Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 134 of 284
Found at i:44792144 original size:58 final size:57
Alignment explanation
Indices: 44792069--44792207 Score: 197
Period size: 58 Copynumber: 2.4 Consensus size: 57
44792059 TATTGTTATT
* *
44792069 AAATTTTAATAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAATATAATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACA
* * * * *
44792127 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACA
44792184 AAATTCTTAATATAATTATTATTA
1 AAATT-TTAATATAATTATTATTA
44792208 TATGAATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.31
58 49 0.69
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACA
Found at i:44792228 original size:58 final size:56
Alignment explanation
Indices: 44792069--44792235 Score: 176
Period size: 58 Copynumber: 2.9 Consensus size: 56
44792059 TATTGTTATT
* * * * *
44792069 AAATTTTAATAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAACATAATTATTATT-AATATAATTTAA-AAAAATAATATATAATTTAACA
* * *
44792127 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATTTAACA
*
44792184 AAATTCTTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT
44792236 ACTATAAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
56 11 0.12
57 24 0.26
58 59 0.63
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATTTAACA
Found at i:44794737 original size:72 final size:73
Alignment explanation
Indices: 44794650--44794791 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 73
44794640 TACAAGTAAT
* *
44794650 TAACATTTACTAGCTATCAAAGTTGTAAAAAACCCAAAAAAAAT-CGAAAATTGCAATGAAAACA
1 TAACATTTACCAGCTATCAAAGTTGTAAAAAACCCAAAAAAAATGCGAAAA-TGCAAAGAAAACA
44794714 -GAGAAAAA
65 TGAGAAAAA
* ** *
44794722 TAACATTTACCAGCTATCGAAGTTGTAAAAAACCCAGTAAAAATGGGAAAATGCAAAGAAAACAT
1 TAACATTTACCAGCTATCAAAGTTGTAAAAAACCCAAAAAAAATGCGAAAATGCAAAGAAAACAT
44794787 GAGAA
66 GAGAA
44794792 TTTAAAGAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
72 52 0.84
73 10 0.16
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (73 bp):
TAACATTTACCAGCTATCAAAGTTGTAAAAAACCCAAAAAAAATGCGAAAATGCAAAGAAAACAT
GAGAAAAA
Found at i:44797345 original size:18 final size:19
Alignment explanation
Indices: 44797312--44797348 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
44797302 TATTTATTTA
44797312 TTTAAAAATTATATTTAAAT
1 TTTAAAAA-TATATTTAAAT
44797332 TTTAAAAA-ATATTTAAA
1 TTTAAAAATATATTTAAA
44797349 ATATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAAATATATTTAAAT
Found at i:44797358 original size:13 final size:13
Alignment explanation
Indices: 44797332--44797365 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
44797322 ATATTTAAAT
44797332 TTTAAAA-A-ATA
1 TTTAAAATATATA
44797343 TTTAAAATATATA
1 TTTAAAATATATA
44797356 TTTAAAATAT
1 TTTAAAATAT
44797366 TATAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 1 0.05
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATATATA
Found at i:44797454 original size:25 final size:25
Alignment explanation
Indices: 44797403--44797459 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
44797393 TCATATCTTT
*
44797403 AAAAATAATATATTTTAAATAATTA
1 AAAAATAATATATTTAAAATAATTA
*
44797428 AAAAATCATA-ATTTAAAAT-ATTA
1 AAAAATAATATATTTAAAATAATTA
*
44797451 TAAAATAAT
1 AAAAATAAT
44797460 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.39
24 8 0.29
25 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AAAAATAATATATTTAAAATAATTA
Found at i:44797476 original size:31 final size:31
Alignment explanation
Indices: 44797419--44797496 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 31
44797409 AATATATTTT
*
44797419 AAATAATTAAAAAATCATAATTTAAAATATTATA
1 AAATAATTTAAAAA-CATAATTTAAAAT-TTA-A
44797453 AAATAATTTAAAAA-AT-ATTTAAAATTTAA
1 AAATAATTTAAAAACATAATTTAAAATTTAA
44797482 AATATATATTTAAAA
1 AA-ATA-ATTTAAAA
44797497 TATTATAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 3 0.07
30 6 0.15
31 17 0.41
32 2 0.05
34 13 0.32
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (31 bp):
AAATAATTTAAAAACATAATTTAAAATTTAA
Found at i:44797492 original size:20 final size:20
Alignment explanation
Indices: 44797437--44797497 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
44797427 AAAAAATCAT
**
44797437 AATTTAAAATAT-TATAAAA
1 AATTTAAAATATATATTTAA
44797456 TAATTTAAAA-A-ATATTTAA
1 -AATTTAAAATATATATTTAA
44797475 AATTTAAAATATATATTTAA
1 AATTTAAAATATATATTTAA
44797495 AAT
1 AAT
44797498 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 20 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAAATATATATTTAA
Found at i:44797566 original size:134 final size:137
Alignment explanation
Indices: 44797342--44797641 Score: 402
Period size: 134 Copynumber: 2.2 Consensus size: 137
44797332 TTTAAAAAAT
44797342 ATTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
1 ATTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
*
44797407 ATAATATATTTTAAATAATTAAAAAAT-CA-T-A-ATTTAAAATATTATAAAATAATTT-AAAA-
66 ATAATAAATTTTAAATAATTAAAAAATACATTAATATTTAAAAT-TTA-AAAA-AATTTAAAAAT
44797466 AATATTTAAA
128 AATATTTAAA
*
44797476 ATTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTT-AAA
1 ATTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
* * * *
44797540 ATATTTAAATGTTTATATTATTAAAAAATATATTTAATATTTAAAATTTAAAAAAATTTAAAAAT
66 ATA-ATAAAT-TTTAAATAATTAAAAAATACA-TTAATATTTAAAATTTAAAAAAATTTAAAAAT
44797605 AATATTTAAA
128 AATATTTAAA
* *
44797615 ATTTAGAAAAATA-ATTTCAAA-ATTATA
1 ATTTA-AAATATATATTTAAAATATTATA
44797642 TATTTAAAAT
Statistics
Matches: 148, Mismatches: 8, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
133 6 0.04
134 64 0.43
135 16 0.11
136 1 0.01
137 5 0.03
138 15 0.10
139 26 0.18
140 15 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (137 bp):
ATTTAAAATATATATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAA
ATAATAAATTTTAAATAATTAAAAAATACATTAATATTTAAAATTTAAAAAAATTTAAAAATAAT
ATTTAAA
Found at i:44797610 original size:30 final size:31
Alignment explanation
Indices: 44797574--44797659 Score: 111
Period size: 30 Copynumber: 2.7 Consensus size: 31
44797564 AAAATATATT
44797574 TAATATTTAAAATTTAAAAAAATTT-AAAAA
1 TAATATTTAAAATTTAAAAAAATTTCAAAAA
*
44797604 TAATATTTAAAATTTAGAAAAATAATTTCAAAAT
1 TAATATTTAAAATTT--AAAAA-AATTTCAAAAA
*
44797638 TATATATTTAAAATTTTAAAAA
1 TA-ATATTTAAAATTTAAAAAA
44797660 TATATATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.31
32 6 0.12
33 9 0.18
34 6 0.12
35 13 0.27
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
TAATATTTAAAATTTAAAAAAATTTCAAAAA
Found at i:44797624 original size:21 final size:20
Alignment explanation
Indices: 44797592--44797638 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
44797582 AAAATTTAAA
*
44797592 AAAATTT-AAAAATAATATTT
1 AAAATTTAAAAAATAAT-TTC
44797612 AAAATTTAGAAAAATAATTTC
1 AAAATTTA-AAAAATAATTTC
44797633 AAAATT
1 AAAATT
44797639 ATATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 8 0.33
22 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTTAAAAAATAATTTC
Found at i:44797658 original size:22 final size:25
Alignment explanation
Indices: 44797627--44797684 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
44797617 TTAGAAAAAT
44797627 AATTTC-AAAAT-TATATATT-TAA
1 AATTTCAAAAATATATATATTATAA
*
44797649 AATTTTAAAAATATATATATTATAAA
1 AATTTCAAAAATATATATATTAT-AA
44797675 ACATTTCAAA
1 A-ATTTCAAA
44797685 TATACATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 8 0.28
25 1 0.03
26 3 0.10
27 7 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTTCAAAAATATATATATTATAA
Found at i:44797685 original size:25 final size:23
Alignment explanation
Indices: 44797627--44797688 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
44797617 TTAGAAAAAT
44797627 AATTTCAAA-ATTATATATTTAAA
1 AATTTCAAATA-TATATATTTAAA
* *
44797650 ATTTTAAAAATATATATATTATAAA
1 AATTT-CAAATATATATATT-TAAA
44797675 ACATTTCAAATATA
1 A-ATTTCAAATATA
44797689 CATTTCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 13 0.42
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTCAAATATATATATTTAAA
Found at i:44798036 original size:24 final size:25
Alignment explanation
Indices: 44798009--44798064 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
44797999 TTTTTATTTG
*
44798009 TTTTATAA-TATTTTAAAT-TATGAT
1 TTTTA-AATTATTTAAAATATATGAT
*
44798033 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAATTATTTAAAATATATGAT
44798058 TTTTAAA
1 TTTTAAA
44798065 GATATGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTAAATTATTTAAAATATATGAT
Found at i:44798118 original size:13 final size:14
Alignment explanation
Indices: 44798095--44798124 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44798085 TTATTTATTT
44798095 TATACTATTTTAAA
1 TATACTATTTTAAA
44798109 TATA-TATTTTAAA
1 TATACTATTTTAAA
44798122 TAT
1 TAT
44798125 TTTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TATACTATTTTAAA
Found at i:44798136 original size:17 final size:17
Alignment explanation
Indices: 44798114--44798183 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 17
44798104 TTAAATATAT
44798114 ATTTTAAATATTTTTAA
1 ATTTTAAATATTTTTAA
44798131 ATTTTAAATATAATTTTTAA
1 ATTTT-AA-AT-ATTTTTAA
*
44798151 ATAAATATATAATATTTTTAAA
1 AT---TTTA-AATATTTTT-AA
44798173 ATTTTAAATAT
1 ATTTTAAATAT
44798184 AATTTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
17 5 0.12
18 7 0.16
19 5 0.12
20 10 0.23
21 6 0.14
22 7 0.16
23 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAAATATTTTTAA
Found at i:44798175 original size:134 final size:129
Alignment explanation
Indices: 44797925--44798193 Score: 280
Period size: 134 Copynumber: 2.0 Consensus size: 129
44797915 ATATAAAACA
*
44797925 TTTAAAAATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAAATTTTAAATT
1 TTTAAAAATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAAATTTTAAATT
*** * ** *
44797990 TTAAATATTTTTTTATTTGTTTTATAATATTTTAAATTATGATTTTTAAATTATTTAAAATATAT
66 TTAAATATTTAAATATATGTTTTATAATATAATAAATAATGATTTTTAAA-T-TTT-AAATATA-
44798055 TATT
127 -ATT
* * * *
44798059 TTTAAAGATATGACCTTTCAAATTTATTATTTA-TTTTATACTATTTTAAATATATATTTTAAAT
1 TTTAAAAATATGAACTTTCAAATTTATTA-TTAGTTTTATAATATTTTAAATATAAATTTT-AA-
*
44798123 ATTTTTAAAT-TTTAAATATAAT-TTTTA-AATA-AATATATAAT-ATTTTTAAAATTTTAAATA
63 A-TTTTAAATATTTAAATAT-ATGTTTTATAATATAATAAATAATGATTTTT-AAATTTTAAATA
44798183 TAATT
125 TAATT
44798188 TTTAAA
1 TTTAAA
44798194 TAAATAAATA
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
129 9 0.08
131 7 0.06
132 3 0.03
133 7 0.06
134 60 0.52
135 9 0.08
136 12 0.10
137 9 0.08
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (129 bp):
TTTAAAAATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAAATTTTAAATT
TTAAATATTTAAATATATGTTTTATAATATAATAAATAATGATTTTTAAATTTTAAATATAATT
Found at i:44798176 original size:42 final size:41
Alignment explanation
Indices: 44798102--44798204 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 41
44798092 TTTTATACTA
* *
44798102 TTTTAAATATATATTTTAAATATTTTTAAATTTTAAATATAAT
1 TTTTAAATAAATA-TAT-AATATTTTTAAATTTTAAATATAAT
44798145 TTTTAAATAAATATATAATATTTTTAAAATTTTAAATATAAT
1 TTTTAAATAAATATATAATATTTTT-AAATTTTAAATATAAT
*
44798187 TTTTAAATAAATAAATAA
1 TTTTAAATAAATATATAA
44798205 GGAAAAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 9 0.16
42 35 0.62
43 12 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (41 bp):
TTTTAAATAAATATATAATATTTTTAAATTTTAAATATAAT
Found at i:44798188 original size:21 final size:20
Alignment explanation
Indices: 44798123--44798194 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
44798113 TATTTTAAAT
44798123 ATTTTTAAATTTTAAATATA
1 ATTTTTAAATTTTAAATATA
*
44798143 ATTTTTAAA--TAAATATATAA
1 ATTTTTAAATTTTAA-ATAT-A
44798163 TATTTTTAAAATTTTAAATATA
1 -ATTTTT-AAATTTTAAATATA
44798185 ATTTTTAAAT
1 ATTTTTAAAT
44798195 AAATAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 3 0.07
19 4 0.09
20 14 0.32
21 12 0.27
22 4 0.09
23 4 0.09
24 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTAAATTTTAAATATA
Found at i:44798201 original size:21 final size:21
Alignment explanation
Indices: 44798135--44798203 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
44798125 TTTTAAATTT
44798135 TAAATATAATTTTTAAATAAA
1 TAAATATAATTTTTAAATAAA
* **
44798156 TATATA-ATATTTTTAAA-ATTT
1 TAAATATA-ATTTTTAAATA-AA
44798177 TAAATATAATTTTTAAATAAA
1 TAAATATAATTTTTAAATAAA
44798198 TAAATA
1 TAAATA
44798204 AGGAAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATAATTTTTAAATAAA
Found at i:44798906 original size:29 final size:29
Alignment explanation
Indices: 44798872--44798932 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
44798862 TGTATTTTTT
44798872 GTTCAATATAATATTTGTATTTATTAAAA
1 GTTCAATATAATATTTGTATTTATTAAAA
44798901 GTTCAATATAATATTTGTATTTATTAAAA
1 GTTCAATATAATATTTGTATTTATTAAAA
44798930 GTT
1 GTT
44798933 ACACATTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (29 bp):
GTTCAATATAATATTTGTATTTATTAAAA
Found at i:44800113 original size:16 final size:16
Alignment explanation
Indices: 44800085--44800117 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44800075 AATTGATATA
44800085 TCTTTTTTAAATATTT
1 TCTTTTTTAAATATTT
44800101 TCTTATTTT-AATATTT
1 TCTT-TTTTAAATATTT
44800117 T
1 T
44800118 ACTATACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTTTAAATATTT
Found at i:44804144 original size:15 final size:15
Alignment explanation
Indices: 44804124--44804154 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44804114 AAATTTCTAA
44804124 TAAATATTCAAGAAG
1 TAAATATTCAAGAAG
44804139 TAAATATTCAAGAAG
1 TAAATATTCAAGAAG
44804154 T
1 T
44804155 TCAAGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (15 bp):
TAAATATTCAAGAAG
Found at i:44808126 original size:42 final size:40
Alignment explanation
Indices: 44808080--44808260 Score: 159
Period size: 43 Copynumber: 4.3 Consensus size: 40
44808070 TCTAGACAAA
* * *
44808080 GTCTTACACGAAA-TCAGATACGATGCCGATGTCCCAGATATG
1 GTCTTACACGAAATTCA-AT-CGAGGCCG-TGTCCCAGACACG
* * *
44808122 GTCTTATACGTAAATTTCAATCGAGGTCTGTATCCCAGACACG
1 GTCTTACACG-AAA-TTCAATCGAGG-CCGTGTCCCAGACACG
* *
44808165 GTCTTACACGAAATT-AGATACGATGCCGATGTCCCAGACATG
1 GTCTTACACGAAATTCA-AT-CGAGGCCG-TGTCCCAGACACG
*
44808207 GTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACG
1 GTCTTACACG-AAAT-TCAATCGAGGCC-GTGTCCCAGACACG
44808250 GTCTTACACGA
1 GTCTTACACGA
44808261 TGTCTTAGAC
Statistics
Matches: 113, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 6 0.05
42 37 0.33
43 57 0.50
44 8 0.07
45 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
GTCTTACACGAAATTCAATCGAGGCCGTGTCCCAGACACG
Found at i:44808162 original size:85 final size:85
Alignment explanation
Indices: 44808080--44808260 Score: 317
Period size: 85 Copynumber: 2.1 Consensus size: 85
44808070 TCTAGACAAA
* *
44808080 GTCTTACACGAAATCAGATACGATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCG
1 GTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCG
*
44808145 AGGTCTGTATCCCAGACACG
66 AGGCCTGTATCCCAGACACG
*
44808165 GTCTTACACGAAATTAGATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCG
1 GTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCG
*
44808230 AGGCCTGTGTCCCAGACACG
66 AGGCCTGTATCCCAGACACG
44808250 GTCTTACACGA
1 GTCTTACACGA
44808261 TGTCTTAGAC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
GTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTCAATCG
AGGCCTGTATCCCAGACACG
Found at i:44828326 original size:12 final size:12
Alignment explanation
Indices: 44828309--44828334 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44828299 CATTCCGAAG
44828309 TATATATATACA
1 TATATATATACA
44828321 TATATATATACA
1 TATATATATACA
44828333 TA
1 TA
44828335 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:44828854 original size:27 final size:27
Alignment explanation
Indices: 44828820--44828997 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44828810 TTTATTGTAC
44828820 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44828847 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44828873 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44828901 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44828929 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44828956 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44828983 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44828998 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44828934 original size:82 final size:81
Alignment explanation
Indices: 44828821--44828976 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44828811 TTATTGTACA
* *
44828821 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44828885 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44828902 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44828967 TGCGAGTTGA
65 TGCGAATTGA
44828977 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44828988 original size:82 final size:81
Alignment explanation
Indices: 44828817--44828997 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44828807 GTTTTTATTG
* *
44828817 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44828882 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44828898 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44828962 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44828980 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44828998 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44832191 original size:27 final size:27
Alignment explanation
Indices: 44832160--44832337 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44832150 TAAATTGTAC
44832160 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44832187 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44832213 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44832241 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44832269 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44832296 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44832323 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44832338 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44832274 original size:82 final size:81
Alignment explanation
Indices: 44832161--44832316 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44832151 AAATTGTACA
* *
44832161 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44832225 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44832242 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44832307 TGCGAGTTGA
65 TGCGAATTGA
44832317 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44832328 original size:82 final size:81
Alignment explanation
Indices: 44832157--44832337 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44832147 GATTAAATTG
* *
44832157 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44832222 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44832238 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44832302 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44832320 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44832338 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44837536 original size:46 final size:46
Alignment explanation
Indices: 44837447--44837620 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
44837437 GGAGTCAAGT
* * * *
44837447 GTCGATGCCATGTCCCAGACATGGTCTCACATTGAC-ACATCTCGTA-
1 GTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCAACGTCTCG-AG
44837493 GTCGATG-CATGTCCCAGACATGTCTTACACTGGCTAACGTCTCGAG
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGC-AACGTCTCGAG
* * * * * * * * *
44837539 GCCGAAG-TATGTCCTATACATGTCTTACACTAGCACTCGTCTCAAT
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGCA-ACGTCTCGAG
44837585 GTCGATGCCATGTCCCAGACATGATCTTACACTGGC
1 GTCGATGCCATGTCCCAGACATG-TCTTACACTGGC
44837621 TCTCATAATG
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 54 0.52
47 12 0.12
48 11 0.11
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GTCGATGCCATGTCCCAGACATGTCTTACACTGGCAACGTCTCGAG
Found at i:44837636 original size:94 final size:92
Alignment explanation
Indices: 44837493--44837666 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 92
44837483 ACATCTCGTA
* * *
44837493 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTAACGTCTCGAGGCCGAAGTATGTCCT-ATA
1 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATATCGAGGCCGAAGCATGTCCTGA-A
44837557 CATGTCTTACACTAGCACTCGTCTCAAT
65 CATGTCTTACACTAGCACTCGTCTCAAT
** * *
44837585 GTCGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCTG
1 GTCGATG-CATGTCCCAGACATG-TCTTACACTGGCTAACAT-ATCGAGGCCGAAGCATGTCCTG
44837649 AACATGTCTTACACTAGC
63 AACATGTCTTACACTAGC
44837667 TCACACAAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 7 0.10
93 15 0.21
94 47 0.66
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGGCTAACATATCGAGGCCGAAGCATGTCCTGAAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:44839517 original size:20 final size:20
Alignment explanation
Indices: 44839492--44839532 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44839482 TCAAAATGCT
*
44839492 AACAGAGACACCGAATTGCA
1 AACAGAGACACCGAAGTGCA
* *
44839512 AACAGAGGCACTGAAGTGCA
1 AACAGAGACACCGAAGTGCA
44839532 A
1 A
44839533 TCTCGTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (20 bp):
AACAGAGACACCGAAGTGCA
Found at i:44839550 original size:27 final size:27
Alignment explanation
Indices: 44839512--44839566 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
44839502 CCGAATTGCA
*
44839512 AACAGAGGCACTGAAGTGCAATCTCGT
1 AACAGAGGCACTGAAGTGAAATCTCGT
44839539 AACAGAGGCACTGAAGTGAAATCTCGT
1 AACAGAGGCACTGAAGTGAAATCTCGT
44839566 A
1 A
44839567 CAAGTGTGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AACAGAGGCACTGAAGTGAAATCTCGT
Found at i:44847951 original size:5 final size:5
Alignment explanation
Indices: 44847941--44847971 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44847931 GACACCAACC
44847941 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
44847972 ATTTACTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:44849351 original size:60 final size:59
Alignment explanation
Indices: 44849236--44849377 Score: 232
Period size: 60 Copynumber: 2.4 Consensus size: 59
44849226 ATGTATACAG
* * *
44849236 CAGGATTACAAGTCCAGGCTAAATCTTGTCTCCAATATATATACTCAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAAACTTATCTCCAATATATATACTCAATAGAGCTTAGT
44849295 CAGGATTACCAGTCCAGGCTAAAAC-TATCTCCAATATATATATACTCAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAAACTTATCTCC-A-ATATATATACTCAATAGAGCTTAGT
44849355 CAGGATTACCAGTCCAGGCTAAA
1 CAGGATTACCAGTCCAGGCTAAA
44849378 TCCTTTTTAT
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
58 6 0.08
59 24 0.31
60 48 0.62
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (59 bp):
CAGGATTACCAGTCCAGGCTAAAACTTATCTCCAATATATATACTCAATAGAGCTTAGT
Found at i:44852431 original size:19 final size:19
Alignment explanation
Indices: 44852407--44852446 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44852397 TGTGTCATCA
*
44852407 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
44852426 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
44852445 TA
1 TA
44852447 TACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:44858940 original size:40 final size:40
Alignment explanation
Indices: 44858880--44859063 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
44858870 TATTCGAATG
* *
44858880 ATATCCGAACTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
44858920 ATATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
44858960 ATATTCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACT
1 ATATCCGGACTAAGATCCGAAGGCATTTATGCTAGTGACT
*
44859000 ATATCCAGG-CTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGACTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
44859040 ATATCCGGGCTAAGA-CTCGAAGGC
1 ATATCCGGACTAAGATC-CGAAGGC
44859064 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.03
40 113 0.93
41 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:44859022 original size:80 final size:80
Alignment explanation
Indices: 44858880--44859063 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 80
44858870 TATTCGAATG
** * * *
44858880 ATATCCGAACTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
* *
44858945 TTTGTGCAAGTTG-CT
66 TTTATGCAAG-TGACC
*
44858960 ATATTCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCAGG-CTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCC-GGACTAAGAT-CCGAAGG
*
44859023 CATTTATGCTAGTGACC
64 CATTTATGCAAGTGACC
*
44859040 ATATCCGGGCTAAGACTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
44859064 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 3 0.03
80 85 0.94
81 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
TTTATGCAAGTGACC
Found at i:44866682 original size:40 final size:40
Alignment explanation
Indices: 44866619--44866802 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
44866609 TATTCGAATG
*
44866619 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
44866659 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
44866699 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
44866739 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
44866779 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
44866803 CTTTGCGAGT
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:44866752 original size:80 final size:80
Alignment explanation
Indices: 44866619--44866807 Score: 256
Period size: 80 Copynumber: 2.4 Consensus size: 80
44866609 TATTCGAATG
* * * *
44866619 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAG-TCCCAAAGGC
* *
44866683 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
44866699 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCAAAGGCA
*
44866764 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
44866779 ATATCCGGGCTAAGACCCGAAGGCCTTTG
1 ATATCCGGGCTAAGACCCGAAGGCATTTG
44866808 CGAGTGGTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 94 0.97
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGTCCCAAAGGCA
TTTATGCGAGTGACC
Found at i:44876739 original size:5 final size:5
Alignment explanation
Indices: 44876716--44876781 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
44876706 TAAGTTTTCA
* *
44876716 AAAAG AAAATT AAAA- AAAAT AAAAT AAAATT GAAAT AAAAT AAAAAT
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT -AAAAT
44876763 AAAA- AAATAGT AAAAT AAA
1 AAAAT AAA-A-T AAAAT AAA
44876782 GGGACTCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
4 7 0.14
5 27 0.53
6 14 0.27
7 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:44876744 original size:11 final size:11
Alignment explanation
Indices: 44876715--44876781 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
44876705 ATAAGTTTTC
*
44876715 AAAAAGAAAAT
1 AAAAATAAAAT
*
44876726 TAAAA-AAAAT
1 AAAAATAAAAT
44876736 -AAAATAAAAT
1 AAAAATAAAAT
**
44876746 TGAAATAAAAT
1 AAAAATAAAAT
44876757 AAAAATAAAA-
1 AAAAATAAAAT
*
44876767 AAATAGTAAAAT
1 AAA-AATAAAAT
44876779 AAA
1 AAA
44876782 GGGACTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.09
10 13 0.28
11 27 0.57
12 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:44878618 original size:5 final size:5
Alignment explanation
Indices: 44878610--44878639 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
44878600 ATGGGAAAGG
44878610 AAGAA AAGAA AAGAA AAGAA AAGAA GAAGA
1 AAGAA AAGAA AAGAA AAGAA AAGAA -AAGA
44878640 GGGAGAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:44889791 original size:47 final size:46
Alignment explanation
Indices: 44889722--44889895 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 46
44889712 CATCCACAAG
*
44889722 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
* * * * ***
44889768 TCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGC-A--TCCATAAG
1 T-GAACTCGGACTCAACTCAACGAGCTCG--GATGC-CTAGTTACATCTC
* * *
44889815 TGAACTCGAACTCAACTCAACAAGCCCGGATGCCTAGTTACATCTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
*
44889861 TTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 -TGAACTCGGACTCAACTCAACGAGCTCGGATGCC
44889896 CAAATATCCT
Statistics
Matches: 98, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 28 0.29
47 60 0.61
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
Found at i:44889791 original size:93 final size:93
Alignment explanation
Indices: 44889676--44889891 Score: 344
Period size: 93 Copynumber: 2.3 Consensus size: 93
44889666 CGCCCATAAG
* * *
44889676 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTC-AGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGA-ACTCAACTC
* *
44889740 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACAAGCCCGGATGCCTAGTTACATCTCT
* *
44889769 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGAACTCAACTCA
44889834 ACAAGCCCGGATGCCTAGTTACATCTCT
66 ACAAGCCCGGATGCCTAGTTACATCTCT
*
44889862 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
44889892 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 112 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGAACTCAACTCA
ACAAGCCCGGATGCCTAGTTACATCTCT
Found at i:44889832 original size:46 final size:44
Alignment explanation
Indices: 44889669--44889835 Score: 131
Period size: 46 Copynumber: 3.6 Consensus size: 44
44889659 TGTAACCCGC
* * *
44889669 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTC--GCATTCGCAT
* * *
44889715 CCACAAGTGAACTC-AGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGCTCGCATTCGC-A--T
* *** * *
44889761 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCG--CATTCGCAT
44889808 CCATAAGTGAACTCGAACTCAACTCAAC
1 CCATAAGTGAACTCGAACTCAACTCAAC
44889836 AAGCCCGGAT
Statistics
Matches: 92, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 53 0.58
47 29 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.20
Consensus pattern (44 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGCATTCGCAT
Found at i:44902763 original size:43 final size:43
Alignment explanation
Indices: 44902715--44902810 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
44902705 CATTAGGATT
*
44902715 ATCGTTATGTGATTACGTGTAAGACTAT-GTCTGGGACATTGGC
1 ATCGTTATGTGATTACGTGTAAGACCATAG-CTGGGACATTGGC
* * **
44902758 ATCGTTATTTGATTTCGTGTAAGACCATAGCTGGGTTATTGGC
1 ATCGTTATGTGATTACGTGTAAGACCATAGCTGGGACATTGGC
44902801 ATCGTATATG
1 ATCGT-TATG
44902811 AAATAGCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.38
Consensus pattern (43 bp):
ATCGTTATGTGATTACGTGTAAGACCATAGCTGGGACATTGGC
Found at i:44906616 original size:43 final size:43
Alignment explanation
Indices: 44906469--44906680 Score: 216
Period size: 43 Copynumber: 5.0 Consensus size: 43
44906459 ATAAAGCTCG
* * * * *
44906469 TACAATGCC-ATATCCAAGATATGGTTTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * *
44906510 TATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAAT-A-TA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * *
44906552 TAACCATGACAATGTCCCAGACATGGTCTTACACGTAATCGCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* *
44906596 TACAATGCTAATGTCCCAGACATGGTCTTACATGTAACCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
*
44906639 TACAATGCCAATGTTCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
44906681 TCTCGATAAC
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.01
42 40 0.29
43 95 0.68
44 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:44910102 original size:29 final size:29
Alignment explanation
Indices: 44910060--44910116 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
44910050 CAACGAAGGT
44910060 GGACAAAATGTGATGGGTAAAACATGTCC
1 GGACAAAATGTGATGGGTAAAACATGTCC
44910089 GGACAAAATGTGATGGGTAAAACATGTC
1 GGACAAAATGTGATGGGTAAAACATGTC
44910117 ATAAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (29 bp):
GGACAAAATGTGATGGGTAAAACATGTCC
Found at i:44910403 original size:58 final size:58
Alignment explanation
Indices: 44910338--44910630 Score: 586
Period size: 58 Copynumber: 5.1 Consensus size: 58
44910328 CATGAGATTC
44910338 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44910396 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44910454 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44910512 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44910570 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44910628 ATG
1 ATG
44910631 TGATGGAGAT
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 235 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (58 bp):
ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
Found at i:44911836 original size:40 final size:40
Alignment explanation
Indices: 44911735--44911977 Score: 359
Period size: 40 Copynumber: 6.1 Consensus size: 40
44911725 TGATAACCGA
* *
44911735 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
44911775 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
44911814 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
44911854 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
44911894 GCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
44911934 GCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
44911973 GCTAA
1 GCTAA
44911978 ATTCCGAAAG
Statistics
Matches: 186, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 42 0.23
40 144 0.77
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:44918029 original size:29 final size:29
Alignment explanation
Indices: 44917987--44918043 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
44917977 CAATGAGGGT
44917987 GGACAAAATGTGATGGGTAAAACATGTCC
1 GGACAAAATGTGATGGGTAAAACATGTCC
44918016 GGACAAAATGTGATGGGTAAAACATGTC
1 GGACAAAATGTGATGGGTAAAACATGTC
44918044 ATAAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (29 bp):
GGACAAAATGTGATGGGTAAAACATGTCC
Found at i:44918356 original size:58 final size:58
Alignment explanation
Indices: 44918266--44918500 Score: 470
Period size: 58 Copynumber: 4.1 Consensus size: 58
44918256 CATGAGATTC
44918266 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44918324 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44918382 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44918440 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
1 ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
44918498 ATG
1 ATG
44918501 TGATTGAGAT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 177 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (58 bp):
ATGCATGTTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTTTAAATCTTTGCT
Found at i:44919705 original size:40 final size:40
Alignment explanation
Indices: 44919602--44919858 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
44919592 CAGATGATAA
* *
44919602 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
44919642 CCGGGCTAAG-CTCGAAGGTATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44919681 CCGGGCTAAGTCTCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44919721 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44919761 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44919801 CCGGGCTAAGTTCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44919841 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44919859 TACTTGGTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 49 0.25
40 147 0.75
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44921419 original size:71 final size:69
Alignment explanation
Indices: 44921335--44921496 Score: 189
Period size: 71 Copynumber: 2.3 Consensus size: 69
44921325 CACACCAAAG
** * * *
44921335 AAATTGCAGCGAGGCTGCCAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAA
1 AAATTGCAGCGAGGCTGCCAGATATTGTAACGAAGCCACCAAAACA-A-ATATATATGTGGCAAA
44921400 GCCACC
64 GCCACC
* * * *
44921406 AAATTGCAGCGAGGCTGCTAGATATTGTAACGAAGTCACCAAAACAAATATATATGTGGCGAGGC
1 AAATTGCAGCGAGGCTGCCAGATATTGTAACGAAGCCACCAAAACAAATATATATGTGGCAAAGC
*
44921471 CACT
66 CACC
* * *
44921475 AGATTGCAACAAGGCTGCCAGA
1 AAATTGCAGCGAGGCTGCCAGA
44921497 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 37 0.48
70 1 0.01
71 39 0.51
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (69 bp):
AAATTGCAGCGAGGCTGCCAGATATTGTAACGAAGCCACCAAAACAAATATATATGTGGCAAAGC
CACC
Found at i:44922193 original size:54 final size:54
Alignment explanation
Indices: 44922135--44922241 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
44922125 AAAATGGAAA
*
44922135 TTTTACCCCACA-AGGGTATCTCGGTAATTCTACCCTATAAGGGTATTTCAGTAT
1 TTTTACCCCACAGA-GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAT
* * * * * * *
44922189 TTTTATCCTACAGAGGTATTTTGGTAATTCTATCGTACAGGGGTATTTCAGTA
1 TTTTACCCCACAGAGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTA
44922242 ATTCTACCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (54 bp):
TTTTACCCCACAGAGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAT
Found at i:44922206 original size:27 final size:27
Alignment explanation
Indices: 44922149--44922271 Score: 99
Period size: 27 Copynumber: 4.6 Consensus size: 27
44922139 ACCCCACAAG
* * * *
44922149 GGTATCTCGGTAATTCTACCCTATA-A
1 GGTATTTCAGTAATTCTATCCTACAGA
* *
44922175 GGGTATTTCAGTATTTTTATCCTACAGA
1 -GGTATTTCAGTAATTCTATCCTACAGA
** * *
44922203 GGTATTTTGGTAATTCTATCGTACAGG
1 GGTATTTCAGTAATTCTATCCTACAGA
44922230 GGTATTTCAGTAATTCTA-CCGTACATG-
1 GGTATTTCAGTAATTCTATCC-TACA-GA
*
44922257 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
44922272 TTACAAATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 74 0.96
28 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTATCCTACAGA
Found at i:44922261 original size:54 final size:53
Alignment explanation
Indices: 44922147--44922271 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 53
44922137 TTACCCCACA
* * * * *
44922147 AGGGTATCTCGGTAATTCTACCCTATAAGGGTATTTCAGTATTTTTATCCTAC
1 AGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTAC
* * *
44922200 AGAGGTATTTTGGTAATTCTATCGTACAGGGGTATTTCAGTAATTCTA-CCGTAC
1 AG-GGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATCC-TAC
*
44922254 ATGGGTATTTTAGTAATT
1 A-GGGTATTTTGGTAATT
44922272 TTACAAATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 4 0.07
54 55 0.92
55 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTAC
Found at i:44922313 original size:27 final size:27
Alignment explanation
Indices: 44922256--44922332 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
44922246 TACCGTACAT
* * * *
44922256 GGGTATTTTAGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTGCTAATGAG
44922283 GGGTATTTTGGTAATTTTGCTAATCGA-
1 GGGTATTTTGGTAATTTTGCTAAT-GAG
*
44922310 GGGTATTTTGTTAATTTTGCTAA
1 GGGTATTTTGGTAATTTTGCTAA
44922333 ACTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCTAATGAG
Found at i:44922342 original size:27 final size:27
Alignment explanation
Indices: 44922285--44922343 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
44922275 CAAATTAGGG
* **
44922285 GTATTTTGGTAATTTTGCTAATCGAGG
1 GTATTTTGGTAATTTTGCTAAACGAAA
* *
44922312 GTATTTTGTTAATTTTGCTAAACTAAA
1 GTATTTTGGTAATTTTGCTAAACGAAA
44922339 GTATT
1 GTATT
44922344 CTAAATAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (27 bp):
GTATTTTGGTAATTTTGCTAAACGAAA
Found at i:44926887 original size:28 final size:29
Alignment explanation
Indices: 44926855--44926969 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
44926845 TACCTATATC
* *
44926855 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
44926883 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
44926912 TTGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
44926941 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
44926969 T
1 T
44926970 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:44933850 original size:18 final size:18
Alignment explanation
Indices: 44933827--44933862 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44933817 ATGTGAAAGT
44933827 GTATATGTGTGATAAGGC
1 GTATATGTGTGATAAGGC
44933845 GTATATGTGTGATAAGGC
1 GTATATGTGTGATAAGGC
44933863 CTAATAGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.33
Consensus pattern (18 bp):
GTATATGTGTGATAAGGC
Found at i:44933873 original size:65 final size:65
Alignment explanation
Indices: 44933781--44933909 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
44933771 TGAAAGTGTA
*
44933781 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCG
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCG
*
44933846 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGC
44933910 CTAATAGCCG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (65 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCG
Found at i:44933898 original size:47 final size:47
Alignment explanation
Indices: 44933845--44933947 Score: 206
Period size: 47 Copynumber: 2.2 Consensus size: 47
44933835 GTGATAAGGC
44933845 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
44933892 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
44933939 GTATATGTG
1 GTATATGTG
44933948 ATGAATGTGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (47 bp):
GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
Found at i:44933974 original size:25 final size:23
Alignment explanation
Indices: 44933920--44933967 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
44933910 CTAATAGCCG
44933920 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
44933943 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
44933966 AT
1 AT
44933968 ATGTGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:44933986 original size:70 final size:70
Alignment explanation
Indices: 44933873--44934014 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
44933863 CTAATAGCCG
*
44933873 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
44933938 TGTAT
66 TGTAT
44933943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
44934008 TGTAT
66 TGTAT
44934013 AT
1 AT
44934015 ATGTGATAAG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.32
Consensus pattern (70 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGTAT
Found at i:44933996 original size:47 final size:47
Alignment explanation
Indices: 44933943--44934106 Score: 310
Period size: 47 Copynumber: 3.5 Consensus size: 47
44933933 GAAAGTGTAT
44933943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
44933990 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* *
44934037 ATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
44934084 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
44934107 CCGATGTGAT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:44934010 original size:117 final size:118
Alignment explanation
Indices: 44933728--44934183 Score: 584
Period size: 117 Copynumber: 3.9 Consensus size: 118
44933718 CAGCCAAGAC
*
44933728 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGAT
*
44933793 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTG-TG-A--T-AA
65 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
* * * *
44933842 GGCGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATGTGTGATA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
44933906 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
66 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
44933959 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
* *
44934023 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATG-G-C
66 AGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGAT---G---AATGTGAA
*
44934082 CGATGTGATGA-ATGTGA-AAGTG--T-AT--CCGATGTGATGAATGTGAAAGTGTATATATATG
1 AG-TGT-AT-ATATGTGATAAG-GCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATG
*
44934140 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
61 TGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
44934184 ATGTGATAAG
Statistics
Matches: 309, Mismatches: 14, Indels: 32
0.87 0.04 0.09
Matches are distributed among these distances:
112 53 0.17
113 2 0.01
114 48 0.16
116 1 0.00
117 96 0.31
119 9 0.03
120 28 0.09
122 49 0.16
123 2 0.01
124 7 0.02
125 13 0.04
126 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (118 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAA
Found at i:44934117 original size:26 final size:26
Alignment explanation
Indices: 44934081--44934132 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44934071 GGCCTAATGG
44934081 CCGATGTGATGAATGTGAAAGTGTAT
1 CCGATGTGATGAATGTGAAAGTGTAT
44934107 CCGATGTGATGAATGTGAAAGTGTAT
1 CCGATGTGATGAATGTGAAAGTGTAT
44934133 ATATATGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (26 bp):
CCGATGTGATGAATGTGAAAGTGTAT
Found at i:44934119 original size:73 final size:74
Alignment explanation
Indices: 44934034--44934181 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 74
44934024 GGCCTAATAG
44934034 CCGATGTGATGAATGTGAAAGTG-TATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CCGATGTGATGAATGTGAAAGTGATATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTG
44934098 AAAGTGTAT
66 AAAGTGTAT
*
44934107 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAAGTG-ATATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGT
44934172 GAAAGTGTAT
65 GAAAGTGTAT
44934182 ATATGTGATA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 23 0.32
75 49 0.68
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (74 bp):
CCGATGTGATGAATGTGAAAGTGATATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTAT
Found at i:44934162 original size:49 final size:49
Alignment explanation
Indices: 44934107--44934473 Score: 656
Period size: 49 Copynumber: 7.6 Consensus size: 49
44934097 GAAAGTGTAT
44934107 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
44934156 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
44934203 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
*
44934250 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
* *
44934299 CCAATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
44934348 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
*
44934395 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
44934444 CCGATGTGATGAATGTGAAAGTGTATATAT
1 CCGATGTGATGAATGTGAAAGTGTATATAT
44934474 NNNNNNNNNN
Statistics
Matches: 306, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
47 140 0.46
49 166 0.54
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
Found at i:44934202 original size:122 final size:121
Alignment explanation
Indices: 44933870--44934229 Score: 494
Period size: 122 Copynumber: 3.0 Consensus size: 121
44933860 GGCCTAATAG
*
44933870 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
44933935 AAGTG--TATATGTGAT---G---AATGTG--AAAGTGTAT-ATATGTGATAAG-GCCTAATA
66 AAGTGTATATATGTGATAAGGCCTAATG-GCCGATGTG-ATGA-ATGTGA-AAGTG--T-ATA
44933986 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 -CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
*
44934051 AAAGTGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT-
65 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
44934107 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
44934172 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44934230 TATGTGATAA
Statistics
Matches: 222, Mismatches: 6, Indels: 24
0.88 0.02 0.10
Matches are distributed among these distances:
117 69 0.31
119 9 0.04
120 23 0.10
122 98 0.44
123 1 0.00
124 4 0.02
125 13 0.06
126 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (121 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:44934220 original size:169 final size:164
Alignment explanation
Indices: 44933845--44934277 Score: 767
Period size: 169 Copynumber: 2.6 Consensus size: 164
44933835 GTGATAAGGC
* *
44933845 GTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGC
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
44933910 CTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAAAGTGTATATATGTGAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAAAGTGTATATATGTGAT
44933975 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
131 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
*
44934009 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGC
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
44934074 CTAATGGCCGATGTGATGAATGTGAAAGTGTATCCGATGTGATGAATGTGAAAGTGTATATATAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT---ATGTGATGAATGTGAAAGTG--TATATAT
*
44934139 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
126 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
*
44934178 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
44934243 CTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
44934278 ATATGTGATA
Statistics
Matches: 257, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
164 94 0.37
166 2 0.01
167 20 0.08
169 141 0.55
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (164 bp):
GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
Found at i:44934225 original size:96 final size:96
Alignment explanation
Indices: 44934110--44934473 Score: 669
Period size: 96 Copynumber: 3.8 Consensus size: 96
44934100 AGTGTATCCG
44934110 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44934175 AGTGTATATATGTGATAAGGCCTAATGGCCG
66 AGTGTATATATGTGATAAGGCCTAATGGCCA
44934206 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44934269 AGTGTATATATATGTGATAAGGCCGAATGGCCA
66 AGTG--TATATATGTGATAAGGCCTAATGGCCA
*
44934302 ATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44934367 AGTGTATATATGTGATAAGGCCTAATGGCCA
66 AGTGTATATATGTGATAAGGCCTAATGGCCA
44934398 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44934463 AGTGTATATAT
66 AGTGTATATAT
44934474 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
94 47 0.18
96 165 0.64
98 47 0.18
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGCCA
Found at i:44936477 original size:46 final size:46
Alignment explanation
Indices: 44936427--44936598 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
44936417 TGAGCATCCA
44936427 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
44936473 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
*
44936520 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
44936566 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44936599 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.55
47 29 0.27
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:44936579 original size:93 final size:93
Alignment explanation
Indices: 44936420--44936591 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44936410 GGATGGTTGA
*
44936420 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
44936485 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
44936513 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
44936578 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44936592 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44939007 original size:6 final size:6
Alignment explanation
Indices: 44938989--44939079 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
44938979 AATAAACATT
* * *
44938989 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
44939038 ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
44939080 GTAACAGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.08
6 53 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:44939050 original size:25 final size:25
Alignment explanation
Indices: 44939003--44939073 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
44938993 GAACTAGAAT
* * *
44939003 CAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
44939028 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
44939053 TAGAATCAAAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAG
44939074 TATCAGGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:44939066 original size:31 final size:32
Alignment explanation
Indices: 44939031--44939102 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
44939021 TAGGTGACAG
* *
44939031 AATCAGAATCAGTATCAGGTAATAGAAT-CAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAAA
44939062 AATCAGAATCAGTATCAGGTAACAGAATAAAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAAA
44939094 AATCAGAAT
1 AATCAGAAT
44939103 GTGAATACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 27 0.71
32 11 0.29
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.21
Consensus pattern (32 bp):
AATCAGAATCAGTATCAGGTAACAGAATAAAA
Found at i:44939310 original size:26 final size:27
Alignment explanation
Indices: 44939239--44939339 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
44939229 GCTCAATTAT
* * *
44939239 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
44939266 CAGATATTGTGGCAGAGCCACC-GGAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
44939292 CAGATATTTGTGGC-TAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGAAA
* *
44939319 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
44939340 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 21 0.33
27 42 0.67
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:44939526 original size:22 final size:22
Alignment explanation
Indices: 44939498--44939562 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44939488 GCAAATACGT
*
44939498 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
44939520 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
44939542 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
44939563 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:44939973 original size:27 final size:27
Alignment explanation
Indices: 44939939--44940134 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
44939929 AAGGTATCTC
* * *
44939939 GGTAATTCCACCCTGCAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
44939966 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
*
44939993 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTT
* * **
44940020 GGTAATTATACCATACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
44940047 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* *
44940074 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
* * *
44940101 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTT
44940128 GGTAATT
1 GGTAATT
44940135 TTGTAAATCG
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTT
Found at i:44939996 original size:54 final size:54
Alignment explanation
Indices: 44939931--44940134 Score: 273
Period size: 54 Copynumber: 3.8 Consensus size: 54
44939921 CCCCATAAAA
* * * * *
44939931 GGTATCTCGGTAATTCCACCCTGCAGGGATATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
* * *
44939985 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTTGGTAATTATACCATACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
* * * *
44940039 GGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
* * *
44940093 GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATT
44940135 TTGTAAATCG
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 131 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
Found at i:44940134 original size:81 final size:81
Alignment explanation
Indices: 44939931--44940134 Score: 266
Period size: 81 Copynumber: 2.5 Consensus size: 81
44939921 CCCCATAAAA
* * * **
44939931 GGTATCTCGGTAATTCCACCCTGC-AGGGATATTTTAGTAATTCTACCCTACAGGGGTATTTCGG
1 GGTATTTCGGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
* *
44939995 TAATTCTACCTTACAGG
65 TAATTCTACCCTACAAG
* * * * * *
44940012 GGTATTTTGGTAATTATACCATACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
44940077 AATTCTACCCTACAAG
66 AATTCTACCCTACAAG
*
44940093 GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATT
44940135 TTGTAAATCG
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 99 0.97
82 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
AATTCTACCCTACAAG
Found at i:44940148 original size:27 final size:26
Alignment explanation
Indices: 44939984--44940513 Score: 333
Period size: 27 Copynumber: 19.7 Consensus size: 26
44939974 TACCCTACAG
* * ** *
44939984 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* * *
44940011 GGGTATTTTGGTAATTATACCATACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
** * * ** *
44940038 GGGTATTGCGATAATTCTACCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* * **
44940065 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTTGGTAATTTTA-CAAACAA
* **
44940092 GGGTATTTCGGT-ATTTCTACCCTACAA
1 GGGTATTTTGGTAATTT-TA-CAAACAA
* ** *
44940119 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAA-CAA
**** **
44940146 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* * *
44940173 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
*** * *
44940200 GGGTATTTCAATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
** * * *
44940227 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
44940254 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
*
44940280 GAGGTATTTTGATAATTTTACAAACAA
1 G-GGTATTTTGGTAATTTTACAAACAA
*
44940307 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAAACAA
*
44940334 GGTGTATTTTGGTAATTTTATAAACAAA
1 GG-GTATTTTGGTAATTTTACAAAC-AA
* *
44940362 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CAA
**
44940389 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
44940416 GGGTATTTTGGTAATTTTATCAACCAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* *
44940443 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
** *
44940470 GGGTATTTTACTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAAACAA
44940496 GAGGTATTTTGGTAATTT
1 G-GGTATTTTGGTAATTT
44940514 GGTAAACTAA
Statistics
Matches: 417, Mismatches: 73, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
26 12 0.03
27 394 0.94
28 11 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:44940520 original size:54 final size:54
Alignment explanation
Indices: 44940254--44940513 Score: 373
Period size: 54 Copynumber: 4.8 Consensus size: 54
44940244 CACAAATTAG
* * *
44940254 GGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAA-CAA
1 GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
*
44940307 GGGGTATTTTGGTAATTTTACAAACCAG-GTGTATTTTGGTAATTTTATAAACAAA
1 -GGGTATTTTGGTAATTTTACAAACCAGAG-GTATTTTGGTAATTTTATAAACCAA
* * *
44940362 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
* *
44940416 GGGTATTTTGGTAATTTTATC-AACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTA-CAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
**
44940470 GGGTATTTTACTAATTTTACAAACCAGAGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTT
44940514 GGTAAACTAA
Statistics
Matches: 187, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
53 2 0.01
54 181 0.97
55 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
Found at i:44949302 original size:29 final size:29
Alignment explanation
Indices: 44949242--44949313 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
44949232 CTGACTGATT
*
44949242 TCGCACACATAGTG-CTCGATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
44949270 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
44949299 TCGCACACATAGTGC
1 TCGCACACATAGTGC
44949314 TACACATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.36
29 24 0.62
30 1 0.03
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:44949336 original size:41 final size:41
Alignment explanation
Indices: 44949274--44949355 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
44949264 AAGAACTCGC
*
44949274 ACACATAGTGCCTCAATTACCAATCTCGCACACATAGTGCT
1 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCT
44949315 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCT
1 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCT
44949356 CGATTGAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.33, G:0.12, T:0.23
Consensus pattern (41 bp):
ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCT
Found at i:44949377 original size:28 final size:28
Alignment explanation
Indices: 44949339--44949439 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
44949329 AACTACCAAT
44949339 CTCGCACACATAGTGCTCGATTGAAGAA
1 CTCGCACACATAGTGCTCGATTGAAGAA
* * * *
44949367 CTCGCACACATAGTGCCTCAACT-ACTGAT
1 CTCGCACACATAGTG-CTCGATTGA-AGAA
* * *
44949396 CTGGCACACATAGTGCTCGGTTGAAGAG
1 CTCGCACACATAGTGCTCGATTGAAGAA
* *
44949424 CTTGCACACACAGTGC
1 CTCGCACACATAGTGC
44949440 CTTATAATTC
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 36 0.62
29 22 0.38
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGATTGAAGAA
Found at i:44949403 original size:57 final size:57
Alignment explanation
Indices: 44949315--44949441 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 57
44949305 ACATAGTGCT
44949315 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCTCGATTGAAGAACTCGC
1 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCTCGATTGAAGAACTCGC
** * * * *
44949372 ACACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGAAGAGCTTGC
1 ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCTCGATTGAAGAACTCGC
*
44949429 ACACACAGTGCCT
1 ACACATAGTGCCT
44949442 TATAATTCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (57 bp):
ACACATAGTGCCTCAACTACCAATCTCGCACACATAGTGCTCGATTGAAGAACTCGC
Found at i:44949515 original size:40 final size:40
Alignment explanation
Indices: 44949449--44949684 Score: 370
Period size: 40 Copynumber: 5.9 Consensus size: 40
44949439 CCTTATAATT
* * * *
44949449 CCAGAACGAATGC-CTTCGAGG-TTTAGCCCAGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
*
44949488 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
44949528 CCAGCACGAATGCTCTTTC-GGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTC-TTCGGGACTTAGCCCGGATATAACA
*
44949568 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
44949608 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
44949648 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
44949685 TAACTCTCAA
Statistics
Matches: 183, Mismatches: 10, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
39 16 0.09
40 164 0.90
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:44951514 original size:37 final size:37
Alignment explanation
Indices: 44951464--44951572 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
44951454 TTATTACGAA
* * * *
44951464 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44951501 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44951538 GTCTTACCCGGACAAAATCCCCACACGTAGTCATC
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATC
44951573 AGGTATTTAG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44951680 original size:47 final size:47
Alignment explanation
Indices: 44951611--44952054 Score: 809
Period size: 47 Copynumber: 9.4 Consensus size: 47
44951601 GCACGAAGCT
44951611 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951658 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951705 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951752 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951799 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951846 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
44951893 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
*
44951940 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACA--TATATAC
* * *
44951989 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
*
44952036 A-TGTTCACATCCATCACAT
1 ACT-TTCACATTCATCACAT
44952055 AGAATCCTAA
Statistics
Matches: 390, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 343 0.88
49 46 0.12
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
Found at i:44958061 original size:61 final size:61
Alignment explanation
Indices: 44957991--44958108 Score: 209
Period size: 61 Copynumber: 1.9 Consensus size: 61
44957981 ACAAAGATAC
*
44957991 AAATTTCCCTTCATCATTGCCGTCCACTAAAATAAAAAGGGTCTAATTGACATGCAATTAA
1 AAATTTCCCTTCATCATTGCCGTCCACTAAAATAAAAAGGGGCTAATTGACATGCAATTAA
* *
44958052 AAATTTCCCTTCATCATTGTCTTCCACTAAAATAAAAAGGGGCTAATTGACATGCAA
1 AAATTTCCCTTCATCATTGCCGTCCACTAAAATAAAAAGGGGCTAATTGACATGCAA
44958109 GACCCACATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (61 bp):
AAATTTCCCTTCATCATTGCCGTCCACTAAAATAAAAAGGGGCTAATTGACATGCAATTAA
Found at i:44959883 original size:19 final size:20
Alignment explanation
Indices: 44959859--44959896 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44959849 GGTGCCACCA
44959859 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44959878 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44959897 ACCACCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44960192 original size:46 final size:45
Alignment explanation
Indices: 44960125--44960292 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
44960115 CGCCCCTAAG
44960125 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATAAA
* * *
44960171 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCATAAA
* * * * * * * *
44960218 CGAACTCGAACTCAACTCAACGAGTTCAGACATTTGTATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCATAAA
44960264 TGAACTCGGACTCAACTCAACGAGCTCGG
1 TGAACTCGGACTCAACTCAACGAGCTCGG
44960293 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 1 0.01
46 53 0.54
47 27 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAA
Found at i:44960236 original size:93 final size:93
Alignment explanation
Indices: 44960126--44960296 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
44960116 GCCCCTAAGT
* * * *
44960126 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
44960191 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
44960219 GAACTCGAACTCAACTCAACGAGTTCAGACATTTGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44960284 CGAGCTCGGATGC
66 CGAGCTCGGATGC
44960297 TCAACCATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:44967831 original size:93 final size:93
Alignment explanation
Indices: 44967720--44967890 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
44967710 GCCCCTAAGT
* *
44967720 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
44967785 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
44967813 GAACTTGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
44967878 CGAGCTCGGATGC
66 CGAGCTCGGATGC
44967891 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:44967887 original size:46 final size:46
Alignment explanation
Indices: 44967715--44967887 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
44967705 AACCCGCCCC
* * *
44967715 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
44967761 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * * * *
44967809 TCA-CGAACTTGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
44967854 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44967888 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.56
47 26 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:44981378 original size:12 final size:12
Alignment explanation
Indices: 44981363--44981393 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
44981353 TTCTTTTTGC
44981363 TTTTCAAAGGCT
1 TTTTCAAAGGCT
44981375 TTTTCAAAGGCT
1 TTTTCAAAGGCT
44981387 TTTTCAA
1 TTTTCAA
44981394 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:44981451 original size:5 final size:5
Alignment explanation
Indices: 44981441--44981497 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
44981431 CTCTTGCCTC
*
44981441 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
44981488 TCTTT TCTTT
1 TCTTT TCTTT
44981498 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:44981481 original size:15 final size:14
Alignment explanation
Indices: 44981441--44981497 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
44981431 CTCTTGCCTC
*
44981441 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
44981456 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
44981471 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
44981488 TCTTTTCTTT
1 TCTTTTCTTT
44981498 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:44981498 original size:21 final size:21
Alignment explanation
Indices: 44981441--44981508 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
44981431 CTCTTGCCTC
* *
44981441 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
44981462 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
44981483 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
44981503 CTCTTT
1 -TCTTT
44981509 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:44982449 original size:23 final size:24
Alignment explanation
Indices: 44982412--44982468 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
44982402 CATTAAACAC
*
44982412 TTTTTTTTCAGATTTTTCTTCGAA
1 TTTTTTTTGAGATTTTTCTTCGAA
* *
44982436 TTTTTTTTGA-ATTTTTTTTCGAT
1 TTTTTTTTGAGATTTTTCTTCGAA
44982459 TTTTTTTTGA
1 TTTTTTTTGA
44982469 CTTGTATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (24 bp):
TTTTTTTTGAGATTTTTCTTCGAA
Found at i:44982451 original size:11 final size:11
Alignment explanation
Indices: 44982412--44982468 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
44982402 CATTAAACAC
*
44982412 TTTTTTTTCAGA
1 TTTTTTTTGA-A
*
44982424 TTTTTCTTCGAA
1 TTTTT-TTTGAA
44982436 TTTTTTTTGAA
1 TTTTTTTTGAA
*
44982447 TTTTTTTTCGAT
1 TTTTTTTT-GAA
44982459 TTTTTTTTGA
1 TTTTTTTTGA
44982469 CTTGTATAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 15 0.38
12 21 0.54
13 3 0.08
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:44982466 original size:12 final size:12
Alignment explanation
Indices: 44982412--44982465 Score: 69
Period size: 11 Copynumber: 4.7 Consensus size: 12
44982402 CATTAAACAC
44982412 TTTTTTTTC-AGA
1 TTTTTTTTCGA-A
*
44982424 TTTTTCTTCGAA
1 TTTTTTTTCGAA
44982436 TTTTTTTT-GAA
1 TTTTTTTTCGAA
44982447 TTTTTTTTCG-A
1 TTTTTTTTCGAA
44982458 TTTTTTTT
1 TTTTTTTT
44982466 TGACTTGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
11 20 0.53
12 17 0.45
13 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:44983560 original size:13 final size:13
Alignment explanation
Indices: 44983542--44983566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44983532 TGGTCATCAT
44983542 GGTGTGAACACAA
1 GGTGTGAACACAA
44983555 GGTGTGAACACA
1 GGTGTGAACACA
44983567 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:44986113 original size:22 final size:22
Alignment explanation
Indices: 44986085--44986137 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
44986075 CAACCAAAAT
44986085 ACATCAATACCATATGACCCTA
1 ACATCAATACCATATGACCCTA
44986107 ACATCAATACCATATGACCCTA
1 ACATCAATACCATATGACCCTA
44986129 ACATCAATA
1 ACATCAATA
44986138 AGCATTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.23
Consensus pattern (22 bp):
ACATCAATACCATATGACCCTA
Found at i:44988626 original size:27 final size:27
Alignment explanation
Indices: 44988592--44988824 Score: 234
Period size: 27 Copynumber: 8.7 Consensus size: 27
44988582 ATCGCATAGT
* *
44988592 GGCAAAACAGTCAATTTACCATATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * * *
44988619 GGCGAAACAATTATTTTACCAGATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * *
44988646 GGAAAAATAGTCTTTTTACCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* *
44988673 GGCAAAACAGACATTTTACCACATAAT
1 GGCAAAACAGTCATTTTACCACATAAG
* *
44988700 GGCAAAATAATCATTTTACCACATAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * *
44988727 GGCAAAATAGTCATTTTACCATATAAA
1 GGCAAAACAGTCATTTTACCACATAAG
* * *
44988754 GGCAAAACAATCATTTTATCA-ATTAG
1 GGCAAAACAGTCATTTTACCACATAAG
* * * *
44988780 GGCAAAACAGTCCTTTTACTATAAAAG
1 GGCAAAACAGTCATTTTACCACATAAG
* *
44988807 GGTAAAATAGTCATTTTA
1 GGCAAAACAGTCATTTTA
44988825 TCAATTAGGG
Statistics
Matches: 167, Mismatches: 38, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 20 0.12
27 147 0.88
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCACATAAG
Found at i:44988727 original size:81 final size:80
Alignment explanation
Indices: 44988592--44988824 Score: 261
Period size: 81 Copynumber: 2.9 Consensus size: 80
44988582 ATCGCATAGT
* * * * *
44988592 GGCAAAACAGTCAATTTACCATATAAGGGCGAAACAATTATTTTACCAGATAAGGGAAAAATAGT
1 GGCAAAACAGACATTTTACCA-ATAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAATAGT
* *
44988657 CTTTTTACCACATAAG
65 CATTTTACCACATAAA
* * *
44988673 GGCAAAACAGACATTTTACCACATAATGGCAAAATAATCATTTTACCACATAAGGGCAAAATAGT
1 GGCAAAACAGACATTTTACCA-ATAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAATAGT
*
44988738 CATTTTACCATATAAA
65 CATTTTACCACATAAA
* * * * * * * *
44988754 GGCAAAACA-ATCATTTTATCAATTAGGGCAAAACAGTCCTTTTACTATAAAAGGGTAAAATAGT
1 GGCAAAACAGA-CATTTTACCAATAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAATAGT
44988818 CATTTTA
65 CATTTTA
44988825 TCAATTAGGG
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 42 0.33
81 87 0.67
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (80 bp):
GGCAAAACAGACATTTTACCAATAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAATAGTC
ATTTTACCACATAAA
Found at i:44988967 original size:18 final size:17
Alignment explanation
Indices: 44988941--44988974 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44988931 CATAATGCGG
44988941 GCCTATGTGGGCCCACAC
1 GCCTATGT-GGCCCACAC
*
44988959 GCCTGTGTGGCCCACA
1 GCCTATGTGGCCCACA
44988975 TAGTCCAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (17 bp):
GCCTATGTGGCCCACAC
Found at i:44991791 original size:47 final size:47
Alignment explanation
Indices: 44991720--44992817 Score: 2034
Period size: 47 Copynumber: 23.3 Consensus size: 47
44991710 CCCTTCGGGA
* * * * * *
44991720 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44991767 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44991814 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44991861 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44991908 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44991955 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992331 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992425 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992472 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992519 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992707 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44992754 CTTATCACATATATATACACTTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44992803 CTTATCACATATATA
1 CTTATCACATATATA
44992818 GCCTTATCAC
Statistics
Matches: 1030, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
47 986 0.96
49 44 0.04
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44991798 original size:25 final size:25
Alignment explanation
Indices: 44991770--44991848 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
44991760 ACTCGGCCCT
44991770 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
44991795 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
44991817 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
44991842 ATCACAT
1 ATCACAT
44991849 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:44992823 original size:17 final size:17
Alignment explanation
Indices: 44992801--44992834 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44992791 TGGCCATTCG
44992801 GCCTTATCACATATATA
1 GCCTTATCACATATATA
44992818 GCCTTATCACATATATA
1 GCCTTATCACATATATA
44992835 CACTTTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
GCCTTATCACATATATA
Found at i:44992860 original size:64 final size:65
Alignment explanation
Indices: 44992752--44992881 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
44992742 CGGCCATTAG
* * *
44992752 GCCTTATCACATATATATACACTTTTACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 GCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
44992817 A
65 A
44992818 GCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
44992882 CACTTTCACA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 51 0.84
66 10 0.16
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (65 bp):
GCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:45000687 original size:27 final size:27
Alignment explanation
Indices: 45000652--45000911 Score: 317
Period size: 27 Copynumber: 9.7 Consensus size: 27
45000642 TATCACATAG
*
45000652 GGGCAAAACAGTCAATTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
** *
45000679 GGGTGAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
45000706 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
45000733 GGGCAAAATAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
45000760 GGGCAAAACAGTCATTTTATCA-ATTA
1 GGGCAAAACAGTCATTTTACCATATAA
*
45000786 GGGCAAAATAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * * *
45000813 AGGCAGAACAGTCATTTTATCA-ATTA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
45000839 GGGCAAAACAATCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* **
45000866 GGGCAAAACAATCATTTTACCGCATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
45000893 GGGCAAAACAATTATTTTA
1 GGGCAAAACAGTCATTTTA
45000912 TCAATTAGGG
Statistics
Matches: 205, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 44 0.21
27 161 0.79
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:45000808 original size:53 final size:54
Alignment explanation
Indices: 45000645--45000911 Score: 331
Period size: 53 Copynumber: 5.0 Consensus size: 54
45000635 AAACATATAT
* * * **
45000645 CACATAGGGGCAAAACAGTCAATTTACCATATAAGGGTGAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
* *
45000699 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
* * * *
45000753 CATATAAGGGCAAAACAGTCATTTTATCA-ATTAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
* * * * * *
45000806 CATATAAAGGCAGAACAGTCATTTTATCA-ATTAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
* * * *
45000859 CACATAAGGGCAAAACAATCATTTTACCGCATAAGGGCAAAACAATTATTTTA
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTA
45000912 TCAATTAGGG
Statistics
Matches: 189, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 95 0.50
54 94 0.50
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (54 bp):
CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTAC
Done.