Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 19 of 128
Found at i:5601179 original size:114 final size:115
Alignment explanation
Indices: 5600968--5601198 Score: 455
Period size: 114 Copynumber: 2.0 Consensus size: 115
5600958 GCTCCCAATA
5600968 GTCATAGAGCGATTCACTTTCCGTTTGGCGGATTCCCACTATGTCTCTCCTATGTTCAGCTGCTA
1 GTCATAGAGCGATTCACTTTCCGTTTGGCGGATTCCCACTATGTCTCTCCTATGTTCAGCTGCTA
5601033 GTGATGCAGGGAAAAATCTGTCAAGAAAAACACGAGATAAGTCATCCCAC
66 GTGATGCAGGGAAAAATCTGTCAAGAAAAACACGAGATAAGTCATCCCAC
5601083 GTCATAGAGC-ATTCACTTTCCGTTTGGCGGATTCCCACTATGTCTCTCCTATGTTCAGCTGCTA
1 GTCATAGAGCGATTCACTTTCCGTTTGGCGGATTCCCACTATGTCTCTCCTATGTTCAGCTGCTA
5601147 GTGATGCAGGGAAAAATCTGTCAAGAAAAACACGAGATAAGTCATCCCAC
66 GTGATGCAGGGAAAAATCTGTCAAGAAAAACACGAGATAAGTCATCCCAC
5601197 GT
1 GT
5601199 TGTAATAGAA
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 106 0.91
115 10 0.09
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (115 bp):
GTCATAGAGCGATTCACTTTCCGTTTGGCGGATTCCCACTATGTCTCTCCTATGTTCAGCTGCTA
GTGATGCAGGGAAAAATCTGTCAAGAAAAACACGAGATAAGTCATCCCAC
Found at i:5611298 original size:21 final size:21
Alignment explanation
Indices: 5611259--5611298 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5611249 TATCAGAATT
*
5611259 ATATTAATATTTTTCAAAAAA
1 ATATTAATATTTTTAAAAAAA
5611280 ATATTAAT-TTTATTAAAAA
1 ATATTAATATTT-TTAAAAA
5611299 TTAACCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTAATATTTTTAAAAAAA
Found at i:5611503 original size:21 final size:21
Alignment explanation
Indices: 5611464--5611503 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5611454 TATCAGAATT
*
5611464 ATATTAATATTTTTCAAAAAA
1 ATATTAATATTTTTAAAAAAA
5611485 ATATTAAT-TTTATTAAAAA
1 ATATTAATATTT-TTAAAAA
5611504 TTAACCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTAATATTTTTAAAAAAA
Found at i:5611565 original size:205 final size:206
Alignment explanation
Indices: 5611202--5611612 Score: 815
Period size: 205 Copynumber: 2.0 Consensus size: 206
5611192 AATTCTCTCA
5611202 ATTCTCTATTAAATTCTTATTTAGATTTTATTTCTCTACAATTTTTTTATCAGAATTATATTAAT
1 ATTCTCTATTAAATTCTTATTTAGATTTTATTTCTCTACAATTTTTTTATCAGAATTATATTAAT
5611267 ATTTTTCAAAAAAATATTAATTTTATTAAAAATTAACCTATGTTTTTCGAAATTAGCATATGGCC
66 ATTTTTCAAAAAAATATTAATTTTATTAAAAATTAACCTATGTTTTTCGAAATTAGCATATGGCC
5611332 AAATCTCTAATCTGTTTCGATGGCAACCACATTTCCATCAACCAATTGCAAATAGTAAGAATATT
131 AAATCTCTAATCTGTTTCGATGGCAACCACATTTCCATCAACCAATTGCAAATAGTAAGAATATT
5611397 TTTTAATATAT
196 TTTTAATATAT
5611408 ATTCTCTATT-AATTCTTATTTAGATTTTATTTCTCTACAATTTTTTTATCAGAATTATATTAAT
1 ATTCTCTATTAAATTCTTATTTAGATTTTATTTCTCTACAATTTTTTTATCAGAATTATATTAAT
5611472 ATTTTTCAAAAAAATATTAATTTTATTAAAAATTAACCTATGTTTTTCGAAATTAGCATATGGCC
66 ATTTTTCAAAAAAATATTAATTTTATTAAAAATTAACCTATGTTTTTCGAAATTAGCATATGGCC
5611537 AAATCTCTAATCTGTTTCGATGGCAACCACATTTCCATCAACCAATTGCAAATAGTAAGAATATT
131 AAATCTCTAATCTGTTTCGATGGCAACCACATTTCCATCAACCAATTGCAAATAGTAAGAATATT
5611602 TTTTAATATAT
196 TTTTAATATAT
5611613 TTCAATGTTG
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
205 195 0.95
206 10 0.05
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.44
Consensus pattern (206 bp):
ATTCTCTATTAAATTCTTATTTAGATTTTATTTCTCTACAATTTTTTTATCAGAATTATATTAAT
ATTTTTCAAAAAAATATTAATTTTATTAAAAATTAACCTATGTTTTTCGAAATTAGCATATGGCC
AAATCTCTAATCTGTTTCGATGGCAACCACATTTCCATCAACCAATTGCAAATAGTAAGAATATT
TTTTAATATAT
Found at i:5624919 original size:50 final size:50
Alignment explanation
Indices: 5624838--5624984 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
5624828 CATTGAGATT
* ** *
5624838 ATGAGAGGTCCCATGTAAGACTGTGCCTGGGACATGGCGTTGGCACCAAG
1 ATGAAAGGTCCCATGTAAGACCATGCTTGGGACATGGCGTTGGCACCAAG
* *
5624888 ATGAAAGGTCCCATGTAAGACCATGTTTGGGACATGGAGTTGGCACCAAG
1 ATGAAAGGTCCCATGTAAGACCATGCTTGGGACATGGCGTTGGCACCAAG
* ** * *
5624938 ATGAGAA-ATCCCGCGTAAGACCATGCCTT-GGACATGGCATGGGCACC
1 ATGA-AAGGTCCCATGTAAGACCATG-CTTGGGACATGGCGTTGGCACC
5624985 TATATAAGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 78 0.95
51 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGCTTGGGACATGGCGTTGGCACCAAG
Found at i:5631656 original size:56 final size:50
Alignment explanation
Indices: 5631560--5631708 Score: 165
Period size: 50 Copynumber: 2.9 Consensus size: 50
5631550 ATTTGGGTAA
* * * *
5631560 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGAAAGACCATGTCTGGGACATGGCGTTGGCA-C----AGA-TATG
* *
5631616 AGAGGTCCCATGAAAGACCATGTTTGGGACATGGCGTTGGCACCGATATG
1 AGAGGTCCCATGAAAGACCATGTCTGGGACATGGCGTTGGCACAGATATG
*
5631666 AGAGGTCCCATGTAAA-ACAATGTCTGGGACATGGCGTTGGCAC
1 AGAGGTCCCATG-AAAGACCATGTCTGGGACATGGCGTTGGCAC
5631709 CAAGATGAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
50 41 0.49
51 5 0.06
55 1 0.01
56 37 0.44
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGAAAGACCATGTCTGGGACATGGCGTTGGCACAGATATG
Found at i:5634281 original size:16 final size:16
Alignment explanation
Indices: 5634256--5634286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5634246 ATAAGAATTT
5634256 TTTATAGTTTTTTAAG
1 TTTATAGTTTTTTAAG
*
5634272 TTTATTGTTTTTTAA
1 TTTATAGTTTTTTAA
5634287 AAAATAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (16 bp):
TTTATAGTTTTTTAAG
Found at i:5645102 original size:7 final size:7
Alignment explanation
Indices: 5645090--5645144 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
5645080 CCTCTTCTTT
5645090 TTTGTTC
1 TTTGTTC
5645097 TTTGTTC
1 TTTGTTC
5645104 TTTGTTC
1 TTTGTTC
5645111 TTT-TTCCC
1 TTTGTT--C
*
5645119 GTTATCTTC
1 -TT-TGTTC
5645128 TTTGTTC
1 TTTGTTC
5645135 TTTGTTC
1 TTTGTTC
5645142 TTT
1 TTT
5645145 TTCCTTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
6 2 0.05
7 31 0.74
8 3 0.07
9 3 0.07
10 1 0.02
11 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.11, T:0.69
Consensus pattern (7 bp):
TTTGTTC
Found at i:5650516 original size:21 final size:21
Alignment explanation
Indices: 5650482--5650521 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5650472 TATTAAGCTT
*
5650482 AAAGTTAAAATATATATTATG
1 AAAGTTAAAATATAGATTATG
* *
5650503 AAAGTTGAATTATAGATTA
1 AAAGTTAAAATATAGATTA
5650522 AAGAAAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAGTTAAAATATAGATTATG
Found at i:5650540 original size:121 final size:117
Alignment explanation
Indices: 5650388--5650620 Score: 351
Period size: 121 Copynumber: 2.0 Consensus size: 117
5650378 AAGGTAAAAT
*
5650388 TTGAATTATAAATTAAAAAAATTAAAGGGACTAAATAAGCAATTATGTCATTACTTATAAATGAG
1 TTGAATTATAAATTAAAAAAATTAAAGGGACTAAATAAGCAATTATGCCATTACTTATAAATGAG
* *
5650453 GC-GACATAACATAGATATTTATTAAGCTTAAAGTTAAAATATATATTATGAAAG
66 GCAG-CATAACATAGATATTTATAAAACTTAAAGTT--AATATATATTATGAAAG
* *
5650507 TTGAATTATAGATTAAAGAAAAATTAAAGGGACTAAATAAGCAATTATGCCATTGCTTATAAATG
1 TTGAATTATAAATT-AA-AAAAATTAAAGGGACTAAATAAGCAATTATGCCATTACTTATAAATG
* *
5650572 AGGCAGTATAAGATAGATATTTATAAAACTTAAAGTTAATATATATTAT
64 AGGCAGCATAACATAGATATTTATAAAACTTAAAGTTAATATATATTAT
5650621 AATATTATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
119 25 0.24
120 2 0.02
121 76 0.73
122 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.33
Consensus pattern (117 bp):
TTGAATTATAAATTAAAAAAATTAAAGGGACTAAATAAGCAATTATGCCATTACTTATAAATGAG
GCAGCATAACATAGATATTTATAAAACTTAAAGTTAATATATATTATGAAAG
Found at i:5650668 original size:25 final size:27
Alignment explanation
Indices: 5650618--5650676 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
5650608 TAATATATAT
* *
5650618 TATA-ATATTATATCTTAATTATTAAG
1 TATATATATTATATATTAATTAATAAG
5650644 TATATATATTATATATT-A-TAATAAG
1 TATATATATTATATATTAATTAATAAG
*
5650669 TAAATATA
1 TATATATA
5650677 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 5 0.17
27 11 0.38
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (27 bp):
TATATATATTATATATTAATTAATAAG
Found at i:5650709 original size:21 final size:20
Alignment explanation
Indices: 5650679--5650722 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
5650669 TAAATATAAT
5650679 AAATAAAAGAAACAAAAAAG
1 AAATAAAAGAAACAAAAAAG
*
5650699 AAATAGAAAGAAACAAAATAG
1 AAATA-AAAGAAACAAAAAAG
5650720 AAA
1 AAA
5650723 CGAAACAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.77, C:0.05, G:0.11, T:0.07
Consensus pattern (20 bp):
AAATAAAAGAAACAAAAAAG
Found at i:5650719 original size:15 final size:16
Alignment explanation
Indices: 5650699--5650729 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5650689 AACAAAAAAG
5650699 AAATAGAAA-GAAACA
1 AAATAGAAACGAAACA
5650714 AAATAGAAACGAAACA
1 AAATAGAAACGAAACA
5650730 GGGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.10, G:0.13, T:0.06
Consensus pattern (16 bp):
AAATAGAAACGAAACA
Found at i:5658017 original size:13 final size:13
Alignment explanation
Indices: 5657980--5658022 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
5657970 ATATATAAAG
5657980 TATTTTATAATAT
1 TATTTTATAATAT
* *
5657993 T-TTTAGAAAATAT
1 TATTT-TATAATAT
5658006 TATTTTATAATAT
1 TATTTTATAATAT
5658019 TATT
1 TATT
5658023 ATATTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTATAATAT
Found at i:5666192 original size:25 final size:24
Alignment explanation
Indices: 5666156--5666205 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
5666146 ATATTAATTG
*
5666156 TTTTATTAATTTATATATTTTAAAA
1 TTTTATTAATTTATA-ATTTCAAAA
*
5666181 TTTTA-TATATTTTTAATTTCAAAA
1 TTTTATTA-ATTTATAATTTCAAAA
5666205 T
1 T
5666206 AATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTAATTTATAATTTCAAAA
Found at i:5666198 original size:16 final size:16
Alignment explanation
Indices: 5666161--5666199 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
5666151 AATTGTTTTA
5666161 TTAA-TTTATATATTT
1 TTAATTTTATATATTT
*
5666176 TAAAATTTTATATATTT
1 T-TAATTTTATATATTT
5666193 TTAATTT
1 TTAATTT
5666200 CAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTATATATTT
Found at i:5666371 original size:22 final size:20
Alignment explanation
Indices: 5666341--5666380 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5666331 TTATACTTTT
5666341 TATTAATTTATATATTTTTACA
1 TATTAATTT-T-TATTTTTACA
*
5666363 TATTTATTTTTATTTTTA
1 TATTAATTTTTATTTTTA
5666381 TTTATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTAATTTTTATTTTTACA
Found at i:5669126 original size:10 final size:10
Alignment explanation
Indices: 5669111--5669183 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
5669101 TTTAAAATAC
5669111 TTTTTTTAA-
1 TTTTTTTAAT
5669120 TTTTTTTAA-
1 TTTTTTTAAT
**
5669129 -TTTTAAAAT
1 TTTTTTTAAT
5669138 TTTTTTTAAAT
1 TTTTTTT-AAT
*
5669149 TTTTTTAAAAT
1 TTTTTT-TAAT
* *
5669160 ACTTTTTAAAT
1 -TTTTTTTAAT
5669171 TTTTTTTAAT
1 TTTTTTTAAT
5669181 TTT
1 TTT
5669184 AAAATATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.12
9 9 0.18
10 15 0.29
11 16 0.31
12 5 0.10
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:5669151 original size:28 final size:28
Alignment explanation
Indices: 5669100--5669194 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
5669090 TTTAAAATGC
5669100 TTTTAAAATACTTTTTTTAATTTTTTTAA
1 TTTTAAAATA-TTTTTTTAATTTTTTTAA
*
5669129 TTTTAAAAT-TTTTTTTAA---ATTT--
1 TTTTAAAATATTTTTTTAATTTTTTTAA
* *
5669151 TTTTAAAATACTTTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTTTAA-TTTTTTTAA
5669180 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
5669195 AAAATACTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
22 9 0.17
23 7 0.13
24 3 0.06
27 12 0.22
29 23 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTAAAATATTTTTTTAATTTTTTTAA
Found at i:5669157 original size:22 final size:22
Alignment explanation
Indices: 5669129--5669215 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
5669119 ATTTTTTTAA
**
5669129 TTTTAAAATTTTTTTTAAATTT
1 TTTTAAAATACTTTTTAAATTT
5669151 TTTTAAAATACTTTTTAAATTT
1 TTTTAAAATACTTTTTAAATTT
* * *
5669173 TTTT----TAATTTTAAAATAT
1 TTTTAAAATACTTTTTAAATTT
*
5669191 TTTTAAAATACTTTTTTTAATTT
1 TTTTAAAATAC-TTTTTAAATTT
5669214 TT
1 TT
5669216 ATATTTTCTG
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 15 0.29
22 26 0.51
23 10 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTAAAATACTTTTTAAATTT
Found at i:5669163 original size:51 final size:51
Alignment explanation
Indices: 5669090--5669199 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
5669080 ATTTTTTAAC
** * *
5669090 TTTAAAATGCTTTTAAAATACTTTTTTTAA-TTTTTTTAATTTTAAAATTTT
1 TTTAAAATTTTTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATATT
*
5669141 TTTTAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
1 TTTAAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
5669192 TTTAAAAT
1 TTTAAAAT
5669200 ACTTTTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 7 0.13
51 45 0.87
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (51 bp):
TTTAAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
Found at i:5669165 original size:12 final size:11
Alignment explanation
Indices: 5669129--5669179 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
5669119 ATTTTTTTAA
5669129 TTTTAAAATTT
1 TTTTAAAATTT
*
5669140 TTTTTAAATTT
1 TTTTAAAATTT
*
5669151 TTTTAAAATACT
1 TTTTAAAAT-TT
*
5669163 TTTTAAATTTT
1 TTTTAAAATTT
5669174 TTTTAA
1 TTTTAA
5669180 TTTTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:5669185 original size:17 final size:17
Alignment explanation
Indices: 5669163--5669196 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5669153 TTAAAATACT
* *
5669163 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
5669180 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
5669197 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:5669194 original size:11 final size:11
Alignment explanation
Indices: 5669129--5669206 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
5669119 ATTTTTTTAA
*
5669129 TTTTAAAATTT
1 TTTTAAAATAT
* *
5669140 TTTTTAAATTT
1 TTTTAAAATAT
5669151 TTTTAAAATACT
1 TTTTAAAATA-T
5669163 TTTT-AAAT-T
1 TTTTAAAATAT
* *
5669172 TTTT---TTAA
1 TTTTAAAATAT
5669180 TTTTAAAATAT
1 TTTTAAAATAT
5669191 TTTTAAAATACT
1 TTTTAAAATA-T
5669203 TTTT
1 TTTT
5669207 TTAATTTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 5 0.09
11 34 0.63
12 10 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5675632 original size:19 final size:19
Alignment explanation
Indices: 5675608--5675666 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 19
5675598 AGGTTACTTG
5675608 AATTTGATATATATTTTTT
1 AATTTGATATATATTTTTT
5675627 AATTTGATATTTAAGTATTTTTT
1 AATTTGATA--T-A-TATTTTTT
5675650 -ATTTGATATATACTTTT
1 AATTTGATATATA-TTTT
5675667 CTTGATATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.06
19 14 0.40
20 1 0.03
21 1 0.03
22 9 0.26
23 8 0.23
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
AATTTGATATATATTTTTT
Found at i:5683189 original size:21 final size:21
Alignment explanation
Indices: 5683136--5683190 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
5683126 ACCATTGTTT
* *
5683136 CTAATCTCACCACTAAAGTAT
1 CTAATCTCACCGCTAAAGTAA
* *
5683157 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTAAAGTAA
5683178 CTAATCTCACCGC
1 CTAATCTCACCGC
5683191 CACTGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTAAAGTAA
Found at i:5691373 original size:23 final size:22
Alignment explanation
Indices: 5691342--5691451 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 22
5691332 TTGAAGGGAT
*
5691342 ATTGATTGTGTTTGGAGGGTATA
1 ATTGGTTGTGTTTGGAGGGTA-A
* *
5691365 GTTGGTTGTGTTCGGAGGGTAA
1 ATTGGTTGTGTTTGGAGGGTAA
* * *
5691387 ATTAGTTGTGTTTGGAGGCTATG
1 ATTGGTTGTGTTTGGAGGGTA-A
* ** *
5691410 TTTTTTTGTGCTTGGAGGGTAA
1 ATTGGTTGTGTTTGGAGGGTAA
* *
5691432 ATTGGTTGTATTTGGTGGGT
1 ATTGGTTGTGTTTGGAGGGT
5691452 GATTGATTTA
Statistics
Matches: 66, Mismatches: 20, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
22 32 0.48
23 34 0.52
ACGTcount: A:0.15, C:0.03, G:0.37, T:0.45
Consensus pattern (22 bp):
ATTGGTTGTGTTTGGAGGGTAA
Found at i:5691397 original size:22 final size:23
Alignment explanation
Indices: 5691347--5691451 Score: 88
Period size: 22 Copynumber: 4.7 Consensus size: 23
5691337 GGGATATTGA
* *
5691347 TTGTGTTTGGAGGGTATAGTTGG
1 TTGTGTTTGGAGGGTATAATTAG
*
5691370 TTGTGTTCGGAGGGTA-AATTAG
1 TTGTGTTTGGAGGGTATAATTAG
* ** **
5691392 TTGTGTTTGGAGGCTATGTTTTT
1 TTGTGTTTGGAGGGTATAATTAG
* *
5691415 TTGTGCTTGGAGGGTA-AATTGG
1 TTGTGTTTGGAGGGTATAATTAG
* *
5691437 TTGTATTTGGTGGGT
1 TTGTGTTTGGAGGGT
5691452 GATTGATTTA
Statistics
Matches: 63, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
22 32 0.51
23 31 0.49
ACGTcount: A:0.14, C:0.03, G:0.38, T:0.45
Consensus pattern (23 bp):
TTGTGTTTGGAGGGTATAATTAG
Found at i:5691419 original size:45 final size:45
Alignment explanation
Indices: 5691347--5691446 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
5691337 GGGATATTGA
*
5691347 TTGTGTTTGGAGGGTATAGTTGGTTGTG-TTCGGAGGGTAAATTAG
1 TTGTGTTTGGAGGCTATAGTTGGTTGTGCTT-GGAGGGTAAATTAG
** *
5691392 TTGTGTTTGGAGGCTAT-GTTTTTTTGTGCTTGGAGGGTAAATTGG
1 TTGTGTTTGGAGGCTATAG-TTGGTTGTGCTTGGAGGGTAAATTAG
*
5691437 TTGTATTTGG
1 TTGTGTTTGG
5691447 TGGGTGATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 45 0.94
46 2 0.04
ACGTcount: A:0.15, C:0.03, G:0.37, T:0.45
Consensus pattern (45 bp):
TTGTGTTTGGAGGCTATAGTTGGTTGTGCTTGGAGGGTAAATTAG
Found at i:5694986 original size:27 final size:27
Alignment explanation
Indices: 5694942--5695221 Score: 332
Period size: 27 Copynumber: 10.4 Consensus size: 27
5694932 TGCAATTTGT
* * *
5694942 GGGTAAAATGATCAAAATACCCTTGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
5694969 GGTTAAAATGACCGAAATACGCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
5694996 GGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
5695023 GGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
5695050 GGGTAAAATGATCGAAATA-CCTCCAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*** *
5695076 GGGTAAAATGAATAAAACACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
5695103 TGGTAAAATAACC-AAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
5695129 GGGTAAAATGACTGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
5695156 GAGTAAAATGATCGAAATACCC-CCAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
5695182 TGTGTAAAATGACCGAAATACCCCCAAA
1 -GGGTAAAATGACCGAAATACCCTCGAA
5695210 GGGTAAAATGAC
1 GGGTAAAATGAC
5695222 TGTTATACCC
Statistics
Matches: 217, Mismatches: 32, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 46 0.21
27 168 0.77
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:5695467 original size:25 final size:25
Alignment explanation
Indices: 5695408--5695497 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
5695398 TACTGTTACC
* *
5695408 GGCAGCTTTGCTGCGTTACTGTTACT
1 GGCAGCTTTGCTGCGTTATTATT-CT
* *
5695434 GGCAACTTTGCTGAGTTATTATTCT
1 GGCAGCTTTGCTGCGTTATTATTCT
*
5695459 GGCAGCTTTGTTGCGTTATTATTCT
1 GGCAGCTTTGCTGCGTTATTATTCT
*
5695484 GGTAGCTTTGCTGC
1 GGCAGCTTTGCTGC
5695498 AATATTGGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
25 36 0.65
26 19 0.35
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (25 bp):
GGCAGCTTTGCTGCGTTATTATTCT
Found at i:5701915 original size:20 final size:20
Alignment explanation
Indices: 5701890--5701938 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
5701880 GGTTACCGAA
5701890 TCTTCTCTTCTCTCTTCCCC
1 TCTTCTCTTCTCTCTTCCCC
5701910 TCTTCTCTTCTCTCTTCCCC
1 TCTTCTCTTCTCTCTTCCCC
5701930 TCTTCTCTT
1 TCTTCTCTT
5701939 TTCCGAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (20 bp):
TCTTCTCTTCTCTCTTCCCC
Found at i:5703405 original size:33 final size:33
Alignment explanation
Indices: 5703357--5703446 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 33
5703347 AAACAACATG
* * * *
5703357 CAGTAACAGTTTGGGCCTGAGCCTTATTTAGTGA
1 CAGT-ACAGTGTGGGCCTTAGCCCTATTCAGTGA
5703391 CAGTACAGTGTGGGCCTTAGCCCTATTCAGTGA
1 CAGTACAGTGTGGGCCTTAGCCCTATTCAGTGA
* **
5703424 TAGTGTAGTGTGGGCCTTAGCCC
1 CAGTACAGTGTGGGCCTTAGCCC
5703447 AATACAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 45 0.92
34 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (33 bp):
CAGTACAGTGTGGGCCTTAGCCCTATTCAGTGA
Found at i:5703462 original size:33 final size:33
Alignment explanation
Indices: 5703397--5703464 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
5703387 GTGACAGTAC
* * * * *
5703397 AGTGTGGGCCTTAGCCCTATTCAGTGATAGTGT
1 AGTGTGGGCCTTAGCCCAATACAATAACAGTGT
5703430 AGTGTGGGCCTTAGCCCAATACAATAACAGTGT
1 AGTGTGGGCCTTAGCCCAATACAATAACAGTGT
5703463 AG
1 AG
5703465 GCCTTAGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATACAATAACAGTGT
Found at i:5703470 original size:28 final size:28
Alignment explanation
Indices: 5703430--5703573 Score: 166
Period size: 28 Copynumber: 5.1 Consensus size: 28
5703420 GTGATAGTGT
5703430 AGTGTGGGCCTTAGCCCAATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
* * * * *
5703458 AGTGTAGGCCTTAGCCCAAGATAGTAGC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
*
5703486 AGTGTGGGCCTTAGCCCAATACAGA-ATC
1 AGTGTGGGCCTTAGCCCAATACA-ATAAC
*
5703514 AGTGTGGGCCTTAGGCCAATACAA-AATC
1 AGTGTGGGCCTTAGCCCAATACAATAA-C
* * *
5703542 AATGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
5703570 AGTG
1 AGTG
5703574 CCGTGCAATA
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.02
28 92 0.96
29 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:5704018 original size:27 final size:27
Alignment explanation
Indices: 5703988--5704227 Score: 238
Period size: 27 Copynumber: 8.9 Consensus size: 27
5703978 GAGTATAACA
**
5703988 GTCATTTTGA-CCTATGAGGGTATTTTT
1 GTCATTTT-ACCCTATGAGGGTATTTCG
** *
5704015 GTCATTTTACCCTACAAAGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
5704042 GTCATTTTACCCTATAAAGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
5704069 GTCATTTTACCCTATG-GGGATATTTCG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* * *
5704096 GTTATTTTACCTTATG-GGAGTATTTTG
1 GTCATTTTACCCTATGAGG-GTATTTCG
* **
5704123 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
5704150 GTCATTTTACCCTATG-GGTGTATTCCA
1 GTCATTTTACCCTATGAGG-GTATTTCG
* *
5704177 ATCATTTTACCCTAT-AGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
5704203 GTTATTTTACCCTATGGGGGTATTT
1 GTCATTTTACCCTATGAGGGTATTT
5704228 TTGTAACAGC
Statistics
Matches: 185, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.14
27 157 0.85
28 3 0.02
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:5707778 original size:27 final size:27
Alignment explanation
Indices: 5707740--5707799 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
5707730 GGGTGTTACA
* * *
5707740 ATTTCAGTCATTTTACCCTATGGTGGT
1 ATTTCAATCATTTTACCCTATAGCGGT
5707767 ATTTCAATCATTTTACCCTATAGCGGT
1 ATTTCAATCATTTTACCCTATAGCGGT
5707794 ATTTCA
1 ATTTCA
5707800 GTCTCTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (27 bp):
ATTTCAATCATTTTACCCTATAGCGGT
Found at i:5708143 original size:18 final size:17
Alignment explanation
Indices: 5708094--5708145 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
5708084 CATCCGTGTG
5708094 GGGCCCACAAGCCCATT
1 GGGCCCACAAGCCCATT
5708111 GGGCCCACAAGCCCATT
1 GGGCCCACAAGCCCATT
*
5708128 GGGCTCACAGAGCCCATT
1 GGGCCCACA-AGCCCATT
5708146 TCGGCCCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 25 0.76
18 8 0.24
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.13
Consensus pattern (17 bp):
GGGCCCACAAGCCCATT
Found at i:5714787 original size:23 final size:23
Alignment explanation
Indices: 5714757--5714802 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5714747 CAAGCAAAAC
5714757 AATCATATTTATGATATTCATAT
1 AATCATATTTATGATATTCATAT
5714780 AATCATATTTATGATATTCATAT
1 AATCATATTTATGATATTCATAT
5714803 GTTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (23 bp):
AATCATATTTATGATATTCATAT
Found at i:5718134 original size:27 final size:27
Alignment explanation
Indices: 5718093--5718207 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
5718083 TCAATATTTA
** *
5718093 TAAAATGACTATAATACCCGTGTAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
*
5718120 TAAAATGACCGTAATGCCCTTGTAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
*
5718147 TAAAATGACCGTAATACCCTTATAGGG
1 TAAAATGACCGTAATACCCTTGTAGGG
* * *
5718174 TAAAATAACCGTAATGCCCTAGT-GGG
1 TAAAATGACCGTAATACCCTTGTAGGG
5718200 T-AAATGAC
1 TAAAATGAC
5718208 TATTTTTGCC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 67 0.87
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCTTGTAGGG
Found at i:5718162 original size:54 final size:53
Alignment explanation
Indices: 5718093--5718207 Score: 160
Period size: 54 Copynumber: 2.2 Consensus size: 53
5718083 TCAATATTTA
* * * *
5718093 TAAAATGACTATAATACCCGTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGG
1 TAAAATGACCATAATACCCGTATAGGGTAAAATAACCGTAATGCCCTAGT-GGG
* *
5718147 TAAAATGACCGTAATACCCTTATAGGGTAAAATAACCGTAATGCCCTAGTGGG
1 TAAAATGACCATAATACCCGTATAGGGTAAAATAACCGTAATGCCCTAGTGGG
5718200 T-AAATGAC
1 TAAAATGAC
5718208 TATTTTTGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 7 0.13
53 4 0.07
54 44 0.80
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (53 bp):
TAAAATGACCATAATACCCGTATAGGGTAAAATAACCGTAATGCCCTAGTGGG
Found at i:5718304 original size:24 final size:23
Alignment explanation
Indices: 5718238--5718307 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
5718228 AAATGATTAT
* *
5718238 TTTGTCTATGGTTAAATGACTGA
1 TTTGTCTGTGTTTAAATGACTGA
**
5718261 TTTGTCTGTGTTTGGTATGACTGA
1 TTTGTCTGTGTTT-AAATGACTGA
*
5718285 TTTGTTTGTGATTTAAATGACTG
1 TTTGTCTGTG-TTTAAATGACTG
5718308 GTTCTGACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 11 0.29
24 24 0.63
25 3 0.08
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (23 bp):
TTTGTCTGTGTTTAAATGACTGA
Found at i:5718517 original size:26 final size:26
Alignment explanation
Indices: 5718435--5718506 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
5718425 TATACTATTA
*
5718435 CTGGCAGTTTTGCTGCGATATTTATG
1 CTGGCAGCTTTGCTGCGATATTTATG
5718461 CTGGCAGCTTTGCTGCGATATTTATG
1 CTGGCAGCTTTGCTGCGATATTTATG
*
5718487 CTGGCAGCTTTGCTACGATA
1 CTGGCAGCTTTGCTGCGATA
5718507 CTACTGATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (26 bp):
CTGGCAGCTTTGCTGCGATATTTATG
Found at i:5718552 original size:32 final size:32
Alignment explanation
Indices: 5718508--5718754 Score: 194
Period size: 32 Copynumber: 7.7 Consensus size: 32
5718498 GCTACGATAC
* *
5718508 TACTGATGGCTTTGTGTCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * *
5718540 TATTGATGGCTTTGTGCCGATCACAGTATCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * *
5718572 TATTGATGGCTTTGTGCCAATCATATTATCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * * * *
5718604 TACCGATGGCTGTGTGTCGGTCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * ** * *
5718636 TACTGATGGCTATGTGCCAATCATAACACTGC
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
5718668 TACTGATGGCTTTGTGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACCGT
* * * ***
5718700 TATTGATGGCTGTGTGCTGATCATA-TCACTAA
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
*
5718732 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
5718755 CATTACTGTA
Statistics
Matches: 170, Mismatches: 40, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
31 3 0.02
32 167 0.98
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:5718676 original size:96 final size:96
Alignment explanation
Indices: 5718575--5718754 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 96
5718565 GTATCGTTAT
* * * **
5718575 TGATGGCTTTGTGCCAATCATATTATCGTTACCGATGGCTGTGTG-TCGGTCATTTCACTGTTAC
1 TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCT-GATCATATCACTAATAC
5718639 TGATGGCTATGTGCCAATCATAACACTGCTAC
65 TGATGGCTATGTGCCAATCATAACACTGCTAC
* * **
5718671 TGATGGCTTTGTGCCGATCATGTTACCGTTATTGATGGCTGTGTGCTGATCATATCACTAATACT
1 TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCTGATCATATCACTAATACT
*
5718736 GATGGCTTTGTGCCAATCA
66 GATGGCTATGTGCCAATCA
5718755 CATTACTGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (96 bp):
TGATGGCTTTGTGCCAATCATATTACCGTTACCGATGGCTGTGTGCTGATCATATCACTAATACT
GATGGCTATGTGCCAATCATAACACTGCTAC
Found at i:5718947 original size:22 final size:21
Alignment explanation
Indices: 5718919--5718961 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5718909 TGTCCCCACA
*
5718919 TGGTGTGTTGGGTTGGTTTGGG
1 TGGTGTGTT-GGTTGGATTGGG
5718941 TGGTGTGTTGGTTGGATTGGG
1 TGGTGTGTTGGTTGGATTGGG
5718962 ATGGGTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.02, C:0.00, G:0.53, T:0.44
Consensus pattern (21 bp):
TGGTGTGTTGGTTGGATTGGG
Found at i:5735449 original size:25 final size:25
Alignment explanation
Indices: 5735421--5735505 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
5735411 TGTCATTAGG
5735421 GCTTACCGATTCTTAGCTCATATGA
1 GCTTACCGATTCTTAGCTCATATGA
* *
5735446 GCTTAACGATTGC--AGCTCGTGA-GA
1 GCTTACCGATT-CTTAGCTCAT-ATGA
* *
5735470 GCTTACTGATTCTTAGCT-AGAATGA
1 GCTTACCGATTCTTAGCTCA-TATGA
5735495 GCTTACCGATT
1 GCTTACCGATT
5735506 TACCGCTCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
23 1 0.02
24 18 0.38
25 27 0.57
26 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
GCTTACCGATTCTTAGCTCATATGA
Found at i:5743014 original size:25 final size:25
Alignment explanation
Indices: 5742986--5743036 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5742976 TATGAACTAT
*
5742986 CCGATTTACAACTCATGAGAGCATA
1 CCGATTCACAACTCATGAGAGCATA
* * *
5743011 CCGATTCACAGCTCGTGTGAGCATA
1 CCGATTCACAACTCATGAGAGCATA
5743036 C
1 C
5743037 ATGCATAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (25 bp):
CCGATTCACAACTCATGAGAGCATA
Found at i:5743221 original size:25 final size:25
Alignment explanation
Indices: 5743174--5743224 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
5743164 TTACAGGTCT
5743174 TTACATGAAATACATGAAAATGAAA
1 TTACATGAAATACATGAAAATGAAA
* *
5743199 TTACATGATATA-TTGAAACATGAAA
1 TTACATGAAATACATGAAA-ATGAAA
5743224 T
1 T
5743225 GGATGATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (25 bp):
TTACATGAAATACATGAAAATGAAA
Found at i:5746329 original size:23 final size:23
Alignment explanation
Indices: 5746294--5746339 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5746284 ATATAAGAGG
*
5746294 TAATTCCAACAAAATTAGAAACT
1 TAATACCAACAAAATTAGAAACT
* *
5746317 TAATACCATCAAAATTAGCAACT
1 TAATACCAACAAAATTAGAAACT
5746340 ATATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (23 bp):
TAATACCAACAAAATTAGAAACT
Found at i:5768078 original size:54 final size:54
Alignment explanation
Indices: 5768007--5768137 Score: 169
Period size: 54 Copynumber: 2.4 Consensus size: 54
5767997 TAAGATGACC
*
5768007 GAAATACCCCTGGAGGGTAAAATGACCGAAATACGCC-CAAAAGGTAAAATGG-CG
1 GAAATACCCCTGAAGGGTAAAATGACCGAAATAC-CCTCAAAAGGTAAAA-GGACG
* * *
5768061 GAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAAGGACT
1 GAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCAAAAGGTAAAAGGACG
*
5768115 GAAATACCCC-CATAGGGTAAAAT
1 GAAATACCCCTGA-AGGGTAAAAT
5768138 AACTGTTATA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 5 0.07
54 63 0.93
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (54 bp):
GAAATACCCCTGAAGGGTAAAATGACCGAAATACCCTCAAAAGGTAAAAGGACG
Found at i:5768142 original size:27 final size:27
Alignment explanation
Indices: 5767994--5768137 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
5767984 TGCGATTTGT
* ***
5767994 GGGTAAGATGACCGAAATACCCCTGGA
1 GGGTAAAATGACCGAAATACCCCCAAA
*
5768021 GGGTAAAATGACCGAAATACGCCCAAA
1 GGGTAAAATGACCGAAATACCCCCAAA
* * * ***
5768048 AGGTAAAATGGCGGAAATACCCTTGAA
1 GGGTAAAATGACCGAAATACCCCCAAA
*
5768075 GGGTAAAATGACCGAAATACCCTCAAA
1 GGGTAAAATGACCGAAATACCCCCAAA
* * *
5768102 GGGTAAAAGGACTGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCAAA
5768129 GGGTAAAAT
1 GGGTAAAAT
5768138 AACTGTTATA
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.15
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCCAAA
Found at i:5768148 original size:27 final size:27
Alignment explanation
Indices: 5768020--5768151 Score: 81
Period size: 27 Copynumber: 4.9 Consensus size: 27
5768010 ATACCCCTGG
* *
5768020 AGGGTAAAATG-ACCGAAATACGCCCAA
1 AGGGTAAAA-GAACTGAAATACCCCCAA
* * * ***
5768047 AAGGTAAAATG-GCGGAAATACCCTTGA
1 AGGGTAAAA-GAACTGAAATACCCCCAA
* *
5768074 AGGGTAAAATG-ACCGAAATACCCTCAA
1 AGGGTAAAA-GAACTGAAATACCCCCAA
* *
5768101 AGGGTAAAAGGACTGAAATACCCCCAT
1 AGGGTAAAAGAACTGAAATACCCCCAA
* **
5768128 AGGGTAAAATAACTGTTATACCCC
1 AGGGTAAAAGAACTGAAATACCCC
5768152 TAAGAGATGA
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.01
27 84 0.99
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (27 bp):
AGGGTAAAAGAACTGAAATACCCCCAA
Found at i:5768385 original size:26 final size:26
Alignment explanation
Indices: 5768321--5768386 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
5768311 GTACTAGTGG
* * *
5768321 CTTTGCCACATATACTATTACTGGTAG
1 CTTTGCTACA-ATACTATTACTGGCAA
* * *
5768348 CTTCGCTGCAATTCTATTACTGGCAA
1 CTTTGCTACAATACTATTACTGGCAA
5768374 CTTTGCTACAATA
1 CTTTGCTACAATA
5768387 TTGGTGTGTT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (26 bp):
CTTTGCTACAATACTATTACTGGCAA
Found at i:5768546 original size:28 final size:28
Alignment explanation
Indices: 5768493--5768547 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5768483 ATTGTACTGG
* *
5768493 TTACTATACTGGGCTAAGGTCGACACTA
1 TTACTATACTGGGCTAAGGCCCACACTA
* *
5768521 TTACTGTATTGGGCTAAGGCCCACACT
1 TTACTATACTGGGCTAAGGCCCACACT
5768548 GTACTTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (28 bp):
TTACTATACTGGGCTAAGGCCCACACTA
Found at i:5770512 original size:62 final size:62
Alignment explanation
Indices: 5770443--5770611 Score: 207
Period size: 62 Copynumber: 2.7 Consensus size: 62
5770433 TCCAAAGCAT
** * *
5770443 AAACAGTGAGTTACACGGCCTGGGCACATGCCCGTGTCCCTT-CCTA-TGTGGTCTTGTACCAC
1 AAACAGTGAGTTACACGGCCCAGACACATGCCCGTGT-CCTTGCC-AGTATGGTCTTGTACCAC
* * * *
5770505 AAACAGTGAGTTACATGGCCCAGACACATGCCTGTGTCCTTGGCAGTATGGTTTTGTACCAC
1 AAACAGTGAGTTACACGGCCCAGACACATGCCCGTGTCCTTGCCAGTATGGTCTTGTACCAC
* *
5770567 AAACAGTGAGTTACACAGCCCAGACACACGCCCGTGTGCCTTGCC
1 AAACAGTGAGTTACACGGCCCAGACACATGCCCGTGT-CCTTGCC
5770612 CGTGAGGCCC
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
61 5 0.05
62 80 0.88
63 6 0.07
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (62 bp):
AAACAGTGAGTTACACGGCCCAGACACATGCCCGTGTCCTTGCCAGTATGGTCTTGTACCAC
Found at i:5779719 original size:1 final size:1
Alignment explanation
Indices: 5779715--5779739 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5779705 GACCACACAT
5779715 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
5779740 TTAAAGTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5781608 original size:16 final size:15
Alignment explanation
Indices: 5781589--5781621 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
5781579 ATTTTTTTAC
5781589 AAACTTATTTAGTATA
1 AAACTTATTTAG-ATA
5781605 AAACTTATTTAGATA
1 AAACTTATTTAGATA
5781620 AA
1 AA
5781622 TTTAAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AAACTTATTTAGATA
Found at i:5783392 original size:50 final size:51
Alignment explanation
Indices: 5783314--5783504 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 51
5783304 NNNNNNNNNN
* * **
5783314 CCAATGCCATATCCCAGATATGGTCTTACATGGG-AGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACCTCTCATATCGGTG
* * * *
5783364 CCCATGCCATGTCTCAGACATGGTCTTAC-GGGGAACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACCTCTCATATCGGTG
* * *
5783414 CCAACGCCATGTCCCAGACATGGTCTTACATGAG-ACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACCTCTCAT-A--TC---GGTG
* *
5783470 CCAATGCCATCTCCCAGACATTGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
5783505 TCTCATTCCC
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
49 3 0.03
50 73 0.65
51 2 0.02
53 2 0.02
56 33 0.29
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (51 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACCTCTCATATCGGTG
Found at i:5789178 original size:22 final size:20
Alignment explanation
Indices: 5789147--5789188 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5789137 CTAGCAGTTG
5789147 TAAATCAAAACAATAAAAACCC
1 TAAATC-AAA-AATAAAAACCC
*
5789169 TAAATTAAAAATAAAAACCC
1 TAAATCAAAAATAAAAACCC
5789189 AAAGAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAATCAAAAATAAAAACCC
Found at i:5791487 original size:16 final size:16
Alignment explanation
Indices: 5791466--5791498 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5791456 TTCCAAAGTC
5791466 AGGGCTTGAACTCAAG
1 AGGGCTTGAACTCAAG
5791482 AGGGCTTGAACTCAAG
1 AGGGCTTGAACTCAAG
5791498 A
1 A
5791499 CCTTCCAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (16 bp):
AGGGCTTGAACTCAAG
Found at i:5797043 original size:17 final size:17
Alignment explanation
Indices: 5797021--5797053 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5797011 CCCAGTCTCG
5797021 ATTAGGCAAGTATCCAA
1 ATTAGGCAAGTATCCAA
*
5797038 ATTAGGCAAGTTTCCA
1 ATTAGGCAAGTATCCA
5797054 GAAAATAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (17 bp):
ATTAGGCAAGTATCCAA
Found at i:5801326 original size:14 final size:14
Alignment explanation
Indices: 5801307--5801339 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5801297 GGAATGTGTT
5801307 TGTGTGTGT-AGGTG
1 TGTGTGTGTGA-GTG
5801321 TGTGTGTGTGAGTG
1 TGTGTGTGTGAGTG
5801335 TGTGT
1 TGTGT
5801340 TTTGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.06, C:0.00, G:0.48, T:0.45
Consensus pattern (14 bp):
TGTGTGTGTGAGTG
Found at i:5822736 original size:10 final size:8
Alignment explanation
Indices: 5822710--5822743 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
5822700 TGTAATTAGG
5822710 TTAAATAA
1 TTAAATAA
5822718 TTAAATAA
1 TTAAATAA
5822726 TTAGGAATAA
1 TTA--AATAA
5822736 TTAAATAA
1 TTAAATAA
5822744 AATATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (8 bp):
TTAAATAA
Found at i:5830732 original size:50 final size:51
Alignment explanation
Indices: 5830620--5830852 Score: 263
Period size: 50 Copynumber: 4.6 Consensus size: 51
5830610 ATGCCAAATT
* * * ** * *
5830620 CATGTCCCAGACATGGTCTTACATGAGATTTTCTCATATCGGTGCCCATGC
1 CATGTCCCACACATGCTCTTACATGGGACCTTCTCATATCGGTGCCAACGC
* * * *
5830671 CATGTCTCACACATGCTCTTACAGGGGACCTT-TCATCTCGGTGCCAACAC
1 CATGTCCCACACATGCTCTTACATGGGACCTTCTCATATCGGTGCCAACGC
* ** *
5830721 CATGTCCCACACAAGCTCTTACATGGGATGTTCTCATATCGGTGCCCACGC
1 CATGTCCCACACATGCTCTTACATGGGACCTTCTCATATCGGTGCCAACGC
** * *
5830772 CATGTCCCACACATGCTCTTACGGGGGACC-TCTCATCTCGGTGCCAATGC
1 CATGTCCCACACATGCTCTTACATGGGACCTTCTCATATCGGTGCCAACGC
* *
5830822 CATGTCCCAGACATGGTCTTACATGGGACCT
1 CATGTCCCACACATGCTCTTACATGGGACCT
5830853 CTTTACCCAA
Statistics
Matches: 149, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 84 0.56
51 65 0.44
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (51 bp):
CATGTCCCACACATGCTCTTACATGGGACCTTCTCATATCGGTGCCAACGC
Found at i:5830786 original size:101 final size:101
Alignment explanation
Indices: 5830620--5830849 Score: 361
Period size: 101 Copynumber: 2.3 Consensus size: 101
5830610 ATGCCAAATT
* * * *
5830620 CATGTCCCAGACATGGTCTTACATGAGATTTTCTCATATCGGTGCCCATGCCATGTCTCACACAT
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGTCCCACACAT
*
5830685 GCTCTTACAGGGGACCTTTCATCTCGGTGCCAACAC
66 GCTCTTACAGGGGACCTCTCATCTCGGTGCCAACAC
* * *
5830721 CATGTCCCACACAAGCTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGTCCCACACAT
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGTCCCACACAT
* **
5830786 GCTCTTACGGGGGACCTCTCATCTCGGTGCCAATGC
66 GCTCTTACAGGGGACCTCTCATCTCGGTGCCAACAC
5830822 CATGTCCCAGACATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACATGGGA
5830850 CCTCTTTACC
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 115 1.00
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (101 bp):
CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCACGCCATGTCCCACACAT
GCTCTTACAGGGGACCTCTCATCTCGGTGCCAACAC
Found at i:5832326 original size:26 final size:26
Alignment explanation
Indices: 5832271--5832326 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
5832261 TTACCCACCA
* * *
5832271 TAAAATTTTTATGATTTTACCCTTGC
1 TAAAATTTTGACGATTTTACCCCTGC
*
5832297 TAAAATTTTGACGAATTTT-CCCCTGG
1 TAAAATTTTGACG-ATTTTACCCCTGC
5832323 TAAA
1 TAAA
5832327 TTTCAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGACGATTTTACCCCTGC
Found at i:5835522 original size:29 final size:29
Alignment explanation
Indices: 5835487--5835564 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 29
5835477 ATATGTGTGT
*
5835487 TATATATATAATATATACGAGTGG-GGTTG
1 TATATATATAATATATACGAG-GGTGGTTA
5835516 TATATATATACATAGATATACGAGGGTGGTTA
1 TATATATATA-AT--ATATACGAGGGTGGTTA
* *
5835548 TACATATATTATATATA
1 TATATATATAATATATA
5835565 TGCATGACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 15 0.36
30 2 0.05
31 4 0.10
32 21 0.50
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (29 bp):
TATATATATAATATATACGAGGGTGGTTA
Found at i:5837386 original size:16 final size:16
Alignment explanation
Indices: 5837365--5837406 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5837355 ATTAGAATCT
5837365 TTACTCGCTTCTTTAC
1 TTACTCGCTTCTTTAC
* *
5837381 TTACTCACTTGTTTAC
1 TTACTCGCTTCTTTAC
*
5837397 TTACTTGCTT
1 TTACTCGCTT
5837407 ACTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.07, T:0.52
Consensus pattern (16 bp):
TTACTCGCTTCTTTAC
Found at i:5842778 original size:28 final size:28
Alignment explanation
Indices: 5842739--5842917 Score: 222
Period size: 28 Copynumber: 6.4 Consensus size: 28
5842729 CTATTAAGTG
5842739 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
5842766 ACAGTAACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
5842794 ATAGTAATAGTTTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
5842822 ACA-AAATCAGTGTGGGCGTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
5842850 ACAG-AATCATTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
**
5842878 ACAG-AATCAGTGTGTACCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
5842906 ACAGTAACAGTG
1 ACAGTAACAGTG
5842918 CAGTGCAATA
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
27 7 0.05
28 124 0.93
29 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:5843075 original size:26 final size:27
Alignment explanation
Indices: 5843016--5843093 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 27
5843006 GCCAACACAC
*
5843016 CAATATCGCAGCAAAGCTTCCAGTAAT
1 CAATATCGCAGCAAAGCTGCCAGTAAT
** *
5843043 -AGCATCGCAGCAGAGCTGCCAGT-AT
1 CAATATCGCAGCAAAGCTGCCAGTAAT
** *
5843068 CAATATCGCAATAAAGCTACCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
5843094 CAGTATATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
25 2 0.05
26 36 0.92
27 1 0.03
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (27 bp):
CAATATCGCAGCAAAGCTGCCAGTAAT
Found at i:5843364 original size:27 final size:27
Alignment explanation
Indices: 5843307--5843555 Score: 290
Period size: 27 Copynumber: 9.3 Consensus size: 27
5843297 GCCATAACAG
5843307 TCATTTTACCCTAT-GGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
5843333 TCATTTTACCCTATAGGGGTATTTCAGA
1 TCATTTTACCCTATAGGGGTATTTC-GA
* *
5843361 -CATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
5843387 TTATTTTACCCTAT-GAGGGTATTTCGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * *
5843414 TCATTTTACCGTATAAGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
5843441 TCATTTTACCTTAAAAGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * * *
5843468 TAATTTTACCCTTTGGGGGTATTTCAA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
5843495 TCATTTTACCTTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
5843522 TCATTTTACCCTAT-GGTGGTCTTTCAA
1 TCATTTTACCCTATAGG-GGTATTTCGA
5843549 TCATTTT
1 TCATTTT
5843556 CATCTATTAA
Statistics
Matches: 193, Mismatches: 24, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
26 18 0.09
27 173 0.90
28 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:5846134 original size:49 final size:50
Alignment explanation
Indices: 5846077--5846195 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 50
5846067 AAGACTTACT
* * * ** *
5846077 GATTCTCAACTCGTATGAGTTTATCGATTT-CAACTCATGAGAGCTTATC
1 GATTCTCAACTCGTATGAGCTTACCAATTTACAACTCATGAGAGCAAACC
*
5846126 GATTCTCAACTCGTACGAGCTTACCAATTTACAACTCATGAGAGCAAACC
1 GATTCTCAACTCGTATGAGCTTACCAATTTACAACTCATGAGAGCAAACC
* *
5846176 GATTCACAGCTCGTATGAGC
1 GATTCTCAACTCGTATGAGC
5846196 ATACATGTAC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 26 0.44
50 33 0.56
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (50 bp):
GATTCTCAACTCGTATGAGCTTACCAATTTACAACTCATGAGAGCAAACC
Found at i:5846145 original size:25 final size:24
Alignment explanation
Indices: 5846077--5846148 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 24
5846067 AAGACTTACT
*
5846077 GATTCTCAACTCGTATGAGTTTATC
1 GATTCTCAACTCGTA-GAGCTTATC
*
5846102 GATT-TCAACTCATGAGAGCTTATC
1 GATTCTCAACTCGT-AGAGCTTATC
5846126 GATTCTCAACTCGTACGAGCTTA
1 GATTCTCAACTCGTA-GAGCTTA
5846149 CCAATTTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (24 bp):
GATTCTCAACTCGTAGAGCTTATC
Found at i:5846170 original size:25 final size:24
Alignment explanation
Indices: 5846103--5846170 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
5846093 GAGTTTATCG
* *
5846103 ATTTCAACTCATGAGAGCTTATCG
1 ATTTCAACTCATGAGAGCTTACCA
*
5846127 ATTCTCAACTCGT-ACGAGCTTACCA
1 ATT-TCAACTCATGA-GAGCTTACCA
5846152 ATTTACAACTCATGAGAGC
1 ATTT-CAACTCATGAGAGC
5846171 AAACCGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
24 5 0.14
25 30 0.83
26 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (24 bp):
ATTTCAACTCATGAGAGCTTACCA
Found at i:5847388 original size:12 final size:12
Alignment explanation
Indices: 5847371--5847400 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5847361 TCAGGCAGTT
5847371 ACACGGCCTAGC
1 ACACGGCCTAGC
*
5847383 ACACGGTCTAGC
1 ACACGGCCTAGC
5847395 ACACGG
1 ACACGG
5847401 GCGTCTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:5847823 original size:16 final size:16
Alignment explanation
Indices: 5847802--5847852 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
5847792 TTGGTTCACT
*
5847802 GTATTGGAATAGAAGC
1 GTATTGGAATAGAGGC
*
5847818 GTATTGGAATAGAGGT
1 GTATTGGAATAGAGGC
*
5847834 GTAATGGAATAGAGGC
1 GTATTGGAATAGAGGC
5847850 GTA
1 GTA
5847853 ATAGCAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.25
Consensus pattern (16 bp):
GTATTGGAATAGAGGC
Found at i:5847929 original size:44 final size:45
Alignment explanation
Indices: 5847836--5847930 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
5847826 ATAGAGGTGT
*
5847836 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
5847881 AATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
5847925 AATGGA
1 AATGGA
5847931 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:5848107 original size:18 final size:17
Alignment explanation
Indices: 5848086--5848120 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5848076 TTATTATTAA
*
5848086 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5848104 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5848121 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5853230 original size:23 final size:23
Alignment explanation
Indices: 5853199--5853244 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5853189 ATATAAGAGG
*
5853199 TAATTCCATCAAAATTAGAAACT
1 TAATACCATCAAAATTAGAAACT
* *
5853222 TAATACCATCAACATTAGCAACT
1 TAATACCATCAAAATTAGAAACT
5853245 ATATATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (23 bp):
TAATACCATCAAAATTAGAAACT
Found at i:5855076 original size:185 final size:186
Alignment explanation
Indices: 5854753--5855123 Score: 735
Period size: 185 Copynumber: 2.0 Consensus size: 186
5854743 GGGTTTGTTA
5854753 AATAGGCACCAAATTTTTAAAAATTTAGCCACTACTCATTTAACCACCCCCATTTTCTCCCTTTT
1 AATAGGCACCAAATTTTTAAAAATTTAGCCACTACTCATTTAACCACCCCCATTTTCTCCCTTTT
5854818 CCAAATTGTTTTTTATTGTTCAATTAAAGCCAATTTCAAAATTATTTTCAAATCTAATCTCGTTT
66 CCAAATTGTTTTTTATTGTTCAATTAAAGCCAATTTCAAAATTATTTTCAAATCTAATCTCGTTT
5854883 TTAAAATCCATTTTTACCAAATTAATTCTCGAACACTCAATTTTAATTTATTAACC
131 TTAAAATCCATTTTTACCAAATTAATTCTCGAACACTCAATTTTAATTTATTAACC
5854939 AATAGGCACC-AATTTTTAAAAATTTAGCCACTACTCATTTAACCACCCCCATTTTCTCCCTTTT
1 AATAGGCACCAAATTTTTAAAAATTTAGCCACTACTCATTTAACCACCCCCATTTTCTCCCTTTT
5855003 CCAAATTGTTTTTTATTGTTCAATTAAAGCCAATTTCAAAATTATTTTCAAATCTAATCTCGTTT
66 CCAAATTGTTTTTTATTGTTCAATTAAAGCCAATTTCAAAATTATTTTCAAATCTAATCTCGTTT
5855068 TTAAAATCCATTTTTACCAAATTAATTCTCGAACACTCAATTTTAATTTATTAACC
131 TTAAAATCCATTTTTACCAAATTAATTCTCGAACACTCAATTTTAATTTATTAACC
5855124 TAAAATTATT
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 175 0.95
186 10 0.05
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (186 bp):
AATAGGCACCAAATTTTTAAAAATTTAGCCACTACTCATTTAACCACCCCCATTTTCTCCCTTTT
CCAAATTGTTTTTTATTGTTCAATTAAAGCCAATTTCAAAATTATTTTCAAATCTAATCTCGTTT
TTAAAATCCATTTTTACCAAATTAATTCTCGAACACTCAATTTTAATTTATTAACC
Found at i:5856018 original size:14 final size:16
Alignment explanation
Indices: 5855987--5856019 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5855977 TTTTACAAAC
5855987 TTATTTAGTATGAAAT
1 TTATTTAGTATGAAAT
5856003 TTATTTAG-AT-AAAT
1 TTATTTAGTATGAAAT
5856017 TTA
1 TTA
5856020 AAATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATTTAGTATGAAAT
Found at i:5860836 original size:21 final size:21
Alignment explanation
Indices: 5860773--5860839 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
5860763 CACACAACCA
* *
5860773 TGTGGCTGAAAGACACGCCCG
1 TGTGGCTGAGAGACATGCCCG
** *
5860794 TGTAACTGAG-G-CATGTAACCG
1 TGTGGCTGAGAGACATG--CCCG
5860815 TGTGGCTGAGAGACATGCCCG
1 TGTGGCTGAGAGACATGCCCG
5860836 TGTG
1 TGTG
5860840 CAACTGACAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 25 0.74
22 1 0.03
23 4 0.12
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.21
Consensus pattern (21 bp):
TGTGGCTGAGAGACATGCCCG
Found at i:5874716 original size:28 final size:28
Alignment explanation
Indices: 5874677--5874773 Score: 113
Period size: 28 Copynumber: 3.5 Consensus size: 28
5874667 TAATGAGATT
*
5874677 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATGGTAA
* *
5874705 AGCATTACGTGTGCGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATGGTAA
* * * ** *
5874733 ATCACTAAGTGTGCAAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATGGTAA
5874761 AGCACTAAGTGTG
1 AGCACTAAGTGTG
5874774 GAACTTATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATGGTAA
Found at i:5879477 original size:42 final size:42
Alignment explanation
Indices: 5879418--5879502 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
5879408 AACTAGGGGA
5879418 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
*
5879460 AATTGTTATACCCCCACGCTTAGATACCTTCCATGCATGAAC
1 AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
5879502 A
1 A
5879503 TCCTACACCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (42 bp):
AATTGTTATACCCCCACGCTTAGATACCTCCCATGCATGAAC
Found at i:5879725 original size:13 final size:13
Alignment explanation
Indices: 5879707--5879731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5879697 TAATTTATGT
5879707 GTGTGAAAATTTC
1 GTGTGAAAATTTC
5879720 GTGTGAAAATTT
1 GTGTGAAAATTT
5879732 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:5880876 original size:44 final size:43
Alignment explanation
Indices: 5880808--5880973 Score: 144
Period size: 44 Copynumber: 3.9 Consensus size: 43
5880798 TTCCGATATG
* ** *
5880808 TGATTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATT
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
*
5880850 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
* * * *
5880895 TGA-TTACGTGTAAGACC-CTGTTTTGGG-CAGTGGCGTCGTTATT
1 TGATTTACGTGTAAGACCAC-G-TCTGGGACATTGGCATCG-TATA
** *
5880938 TGA-TTACACGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCAT
5880974 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
42 30 0.30
43 32 0.32
44 35 0.35
45 3 0.03
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCGTATA
Found at i:5889669 original size:2 final size:2
Alignment explanation
Indices: 5889662--5889690 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5889652 ATAACAACTC
5889662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5889691 CTTAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5892830 original size:11 final size:11
Alignment explanation
Indices: 5892816--5892852 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
5892806 TTATTTGTCC
5892816 ATATTTATTAT
1 ATATTTATTAT
5892827 ATATTTATTAT
1 ATATTTATTAT
*
5892838 -TAGTT-TTAT
1 ATATTTATTAT
5892847 ATATTT
1 ATATTT
5892853 TACTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.17
10 8 0.35
11 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
ATATTTATTAT
Found at i:5893188 original size:34 final size:35
Alignment explanation
Indices: 5893144--5893210 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
5893134 CAGTAAAATG
* *
5893144 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAACGATTTACTAGAAAATATTTTAC
*
5893178 TTTTCTGTAAAACGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAACGATTTACTAGAAAATATTTT
5893211 CTATTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAACGATTTACTAGAAAATATTTTAC
Found at i:5893948 original size:3 final size:3
Alignment explanation
Indices: 5893940--5893979 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5893930 TTAATTTGAA
5893940 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5893980 CAAAACCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5895744 original size:35 final size:35
Alignment explanation
Indices: 5895681--5895749 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
5895671 GTGAAAAAGG
*
5895681 ATAAAATACAAAAATATGTATATGTGTATATATTT
1 ATAAAATACAAAAATATGTATATATGTATATATTT
*
5895716 ATAAAATA-AAAAA-ATGTATAAGTATGTATGTATT
1 ATAAAATACAAAAATATGTAT-A-TATGTATATATT
5895750 GGAAAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 6 0.20
35 18 0.60
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (35 bp):
ATAAAATACAAAAATATGTATATATGTATATATTT
Found at i:5895921 original size:2 final size:2
Alignment explanation
Indices: 5895904--5895937 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5895894 TTATACGACG
* *
5895904 TA TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5895938 AAGTATAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5896816 original size:41 final size:40
Alignment explanation
Indices: 5896725--5896816 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 40
5896715 TAATAGTAAA
* * *
5896725 ATATAAAAGATATATATATATATATATATGTATTTAAATCC
1 ATATAAAA-ATATATATATACATATATATATATGTAAATCC
* *
5896766 ATTTAAAAAATATATATATACATATATATATAATGTATAA-GC
1 ATAT-AAAAATATATATATACATATATATAT-ATGTA-AATCC
5896808 ATATAAAAA
1 ATATAAAAA
5896817 AAATTGTAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
41 28 0.67
42 12 0.29
43 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
ATATAAAAATATATATATACATATATATATATGTAAATCC
Found at i:5898188 original size:43 final size:43
Alignment explanation
Indices: 5898141--5898459 Score: 189
Period size: 43 Copynumber: 7.6 Consensus size: 43
5898131 TTTTAATCCA
* *
5898141 CTCCATTGCAACTTCAGGGAGATAGAATTGATTCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAGAATTGATTCGTCAGTCTG
* * *
5898184 CTCCACTGCAACTTCAGGGAGATAAGACTTGA--GGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGAT-AGAATTGATTCGTCAGTCTG
* * * * * *
5898225 CT-CTCTGCAACCTCAGAGAGATA-AGATCCG-TAT-GTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAGA-AT-TGAT-TCGTCAGTCTG
* * * * *
5898267 CTCCACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAGAATTGATTCGTCAGTCTG
* * *
5898310 CTCCACTGCAACTTCAGGGAGATAAGACTTGA--GGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGAT-AGAATTGATTCGTCAGTCTG
* * * * * *
5898351 CT-CTCTGCAACCTCAGAGAGATA-AGATCCG-TAT-GTCAATCCG
1 CTCCACTGCAACTTCAGGGAGATAGA-AT-TGAT-TCGTCAGTCTG
* * * * *
5898393 CTCCACTGCAACCTCAGGGAGATAGTATTAAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAGAATTGATTCGTCAGTCTG
*
5898436 CTCCACTGCAACTTCAAGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
5898460 AGACTTGAGG
Statistics
Matches: 208, Mismatches: 46, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
38 2 0.01
39 4 0.02
40 36 0.17
41 18 0.09
42 16 0.08
43 120 0.58
44 12 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAGAATTGATTCGTCAGTCTG
Found at i:5898247 original size:83 final size:83
Alignment explanation
Indices: 5898141--5898547 Score: 262
Period size: 83 Copynumber: 4.9 Consensus size: 83
5898131 TTTTAATCCA
* * * *
5898141 CTCCATTGCAACTTCAGGGAGATAGAATTGATTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CTCCACTGCAACCTCAGGGAGATAGAATTGATTCGTCAGTCTGCTCCACTGCAACCTCAGGGAGA
5898206 TAAGACTTGAGGTGATCTG
66 TAAGA-TTGAGGTGATCTG
* * * * *
5898225 CT-CTCTGCAACCTCAGAGAGATA-AGATCCG-TAT-GTCAATCCGCTCCACTGCAACCTCAGGG
1 CTCCACTGCAACCTCAGGGAGATAGA-AT-TGAT-TCGTCAGTCTGCTCCACTGCAACCTCAGGG
* * ** *
5898286 AGATAGGATTAAATCTTCAGTCTG
63 AGATAAGATT-GA-GGTGA-TCTG
* * * * * *
5898310 CTCCACTGCAACTTCAGGGAGATAAGACTTGA--GGTGA-TCTGCT-CTCTGCAACCTCAGAGAG
1 CTCCACTGCAACCTCAGGGAGAT-AGAATTGATTCGTCAGTCTGCTCCACTGCAACCTCAGGGAG
* * * *
5898371 ATAAGATCCGTATGTCAATCCG
65 ATAAGAT-TG-AGGT-GATCTG
* * * * * *
5898393 CTCCACTGCAACCTCAGGGAGATAGTATTAAATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGA
1 CTCCACTGCAACCTCAGGGAGATAGAATTGATTCGTCAGTCTGCTCCACTGCAACCTCAGGGAGA
*
5898458 TAAGACTTGAGGTGATCTA
66 TAAGA-TTGAGGTGATCTG
* * * * *
5898477 CT-CTCTGCAACCTCAGAGAGATA-AGATCCGCA-T-GTCAATCAGCTCCACTGCAACCTCAGGG
1 CTCCACTGCAACCTCAGGGAGATAGA-AT-TG-ATTCGTCAGTCTGCTCCACTGCAACCTCAGGG
*
5898538 AGATAGGATT
63 AGATAAGATT
5898548 AAATCTTCAG
Statistics
Matches: 244, Mismatches: 57, Indels: 46
0.70 0.16 0.13
Matches are distributed among these distances:
82 10 0.04
83 151 0.62
84 21 0.09
85 19 0.08
86 39 0.16
87 3 0.01
88 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (83 bp):
CTCCACTGCAACCTCAGGGAGATAGAATTGATTCGTCAGTCTGCTCCACTGCAACCTCAGGGAGA
TAAGATTGAGGTGATCTG
Found at i:5898315 original size:126 final size:126
Alignment explanation
Indices: 5898078--5898561 Score: 797
Period size: 126 Copynumber: 3.8 Consensus size: 126
5898068 CCTCAAGGAA
* * * * * * * *
5898078 ATAAGACTTGATGTGATCTGCTCTCTGTAACCTCAGAAAGATAAAATCTGTGATTTTAATCCACT
1 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGT-ATGTCAATCCGCT
* * * * *
5898143 CCATTGCAACTTCAGGGAGATAGAATTGATTCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
65 CCACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
5898205 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
1 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
5898270 CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
66 CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
5898331 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
1 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
* *
5898396 CACTGCAACCTCAGGGAGATAGTATTAAATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
66 CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
5898457 ATAAGACTTGAGGTGATCTACTCTCTGCAACCTCAGAGAGATAAGATCCGCATGTCAATCAGCTC
1 ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
5898522 CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTG
66 CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTG
5898562 TTCTCTGGGG
Statistics
Matches: 338, Mismatches: 19, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
126 292 0.86
127 46 0.14
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (126 bp):
ATAAGACTTGAGGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCCGCTC
CACTGCAACCTCAGGGAGATAGGATTAAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
Found at i:5899772 original size:8 final size:8
Alignment explanation
Indices: 5899755--5899794 Score: 50
Period size: 7 Copynumber: 5.4 Consensus size: 8
5899745 TGGCCTCTCC
5899755 TTTC-TCT
1 TTTCTTCT
5899762 TTTCTTCT
1 TTTCTTCT
5899770 TTTCTTC-
1 TTTCTTCT
5899777 TTTCTT-T
1 TTTCTTCT
*
5899784 CTTCTTCT
1 TTTCTTCT
5899792 TTT
1 TTT
5899795 TTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTCTTCT
Found at i:5910457 original size:14 final size:14
Alignment explanation
Indices: 5910435--5910470 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5910425 CATAGGTATC
5910435 TAAAAAAATGGAAA
1 TAAAAAAATGGAAA
* *
5910449 TAAATAAATGTAAA
1 TAAAAAAATGGAAA
5910463 TAAAAAAA
1 TAAAAAAA
5910471 AAGTAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAAAATGGAAA
Found at i:5910628 original size:23 final size:23
Alignment explanation
Indices: 5910600--5910644 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5910590 ATATATTTGG
5910600 ACTATA-AAATATACATAAAACAA
1 ACTATACAAATAT-CATAAAACAA
*
5910623 ACTATACAAATATTATAAAACA
1 ACTATACAAATATCATAAAACA
5910645 GAAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
ACTATACAAATATCATAAAACAA
Found at i:5913719 original size:21 final size:21
Alignment explanation
Indices: 5913676--5913721 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
5913666 TTTTTTTTGG
* **
5913676 AAAAAAATAAAATTAGTTTTT
1 AAAAAAATAAAATGAGTGATT
*
5913697 AAAAAGATAAAATGAGTGATT
1 AAAAAAATAAAATGAGTGATT
5913718 AAAA
1 AAAA
5913722 TGAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAAAAATAAAATGAGTGATT
Found at i:5914572 original size:258 final size:259
Alignment explanation
Indices: 5914268--5914789 Score: 1030
Period size: 258 Copynumber: 2.0 Consensus size: 259
5914258 TTATAAATTT
5914268 ATTTT-AACATAATATATTTACTTATTAAAATATAAATTGTAATGAAACGTAAGAATTCTAATTA
1 ATTTTAAACATAATATATTTACTTATTAAAATATAAATTGTAATGAAACGTAAGAATTCTAATTA
5914332 TTGGTCATAATTTTATGAAAATTGAAACTAAAAAAATATTAAATGAACTAAACTTGTTAAAAAAA
66 TTGGTCATAATTTTATGAAAATTGAAACTAAAAAAATATTAAATGAACTAAACTTGTTAAAAAAA
5914397 ACAAATTCTCTAATAAGGACAATTGAGTAAAATGTACTTTTCAGTAATCTTACATTCTATCAACT
131 ACAAATTCTCTAATAAGGACAATTGAGTAAAATGTACTTTTCAGTAATCTTACATTCTATCAACT
5914462 AAACACTTAAATATTATATTTTAACCAAATGAACCAAATAAAATAATCTCACATTTTACCTGTA
196 AAACACTTAAATATTATATTTTAACCAAATGAACCAAATAAAATAATCTCACATTTTACCTGTA
5914526 ATTTTAAACATAATAT-TTTACTTATTAAAATATAAATTGTAATGAAACGTAAGAATTCTAATTA
1 ATTTTAAACATAATATATTTACTTATTAAAATATAAATTGTAATGAAACGTAAGAATTCTAATTA
5914590 TTGGTCATAATTTTATGAAAATTGAAACTAAAAAAATATTAAATGAACTAAACTTGTTAAAAAAA
66 TTGGTCATAATTTTATGAAAATTGAAACTAAAAAAATATTAAATGAACTAAACTTGTTAAAAAAA
5914655 ACAAATTCTCTAATAAGGACAATTGAGTAAAATGTACTTTTCAGTAATCTTACATTCTATCAACT
131 ACAAATTCTCTAATAAGGACAATTGAGTAAAATGTACTTTTCAGTAATCTTACATTCTATCAACT
5914720 AAACACTTAAATATTATATTTTAACCAAATGAACCAAATAAAATAATCTCACATTTTACCTGTA
196 AAACACTTAAATATTATATTTTAACCAAATGAACCAAATAAAATAATCTCACATTTTACCTGTA
5914784 ATTTTA
1 ATTTTA
5914790 CATTTTTATA
Statistics
Matches: 263, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
258 253 0.96
259 10 0.04
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (259 bp):
ATTTTAAACATAATATATTTACTTATTAAAATATAAATTGTAATGAAACGTAAGAATTCTAATTA
TTGGTCATAATTTTATGAAAATTGAAACTAAAAAAATATTAAATGAACTAAACTTGTTAAAAAAA
ACAAATTCTCTAATAAGGACAATTGAGTAAAATGTACTTTTCAGTAATCTTACATTCTATCAACT
AAACACTTAAATATTATATTTTAACCAAATGAACCAAATAAAATAATCTCACATTTTACCTGTA
Found at i:5915163 original size:20 final size:20
Alignment explanation
Indices: 5915126--5915162 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
5915116 AAAATATTAA
*
5915126 AAAATATTTAAAATTATATG
1 AAAATATTTAAAAATATATG
5915146 AAAAT-TTTAAAAA-ATAT
1 AAAATATTTAAAAATATAT
5915163 AAATTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 7 0.44
20 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATATTTAAAAATATATG
Found at i:5918224 original size:15 final size:15
Alignment explanation
Indices: 5918204--5918251 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
5918194 TTGATCTTTC
5918204 TAGTATTATATATTA
1 TAGTATTATATATTA
5918219 TAGTATTATATATTTTA
1 TAGTATTATATA--TTA
5918236 TAGTATTATATATTA
1 TAGTATTATATATTA
5918251 T
1 T
5918252 GATTTTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.52
17 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TAGTATTATATATTA
Found at i:5918236 original size:17 final size:17
Alignment explanation
Indices: 5918204--5918249 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
5918194 TTGATCTTTC
5918204 TAGTATTATATA--TTA
1 TAGTATTATATATTTTA
5918219 TAGTATTATATATTTTA
1 TAGTATTATATATTTTA
5918236 TAGTATTATATATT
1 TAGTATTATATATT
5918250 ATGATTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.41
17 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (17 bp):
TAGTATTATATATTTTA
Found at i:5918548 original size:44 final size:45
Alignment explanation
Indices: 5918485--5918579 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 45
5918475 TATTACAACA
*
5918485 CCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATT
1 CCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTATT
*
5918529 CCATTACATTCAACCAAACAATTGAATTACTATTACGCCTCTATT
1 CCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTATT
5918574 CCATTA
1 CCATTA
5918580 TAACTCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (45 bp):
CCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTATT
Found at i:5918586 original size:16 final size:16
Alignment explanation
Indices: 5918567--5918613 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
5918557 ACTATTACGC
*
5918567 CTCTATTCCATTATAA
1 CTCTATTCCATTACAA
* *
5918583 CTCTATTCTATTACAC
1 CTCTATTCCATTACAA
5918599 CTCTATTCCATTACA
1 CTCTATTCCATTACA
5918614 GCGAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (16 bp):
CTCTATTCCATTACAA
Found at i:5919468 original size:17 final size:17
Alignment explanation
Indices: 5919446--5919502 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
5919436 ATAGATTAAT
5919446 TTATATTTTATTTATCA
1 TTATATTTTATTTATCA
* *
5919463 TTATA-TTAAATTATTCA
1 TTATATTTTATTTA-TCA
* *
5919480 -AATATTTTATGTATCA
1 TTATATTTTATTTATCA
5919496 TTATATT
1 TTATATT
5919503 AAATTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATATTTTATTTATCA
Found at i:5919485 original size:33 final size:33
Alignment explanation
Indices: 5919448--5919563 Score: 123
Period size: 33 Copynumber: 3.5 Consensus size: 33
5919438 AGATTAATTT
*
5919448 ATATTTTATTTATCATTATATTAAATTATTCAA
1 ATATTTTATGTATCATTATATTAAATTATTCAA
*
5919481 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTTATGTATCATTATATTAAATTATTCAA
* * *
5919514 ATATAATTTATTGT-T--TTAT-TTAACTTTTTAAA
1 ATAT--TTTA-TGTATCATTATATTAAATTATTCAA
*
5919546 ATATTTTATGTATAATTA
1 ATATTTTATGTATCATTA
5919564 ATTTACAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
29 3 0.04
30 5 0.07
32 17 0.24
33 39 0.54
35 5 0.07
36 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (33 bp):
ATATTTTATGTATCATTATATTAAATTATTCAA
Found at i:5920204 original size:16 final size:16
Alignment explanation
Indices: 5920181--5920218 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5920171 TTAAAATCTC
5920181 AAAA-AAAAAAAAAGA
1 AAAAGAAAAAAAAAGA
*
5920196 AAAAGAAAAAGAAAGA
1 AAAAGAAAAAAAAAGA
5920212 AAAAGAA
1 AAAAGAA
5920219 TAGTACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAGA
Found at i:5920855 original size:3 final size:3
Alignment explanation
Indices: 5920847--5920879 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
5920837 GCCAAAGGCT
5920847 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5920880 TCTTACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5924253 original size:9 final size:8
Alignment explanation
Indices: 5924224--5924258 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
5924214 CTCAAAAGTC
5924224 AAAAAAGA
1 AAAAAAGA
* *
5924232 ATAGAAGA
1 AAAAAAGA
5924240 AAAAAAGA
1 AAAAAAGA
5924248 AAAAAAGA
1 AAAAAAGA
5924256 AAA
1 AAA
5924259 CCCTTCGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:5924831 original size:20 final size:21
Alignment explanation
Indices: 5924785--5924836 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
5924775 AGTGTTTAGG
5924785 TGGGTAATGGGTTAAGTTTAT
1 TGGGTAATGGGTTAAGTTTAT
5924806 TGGGTAATGGGTTAAGTTTA-
1 TGGGTAATGGGTTAAGTTTAT
5924826 TGGGTAATGGG
1 TGGGTAATGGG
5924837 CCGGGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (21 bp):
TGGGTAATGGGTTAAGTTTAT
Found at i:5925117 original size:44 final size:44
Alignment explanation
Indices: 5925067--5925297 Score: 180
Period size: 44 Copynumber: 5.4 Consensus size: 44
5925057 TTCTTCGTAA
*
5925067 CAACTTCAGAGAGATAGGATTGATTTCTTTCGTCTGCTCTACTG
1 CAACTTCAGAGAGATAAGATTGATTTCTTTCGTCTGCTCTACTG
* * * ** *
5925111 CAACTTCAGGGAGATAAGACTGGA-TACGAT--T-TACTCTACTG
1 CAACTTCAGAGAGATAAGA-TTGATTTCTTTCGTCTGCTCTACTG
* * *
5925152 CAACTTCAGAGAGATAAGATCTG-TGGT-TTT-GATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGAT-TGAT-TTCTTTCG-TCTGCTCTACTG
* * *
5925196 CAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATTGATTTCTTTCGTCTGCTCTACTG
* * *
5925240 CAACTTCAGCGAGATAAGACTGGA-----TGCGATCTGCTCTACTG
1 CAACTTCAGAGAGATAAGA-TTGATTTCTTTCG-TCTGCTCTACTG
5925281 CAACTTCAGAGAGATAA
1 CAACTTCAGAGAGATAA
5925298 CGTCTGCCAT
Statistics
Matches: 149, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
40 4 0.03
41 56 0.38
42 1 0.01
43 4 0.03
44 77 0.52
45 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATTGATTTCTTTCGTCTGCTCTACTG
Found at i:5925158 original size:41 final size:41
Alignment explanation
Indices: 5925095--5925297 Score: 187
Period size: 44 Copynumber: 4.8 Consensus size: 41
5925085 ATTGATTTCT
*
5925095 TTCG-TCTGCTCTACTGCAACTTCAGGGAGATAAGACTGGA
1 TTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGA
* * * *
5925135 TACGATTTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA-C--TGGA
* * * * * *
5925179 TTTGATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGA
1 TTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGA
* *
5925219 TTTCTTTCG-TCTGCTCCACTGCAACTTCAGCGAGATAAGACTGGA
1 -----TTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGA
*
5925264 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TTCGATCTGCTCTACTGCAACTTCAGAGAGATAA
5925298 CGTCTGCCAT
Statistics
Matches: 129, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
40 8 0.06
41 55 0.43
42 1 0.01
44 59 0.46
45 6 0.05
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
TTCGATCTGCTCTACTGCAACTTCAGAGAGATAAGACTGGA
Found at i:5925396 original size:50 final size:50
Alignment explanation
Indices: 5925342--5926907 Score: 369
Period size: 50 Copynumber: 31.5 Consensus size: 50
5925332 CGGGGAAATT
** * *
5925342 AGATTCGCCGTCGTAGCTTCAATCTATTGTATTACACCGCCAGGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * * *
5925392 AGATTCGCCGTTGTGGCTTTAAT-AATT--GC-A-A-TGCC-GAGAAAGTG
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTG-GGAAGTA
* * * * * *
5925436 AGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * ** * ** *
5925486 AGATTCGCCGTTGTAGCTTCAATCTTTTTAAATTACAATG-TTGAGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATC-TATTCCACTACACCGCCTG-GGAAGTA
* * * * *
5925537 AGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * * *
5925587 AGATTCGCCGTTGTGGCTTTAAT-AATT--GC-A-A-TGCC-GAGAAAGTG
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTG-GGAAGTA
* * * * *
5925631 AGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * ** * * ** * * *
5925681 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * ** * * ** * *
5925731 AGATCCGCTGTTATAGCTTCAATCTGTTCCGCTGTATCGCCTGGAAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * ** * * ** * *
5925781 AGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATG-TTGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCT-GGGAAGTA
* * * * * *
5925831 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
** * * * * ** * * ** * *
5925881 AGATTTACCGTTGTGGCTTCAATATTTTAAATTGCAATGTC-GGGAAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGG-AAGTA
* * * * * *
5925931 AGATTCGCCGTCGTAACTTCAATCTGTTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5925981 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926031 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * ** * * ** * * ** * *
5926081 AGATTCGCCATTGCGGCTTTAATCTTTTAAAATTGCAATGTC-GAGGAAGTG
1 AGATTCGCCGTCGTAGCTTCAATCTATT-CCACTACACCGCCTG-GGAAGTA
* * * ** * *
5926132 AGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGTATCGCCTGAGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* ** * * ** * * ** * * *
5926182 AGATTCACCGTTATGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926232 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5926282 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926332 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5926382 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926432 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5926482 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926532 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5926582 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926632 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * * *
5926682 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * *
5926732 AGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * ** * * ** * *
5926782 AGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
* * * * * * * * *
5926832 AGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCACCACTTGAGAAAGTA
1 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTG-GGAAGTA
* * *
5926883 AGATTCGCCGTTGTGGCCTCAATCT
1 AGATTCGCCGTCGTAGCTTCAATCT
5926908 TTTAAATTGC
Statistics
Matches: 1075, Mismatches: 414, Indels: 53
0.70 0.27 0.03
Matches are distributed among these distances:
43 2 0.00
44 54 0.05
45 6 0.01
46 1 0.00
47 6 0.01
49 11 0.01
50 892 0.83
51 103 0.10
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (50 bp):
AGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCTGGGAAGTA
Found at i:5925783 original size:100 final size:100
Alignment explanation
Indices: 5925643--5926919 Score: 2133
Period size: 100 Copynumber: 12.8 Consensus size: 100
5925633 ATTCACCGTC
* * *
5925643 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5925708 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * * *
5925743 ATAGCTTCAATCTGTTCCGCTGTATCGCCT-GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCTT
*
5925807 TTAAATTGCAATGTTGGGGAAGCAAGATCCGCTGTT
65 TTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * * ** *
5925843 GTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTACCGTTGTGGCTTCAATATTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * *
5925908 TAAATTGCAATGTCGGGAAAGCAAGATTCGCCGTC
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* *
5925943 GTAACTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926008 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * *
5926043 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCATTGCGGCTTTAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* ** * * * *
5926108 TAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTC
66 T-AAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * * * * *
5926144 GTAGCTTCAATCTGTTCCGCTGTATCGCCTGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926209 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926244 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926309 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926344 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926409 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926444 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926509 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926544 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926609 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926644 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
5926709 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926744 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926809 TAAATTGCAATGTCGGGGAAGTAAGATCCGCTGTT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * * * * *
5926844 GTAGCTTCAATCTGTTCCGCTGCACCACTTGAGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCTT
5926909 TTAAATTGCAA
65 TTAAATTGCAA
5926920 ACTATGGTTA
Statistics
Matches: 1107, Mismatches: 66, Indels: 7
0.94 0.06 0.01
Matches are distributed among these distances:
99 4 0.00
100 977 0.88
101 126 0.11
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (100 bp):
GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
Found at i:5925896 original size:200 final size:200
Alignment explanation
Indices: 5925448--5926919 Score: 2283
Period size: 200 Copynumber: 7.4 Consensus size: 200
5925438 ATTCACCGTC
* *
5925448 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATC-TT
* * * * * * * *
5925513 TTAAATTACAATGTTGAGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCC
65 TTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* * * * * ** *
5925578 TGGGAAGTAAGATTCGCCGTTGTGGCTTTAA-----T-AATTGCAATGCCGAGAAAGTGAGATTC
130 TGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
* * *
5925637 ACCGTC
195 GCTGTT
* * *
5925643 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* *
5925708 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTATAGCTTCAATCTGTTCCGCTGTATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* *
5925773 -GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATCC
131 GGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
5925837 GCTGTT
195 GCTGTT
* * * ** *
5925843 GTAGCTTCAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTACCGTTGTGGCTTCAATATTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * *
5925908 TAAATTGCAATGTCGGGAAAGCAAGATTCGCCGTCGTAACTTCAATCTGTTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
5925973 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
131 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
5926038 CTGTT
196 CTGTT
* * *
5926043 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCATTGCGGCTTTAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* ** * * * * *
5926108 TAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGTATCGCC
66 T-AAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* * * *
5926173 TGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
130 TGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
5926238 GCTGTT
195 GCTGTT
5926244 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926309 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
5926374 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
131 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
5926439 CTGTT
196 CTGTT
5926444 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926509 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
5926574 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
131 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
5926639 CTGTT
196 CTGTT
5926644 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926709 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
*
5926774 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATCCG
131 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
5926839 CTGTT
196 CTGTT
* * * * * *
5926844 GTAGCTTCAATCTGTTCCGCTGCACCACTTGAGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCTT
5926909 TTAAATTGCAA
65 TTAAATTGCAA
5926920 ACTATGGTTA
Statistics
Matches: 1186, Mismatches: 81, Indels: 14
0.93 0.06 0.01
Matches are distributed among these distances:
193 4 0.00
194 80 0.07
195 59 0.05
199 1 0.00
200 813 0.69
201 229 0.19
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (200 bp):
GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
CTGTT
Found at i:5926001 original size:300 final size:300
Alignment explanation
Indices: 5925448--5926919 Score: 2301
Period size: 300 Copynumber: 4.9 Consensus size: 300
5925438 ATTCACCGTC
* *
5925448 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATC-TT
* * * * * * * *
5925513 TTAAATTACAATGTTGAGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCC
65 TTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* * * * ** *
5925578 TGGGAAGTAAGATTCGCCGTTGTGGCTTTAA-----T-AATTGCAATGCCGAGAAAGTGAGATTC
130 TGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
* * * * *
5925637 ACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCA
195 GCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCA
5925702 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
260 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * * *
5925743 ATAGCTTCAATCTGTTCCGCTGTATCGCCT-GGAAAGTAAGATTCACCGTTGTGGCTTCAATCTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAA-TAAGATTCGCCGTTGTGGCTTCAATCTT
* *
5925807 TTAAATTGCAATGTTGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCATCGCC
65 TTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
** * * *
5925872 TGGGAAGTAAGATTTACCGTTGTGGCTTCAATATTTTAAATTGCAATGTCGGGAAAGCAAGATTC
130 TGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
* * *
5925937 GCCGTCGTAACTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCA
195 GCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCA
5926002 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
260 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
* * *
5926043 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCATTGCGGCTTTAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
* ** * * * * *
5926108 TAAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGTATCGCC
66 T-AAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* * *
5926173 TGAGAAGTAAGATTCACCGTTATGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
130 TGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCC
*
5926238 GCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCA
195 GCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCA
5926303 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
260 ATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926344 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926409 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
*
5926474 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
131 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
*
5926539 CTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAA
196 CTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAA
5926604 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
261 TCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
5926644 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
*
5926709 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT
66 TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* *
5926774 GGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATCCG
131 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
* * * * *
5926839 CTGTTGTAGCTTCAATCTGTTCCGCTGCACCACTTGAGAAAGTAAGATTCGCCGTTGTGGCCTCA
196 CTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAA-TAAGATTCGCCGTTGTGGCTTCA
5926904 ATCTTTTAAATTGCAA
260 ATCTTTTAAATTGCAA
5926920 ACTATGGTTA
Statistics
Matches: 1094, Mismatches: 73, Indels: 14
0.93 0.06 0.01
Matches are distributed among these distances:
294 92 0.08
295 52 0.05
299 1 0.00
300 629 0.57
301 320 0.29
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (300 bp):
GTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTT
TAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCG
CTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCAA
TCTTTTAAATTGCAATGTCGGGGAAGCAAGATCCGCTGTT
Found at i:5927109 original size:86 final size:86
Alignment explanation
Indices: 5926931--5927664 Score: 1053
Period size: 86 Copynumber: 8.5 Consensus size: 86
5926921 CTATGGTTAC
* ** * * * *
5926931 TTCGATCTGCTT--CTGTCAACTTAGGAAGGCAAGATCTGTTGTCTTCAACCCGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAA
* * * *
5926994 TCGA-GAGAGGTAAGGTTTTGTT
65 CCGATG-GAGGCAATGCTTTGTT
* * *
5927016 TTCGATCTGCTTCGCTGTTAAGGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCTATTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
*
5927081 CGATGGAGGCAATGTTTTGTT
66 CGATGGAGGCAATGCTTTGTT
*
5927102 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
*
5927167 CGATGGAGGCAAGGCTTTGTT
66 CGATGGAGGCAATGCTTTGTT
* * * *
5927188 TTCGATCTACTTCACTGTTAACGCAGGAAGGCAAGATCTGCTTTTTTAGCCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
* *
5927253 CGATGAAGGCAAGGCTTTGTT
66 CGATGGAGGCAATGCTTTGTT
*
5927274 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGTTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
* * *
5927339 TGATGGAGGCAATACTTTATT
66 CGATGGAGGCAATGCTTTGTT
* *
5927360 TTCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAGCCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
*
5927425 CGATGGAGGCAATACTTTGTT
66 CGATGGAGGCAATGCTTTGTT
*
5927446 TTCGATCTGCTTCCCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
*
5927511 CGATGGAGGCAATACTTTGTT
66 CGATGGAGGCAATGCTTTGTT
* *
5927532 TTCGATCTGCTTCCCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCA-TGACCA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTG-CAA
*
5927596 CCGATGGAGGCAATGTTTTGTT
65 CCGATGGAGGCAATGCTTTGTT
* * * *
5927618 TTCAATCTGTTTCACTGTTAATGCAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTT
5927665 CACTAATCTG
Statistics
Matches: 594, Mismatches: 50, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
85 14 0.02
86 552 0.93
87 28 0.05
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (86 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
CGATGGAGGCAATGCTTTGTT
Done.