Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 109 of 276
Found at i:34529602 original size:82 final size:81
Alignment explanation
Indices: 34529489--34529644 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34529479 AAATTGTACA
* *
34529489 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34529553 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34529570 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34529635 TGCGAGTTGA
65 TGCGAATTGA
34529645 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34529656 original size:82 final size:81
Alignment explanation
Indices: 34529485--34529665 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34529475 GATTAAATTG
* *
34529485 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34529550 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34529566 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34529630 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34529648 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34529666 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34529676 original size:27 final size:27
Alignment explanation
Indices: 34529570--34529676 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
34529560 TGACCATGCG
* * * *
34529570 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
34529598 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
34529625 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
34529652 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
34529677 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:34537706 original size:27 final size:27
Alignment explanation
Indices: 34537675--34537852 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34537665 TAAATTGTAC
34537675 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34537702 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34537728 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34537756 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34537784 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34537811 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34537838 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34537853 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34537789 original size:82 final size:81
Alignment explanation
Indices: 34537676--34537831 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34537666 AAATTGTACA
* *
34537676 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34537740 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34537757 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34537822 TGCGAGTTGA
65 TGCGAATTGA
34537832 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34537843 original size:82 final size:81
Alignment explanation
Indices: 34537672--34537852 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34537662 GATTAAATTG
* *
34537672 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34537737 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34537753 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34537817 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34537835 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34537853 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34551021 original size:7 final size:7
Alignment explanation
Indices: 34551009--34551033 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34550999 ATATATTTGG
34551009 ATTTAAA
1 ATTTAAA
34551016 ATTTAAA
1 ATTTAAA
34551023 ATTTAAA
1 ATTTAAA
34551030 ATTT
1 ATTT
34551034 TTTATTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:34554280 original size:58 final size:59
Alignment explanation
Indices: 34554176--34554288 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 59
34554166 AGTGATTATC
* * *
34554176 TTAATATTAAATTTAATTTAATATTTATCTACATAAACATTCTATTATTTTAATAAGAA
1 TTAATATTAAATTTAATATAATATTTATCTACATAAACATTATATTAATTTAATAAGAA
**
34554235 TTAATATTAAA-TTAATATAATATTTATCTTGAT-AACTATTATATTAATTTAATA
1 TTAATATTAAATTTAATATAATATTTATCTACATAAAC-ATTATATTAATTTAATA
34554289 TTATAGTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 3 0.06
58 34 0.71
59 11 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATATAATATTTATCTACATAAACATTATATTAATTTAATAAGAA
Found at i:34556989 original size:18 final size:18
Alignment explanation
Indices: 34556938--34556990 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
34556928 CTCTCGTCCT
**
34556938 CTAAGGGAAATTAGAAAG
1 CTAAGGGAAAGAAGAAAG
* *
34556956 TTAAGAGG-AAGCAGAAAG
1 CTAAG-GGAAAGAAGAAAG
34556974 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
34556991 CAGACTAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.30, T:0.11
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:34558768 original size:19 final size:17
Alignment explanation
Indices: 34558734--34558778 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
34558724 TAGTACAATG
34558734 GGCCCACACACTTGTGT
1 GGCCCACACACTTGTGT
34558751 GGCCCACACACTTGTGT
1 GGCCCACACACTTGTGT
*
34558768 GGCCTACACAC
1 GGCCCACACAC
34558779 CCAGATTGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (17 bp):
GGCCCACACACTTGTGT
Found at i:34563985 original size:37 final size:36
Alignment explanation
Indices: 34563922--34564029 Score: 93
Period size: 37 Copynumber: 3.1 Consensus size: 36
34563912 ATTCCAAAAA
*
34563922 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAAATT
* * *
34563958 TAATACTTATCTTAATAGTATT-TTATTAATTTAATTT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAAATT
* * *
34563995 TAAAATGA--TT-AT-G-TTAATATTAAATTTAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAAATT
34564026 TAAT
1 TAAT
34564030 GTTTATTTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
30 2 0.03
31 14 0.24
32 1 0.02
33 2 0.03
34 2 0.03
36 7 0.12
37 28 0.48
38 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAAATT
Found at i:34564087 original size:59 final size:59
Alignment explanation
Indices: 34564008--34564121 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
34563998 AATGATTATG
* * *
34564008 TTAATATTAAATTTAATTTAATGTTTAT-TTACATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATATTTATCTT-CATAAACATTATATTAATTTAATAAGAT
* *
34564067 TTAATATTAAATCTT-ATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAAT-TTAATTTAATATTTATCTTCATAAACATTATATTAATTTAATA
34564122 TTAAAGTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 44 0.92
60 4 0.08
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTTAATTTAATATTTATCTTCATAAACATTATATTAATTTAATAAGAT
Found at i:34564121 original size:16 final size:16
Alignment explanation
Indices: 34564065--34564124 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
34564055 TTTTAATAAG
* *
34564065 ATTTAATATTAAATCTT
1 ATTTAATATTATAT-TA
* *
34564082 ATTTAATATTTATCTTG
1 ATTTAATA-TTATATTA
*
34564099 A-TAAATATTATATTA
1 ATTTAATATTATATTA
34564114 ATTTAATATTA
1 ATTTAATATTA
34564125 AAGTAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.21
16 13 0.38
17 10 0.29
18 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:34573986 original size:30 final size:30
Alignment explanation
Indices: 34573952--34574014 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
34573942 ATTTATTTTA
34573952 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
34573982 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
34574012 TTG
1 TTG
34574015 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:34575234 original size:26 final size:24
Alignment explanation
Indices: 34575205--34575252 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
34575195 TTAAATAAAA
* *
34575205 ATTTTAAAATATAATAAATCAAATGC
1 ATTTAAAAACATAA-AAA-CAAATGC
34575231 ATTTAAAAACATAAAAACAAAT
1 ATTTAAAAACATAAAAACAAAT
34575253 ATTAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATGC
Found at i:34575729 original size:14 final size:14
Alignment explanation
Indices: 34575710--34575747 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
34575700 GTTTGCCAGT
*
34575710 AAAATGTTTTCCGA
1 AAAATGATTTCCGA
34575724 AAAATGATTTCCGA
1 AAAATGATTTCCGA
34575738 AAAATGATTT
1 AAAATGATTT
34575748 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCCGA
Found at i:34589812 original size:20 final size:21
Alignment explanation
Indices: 34589755--34589816 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
34589745 TCTTTATTTT
34589755 AAAATAGTTTAACTTTGATTGAA
1 AAAATA-TTTAAC-TTGATTGAA
34589778 AAAATATTCTAACTTGATTGAA
1 AAAATATT-TAACTTGATTGAA
**
34589800 ACCAT-TTTAACTTGATT
1 AAAATATTTAACTTGATT
34589817 TAAAGGTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 10 0.28
21 2 0.06
22 14 0.39
23 10 0.28
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (21 bp):
AAAATATTTAACTTGATTGAA
Found at i:34590120 original size:19 final size:19
Alignment explanation
Indices: 34590096--34590133 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34590086 ATTTTATGAA
34590096 TAAAAAATTGAAATTCATT
1 TAAAAAATTGAAATTCATT
*
34590115 TAAAAAATTGACATTCATT
1 TAAAAAATTGAAATTCATT
34590134 GTTACTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAAAAATTGAAATTCATT
Found at i:34592165 original size:9 final size:9
Alignment explanation
Indices: 34592151--34592175 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34592141 CTTAGACCAT
34592151 AATGGGCCG
1 AATGGGCCG
34592160 AATGGGCCG
1 AATGGGCCG
34592169 AATGGGC
1 AATGGGC
34592176 TCGCTTGTGT
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:0.24, C:0.20, G:0.44, T:0.12
Consensus pattern (9 bp):
AATGGGCCG
Found at i:34592588 original size:27 final size:27
Alignment explanation
Indices: 34592492--34592603 Score: 70
Period size: 27 Copynumber: 4.1 Consensus size: 27
34592482 CAAACTATTT
34592492 AAATTACCAAAATA-CCCT-TGAGT-TA
1 AAATTACCAAAATACCCCTAT-AGTGTA
** * *
34592517 TGAAATTACTGAAATACCCCCA-ACTTGTA
1 --AAATTACCAAAATACCCCTATA-GTGTA
* *
34592546 AAATTATCAAAATACCCTTATAGTGTA
1 AAATTACCAAAATACCCCTATAGTGTA
* * * *
34592573 AAATTACCGAACTACCCCTGTAGGGTA
1 AAATTACCAAAATACCCCTATAGTGTA
34592600 AAAT
1 AAAT
34592604 GACTTTTTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
27 57 0.89
28 5 0.08
29 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTATAGTGTA
Found at i:34594945 original size:24 final size:24
Alignment explanation
Indices: 34594882--34594945 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
34594872 ATGGGAGGTT
* *
34594882 GGAGTGATTTATGGAGTGTATCAT
1 GGAGTGATTTATGGAGTGAATCAA
*
34594906 GGAGAGATATTA-GGAG-GAAATCAA
1 GGAGTGAT-TTATGGAGTG-AATCAA
34594930 GGAGTGATTTATGGAG
1 GGAGTGATTTATGGAG
34594946 AGATTTGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (24 bp):
GGAGTGATTTATGGAGTGAATCAA
Found at i:34595403 original size:27 final size:27
Alignment explanation
Indices: 34595346--34595406 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
34595336 TTGCCACCTT
* *
34595346 GTAAAATTACCGAAATACCCTTGCAGT
1 GTAAAATTACCGAAATACCCCTGCAGG
* **
34595373 GTAAAATTACCGAACTACCCCTGTTGG
1 GTAAAATTACCGAAATACCCCTGCAGG
34595400 GTAAAAT
1 GTAAAAT
34595407 GACTTTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGCAGG
Found at i:34598195 original size:20 final size:20
Alignment explanation
Indices: 34598153--34598201 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34598143 AACTCAATAT
* *
34598153 GTATCGATATTTTTAAGAGG
1 GTATCGATAATTTTAAAAGG
* *
34598173 GTATAGATAATTTTAAAATG
1 GTATCGATAATTTTAAAAGG
34598193 GTATCGATA
1 GTATCGATA
34598202 CCAAATCAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATAATTTTAAAAGG
Found at i:34617827 original size:43 final size:41
Alignment explanation
Indices: 34617722--34617828 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 41
34617712 TATGTGTCAA
* * *
34617722 ACCATGTCTGGGACGTTGGCATCATATTTGATTTCATGTAAG
1 ACCACGTCT-GGAAGTTGGCATCATATTTGATTACATGTAAG
34617764 ACC-CTGTCTGGAACAG-TGGCATCGATATTTGATTACATGTAAG
1 ACCAC-GTCTGG-A-AGTTGGCATC-ATATTTGATTACATGTAAG
*
34617807 ACCACGTCTAGGATGTTGGCAT
1 ACCACGTCT-GGAAGTTGGCAT
34617829 TGTATGAGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
41 2 0.04
42 16 0.30
43 33 0.61
44 3 0.06
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
ACCACGTCTGGAAGTTGGCATCATATTTGATTACATGTAAG
Found at i:34618722 original size:13 final size:13
Alignment explanation
Indices: 34618700--34618733 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
34618690 CTGAACTTCC
*
34618700 TCACATGGGCGTG
1 TCACACGGGCGTG
34618713 TCACACGGGCGTG
1 TCACACGGGCGTG
34618726 TCACACGG
1 TCACACGG
34618734 CCATGTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:34621571 original size:25 final size:25
Alignment explanation
Indices: 34621543--34621591 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34621533 AAAGAGTACA
*
34621543 AACCATGGGTGCCATACCCCAATGT
1 AACCACGGGTGCCATACCCCAATGT
*
34621568 AACCACGGGTGCCATACCCTAATG
1 AACCACGGGTGCCATACCCCAATG
34621592 CAACAAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (25 bp):
AACCACGGGTGCCATACCCCAATGT
Found at i:34623025 original size:55 final size:55
Alignment explanation
Indices: 34622938--34623072 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 55
34622928 GACATGGCTA
* ** * *
34622938 TGGGCGAACCTGCCAAAACAACATGGGAGTGTGACACACCCGTG-CCTTGAAACC-G
1 TGGGCGAACCTGTCAAATTAACACGGGAGTGTGACACACCCGTGCCCAT--AACCTG
* * ** *
34622993 TGGGCGAACCTGTCAAATTAGCACGGGCGTGTGACATGCCCGTGCCCATCACCTG
1 TGGGCGAACCTGTCAAATTAACACGGGAGTGTGACACACCCGTGCCCATAACCTG
*
34623048 TGGGCAAACCTGTCAAATTAACACG
1 TGGGCGAACCTGTCAAATTAACACG
34623073 AGCATGGACC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.05
55 60 0.91
56 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.18
Consensus pattern (55 bp):
TGGGCGAACCTGTCAAATTAACACGGGAGTGTGACACACCCGTGCCCATAACCTG
Found at i:34625838 original size:20 final size:20
Alignment explanation
Indices: 34625810--34625854 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
34625800 TTTTTTAGCT
*
34625810 TGAGTGTTAATTCCATATTC
1 TGAGAGTTAATTCCATATTC
34625830 TGAGAGTTAATTCCATATTC
1 TGAGAGTTAATTCCATATTC
34625850 TGAGA
1 TGAGA
34625855 AAAAGCTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (20 bp):
TGAGAGTTAATTCCATATTC
Found at i:34628742 original size:34 final size:34
Alignment explanation
Indices: 34628699--34628767 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
34628689 GGTACGAGTG
*
34628699 TTCGATAAATTGTCTTTGAATCCAGATGAATGCA
1 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
34628733 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
1 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
34628767 T
1 T
34628768 AAAATCTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (34 bp):
TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
Found at i:34637177 original size:39 final size:39
Alignment explanation
Indices: 34637133--34637443 Score: 568
Period size: 39 Copynumber: 8.0 Consensus size: 39
34637123 ATTATATTAT
* *
34637133 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34637172 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34637211 CAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34637250 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34637289 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34637328 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34637367 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34637406 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34637444 TCAGTGTCTT
Statistics
Matches: 264, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 264 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:34643107 original size:39 final size:39
Alignment explanation
Indices: 34643053--34643324 Score: 508
Period size: 39 Copynumber: 7.0 Consensus size: 39
34643043 ATTATATTAT
*
34643053 CAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34643092 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34643131 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34643170 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34643209 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34643248 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34643287 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34643325 TCAGTGTCTT
Statistics
Matches: 228, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 228 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:34646128 original size:27 final size:27
Alignment explanation
Indices: 34646105--34646337 Score: 231
Period size: 27 Copynumber: 8.6 Consensus size: 27
34646095 AAGTACCATT
34646105 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
* **
34646132 GATTTACAAAATTACAATTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
* **
34646159 GATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
* * * *
34646186 AATTTATAGAATTA-TCATTTTATCCTC
1 GATTTACAGAATTACT-GTTTTACCCTC
*
34646213 GATTTACAAAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTC
* * *
34646240 GATTTATAGAATTA-TGATTTTACTCTT
1 GATTTACAGAATTACTG-TTTTACCCTC
*
34646267 GATTTACAGAATTA-TCGTTTTACCCTT
1 GATTTACAGAATTACT-GTTTTACCCTC
* *
34646294 GATTTACAGAACTA-TCGTTTTACCCTT
1 GATTTACAGAATTACT-GTTTTACCCTC
* *
34646321 GTTTTACAAAATTACTG
1 GATTTACAGAATTACTG
34646338 AAATACCCTT
Statistics
Matches: 177, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 172 0.97
28 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (27 bp):
GATTTACAGAATTACTGTTTTACCCTC
Found at i:34646334 original size:81 final size:81
Alignment explanation
Indices: 34646098--34646319 Score: 286
Period size: 81 Copynumber: 2.7 Consensus size: 81
34646088 ATTACCAAAG
* *
34646098 TACCATTGATTTACAGAATTA-CTGTTTTACCCTCGATTTACAAAATTACAATTTTACCCTCGAT
1 TACCCTTGATTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCGAT
34646162 TTATAGAATTACCATTT
65 TTATAGAATTACCATTT
** * * * *
34646179 TACCCTCAATTTATAGAATTATCATTTTATCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCGATT
**
34646244 TATAGAATTATGATTT
66 TATAGAATTACCATTT
* * * *
34646260 TACTCTTGATTTACAGAATTATCGTTTTACCCTTGATTTACAGAACTATC-GTTTTACCCT
1 TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTA-CAGTTTTACCCT
34646320 TGTTTTACAA
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 118 0.98
82 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:34646344 original size:27 final size:27
Alignment explanation
Indices: 34646314--34646480 Score: 113
Period size: 27 Copynumber: 6.2 Consensus size: 27
34646304 ACTATCGTTT
* **
34646314 TACCCTTGTTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
34646341 TACCCTTGGTTTACGAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
34646368 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * ** *
34646395 TACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
34646422 TACTCC-TAGTTTGTAAAATTACCAAAA
1 TAC-CCTTGGTTTACAAAATTACCAAAA
* * * **
34646449 TACCCCTAGCTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
34646476 TACCC
1 TACCC
34646481 CTGATTTGTG
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.05
27 109 0.91
28 5 0.04
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:34646399 original size:81 final size:80
Alignment explanation
Indices: 34646328--34646480 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
34646318 CTTGTTTTAC
* * *
34646328 AAAATTACTGAAATAC-CCTTGGTT-TACGAAATTACCAAAATACCCTCGATC-AGTAAAATTAC
1 AAAATTACTAAAATACTCCTAGGTTGTA--AAATTACCAAAATACCC-CGAGCTAGTAAAATTAC
34646390 CAAAATACCCCTAGTTTGT
63 CAAAATA-CCCTAGTTTGT
* * *
34646409 AAAATTACTAAAATACTCCTAGTTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACTCCTAGGTTGTAAAATTACCAAAATACCCCGAGCTAGTAAAATTACCAA
34646474 AATACCC
66 AATACCC
34646481 CTGATTTGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
80 6 0.10
81 49 0.78
82 6 0.10
83 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACTCCTAGGTTGTAAAATTACCAAAATACCCCGAGCTAGTAAAATTACCAA
AATACCCTAGTTTGT
Found at i:34646489 original size:27 final size:27
Alignment explanation
Indices: 34646356--34646482 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
34646346 TTGGTTTACG
* **
34646356 AAATTACCAAAATA-CCCTCGATCAGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
34646383 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
34646410 AAATTACTAAAATACTCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
34646437 AAATTACCAAAATACCCCTAGCTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
34646464 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
34646483 GATTTGTGAA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 86 0.95
28 5 0.05
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:34646504 original size:81 final size:81
Alignment explanation
Indices: 34646356--34646521 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
34646346 TTGGTTTACG
*
34646356 AAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTAGATCAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
34646421 ATACTCCTAG-TTTGTA
66 ATACT-CTAGATTTGTA
* * * *
34646437 AAATTACCAAAATACCCCTAGCT-TGTAAAATTACCAAAATACCCCT-GATTTGTGAAGTTA-TC
1 AAATTACCAAAATA-CCCTAGATCAGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACT-
* *
34646499 GAAATACTCTCGATTTGTA
63 AAAATACTCTAGATTTGTA
34646518 AAAT
1 AAAT
34646522 GTTGAAATAC
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
80 5 0.07
81 63 0.85
82 6 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTAGATCAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
ATACTCTAGATTTGTA
Found at i:34646564 original size:27 final size:27
Alignment explanation
Indices: 34646524--34646846 Score: 303
Period size: 27 Copynumber: 12.0 Consensus size: 27
34646514 TGTAAAATGT
34646524 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
* * *
34646551 TAAAATACCCCTATAGGGAAAAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
* * * *
34646578 TGAAATACTCTTA-AAGGTAAAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
* * *
34646604 TAAAATACCCCTGTAAGGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
** *
34646631 CAAAATACCCCTATAAGGTAGAATTA-
1 TGAAATACCCCTATAGGGTAGAATTAC
* *
34646657 TCGAAATACCCCTGTAAGGTAGAATTA-
1 T-GAAATACCCCTATAGGGTAGAATTAC
*
34646684 TCGAAATACCCCTGTAGGGTAGAATTAC
1 T-GAAATACCCCTATAGGGTAGAATTAC
* * *
34646712 TGAAATAGCCCTGTAGGGTAGAATTAT
1 TGAAATACCCCTATAGGGTAGAATTAC
* *
34646739 TGAAATACCCATGTAGGGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
* ** * *
34646766 CGAAATACCTTTATAAGGTAGAAAT-C
1 TGAAATACCCCTATAGGGTAGAATTAC
* *
34646792 CGAAATACCCCTATAGAGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
* * * * *
34646819 TGAGATACCCTTGTGGGGTAAAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
34646846 T
1 T
34646847 ATTTTTCCCC
Statistics
Matches: 250, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 41 0.16
27 208 0.83
28 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (27 bp):
TGAAATACCCCTATAGGGTAGAATTAC
Found at i:34647009 original size:16 final size:16
Alignment explanation
Indices: 34646988--34647018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34646978 CAAATATGGG
*
34646988 CATGACATTTTGCATA
1 CATGACATGTTGCATA
34647004 CATGACATGTTGCAT
1 CATGACATGTTGCAT
34647019 GGTTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:34647087 original size:25 final size:25
Alignment explanation
Indices: 34647051--34647145 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
34647041 AGGAAGTGCT
*
34647051 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
34647076 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
34647101 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
34647126 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34647146 ACTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34649147 original size:27 final size:27
Alignment explanation
Indices: 34649126--34649325 Score: 213
Period size: 27 Copynumber: 7.4 Consensus size: 27
34649116 ATTACCAAAG
* * **
34649126 TACCCTCGATTTACAGAGTTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
34649153 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
34649180 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
34649207 TACCTTTGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
34649234 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * * **
34649261 TACCTTTGATTTACAGAAATACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * ** * *
34649288 TAACCTTGATTTACGGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
34649315 TACCCTC-ATTT
1 TACCCTCGATTT
34649326 TACAAAATTA
Statistics
Matches: 147, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.03
27 143 0.97
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:34649235 original size:81 final size:81
Alignment explanation
Indices: 34649133--34649336 Score: 243
Period size: 81 Copynumber: 2.5 Consensus size: 81
34649123 AAGTACCCTC
* * * *
34649133 GATTTACAGAGTTA-CTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGA
1 GATTTACAGAATTATC-ATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGA
*
34649197 ATTACCATTTT-ACCTTT
65 AATACCATTTTAACC-TT
* * *
34649214 GATTTATAGAATTATCATTTTACCCTCGATTTATAAAATTACCATTTTACCTTTGATTTACAGAA
1 GATTTACAGAATTATCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAA
**
34649279 ATACTGTTTTAACCTT
66 ATACCATTTTAACCTT
* * *
34649295 GATTTACGGAATTATCGTTTTACCCTC-ATTTTACAAAATTAC
1 GATTTACAGAATTATCATTTTACCCTCGA-TTTATAAAATTAC
34649337 TAAAATACCC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 101 0.95
82 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (81 bp):
GATTTACAGAATTATCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAA
ATACCATTTTAACCTT
Found at i:34649490 original size:27 final size:27
Alignment explanation
Indices: 34649329--34649536 Score: 206
Period size: 27 Copynumber: 7.7 Consensus size: 27
34649319 CTCATTTTAC
* * **
34649329 AAAATTACTAAAATACCCTTGGTTTAA
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
34649356 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
34649383 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
34649410 AAAATTACTAAAATACTCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
34649437 AAAATTACCAAAATACCCTTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
34649464 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
34649491 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
34649518 AAAA-TATCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
34649537 ATAGGGTAGA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.10
27 133 0.88
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:34649490 original size:81 final size:81
Alignment explanation
Indices: 34649329--34649522 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 81
34649319 CTCATTTTAC
* **
34649329 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
34649394 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* * *
34649410 AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTTG-GCTTGTAAAATTACCA
1 AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTCGATC-AGTAAAATTACCA
34649474 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGT
* * *
34649491 GAAATTA-TCAAAATACTCTCGATTTGTAAAAT
1 AAAATTACT-AAAATACTCTTGGTTTGTAAAAT
34649523 ATCGAAATAC
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 2 0.02
81 99 0.98
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:34649848 original size:27 final size:27
Alignment explanation
Indices: 34649525--34649848 Score: 364
Period size: 27 Copynumber: 12.0 Consensus size: 27
34649515 TGTAAAATAT
* *
34649525 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* *
34649552 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* * * *
34649579 TGAAATACTCTTGTAAGGTAAAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* *
34649606 TGAAATACCCCTGTAAGGTAAAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* *
34649633 CGAAATACCCCTATAAGGTAGAATTAT
1 CGAAATACCCCTGTAAGGTAGAATTAC
*
34649660 CGAAATACCCTTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
*
34649687 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* * ** *
34649714 TGAAATACCCTTGTGGGGTAGAATTAT
1 CGAAATACCCCTGTAAGGTAGAATTAC
*
34649741 TGAAATACCCCTGT-AGGATAGAATTAC
1 CGAAATACCCCTGTAAGG-TAGAATTAC
** * *
34649768 CGAAATACCTTTATAAGGTAGAAATAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* *
34649795 CAAAATA-CCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
* * *
34649821 CGAGATACCCTTGTAAGGTAAAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
34649848 C
1 C
34649849 ATTTTGCCCC
Statistics
Matches: 254, Mismatches: 40, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.08
27 230 0.91
28 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAAGGTAGAATTAC
Found at i:34650087 original size:25 final size:25
Alignment explanation
Indices: 34650053--34650122 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
34650043 AGGAAGTGCT
*
34650053 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
34650078 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
34650103 AAAAGGGCTTTGCCGCAGTT
1 AAAAGGGCTTTGCCCCAGTT
34650123 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:34650135 original size:24 final size:24
Alignment explanation
Indices: 34650052--34650135 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
34650042 GAGGAAGTGC
*
34650052 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
34650077 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
34650101 CAAAAAGGGCTTTGCCGCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
34650125 TAAAAGAGGCT
1 TAAAAG-GGCT
34650136 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:34660312 original size:17 final size:19
Alignment explanation
Indices: 34660270--34660313 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34660260 ACGAAATTTT
*
34660270 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
34660289 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
34660307 AA-TATTA
1 AATTATTA
34660314 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:34669195 original size:28 final size:28
Alignment explanation
Indices: 34669132--34669229 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
34669122 ATATTAAGTC
*
34669132 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34669159 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
34669187 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
34669216 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34669230 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34672707 original size:60 final size:59
Alignment explanation
Indices: 34672630--34672766 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
34672620 AACTATGTTA
* * * *
34672630 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGTCTACAGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACAGCCCAGATTAATACTG
* ** *
34672690 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACAGCCCAGATTAATACTG
34672750 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
34672767 GTTAACACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 49 0.75
61 15 0.23
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACAGCCCAGATTAATACTG
Found at i:34676631 original size:19 final size:19
Alignment explanation
Indices: 34676585--34676632 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34676575 GTATATATTT
34676585 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34676603 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34676622 TAAGTTTTATT
1 TAAATTTTATT
34676633 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:34679955 original size:56 final size:56
Alignment explanation
Indices: 34679892--34680164 Score: 325
Period size: 56 Copynumber: 4.9 Consensus size: 56
34679882 CCATGGCATT
* * * *
34679892 GATATATGTGTACGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTTT
1 GATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
* * * *
34679948 GATATATGTGTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
1 GATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
* * * * * * *
34680004 GATATATGTGTGCAAGTAAGACCATGTTTAACACATTGGTATCGATATGTGAATCC
1 GATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
*
34680060 GATATATGTGTACGAGTAAGACCATGTTTAATACTTTGGCATCGATATGTGACTTC
1 GATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
* * * * *
34680116 AATATATGTGTATGAGTAATACCCTGTCTAGGATA-G-TGGCATCGATATG
1 GATATATGTGTACGAGTAAGACCATGTTTA--ATACGTTGGCATCGATATG
34680165 GGATTACATG
Statistics
Matches: 188, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
56 185 0.98
58 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
GATATATGTGTACGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
Found at i:34683369 original size:25 final size:25
Alignment explanation
Indices: 34683341--34683392 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34683331 CCGAAAGAAA
34683341 GATTGAATCAGTACTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
34683366 GATTGAATCAGTACTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
34683391 GA
1 GA
34683393 GTATCCGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (25 bp):
GATTGAATCAGTACTAGTTGTGTGC
Found at i:34685790 original size:13 final size:13
Alignment explanation
Indices: 34685772--34685796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34685762 TATATTATAT
34685772 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34685785 GTGTGAAAATTT
1 GTGTGAAAATTT
34685797 TATAATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34687003 original size:56 final size:57
Alignment explanation
Indices: 34686938--34687173 Score: 320
Period size: 56 Copynumber: 4.2 Consensus size: 57
34686928 ACCATGGCAT
* *
34686938 TGATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGA-TTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* *
34686994 TGATATATGTGTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* * * *
34687051 -GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGA-TTT
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* * *
34687106 TGAGT-TATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATCAAAATGTGACTTC
1 TGA-TATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
*
34687163 -AATATATGTGT
1 TGATATATGTGT
34687174 ATGTGTAATA
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
55 3 0.02
56 148 0.94
57 6 0.04
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (57 bp):
TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
Found at i:34687136 original size:112 final size:112
Alignment explanation
Indices: 34686939--34687173 Score: 364
Period size: 112 Copynumber: 2.1 Consensus size: 112
34686929 CCATGGCATT
* * *
34686939 GATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGATATATGT
* * *
34687004 GTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
66 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
*
34687051 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTTTGAGT-TATG
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGA-TATATG
* *
34687115 TGTACAAGTAAGACCACGTTTAATACGTTGGCATCAAAATGTGACTTC
65 TGTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
*
34687163 AATATATGTGT
1 GATATATGTGT
34687174 ATGTGTAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 111 0.99
113 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (112 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGATATATGT
GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
Found at i:34687203 original size:112 final size:112
Alignment explanation
Indices: 34686940--34687216 Score: 308
Period size: 112 Copynumber: 2.5 Consensus size: 112
34686930 CATGGCATTG
* * * *
34686940 ATATATGTGTGCGAGTAGGACCACGTTTAATAC-GTTGGCATCGATATGTGATTCTGATATATGT
1 ATATATGTGTACGAGTAAGACCACGTCTAAGACAG-TGGCATCGATATGTGATTCTGATATATGT
* * * *
34687004 GTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTCG
65 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
* * * * * *
34687052 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTTTGAGT-TATGT
1 ATATATGTGTACGAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGA-TATATGT
* *
34687116 GTACAAGTAAGACCACGTTTAATACGTTGGCATCAAAATGTGACTTCA
65 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
* * * * * *
34687164 ATATATGTGTATGTGTAATACC-CTGTCTAGGATAGTGGCATCGATATGGGATT
1 ATATATGTGTACGAGTAAGACCAC-GTCTAAGACAGTGGCATCGATATGTGATT
34687217 ACATGTAAGA
Statistics
Matches: 141, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
111 1 0.01
112 139 0.99
113 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (112 bp):
ATATATGTGTACGAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGATATATGTG
TACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
Found at i:34691647 original size:34 final size:34
Alignment explanation
Indices: 34691604--34691732 Score: 143
Period size: 34 Copynumber: 3.8 Consensus size: 34
34691594 TCTGTTTGCA
34691604 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
** * *
34691638 TACTGTTACTGTAATTGGCTCAGGTCCAAACTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
* * * * * *
34691672 TACTATTACTGCAACGGGCTCAGGCTCTGATTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
*
34691706 TACTGTTACTG-AAATGGGCTAAGGCCC
1 TACTGTTACTGTAAA-GGGCTCAGGCCC
34691733 TAACTGTTAC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 2 0.03
34 75 0.97
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
Found at i:34691738 original size:68 final size:68
Alignment explanation
Indices: 34691604--34691744 Score: 174
Period size: 68 Copynumber: 2.1 Consensus size: 68
34691594 TCTGTTTGCA
* * * * * *
34691604 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGTAATTGGCTCAGGTCCAAAC
1 TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
34691669 TGC
66 TGC
* * * * *
34691672 TACTATTACTGCAACGGGCTCAGGCTCTGATTGCTACTGTTACTGAAATGGGCTAAGGCCCTAAC
1 TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
*
34691737 TGT
66 TGC
34691740 TACTA
1 TACTA
34691745 AAACGGCTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (68 bp):
TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
TGC
Found at i:34692779 original size:4 final size:4
Alignment explanation
Indices: 34692763--34692819 Score: 96
Period size: 4 Copynumber: 14.0 Consensus size: 4
34692753 TTTAAATTAT
*
34692763 ATAC ATAAC ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34692812 ATAC ATAC
1 ATAC ATAC
34692820 TAACATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
4 46 0.92
5 4 0.08
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:34693624 original size:33 final size:33
Alignment explanation
Indices: 34693582--34693645 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
34693572 CATTACAACC
34693582 AATGTCTCAATTTCATATATATTATCAACTTGA
1 AATGTCTCAATTTCATATATATTATCAACTTGA
*
34693615 AATGTCTCAATTTCATATATATTTTCAACTT
1 AATGTCTCAATTTCATATATATTATCAACTT
34693646 TTGTGCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (33 bp):
AATGTCTCAATTTCATATATATTATCAACTTGA
Found at i:34701210 original size:38 final size:38
Alignment explanation
Indices: 34701154--34701229 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
34701144 CTGGGTTTTC
*
34701154 TTTCTCTAATAAGATGTTGGACAGATTTGATAGGAAAG
1 TTTCCCTAATAAGATGTTGGACAGATTTGATAGGAAAG
34701192 TTTCCCTAATAAGATGTTGGACAGATTTGATAGGAAAG
1 TTTCCCTAATAAGATGTTGGACAGATTTGATAGGAAAG
34701230 AATATGATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (38 bp):
TTTCCCTAATAAGATGTTGGACAGATTTGATAGGAAAG
Found at i:34703501 original size:34 final size:33
Alignment explanation
Indices: 34703441--34703505 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
34703431 GTTTCAGTTG
*
34703441 GGGCCTTAGCCCATTACAGTATCAGTATCAGTGT
1 GGGCCTAAGCCCATTACAGTATCAGTA-CAGTGT
34703475 GGGCCTAAGCCCATCT-CAGTGA-CAGTACAGT
1 GGGCCTAAGCCCAT-TACAGT-ATCAGTACAGT
34703506 ACAGATATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGTATCAGTACAGTGT
Found at i:34706727 original size:22 final size:22
Alignment explanation
Indices: 34706699--34706772 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
34706689 CCATACAACT
34706699 GTGTGCCTCCTTTCACACAGGC
1 GTGTGCCTCCTTTCACACAGGC
* *
34706721 GTGTGCCT--TAGTCACACAGTC
1 GTGTGCCTCCT-TTCACACAGGC
* *
34706742 GTGTGCATCCTTTCACACGGGC
1 GTGTGCCTCCTTTCACACAGGC
34706764 GTGTGCCTC
1 GTGTGCCTC
34706773 TCCATATGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.38
22 24 0.57
23 1 0.02
ACGTcount: A:0.14, C:0.32, G:0.26, T:0.28
Consensus pattern (22 bp):
GTGTGCCTCCTTTCACACAGGC
Found at i:34706729 original size:43 final size:43
Alignment explanation
Indices: 34706678--34706771 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
34706668 TCACATGGGA
* *
34706678 GTGTGCCTTAGCCATACAACT-GTGTGCCTCCTTTCACACAGGC
1 GTGTGCCTTAGCCACAC-ACTCGTGTGCATCCTTTCACACAGGC
* * *
34706721 GTGTGCCTTAGTCACACAGTCGTGTGCATCCTTTCACACGGGC
1 GTGTGCCTTAGCCACACACTCGTGTGCATCCTTTCACACAGGC
34706764 GTGTGCCT
1 GTGTGCCT
34706772 CTCCATATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.29
Consensus pattern (43 bp):
GTGTGCCTTAGCCACACACTCGTGTGCATCCTTTCACACAGGC
Found at i:34708529 original size:27 final size:26
Alignment explanation
Indices: 34708491--34708541 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
34708481 CTCGCTGCAA
34708491 TCTGGTGACTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
34708518 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACTTCGCCACAATATCT
34708542 AGCAGCCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:34708607 original size:33 final size:32
Alignment explanation
Indices: 34708558--34708621 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
34708548 CTCGCTGCAA
* *
34708558 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
34708591 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
34708622 GTGACTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:34708635 original size:27 final size:26
Alignment explanation
Indices: 34708583--34708642 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
34708573 ACATATATAT
*
34708583 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* *
34708609 ATATCTGTATCTGGTGACTTAGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
34708636 ATATCTG
1 ATATCTG
34708643 GTAGCCTCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:34709828 original size:83 final size:83
Alignment explanation
Indices: 34709671--34709834 Score: 195
Period size: 83 Copynumber: 2.0 Consensus size: 83
34709661 TTCTGATATG
* * * *
34709671 ATCTGGCAGTTTAATTGCAACATATATGTACATCAGCTTACCATAATGCACTGTACTATATCTAT
1 ATCTGGCAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACTATATATAC
*
34709736 GTCAACTTTGTTGCGTTT
66 ATCAACTTTGTTGCGTTT
* * * * * * *
34709754 ATCTGGTAGTTTAACTGCAACATATTTGTACAGCGGTTTACCGTAATGTATTGTACTGA-ATATA
1 ATCTGGCAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACT-ATATATA
*
34709818 CATCAGCTTTGTTGCGT
65 CATCAACTTTGTTGCGT
34709835 ACGATTATCT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 66 0.99
84 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (83 bp):
ATCTGGCAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACTATATATAC
ATCAACTTTGTTGCGTTT
Found at i:34713884 original size:15 final size:15
Alignment explanation
Indices: 34713864--34713894 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34713854 TGAAACGCCC
34713864 TGTTTTTAAAATAAA
1 TGTTTTTAAAATAAA
*
34713879 TGTTTTTGAAATAAA
1 TGTTTTTAAAATAAA
34713894 T
1 T
34713895 ATTGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TGTTTTTAAAATAAA
Found at i:34723104 original size:46 final size:46
Alignment explanation
Indices: 34723037--34723165 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
34723027 TGTAACCCGC
* * * *
34723037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34723083 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34723129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34723166 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34723623 original size:30 final size:30
Alignment explanation
Indices: 34723588--34723644 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
34723578 TAACTCAAAT
34723588 TTTTGCAAAATTACAATTTTACCCCTAAAC
1 TTTTGCAAAATTACAATTTTACCCCTAAAC
* * * *
34723618 TTTTGCATATTTACATTTTTGCCCCTA
1 TTTTGCAAAATTACAATTTTACCCCTA
34723645 GGCTCGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTACCCCTAAAC
Found at i:34736637 original size:27 final size:27
Alignment explanation
Indices: 34736607--34736671 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
34736597 GGGCATAATC
34736607 GTCATTCTAC-CATATAT-GGGTATTACG
1 GTCATTCTACAC-TAT-TGGGGTATTACG
*
34736634 GTCATTTTACACTATTGGGGTATTACG
1 GTCATTCTACACTATTGGGGTATTACG
* *
34736661 ATCATTTTACA
1 GTCATTCTACA
34736672 AATCGGGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (27 bp):
GTCATTCTACACTATTGGGGTATTACG
Found at i:34736680 original size:27 final size:27
Alignment explanation
Indices: 34736624--34736684 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
34736614 TACCATATAT
* * *
34736624 GGGTATTACGGTCATTTTACACTATTG
1 GGGTATTACGATCATTTTACACAATGG
34736651 GGGTATTACGATCATTTTACA-AATCGG
1 GGGTATTACGATCATTTTACACAAT-GG
34736678 GGGTATT
1 GGGTATT
34736685 TTGGTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGTATTACGATCATTTTACACAATGG
Found at i:34754142 original size:68 final size:67
Alignment explanation
Indices: 34754070--34754219 Score: 157
Period size: 71 Copynumber: 2.2 Consensus size: 67
34754060 ATACTATGTA
* *
34754070 GTAGCTAGGTCACATGTGTGA-TAC-AG-GACGTATC-CCATGTAGACAAGAGAGCTACGGGAGA
1 GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGA-CACCATGTAGACAAGAGAGCTAC---A-A
34754131 GATAAAT
61 GATAAAT
** * *
34754138 GTAGCTAGGTCGTAGGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
1 GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
34754203 AT
66 AT
*
34754205 -TGGCTAGGTCACATG
1 GTAGCTAGGTCACATG
34754220 GGTGGTACTA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
66 11 0.16
67 8 0.12
68 19 0.28
69 2 0.03
70 3 0.04
71 25 0.37
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
AT
Found at i:34757991 original size:30 final size:30
Alignment explanation
Indices: 34757957--34758018 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34757947 CTCTTTATTT
34757957 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
1 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
34757987 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
1 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
34758017 AT
1 AT
34758019 CACCTCCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (30 bp):
ATTTTACTTAGTTAAAAATCTTAGTTTTTA
Found at i:34758287 original size:15 final size:15
Alignment explanation
Indices: 34758267--34758296 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34758257 GTCAAGCCAT
34758267 TTAATAACCTCTTTC
1 TTAATAACCTCTTTC
*
34758282 TTAATAACTTCTTTC
1 TTAATAACCTCTTTC
34758297 ATGATCAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATAACCTCTTTC
Found at i:34765922 original size:29 final size:29
Alignment explanation
Indices: 34765816--34765922 Score: 128
Period size: 29 Copynumber: 3.7 Consensus size: 29
34765806 TACATACATG
* *
34765816 CATATGGCCCA-CTTGGCCCAA-TCTTATT
1 CATATGGCCCATC-AGGCCCAATTCATATT
* * *
34765844 TATATGGCCCATCAAGCCCAATTCATACT
1 CATATGGCCCATCAGGCCCAATTCATATT
34765873 CATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATCAGGCCCAATTCATATT
* *
34765902 CATATGGCCCATTAGGACCAA
1 CATATGGCCCATCAGGCCCAA
34765923 ATCACCTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 16 0.24
29 51 0.76
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAATTCATATT
Found at i:34765935 original size:29 final size:29
Alignment explanation
Indices: 34765845--34765938 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
34765835 AATCTTATTT
* * * * *
34765845 ATATGGCCCATCAAGCCCAATTCATACTC
1 ATATGGCCCATCAGGACCAAATCACATTC
* * *
34765874 ATATGGCCCATCAGGCCCAATTCATATTC
1 ATATGGCCCATCAGGACCAAATCACATTC
* * *
34765903 ATATGGCCCATTAGGACCAAATCACCTTT
1 ATATGGCCCATCAGGACCAAATCACATTC
34765932 ATATGGC
1 ATATGGC
34765939 TGATGCGTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATCAGGACCAAATCACATTC
Found at i:34766745 original size:15 final size:17
Alignment explanation
Indices: 34766715--34766747 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
34766705 GAAAACATCT
34766715 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
34766732 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
34766747 C
1 C
34766748 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:34782082 original size:43 final size:43
Alignment explanation
Indices: 34782023--34782147 Score: 193
Period size: 42 Copynumber: 3.0 Consensus size: 43
34782013 ATTGTATAAT
34782023 TAAT-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
34782065 TAATATCGGGCCTCGAGCCTAGCAAGCT-TAATGCAGGTGAAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
34782107 TAATATCGGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
34782148 TGAATTCAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 53 0.72
43 21 0.28
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (43 bp):
TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:34785400 original size:27 final size:27
Alignment explanation
Indices: 34785370--34785574 Score: 117
Period size: 27 Copynumber: 7.6 Consensus size: 27
34785360 CAAATTGTAA
*
34785370 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
* ***
34785397 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
34785424 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** *
34785451 AATTACTGTTTTACCCT-GATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
34785477 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * * * *
34785504 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * *
34785531 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
34785558 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
34785575 AGCCTGTAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.17
27 128 0.83
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:34785429 original size:54 final size:53
Alignment explanation
Indices: 34785370--34785482 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
34785360 CAAATTGTAA
* *
34785370 AATTACCAAAGTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCAATTTATAGAATTACT-GTTTTACCCT-GATTTACAG
****
34785424 AATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTGATTTACAG
1 AATTACCAAAGTACCCTCAATTTATAGAATTACTGTTTTACCCTGATTTACAG
34785477 AATTAC
1 AATTAC
34785483 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 14 0.27
54 37 0.71
55 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (53 bp):
AATTACCAAAGTACCCTCAATTTATAGAATTACTGTTTTACCCTGATTTACAG
Found at i:34785500 original size:53 final size:55
Alignment explanation
Indices: 34785381--34785510 Score: 194
Period size: 53 Copynumber: 2.4 Consensus size: 55
34785371 ATTACCAAAG
*
34785381 TACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
34785435 TACCCTCAATTTATAGAATTACT-GTTTTACCCT-GATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
* *
34785488 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
34785511 AAAATACCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
53 38 0.55
54 30 0.43
55 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (55 bp):
TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:34785519 original size:53 final size:53
Alignment explanation
Indices: 34785408--34785537 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 53
34785398 ATTATCGTTT
* * * ****
34785408 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTT
1 TACCCT-GATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* *
34785462 TACCCTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* *
34785515 TACCCTTGGTTTACAAAATTACC
1 TACCC-TGATTTACAGAATTACC
34785538 AAAATACCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
53 43 0.68
54 20 0.32
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (53 bp):
TACCCTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
Found at i:34785609 original size:27 final size:27
Alignment explanation
Indices: 34785502--34785844 Score: 210
Period size: 27 Copynumber: 12.7 Consensus size: 27
34785492 CTCGATTTAC
* * **
34785502 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
34785529 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* **
34785556 AAAATTACCAAAATA-CCCTAGCCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
34785582 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * **
34785609 AAAATTATCGAAAT-TCCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
34785636 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
34785663 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** *
34785690 GAAATTACCAAAATA-CCCTCAATTTTT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* **
34785717 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
34785744 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCCTG-GTTTGT
*** ** **
34785772 AAAAATTATGGAAATACCATTGGTTTAC
1 -AAAATTACCAAAATACCCCTGGTTTGT
** *
34785800 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
34785827 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
34785845 TTGTAGGATG
Statistics
Matches: 246, Mismatches: 60, Indels: 20
0.75 0.18 0.06
Matches are distributed among these distances:
26 28 0.11
27 188 0.76
28 14 0.06
29 16 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:34785689 original size:81 final size:80
Alignment explanation
Indices: 34785502--34785736 Score: 310
Period size: 81 Copynumber: 2.9 Consensus size: 80
34785492 CTCGATTTAC
** * **
34785502 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
34785567 AATA-CCCTAGCCTGT
65 AATACCCCTAGCCTGT
* * * *
34785582 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTATCGAAATTCCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
**
34785647 AATACCCCTAGTTTGT
65 AATACCCCTAGCCTGT
* * *
34785663 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTTTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
34785728 AATACCCCT
65 AATACCCCT
34785737 GATTTACAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 58 0.43
81 76 0.57
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGCCTGT
Found at i:34785908 original size:27 final size:27
Alignment explanation
Indices: 34785878--34785968 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
34785868 ACCCCTATTA
*
34785878 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
34785905 GGTAAAGTGACCGTAAAGCCACTATAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
34785932 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
34785959 GGTAAAATGA
1 GGTAAAATGA
34785969 AGAATATGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:34786613 original size:25 final size:25
Alignment explanation
Indices: 34786585--34786632 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34786575 CTATAGTATG
* * *
34786585 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34786610 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34786633 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34786693 original size:20 final size:20
Alignment explanation
Indices: 34786668--34786733 Score: 107
Period size: 20 Copynumber: 3.3 Consensus size: 20
34786658 GATATGATAT
*
34786668 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
34786688 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
34786708 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
34786728 ACATGA
1 ACATGA
34786734 CGTATTCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:34786862 original size:52 final size:51
Alignment explanation
Indices: 34786784--34786903 Score: 215
Period size: 52 Copynumber: 2.4 Consensus size: 51
34786774 GAGGAAGTGT
34786784 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
34786836 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
34786887 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
34786904 AGTAATTAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 6 0.09
51 25 0.38
52 35 0.53
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34786881 original size:25 final size:26
Alignment explanation
Indices: 34786784--34786903 Score: 181
Period size: 26 Copynumber: 4.7 Consensus size: 26
34786774 GAGGAAGTGT
**
34786784 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34786810 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
34786836 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34786862 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34786887 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
34786904 AGTAATTAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 29 0.34
26 57 0.66
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34787112 original size:42 final size:42
Alignment explanation
Indices: 34787053--34787144 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
34787043 TAGTCTCCCC
* ** *
34787053 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
34787095 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
34787137 AAATGGGC
1 AAATGGGC
34787145 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:34789217 original size:27 final size:27
Alignment explanation
Indices: 34789187--34789255 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 27
34789177 CTAGACTAAA
*
34789187 CATACTAAATAATAATAATAATAATTT
1 CATACTAAATAATAATAATAAAAATTT
*
34789214 CATA--AACATATCTAATAATAAAAATTT
1 CATACTAA-ATA-ATAATAATAAAAATTT
34789241 CAAATACT-AATAATA
1 C--ATACTAAATAATA
34789256 CAGCAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
25 2 0.06
26 3 0.09
27 19 0.58
28 2 0.06
29 6 0.18
30 1 0.03
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (27 bp):
CATACTAAATAATAATAATAAAAATTT
Found at i:34789280 original size:12 final size:12
Alignment explanation
Indices: 34789265--34789289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34789255 ACAGCAAATA
34789265 ATAAAAATTTTC
1 ATAAAAATTTTC
34789277 ATAAAAATTTTC
1 ATAAAAATTTTC
34789289 A
1 A
34789290 AACATACATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:34796539 original size:13 final size:13
Alignment explanation
Indices: 34796521--34796546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34796511 TCTCTACGTC
34796521 AATTCAAACAATT
1 AATTCAAACAATT
34796534 AATTCAAACAATT
1 AATTCAAACAATT
34796547 TCTACCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTCAAACAATT
Found at i:34808201 original size:26 final size:24
Alignment explanation
Indices: 34808118--34808225 Score: 137
Period size: 26 Copynumber: 4.4 Consensus size: 24
34808108 CTGGAGGCCT
34808118 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
* *
34808142 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTAGGGCAA
34808166 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTT-AATAAACTAGGGCA-A
* *
34808192 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTAGGGCAA
34808217 AGCCCTTTT
1 AGCCCTTTT
34808226 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 7 0.09
24 23 0.31
25 21 0.28
26 24 0.32
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:34808300 original size:20 final size:20
Alignment explanation
Indices: 34808275--34808349 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
34808265 TTATGATTAC
*
34808275 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
34808295 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34808315 ATCATGTGCATGTCATATCA-
1 ATCATGTGCATATCATA-CAT
34808335 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
34808350 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.14
20 42 0.82
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34817921 original size:24 final size:24
Alignment explanation
Indices: 34817886--34818029 Score: 94
Period size: 24 Copynumber: 5.9 Consensus size: 24
34817876 CAATCGATTT
34817886 CACACACATAGTGCTATTCAAATC
1 CACACACATAGTGCTATTCAAATC
* * * * *
34817910 CACACACTTAGTGCCATGCTAACC
1 CACACACATAGTGCTATTCAAATC
* **
34817934 CGCACACATAGTGCCT-TAGAAATC
1 CACACACATAGTG-CTATTCAAATC
* *
34817958 CACACACTCGTATTGAC-ATTCAAATC
1 CACACA--CATAGTG-CTATTCAAATC
** *
34817984 GGCACACATAGTGCTATTCAATTC
1 CACACACATAGTGCTATTCAAATC
* * *
34818008 CGCACACATAGTACCATTCAAA
1 CACACACATAGTGCTATTCAAA
34818030 ATTCGTACAC
Statistics
Matches: 88, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
23 1 0.01
24 70 0.80
25 1 0.01
26 16 0.18
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.24
Consensus pattern (24 bp):
CACACACATAGTGCTATTCAAATC
Found at i:34818014 original size:50 final size:48
Alignment explanation
Indices: 34817888--34818019 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 48
34817878 ATCGATTTCA
* *
34817888 CACACATAGTGCTATTCAAATCCACACACTTAGTGCCATGCTAACCCG
1 CACACATAGTGCTATTCAAATCCACACACTTAGTGACATGCAAACCCG
** * * * *
34817936 CACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATCGG
1 CACACATAGTG-CTATTCAAATCCACACACT--TAGTGACATGCAAACCCG
* * *
34817986 CACACATAGTGCTATTCAATTCCGCACACATAGT
1 CACACATAGTGCTATTCAAATCCACACACTTAGT
34818020 ACCATTCAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
48 28 0.42
49 4 0.06
50 34 0.52
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (48 bp):
CACACATAGTGCTATTCAAATCCACACACTTAGTGACATGCAAACCCG
Found at i:34822255 original size:43 final size:42
Alignment explanation
Indices: 34822189--34822303 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
34822179 AGCATATACA
* *
34822189 ATGCCGAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAACAT-G
*
34822232 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAACATG
* * *
34822274 ATGCCAATGTCCTAGACATGGTCTTACACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACG
34822304 CAAAACAGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAACATG
Found at i:34822291 original size:42 final size:43
Alignment explanation
Indices: 34822197--34822303 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 43
34822187 CAATGCCGAC
* * *
34822197 GTCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGAAATCAAACATCGATGCCAAT
*
34822240 GTCCCAGACAGGGTCTTACACGAAATCAAATAT-GATGCCAAT
1 GTCCCAGACAGGGTCTTACACGAAATCAAACATCGATGCCAAT
* *
34822282 GTCCTAGACATGGTCTTACACG
1 GTCCCAGACAGGGTCTTACACG
34822304 CAAAACAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGAAATCAAACATCGATGCCAAT
Found at i:34829438 original size:79 final size:80
Alignment explanation
Indices: 34829340--34829522 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
34829330 TACTCATTCA
* *
34829340 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCAG
*
34829403 ATTTAGTAAC-TAGCACC
64 ATATAGTAACTTAGCA-C
* ** *
34829420 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
* *
34829484 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
34829499 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34829523 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCAC
Found at i:34829522 original size:40 final size:40
Alignment explanation
Indices: 34829338--34829522 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
34829328 GCTACTCATT
* * *
34829338 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
34829378 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
34829418 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
34829457 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
34829498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34829523 CATCATTCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 77 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:34832018 original size:28 final size:28
Alignment explanation
Indices: 34831978--34832047 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
34831968 ATAGTAAGTC
*
34831978 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
34832006 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
34832034 CGGACACTTAGTGC
1 CGCACACTTAGTGC
34832048 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:34838484 original size:16 final size:16
Alignment explanation
Indices: 34838446--34838484 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34838436 TCGGCAAATC
34838446 CCAAAATGCCAAAAAG
1 CCAAAATGCCAAAAAG
***
34838462 ATGAAATGCCAAAAAG
1 CCAAAATGCCAAAAAG
34838478 CCAAAAT
1 CCAAAAT
34838485 TTTGCCTACA
Statistics
Matches: 17, Mismatches: 6, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (16 bp):
CCAAAATGCCAAAAAG
Found at i:34838731 original size:28 final size:28
Alignment explanation
Indices: 34838695--34838787 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
34838685 AAAGCATGAC
*
34838695 TATGGATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* **
34838723 TATGAATGTGATTTGGTTTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* * * *
34838751 TATGATTGAGATTGAGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
34838779 TATGCATGT
1 TATGAATGT
34838788 ATATAGGCTT
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:34842508 original size:13 final size:13
Alignment explanation
Indices: 34842490--34842514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34842480 TATGTGATAT
34842490 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34842503 GTGTGAAAATTT
1 GTGTGAAAATTT
34842515 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34843749 original size:42 final size:41
Alignment explanation
Indices: 34843635--34843762 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 41
34843625 TTCCAGTATG
* * *
34843635 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGGTT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
* *
34843676 TGAGATTTACATGTAAGACCAAGTCTGGGACATTGGCATCGCATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* * *
34843721 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
34843762 T
1 T
34843763 TTAATTACAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.07
42 27 0.37
43 10 0.14
44 29 0.40
45 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:34849390 original size:47 final size:49
Alignment explanation
Indices: 34849304--34849437 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 49
34849294 GTGAATGTAT
* * * * *
34849304 ATATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATATG-A-ACATGC
1 ATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATATGTAGACATAC
* *
34849351 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTATGAGATAT
1 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTA-GACATAC
* * *
34849401 GTATATGTGGTAAAGCCGAATGGATAGTGTGAAATAT
1 ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
34849438 GTAGGCGATG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 34 0.47
48 1 0.01
50 37 0.51
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (49 bp):
ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTAGACATAC
Found at i:34855731 original size:47 final size:47
Alignment explanation
Indices: 34855668--34855892 Score: 405
Period size: 47 Copynumber: 4.8 Consensus size: 47
34855658 CCCTTCGGGA
* * * *
34855668 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34855715 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34855762 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34855809 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34855856 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
34855893 AATCCTAAAT
Statistics
Matches: 173, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34861600 original size:43 final size:43
Alignment explanation
Indices: 34861497--34861651 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
34861487 ATGCCATATT
* ** * *
34861497 CCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCAATTTC
1 CCAGACATGGTCTTACACATAATCACAATAT-GATGCCAATGTC
* * * * *
34861540 CCAAACATAGTCCTACACGTAATCGCAATATGATGCCAATGTC
1 CCAGACATGGTCTTACACATAATCACAATATGATGCCAATGTC
*
34861583 CCAGACATGGTCTTACACATAATCATAATATGATGCCAATGGT-
1 CCAGACATGGTCTTACACATAATCACAATATGATGCCAAT-GTC
34861626 CCAGACATGGTCTTACACATAATCAC
1 CCAGACATGGTCTTACACATAATCAC
34861652 GTCTCCTTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 89 0.94
44 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
CCAGACATGGTCTTACACATAATCACAATATGATGCCAATGTC
Found at i:34867713 original size:44 final size:43
Alignment explanation
Indices: 34867642--34867801 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
34867632 ATATGTGTTA
34867642 TCGTGTAAGACCACGTCT-GGAACTTTGGCATC-AACTTATGATT
1 TCGTGTAAGACCACGTCTGGGAACTTTGGCATCGAA-TT-TGATT
*
34867685 TACGTGTAAGACCACGTCTGGGAA-TTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGAACTTTGGCATCGAATTTGATT
* ** *
34867728 TCATGTAAGACC-CTGTCTGGG-ACAGTGGCATAGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGAACTTTGGCATCGA-ATTTGATT
* * * *
34867771 ACATGTAAGACCACATCTGGG-ACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGAACTTTGGCAT
34867802 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 24 0.24
43 40 0.40
44 29 0.29
45 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGAACTTTGGCATCGAATTTGATT
Found at i:34875566 original size:40 final size:40
Alignment explanation
Indices: 34875375--34875559 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
34875365 TCGAATGATG
* * * * *
34875375 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34875415 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34875455 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34875494 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
34875535 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34875560 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34875581 original size:79 final size:79
Alignment explanation
Indices: 34875428--34875592 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
34875418 GGACTAAGAT
* * **
34875428 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
34875493 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34875507 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
34875570 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34875586 CCGAAGG
1 CCGAAGG
34875593 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34880777 original size:44 final size:42
Alignment explanation
Indices: 34880713--34880864 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 42
34880703 ATATGTGTTA
34880713 TCGTGTAAGACCACGTCTGGGACTTTAGCATC-AACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACTTTAGCATCGAA-TT-TGATT
* * *
34880756 TACGTGTAAGACCATGTCTGGGACTTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACTTTAGCATCGAATTTGATT
* * ** * *
34880799 TCGTGTAAGACC-CTGCCCGGGACAGTGGCATAGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACTTTAGCATCGA-ATTTGATT
* * *
34880842 ACATGTAAGACCACGTCTAGGAC
1 TCGTGTAAGACCACGTCTGGGAC
34880865 GTTGGCATTG
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 25 0.28
43 31 0.35
44 32 0.36
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACTTTAGCATCGAATTTGATT
Found at i:34880821 original size:42 final size:43
Alignment explanation
Indices: 34880751--34880854 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
34880741 CATCAACTTA
* * ** *
34880751 TGATTTACGTGTAAGACCATGTCTGGGACTTTGGCATCG-TATT
1 TGATTT-CGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
*
34880794 TGATTTCGTGTAAGACCCTGCCCGGGACAGTGGCATAGATATT
1 TGATTTCGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
* *
34880837 TGATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
34880855 CGTCTAGGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 26 0.51
43 25 0.49
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
Found at i:34880871 original size:43 final size:43
Alignment explanation
Indices: 34880714--34880872 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
34880704 TATGTGTTAT
* * *
34880714 CGTGTAAGACCACGTCTGGGACTTTAGCATCA-ACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT-AGA-TATTTGA-TTA
* * * *
34880758 CGTGTAAGACCATGTCTGGGACTTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATAGATATTTGATTA
* *
34880800 CGTGTAAGACC-CTGCCCGGGACAG-TGGCATAGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATAGATATTTGATTA
* *
34880843 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
34880873 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
42 29 0.31
43 35 0.38
44 29 0.31
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATAGATATTTGATTA
Found at i:34892231 original size:40 final size:40
Alignment explanation
Indices: 34892158--34893075 Score: 1680
Period size: 40 Copynumber: 22.9 Consensus size: 40
34892148 ATAACCGGAC
* * *
34892158 TAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
* * * * * *
34892198 TATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGA
34892238 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
* *
34892278 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892317 TAA-ATCCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGA--CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892358 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892398 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892438 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892478 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892518 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892558 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892598 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892638 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892678 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892718 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892758 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892798 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892838 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892878 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892918 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892958 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
34892998 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
*
34893038 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGG
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
34893076 CTAAATCCCG
Statistics
Matches: 854, Mismatches: 18, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
38 1 0.00
39 7 0.01
40 838 0.98
41 7 0.01
42 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGA
Found at i:34894170 original size:48 final size:48
Alignment explanation
Indices: 34894097--34894303 Score: 351
Period size: 48 Copynumber: 4.3 Consensus size: 48
34894087 GTGAAATATG
34894097 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
* * *
34894145 TATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
* * *
34894193 TATCTCATACATATTTCATATTAGCCATTCGACTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
34894241 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
*
34894289 TATCTCATATATATT
1 TATCTCATACATATT
34894304 ACCCCTATCC
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (48 bp):
TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
Done.