA-TATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAATAA-TCAGTTAT
* ** *
62783827 TCAGTAACAGTC-ATTCATTCAGCGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAATAATCAGTTAT
* * *
62783863 TTAGTAATAATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
* * *
62783899 TCAGTAACAGTCTAA-TA-TCTAGTAATAGTCAATTAT
1 TCAGTAACAATC-AATTATTC-AGTAATAATCAGTTAT
* * *
62783935 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
62783971 T
1 T
62783972 TTATACCTTT
Statistics
Matches: 195, Mismatches: 43, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
34 1 0.01
35 7 0.04
36 134 0.69
37 22 0.11
38 2 0.01
39 1 0.01
40 5 0.03
41 3 0.02
42 2 0.01
43 9 0.05
44 9 0.05
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAATAATCAGTTAT
Found at i:62783848 original size:18 final size:18
Alignment explanation
Indices: 62783763--62783971 Score: 120
Period size: 18 Copynumber: 11.6 Consensus size: 18
62783753 TCGATCAATT
* *
62783763 AATCGGTTATCCAGTAAC
1 AATCAGTTATTCAGTAAC
* * * *
62783781 AGTTAATTATTTAGTAA-
1 AATCAGTTATTCAGTAAC
*
62783798 AATCAGATATTCAGTAAC
1 AATCAGTTATTCAGTAAC
*
62783816 AATTAAGTTATTCAGTAAC
1 AA-TCAGTTATTCAGTAAC
* **
62783835 AGTCA-TTCATTCAGCGAC
1 AATCAGTT-ATTCAGTAAC
* *
62783853 AATCAGTTATTTAGTAAT
1 AATCAGTTATTCAGTAAC
* *
62783871 AATCAATTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
*
62783889 ATTCAGTTATTCAGTAAC
1 AATCAGTTATTCAGTAAC
* * *
62783907 AGTC--TAATATCTAGTAAT
1 AATCAGTTAT-TC-AGTAAC
* * * *
62783925 AGTCAATTATCCGGTAAC
1 AATCAGTTATTCAGTAAC
* * *
62783943 AGTCAATTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
62783961 AATCAGTTATT
1 AATCAGTTATT
62783972 TTATACCTTT
Statistics
Matches: 144, Mismatches: 39, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
16 3 0.02
17 16 0.11
18 104 0.72
19 18 0.12
20 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
AATCAGTTATTCAGTAAC
Found at i:62784198 original size:51 final size:48
Alignment explanation
Indices: 62784134--62784276 Score: 154
Period size: 45 Copynumber: 3.0 Consensus size: 48
62784124 AATAAATTCG
62784134 GAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATC-GATAAC
1 GAAC-GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAG-TAAC
*
62784183 G---GTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAAC
1 GAACGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAAC
* * *
62784228 AGTAACGGTAACAGTAACAGTAGTCAGCACA-TAAGTGCCTG-ATCAGTAA
1 -G-AAC-GTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCAGTAA
62784277 GCCGGCAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
45 41 0.51
46 2 0.02
49 1 0.01
50 13 0.16
51 24 0.30
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (48 bp):
GAACGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAAC
Found at i:62784207 original size:45 final size:45
Alignment explanation
Indices: 62784135--62784243 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
62784125 ATAAATTCGG
62784135 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATC-GAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAG-T
* *
62784180 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGT
*
62784225 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
62784244 ACAGTAGTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGT
Found at i:62786206 original size:25 final size:24
Alignment explanation
Indices: 62786178--62786240 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
62786168 AAATATCAAT
62786178 TTAATAAAAATAACATTAATAAATA
1 TTAATAAAAATAACA-TAATAAATA
* *
62786203 TTAAATGTAAAA-ACCATAATAAATA
1 TT-AAT-AAAAATAACATAATAAATA
* *
62786228 ATAATAATAATAA
1 TTAATAAAAATAA
62786241 TTTAATATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 12 0.41
26 6 0.21
27 4 0.14
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (24 bp):
TTAATAAAAATAACATAATAAATA
Found at i:62786857 original size:57 final size:58
Alignment explanation
Indices: 62786766--62786889 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 58
62786756 GCATGCCAAT
* * *
62786766 AGGGATGTGTTTTGTTGCCTTCGGGTTTAACACTT-GTGTGCTCTCAAGTGTGTTT-GG
1 AGGGATGTGATCTCTTGCCTTCGGGTTTAACACTTAG-GTGCTCTCAAGTGTGTTTAGG
* * ***
62786823 AGGGATGTGATCTCTTGCCTTTGGGTTTAGCACTTAGGTGCTCTTTGGTGTGTTTAGG
1 AGGGATGTGATCTCTTGCCTTCGGGTTTAACACTTAGGTGCTCTCAAGTGTGTTTAGG
*
62786881 AGAGATGTG
1 AGGGATGTG
62786890 TTGCAATGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
57 45 0.80
58 11 0.20
ACGTcount: A:0.14, C:0.13, G:0.33, T:0.40
Consensus pattern (58 bp):
AGGGATGTGATCTCTTGCCTTCGGGTTTAACACTTAGGTGCTCTCAAGTGTGTTTAGG
Found at i:62788904 original size:18 final size:19
Alignment explanation
Indices: 62788877--62788914 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
62788867 ATAGTTTACG
*
62788877 TTTTCAAGAT-TTTTGTAA
1 TTTTCAAGATATTTTATAA
*
62788895 TTTTCTAGATATTTTATAA
1 TTTTCAAGATATTTTATAA
62788914 T
1 T
62788915 GTTGCAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTCAAGATATTTTATAA
Found at i:62790452 original size:18 final size:19
Alignment explanation
Indices: 62790402--62790452 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
62790392 GACTATAAAT
*
62790402 TTTTTTAATTTTTTTAATAA
1 TTTTTTAA-GTTTTTAATAA
**
62790422 TTTTCGAAG-TTTTAAT-A
1 TTTTTTAAGTTTTTAATAA
62790439 TTTTTTAAGTTTTT
1 TTTTTTAAGTTTTT
62790453 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
20 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTAAGTTTTTAATAA
Found at i:62790459 original size:18 final size:18
Alignment explanation
Indices: 62790402--62790460 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 18
62790392 GACTATAAAT
62790402 TTTTTTAA-TTTTTTTAA
1 TTTTTTAAGTTTTTTTAA
* **
62790419 TAATTTTCGAAGTTTTAAT-A
1 T--TTTT-TAAGTTTTTTTAA
62790439 TTTTTTAAGTTTTTTTAA
1 TTTTTTAAGTTTTTTTAA
62790457 TTTT
1 TTTT
62790461 AAAAACTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
17 9 0.29
18 9 0.29
19 4 0.13
20 4 0.13
21 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTTAAGTTTTTTTAA
Found at i:62794217 original size:20 final size:20
Alignment explanation
Indices: 62794189--62794226 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62794179 CATACGTTAA
*
62794189 AATTTAGTACCAAGCAGTGC
1 AATTCAGTACCAAGCAGTGC
62794209 AATTCAGTACCAAGCAGT
1 AATTCAGTACCAAGCAGT
62794227 ACCTAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AATTCAGTACCAAGCAGTGC
Found at i:62796787 original size:47 final size:47
Alignment explanation
Indices: 62796718--62796846 Score: 127
Period size: 49 Copynumber: 2.7 Consensus size: 47
62796708 GTATAATACA
* * * **
62796718 GATGCCATGTCCCGAACATGGTCTTACACTGGCTCATC-TATC-AAGTT
1 GATGCCATGTCCAG-ACATGGTCTTACACTGACT-ATCAAATCGAAGCC
*
62796765 GATGCCATGTCCTAGACATGGTCTTACATTGACTATCGAAATCGAAGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTGACTATC-AAATCGAAGCC
* *
62796814 GACGCCATGTCCCAGACATGGTCTTACAATGAC
1 GATGCCATGT-CCAGACATGGTCTTACACTGAC
62796847 ACCTCTCATA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
46 3 0.04
47 29 0.42
48 4 0.06
49 31 0.45
50 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTGACTATCAAATCGAAGCC
Found at i:62803400 original size:19 final size:19
Alignment explanation
Indices: 62803376--62803416 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
62803366 TGATTTATTC
*
62803376 TAAGATTTATCTACCTAGA
1 TAAGATTTATCTACCTAAA
62803395 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
62803414 TAA
1 TAA
62803417 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:62820099 original size:15 final size:15
Alignment explanation
Indices: 62820068--62820113 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
62820058 CTTCTATTTC
62820068 AAAAAAA-AAAAAG-
1 AAAAAAATAAAAAGA
* *
62820081 AAAATAA-AAAGAGA
1 AAAAAAATAAAAAGA
62820095 AAAAAAATAAAAAGA
1 AAAAAAATAAAAAGA
62820110 AAAA
1 AAAA
62820114 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
14 6 0.22
15 10 0.37
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (15 bp):
AAAAAAATAAAAAGA
Found at i:62820101 original size:17 final size:17
Alignment explanation
Indices: 62820069--62820113 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
62820059 TTCTATTTCA
*
62820069 AAAAAAAAAAAGAAAAT
1 AAAAAGAAAAAGAAAAT
62820086 AAAAAGAGAAAA-AAAAT
1 AAAAAGA-AAAAGAAAAT
62820103 AAAAAGAAAAA
1 AAAAAGAAAAA
62820114 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAT
Found at i:62821525 original size:190 final size:190
Alignment explanation
Indices: 62821202--62821781 Score: 846
Period size: 190 Copynumber: 3.0 Consensus size: 190
62821192 TCAAAGTTTG
* *
62821202 GCATCTCCATTTCGACGGAGAGTAAATACATAGCAGATCTAAACTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
62821267 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
* *
62821332 TTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTGTATTGTTAGAGA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
*
62821392 GCATCTCCATTTTGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* *
62821457 AGATCCAAGATGGTTTGGCATCATTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
62821522 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT----T-----A
*
62821587 TCGAAGTTTG
187 --G-AG---A
*
62821597 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-----ACTGAAGC
1 GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * * *
62821657 AAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGT
66 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
* *
62821722 TTTCGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
131 TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
62821782 ATAAATCGAA
Statistics
Matches: 354, Mismatches: 21, Indels: 35
0.86 0.05 0.09
Matches are distributed among these distances:
188 2 0.01
189 1 0.00
190 176 0.50
191 1 0.00
194 1 0.00
196 1 0.00
199 1 0.00
200 118 0.33
201 1 0.00
202 2 0.01
205 50 0.14
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (190 bp):
GCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
Found at i:62821720 original size:200 final size:201
Alignment explanation
Indices: 62821392--62821792 Score: 633
Period size: 200 Copynumber: 2.0 Consensus size: 201
62821382 TTGTTAGAGA
* *
62821392 GCATCTCCATTTTGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
1 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG----TACTGAAGC
* * *
62821457 AGATCCAAGATGGTTTGGCATCATTGTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
62 AAATCCAAGATGGTTTGGCATCATTGTACTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGC
*
62821522 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAA
127 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
62821587 TCGAAGTTTG
192 TCGAAGTTTG
62821597 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-ACTGAAGCAAAT
1 GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTACTGAAGCAAAT
* * *
62821661 CCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGTTTTC
66 CCAAGATGGTTTGGCATCATTGTACTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGCTTTC
* * * * *
62821726 GCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAATAAATCGA
131 ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGA
62821791 AG
196 AG
62821793 AAACAAATTT
Statistics
Matches: 182, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
200 132 0.73
205 50 0.27
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (201 bp):
GCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTACTGAAGCAAAT
CCAAGATGGTTTGGCATCATTGTACTTACAAGGAACAAATCAAAGAAATAGCTGATTTGGCTTTC
ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGA
AGTTTG
Found at i:62822114 original size:261 final size:256
Alignment explanation
Indices: 62821624--62822114 Score: 653
Period size: 261 Copynumber: 1.9 Consensus size: 256
62821614 GAGAGCAGAT
*
62821624 ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTA
1 ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTA
* * * * *
62821689 CAAGGAACAAATCAAAGAAATAGCTGATTTGGTTTTCGCGTGCTTATGCTGAAGCAAATCTAAGA
66 CAAGGAACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
* * * *
62821754 TGATTTGGCATCTCTGTATTGTTAGAGAATAAATCGAAGAAACAAATTTGGCGTCTCTGTATTCG
131 TGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAAATTTAGCGTCTCTGTATTCG
* *
62821819 GCGGAGAACAGATCGAAAATATCAATAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
196 ACGGAGAACAGATCGAAAATATCAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
* * *
62821880 ACATAGCAGATCTGACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCGTCCTTGT
1 ACATAGCAGATCTAACCTTCAGATG-----ACTGAAGCAAATCCAAGATGATTTGGCATCCTTGT
* ** * * *
62821945 -TTTCACAAGGAGA-AAATTGAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGA
61 GCTT-ACAAGGA-ACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAA
* *
62822008 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAGCAGATTTAGCGTCTCT
124 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAAATTTAGCGTCTCT
* ** * *
62822073 GTGTTCGACGGAGAGTAGATCGAAGATATCAACATGACAGTC
189 GTATTCGACGGAGAACAGATCGAAAATATCAACAGGACAGTC
62822115 TTGAGTTTGC
Statistics
Matches: 200, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
256 24 0.12
260 2 0.01
261 173 0.87
262 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (256 bp):
ACATAGCAGATCTAACCTTCAGATGACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGCTTA
CAAGGAACAAATCAAAGAAACAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAAATTTAGCGTCTCTGTATTCG
ACGGAGAACAGATCGAAAATATCAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
Found at i:62822441 original size:14 final size:15
Alignment explanation
Indices: 62822422--62822531 Score: 87
Period size: 18 Copynumber: 6.5 Consensus size: 15
62822412 AATCTTCAAT
62822422 GATATG-CAATCTTA
1 GATATGACAATCTTA
62822436 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
62822453 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
62822471 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
62822490 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
62822507 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
62822525 GATATGA
1 GATATGA
62822532 TATGCAATCT
Statistics
Matches: 85, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 28 0.33
18 29 0.34
19 19 0.22
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:62822466 original size:35 final size:36
Alignment explanation
Indices: 62822420--62822545 Score: 195
Period size: 35 Copynumber: 3.5 Consensus size: 36
62822410 ATAATCTTCA
62822420 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
62822456 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
*
62822493 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
62822528 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
62822546 AGATATGATT
Statistics
Matches: 83, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
35 36 0.43
36 20 0.24
37 27 0.33
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:62822478 original size:54 final size:54
Alignment explanation
Indices: 62822420--62822545 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
62822410 ATAATCTTCA
62822420 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
62822474 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
62822528 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
62822546 AGATATGATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
Found at i:62822552 original size:17 final size:19
Alignment explanation
Indices: 62822420--62822545 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
62822410 ATAATCTTCA
62822420 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822439 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822456 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822474 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822493 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822510 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
62822528 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
62822546 AGATATGATT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:62822571 original size:22 final size:22
Alignment explanation
Indices: 62822420--62822568 Score: 103
Period size: 19 Copynumber: 7.8 Consensus size: 22
62822410 ATAATCTTCA
62822420 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822439 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822456 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822474 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822493 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822510 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
62822528 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
62822550 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
62822569 GATTTAATTT
Statistics
Matches: 118, Mismatches: 2, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
17 32 0.27
18 32 0.27
19 34 0.29
22 8 0.07
23 12 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:62830635 original size:43 final size:43
Alignment explanation
Indices: 62830544--62830664 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
62830534 ATCACATATT
* * * * * * *
62830544 AATGCCACTGTCCTAGACAGGGTCTTACGCGAAATCGATTAAC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAAC
*
62830587 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAAT-AC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CAATAAC
*
62830630 AATGCCAATGTCCCAGACATGGTCTT-CATGTAATC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAATC
62830665 ACATATCGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 8 0.12
43 57 0.85
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAATCCAATAAC
Found at i:62836290 original size:21 final size:21
Alignment explanation
Indices: 62836247--62836312 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
62836237 ATGGCTCCAA
* *
62836247 ACATGGCCATGTGGCTA-TCCC
1 ACATGCCCATGTGACTACT-CC
62836268 ACATGCCCATGTGACTACTCC
1 ACATGCCCATGTGACTACTCC
* **
62836289 ACACGCCGGTGTGACTACTCC
1 ACATGCCCATGTGACTACTCC
62836310 ACA
1 ACA
62836313 CGCCTGTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
ACATGCCCATGTGACTACTCC
Found at i:62836313 original size:21 final size:21
Alignment explanation
Indices: 62836277--62836322 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
62836267 CACATGCCCA
62836277 TGTGACTACTCCACACGCCGG
1 TGTGACTACTCCACACGCCGG
*
62836298 TGTGACTACTCCACACGCCTG
1 TGTGACTACTCCACACGCCGG
62836319 TGTG
1 TGTG
62836323 TCCAACTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTGACTACTCCACACGCCGG
Found at i:62841594 original size:24 final size:25
Alignment explanation
Indices: 62841562--62841614 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
62841552 GATGATCAGT
**
62841562 TTATCAAAAAAGGCTTTGCC-CCAG
1 TTATCAAAAAAGGCTAGGCCTCCAG
* *
62841586 TTATTAAAAGAGGCTAGGCCTCCAG
1 TTATCAAAAAAGGCTAGGCCTCCAG
62841611 TTAT
1 TTAT
62841615 ATGATAAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (25 bp):
TTATCAAAAAAGGCTAGGCCTCCAG
Found at i:62841766 original size:19 final size:18
Alignment explanation
Indices: 62841742--62841777 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
62841732 CCCAAATGGG
62841742 ATTGCATATGTTCATTGAT
1 ATTGCATATGTT-ATTGAT
*
62841761 ATTGCATGTGTTATTGA
1 ATTGCATATGTTATTGA
62841778 AATGGGCCTA
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:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (18 bp):
ATTGCATATGTTATTGAT
Found at i:62844539 original size:44 final size:44
Alignment explanation
Indices: 62844476--62844564 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
62844466 AAATGGGCTG
62844476 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
1 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
62844520 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
1 CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
62844564 C
1 C
62844565 ATTTTTCCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (44 bp):
CTATATTCTATTTGTGAATCTAGAGATGATGTCTTCTTCGATAA
Found at i:62847638 original size:21 final size:21
Alignment explanation
Indices: 62847614--62847737 Score: 92
Period size: 21 Copynumber: 5.8 Consensus size: 21
62847604 GGTCATTAGT
*
62847614 GTTTGTTAATTAGGGTTTATG
1 GTTTATTAATTAGGGTTTATG
* *
62847635 GTTTGTTAAATTAGGGTTAATG
1 GTTTATT-AATTAGGGTTTATG
*
62847657 ATTTTATT-ATTAGGGTTT-TAG
1 -GTTTATTAATTAGGGTTTAT-G
* *
62847678 TGTTTATAAATTAGGGTTTAAG
1 -GTTTATTAATTAGGGTTTATG
* *
62847700 GTTTATTAATTTAAGGTTAATG
1 GTTTATTAA-TTAGGGTTTATG
*
62847722 ATTTTATT-ATTAGGGT
1 -GTTTATTAATTAGGGT
62847738 ATTAGGATAG
Statistics
Matches: 82, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
20 1 0.01
21 36 0.44
22 34 0.41
23 11 0.13
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.51
Consensus pattern (21 bp):
GTTTATTAATTAGGGTTTATG
Found at i:62847649 original size:22 final size:21
Alignment explanation
Indices: 62847621--62847726 Score: 72
Period size: 22 Copynumber: 4.9 Consensus size: 21
62847611 AGTGTTTGTT
62847621 AATTAGGGTTTATGGTTTGTTA
1 AATTAGGGTTTATGGTTT-TTA
* *
62847643 AATTAGGGTTAAT-GATTTTA
1 AATTAGGGTTTATGGTTTTTA
* *
62847663 TTATTAGGGTTT-TAGTGTTTATA
1 -AATTAGGGTTTAT-G-GTTTTTA
*
62847686 AATTAGGGTTTAAGGTTTATTA
1 AATTAGGGTTTATGGTTT-TTA
* * * *
62847708 ATTTAAGGTTAATGATTTT
1 AATTAGGGTTTATGGTTTT
62847727 ATTATTAGGG
Statistics
Matches: 64, Mismatches: 14, Indels: 13
0.70 0.15 0.14
Matches are distributed among these distances:
20 4 0.06
21 17 0.27
22 38 0.59
23 5 0.08
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (21 bp):
AATTAGGGTTTATGGTTTTTA
Found at i:62847718 original size:65 final size:65
Alignment explanation
Indices: 62847548--62847742 Score: 257
Period size: 65 Copynumber: 3.0 Consensus size: 65
62847538 TTTTTAAGTA
* * * *
62847548 TTTATTAATTAGGTTTTTAGGGTTTGTTAAATTATGGTTAA-GAATTTTATTATTATGGTCATTA
1 TTTATTAATTAGG-GTTTAAGGTTTGTTAAATTAAGGTTAATG-ATTTTATTATTAGGGT-ATTA
62847612 GTG
63 GTG
* * * *
62847615 TTTGTTAATTAGGGTTTATGGTTTGTTAAATTAGGGTTAATGATTTTATTATTAGGGTTTTAGTG
1 TTTATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTATTAGTG
* * *
62847680 TTTATAAATTAGGGTTTAAGGTTTATTAATTTAAGGTTAATGATTTTATTATTAGGGTATTAG
1 TTTATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTATTAG
62847743 GATAGGGTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
65 62 0.54
66 39 0.34
67 13 0.11
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.51
Consensus pattern (65 bp):
TTTATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTATTAGTG
Found at i:62847755 original size:128 final size:127
Alignment explanation
Indices: 62847494--62847759 Score: 274
Period size: 128 Copynumber: 2.1 Consensus size: 127
62847484 AAAGTGTTTA
* * *
62847494 ATTAGGGTTTATTGTTTATTAAATTAGAGTTTTGGATTTTATTATTTTTAAGTATTTATTAATTA
1 ATTAGGGTTTATGGTTTATTAAATTAGAGTTATGGATTTTATTATTTTTAAGTATTTATAAATTA
* * * * * ** *
62847559 GGTTTTTAGGGTTTGTTAAATTATGGTTAAGAATTTTATTATTATGGTCATTAGTGTTTGTT
66 GGTGTTTAAGGTTTATTAAATTAAGGTTAAGAATTTTATTATTAGGGTCATTAGTGTAGGGT
* * * *
62847621 AATTAGGGTTTATGGTTTGTTAAATTAGGGTTAAT-GATTTTATTATTAGGGTTTTAGTGTTTAT
1 -ATTAGGGTTTATGGTTTATTAAATTAGAGTT-ATGGATTTTATTATT----TTTAAGTATTTAT
*
62847685 AAATTAGG-GTTTAAGGTTTATTAATTTAAGGTTAATG-ATTTTATTATTAGGGT-ATTAG-GAT
60 AAATTAGGTGTTTAAGGTTTATTAAATTAAGGTTAA-GAATTTTATTATTAGGGTCATTAGTG-T
62847746 AGGGT
123 AGGGT
62847751 -TTAGGGTTT
1 ATTAGGGTTT
62847760 TAATTGATTA
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
128 49 0.43
129 2 0.02
130 8 0.07
131 37 0.32
132 19 0.17
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (127 bp):
ATTAGGGTTTATGGTTTATTAAATTAGAGTTATGGATTTTATTATTTTTAAGTATTTATAAATTA
GGTGTTTAAGGTTTATTAAATTAAGGTTAAGAATTTTATTATTAGGGTCATTAGTGTAGGGT
Found at i:62848552 original size:31 final size:32
Alignment explanation
Indices: 62848514--62848580 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
62848504 ATAGAAGGTG
*
62848514 CACTAAATGA-ATACTGGTCGCTATGTCACAA
1 CACTAAATGAGATACTGATCGCTATGTCACAA
*
62848545 CACTAAATGAGTATACTGATTGCTATGTCACAA
1 CACTAAATGAG-ATACTGATCGCTATGTCACAA
62848578 CAC
1 CAC
62848581 AAGTGCTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 10 0.31
33 22 0.69
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (32 bp):
CACTAAATGAGATACTGATCGCTATGTCACAA
Found at i:62852485 original size:16 final size:17
Alignment explanation
Indices: 62852461--62852493 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62852451 CAAAATCTAA
*
62852461 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
62852477 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
62852494 ACAAGGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:62856494 original size:25 final size:25
Alignment explanation
Indices: 62856458--62856510 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
62856448 CACACTGCCA
*
62856458 TGTCACACGCCCGTGTGCCAAGCCG
1 TGTCACACGCCCGTGTACCAAGCCG
* *
62856483 TGTCACATGCCCGTGTACCAGGCCG
1 TGTCACACGCCCGTGTACCAAGCCG
62856508 TGT
1 TGT
62856511 AACTCTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (25 bp):
TGTCACACGCCCGTGTACCAAGCCG
Found at i:62857809 original size:20 final size:20
Alignment explanation
Indices: 62857784--62857826 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
62857774 TGAAAAGCTG
62857784 TTTTTACATATATTAATAAA
1 TTTTTACATATATTAATAAA
*
62857804 TTTTTATATATATTAATAAA
1 TTTTTACATATATTAATAAA
62857824 TTT
1 TTT
62857827 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTACATATATTAATAAA
Found at i:62860814 original size:16 final size:17
Alignment explanation
Indices: 62860790--62860822 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62860780 CAAAACCTAA
*
62860790 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
62860806 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
62860823 ACAAGAGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:62871722 original size:42 final size:42
Alignment explanation
Indices: 62871676--62871757 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
62871666 GAATTAAAGC
*
62871676 AAATATACTAGTACATAAGTGAATCATCTGG-TAAACCAAAAT
1 AAATATACTAGTACATAAGTAAATCATC-GGATAAACCAAAAT
*
62871718 AAATATACTAGTACGTAAGTAAATCATCGGATAAACCAAA
1 AAATATACTAGTACATAAGTAAATCATCGGATAAACCAAA
62871758 GTATAAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (42 bp):
AAATATACTAGTACATAAGTAAATCATCGGATAAACCAAAAT
Found at i:62876560 original size:18 final size:18
Alignment explanation
Indices: 62876521--62876562 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62876511 ATAGTTCTTA
* *
62876521 GTTTTATTTTATTTTTGT
1 GTTTTATTTTATTTATGG
62876539 GTTTT-TTTTAGTTTATGG
1 GTTTTATTTTA-TTTATGG
62876557 GTTTTA
1 GTTTTA
62876563 AACTCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.71
Consensus pattern (18 bp):
GTTTTATTTTATTTATGG
Found at i:62883465 original size:35 final size:35
Alignment explanation
Indices: 62883419--62883489 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
62883409 ATACCGTACT
62883419 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
1 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
62883454 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
1 CCATCAATAGTACACTTCAGAGAACGATGTACAAC
62883489 C
1 C
62883490 AACATACACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (35 bp):
CCATCAATAGTACACTTCAGAGAACGATGTACAAC
Found at i:62885276 original size:22 final size:22
Alignment explanation
Indices: 62885248--62885289 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
62885238 ATCTCAGACT
62885248 TTACACCATATTTCAAATTCCA
1 TTACACCATATTTCAAATTCCA
*
62885270 TTACACCATATTTCAGATTC
1 TTACACCATATTTCAAATTC
62885290 ATCAGTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (22 bp):
TTACACCATATTTCAAATTCCA
Found at i:62885501 original size:25 final size:24
Alignment explanation
Indices: 62885473--62885560 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
62885463 GATAACACGT
*
62885473 CACAAAGTCTTTCCACAAGATTAGC
1 CACAAAGGCTTTCCA-AAGATTAGC
* **
62885498 CACAAAGGC-TTCCTAAATAACATGC
1 CACAAAGGCTTTCC-AAAGATTA-GC
62885523 CACAAAGGCTTTCCATAAGATTAGC
1 CACAAAGGCTTTCCA-AAGATTAGC
62885548 CACAAAGG-TTTCC
1 CACAAAGGCTTTCC
62885561 CAAGTAACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
24 13 0.25
25 31 0.60
26 8 0.15
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (24 bp):
CACAAAGGCTTTCCAAAGATTAGC
Found at i:62885554 original size:50 final size:50
Alignment explanation
Indices: 62885414--62885560 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 50
62885404 GATTTTCTAG
* * * * * * * *
62885414 ATAACACGCCACGAATGCTTTCCACAAGGTTAACCATAAAAGCTTTCTAG
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
* *
62885464 ATAACACGTCACAAAGTCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
* * *
62885514 ATAACATGCCACAAAGGCTTTCCATAAGATTAGCCACAAAGGTTTCC
1 ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCC
62885561 CAAGTAACCT
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.23
Consensus pattern (50 bp):
ATAACACGCCACAAAGGCTTTCCACAAGATTAGCCACAAAGGCTTCCTAA
Found at i:62888810 original size:93 final size:93
Alignment explanation
Indices: 62888700--62888870 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62888690 GCCCCTAAGT
* * *
62888700 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
62888765 CGAGTTCGGATGCCTAGTTACATATCAC
66 CGAGTTCGGATGCCTAGTTACATATCAC
* **
62888793 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
62888858 CGAGTTCGGATGC
66 CGAGTTCGGATGC
62888871 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATATCAC
Found at i:62888867 original size:46 final size:46
Alignment explanation
Indices: 62888699--62888867 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
62888689 CGCCCCTAAG
* * *
62888699 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
62888745 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATATCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATA-AA
* **
62888792 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
62888838 TGAACTCGAACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
62888868 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 61 0.59
47 34 0.33
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:62905055 original size:27 final size:27
Alignment explanation
Indices: 62905024--62905080 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
62905014 CAGTATGTCA
*
62905024 TTAACATATAAAACCAAGTATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
62905051 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
62905078 TTA
1 TTA
62905081 CTCCCACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:62905073 original size:12 final size:12
Alignment explanation
Indices: 62905029--62905076 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
62905019 TGTCATTAAC
62905029 ATATAAAACCAA
1 ATATAAAACCAA
* *
62905041 GTATAAAACTTTAA
1 ATATAAAAC--CAA
62905055 CATATAAAACCAA
1 -ATATAAAACCAA
62905068 ATATAAAAC
1 ATATAAAAC
62905077 TTTACTCCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 17 0.59
13 2 0.07
14 2 0.07
15 8 0.28
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:62915829 original size:19 final size:19
Alignment explanation
Indices: 62915783--62915829 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
62915773 ATCGGAACGT
*
62915783 AAAGTGCATATTGGAGCAC
1 AAAGTGCATACTGGAGCAC
*
62915802 AAAGCGCATACTGGCA-CAC
1 AAAGTGCATACTGG-AGCAC
*
62915821 GAAGTGCAT
1 AAAGTGCAT
62915830 CCTGACGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (19 bp):
AAAGTGCATACTGGAGCAC
Found at i:62919139 original size:26 final size:26
Alignment explanation
Indices: 62919087--62919135 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
62919077 CTCAATTTGA
62919087 TAAAAAGGACTAAATCGCGTAAAGTG
1 TAAAAAGGACTAAATCGCGTAAAGTG
62919113 TAAAAAGGACTAAATCGC-TAAAG
1 TAAAAAGGACTAAATCGCGTAAAG
62919136 GTGTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.18
Consensus pattern (26 bp):
TAAAAAGGACTAAATCGCGTAAAGTG
Found at i:62919258 original size:17 final size:16
Alignment explanation
Indices: 62919236--62919282 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
62919226 TTGTAAATTG
62919236 AATTAATTATAAAGGTT
1 AATTAATTATAAAGG-T
*
62919253 AATTAAGTA-AATAGGT
1 AATTAATTATAA-AGGT
62919269 AATTAATTGATAAA
1 AATTAATT-ATAAA
62919283 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.40
17 13 0.52
18 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
AATTAATTATAAAGGT
Found at i:62921064 original size:23 final size:22
Alignment explanation
Indices: 62921025--62921078 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
62921015 AAATTAGGTG
*
62921025 ATTTGTGAATATGAAATTGAT-AT
1 ATTT-TGAATAGGAAATT-ATGAT
*
62921048 GTTTTGAATAGGTAAATTATGAT
1 ATTTTGAATAGG-AAATTATGAT
62921071 ATTTTGAA
1 ATTTTGAA
62921079 CATTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (22 bp):
ATTTTGAATAGGAAATTATGAT
Done.