Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 105 of 207
Found at i:31589607 original size:25 final size:25
Alignment explanation
Indices: 31589579--31589626 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
31589569 AGAGTTGCTA
31589579 ATGGGTCAAAAGGAGAAGTTTGAGT
1 ATGGGTCAAAAGGAGAAGTTTGAGT
31589604 ATGGGTCAAAAGGAGAAGTTTGA
1 ATGGGTCAAAAGGAGAAGTTTGA
31589627 CTGTACGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (25 bp):
ATGGGTCAAAAGGAGAAGTTTGAGT
Found at i:31594527 original size:54 final size:54
Alignment explanation
Indices: 31594445--31594549 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
31594435 CTTATTATTT
* *
31594445 CAAGTCAATGAGTTACACGGCCTAGCACACGACCTGTGACACACCTGTGTGTCA
1 CAAGTCAAAGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTGTCA
* *
31594499 CAAGTCAAAGAGTTACACGGCCTAGCACACGGCCTGTGACATAACTGTGTG
1 CAAGTCAAAGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTG
31594550 ACCTAACTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (54 bp):
CAAGTCAAAGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTGTCA
Found at i:31594566 original size:54 final size:54
Alignment explanation
Indices: 31594449--31594572 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
31594439 TTATTTCAAG
* * *
31594449 TCAATGAGTTACACGGCCTAGCACACGACCTGTGACACACCTGTGTGTCACAAG
1 TCAATGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTGACACAAC
* * *
31594503 TCAAAGAGTTACACGGCCTAGCACACGGCCTGTGACATAACTGTGTGAC-CTAAC
1 TCAATGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTGACAC-AAC
* *
31594557 TTAGTGAGTTACACGG
1 TCAATGAGTTACACGG
31594573 TTTAAGACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (54 bp):
TCAATGAGTTACACGGCCTAGCACACGACCTGTGACACAACTGTGTGACACAAC
Found at i:31595657 original size:13 final size:13
Alignment explanation
Indices: 31595639--31595663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31595629 ATCACTCTAT
31595639 AAATATTTAATAA
1 AAATATTTAATAA
31595652 AAATATTTAATA
1 AAATATTTAATA
31595664 GCTCAGTTTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATTTAATAA
Found at i:31598541 original size:25 final size:25
Alignment explanation
Indices: 31598513--31598576 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
31598503 ATACATGTAT
31598513 GCTCATACGAGCT-ATGAATCGATAA
1 GCTCATACGAGCTGA-GAATCGATAA
*
31598538 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGATAA
*
31598563 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
31598577 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGATAA
Found at i:31602179 original size:13 final size:14
Alignment explanation
Indices: 31602161--31602193 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
31602151 TCGTATACAC
31602161 TTCATATATC-AGT
1 TTCATATATCTAGT
*
31602174 TTCATATATCTATT
1 TTCATATATCTAGT
31602188 TTCATA
1 TTCATA
31602194 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (14 bp):
TTCATATATCTAGT
Found at i:31603763 original size:33 final size:33
Alignment explanation
Indices: 31603717--31603848 Score: 122
Period size: 33 Copynumber: 3.7 Consensus size: 33
31603707 TTATCCGTTA
* *
31603717 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
31603751 TCGGAGAATCAGCACTTAGCAACCACTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC--CA-A--T--GAT
* *
31603791 AT-GGTGGGATCAGCACTTAGCAACCACCAATGAG
1 -TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
31603825 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
31603849 CCTTGGGGGA
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
33 40 0.49
34 8 0.10
35 2 0.02
36 1 0.01
38 2 0.02
39 2 0.02
40 5 0.06
41 21 0.26
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:31603946 original size:33 final size:27
Alignment explanation
Indices: 31603904--31603981 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
31603894 TACGGTGGAG
31603904 TCAGCACTTAGCAACCACCAATGAGTCTGGGAA
1 TCAGCACTTAGCAACC-CC-ATGA----GGGAA
* *
31603937 TCAGCACTTAGAAACCCCTTGAGGGAA
1 TCAGCACTTAGCAACCCCATGAGGGAA
31603964 TCAGCACTTAGCAACCCC
1 TCAGCACTTAGCAACCCC
31603982 CTTCGTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 22 0.52
31 3 0.07
32 2 0.05
33 15 0.36
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (27 bp):
TCAGCACTTAGCAACCCCATGAGGGAA
Found at i:31604024 original size:104 final size:104
Alignment explanation
Indices: 31603800--31603993 Score: 309
Period size: 104 Copynumber: 1.9 Consensus size: 104
31603790 TATGGTGGGA
* *
31603800 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAATAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGGGAATAAGA
* *
31603865 ACTTAGCAACCCCCTTTTATATTCAAGGATACGGTGGAG
66 ACTTAGCAACCCCCTTTCATATTCAAGGATACGCTGGAG
* * *
31603904 TCAGCACTTAGCAACCACCAATGAGTCTGGGAATCAGCACTTAGAAACCCCTTGAGGGAATCAGC
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGGGAATAAGA
*
31603969 ACTTAGCAACCCCC-TTCGTATTCAA
66 ACTTAGCAACCCCCTTTCATATTCAA
31603994 TGTACTCTGG
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 9 0.11
104 74 0.89
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (104 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGAAACCCCTTGAGGGAATAAGA
ACTTAGCAACCCCCTTTCATATTCAAGGATACGCTGGAG
Found at i:31610618 original size:33 final size:33
Alignment explanation
Indices: 31610574--31610729 Score: 143
Period size: 33 Copynumber: 4.5 Consensus size: 33
31610564 ATCGGTGGAT
*
31610574 TCAGCACTTAGCAACCACCAGTGATTCAGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
* * * *
31610607 TTAGCACTTAGCAACCCCTTCACATTTAAGATACGATGGG-A
1 TCAGCACTTAGCAA--CC-AC-CA-GT-A-ATTC-A-GGGAA
* * * *
31610648 TCAGCATTTAGCAACCACTAGTAATCCGGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
31610681 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
31610714 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
31610730 CCTTTCACAT
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
32 3 0.03
33 59 0.61
34 3 0.03
35 3 0.03
36 2 0.02
37 3 0.03
38 2 0.02
39 2 0.02
40 3 0.03
41 14 0.14
42 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAGTAATTCAGGGAA
Found at i:31610713 original size:107 final size:108
Alignment explanation
Indices: 31610574--31610908 Score: 400
Period size: 108 Copynumber: 3.1 Consensus size: 108
31610564 ATCGGTGGAT
* *
31610574 TCAGCACTTAGCAACCACCAGTGATTCAGGGAATTAGCACTTAGCAACCCC-TTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
* * * *
31610638 TACGATGGGATCAGCATTTAGCAACCACTAGT-AATCCGGGGAA
66 TACGATGGGATCAGCACTTAGCAACCACCAATGAAT-CGAGGAA
31610681 TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
* * *
31610746 TACGGTGGGATCTGCACTTAGCAACCACCAATGAGTCGAGGAA
66 TACGATGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAA
* ** * * *
31610789 CCAGCACTTAGCAACC-CC-----TTGGGGGAATCAGCACTTAGCAACCCCCTTTTATATTCAAG
1 TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAA-CCCCTTTCACATTTAA-
* * * *
31610848 GATACGGTGGAATCAACACTTAGCAACCACCAATGAGTC-AGGGAA
64 GATACGATGGGATCAGCACTTAGCAACCACCAATGAATCGA-GGAA
31610893 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
31610909 CCCTTTGTAT
Statistics
Matches: 204, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
102 21 0.10
103 14 0.07
104 55 0.27
107 51 0.25
108 61 0.30
109 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (108 bp):
TCAGCACTTAGCAACCACCAGTAATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGA
TACGATGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAA
Found at i:31613195 original size:14 final size:14
Alignment explanation
Indices: 31613178--31613222 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
31613168 TAAGCAATGT
31613178 TAAAGAAAGAGATA
1 TAAAGAAAGAGATA
31613192 TAAAGAATAGA-ATA
1 TAAAGAA-AGAGATA
*
31613206 -AAGGAAAGAGATA
1 TAAAGAAAGAGATA
31613219 TAAA
1 TAAA
31613223 CAATAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 12 0.46
15 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (14 bp):
TAAAGAAAGAGATA
Found at i:31613215 original size:27 final size:27
Alignment explanation
Indices: 31613178--31613239 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
31613168 TAAGCAATGT
*
31613178 TAAA-GAAAGAGATATAAAGAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
31613204 TAAAGGAAAGAGATATAAACAATAGAA
1 TAAAGGAAAGAGATATAAACAATAGAA
31613231 TAAAGGAAA
1 TAAAGGAAA
31613240 AAAGATGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.15
Consensus pattern (27 bp):
TAAAGGAAAGAGATATAAACAATAGAA
Found at i:31617402 original size:9 final size:9
Alignment explanation
Indices: 31617388--31617449 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
31617378 GTACTATACG
31617388 AAGTTATGT
1 AAGTTATGT
31617397 AAGTTATGT
1 AAGTTATGT
31617406 AAGTTATGAT
1 AAGTTATG-T
* * *
31617416 ATGATATAT
1 AAGTTATGT
*
31617425 -ATTTATGT
1 AAGTTATGT
31617433 AAGTTATGT
1 AAGTTATGT
31617442 AAGTTATG
1 AAGTTATG
31617450 ATCTAAAGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 4 0.09
9 33 0.77
10 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (9 bp):
AAGTTATGT
Found at i:31617509 original size:35 final size:35
Alignment explanation
Indices: 31617470--31617536 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
31617460 TTTTTTTATT
*
31617470 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAATTATAATAATCATAAA
* *
31617505 CTTTAAATGTTTATGTAAGTTATAATTATCAT
1 CTTTAAATGTTTATGTAAATTATAATAATCAT
31617537 CTTTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAATTATAATAATCATAAA
Found at i:31617555 original size:13 final size:13
Alignment explanation
Indices: 31617537--31617563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31617527 TAATTATCAT
31617537 CTTTAAATTTTAA
1 CTTTAAATTTTAA
31617550 CTTTAAATTTTAA
1 CTTTAAATTTTAA
31617563 C
1 C
31617564 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:31619807 original size:22 final size:23
Alignment explanation
Indices: 31619754--31619809 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
31619744 TTTAATTAAA
* * *
31619754 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
31619777 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
31619799 ATTAAAATTAA
1 ATTAAAATTAA
31619810 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:31619822 original size:16 final size:16
Alignment explanation
Indices: 31619785--31619824 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
31619775 TTAATAAAAT
* *
31619785 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
31619801 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
31619817 TAAAATTA
1 TAAAATTA
31619825 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:31619903 original size:59 final size:59
Alignment explanation
Indices: 31619835--31619974 Score: 253
Period size: 59 Copynumber: 2.4 Consensus size: 59
31619825 TCAAATTATT
*
31619835 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
31619894 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATTA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
31619953 AATTATTATTTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
31619975 ATTAATTGTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:31620120 original size:22 final size:24
Alignment explanation
Indices: 31620080--31620123 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31620070 AAATAAACTT
31620080 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
31620104 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
31620124 AATATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:31621132 original size:21 final size:21
Alignment explanation
Indices: 31621098--31621139 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31621088 TCTTTGATCG
* *
31621098 TAAAACAATTCTTTAAAAATT
1 TAAAAAAATGCTTTAAAAATT
31621119 TAAAAAAATGCTTTAAAAATT
1 TAAAAAAATGCTTTAAAAATT
31621140 CAAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAAAATGCTTTAAAAATT
Found at i:31622592 original size:48 final size:48
Alignment explanation
Indices: 31622531--31622655 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
31622521 TATAGTTTTC
* * * * *
31622531 TCAAGCAACGAAAAGACTGAGAAATAAAAGGGGCGGGATTTTGGGGTT
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGAATTTTGGGGTT
* * *
31622579 TCAAGTAAAGAAAAG-TTCGAGAACGAAAAGGGACCGAATTTTGGGGTT
1 TCAAGCAAAGAAAAGACT-GAGAAAGAAAAGGGACCGAATTTTGGGGTT
*
31622627 TCAAGCAAACAAAAGACTGAGAAAGAAAA
1 TCAAGCAAAGAAAAGACTGAGAAAGAAAA
31622656 TAATTCGTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.02
48 61 0.97
49 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (48 bp):
TCAAGCAAAGAAAAGACTGAGAAAGAAAAGGGACCGAATTTTGGGGTT
Found at i:31622796 original size:41 final size:41
Alignment explanation
Indices: 31622736--31622824 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
31622726 AATTGTGACT
** *
31622736 TTTTTCTCATAAATGCCGCTATTGCTTTACCTGTTCTGGCG
1 TTTTTCTCATAAACACCGCTATTGCTTTACCTATTCTGGCG
* * *
31622777 TTTTTCTCATAAACACCGCTATTGTTTTACTTATTGTGGCG
1 TTTTTCTCATAAACACCGCTATTGCTTTACCTATTCTGGCG
31622818 TTTTTCT
1 TTTTTCT
31622825 ATTAGCGCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (41 bp):
TTTTTCTCATAAACACCGCTATTGCTTTACCTATTCTGGCG
Found at i:31634748 original size:19 final size:19
Alignment explanation
Indices: 31634724--31634769 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
31634714 AACCAAAATT
*
31634724 TATTTTACTTTATTATATA
1 TATTTTACTTTATTATACA
*
31634743 TATTTTAATTTTATTATACA
1 TATTTT-ACTTTATTATACA
31634763 TATTTTA
1 TATTTTA
31634770 TTACCTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTACTTTATTATACA
Found at i:31634757 original size:20 final size:20
Alignment explanation
Indices: 31634732--31634769 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31634722 TTTATTTTAC
*
31634732 TTTATTATATATATTTTAAT
1 TTTATTATACATATTTTAAT
31634752 TTTATTATACATATTTTA
1 TTTATTATACATATTTTA
31634770 TTACCTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATTATACATATTTTAAT
Found at i:31644641 original size:27 final size:27
Alignment explanation
Indices: 31644610--31644787 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31644600 TAAATTGTAC
*
31644610 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31644637 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31644663 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31644691 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31644718 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
31644746 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31644773 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31644788 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31644671 original size:54 final size:55
Alignment explanation
Indices: 31644610--31644787 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
31644600 TAAATTGTAC
* **
31644610 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
31644665 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
31644718 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
31644773 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31644788 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:31652547 original size:27 final size:27
Alignment explanation
Indices: 31652516--31652693 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31652506 TAAATTGTAC
*
31652516 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31652543 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31652569 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31652597 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31652624 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
31652652 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31652679 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31652694 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31652577 original size:54 final size:55
Alignment explanation
Indices: 31652516--31652693 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
31652506 TAAATTGTAC
* **
31652516 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
31652571 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
31652624 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
31652679 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31652694 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:31656040 original size:39 final size:39
Alignment explanation
Indices: 31655940--31656163 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
31655930 TTGAATGATG
* *
31655940 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
31655979 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGAAACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
31656020 TCCGAGCTAAGCCCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
31656059 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
31656098 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
31656137 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
31656164 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 71 0.45
40 77 0.48
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:31656114 original size:79 final size:79
Alignment explanation
Indices: 31655993--31656163 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 79
31655983 GGACTAAGAT
*
31655993 CCGAAGGCATTTGTGCGAGAAACTAATTCCGAGCTAAGCCCGAAGGCATTTGTCCGAGATACTA-
1 CCGAAGGCATTTGTGCGAGAAACTAAATCCGAGCTAAGCCCGAAGGCATTTGTCCGAGATACTAT
*
31656057 ATTCCGGGCTAAG-C
66 A-ACCGGGCTAAGTC
** * * * *
31656071 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGAAACTAAATCCGAGCTAAG-CCCGAAGGCATTTGTCCGAGATACTA
*
31656136 TAACCGGGCTATGTC
65 TAACCGGGCTAAGTC
31656151 CCGAAGGCATTTG
1 CCGAAGGCATTTG
31656164 AACGAGTAGC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 33 0.41
79 33 0.41
80 15 0.19
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGAAACTAAATCCGAGCTAAGCCCGAAGGCATTTGTCCGAGATACTAT
AACCGGGCTAAGTC
Found at i:31656185 original size:79 final size:77
Alignment explanation
Indices: 31655947--31656196 Score: 240
Period size: 79 Copynumber: 3.2 Consensus size: 77
31655937 ATGTCCGGGC
* * * *
31655947 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
31656010 AGAAACTAATTCCGAGC
64 AG-TACTAA-TCCG-GT
* *
31656027 TAAG-CCCGAAGGCATTTGTCCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
31656089 GTTACTAAATCCGGGT
65 G-TACT-AATCC-GGT
* * **
31656105 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
31656170 TAGCTATATCCGGT
66 TA-CTA-ATCCGGT
* *
31656184 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
31656197 TACGTGATTT
Statistics
Matches: 143, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
78 31 0.22
79 77 0.54
80 35 0.24
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (77 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TACTAATCCGGT
Found at i:31659275 original size:50 final size:50
Alignment explanation
Indices: 31659214--31659387 Score: 188
Period size: 51 Copynumber: 3.4 Consensus size: 50
31659204 TGAAAGTGAT
* *
31659214 GGTCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGAAAGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
* * * * * *
31659264 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAG-ATA
* * * * * *
31659315 GATCACGTGTGTAGTACTATGTGCAGGCTACTAGGTGTATC-GGATGATAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGAT-A
31659365 TGGTCACATGTGTAGTACTATGT
1 -GGTCACATGTGTAGTACTATGT
31659388 AAATCCTACT
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 43 0.43
51 56 0.56
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
Found at i:31659338 original size:51 final size:50
Alignment explanation
Indices: 31659216--31659347 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
31659206 AAAGTGATGG
* * *
31659216 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGAAAGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAGATAGA
* * * * * *
31659266 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAG-ATAGA
31659317 TCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
31659348 GGTGTATCGG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 39 0.56
51 31 0.44
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAAGATAGA
Found at i:31659460 original size:45 final size:45
Alignment explanation
Indices: 31659404--31659498 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
31659394 TACTATATGA
* *
31659404 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
*
31659449 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
31659494 ACCGA
1 ACCGA
31659499 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
Found at i:31659757 original size:23 final size:22
Alignment explanation
Indices: 31659727--31659770 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
31659717 AAAATGGTGG
*
31659727 ATATTG-AATTAGAGGCTGAATA
1 ATATTGAAATT-GAAGCTGAATA
31659749 ATATATGAAATTGAAGCTGAAT
1 ATAT-TGAAATTGAAGCTGAAT
31659771 GAGTCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATTGAAATTGAAGCTGAATA
Found at i:31664747 original size:6 final size:6
Alignment explanation
Indices: 31664736--31664763 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31664726 AGGCCACTAT
31664736 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
1 GTGAAA GTGAAA GTGAAA GTGAAA GTGA
31664764 TGGTCACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
GTGAAA
Found at i:31664887 original size:51 final size:50
Alignment explanation
Indices: 31664767--31664951 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 50
31664757 AAAGTGATGG
* * * ** * *
31664767 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-AT-GA
* *
31664817 TCGCATGTGTAATACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TAT-GA
* ** ** *
31664868 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-ATGA
31664919 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
31664952 TGAACCGGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 35 0.32
51 74 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTATGA
Found at i:31664896 original size:101 final size:102
Alignment explanation
Indices: 31664767--31664951 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
31664757 AAAGTGATGG
* * *
31664767 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAAT
31664830 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
*** *
31664868 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAATA
31664933 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
31664952 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAATA
CTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:31664953 original size:26 final size:26
Alignment explanation
Indices: 31664872--31664953 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
31664862 CTTCGATCAC
31664872 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
31664898 ACGTGTATTGGA-TA-GTG-ATGG-TCAC-
1 ATGTGTA--GTACTATGTGCA-GGCT-ACT
31664923 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
31664949 ATGTG
1 ATGTG
31664954 AACCGGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 15 0.35
26 20 0.47
27 2 0.05
28 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:31665430 original size:51 final size:51
Alignment explanation
Indices: 31665377--31665594 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 51
31665367 GACTGTTTGT
* * * * *
31665377 AGGCCACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTGT
1 AGGCTACTACGTGAAACTGAAAGTGATGGTCACATGTGTAGTACTATGTGC
* *
31665428 AGGCTACTACATG-TACT-AGAA-TGATAGGTCACATGTGTAGTACTATGTGC
1 AGGCTACTACGTGAAACTGA-AAGTGAT-GGTCACATGTGTAGTACTATGTGC
* * * * * * * **
31665478 AGGCTACTACGCGTACCAGATAGCT-TTGATCATGTGTGTAGTACTATGTGC
1 AGGCTACTACGTGAAACTGAAAG-TGATGGTCACATGTGTAGTACTATGTGC
* * * *
31665529 AGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTACTATGTGC
1 AGGCTACTACGTGAAACTGAAAGTGATGGTCACATGTGTAGTACTATGTGC
*
31665580 AGGCTACTATGTGAA
1 AGGCTACTACGTGAA
31665595 CCGATACCAT
Statistics
Matches: 134, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
49 5 0.04
50 38 0.28
51 88 0.66
52 2 0.01
53 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (51 bp):
AGGCTACTACGTGAAACTGAAAGTGATGGTCACATGTGTAGTACTATGTGC
Found at i:31665592 original size:26 final size:26
Alignment explanation
Indices: 31665512--31665592 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
31665502 TTTGATCATG
31665512 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
31665538 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
31665563 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
31665589 TGTG
1 TGTG
31665593 AACCGATACC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:31665627 original size:101 final size:101
Alignment explanation
Indices: 31665412--31665614 Score: 250
Period size: 101 Copynumber: 2.0 Consensus size: 101
31665402 ATGGTCACGT
*
31665412 GTGTAGTACTATGTGTAGGCTACTACATGTACTAGAATGATAGGTCACATGTGTAGTACTATGTG
1 GTGTAGTACTATGTGCAGGCTACTACATGTACTAGAATGATAGGTCACATGTGTAGTACTATGTG
* * * * **
31665477 CAGGCTACTACGCGTACCAGATAGCTTTGATCATGT
66 CAGGCTACTACGCGAACCAGATACCATTAATCATAA
* *
31665513 GTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGTGAT-GGTCACATGTGTAGTACTAT
1 GTGTAGTACTATGTGCAGGCTACTACATGTACT-AGA-A-TGATAGGTCACATGTGTAGTACTAT
* * *
31665576 GTGCAGGCTACTATGTGAACC-GATACCATTAATTATAA
63 GTGCAGGCTACTACGCGAACCAGATACCATTAATCATAA
31665614 G
1 G
31665615 GTGGTTGCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
100 1 0.01
101 43 0.49
102 39 0.45
103 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (101 bp):
GTGTAGTACTATGTGCAGGCTACTACATGTACTAGAATGATAGGTCACATGTGTAGTACTATGTG
CAGGCTACTACGCGAACCAGATACCATTAATCATAA
Found at i:31670908 original size:51 final size:50
Alignment explanation
Indices: 31670788--31670972 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 50
31670778 AAAGTGATGG
* * * ** *
31670788 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGT-AT-GA
* *
31670838 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAG-TAT-GA
* ** * *
31670889 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGT-ATGA
31670940 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
31670973 TGAACCGGTA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
50 36 0.32
51 75 0.66
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATAGTATGA
Found at i:31670916 original size:101 final size:102
Alignment explanation
Indices: 31670788--31670972 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
31670778 AAAGTGATGG
* * *
31670788 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
31670851 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
*
31670889 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
31670954 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
31670973 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:31670974 original size:26 final size:26
Alignment explanation
Indices: 31670893--31670974 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
31670883 CTTCGATCAC
31670893 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
31670919 ACGTGTA-T-CAGATAGTG-ATGG-TCAC-
1 ATGTGTAGTAC-TAT-GTGCA-GGCT-ACT
31670944 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
31670970 ATGTG
1 ATGTG
31670975 AACCGGTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:31672761 original size:51 final size:49
Alignment explanation
Indices: 31672627--31672766 Score: 142
Period size: 50 Copynumber: 2.8 Consensus size: 49
31672617 AAAGTGAAAG
* * **
31672627 TGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAA
1 TGATAGGTCATGTGT-TAGTACTATGTGCAGGCTACTACGCATACTGGAA
*
31672676 TGATAGGTCGCATGTG-TAGTACTATGTGCTGGCTACTACGCATACTGG-A
1 TGATAGGT--CATGTGTTAGTACTATGTGCAGGCTACTACGCATACTGGAA
* *
31672725 TAGTTTCGGTCATGTGTATAGTACTATGTGCAGGCTACTACG
1 T-G-ATAGGTCATGTGT-TAGTACTATGTGCAGGCTACTACG
31672767 TGTATCGGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
49 12 0.16
50 32 0.42
51 27 0.36
52 5 0.07
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (49 bp):
TGATAGGTCATGTGTTAGTACTATGTGCAGGCTACTACGCATACTGGAA
Found at i:31672787 original size:51 final size:50
Alignment explanation
Indices: 31672629--31672815 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
31672619 AGTGAAAGTG
* * *
31672629 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATGAT
1 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGG-ATGGT
*** * ** *
31672680 A-GGTCGCATGTGTAGTACTATGTGCTGGCTACTACGCATACTGGATAGT
1 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATGGT
* *
31672729 TTCGGTCATGTGTATAGTACTATGTGCAGGCTACTACGTGTA-TCGGATGGT
1 AT-GGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATGGT
* * *
31672780 AATGGTCATATGTGTAGTGCTACGTGCAGGCTACTA
1 -ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTA
31672816 TGTGAACCGA
Statistics
Matches: 110, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 38 0.35
51 68 0.62
52 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (50 bp):
ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATGGT
Found at i:31672912 original size:45 final size:45
Alignment explanation
Indices: 31672821--31672912 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
31672811 TACTATGTGA
* * * *
31672821 ACCGAACATCATCGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATCGATTAATAAGGTGGTTGCTATATGCTGAATCC
* *
31672866 ACCGGACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
1 ACCGAACATCATCGATTAATAAGGTGGTTGCTATATGCTGAATCC
31672911 AC
1 AC
31672913 TGAGTTTCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATCGATTAATAAGGTGGTTGCTATATGCTGAATCC
Found at i:31691742 original size:41 final size:41
Alignment explanation
Indices: 31691615--31691742 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
31691605 CTTTCGAAAA
* * * *
31691615 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAAGGCTCGGGGC
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
31691656 TTTAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGC
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
31691697 TTTAATGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAGGGA
1 TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
31691738 TTTAA
1 TTTAA
31691743 AATAATTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAACGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:31691924 original size:7 final size:7
Alignment explanation
Indices: 31691914--31692103 Score: 57
Period size: 7 Copynumber: 26.9 Consensus size: 7
31691904 TATCACTATA
31691914 GTTTAGG
1 GTTTAGG
**
31691921 GTTTTTG
1 GTTTAGG
31691928 GTTTAGG
1 GTTTAGG
* **
31691935 GTATATA
1 GTTTAGG
*
31691942 GTTTAGA
1 GTTTAGG
*
31691949 GTTTAAG
1 GTTTAGG
31691956 GTTTA-G
1 GTTTAGG
**
31691962 GTGTTACCA
1 GT-TTA-GG
* *
31691971 TTTTAAG
1 GTTTAGG
*
31691978 GTTTATG
1 GTTTAGG
*
31691985 GATTATGG
1 GTTTA-GG
31691993 GTTTAGAG
1 GTTTAG-G
*
31692001 G-TTATG
1 GTTTAGG
*
31692007 GTTTATG
1 GTTTAGG
*
31692014 GTTTATG
1 GTTTAGG
*
31692021 GTTTATG
1 GTTTAGG
*
31692028 GTTTATG
1 GTTTAGG
*
31692035 GTTTAAAG
1 GTTT-AGG
31692043 G-TTAGG
1 GTTTAGG
*
31692049 GTTTAAG
1 GTTTAGG
31692056 GTTTAGAG
1 GTTTAG-G
*
31692064 G-TTATGT
1 GTTTA-GG
*
31692071 GTTAAGG
1 GTTTAGG
31692078 GTTTA-G
1 GTTTAGG
* *
31692084 ATTTATG
1 GTTTAGG
*
31692091 ATTTAGG
1 GTTTAGG
31692098 GTTTAG
1 GTTTAG
31692104 ATTAACTAGT
Statistics
Matches: 139, Mismatches: 32, Indels: 24
0.71 0.16 0.12
Matches are distributed among these distances:
6 13 0.09
7 107 0.77
8 18 0.13
9 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:31692018 original size:21 final size:21
Alignment explanation
Indices: 31691972--31692104 Score: 119
Period size: 21 Copynumber: 6.3 Consensus size: 21
31691962 GTGTTACCAT
*
31691972 TTTA-AGGTTTATGGATTATGGG
1 TTTAGAGG-TTATGGTTTA-GGG
*
31691994 TTTAGAGGTTATGGTTTATGG
1 TTTAGAGGTTATGGTTTAGGG
* *
31692015 TTTATG-GTTTATGGTTTATGG
1 TTTA-GAGGTTATGGTTTAGGG
* * *
31692036 TTTAAAGGTTAGGGTTTAAGG
1 TTTAGAGGTTATGGTTTAGGG
*
31692057 TTTAGAGGTTATGTGTTAAGGG
1 TTTAGAGGTTATG-GTTTAGGG
* *
31692079 TTTAGA-TTTATGATTTAGGG
1 TTTAGAGGTTATGGTTTAGGG
31692099 TTTAGA
1 TTTAGA
31692105 TTAACTAGTG
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
20 12 0.13
21 52 0.56
22 26 0.28
23 3 0.03
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAGAGGTTATGGTTTAGGG
Found at i:31692061 original size:14 final size:14
Alignment explanation
Indices: 31691914--31692066 Score: 82
Period size: 14 Copynumber: 10.7 Consensus size: 14
31691904 TATCACTATA
**
31691914 GTTTAGGGTTTTTG
1 GTTTAGGGTTTAAG
*
31691928 GTTTAGGGTATATA-
1 GTTTAGGGTTTA-AG
*
31691942 GTTTAGAGTTTAAG
1 GTTTAGGGTTTAAG
31691956 GTTTA-GGTGTTACCA-
1 GTTTAGGGT-TTA--AG
* * *
31691971 TTTTAAGGTTTATG
1 GTTTAGGGTTTAAG
*
31691985 GATTATGGGTTTAGAG
1 GTTTA-GGGTTTA-AG
* *
31692001 G-TTATGGTTTATG
1 GTTTAGGGTTTAAG
* *
31692014 GTTTATGGTTTATG
1 GTTTAGGGTTTAAG
*
31692028 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-AAG
31692043 G-TTAGGGTTTAAG
1 GTTTAGGGTTTAAG
31692056 GTTTAGAGGTT
1 GTTTAG-GGTT
31692067 ATGTGTTAAG
Statistics
Matches: 110, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
13 9 0.08
14 72 0.65
15 23 0.21
16 6 0.05
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:31692473 original size:28 final size:27
Alignment explanation
Indices: 31692375--31692473 Score: 65
Period size: 28 Copynumber: 3.4 Consensus size: 27
31692365 ATTTTTTTTG
* *
31692375 GGTTTAGGGTTTAAGAGATTTAAGGGCTATA
1 GGTTTAGGGTTT-ATAG-TTTAA-GGTTA-A
31692406 -GTTTAAGGGTTTTATAGTTTAAGGTTAA
1 GGTTT-AGGG-TTTATAGTTTAAGGTTAA
** * * *
31692434 GGTTTAATGTTTAGTATTTTAAGTTTAT
1 GGTTTAGGGTTTA-TAGTTTAAGGTTAA
31692462 GGTTTAGGGTTT
1 GGTTTAGGGTTT
31692474 GTTATATTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
27 4 0.07
28 24 0.44
29 8 0.15
30 9 0.16
31 7 0.13
32 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (27 bp):
GGTTTAGGGTTTATAGTTTAAGGTTAA
Found at i:31693566 original size:6 final size:6
Alignment explanation
Indices: 31693542--31693584 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
31693532 GAATGAATCG
* * * *
31693542 GCGTCT GCATCT GCATCT GTGTCT GCGTCT GCGTCA GCGTCT G
1 GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT GCGTCT G
31693585 TGGATAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.07, C:0.30, G:0.30, T:0.33
Consensus pattern (6 bp):
GCGTCT
Found at i:31695468 original size:3 final size:3
Alignment explanation
Indices: 31695460--31695486 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31695450 GGGGATTCCT
31695460 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
31695487 ATGATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31698019 original size:42 final size:42
Alignment explanation
Indices: 31697926--31698077 Score: 216
Period size: 42 Copynumber: 3.6 Consensus size: 42
31697916 TCAAAGCATT
* * *
31697926 GCTAAAGGTCTTGAGCTACAGCGGCGTTTGTGGA-AAAAGCGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGT--ATAAAAGCGCC
*
31697969 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTATAAAAGCGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTATAAAAGCGCC
* * *
31698011 GCTAAAGGTCCTGATCTATGGCGGCGTTTGTGTAAAAGTGCC
1 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTATAAAAGCGCC
31698053 GCTAAAGGTCCTGATCTATAGCGGC
1 GCTAAAGGTCCTGATCTATAGCGGC
31698078 ATTTATTTCT
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 71 0.70
43 29 0.29
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (42 bp):
GCTAAAGGTCCTGATCTATAGCGGCGTTTGTATAAAAGCGCC
Found at i:31702806 original size:25 final size:24
Alignment explanation
Indices: 31702768--31702856 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 24
31702758 CATTTACATA
*
31702768 TATGCTCATACGAGCTGTGAATCGG
1 TATGCTCACACGAGCTGT-AATCGG
* *
31702793 TATGCTCACTCGAGCTGTAGATCAG
1 TATGCTCACACGAGCTGTA-ATCGG
* * * *
31702818 TATGCTCTCACAAGCTATAAATCGA
1 TATGCTCACACGAGCTGT-AATCGG
31702843 TATGCTCACACGAG
1 TATGCTCACACGAG
31702857 TTATGGGTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
TATGCTCACACGAGCTGTAATCGG
Found at i:31704502 original size:28 final size:27
Alignment explanation
Indices: 31704469--31704600 Score: 124
Period size: 27 Copynumber: 4.8 Consensus size: 27
31704459 CCTTTGTCGC
31704469 AATCTATGAAATGGAAG-CTTTCATGATG
1 AATCTATGAAATGGAAGCCTTT-ATGA-G
* * **
31704497 TATCTATAAAACAGAAGCCTTTATG-G
1 AATCTATGAAATGGAAGCCTTTATGAG
* * *
31704523 AAATCTATGAAATAGAAGCCTTCATGAC
1 -AATCTATGAAATGGAAGCCTTTATGAG
* *
31704551 ATATCTATAAAATGGAAGCCTTTGTGAG
1 A-ATCTATGAAATGGAAGCCTTTATGAG
*
31704579 AATCTATGAAATGGAAGTCTTT
1 AATCTATGAAATGGAAGCCTTT
31704601 GAGGCAATCT
Statistics
Matches: 84, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 41 0.49
28 38 0.45
29 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (27 bp):
AATCTATGAAATGGAAGCCTTTATGAG
Found at i:31704541 original size:55 final size:55
Alignment explanation
Indices: 31704469--31704600 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 55
31704459 CCTTTGTCGC
**
31704469 AATCTATGAAATGGAAGCTTTCATGATGTATCTATAAAACAGAAGCCTTTATG-G
1 AATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAGAAGCCTTTATGAG
* * ** *
31704523 AAATCTATGAAATAGAAGCCTTCATGACATATCTATAAAATGGAAGCCTTTGTGAG
1 -AATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAGAAGCCTTTATGAG
31704579 AATCTATGAAATGGAAGTCTTT
1 AATCTATGAAATGGAAG-CTTT
31704601 GAGGCAATCT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
55 62 0.94
56 4 0.06
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (55 bp):
AATCTATGAAATGGAAGCTTTCATGACATATCTATAAAACAGAAGCCTTTATGAG
Found at i:31704629 original size:28 final size:27
Alignment explanation
Indices: 31704450--31704634 Score: 112
Period size: 27 Copynumber: 6.7 Consensus size: 27
31704440 ACACGCCAGA
* **
31704450 AAATGAAAGCCTTTGTCGCAATCTATG
1 AAATGGAAGCCTTTGAGGCAATCTATG
* * * *
31704477 AAATGGAAGCTTTCATGATG-TATCTATA
1 AAATGGAAGCCTT--TGAGGCAATCTATG
** *
31704505 AAACAGAAGCCTTT-ATGGAAATCTATG
1 AAATGGAAGCCTTTGA-GGCAATCTATG
* *
31704532 AAATAGAAGCCTTCATGA--CATATCTATA
1 AAATGGAAGCCTT--TGAGGCA-ATCTATG
*
31704560 AAATGGAAGCCTTTGTGAG-AATCTATG
1 AAATGGAAGCCTTTGAG-GCAATCTATG
*
31704587 AAATGGAAGTCTTTGAGGCAATCTATGG
1 AAATGGAAGCCTTTGAGGCAATCTAT-G
*
31704615 AAA-GGAATGCCTTTGTGGCA
1 AAATGGAA-GCCTTTGAGGCA
31704635 CATTCTAAAG
Statistics
Matches: 122, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
25 1 0.01
26 5 0.04
27 62 0.51
28 49 0.40
29 4 0.03
30 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTTTGAGGCAATCTATG
Found at i:31704685 original size:28 final size:28
Alignment explanation
Indices: 31704615--31704691 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
31704605 CAATCTATGG
31704615 AAAGG-AATGCCTTTGTGGC--ACATTCT
1 AAAGGAAATG-CTTTGTGGCAAACATTCT
** *
31704641 AAAGGAAGGGCCTTGTGGCAAACA-TCT
1 AAAGGAAATGCTTTGTGGCAAACATTCT
31704668 AAAGGAAATGCTTTTGTGGCAAAC
1 AAAGGAAATGC-TTTGTGGCAAAC
31704692 CCTGGAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 13 0.32
27 14 0.34
28 14 0.34
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (28 bp):
AAAGGAAATGCTTTGTGGCAAACATTCT
Found at i:31704804 original size:27 final size:27
Alignment explanation
Indices: 31704796--31704907 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
31704786 AGGTATGGTA
31704796 AACATTGAAGGAATAGTATGTATGGCG
1 AACATTGAAGGAATAGTATGTATGGCG
31704823 AACATTGAAGGAATAGTATGTATGGCG
1 AACATTGAAGGAATAGTATGTATGGCG
* ** *
31704850 AACATTGAAGGAATATTACATATGGAG
1 AACATTGAAGGAATAGTATGTATGGCG
* * ** *
31704877 AACTTTAAAGGAATAGTGCGTATGGCA
1 AACATTGAAGGAATAGTATGTATGGCG
31704904 AACA
1 AACA
31704908 CTAAGAGAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (27 bp):
AACATTGAAGGAATAGTATGTATGGCG
Found at i:31704814 original size:23 final size:24
Alignment explanation
Indices: 31704788--31704864 Score: 61
Period size: 27 Copynumber: 3.0 Consensus size: 24
31704778 GGACTGGAAG
31704788 GTATGGTA-AACATTGAAGGAATA
1 GTATGGTAGAACATTGAAGGAATA
31704811 GTAT-GTATGGCGAACATTGAAGGAATA
1 GTATGGTA----GAACATTGAAGGAATA
31704838 GTAT-GTATGGCGAACATTGAAGGAATA
1 GTATGGTA----GAACATTGAAGGAATA
31704865 TTACATATGG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
22 3 0.06
23 4 0.08
27 42 0.86
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (24 bp):
GTATGGTAGAACATTGAAGGAATA
Found at i:31704816 original size:54 final size:55
Alignment explanation
Indices: 31704734--31704907 Score: 133
Period size: 54 Copynumber: 3.2 Consensus size: 55
31704724 AGAACGGTAA
* * * * * * *
31704734 GTATGACAAACCTTGAAGAAAT-GATATGTGTGGCTAAC-TCTGAAGGACTGGAAG
1 GTATGGCAAACATTGAAGGAATAGATATGTATGGCGAACAT-TGAAGGAATAGAAG
* * *
31704788 GTATGGTAAACATTGAAGGAATAG-TATGTATGGCGAACATTGAAGGAATAGTAT
1 GTATGGCAAACATTGAAGGAATAGATATGTATGGCGAACATTGAAGGAATAGAAG
* * ** * * * *
31704842 GTATGGCGAACATTGAAGGAATA-TTACATATGGAGAACTTTAAAGGAATAG-TG
1 GTATGGCAAACATTGAAGGAATAGATATGTATGGCGAACATTGAAGGAATAGAAG
31704895 CGTATGGCAAACA
1 -GTATGGCAAACA
31704908 CTAAGAGAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
54 94 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (55 bp):
GTATGGCAAACATTGAAGGAATAGATATGTATGGCGAACATTGAAGGAATAGAAG
Found at i:31707131 original size:50 final size:50
Alignment explanation
Indices: 31707067--31707197 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
31707057 CTATACTACT
* * **
31707067 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
* ** *
31707117 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
*
31707167 AACGCCATGTCCCAGACATGGTCTTACATGG
1 AATGCCATGTCCCAGACATGGTCTTACATGG
31707198 AATCTCATTC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCC
Found at i:31714454 original size:20 final size:20
Alignment explanation
Indices: 31714429--31714467 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31714419 TACTTTCTTC
31714429 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
31714449 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
31714468 AAATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:31714798 original size:50 final size:50
Alignment explanation
Indices: 31714721--31714909 Score: 180
Period size: 50 Copynumber: 3.7 Consensus size: 50
31714711 TCCTGTACTA
* * * * **
31714721 CCAATGCCATATCCCACATATGATCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** * *
31714771 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* **
31714821 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
* *
31714877 CCAATGCCATGTCCCTGACATGGTCTTAGATGG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGG
31714910 TATCTCATTC
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 78 0.70
53 1 0.01
56 32 0.29
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:31714886 original size:56 final size:50
Alignment explanation
Indices: 31714669--31714909 Score: 162
Period size: 50 Copynumber: 4.7 Consensus size: 50
31714659 TGATAATAAC
* * * * ** *
31714669 ATGCCAAAGCCATGTCCCAGATATGGCCTTACATGAGATGTTTC--CTGTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-TA
* * * * * * ** * **
31714718 CTACCAATGCCATATCCCACATATGATCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTA
* * ** *
31714768 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTA
* *
31714818 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CT---TA
* *
31714874 ATGCCAATGCCATGTCCCTGACATGGTCTTAGATGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
31714910 TATCTCATTC
Statistics
Matches: 148, Mismatches: 36, Indels: 9
0.77 0.19 0.05
Matches are distributed among these distances:
49 33 0.22
50 79 0.53
51 1 0.01
53 2 0.01
56 33 0.22
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTA
Found at i:31715383 original size:26 final size:26
Alignment explanation
Indices: 31715332--31715384 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
31715322 GGACCAAATT
* * *
31715332 ATAAGAAATAAAATTAAAATACAAAA
1 ATAAAAAATAAAATAAAAACACAAAA
*
31715358 ATAAAAAAT-AAATAAAAACACTAAA
1 ATAAAAAATAAAATAAAAACACAAAA
31715383 AT
1 AT
31715385 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (26 bp):
ATAAAAAATAAAATAAAAACACAAAA
Found at i:31715458 original size:20 final size:20
Alignment explanation
Indices: 31715433--31715471 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31715423 AACTAAAATT
31715433 TTTAATTTTATCTAATTTTA
1 TTTAATTTTATCTAATTTTA
31715453 TTTAATTTTATCTAATTTT
1 TTTAATTTTATCTAATTTT
31715472 TATAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTTTATCTAATTTTA
Found at i:31715474 original size:11 final size:10
Alignment explanation
Indices: 31715435--31715471 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
31715425 CTAAAATTTT
31715435 TAATTTTATC
1 TAATTTTATC
*
31715445 TAATTTTATT
1 TAATTTTATC
31715455 TAATTTTATC
1 TAATTTTATC
31715465 TAATTTT
1 TAATTTT
31715472 TATAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATTTTATC
Found at i:31717723 original size:15 final size:15
Alignment explanation
Indices: 31717703--31717732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31717693 GAGTTGAAAG
31717703 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
31717718 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
31717733 AACTGATCCA
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:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:31718103 original size:43 final size:43
Alignment explanation
Indices: 31718042--31718292 Score: 342
Period size: 43 Copynumber: 5.9 Consensus size: 43
31718032 GCTTGTAATC
*
31718042 AAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * *
31718085 AAAGCGCCGCTTAAGGTCTTGATCTATAGTGACGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * *
31718128 AAAGCACCGCTAAAGGTCTTGATCTATAGTGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * ** * * *
31718171 AAAGCGCTGCTAAAGATCCCGAGCTATAGCAGCGTTTGT-GTA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* *
31718213 GAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
*
31718256 AAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
31718293 ATTTCTAAAA
Statistics
Matches: 179, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 34 0.19
43 145 0.81
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
Found at i:31739469 original size:25 final size:25
Alignment explanation
Indices: 31739432--31739497 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
31739422 GCCATGAGGG
31739432 TTACCGAT-TTCAGCTCGAATGAGC
1 TTACCGATATTCAGCTCGAATGAGC
* *
31739456 TTACCGATACTCAGCTCGCATGAGC
1 TTACCGATATTCAGCTCGAATGAGC
*
31739481 TTACCGTTATTCAGCTC
1 TTACCGATATTCAGCTC
31739498 AGAGGATCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 8 0.22
25 29 0.78
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGAATGAGC
Found at i:31742845 original size:54 final size:54
Alignment explanation
Indices: 31742763--31742873 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
31742753 CCATTCATAT
* * *
31742763 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACTTGTTGAGTCCACTGGATTC
1 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
*
31742817 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCATTAGATTC
1 GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
31742871 GTG
1 GTG
31742874 ATAAATGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (54 bp):
GTGTGCATGAATTTAGTGTCTAGTAAGAATTTACCTATTGAGTCCACTAGATTC
Found at i:31745680 original size:28 final size:28
Alignment explanation
Indices: 31745617--31745767 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
31745607 ATATTAAGTC
*
31745617 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
31745644 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31745672 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
31745700 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31745728 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31745757 CGCACACTTAG
1 CGCACACTTAG
31745768 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31753901 original size:28 final size:28
Alignment explanation
Indices: 31753838--31753988 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
31753828 ATATTAAGTC
*
31753838 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
31753865 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31753893 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
31753921 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31753949 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31753978 CGCACACTTAG
1 CGCACACTTAG
31753989 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31757318 original size:42 final size:42
Alignment explanation
Indices: 31757259--31757338 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
31757249 AAAGCAACTT
31757259 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
* *
31757301 TAGATCGTTAGAAATCATATGCGAATCTTAAACATAAA
1 TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAA
31757339 CATACAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (42 bp):
TAGATCGTCAAAAATCATATGCGAATCTTAAACATAAAGATA
Found at i:31758795 original size:25 final size:24
Alignment explanation
Indices: 31758741--31758847 Score: 99
Period size: 25 Copynumber: 4.3 Consensus size: 24
31758731 GGTTATCGAT
**
31758741 TTCAGCTCGAACGAGCTTACCAATA
1 TTCAGCTCGAA-GAGCTTACCGTTA
* *
31758766 CTCAGCTCGCATGAGCTTACCGTTA
1 TTCAGCTCG-AAGAGCTTACCGTTA
*
31758791 TTCAGGTCGAAGAAGCTTACCGTTA
1 TTCAGCTCGAAG-AGCTTACCGTTA
* *
31758816 TTCAACTCAGAGGAGCTTACCGTT-
1 TTCAGCTC-GAAGAGCTTACCGTTA
*
31758840 TACAGCTC
1 TTCAGCTC
31758848 ATAAGAGCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.12
25 55 0.82
26 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (24 bp):
TTCAGCTCGAAGAGCTTACCGTTA
Found at i:31762398 original size:28 final size:29
Alignment explanation
Indices: 31762358--31762433 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
31762348 CCTCGATATG
* * *
31762358 ATGTCAGCTTGTGTGAGCAA-ATTCATAA
1 ATGTCAACTTGTGTGAGCAACATTAACAA
* * *
31762386 ATGTCAACTTGTGTAAGCAACCTTAACCA
1 ATGTCAACTTGTGTGAGCAACATTAACAA
*
31762415 TTGTCAACTTGTGTGAGCA
1 ATGTCAACTTGTGTGAGCA
31762434 GTATAGTCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (29 bp):
ATGTCAACTTGTGTGAGCAACATTAACAA
Found at i:31763504 original size:33 final size:33
Alignment explanation
Indices: 31763461--31763527 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
31763451 AAATTTGGAC
31763461 TGCAGAGGTCACACGGTCGTGTCTCAGGCTATG
1 TGCAGAGGTCACACGGTCGTGTCTCAGGCTATG
*
31763494 TGCAGGGGTCACACGGTCGTGTCTCAGGCTATG
1 TGCAGAGGTCACACGGTCGTGTCTCAGGCTATG
31763527 T
1 T
31763528 AACAATCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.34, T:0.25
Consensus pattern (33 bp):
TGCAGAGGTCACACGGTCGTGTCTCAGGCTATG
Found at i:31764628 original size:41 final size:41
Alignment explanation
Indices: 31764583--31764704 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 41
31764573 AGTACGTCCA
* *
31764583 GGGTACCGAAGTGCAAACAAGGGCATATATGTGCAATTCAG
1 GGGTATCGAAGTACAAACAAGGGCATATATGTGCAATTCAG
* * * *
31764624 GGGTATCGAAGTACAAACACGGGCAAACATGTGCATTTCAG
1 GGGTATCGAAGTACAAACAAGGGCATATATGTGCAATTCAG
* * * *
31764665 GCGTATTGAAGTACAAATAGGGGCACT-TATGTGCAATTCA
1 GGGTATCGAAGTACAAACAAGGGCA-TATATGTGCAATTCA
31764705 TCTTTATTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (41 bp):
GGGTATCGAAGTACAAACAAGGGCATATATGTGCAATTCAG
Found at i:31772744 original size:47 final size:47
Alignment explanation
Indices: 31772675--31772768 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
31772665 GCTACTATAG
31772675 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
*
31772722 CCATACGGATATCATTATTCAACCTATCTTCAAATCTAATACACATT
1 CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
31772769 TTTGCCTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (47 bp):
CCATACGGATATCATTATTCAACCCATCTTCAAATCTAATACACATT
Found at i:31786072 original size:19 final size:19
Alignment explanation
Indices: 31786043--31786087 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
31786033 AGAGAAATAG
*
31786043 AAAGTAAAAAAAAGAGCGAA
1 AAAG-AAAAAAAAGAACGAA
*
31786063 AAAGAAAAAAAAGAATGAA
1 AAAGAAAAAAAAGAACGAA
31786082 AAAGAA
1 AAAGAA
31786088 TATGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAGAAAAAAAAGAACGAA
Found at i:31797698 original size:14 final size:14
Alignment explanation
Indices: 31797679--31797705 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31797669 TATTTAAAGG
31797679 TAACATGGTGATGA
1 TAACATGGTGATGA
31797693 TAACATGGTGATG
1 TAACATGGTGATG
31797706 GTCAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
TAACATGGTGATGA
Found at i:31814440 original size:103 final size:102
Alignment explanation
Indices: 31814203--31814570 Score: 583
Period size: 102 Copynumber: 3.6 Consensus size: 102
31814193 TAACCATTAT
* * * *
31814203 CGGTGGATTCCGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* *
31814268 GAATCAGCACTTATCAACCCCCTTCACATTTCAGATA
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
* * ** *
31814305 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
*
31814370 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTAAGATA
31814408 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* *
31814473 GAATCAGCACTTAGCAACCCCCTTCACATTTTAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
* *
31814510 CGGTGGAATTAGCACTTAGAAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
31814571 TATATGCAAT
Statistics
Matches: 243, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
102 148 0.61
103 95 0.39
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATA
Found at i:31814454 original size:33 final size:33
Alignment explanation
Indices: 31814412--31814566 Score: 106
Period size: 33 Copynumber: 4.6 Consensus size: 33
31814402 AAAATACGGT
31814412 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
** *
31814445 GGAATCAGCACACAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
31814472 GGAATCAGCACTTAGCAACCCCCTTCACATTTTAGATGCGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGA-AT-CGG
* *
31814513 TGGAATTAGCACTTAGAAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
**
31814547 GGAATCAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
31814567 CCTTTATATG
Statistics
Matches: 93, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
27 19 0.20
28 2 0.02
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 34 0.37
34 3 0.03
35 2 0.02
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 5 0.05
42 16 0.17
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:31821901 original size:33 final size:33
Alignment explanation
Indices: 31821859--31822089 Score: 150
Period size: 33 Copynumber: 6.6 Consensus size: 33
31821849 CAGATACGGT
*
31821859 GGAATCAGCACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
31821892 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A--T-GAAT-CGG
*
31821934 TGGAATCAGCACTTAGCAACCATCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
** *
31821968 GGAATCAGCACACAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
31821995 GGAATCAGCACTTAGCAAACCCCTTCACATTTTAGATGCGG
1 GGAATCAGCACTTAGC-AACCAC--CA-A--TGA-AT-CGG
31822036 TGGAATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
**
31822070 GGAATCAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
31822090 CCTTTATATG
Statistics
Matches: 156, Mismatches: 17, Indels: 50
0.70 0.08 0.22
Matches are distributed among these distances:
27 17 0.11
28 4 0.03
29 1 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 54 0.35
34 9 0.06
35 5 0.03
36 4 0.03
37 2 0.01
38 3 0.02
39 4 0.03
40 2 0.01
41 10 0.06
42 20 0.13
43 18 0.12
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:31821911 original size:75 final size:76
Alignment explanation
Indices: 31821818--31821989 Score: 274
Period size: 76 Copynumber: 2.3 Consensus size: 76
31821808 CCCCTTGGGC
* * *
31821818 GAATCAGCACTTATCAACCCCC-TTCACATTTCAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
31821882 AATGAATAGGG
66 AATGAATAGGG
*
31821893 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCATC
1 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
*
31821958 AATGAATCGGG
66 AATGAATAGGG
**
31821969 GAATCAGCACACAGCAACCCC
1 GAATCAGCACTTAGCAACCCC
31821990 TTGGGGGAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 21 0.24
76 68 0.76
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (76 bp):
GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACC
AATGAATAGGG
Found at i:31822000 original size:27 final size:28
Alignment explanation
Indices: 31821966--31822019 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
31821956 TCAATGAATC
31821966 GGGGAATCAGCACACAGC-AACCCCTTG
1 GGGGAATCAGCACACAGCAAACCCCTTG
**
31821993 GGGGAATCAGCACTTAGCAAACCCCTT
1 GGGGAATCAGCACACAGCAAACCCCTT
31822020 CACATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (28 bp):
GGGGAATCAGCACACAGCAAACCCCTTG
Found at i:31822049 original size:102 final size:103
Alignment explanation
Indices: 31821890--31822093 Score: 356
Period size: 102 Copynumber: 2.0 Consensus size: 103
31821880 CCAATGAATA
*
31821890 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
31821955 ATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
* * *
31821993 GGGGAATCAGCACTTAGCAAACCCC-TTCACATTTTAGATGCGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
31822057 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
66 ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
31822094 TATATGCAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 72 0.75
103 24 0.25
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAAACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTG
Found at i:31822052 original size:178 final size:178
Alignment explanation
Indices: 31821753--31822091 Score: 588
Period size: 178 Copynumber: 1.9 Consensus size: 178
31821743 TAACCATTAT
* *
31821753 CGGTGGATTCCGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
1 CGGTGGAATCAGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
* *
31821818 GAATCAGCACTTATCAACCCCCTTCACATTTCAGATACGGTGGAATCAGCACTTAGCAACCACCA
66 GAATCAGCACTTAGCAAACCCCTTCACATTTCAGATACGGTGGAATCAGCACTTAGCAACCACCA
**
31821883 ATGAATAGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
131 ATGAATAGGGGAATCAGCACACAGCAACCCCCTTTCACATTTAAAATA
*
31821931 CGGTGGAATCAGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
* *
31821996 GAATCAGCACTTAGCAAACCCCTTCACATTTTAGATGCGGTGGAATCAGCACTTAGCAACCACCA
66 GAATCAGCACTTAGCAAACCCCTTCACATTTCAGATACGGTGGAATCAGCACTTAGCAACCACCA
*
31822061 ATGAATCGGGGAATCAGCACACAGCAACCCC
131 ATGAATAGGGGAATCAGCACACAGCAACCCC
31822092 TTTATATGCA
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
178 151 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (178 bp):
CGGTGGAATCAGCACTTAGCAACCATCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGC
GAATCAGCACTTAGCAAACCCCTTCACATTTCAGATACGGTGGAATCAGCACTTAGCAACCACCA
ATGAATAGGGGAATCAGCACACAGCAACCCCCTTTCACATTTAAAATA
Found at i:31826318 original size:50 final size:50
Alignment explanation
Indices: 31826176--31826469 Score: 268
Period size: 50 Copynumber: 5.9 Consensus size: 50
31826166 GAACATAACA
* * * ** * * * *
31826176 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * * * ** *
31826225 TGCCAATGTCATATCCTAGATATGGTCTTACATTGGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * **
31826275 TGCCCATGCCATGTCCCAGACATGGTCATACGGGGGACCTCTCATCTCA-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* * * *
31826325 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCACTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
31826375 TGCCAGCGCCATGTCCCAGACATGGTTTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
31826425 TGCCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
31826470 AATCTCAATG
Statistics
Matches: 197, Mismatches: 45, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 35 0.18
50 161 0.82
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:31832783 original size:51 final size:51
Alignment explanation
Indices: 31832675--31832860 Score: 230
Period size: 51 Copynumber: 3.6 Consensus size: 51
31832665 ATAGGTGTCC
** ***
31832675 ATGCCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTTGGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCAATGCCA
*
31832725 ACGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCAATGCCA
* * *
31832776 ATGCCATGTCCCTGACATGGTCTTACATGGGACCTCTTATAATCTCAACGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACC-C-TCTCATCTC-A--ATGCCA
*
31832832 ATGCCATGTCCAAGACATGGTCTTACATG
1 ATGCCATGTCCCAGACATGGTCTTACATG
31832861 AGATTTCATC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 29 0.25
51 47 0.40
52 1 0.01
53 7 0.06
54 1 0.01
56 33 0.28
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (51 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGACCCTCTCATCTCAATGCCA
Found at i:31839536 original size:13 final size:13
Alignment explanation
Indices: 31839518--31839542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31839508 CTGCAGGGTC
31839518 ACACGGCTAAGAG
1 ACACGGCTAAGAG
31839531 ACACGGCTAAGA
1 ACACGGCTAAGA
31839543 TACAGGCTCT
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:0.40, C:0.24, G:0.28, T:0.08
Consensus pattern (13 bp):
ACACGGCTAAGAG
Found at i:31840641 original size:719 final size:714
Alignment explanation
Indices: 31839638--31841067 Score: 2488
Period size: 719 Copynumber: 2.0 Consensus size: 714
31839628 CACCCTTCAT
31839638 GCATGTACATATAACCATTTTTACACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
1 GCATGTACATATAACCATTTTTACACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
* *
31839703 ATCAAGCTAACCGAATATGGTACATTTGCATACAACCAATATGCCCAGAGGAGTCTCTATGACAC
66 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGGAGTCTCTATGACAC
* * *
31839768 TATATAAACATATATAACCATGTGCATCATTTAACCAATAGTTATCAGTTTGATCACATACCAAA
131 TATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCAAA
*
31839833 TTCACATCCACAAATACCAAATTTACCATTTACCAAATAGCATCATAACTCATATATGCCATCTA
196 TTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATCTA
*
31839898 CACTTTCATAGCAAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAAATCAA
261 CACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAAATCAA
* * * *
31839963 TCATTATAAGGCCACATGCGTATAACAATATATTCAACCATTTCAAACATTCTAAATACTAAATT
326 CCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAACT
* *
31840028 CTTAAGCGAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATGCC
391 CTCAAGCCAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATGCC
*
31840093 ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGTCGAAAGATAGTGTGATATAACCC
456 ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGAT-GTGTGATATAACCC
* * *
31840158 TGACAAGCTTCCAACCTGAACGAGCTTTTGATTCATTATAAAACACA-AAAATAACAGAGTGTAA
520 TGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAGAAAATAACAGAGTGTAA
*
31840222 GCATAAATGCTTAGTAAGTTCGTATAATGTAAAACACAACTTACCATTTAATCCAATAATAGGTA
585 GCATAAATGC-T--T-AGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTA
*
31840287 AGTTCACATGGCACATTTCAATCACAATTTGGCCAAAGCCTAAGCATGTACACCAAACATGTTAG
646 AGTTAACATGGCACATTTCAATCACAATTTGGCCAAAGCCTAAGCAT-TACACCAAACATGTTAG
31840352 CCTAA
710 CCTAA
* *
31840357 GCATGTACATATAATCATTTTTGCACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
1 GCATGTACATATAACCATTTTTACACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
*
31840422 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCCATATGCCCAAAGGCA-TCTCTATGACA
66 ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGG-AGTCTCTATGAC-
*
31840486 AC-ATATAAATATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCA
129 ACTATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCA
31840550 AATTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATC
194 AATTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATC
* *
31840615 TACACTTTCATACCTAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAATTC
259 TACACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAAATC
31840680 AACCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAA
324 AACCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAA
31840745 CTCTCAAGCCAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATG
389 CTCTCAAGCCAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATG
* **
31840810 CCATTATAACCAAACTTAGAAACATCCAAAAGTACCGATATAGCCGATGGATGTGTGATATAACC
454 CCATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGATGTGTGATATAACC
*
31840875 CTGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAGAAAATAACATAGTGTA
519 CTGACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAGAAAATAACAGAGTGTA
31840940 AGCATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAGT
584 AGCATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAGT
* *
31841005 TAACATGGCATATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACGTGTTAGCC
649 TAACATGGCACATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACATGTTAGCC
31841068 ATTTACACAT
Statistics
Matches: 677, Mismatches: 31, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
714 18 0.03
715 93 0.14
716 1 0.00
718 59 0.09
719 503 0.74
720 3 0.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (714 bp):
GCATGTACATATAACCATTTTTACACAATTCAACAAGCCATCAAAATGCATCAAAACCATACATA
ATCAAGCTAACCAAATATGGTACATTTGCATACAACCAATATGCCCAAAGGAGTCTCTATGACAC
TATATAAACATATATAACCATGTGCATCATTTAACCAACAATTATCACTTTGATCACATACCAAA
TTCACATCCACAAATACCAAATTTACCATTTACCAAATAACATCATAACTCATATATGCCATCTA
CACTTTCATACCAAAATGACTATATTCTCATCCATCATCTAAGCATCCATGAACTATAAAATCAA
CCATTATAAGGCCACATGCATATAACAATATATTCAACCATTTCAAACATTCTAAATACCAAACT
CTCAAGCCAAAACATATTGGCCAAAACAAATGGCTACTTCAACAACCAAAATACCTATACATGCC
ATTATAACCAAACTTAGAAACATCCAAAAGTACCAATATAGCCGAAAGATGTGTGATATAACCCT
GACAAGCTTCCAACCCGAACGAGCTTTCGATTCACTATAAAACACAGAAAATAACAGAGTGTAAG
CATAAATGCTTAGTTCGTATAATGTAAAACACAACTTACCATTGAATCCAATAATAGGTAAGTTA
ACATGGCACATTTCAATCACAATTTGGCCAAAGCCTAAGCATTACACCAAACATGTTAGCCTAA
Found at i:31843427 original size:33 final size:35
Alignment explanation
Indices: 31843384--31843448 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
31843374 TTTATTTTAA
*
31843384 TTCTTTTTA-TTA-TAATATAACATATATATACAT
1 TTCTTATTATTTATTAATATAACATATATATACAT
31843417 TTCTTATTATTTATTAATATAACATATATATA
1 TTCTTATTATTTATTAATATAACATATATATA
31843449 TGCAAAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 8 0.28
34 3 0.10
35 18 0.62
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (35 bp):
TTCTTATTATTTATTAATATAACATATATATACAT
Found at i:31845096 original size:25 final size:24
Alignment explanation
Indices: 31845062--31845147 Score: 109
Period size: 25 Copynumber: 3.5 Consensus size: 24
31845052 CCACAACTCA
*
31845062 TGAGAGCATATCAATTTATATCTCG
1 TGAGAGCATA-CAATTTATAGCTCG
*
31845087 TGAGAGCATACAGATTTATAGCTCA
1 TGAGAGCATACA-ATTTATAGCTCG
*
31845112 TGAGAGCATACGGATTTATAGCTCG
1 TGAGAGCATAC-AATTTATAGCTCG
*
31845137 CGAGAGCATAC
1 TGAGAGCATAC
31845148 CGATCTACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.96
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (24 bp):
TGAGAGCATACAATTTATAGCTCG
Found at i:31845169 original size:50 final size:50
Alignment explanation
Indices: 31845058--31845172 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
31845048 TACTCCACAA
* * * * * *
31845058 CTCATGAGAGCATATC-AATTTATATCTCGTGAGAGCATACAGATTTATAG
1 CTCATAAGAGCATA-CGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
* * *
31845108 CTCATGAGAGCATACGGATTTATAGCTCGCGAGAGCATACCGATCTACAT
1 CTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
31845158 CTCA-AATGAGCATAC
1 CTCATAA-GAGCATAC
31845173 CAATTCACAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
CTCATAAGAGCATACGGATTTATAGCTCGCGAGAGCATACAGATCTACAG
Found at i:31847818 original size:13 final size:12
Alignment explanation
Indices: 31847788--31847843 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
31847778 AATGTGAAAC
*
31847788 AAAAAGAAATTG
1 AAAAAGAAGTTG
31847800 AAAAAGAAGTTG
1 AAAAAGAAGTTG
*
31847812 AAGAAAGAAG-AG
1 AA-AAAGAAGTTG
*
31847824 AAAATG-AGTTAG
1 AAAAAGAAGTT-G
31847836 AAAAAGAA
1 AAAAAGAA
31847844 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 22 0.63
13 8 0.23
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAGTTG
Found at i:31862315 original size:22 final size:22
Alignment explanation
Indices: 31862290--31862678 Score: 465
Period size: 22 Copynumber: 17.7 Consensus size: 22
31862280 CCAACATTCA
* *
31862290 GACAACATTTAATTAACATTTG
1 GACAACATTTAATCAACAATTG
31862312 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
31862334 AACAACAATCAATCAACATTTG
1 GACAACATTTAATCAACAATTG
* * * *
31862356 TATAGCATTTAATCAA-TATTG
1 GACAACATTTAATCAACAATTG
** *
31862377 GACAGTATTAAATCAACAATTG
1 GACAACATTTAATCAACAATTG
*
31862399 GACAGCATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * * *
31862421 GACAGCATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31862443 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* **
31862465 GACAACATTAAATCAACTTTTG
1 GACAACATTTAATCAACAATTG
*
31862487 GACGACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* *
31862509 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31862531 GACAGCATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
31862553 GACAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31862575 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* *
31862597 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31862619 AACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
31862641 GACAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31862663 GACAACATTTAATCAA
1 GACAACATTTAATCAA
31862679 AAAAATTTAA
Statistics
Matches: 309, Mismatches: 57, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
21 15 0.05
22 294 0.95
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
GACAACATTTAATCAACAATTG
Found at i:31862339 original size:44 final size:44
Alignment explanation
Indices: 31862290--31862678 Score: 555
Period size: 44 Copynumber: 8.9 Consensus size: 44
31862280 CCAACATTCA
* *
31862290 GACAACATTTAATTAACATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * * * * * *
31862334 AACAACAATCAATCAACATTTGTATAGCATTTAATCAA-TATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
** * *
31862377 GACAGTATTAAATCAACAATTGGACAGCATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * *
31862421 GACAGCATTCAATCAATATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
31862465 GACAACATTAAATCAACTTTTGGACGACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
*
31862509 GACAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
31862553 GACAACATTCAATCAATATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
*
31862597 GACAACATTAAATCAACATTTGAACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
31862641 GACAACATTCAATCAATATTTGGACAACATTTAATCAA
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAA
31862679 AAAAATTTAA
Statistics
Matches: 305, Mismatches: 39, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 34 0.11
44 271 0.89
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (44 bp):
GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
Found at i:31863593 original size:43 final size:43
Alignment explanation
Indices: 31863506--31863656 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
31863496 ATGATGTCAT
* * * * *
31863506 TGTCCTAGACAGGGTCTTACATGT-AATCATATACGACGCTAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATATATGACGCCAA
31863548 TGTCCCAGACATGGTCTTACACGTAAATCATATATGACGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATATATGACGCCAA
* *
31863591 TGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGAGGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCAT-ATAT-GACGCCAA
*
31863635 CGTCCCAGACATGGTCTTACAC
1 TGTCCCAGACATGGTCTTACAC
31863657 AGTGCCACAT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 22 0.22
43 48 0.49
44 28 0.29
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAAATCATATATGACGCCAA
Found at i:31869064 original size:22 final size:21
Alignment explanation
Indices: 31869023--31869064 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
31869013 ATCTTTTCTT
*
31869023 TTCTTCTTTCTTTTCAATTTC
1 TTCTTCTTTCTTGTCAATTTC
*
31869044 TTCTTCTCTTGTTGTCAATTT
1 TTCTTCT-TTCTTGTCAATTT
31869065 TTCCCCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.21, G:0.05, T:0.64
Consensus pattern (21 bp):
TTCTTCTTTCTTGTCAATTTC
Found at i:31870012 original size:27 final size:26
Alignment explanation
Indices: 31869982--31870123 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 26
31869972 AAAATAACCG
* *
31869982 AAATGCCCTCGATAGGTAAAATGATAA
1 AAATACCCTCGA-AGGTAAAATGATCA
* * *
31870009 AAATACCCTTGAGGGTAAAATGA-CTG
1 AAATACCCTCGAAGGTAAAATGATC-A
* * *
31870035 AAATACCCTCAAATGGTAAAATGACCG
1 AAATACCCTCGAA-GGTAAAATGATCA
*
31870062 AAATACCTTCGAAGGGTAAAATGATCA
1 AAATACCCTCGAA-GGTAAAATGATCA
* *
31870089 AAATACCCTCGAAAGGTAAAATGACCG
1 AAATACCCTCG-AAGGTAAAATGATCA
31870116 AAATACCC
1 AAATACCC
31870124 CCATAGGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 20 0.21
27 72 0.76
28 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (26 bp):
AAATACCCTCGAAGGTAAAATGATCA
Found at i:31870097 original size:54 final size:54
Alignment explanation
Indices: 31870020--31870150 Score: 169
Period size: 54 Copynumber: 2.4 Consensus size: 54
31870010 AATACCCTTG
* * *
31870020 AGGGTAAAATGACTGAAATACCCTC-AAATGGTAAAATGACCGAAATACCTTCGA-
1 AGGGTAAAATGACTAAAATACCCTCGAAA-GGTAAAATGACCGAAATACC-CCCAT
31870074 AGGGTAAAATGA-TCAAAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAT
1 AGGGTAAAATGACT-AAAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAT
* *
31870128 AGGGTAAAATGACTGATATACCC
1 AGGGTAAAATGACTAAAATACCC
31870151 CTAGGAATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
53 3 0.04
54 61 0.90
55 4 0.06
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (54 bp):
AGGGTAAAATGACTAAAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAT
Found at i:31870133 original size:27 final size:27
Alignment explanation
Indices: 31869969--31870151 Score: 124
Period size: 27 Copynumber: 6.8 Consensus size: 27
31869959 TGTGATTTAT
* * *
31869969 GGTAAAATAACCGAAATGCCCTCGATA-
1 GGTAAAATGACCGAAATACCC-CCATAG
*** *
31869996 GGTAAAATGATAAAAATA--CCCTTGAG
1 GGTAAAATGACCGAAATACCCCCAT-AG
* * * *
31870022 GGTAAAATGACTGAAATACCCTCAAAT
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31870049 GGTAAAATGACCGAAATACCTTCGA-AG
1 GGTAAAATGACCGAAATACC-CCCATAG
* * * *
31870076 GGTAAAATGATCAAAATACCCTCGA-AA
1 GGTAAAATGACCGAAATACCC-CCATAG
31870103 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
31870130 GGTAAAATGACTGATATACCCC
1 GGTAAAATGACCGAAATACCCC
31870152 TAGGAATTGA
Statistics
Matches: 120, Mismatches: 29, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 17 0.14
27 96 0.80
28 3 0.03
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:31870165 original size:81 final size:79
Alignment explanation
Indices: 31869969--31870149 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 79
31869959 TGTGATTTAT
* * * *
31869969 GGTAAAATAACCGAAATGCCCT-CGATAGGTAAAATGATAAAAATACCCTTGAGGGTAAAATGAC
1 GGTAAAATGACCGAAAT-ACCTACGA-AGGTAAAATGATAAAAATACCCTCGAAGGTAAAATGAC
* * *
31870033 TGAAATACCCTCAAAT
64 CGAAATACCCCCAAAG
* *
31870049 GGTAAAATGACCGAAATACCTTCGAAGGGTAAAATGATCAAAATACCCTCGAAAGGTAAAATGAC
1 GGTAAAATGACCGAAATACCTACGAA-GGTAAAATGATAAAAATACCCTCG-AAGGTAAAATGAC
*
31870114 CGAAATACCCCCATAG
64 CGAAATACCCCCAAAG
* *
31870130 GGTAAAATGACTGATATACC
1 GGTAAAATGACCGAAATACC
31870150 CCTAGGAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.05
80 41 0.47
81 42 0.48
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (79 bp):
GGTAAAATGACCGAAATACCTACGAAGGTAAAATGATAAAAATACCCTCGAAGGTAAAATGACCG
AAATACCCCCAAAG
Found at i:31870353 original size:26 final size:26
Alignment explanation
Indices: 31870320--31870391 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
31870310 ACAAAGACTG
*
31870320 TTACTGGCAGCTTTGCTGCGTTACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
*
31870346 TTACTGGCAGCTTTGCTGTGTCACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
*
31870372 TTATTGGCAGCTTTGCTGCG
1 TTACTGGCAGCTTTGCTGCG
31870392 ATATTGGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGTCACTA
Found at i:31870539 original size:28 final size:28
Alignment explanation
Indices: 31870497--31870587 Score: 119
Period size: 28 Copynumber: 3.1 Consensus size: 28
31870487 ACGACATTGT
*
31870497 ACTGATTACTATATTGGGCTAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
*
31870526 ACTGTTACTGTATTGGGCTAAGACTCACAC
1 ACTGTTACTGTATTGGGCTAAGGC-C-CAC
* *
31870556 ACTATTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
31870584 ACTG
1 ACTG
31870588 CACTGATACT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 24 0.44
29 6 0.11
30 24 0.44
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:31870833 original size:26 final size:26
Alignment explanation
Indices: 31870791--31870857 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
31870781 TCTGCTTTTA
*
31870791 TTGTATTTT-TAACAATAAGTTGGGTT
1 TTGT-TTTTGTAATAATAAGTTGGGTT
31870817 TTGTTTTTGTAATAATAAGTTGGGTT
1 TTGTTTTTGTAATAATAAGTTGGGTT
31870843 TTGTTTTTGTAATAA
1 TTGTTTTTGTAATAA
31870858 GGCCTTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 4 0.10
26 35 0.90
ACGTcount: A:0.25, C:0.01, G:0.19, T:0.54
Consensus pattern (26 bp):
TTGTTTTTGTAATAATAAGTTGGGTT
Found at i:31873826 original size:50 final size:50
Alignment explanation
Indices: 31873638--31873876 Score: 149
Period size: 50 Copynumber: 4.7 Consensus size: 50
31873628 GATAATAACA
* * * ** * * *
31873638 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCT-CGG
* * * * * * ** *
31873687 TGCCAATGTCATATCCCAGATATGGCCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCGG
* * * *** *
31873737 TGCCCATGCCATGTCTCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCGG
* * *
31873787 TGCCAACGCCATGTCCCAGACATAGTCTTATATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGAGACCTCTC---ATCTC---GG
*
31873843 AGCCAATGCCATGTCCCAGACATGGTCTTATATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATG
31873877 GGATCTCTTT
Statistics
Matches: 147, Mismatches: 35, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 72 0.49
53 5 0.03
56 32 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCGG
Found at i:31875935 original size:22 final size:22
Alignment explanation
Indices: 31875910--31875952 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31875900 GCAATTATCC
31875910 AACATTCAGACAACATTTAATT
1 AACATTCAGACAACATTTAATT
** *
31875932 AACATTTGGATAACATTTAAT
1 AACATTCAGACAACATTTAAT
31875953 CAAAAATTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (22 bp):
AACATTCAGACAACATTTAATT
Found at i:31875962 original size:22 final size:22
Alignment explanation
Indices: 31875918--31876301 Score: 390
Period size: 22 Copynumber: 17.7 Consensus size: 22
31875908 CCAACATTCA
* *
31875918 GACAACATTTAATTAACATTTG
1 GACAACATTTAATCAACAATTG
* *
31875940 GATAACATTTAATCAAAAATTG
1 GACAACATTTAATCAACAATTG
* * * *
31875962 GACAGCAATCAATCAA-AATTTT
1 GACAACATTTAATCAACAA-TTG
* *
31875984 GA-AAGAATTTAATCAAGAATTG
1 GACAA-CATTTAATCAACAATTG
* *
31876006 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31876028 GACAACATTTAATCAACAATTA
1 GACAACATTTAATCAACAATTG
* * *
31876050 GACAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
* *
31876072 GACAGCATTTAATCAATAATTG
1 GACAACATTTAATCAACAATTG
* *
31876094 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31876116 G-----ATTTAATCAATAATTG
1 GACAACATTTAATCAACAATTG
* *
31876133 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
31876155 GACAACATTT-ATCAACAATTAG
1 GACAACATTTAATCAACAATT-G
* * *
31876177 G-CAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31876198 GACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* *
31876220 GACAACATTAAATCAACATTTG
1 GACAACATTTAATCAACAATTG
*
31876242 AACAACATTTAATCAACAATTG
1 GACAACATTTAATCAACAATTG
* * *
31876264 GACAACATTCAATCAATATTTG
1 GACAACATTTAATCAACAATTG
31876286 GACAACATTTAATCAA
1 GACAACATTTAATCAA
31876302 AAAAAATTAA
Statistics
Matches: 294, Mismatches: 56, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
17 14 0.05
21 21 0.07
22 255 0.87
23 4 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
GACAACATTTAATCAACAATTG
Found at i:31876009 original size:44 final size:44
Alignment explanation
Indices: 31875918--31876301 Score: 496
Period size: 44 Copynumber: 8.9 Consensus size: 44
31875908 CCAACATTCA
* * * *
31875918 GACAACATTTAATTAACATTTGGATAACATTTAATCAAAAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * * * * * *
31875962 GACAGCAATCAATCAAAATTTTGA-AAGAATTTAATCAAGAATTG
1 GACAACATTAAATCAACATTTGGACAA-CATTTAATCAACAATTG
*
31876006 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTA
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* * * *
31876050 GACAACATTCAATCAATATTTGGACAGCATTTAATCAATAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
*
31876094 GACAACATTAAATCAACATTTGG-----ATTTAATCAATAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
31876133 GACAACATTAAATCAACATTTGGACAACATTT-ATCAACAATTAG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATT-G
* *
31876177 G-CAACATTCAATCAATATTTGGACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
*
31876220 GACAACATTAAATCAACATTTGAACAACATTTAATCAACAATTG
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
* *
31876264 GACAACATTCAATCAATATTTGGACAACATTTAATCAA
1 GACAACATTAAATCAACATTTGGACAACATTTAATCAA
31876302 AAAAAATTAA
Statistics
Matches: 298, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.13
43 41 0.14
44 216 0.72
45 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (44 bp):
GACAACATTAAATCAACATTTGGACAACATTTAATCAACAATTG
Found at i:31876160 original size:11 final size:11
Alignment explanation
Indices: 31876146--31876295 Score: 62
Period size: 11 Copynumber: 13.7 Consensus size: 11
31876136 AACATTAAAT
*
31876146 CAACATTTGGA
1 CAACATTTGAA
*
31876157 CAACATTT-AT
1 CAACATTTGAA
* *
31876167 CAACAATT-AGG
1 CAACATTTGA-A
*
31876178 CAACA-TTCAA
1 CAACATTTGAA
* *
31876188 TCAATATTTGGA
1 -CAACATTTGAA
31876200 CAACATTT-AA
1 CAACATTTGAA
* *
31876210 TCAACAATTGGA
1 -CAACATTTGAA
*
31876222 CAACA-TTAAA
1 CAACATTTGAA
31876232 TCAACATTTGAA
1 -CAACATTTGAA
31876244 CAACATTT-AA
1 CAACATTTGAA
* *
31876254 TCAACAATTGGA
1 -CAACATTTGAA
*
31876266 CAACA-TTCAA
1 CAACATTTGAA
* *
31876276 TCAATATTTGGA
1 -CAACATTTGAA
31876288 CAACATTT
1 CAACATTT
31876296 AATCAAAAAA
Statistics
Matches: 104, Mismatches: 23, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
10 19 0.18
11 73 0.70
12 12 0.12
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (11 bp):
CAACATTTGAA
Found at i:31876206 original size:170 final size:171
Alignment explanation
Indices: 31875946--31876287 Score: 483
Period size: 170 Copynumber: 2.0 Consensus size: 171
31875936 TTTGGATAAC
* * * *
31875946 ATTTAATCAAAAATTGGACAGCAATCAATCAAAATTTTGAAAGAATTTAATCAAGAATTGGACAA
1 ATTTAATCAAAAATTGGACAACAATAAATCAAAATTTGGAAAGAATTTAATCAACAATTGGACAA
* * *
31876011 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
66 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTAAATCAACATTTGAACA
* *
31876076 GCATTTAATCAATAATTGGACAACATTAAATCAACATTTGG
131 ACATTTAATCAACAATTGGACAACATTAAATCAACATTTGG
* * * *
31876117 ATTTAATCAATAATTGGACAACATTAAATCAACATTTGGACAA-CATTT-ATCAACAATTAGG-C
1 ATTTAATCAAAAATTGGACAACAATAAATCAAAATTTGGA-AAGAATTTAATCAACAATT-GGAC
* * *
31876179 AACATTCAATCAATATTTGGACAACATTTAATCAACAATTGGACAACATTAAATCAACATTTGAA
64 AACATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTAAATCAACATTTGAA
* *
31876244 CAACATTTAATCAACAATTGGACAACATTCAATCAATATTTGG
129 CAACATTTAATCAACAATTGGACAACATTAAATCAACATTTGG
31876287 A
1 A
31876288 CAACATTTAA
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
170 109 0.72
171 40 0.26
172 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (171 bp):
ATTTAATCAAAAATTGGACAACAATAAATCAAAATTTGGAAAGAATTTAATCAACAATTGGACAA
CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTAAATCAACATTTGAACA
ACATTTAATCAACAATTGGACAACATTAAATCAACATTTGG
Found at i:31878580 original size:27 final size:27
Alignment explanation
Indices: 31878549--31878725 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
31878539 TAAATTGTAC
31878549 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31878576 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31878602 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31878630 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
31878658 AGCACTAAGTGTCCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31878685 AGCACTAAGTG-GCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31878711 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31878726 GACTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 21 0.17
27 82 0.66
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31878690 original size:82 final size:80
Alignment explanation
Indices: 31878550--31878704 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
31878540 AAATTGTACA
* * *
31878550 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTG-
31878615 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
** *
31878631 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTCCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGAT-GCACTAAGT
*
31878695 GGCGAGTTGA
64 GGCGAATTGA
31878705 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 24 0.37
82 41 0.63
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTGG
CGAATTGACCATGCG
Done.