Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 403 of 433
Found at i:124943963 original size:21 final size:21
Alignment explanation
Indices: 124943934--124943999 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
124943924 TAATAAACCC
*
124943934 TAAACACTAAATCTAAAATCT
1 TAAATACTAAATCTAAAATCT
* *
124943955 TAAATACTAAACCCT-AAACCT
1 TAAATACTAAA-TCTAAAATCT
* *
124943976 TAAACT-CTAAGTCTAGAATCT
1 TAAA-TACTAAATCTAAAATCT
124943997 TAA
1 TAA
124944000 GTCTTGAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (21 bp):
TAAATACTAAATCTAAAATCT
Found at i:124943973 original size:35 final size:36
Alignment explanation
Indices: 124943904--124943973 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
124943894 AACCTTGAAC
124943904 CTAAATCTAAAACCCTATAATAATAAACCCTAAACA
1 CTAAATCTAAAACCCTATAATAATAAACCCTAAACA
* * *
124943940 CTAAATCTAAAATCTTA-AATACTAAACCCTAAAC
1 CTAAATCTAAAACCCTATAATAATAAACCCTAAAC
124943974 CTTAAACTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (36 bp):
CTAAATCTAAAACCCTATAATAATAAACCCTAAACA
Found at i:124944144 original size:21 final size:20
Alignment explanation
Indices: 124944118--124944159 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
124944108 TAAACTTTAG
124944118 GGTTTAGAGTTCAAGGTTCAA
1 GGTTTAGAGTTCAA-GTTCAA
* *
124944139 GGTTTAGGGTTTAAGTTCAA
1 GGTTTAGAGTTCAAGTTCAA
124944159 G
1 G
124944160 ATTCAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.07, G:0.31, T:0.36
Consensus pattern (20 bp):
GGTTTAGAGTTCAAGTTCAA
Found at i:124944164 original size:27 final size:28
Alignment explanation
Indices: 124944113--124944175 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
124944103 AACTCTAAAC
* *
124944113 TTTAGGGTTTAGAGTTCAAGGTTCAAGG
1 TTTAGGGTTTAGAGTTCAAGATTCAAGA
124944141 TTTAGGGTTTA-AGTTCAAGATTCAAGA
1 TTTAGGGTTTAGAGTTCAAGATTCAAGA
*
124944168 TTTGGGGT
1 TTTAGGGT
124944176 AAGGTGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.25, C:0.06, G:0.30, T:0.38
Consensus pattern (28 bp):
TTTAGGGTTTAGAGTTCAAGATTCAAGA
Found at i:124946669 original size:21 final size:21
Alignment explanation
Indices: 124946640--124946704 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
124946630 CATTTGTAAA
*
124946640 TTTATTAAAAGTTTATATTTT
1 TTTAATAAAAGTTTATATTTT
**
124946661 TTTAATAAAAGAATAAATATATTT
1 TTTAATAAAAG--TTTATAT-TTT
124946685 TTT-A-AAAA-TTTATATTTT
1 TTTAATAAAAGTTTATATTTT
124946703 TT
1 TT
124946705 ATATTTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
21 10 0.28
22 4 0.11
23 6 0.17
24 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTAATAAAAGTTTATATTTT
Found at i:124949423 original size:26 final size:26
Alignment explanation
Indices: 124949387--124949496 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
124949377 CATGAAATTC
124949387 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
124949413 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
124949439 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
124949465 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
124949491 TTATCA
1 TTATCA
124949497 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:124953950 original size:47 final size:47
Alignment explanation
Indices: 124953876--124953966 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
124953866 ATTGTCCCAC
*
124953876 GGATATCTGAAAATAGATACGAAGATATGATCCTTCAAGGACTTTTG
1 GGATATCTGAAAATAGATACGAAGATATAATCCTTCAAGGACTTTTG
*
124953923 GGATGTCTGAAAATAGATACGAAGATATAATCCTTCAAGGACTT
1 GGATATCTGAAAATAGATACGAAGATATAATCCTTCAAGGACTT
124953967 CTCAAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (47 bp):
GGATATCTGAAAATAGATACGAAGATATAATCCTTCAAGGACTTTTG
Found at i:124957709 original size:38 final size:38
Alignment explanation
Indices: 124957652--124957727 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
124957642 GTTAGTCTTT
*
124957652 TATACAACCACAACAAAGCACAATGGACCAACAACCAG
1 TATACAACCACAACAAAGCACAACGGACCAACAACCAG
** *
124957690 TATACAACCGTAACCAAGCACAACGGACCAACAACCAG
1 TATACAACCACAACAAAGCACAACGGACCAACAACCAG
124957728 CAAATGTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.47, C:0.33, G:0.12, T:0.08
Consensus pattern (38 bp):
TATACAACCACAACAAAGCACAACGGACCAACAACCAG
Found at i:124964627 original size:31 final size:29
Alignment explanation
Indices: 124964590--124964652 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
124964580 TTAATAAAGG
*
124964590 TAAAATTATAATTTAATTTCTCTAAAAATGA
1 TAAAATTATAATCTAATTT-T-TAAAAATGA
* *
124964621 TAAAATTTTAATCTAATTTTTAAAAATTA
1 TAAAATTATAATCTAATTTTTAAAAATGA
124964650 TAA
1 TAA
124964653 TTTAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.38
30 1 0.03
31 17 0.59
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TAAAATTATAATCTAATTTTTAAAAATGA
Found at i:124965234 original size:60 final size:63
Alignment explanation
Indices: 124965165--124965289 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 63
124965155 TACATTTATA
124965165 TCTAAAAAATTATATATATATA-T-T-TATTTATTATTTGTTTATTACTTTTAATATTATTGG
1 TCTAAAAAATTATATATATATAGTATATATTTATTATTTGTTTATTACTTTTAATATTATTGG
124965225 TCTAAAAAATTATATATATATATGTATATATTTATTATTTGTTTATTACTTTTAATATTATTGG
1 TCTAAAAAATTATATATATATA-GTATATATTTATTATTTGTTTATTACTTTTAATATTATTGG
124965289 T
1 T
124965290 TAACATATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
60 22 0.36
62 1 0.02
63 1 0.02
64 37 0.61
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (63 bp):
TCTAAAAAATTATATATATATAGTATATATTTATTATTTGTTTATTACTTTTAATATTATTGG
Found at i:124965307 original size:64 final size:64
Alignment explanation
Indices: 124965172--124965307 Score: 204
Period size: 64 Copynumber: 2.1 Consensus size: 64
124965162 ATATCTAAAA
*
124965172 AATTATATATATATATTTATTTATTATTTGTTTATTACTTTTAATATTATTGGTCTAAAAAATT
1 AATTATATATATATATATATTTATTATTTGTTTATTACTTTTAATATTATTGGTCTAAAAAATT
* * *
124965236 -ATATATATATATGTATATATTTATTATTTGTTTATTACTTTTAATATTATTGGT-TAACATATT
1 AAT-TATATATATATATATATTTATTATTTGTTTATTACTTTTAATATTATTGGTCTAA-AAAAT
124965299 T
64 T
124965300 AATTATAT
1 AATTATAT
124965308 GTTCAAGAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
63 5 0.08
64 58 0.89
65 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (64 bp):
AATTATATATATATATATATTTATTATTTGTTTATTACTTTTAATATTATTGGTCTAAAAAATT
Found at i:124972511 original size:30 final size:31
Alignment explanation
Indices: 124972471--124972533 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
124972461 AATATATATC
*
124972471 TTTATAATTTTTAGATGA-TTAAATTA-AATT
1 TTTATAATTTTTAGA-GAGTTAAAGTATAATT
*
124972501 TTTATTATTTTTAGAGAGTTAAAGTATAATT
1 TTTATAATTTTTAGAGAGTTAAAGTATAATT
124972532 TT
1 TT
124972534 ACTATTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 21 0.72
31 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTATAATTTTTAGAGAGTTAAAGTATAATT
Found at i:124976014 original size:15 final size:15
Alignment explanation
Indices: 124975975--124976017 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
124975965 GGTTTTATAT
124975975 TTGATATTTATT-AA
1 TTGATATTTATTAAA
* *
124975989 TGTTATTTTTATTAAA
1 T-TGATATTTATTAAA
124976005 TTGATATTTATTA
1 TTGATATTTATTA
124976018 TGAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TTGATATTTATTAAA
Found at i:124978884 original size:130 final size:132
Alignment explanation
Indices: 124978677--124978921 Score: 350
Period size: 130 Copynumber: 1.9 Consensus size: 132
124978667 TGATATGTTA
* * *
124978677 CAATTCGGGGAATCGTGCCCTAATGTGTTGAGTTGCAATTTCGCATTTGCTCAAAATAATCGAAT
1 CAATTCGGGGAACCGTGCCCTAACGTGTTGAGTTGCAATTTCGCATTTGCTCAAAATAATCAAAT
* * *
124978742 ATCATTTCAAAATTTCACTCATATCTT-TTAAAATCCATT-AAACGAAGGCGATATGCGATATTT
66 ATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCATTAAAACGAAGGCGATATGCGATATTT
124978805 GG
131 GG
* * * * *
124978807 CAATTCGTGGAACCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTTAAAATAATCAAAT
1 CAATTCGGGGAACCGTGCCCTAACGTGTTGAGTTGCAATTTCGCATTTGCTCAAAATAATCAAAT
* * *
124978872 ATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGG
66 ATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCATTAAAACGAAGG
124978922 TAATACTCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 80 0.81
131 10 0.10
132 9 0.09
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (132 bp):
CAATTCGGGGAACCGTGCCCTAACGTGTTGAGTTGCAATTTCGCATTTGCTCAAAATAATCAAAT
ATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCATTAAAACGAAGGCGATATGCGATATTT
GG
Found at i:124979004 original size:131 final size:128
Alignment explanation
Indices: 124978677--124979153 Score: 404
Period size: 131 Copynumber: 3.6 Consensus size: 128
124978667 TGATATGTTA
* * * * * * *
124978677 CAATTCGGGGAATCGTGCCCTAAT-GTGTTGAGTTGCAATTTCGCATTTGCTCAAAATAATCGAA
1 CAATTC-GGGAATCATGCCCT-ATCGTGCTGGGTTGCGATTTCTCA-TTGTTCAAAACAATCGAA
** * * * *
124978741 TATCATTTCAAAATTTCACTCATATCTTTTAAAATCCATT-AAACGAAGGCGATATGCGATATTT
63 TATCCCTTCAAAATTTCACTCATGTCTTTAAAAATCCTTTAAAACGAAGGCGATAT-CGATGTTT
124978805 GG
127 GG
* * * * * * * *
124978807 CAATTCGTGGAACCGTGCCCTAACGTGTTGGGTTGCAATTTCTCATTTGTTTAAAATAATCAAAT
1 CAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCA-TTGTTCAAAACAATCGAAT
* ** *
124978872 ATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTT
64 ATCCCTTCAAAATTTCACTCATGTCTT-TAAAAATCCTTTAAAACGAAGGCGATA-TCGATGTTT
*
124978937 GA
127 GG
* *
124978939 CAATTCGGGAATCATGCCTTATCGTGCTGGGTTGTGATTTCTCGATTGTTCAAAACAATCGAATA
1 CAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTC-ATTGTTCAAAACAATCGAATA
* * *** * * *
124979004 TTCCTTTAGGTTTTCATTCATGTTTATTAAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTT
65 TCCCTTCAAAATTTCACTCATGTCT-TTAAAAATCCTTT-AAAACGAAGGCGAT-ATCGATGTTT
124979068 GG
127 GG
* * * * * * *
124979070 CGATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGCGCTTTTTCATTCGCTCAAAACAATCGAAG
1 CAATTCGGGAATC-ATGCCCTATCGTGCTGGGTTGCGATTTCTCATT-GTTCAAAACAATCGAAT
*
124979134 ATCCCTTCAGAATTTCACTC
64 ATCCCTTCAAAATTTCACTC
124979154 GTATTTTCTA
Statistics
Matches: 281, Mismatches: 55, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
129 2 0.01
130 85 0.30
131 164 0.58
132 29 0.10
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (128 bp):
CAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTGTTCAAAACAATCGAATAT
CCCTTCAAAATTTCACTCATGTCTTTAAAAATCCTTTAAAACGAAGGCGATATCGATGTTTGG
Found at i:124981141 original size:18 final size:18
Alignment explanation
Indices: 124981084--124981160 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
124981074 GAATGTCTGC
* *
124981084 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* *
124981102 TACAGAATAAACGACTGA-
1 TACTGAATAAATGACT-AT
*
124981120 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
* * *
124981138 TACTGATTAACTGATTAT
1 TACTGAATAAATGACTAT
124981156 TACTG
1 TACTG
124981161 TTGATTGACT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 1 0.02
18 46 0.98
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:124983887 original size:16 final size:16
Alignment explanation
Indices: 124983866--124983906 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
124983856 ACTAATATAC
124983866 AATTTGTTTATATTTT
1 AATTTGTTTATATTTT
124983882 AATTTGCTTT-TATTTT
1 AATTTG-TTTATATTTT
*
124983898 TATTT-TTTA
1 AATTTGTTTA
124983907 AATATACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (16 bp):
AATTTGTTTATATTTT
Found at i:124985196 original size:9 final size:8
Alignment explanation
Indices: 124985180--124985217 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
124985170 GAAAAATATT
124985180 TATTTTAA
1 TATTTTAA
124985188 TATTTTTAA
1 TA-TTTTAA
124985197 TATTTTAA
1 TATTTTAA
*
124985205 TATATT-A
1 TATTTTAA
124985212 TATTTT
1 TATTTT
124985218 TAAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTTTAA
Found at i:124985232 original size:26 final size:24
Alignment explanation
Indices: 124985187--124985237 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
124985177 ATTTATTTTA
* * *
124985187 ATATTTTTAATATTTTAATATATT
1 ATATTTTTAATATATAAATAAATT
124985211 ATATTTTTAAAATATATAAATAAATT
1 ATATTTTT--AATATATAAATAAATT
124985237 A
1 A
124985238 ATACAGGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTTTTAATATATAAATAAATT
Found at i:124987325 original size:31 final size:29
Alignment explanation
Indices: 124987290--124987348 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
124987280 ATCTTAAAAT
*
124987290 TATACATTAACTTTAATTTAATGTGTAATTG
1 TATACATGAACTTTAATTT-A-GTGTAATTG
124987321 TATACATGAACTTTAATTTAGTGTAATT
1 TATACATGAACTTTAATTTAGTGTAATT
124987349 ATACACGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 1 0.04
31 18 0.67
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (29 bp):
TATACATGAACTTTAATTTAGTGTAATTG
Found at i:124987359 original size:29 final size:31
Alignment explanation
Indices: 124987293--124987359 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
124987283 TTAAAATTAT
* * *
124987293 ACATTAACTTTAATTTAATGTGTAATTGTAT
1 ACATGAACTTTAATTTAATGTGTAATTATAC
124987324 ACATGAACTTTAATTT-A-GTGTAATTATAC
1 ACATGAACTTTAATTTAATGTGTAATTATAC
*
124987353 ACGTGAA
1 ACATGAA
124987360 AGCTCTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.50
30 1 0.03
31 15 0.47
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (31 bp):
ACATGAACTTTAATTTAATGTGTAATTATAC
Found at i:124993154 original size:22 final size:24
Alignment explanation
Indices: 124993129--124993172 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
124993119 AAACTATAAT
124993129 AAATAAAA-AAAATAAA-ATATTA
1 AAATAAAATAAAATAAATATATTA
124993151 AAATAAAATAAAATAAATATAT
1 AAATAAAATAAAATAAATATAT
124993173 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 8 0.40
24 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (24 bp):
AAATAAAATAAAATAAATATATTA
Found at i:124993158 original size:18 final size:17
Alignment explanation
Indices: 124993132--124993165 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
124993122 CTATAATAAA
124993132 TAAAAAAAATAAAATAT
1 TAAAAAAAATAAAATAT
124993149 TAAAATAAAATAAAATA
1 TAAAA-AAAATAAAATA
124993166 AATATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAAAAATAAAATAT
Found at i:124999903 original size:16 final size:18
Alignment explanation
Indices: 124999872--124999913 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
124999862 TAATGACCTG
124999872 TATATTAATTATATTTAA
1 TATATTAATTATATTTAA
124999890 TATATTAA-TA-ATTTAA
1 TATATTAATTATATTTAA
*
124999906 TAAATTAA
1 TATATTAA
124999914 AATATGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
18 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATTAATTATATTTAA
Found at i:125006284 original size:61 final size:58
Alignment explanation
Indices: 125006189--125006310 Score: 208
Period size: 61 Copynumber: 2.1 Consensus size: 58
125006179 ATATACACTC
125006189 CATTACACAACCTATTTATACTAATAATCAGATATACTAAGAAGGAAAGTCAAAGATTACA
1 CATTACACAACCTATTTATACTAATAATCAGATATAC--A-AAGGAAAGTCAAAGATTACA
*
125006250 CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTATA
1 CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTACA
125006308 CAT
1 CAT
125006311 CCTAATGTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
58 22 0.37
59 1 0.02
61 37 0.62
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (58 bp):
CATTACACAACCTATTTATACTAATAATCAGATATACAAAGGAAAGTCAAAGATTACA
Found at i:125012462 original size:62 final size:62
Alignment explanation
Indices: 125012365--125012489 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
125012355 CTTCATTCAT
125012365 TTCAGTAGTTCAGAAACATAAATTCAGATCATTAACCACCTTTTTTTGCTAATCAAGAACAA
1 TTCAGTAGTTCAGAAACATAAATTCAGATCATTAACCACCTTTTTTTGCTAATCAAGAACAA
125012427 TTCAGTAGTTCAGAAACATAAATTCAGATCATTAACCACCTTTTTTTGCTAATCAAGAACAA
1 TTCAGTAGTTCAGAAACATAAATTCAGATCATTAACCACCTTTTTTTGCTAATCAAGAACAA
125012489 T
1 T
125012490 AGAAATAATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (62 bp):
TTCAGTAGTTCAGAAACATAAATTCAGATCATTAACCACCTTTTTTTGCTAATCAAGAACAA
Found at i:125012514 original size:29 final size:29
Alignment explanation
Indices: 125012472--125012528 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
125012462 CCACCTTTTT
125012472 TTGCTAATCAAGAACAATAGAAATAATTG
1 TTGCTAATCAAGAACAATAGAAATAATTG
* *
125012501 TTGCTACTCAAGAACAATAGCAATAATT
1 TTGCTAATCAAGAACAATAGAAATAATT
125012529 AAGAGTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (29 bp):
TTGCTAATCAAGAACAATAGAAATAATTG
Found at i:125012544 original size:5 final size:5
Alignment explanation
Indices: 125012534--125012558 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
125012524 TAATTAAGAG
125012534 TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT
125012559 CATCTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:125014070 original size:65 final size:66
Alignment explanation
Indices: 125013965--125014096 Score: 230
Period size: 65 Copynumber: 2.0 Consensus size: 66
125013955 AAAAATACAC
* *
125013965 GACAAGAGGTATCCATTCATTTTGCTAATTCTGGTTCAAGATCTCTGAAATGAATGTTAAAA-AA
1 GACAAGAGGTATCCACTCATTTTGCTAATTCTGGTCCAAGATCTCTGAAATGAATGTTAAAACAA
125014029 T
66 T
*
125014030 GACAAGAGGTATCCGCTCATTTTGCTAATTCTGGTCCAAGATCTCTGAAATGAATGTTAAAACAA
1 GACAAGAGGTATCCACTCATTTTGCTAATTCTGGTCCAAGATCTCTGAAATGAATGTTAAAACAA
125014095 T
66 T
125014096 G
1 G
125014097 TGTGTGTGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 59 0.94
66 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (66 bp):
GACAAGAGGTATCCACTCATTTTGCTAATTCTGGTCCAAGATCTCTGAAATGAATGTTAAAACAA
T
Found at i:125020959 original size:23 final size:24
Alignment explanation
Indices: 125020928--125020978 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
125020918 AGTTTTAATG
* *
125020928 TTTAATTTGATATTTGAA-TTTTT
1 TTTAATTTGATACTTAAAGTTTTT
*
125020951 TTTAGTTTGATACTTAAAGTTTTT
1 TTTAATTTGATACTTAAAGTTTTT
125020975 TTTA
1 TTTA
125020979 TCCCATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (24 bp):
TTTAATTTGATACTTAAAGTTTTT
Found at i:125021257 original size:2 final size:2
Alignment explanation
Indices: 125021250--125021298 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
125021240 AGGATGTTAG
125021250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125021292 AT AT AT A
1 AT AT AT A
125021299 GTACTGGTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125024532 original size:2 final size:2
Alignment explanation
Indices: 125024525--125024572 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
125024515 ATACGTGAGA
*
125024525 AT AT AT AT A- AT AT AT AT AT A- AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
125024565 GT AT AT AT
1 AT AT AT AT
125024573 GTATGTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125024541 original size:11 final size:11
Alignment explanation
Indices: 125024525--125024564 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
125024515 ATACGTGAGA
125024525 ATATATATAAT
1 ATATATATAAT
125024536 ATATATATAAT
1 ATATATATAAT
*
125024547 ATATATGT-AT
1 ATATATATAAT
125024557 ATATATAT
1 ATATATAT
125024565 GTATATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
ATATATATAAT
Found at i:125029146 original size:3 final size:3
Alignment explanation
Indices: 125029138--125029177 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
125029128 AATTCATTAA
125029138 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
125029178 CAAACTAACC
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:125030794 original size:77 final size:77
Alignment explanation
Indices: 125030461--125030899 Score: 591
Period size: 77 Copynumber: 5.7 Consensus size: 77
125030451 CGAACTTAGT
* *
125030461 GTGTGA-CCTAGGACTCAACTCACCTTTCGCAATATGAGTTGA--TTTTT--AAAACAGAAATTG
1 GTGTGACCCGAGG-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
* *
125030521 AAAATATCTCAGC
65 AAAACACCTCAGC
125030534 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAACAAGAAA
1 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG---AAAAAC-AGAAA
*
125030599 TTGAAAACATCTCAGC
62 TTGAAAACACCTCAGC
* * *
125030615 GTGTGACCTGAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTTTGAAAAAAACAGAAATT
1 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AAAAACAGAAATT
*
125030680 GAAAACACCTCAGT
64 GAAAACACCTCAGC
* * * * *
125030694 GTGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTGTTTGAAAAACATAAATTAA
1 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA
*
125030759 AAACACCTTAGC
66 AAACACCTCAGC
* * * *
125030771 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAAATAGAAATTAA
1 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA
125030836 AAACACCTCAGC
66 AAACACCTCAGC
* *
125030848 GTGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
125030900 GAGACTCAAC
Statistics
Matches: 331, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
73 34 0.10
74 5 0.02
75 5 0.02
77 142 0.43
79 65 0.20
80 13 0.04
81 67 0.20
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (77 bp):
GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGA
AAACACCTCAGC
Found at i:125030865 original size:233 final size:231
Alignment explanation
Indices: 125030458--125030899 Score: 649
Period size: 233 Copynumber: 1.9 Consensus size: 231
125030448 CTACGAACTT
* * *
125030458 AGTGTGTGACCTAGGACTCAACTCACCTTTCGCAATATGAGTTGATTTTTAAAACAGAAATTGAA
1 AGTGTGTGACCTAGGACTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAACAGAAATTAAA
* * * *
125030523 AATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
66 AACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTG--AA
* * * *
125030588 AAAACAAGAAATTGAAAACATCTCAGCGTGTGACCTGAGGCTCAACTCACTTCTCGCAATATAAG
129 AAAACAAGAAATTAAAAACACCTCAGCGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATAAG
125030653 TTGATTTTTTTGAAAAAAACAGAAATTGAAAACACCTC
194 TTGATTTTTTTGAAAAAAACAGAAATTGAAAACACCTC
*
125030691 AGTGTGTGACCTGAGG-CTCAACTCACCTCTCACAATATGAGTTGATTTGTTTGAAAAACATAAA
1 AGTGTGTGACCT-AGGACTCAACTCACCTCTCACAATATGAGTTGA-TT-TTT--AAAACAGAAA
*
125030755 TTAAAAACACCTTAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTTT
61 TTAAAAACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTTT
*
125030820 G-AAAAA-TAGAAATTAAAAACACCTCAGCGTGTGA-CTCAAGGCTCAACTCACCTCTCGCAATA
126 GAAAAAACAAGAAATTAAAAACACCTCAGCGTGTGACCT-AAGGCTCAACTCACCTCTCGCAATA
*
125030882 TGAGTTGATTTTTTTGAA
190 TAAGTTGATTTTTTTGAA
125030900 GAGACTCAAC
Statistics
Matches: 188, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
232 2 0.01
233 104 0.55
234 10 0.05
235 3 0.02
237 69 0.37
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (231 bp):
AGTGTGTGACCTAGGACTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAACAGAAATTAAA
AACACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAA
AACAAGAAATTAAAAACACCTCAGCGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATAAGTT
GATTTTTTTGAAAAAAACAGAAATTGAAAACACCTC
Found at i:125031004 original size:116 final size:119
Alignment explanation
Indices: 125030784--125031015 Score: 353
Period size: 116 Copynumber: 2.0 Consensus size: 119
125030774 TGACCCGAGG
*
125030784 CTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAAATAGAAATTAAAAACACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAAACAGAAATTAAAAACACCTCAGCG
* *
125030849 TGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGA
66 TGT-ACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAGAGA
* * * * *
125030904 CTCAACTCATCTCTCGCAATATTAGTTGA-TT-TTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAAACAGAAATTAAAAACACCTCAGCG
*
125030967 TGT-CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
66 TGTACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAA
125031016 AAGCAGAAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 43 0.42
118 31 0.30
119 2 0.02
120 27 0.26
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (119 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTGTTTGAAAAACAGAAATTAAAAACACCTCAGCG
TGTACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAGAGA
Found at i:125031044 original size:75 final size:75
Alignment explanation
Indices: 125030904--125031085 Score: 251
Period size: 75 Copynumber: 2.5 Consensus size: 75
125030894 TTTGAAGAGA
* * *
125030904 CTCAACTCATCTCTCGCAATATTAGTTGA--TTTTTGAAAAGCAGAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAACG
125030967 TGTCCCGAGG
66 TGTCCCGAGG
* *
125030977 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTGAACG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAACG
**
125031042 TGTCTTGAGG
66 TGTCCCGAGG
* * * *
125031052 CTTAACTCACATCTCGCAAGATGAGTTAATTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
125031086 GAAACAGAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 26 0.27
75 69 0.73
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAACG
TGTCCCGAGG
Found at i:125048977 original size:77 final size:78
Alignment explanation
Indices: 125048695--125049206 Score: 761
Period size: 80 Copynumber: 6.6 Consensus size: 78
125048685 TTTCTGTTTC
* *
125048695 AAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGGGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
125048760 TCTGTTTTTCAAA
66 TCTGTTTTTCAAA
125048773 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
125048838 TCTGTTTTTCAAAAA
66 TCTGTTTTTC--AAA
** * * * *
125048853 AAAAATCAGTTTATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
*
125048918 TCTATTTTTC-AA
66 TCTGTTTTTCAAA
125048930 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
125048995 TCTGTTTTTCAAAAA
66 TCTGTTTTTC--AAA
** *
125049010 AAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
125049075 TCTGTTTTTC-AA
66 TCTGTTTTTCAAA
* * *
125049087 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGATATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
125049152 TCTG-TTTT----
66 TCTGTTTTTCAAA
* * *
125049160 AAAAATCAACTCACATTACGAGAGGTGAGTTGAGTCCT-AGGTCACAC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCGGGTCACAC
125049207 ACTAAGTTCA
Statistics
Matches: 400, Mismatches: 28, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
73 40 0.10
74 3 0.01
76 4 0.01
77 135 0.34
78 73 0.18
80 145 0.36
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATT
TCTGTTTTTCAAA
Found at i:125048989 original size:157 final size:157
Alignment explanation
Indices: 125048702--125049159 Score: 772
Period size: 157 Copynumber: 2.9 Consensus size: 157
125048692 TTCAAAAATC
* *
125048702 AACTCATCTTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGGGGTGTTTTCAATTTCTGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATTTCTGTTT
125048767 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTT
66 TTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTT
**
125048832 TCAATTTCTGTTTTTCAAAAAAAAAATC
130 TCAATTTCTGTTTTTCAAAAAAAAAAAA
** * * * * *
125048860 AGTTTATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACGCTGAGGTGTTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATTTCTGTTT
125048925 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTT
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTT
125048990 CAATTTCTGTTTTTCAAAAAAAAAAAA
131 CAATTTCTGTTTTTCAAAAAAAAAAAA
*
125049017 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTGTTTTCAATTTCTGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATTTCTGTTT
* * *
125049082 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGATATTTT
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTT
125049147 CAATTTCTGTTTT
131 CAATTTCTGTTTT
125049160 AAAAATCAAC
Statistics
Matches: 278, Mismatches: 22, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
157 219 0.79
158 59 0.21
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (157 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTTCAATTTCTGTTT
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTGTTTT
CAATTTCTGTTTTTCAAAAAAAAAAAA
Found at i:125049420 original size:45 final size:45
Alignment explanation
Indices: 125049356--125049467 Score: 188
Period size: 45 Copynumber: 2.5 Consensus size: 45
125049346 TGTTACGGAA
* *
125049356 CCCTGAAGTTGTAGTGGAGCAGACTGAAGATATTAGACCTTATCT
1 CCCTGAAATTGTAGTGGAGCAGACTAAAGATATTAGACCTTATCT
125049401 CCCTGAAATTGTAGTGGAGCAGACTAAAGATATTAGACCTTATCT
1 CCCTGAAATTGTAGTGGAGCAGACTAAAGATATTAGACCTTATCT
* *
125049446 CCCTGAATTTGCAGTGGAGCAG
1 CCCTGAAATTGTAGTGGAGCAG
125049468 TGAAGCAGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
CCCTGAAATTGTAGTGGAGCAGACTAAAGATATTAGACCTTATCT
Found at i:125050526 original size:3 final size:3
Alignment explanation
Indices: 125050518--125050563 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
125050508 GGTTGGTTTG
125050518 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
125050564 TTAAATTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:125051285 original size:17 final size:17
Alignment explanation
Indices: 125051265--125051315 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
125051255 AAAAAAAGAA
125051265 TTCGGGTTTCAAAAATT
1 TTCGGGTTTCAAAAATT
* *
125051282 TTCGAGTTTTC-GAAATT
1 TTCG-GGTTTCAAAAATT
* *
125051299 TTCGTGTTTTAAAAATT
1 TTCGGGTTTCAAAAATT
125051316 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 3 0.12
17 18 0.69
18 5 0.19
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (17 bp):
TTCGGGTTTCAAAAATT
Found at i:125054000 original size:8 final size:8
Alignment explanation
Indices: 125053982--125054053 Score: 54
Period size: 8 Copynumber: 8.1 Consensus size: 8
125053972 TATTTTATAT
125053982 TAAAAATTA
1 TAAAAA-TA
125053991 TAAAAATA
1 TAAAAATA
125053999 TAAAAATAA
1 TAAAAAT-A
125054008 TAAATATATA
1 TAAA-A-ATA
* *
125054018 TACAAATT
1 TAAAAATA
125054026 TAAAAATA
1 TAAAAATA
*
125054034 TTATAAATTTA
1 -TA-AAA-ATA
125054045 TAAAAATA
1 TAAAAATA
125054053 T
1 T
125054054 GCAAAAGTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
8 20 0.39
9 17 0.33
10 10 0.20
11 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAAATA
Found at i:125054004 original size:17 final size:17
Alignment explanation
Indices: 125053982--125054053 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 17
125053972 TATTTTATAT
125053982 TAAAAATTATAAAAATA
1 TAAAAATTATAAAAATA
*
125053999 TAAAAATAATAAATATATA
1 TAAAAATTATAAA-A-ATA
*
125054018 TACAAATT-TAAAAATA
1 TAAAAATTATAAAAATA
*
125054034 TTATAAATTTATAAAAATA
1 -TA-AAAATTATAAAAATA
125054053 T
1 T
125054054 GCAAAAGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
16 3 0.07
17 15 0.33
18 10 0.22
19 17 0.38
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAATTATAAAAATA
Found at i:125054046 original size:27 final size:27
Alignment explanation
Indices: 125053989--125054051 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
125053979 TATTAAAAAT
*
125053989 TATAAAAATATAAAAATAATAAATATA
1 TATAAAAATTTAAAAATAATAAATATA
*
125054016 TATACAAATTTAAAAATATTATAAAT-T-
1 TATAAAAATTTAAAAATA--ATAAATATA
125054043 TATAAAAAT
1 TATAAAAAT
125054052 ATGCAAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 24 0.77
28 1 0.03
29 6 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAAATTTAAAAATAATAAATATA
Found at i:125054257 original size:29 final size:28
Alignment explanation
Indices: 125054225--125054290 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
125054215 AAAATTGTTA
* **
125054225 ATAAAAATTACAAAATATTATAAAAAAAC
1 ATAAAAATTACAAAACAAAAT-AAAAAAC
* * *
125054254 ATAAAATTTATAAAACAAAATAAAAAAT
1 ATAAAAATTACAAAACAAAATAAAAAAC
125054282 ATAAAAATT
1 ATAAAAATT
125054291 TATTAAGTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (28 bp):
ATAAAAATTACAAAACAAAATAAAAAAC
Found at i:125054264 original size:19 final size:18
Alignment explanation
Indices: 125054236--125054288 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
125054226 TAAAAATTAC
125054236 AAAATATTATAAAAAAACAT
1 AAAAT-TTATAAAAAAA-AT
125054256 AAAATTTATAAAACAAAAT
1 AAAATTTATAAAA-AAAAT
**
125054275 AAAAAATATAAAAA
1 AAAATTTATAAAAA
125054289 TTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATTTATAAAAAAAAT
Found at i:125058938 original size:17 final size:19
Alignment explanation
Indices: 125058909--125058956 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 19
125058899 AAAAATAATG
125058909 AAATATATATAAATTTA-A
1 AAATATATATAAATTTATA
125058927 AAATAT-TATAAATTTATA
1 AAATATATATAAATTTATA
125058945 AAA-ATATATAAA
1 AAATATATATAAA
125058957 AGTGCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATATATAAATTTATA
Found at i:125058955 original size:10 final size:10
Alignment explanation
Indices: 125058889--125058980 Score: 65
Period size: 9 Copynumber: 10.0 Consensus size: 10
125058879 TTAAAAATCG
125058889 TAAAAA-ATA
1 TAAAAATATA
125058898 TAAAAATA-A
1 TAAAAATATA
*
125058907 T-GAAATATA
1 TAAAAATATA
*
125058916 TATAAAT-T-
1 TAAAAATATA
125058924 TAAAAATAT-
1 TAAAAATATA
* *
125058933 TATAAATTTA
1 TAAAAATATA
125058943 TAAAAATATA
1 TAAAAATATA
* **
125058953 TAAAAGTGCA
1 TAAAAATATA
125058963 -AAAAAT-TA
1 TAAAAATATA
125058971 TAAAAATATA
1 TAAAAATATA
125058981 CTATAAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
8 12 0.19
9 30 0.47
10 22 0.34
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAATATA
Found at i:125059145 original size:17 final size:16
Alignment explanation
Indices: 125059118--125059156 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
125059108 TAAAAATTAC
125059118 AAAATATTATAAAAACAT
1 AAAA-ATTATAAAAA-AT
125059136 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
125059152 AAAAA
1 AAAAA
125059157 AAATGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:125059157 original size:17 final size:17
Alignment explanation
Indices: 125059107--125059157 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
125059097 AAGATTATTA
*
125059107 ATAAAAATTACAAAATATT
1 ATAAAAAATA-AAAA-ATT
125059126 ATAAAAACAT-AAAAATT
1 ATAAAAA-ATAAAAAATT
125059143 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
125059158 AATGAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 2 0.07
17 15 0.52
18 4 0.14
19 7 0.24
20 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAAATAAAAAATT
Found at i:125059158 original size:27 final size:27
Alignment explanation
Indices: 125059107--125059159 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
125059097 AAGATTATTA
* * *
125059107 ATAAAAATTACAAAATATTATAAAAAC
1 ATAAAAATTACAAAAAATAAAAAAAAC
*
125059134 ATAAAAATTATAAAAAATAAAAAAAA
1 ATAAAAATTACAAAAAATAAAAAAAA
125059160 TGAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (27 bp):
ATAAAAATTACAAAAAATAAAAAAAAC
Found at i:125060698 original size:19 final size:18
Alignment explanation
Indices: 125060650--125060716 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
125060640 TTTTATATTA
* *
125060650 AAAATAATATAAATATAT
1 AAAATTATAAAAATATAT
125060668 ACAAA-T-TAAAAATATTAT
1 A-AAATTATAAAAATA-TAT
*
125060686 AAATTTATAAAAATATAT
1 AAAATTATAAAAATATAT
*
125060704 AAAATTACAAAAA
1 AAAATTATAAAAA
125060717 AATAAGAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 9 0.22
18 20 0.50
19 11 0.28
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTATAAAAATATAT
Found at i:125060704 original size:10 final size:10
Alignment explanation
Indices: 125060643--125060707 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 10
125060633 TATGATATTT
125060643 TATATTAAAAA
1 TATA-TAAAAA
*
125060654 TA-ATATAAA
1 TATATAAAAA
*
125060663 TATAT-ACAA
1 TATATAAAAA
125060672 -AT-TAAAAA
1 TATATAAAAA
*
125060680 TAT-TATAAA
1 TATATAAAAA
*
125060689 TTTATAAAAA
1 TATATAAAAA
125060699 TATATAAAA
1 TATATAAAA
125060708 TTACAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 18 0.43
10 16 0.38
11 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
TATATAAAAA
Found at i:125060710 original size:26 final size:26
Alignment explanation
Indices: 125060646--125060708 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
125060636 GATATTTTAT
* *
125060646 ATTAAAAATAATATAAATATATACAA
1 ATTAAAAATATTATAAATATATAAAA
*
125060672 ATTAAAAATATTATAAATTTATAAAA
1 ATTAAAAATATTATAAATATATAAAA
125060698 ATATATAAAAT
1 AT-TA-AAAAT
125060709 TACAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 25 0.78
27 2 0.06
28 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTAAAAATATTATAAATATATAAAA
Found at i:125061743 original size:8 final size:9
Alignment explanation
Indices: 125061721--125061753 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
125061711 ATGATATTTT
125061721 ATAATAAAA
1 ATAATAAAA
125061730 ATAATAAAA
1 ATAATAAAA
125061739 A-AATATAAA
1 ATAATA-AAA
125061748 ATAATA
1 ATAATA
125061754 CTGATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 14 0.64
10 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAAAA
Found at i:125061750 original size:18 final size:18
Alignment explanation
Indices: 125061723--125061802 Score: 56
Period size: 18 Copynumber: 4.5 Consensus size: 18
125061713 GATATTTTAT
125061723 AATA-AAAATAATAAAAA
1 AATATAAAATAATAAAAA
***
125061740 AATATAAAATAATACTGA
1 AATATAAAATAATAAAAA
* *
125061758 TATATAAAA-ATTAAAAA
1 AATATAAAATAATAAAAA
* * *
125061775 TATTATAAATTTATAAAAA
1 -AATATAAAATAATAAAAA
*
125061794 CATATAAAA
1 AATATAAAA
125061803 GTGCAAAAAA
Statistics
Matches: 44, Mismatches: 16, Indels: 5
0.68 0.25 0.08
Matches are distributed among these distances:
17 8 0.18
18 30 0.68
19 6 0.14
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (18 bp):
AATATAAAATAATAAAAA
Found at i:125061820 original size:9 final size:9
Alignment explanation
Indices: 125061760--125061868 Score: 52
Period size: 9 Copynumber: 12.1 Consensus size: 9
125061750 AATACTGATA
125061760 TATAAAAAT
1 TATAAAAAT
125061769 TA-AAAATAT
1 TATAAAA-AT
*
125061778 TAT-AAATT
1 TATAAAAAT
*
125061786 TATAAAAACA
1 TATAAAAA-T
*
125061796 TATAAAAGT
1 TATAAAAAT
*
125061805 GCA-AAAAAT
1 -TATAAAAAT
125061814 TATAAAAAAT
1 TAT-AAAAAT
125061824 TATAAATGAA-
1 TATAAA--AAT
125061834 -AT-AAAA-
1 TATAAAAAT
*
125061840 TATATAAAT
1 TATAAAAAT
*
125061849 TATTAAAAT
1 TATAAAAAT
125061858 TATCAAAAAT
1 TAT-AAAAAT
125061868 T
1 T
125061869 GCAAAAAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 14 0.19
9 32 0.43
10 23 0.31
11 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:125061949 original size:19 final size:19
Alignment explanation
Indices: 125061922--125061975 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
125061912 TACAAAAAAT
125061922 AAAAA-ATTTAAATTAT-G
1 AAAAATATTTAAATTATAG
*
125061939 AAAAAATATTTAAAATATAG
1 -AAAAATATTTAAATTATAG
* *
125061959 AAAATTATTAAAATTAT
1 AAAAATATTTAAATTAT
125061976 TAATAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 5 0.17
19 24 0.80
20 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATTTAAATTATAG
Found at i:125062765 original size:15 final size:15
Alignment explanation
Indices: 125062745--125062774 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
125062735 ATAATATTAA
125062745 ATATATACATAATAT
1 ATATATACATAATAT
125062760 ATATATACATAATAT
1 ATATATACATAATAT
125062775 TAAAATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATACATAATAT
Found at i:125062789 original size:25 final size:26
Alignment explanation
Indices: 125062760--125062806 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
125062750 TACATAATAT
125062760 ATATATAC-ATA-ATATTA-AAATGA
1 ATATATACAATATATATTAGAAATGA
125062783 ATATATACAATATATATTAGAAAT
1 ATATATACAATATATATTAGAAAT
125062807 ATTAATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 6 0.29
26 4 0.19
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (26 bp):
ATATATACAATATATATTAGAAATGA
Found at i:125063288 original size:2 final size:2
Alignment explanation
Indices: 125063281--125063317 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
125063271 AAATTTAAAT
125063281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125063318 GTAACATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:125063484 original size:24 final size:26
Alignment explanation
Indices: 125063429--125063503 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 26
125063419 CATAATAATA
125063429 TATATATAATATAATATCAAAAAGATACG
1 TATATATAATAT-ATAT-AAAAAGATA-G
*
125063458 TATATGTAATATATATAAAAA-AT-G
1 TATATATAATATATATAAAAAGATAG
* *
125063482 TATACATAATATAGTATTAAAA
1 TATATATAATATA-TATAAAAA
125063504 TATTTACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.29
25 7 0.17
26 2 0.05
27 5 0.12
28 4 0.10
29 11 0.27
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.35
Consensus pattern (26 bp):
TATATATAATATATATAAAAAGATAG
Found at i:125063652 original size:12 final size:11
Alignment explanation
Indices: 125063635--125063693 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
125063625 TACTACTATT
125063635 AATAATAATAA
1 AATAATAATAA
125063646 GAATAAT-AT-A
1 -AATAATAATAA
*
125063656 AATAATAGTAA
1 AATAATAATAA
125063667 ATATAATAATATTA
1 A-ATAATAATA--A
*
125063681 AATAATATTAA
1 AATAATAATAA
125063692 AA
1 AA
125063694 GTGATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 7 0.18
12 14 0.36
13 8 0.21
14 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
AATAATAATAA
Found at i:125063674 original size:15 final size:15
Alignment explanation
Indices: 125063636--125063684 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
125063626 ACTACTATTA
*
125063636 ATAATAATAAGAATAAT
1 ATAATAAT-AGTA-AAT
125063653 ATAAATAATAGTAAAT
1 AT-AATAATAGTAAAT
*
125063669 ATAATAATATTAAAT
1 ATAATAATAGTAAAT
125063684 A
1 A
125063685 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.45
16 5 0.17
17 5 0.17
18 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAGTAAAT
Found at i:125064847 original size:23 final size:23
Alignment explanation
Indices: 125064781--125064883 Score: 136
Period size: 23 Copynumber: 4.5 Consensus size: 23
125064771 GGCTTGCTGT
* **
125064781 TGGGTTTTGGGTGTTTAATGT-GT
1 TGGGTTTTGGG-ATTTAATGTAAA
*
125064804 TGGGTTTTGGGGTTTAATGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
125064827 TGGGTTTTGGGATTTAATGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
* *
125064850 TGGGTTTTGAGATTTAGTGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
125064873 TGGGTTTTGGG
1 TGGGTTTTGGG
125064884 GTTGGGCTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
22 9 0.12
23 64 0.88
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (23 bp):
TGGGTTTTGGGATTTAATGTAAA
Found at i:125065897 original size:30 final size:30
Alignment explanation
Indices: 125065863--125065924 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
125065853 GAAGAACGGG
* *
125065863 GAAAGTATGAGCTAGAATCAGAAAGAAAGT
1 GAAAGTATGAGCGAGAATAAGAAAGAAAGT
* * *
125065893 GAAAGTGTGAGCGAGAATAAGAATGAGAGT
1 GAAAGTATGAGCGAGAATAAGAAAGAAAGT
125065923 GA
1 GA
125065925 GAATAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.32, T:0.16
Consensus pattern (30 bp):
GAAAGTATGAGCGAGAATAAGAAAGAAAGT
Found at i:125065943 original size:6 final size:6
Alignment explanation
Indices: 125065916--125066041 Score: 99
Period size: 6 Copynumber: 21.0 Consensus size: 6
125065906 AGAATAAGAA
* * * * *
125065916 TGAGAG TGAGAA TAAGAT TGAGAA TGAGAG TGTGAG TGAGAG TGAGAG
1 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG
* * * * * * * *
125065964 TGTGAG CGAGAA TAAGAA TGAGAA TGAAAA TGAGAG TGAGAG TGAGAG
1 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG
* * * *
125066012 TGAGAG TGTGAG CGAGAA TGAGAA TGAGAG
1 TGAGAG TGAGAG TGAGAG TGAGAG TGAGAG
125066042 ACACCACCCT
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.40, C:0.02, G:0.40, T:0.18
Consensus pattern (6 bp):
TGAGAG
Found at i:125065997 original size:54 final size:54
Alignment explanation
Indices: 125065924--125066040 Score: 189
Period size: 54 Copynumber: 2.2 Consensus size: 54
125065914 AATGAGAGTG
* * * *
125065924 AGAATAAGATTGAGAATGAGAGTGTGAGTGAGAGTGAGAGTGTGAGCGAGAATA
1 AGAATGAGAATGAAAATGAGAGTGAGAGTGAGAGTGAGAGTGTGAGCGAGAATA
*
125065978 AGAATGAGAATGAAAATGAGAGTGAGAGTGAGAGTGAGAGTGTGAGCGAGAATG
1 AGAATGAGAATGAAAATGAGAGTGAGAGTGAGAGTGAGAGTGTGAGCGAGAATA
125066032 AGAATGAGA
1 AGAATGAGA
125066041 GACACCACCC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.41, C:0.02, G:0.39, T:0.18
Consensus pattern (54 bp):
AGAATGAGAATGAAAATGAGAGTGAGAGTGAGAGTGAGAGTGTGAGCGAGAATA
Found at i:125071097 original size:21 final size:21
Alignment explanation
Indices: 125071073--125071144 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
125071063 CTTTCTGAAA
125071073 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* * * *
125071094 TGAAA-GATACTATGGCAACATGAT
1 TGAAATG-T-GTA-AG-ACCATGGT
125071118 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
125071140 TGAAA
1 TGAAA
125071145 GATACCATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 8 0.22
23 2 0.05
24 8 0.22
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:125071125 original size:46 final size:46
Alignment explanation
Indices: 125071072--125071196 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 46
125071062 GCTTTCTGAA
* *
125071072 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGACAACATGAC
* *
125071118 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGACAACATGAC
** *
125071164 ATGAAATGAATAAGACCATGTTTGAAAGATACT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACT
125071197 GTAACACCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGACAACATGAC
Found at i:125072846 original size:28 final size:28
Alignment explanation
Indices: 125072808--125072914 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
125072798 GAATCATTCG
* *
125072808 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
125072836 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
125072864 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
125072892 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
125072915 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:125077907 original size:28 final size:28
Alignment explanation
Indices: 125077873--125078082 Score: 172
Period size: 28 Copynumber: 7.5 Consensus size: 28
125077863 AACCGATCTT
***
125077873 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
125077901 GCACACACA-TGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
**
125077929 GCACACACAGTGCTCGGTTACGGAAC-C
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
125077956 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
*** *
125077985 GCACACACAGTGCTTGGTTATGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
* ** * *
125078013 GTACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
125078042 GCACACACAGTGCTCAATTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
*
125078070 ACACACACAGTGC
1 GCACACACAGTGC
125078083 CTATGTTCAC
Statistics
Matches: 135, Mismatches: 42, Indels: 10
0.72 0.22 0.05
Matches are distributed among these distances:
27 15 0.11
28 86 0.64
29 34 0.25
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCAATTACGGAACTC
Found at i:125078046 original size:57 final size:57
Alignment explanation
Indices: 125077843--125078084 Score: 371
Period size: 56 Copynumber: 4.2 Consensus size: 57
125077833 GATCTCATTT
* * *
125077843 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
125077902 CACACACA-TGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC-CG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
125077957 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTATGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* ** *
125078014 TACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
125078071 CACACACAGTGCCT
1 CACACACAGTGCCT
125078085 ATGTTCACTT
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
55 10 0.06
56 85 0.50
57 67 0.40
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:125080085 original size:26 final size:26
Alignment explanation
Indices: 125080056--125080115 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
125080046 TCCCTTTGAA
* * *
125080056 TCATTCGATATTTTACACACTAAGTG
1 TCATTCAATATCTCACACACTAAGTG
*
125080082 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCACACACTAAGTG
125080110 TCATTC
1 TCATTC
125080116 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCACACACTAAGTG
Found at i:125080102 original size:28 final size:28
Alignment explanation
Indices: 125080071--125080164 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
125080061 CGATATTTTA
*
125080071 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGTCATTCTCAATATTTCG
125080099 CACACTAAGTGTCATTCTCAATATTTCG
1 CACACTAAGTGTCATTCTCAATATTTCG
* * *
125080127 TACACTAGGTGCCATTCTCAATATTTCG
1 CACACTAAGTGTCATTCTCAATATTTCG
*
125080155 TACACTAAGT
1 CACACTAAGT
125080165 ACCATATTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAATATTTCG
Found at i:125081718 original size:46 final size:46
Alignment explanation
Indices: 125081645--125081742 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
125081635 GGGCTGTTAC
* * *
125081645 AGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
1 AGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAA
* *
125081691 AGATACCATGGCAACATGACAGAAAATGAGTCAGACCATAGTTGAA
1 AGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAA
125081737 AGATAC
1 AGATAC
125081743 TGTCAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (46 bp):
AGATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAA
Found at i:125084368 original size:26 final size:26
Alignment explanation
Indices: 125084339--125084454 Score: 142
Period size: 26 Copynumber: 4.2 Consensus size: 26
125084329 TGGTACAAAT
125084339 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125084365 TGATAATGGATTAGGTAAATATTCCATGATTCCA
1 TGATAATGGGTTAGGT--A-A----ATG-TTCCA
125084399 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125084425 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125084451 TGAT
1 TGAT
125084455 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
26 49 0.62
27 3 0.04
28 1 0.01
29 1 0.01
31 1 0.01
32 1 0.01
33 3 0.04
34 20 0.25
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:125084403 original size:34 final size:34
Alignment explanation
Indices: 125084360--125084428 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
125084350 TAGGTAAATG
125084360 TTCCATGATAATGGATTAGGTAAATATTCCATGA
1 TTCCATGATAATGGATTAGGTAAATATTCCATGA
* *
125084394 TTCCATGATAATGGGTTAGGTAAATGTTCCATGA
1 TTCCATGATAATGGATTAGGTAAATATTCCATGA
125084428 T
1 T
125084429 AATGGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (34 bp):
TTCCATGATAATGGATTAGGTAAATATTCCATGA
Found at i:125084432 original size:60 final size:60
Alignment explanation
Indices: 125084339--125084454 Score: 214
Period size: 60 Copynumber: 1.9 Consensus size: 60
125084329 TGGTACAAAT
125084339 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATTCCA
* *
125084399 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGAT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGAT
125084455 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (60 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATTCCA
Found at i:125091302 original size:19 final size:19
Alignment explanation
Indices: 125091265--125091321 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
125091255 ATTAAAAAAA
125091265 AAAATATAAAAAT--T-A-
1 AAAATATAAAAATGGTAAT
*
125091280 AAAATATTAGAAATGG-AAT
1 AAAATA-TAAAAATGGTAAT
125091299 AAAATATAAAAATGGTAAT
1 AAAATATAAAAATGGTAAT
125091318 AAAA
1 AAAA
125091322 CATTGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
18 9 0.26
19 13 0.38
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (19 bp):
AAAATATAAAAATGGTAAT
Found at i:125091394 original size:18 final size:18
Alignment explanation
Indices: 125091371--125091483 Score: 63
Period size: 18 Copynumber: 6.1 Consensus size: 18
125091361 TACAAAAAAT
125091371 AAAAATTATAAAATTATA
1 AAAAATTATAAAATTATA
*
125091389 AAAAATT-TAAAA-CATA
1 AAAAATTATAAAATTATA
* * *
125091405 GATAATTATTAAAATTGTTA
1 AAAAATTA-TAAAATT-ATA
*
125091425 ATAAAATT-TAAAAATAGTA
1 A-AAAATTATAAAATTA-TA
**
125091444 CAAAAAGCATAAAAATTATA
1 -AAAAATTAT-AAAATTATA
*
125091464 AAAAAATA-AAAATATATA
1 AAAAATTATAAAAT-TATA
125091482 AA
1 AA
125091484 TTTATTAAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
16 8 0.11
17 10 0.14
18 18 0.25
19 18 0.25
20 6 0.08
21 11 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAATTATA
Found at i:125091433 original size:37 final size:33
Alignment explanation
Indices: 125091365--125091441 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 33
125091355 ATAAATTACA
*
125091365 AAAAATA-AAAATTATAAAATTATAAAAAATTT
1 AAAAATAGATAATTATAAAATTATAAAAAATTT
*
125091397 AAAACATAGATAATTATTAAAATTGTTAATAAAATTT
1 AAAA-ATAGATAATTA-TAAAATT-ATAA-AAAATTT
125091434 AAAAATAG
1 AAAAATAG
125091442 TACAAAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 4 0.11
33 3 0.08
34 6 0.16
35 7 0.18
36 7 0.18
37 11 0.29
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (33 bp):
AAAAATAGATAATTATAAAATTATAAAAAATTT
Found at i:125097682 original size:22 final size:22
Alignment explanation
Indices: 125097657--125097701 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
125097647 CTATGCGGGT
125097657 TGCACTTTAAGTTCGTATGACA
1 TGCACTTTAAGTTCGTATGACA
125097679 TGCACTTTAAGTTCGTATGACA
1 TGCACTTTAAGTTCGTATGACA
125097701 T
1 T
125097702 TGATAGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (22 bp):
TGCACTTTAAGTTCGTATGACA
Found at i:125099920 original size:12 final size:12
Alignment explanation
Indices: 125099903--125099928 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
125099893 AGAAGAGGAC
125099903 TTTAGCGGCGTT
1 TTTAGCGGCGTT
125099915 TTTAGCGGCGTT
1 TTTAGCGGCGTT
125099927 TT
1 TT
125099929 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:125100020 original size:41 final size:40
Alignment explanation
Indices: 125099963--125100117 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
125099953 AAAACACAGG
*
125099963 GCAATAGCGGCGTTTTTCTTAAAATGCCGCTAAAAACTGT
1 GCAATAGCGGCGTTTTTCTTAAAACGCCGCTAAAAACTGT
* * *
125100003 GCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAACAGA
1 GCAATAGCGGCG-TTTTTCTTAAAACGCCGCTAAAAACTGT
* * * ** * * * *
125100044 ACATTAGCGGCGGTTTTGGTAAAACACCACTAAAAACAGA
1 GCAATAGCGGCGTTTTTCTTAAAACGCCGCTAAAAACTGT
* * **
125100084 GCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 GCAATAGCGGCGTTTTTCTTAAAACGCCGCTAAA
125100118 GACCAGAGCA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 66 0.66
41 34 0.34
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (40 bp):
GCAATAGCGGCGTTTTTCTTAAAACGCCGCTAAAAACTGT
Found at i:125100141 original size:41 final size:40
Alignment explanation
Indices: 125099952--125100241 Score: 319
Period size: 41 Copynumber: 7.1 Consensus size: 40
125099942 GCAAAAATTG
* * * ** *
125099952 TAAAACACAGGGCAATAGCGGCGTTTTTCTTAAAATGCCGC
1 TAAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * * * * *
125099993 TAAAAACTGTGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAACCAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGC
* * * * *
125100034 TAAAAACAGAACATTAGCGGCGGTTTTGGTAAAACACCAC
1 TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
125100074 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
125100114 TAAAGACCAGAGCATTAGCGGCTCTTTTGGTAAAACGACGC
1 TAAA-ACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
125100155 TAGAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGC
1 TA-AAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* *
125100196 GAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAA-ACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
125100237 TAAAA
1 TAAAA
125100242 GTCATATAAC
Statistics
Matches: 217, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
40 71 0.33
41 144 0.66
42 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (40 bp):
TAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:125100982 original size:13 final size:13
Alignment explanation
Indices: 125100966--125100992 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
125100956 TAATTTCACA
125100966 ACTGAATTAATAT
1 ACTGAATTAATAT
125100979 ACTGAATTAATAT
1 ACTGAATTAATAT
125100992 A
1 A
125100993 TTTGATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTGAATTAATAT
Found at i:125105230 original size:84 final size:83
Alignment explanation
Indices: 125105090--125105245 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 83
125105080 GCGTTTGTGA
* * * ** ** *
125105090 GAAAAGTGTCGCTAAAAGTCATGTCTTTAGTGGCGTTTGTATGAAAAGTGCCGCTAAAGGTAATG
1 GAAAAGCGCCGCTAAAAGTCATGTCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAGTAATG
125105155 GACTTTAGTGGAAAATAG
66 GACTTTAGTGGAAAATAG
* * *
125105173 GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAACGTCGCTAAAAGTCAT
1 GAAAAGCGCCGCTAAAAGTCAT-GTCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAGTAAT
*
125105238 GGTCTTTA
65 GGACTTTA
125105246 ACGGCATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
83 19 0.32
84 41 0.68
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (83 bp):
GAAAAGCGCCGCTAAAAGTCATGTCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAGTAATG
GACTTTAGTGGAAAATAG
Found at i:125123195 original size:6 final size:6
Alignment explanation
Indices: 125123184--125123214 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
125123174 TAACATTGTA
*
125123184 CCATAT CCATAT CCATAT CCATAT CTATAT C
1 CCATAT CCATAT CCATAT CCATAT CCATAT C
125123215 AAGATCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (6 bp):
CCATAT
Found at i:125126178 original size:7 final size:7
Alignment explanation
Indices: 125126166--125126199 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
125126156 CTTTCAACAA
125126166 ATTTAAT
1 ATTTAAT
125126173 ATTTAAT
1 ATTTAAT
*
125126180 ATTTAGT
1 ATTTAAT
125126187 ATTTAAT
1 ATTTAAT
125126194 ATTTAA
1 ATTTAA
125126200 CAAACTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
ATTTAAT
Found at i:125132154 original size:22 final size:21
Alignment explanation
Indices: 125132129--125132199 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 21
125132119 TATTATTAAT
125132129 TTTAAAATTTTTGAAATATATA
1 TTTAAAATTTTT-AAATATATA
125132151 TTTAAAATATTTTATTAATATATA
1 TTTAAAAT-TTTTA--AATATATA
*
125132175 TTTTTTAAA-TTTTAAATATATA
1 --TTTAAAATTTTTAAATATATA
125132197 TTT
1 TTT
125132200 TGAAATTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 3 0.07
22 17 0.40
23 4 0.09
24 13 0.30
26 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTTAAATATATA
Found at i:125132168 original size:13 final size:13
Alignment explanation
Indices: 125132135--125132184 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
125132125 TAATTTTAAA
*
125132135 ATTTTTGAAATAT
1 ATTTTTTAAATAT
*
125132148 A-TATTTAAA-AT
1 ATTTTTTAAATAT
125132159 ATTTTATTAATATAT
1 ATTTT-TTAA-ATAT
125132174 ATTTTTTAAAT
1 ATTTTTTAAAT
125132185 TTTAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 7 0.23
14 5 0.17
15 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTTTTTAAATAT
Found at i:125132190 original size:34 final size:33
Alignment explanation
Indices: 125132151--125132246 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 33
125132141 GAAATATATA
125132151 TTTAAA-ATATTTTATTAATATATATTTTTTAAAT
1 TTTAAATATATTTT-TTAATAT-TATTTTTTAAAT
* *
125132185 TTTAAATATATATTTTGAA-ATTACTTTTTTAATT
1 TTTAAATATAT-TTTTTAATATTA-TTTTTTAAAT
125132219 TTTAAATATTATTTTTTTAATATTATTT
1 TTTAAATA-TA-TTTTTTAATATTATTT
125132247 GTTATTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
33 2 0.04
34 25 0.47
35 18 0.34
36 8 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTAAATATATTTTTTAATATTATTTTTTAAAT
Found at i:125132195 original size:20 final size:22
Alignment explanation
Indices: 125132165--125132206 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
125132155 AAATATTTTA
*
125132165 TTAATATATAT-TTTTTAAATT
1 TTAATATATATATTTTGAAATT
125132186 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
125132207 ACTTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:125132219 original size:20 final size:21
Alignment explanation
Indices: 125132196--125132239 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
125132186 TTAAATATAT
*
125132196 ATTTTGAA-ATTACTTTTTTA
1 ATTTTAAATATTACTTTTTTA
*
125132216 ATTTTTAAATATTATTTTTTTA
1 A-TTTTAAATATTACTTTTTTA
125132238 AT
1 AT
125132240 ATTATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.05
21 7 0.35
22 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTTA
Found at i:125132240 original size:14 final size:14
Alignment explanation
Indices: 125132217--125132246 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
125132207 ACTTTTTTAA
125132217 TTTTTAAATATTAT
1 TTTTTAAATATTAT
*
125132231 TTTTTTAATATTAT
1 TTTTTAAATATTAT
125132245 TT
1 TT
125132247 GTTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTAAATATTAT
Found at i:125132310 original size:17 final size:17
Alignment explanation
Indices: 125132285--125132347 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
125132275 ATTTAATTTT
*
125132285 TTTATAATATTTGAAAG
1 TTTAAAATATTTGAAAG
125132302 TTTAAAATATTT-AAA-
1 TTTAAAATATTTGAAAG
* *
125132317 TATTAAAAAAAATTGAAAG
1 T-TT-AAAATATTTGAAAG
125132336 TTTAAAATATTT
1 TTTAAAATATTT
125132348 AAATATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 25 0.68
18 5 0.14
19 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TTTAAAATATTTGAAAG
Found at i:125132335 original size:34 final size:34
Alignment explanation
Indices: 125132295--125132360 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
125132285 TTTATAATAT
125132295 TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
1 TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
125132329 TTGAAAGTTTAAAATATTTAAATATTAAAAAA
1 TTGAAAGTTTAAAATATTTAAATATTAAAAAA
125132361 TAATATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (34 bp):
TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
Found at i:125132360 original size:18 final size:18
Alignment explanation
Indices: 125132305--125132362 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
125132295 TTGAAAGTTT
125132305 AAAATATTTAAATATTAA
1 AAAATATTTAAATATTAA
* *
125132323 AAAAAATTGAAAGT-TT--
1 AAAATATTTAAA-TATTAA
125132339 AAAATATTTAAATATTAA
1 AAAATATTTAAATATTAA
125132357 AAAATA
1 AAAATA
125132363 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
18 18 0.56
19 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATATTTAAATATTAA
Found at i:125132378 original size:22 final size:23
Alignment explanation
Indices: 125132341--125132397 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
125132331 GAAAGTTTAA
125132341 AATATTT-AAATATTAAAAAA-T
1 AATATTTAAAATATTAAAAAAGT
*
125132362 AATATTTAAAATTTTAAAAAAGT
1 AATATTTAAAATATTAAAAAAGT
*
125132385 AAT-TTCAAAATAT
1 AATATTTAAAATAT
125132398 ATATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 20 0.65
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATATTTAAAATATTAAAAAAGT
Found at i:125132441 original size:34 final size:33
Alignment explanation
Indices: 125132350--125132441 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 33
125132340 AAATATTTAA
125132350 ATATTAAAAAATAATATTTAAAATTTTAAAAAAGT
1 ATATTAAAAAAT-AT-TTTAAAATTTTAAAAAAGT
125132385 A-ATTTCAAAATATATATTTTAAAATTTTAAAAATA-T
1 ATA-TT-AAAA-A-ATATTTTAAAATTTTAAAAA-AGT
125132421 ATATTAATAAAATATTTTAAA
1 ATATTAA-AAAATATTTTAAA
125132442 TATATATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
34 11 0.22
35 6 0.12
36 26 0.52
37 5 0.10
38 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
ATATTAAAAAATATTTTAAAATTTTAAAAAAGT
Found at i:125132465 original size:23 final size:23
Alignment explanation
Indices: 125132385--125132465 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
125132375 TTAAAAAAGT
* **
125132385 AATTTCAAAATATATAT-TTTAA
1 AATTTTAAAATATATATATAAAA
125132407 AATTTTAAAA-ATATATATTAATAA
1 AATTTTAAAATATATATA-TAA-AA
*
125132431 AATATTTTAAATATATATATAAAA
1 AAT-TTTAAAATATATATATAAAA
125132455 AATTTTAAAAT
1 AATTTTAAAAT
125132466 TAATAATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.12
22 9 0.18
23 8 0.16
24 10 0.20
25 9 0.18
26 7 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAAAATATATATATAAAA
Found at i:125132465 original size:47 final size:47
Alignment explanation
Indices: 125132392--125132481 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
125132382 AGTAATTTCA
** *
125132392 AAATATATATTTTAAAATTTTAAAAA-TATATATTAATAAAATATTTT
1 AAATATATATTAAAAAATTTTAAAAATTA-ATAATAATAAAATATTTT
125132439 AAATATATATATAAAAAATTTT-AAAATTAATAATAATAAAATA
1 AAATATATAT-TAAAAAATTTTAAAAATTAATAATAATAAAATA
125132482 AATAAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
47 27 0.71
48 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (47 bp):
AAATATATATTAAAAAATTTTAAAAATTAATAATAATAAAATATTTT
Found at i:125132474 original size:22 final size:23
Alignment explanation
Indices: 125132405--125132480 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 23
125132395 TATATATTTT
125132405 AAAATTTTAAAAATATATATTAATAA
1 AAAATTTT-AAAAT-TATA-TAATAA
*
125132431 AATATTTT-AAA-TATATATATAA
1 AAAATTTTAAAATTATATA-ATAA
125132453 AAAATTTTAAAATTA-ATAATAA
1 AAAATTTTAAAATTATATAATAA
125132475 TAAAAT
1 -AAAAT
125132481 AAATAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
21 2 0.05
22 19 0.43
23 11 0.25
24 5 0.11
26 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATTTTAAAATTATATAATAA
Found at i:125134418 original size:16 final size:17
Alignment explanation
Indices: 125134385--125134426 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
125134375 ATTTTTATTA
*
125134385 AATTATATT-TAATAAT
1 AATTATATTAAAATAAT
125134401 AATTATATTAAAAT-AT
1 AATTATATTAAAATAAT
*
125134417 AATTAAATTA
1 AATTATATTA
125134427 TTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTAAAATAAT
Found at i:125134435 original size:26 final size:27
Alignment explanation
Indices: 125134371--125134435 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
125134361 TATTATAGAT
* *
125134371 TATTATTT-TTATTAAATTATATTTAA
1 TATTATTTATTATTAAAATATAATTAA
* *
125134397 TAATAATTA-TATTAAAATATAATTAA
1 TATTATTTATTATTAAAATATAATTAA
125134423 -ATTATTTATTATT
1 TATTATTTATTATT
125134436 TTTTTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTATTTATTATTAAAATATAATTAA
Found at i:125134574 original size:16 final size:16
Alignment explanation
Indices: 125134553--125134605 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
125134543 ATTATTGATG
*
125134553 ACAATTTTATTTCGTT
1 ACAATTTTATTTCATT
125134569 ACAATTTTATTTCATT
1 ACAATTTTATTTCATT
* *
125134585 ATAGTTTTATTTCATT
1 ACAATTTTATTTCATT
125134601 ACAAT
1 ACAAT
125134606 AGATTTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (16 bp):
ACAATTTTATTTCATT
Found at i:125136928 original size:29 final size:29
Alignment explanation
Indices: 125136894--125136951 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
125136884 ACACCATTAA
*
125136894 GTAGCCTAGTAACTTTAAAAACATTGCTT
1 GTAGCCTAGTAACTTTAAAAACAATGCTT
*
125136923 GTAGCCTAGTAATTTTAAAAACAATGCTT
1 GTAGCCTAGTAACTTTAAAAACAATGCTT
125136952 ATACATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (29 bp):
GTAGCCTAGTAACTTTAAAAACAATGCTT
Found at i:125139284 original size:15 final size:15
Alignment explanation
Indices: 125139266--125139300 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
125139256 TCATACAAAC
125139266 ACAAATAAATCTTAA
1 ACAAATAAATCTTAA
*
125139281 ACAAATAAATTTTAA
1 ACAAATAAATCTTAA
125139296 ACAAA
1 ACAAA
125139301 GTGACATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (15 bp):
ACAAATAAATCTTAA
Found at i:125141232 original size:25 final size:25
Alignment explanation
Indices: 125141204--125141254 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
125141194 TGAAGAAGAT
125141204 AGTTTAACACATTTGATGTCAATGG
1 AGTTTAACACATTTGATGTCAATGG
125141229 AGTTTAACACATTTGATGTCAATGG
1 AGTTTAACACATTTGATGTCAATGG
125141254 A
1 A
125141255 AAAAAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (25 bp):
AGTTTAACACATTTGATGTCAATGG
Found at i:125141698 original size:30 final size:29
Alignment explanation
Indices: 125141617--125141708 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
125141607 TTCTCACTCA
* *
125141617 CACTCCCATTCTCACCCTTATTCTCGCTCA
1 CACTCTCATTCTCACCCTTATTCTCGCT-T
*
125141647 CACTCTCATTCTCA--C----TGTCGCTT
1 CACTCTCATTCTCACCCTTATTCTCGCTT
125141670 GCACTCTCATTCTCACCCTTATTCTCGCTCT
1 -CACTCTCATTCTCACCCTTATTCTCGCT-T
125141701 CACTCTCA
1 CACTCTCA
125141709 CTCTTTTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
24 20 0.40
26 1 0.02
28 1 0.02
30 27 0.54
31 1 0.02
ACGTcount: A:0.15, C:0.43, G:0.05, T:0.36
Consensus pattern (29 bp):
CACTCTCATTCTCACCCTTATTCTCGCTT
Found at i:125141701 original size:6 final size:6
Alignment explanation
Indices: 125141608--125141790 Score: 71
Period size: 6 Copynumber: 30.5 Consensus size: 6
125141598 TCATTTTCAT
* * * * * * * * *
125141608 TCTCAC TCACAC TCCCAT TCTCAC CCTTAT TCTCGC TCACAC TCTCAT
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
* * * * * * *
125141656 TCTCAC TGTCGC T-TGCAC TCTCAT TCTCAC CCTTAT TCTCGC TCTCAC
1 TCTCAC TCTCAC TCT-CAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
*** * * * * * *
125141704 TCTCAC TCTTTT TCTCTC TCACAC TCTTAT TCTTAC TCTCAC TCTCAT
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC
* * * * * *
125141752 TCTTAT TCTCTC TCACAC TCTCAT TCTCAC TCTCTC TCT
1 TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCTCAC TCT
125141791 TGTTCGCAGC
Statistics
Matches: 122, Mismatches: 53, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
5 1 0.01
6 120 0.98
7 1 0.01
ACGTcount: A:0.15, C:0.42, G:0.03, T:0.41
Consensus pattern (6 bp):
TCTCAC
Found at i:125141729 original size:54 final size:54
Alignment explanation
Indices: 125141595--125141736 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
125141585 CTTATTGCGT
* * *
125141595 CTCTCATTTTCATTCTCACTCACACTCCCATTCTCACCCTTATTCTCGCTCACA
1 CTCTCACTCTCATTCTCACTCACACTCTCATTCTCACCCTTATTCTCGCTCACA
* * * * ** *
125141649 CTCTCATTCTCACTGTCGCTTGCACTCTCATTCTCACCCTTATTCTCGCTCTCA
1 CTCTCACTCTCATTCTCACTCACACTCTCATTCTCACCCTTATTCTCGCTCACA
** * *
125141703 CTCTCACTCTTTTTCTCTCTCACACTCTTATTCT
1 CTCTCACTCTCATTCTCACTCACACTCTCATTCT
125141737 TACTCTCACT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.15, C:0.41, G:0.04, T:0.41
Consensus pattern (54 bp):
CTCTCACTCTCATTCTCACTCACACTCTCATTCTCACCCTTATTCTCGCTCACA
Found at i:125141775 original size:24 final size:24
Alignment explanation
Indices: 125141687--125141789 Score: 101
Period size: 24 Copynumber: 4.5 Consensus size: 24
125141677 CATTCTCACC
* * *
125141687 CTTATTCTCGCTCTCACTCTCACT
1 CTTATTCTCTCTCACACTCTCATT
* *
125141711 CTTTTTCTCTCTCACACTCTTATT
1 CTTATTCTCTCTCACACTCTCATT
125141735 CTTA----CTCT--CACTCTCATT
1 CTTATTCTCTCTCACACTCTCATT
125141753 CTTATTCTCTCTCACACTCTCATT
1 CTTATTCTCTCTCACACTCTCATT
* *
125141777 CTCACTCTCTCTC
1 CTTATTCTCTCTC
125141790 TTGTTCGCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.20
20 4 0.06
22 4 0.06
24 43 0.67
ACGTcount: A:0.14, C:0.40, G:0.01, T:0.46
Consensus pattern (24 bp):
CTTATTCTCTCTCACACTCTCATT
Found at i:125141778 original size:42 final size:42
Alignment explanation
Indices: 125141608--125141790 Score: 164
Period size: 42 Copynumber: 4.5 Consensus size: 42
125141598 TCATTTTCAT
* * * * * *
125141608 TCTCACTCACACTCCCATTCTCACCCTTATTCTCGCTCACAC
1 TCTCATTCTCACTCTCACTCTCACTCTTATTCTCTCTCACAC
* * *
125141650 TCTCATTCTCACTGTCGCT-TGCACTCTCA---T-TCTCAC-C
1 TCTCATTCTCACTCTCACTCT-CACTCTTATTCTCTCTCACAC
* * *
125141687 -CTTATTCTCGCTCTCACTCTCACTCTTTTTCTCTCTCACAC
1 TCTCATTCTCACTCTCACTCTCACTCTTATTCTCTCTCACAC
* * *
125141728 TCTTATTCTTACTCTCACTCTCATTCTTATTCTCTCTCACAC
1 TCTCATTCTCACTCTCACTCTCACTCTTATTCTCTCTCACAC
*
125141770 TCTCATTCTCACTCTCTCTCT
1 TCTCATTCTCACTCTCACTCT
125141791 TGTTCGCAGC
Statistics
Matches: 111, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
36 20 0.18
37 2 0.02
38 5 0.05
39 2 0.02
40 6 0.05
41 2 0.02
42 74 0.67
ACGTcount: A:0.15, C:0.42, G:0.03, T:0.41
Consensus pattern (42 bp):
TCTCATTCTCACTCTCACTCTCACTCTTATTCTCTCTCACAC
Found at i:125141786 original size:66 final size:66
Alignment explanation
Indices: 125141672--125141845 Score: 168
Period size: 66 Copynumber: 2.6 Consensus size: 66
125141662 TGTCGCTTGC
* ** * * *** ** ** *
125141672 ACTCTCATTCTCACCCTTATTCTCGCTCTCACTCTCACTCTTTTTCTCTCTCACACTCTTATTCT
1 ACTCTCACTCTCATTCTTATTCTCGCTCACACTCTCATTCTCACTCTCTCTCACACTCGCAGCCC
125141737 T
66 T
* ****
125141738 ACTCTCACTCTCATTCTTATTCTCTCTCACACTCTCATTCTCACTCTCTCTCTTGTTCGCAGCCC
1 ACTCTCACTCTCATTCTTATTCTCGCTCACACTCTCATTCTCACTCTCTCTCACACTCGCAGCCC
125141803 T
66 T
* *
125141804 ATTCTCACTCTCATTCTTATTCTGGCTCACACTCTCATTCTC
1 ACTCTCACTCTCATTCTTATTCTCGCTCACACTCTCATTCTC
125141846 GTTCTTCATC
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 87 1.00
ACGTcount: A:0.14, C:0.39, G:0.03, T:0.43
Consensus pattern (66 bp):
ACTCTCACTCTCATTCTTATTCTCGCTCACACTCTCATTCTCACTCTCTCTCACACTCGCAGCCC
T
Found at i:125143468 original size:37 final size:36
Alignment explanation
Indices: 125143417--125143497 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
125143407 CTTTTTATAG
125143417 TATTTTGTAAA-TTTTATTAACAATTTTAACAATTTCT
1 TATTTT-TAAATTTTTATTAACAATTTT-ACAATTTCT
* * * *
125143454 TATTTTTAACATTTTTTTTCATAATTTTACAATTTTT
1 TATTTTTAA-ATTTTTATTAACAATTTTACAATTTCT
125143491 TATTTTT
1 TATTTTT
125143498 TGTAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 3 0.08
37 22 0.58
38 13 0.34
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (36 bp):
TATTTTTAAATTTTTATTAACAATTTTACAATTTCT
Found at i:125143550 original size:24 final size:23
Alignment explanation
Indices: 125143486--125143575 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 23
125143476 AATTTTACAA
*
125143486 TTTTTT-ATTTTTTGTAATTTATAT
1 TTTTTTAATTTTTTAT-ATTTAT-T
*
125143510 TTTTTTATTTTAATTTATATTTATT
1 TTTTTTAATTT--TTTATATTTATT
125143535 TTTTTTCAATTTTTTATATTTTATT
1 TTTTTT-AATTTTTTATA-TTTATT
*
125143560 TCATTTATAATTTTTT
1 T--TTTTTAATTTTTT
125143576 GCACTTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
24 12 0.22
25 17 0.31
26 18 0.33
27 8 0.15
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (23 bp):
TTTTTTAATTTTTTATATTTATT
Done.