Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 292 of 356
Found at i:95099031 original size:42 final size:42
Alignment explanation
Indices: 95098984--95099070 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
95098974 TGGCCCTTAG
** * *
95098984 GCCCATTTCAATATCACATGAAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95099026 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95099068 GCC
1 GCC
95099071 ATTGGGGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:95099260 original size:25 final size:25
Alignment explanation
Indices: 95099219--95099289 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
95099209 GCCTATTTTA
* *
95099219 ATAAA-TGGGACAAAGCCC-TTTCTG
1 ATAAACTGGGGCAGAGCCCTTTTC-G
95099243 ATAAACTGGGGCAGAGCCCTTTTCG
1 ATAAACTGGGGCAGAGCCCTTTTCG
*
95099268 GTAAACTGGGGCAGAG-CCTTTT
1 ATAAACTGGGGCAGAGCCCTTTT
95099290 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 11 0.26
25 27 0.64
26 4 0.10
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (25 bp):
ATAAACTGGGGCAGAGCCCTTTTCG
Found at i:95099343 original size:16 final size:16
Alignment explanation
Indices: 95099322--95099352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95099312 CCCATATCCC
*
95099322 ATGCAGTATGTCATGT
1 ATGCAGAATGTCATGT
95099338 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
95099353 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:95102102 original size:42 final size:42
Alignment explanation
Indices: 95102055--95102146 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
95102045 TGGCCCTTAG
** * *
95102055 GCCCATTTCAATATCACATGAAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95102097 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95102139 GCCCATTT
1 GCCCATTT
95102147 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:95105166 original size:42 final size:42
Alignment explanation
Indices: 95105119--95105210 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
95105109 TGGCCCTTAG
** * *
95105119 GCCCATTTCAATATCACATGAAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95105161 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95105203 GCCCATTT
1 GCCCATTT
95105211 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:95105456 original size:16 final size:16
Alignment explanation
Indices: 95105435--95105465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95105425 CCCATATCCC
*
95105435 ATGCAGTATGTCATGT
1 ATGCAGAATGTCATGT
95105451 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
95105466 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:95108166 original size:31 final size:31
Alignment explanation
Indices: 95108117--95108193 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
95108107 TTTAACAATT
*
95108117 ACTGGGCC-AAACCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
95108147 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
95108178 ACTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
95108194 AGGCCCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 8 0.18
31 36 0.82
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:95111287 original size:42 final size:42
Alignment explanation
Indices: 95111225--95111316 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
95111215 AGGCCCTTAG
* ** *
95111225 GCCCATTTCAATATCCCATGAAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95111267 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95111309 GCCCATTT
1 GCCCATTT
95111317 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:95111492 original size:25 final size:24
Alignment explanation
Indices: 95111464--95111533 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
95111454 CTCTTTTAAT
*
95111464 AACTGGGACAAAGCCC-TTTCTGATA
1 AACTGGG-CAGAGCCCTTTTC-GATA
95111489 AACTGGGGCAGAGCCCTTTTCGATA
1 AACT-GGGCAGAGCCCTTTTCGATA
95111514 AACTAGGGCAGAGCCCTTTT
1 AACT-GGGCAGAGCCCTTTT
95111534 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 34 0.83
26 7 0.17
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (24 bp):
AACTGGGCAGAGCCCTTTTCGATA
Found at i:95111587 original size:16 final size:16
Alignment explanation
Indices: 95111566--95111596 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95111556 CCCATATCTC
95111566 ATGCAGAATGTCATGT
1 ATGCAGAATGTCATGT
95111582 ATGCAGAATGTCATG
1 ATGCAGAATGTCATG
95111597 CCCATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGAATGTCATGT
Found at i:95113045 original size:28 final size:28
Alignment explanation
Indices: 95112991--95113079 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
95112981 TTACAATGAC
*
95112991 TATAAATGTGATTTAGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* *
95113020 TATAAATGTGAATGGGCCTATTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
* * *
95113048 TATGAAA-GAGATTGGGCCTAGTGGGCTA
1 TAT-AAATGTGATTGGGCCTAATGGGCCA
95113076 TATA
1 TATA
95113080 TATATAGGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 37 0.71
29 14 0.27
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:95116541 original size:15 final size:15
Alignment explanation
Indices: 95116521--95116585 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
95116511 GTATCTTGGG
95116521 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
95116536 TTTCTTTGTTCTGGG
1 TTTCTTTATTCTGGA
95116551 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
95116566 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
95116580 TTTCTT
1 TTTCTT
95116586 GTTATCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.08, C:0.14, G:0.15, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:95116553 original size:30 final size:31
Alignment explanation
Indices: 95116517--95116585 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
95116507 TATCGTATCT
*
95116517 TGGGTTTCTT-TAT-TCTGGATTTCTTTGTTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
95116547 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
95116577 -GGTTTTCTT
1 TGGGTTTCTT
95116586 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:95118383 original size:101 final size:99
Alignment explanation
Indices: 95118238--95118424 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
95118228 ATGATCTATT
* * * *
95118238 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACGTG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTA-CC--AAACTGTTGATCACATG
95118302 TGTAGTACTAAGTGCAGGCTACTACGTGTAGTAGATG
63 TGTAGTACTAAGTGCAGGCTACTACGTGTAGTAGATG
* * * *
95118339 GTGAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAAACTGTTGGTCATATGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAAACTGTTGATCACATGTGT
*
95118404 AGTACTAAGTGTAGGCTACTA
66 AGTACTAAGTGCAGGCTACTA
95118425 TGCATACCAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 6 0.08
99 30 0.39
100 2 0.03
101 38 0.50
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGCGTACCAAACTGTTGATCACATGTGT
AGTACTAAGTGCAGGCTACTACGTGTAGTAGATG
Found at i:95129318 original size:25 final size:25
Alignment explanation
Indices: 95129289--95129336 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95129279 TTATAATATG
* * *
95129289 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
95129314 AAAATAACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
95129337 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:95129420 original size:11 final size:11
Alignment explanation
Indices: 95129384--95129439 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
95129374 CATGGTATGT
95129384 ATGATATGCAC
1 ATGATATGCAC
* *
95129395 ATGACATG--T
1 ATGATATGCAC
95129404 ATGATATGCAC
1 ATGATATGCAC
*
95129415 ATGATATG--T
1 ATGATATGCAC
95129424 ATGATATGCAC
1 ATGATATGCAC
95129435 ATGAT
1 ATGAT
95129440 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95129439 original size:20 final size:20
Alignment explanation
Indices: 95129373--95129439 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
95129363 ATCCTGATAA
*
95129373 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95129393 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
95129413 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
95129433 ACATGAT
1 ACATGAT
95129440 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95129614 original size:24 final size:23
Alignment explanation
Indices: 95129490--95129628 Score: 199
Period size: 23 Copynumber: 6.0 Consensus size: 23
95129480 AGGAAGTGCA
*
95129490 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95129513 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95129536 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
95129559 AAATGGCTTATGCCCCAGTTGTT
1 AAAGGGCTTATGCCCCAGTTATT
*
95129582 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
95129606 AAAGAGGC-TAAGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
95129629 AAGATAAAGC
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 74 0.70
24 31 0.30
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:95129866 original size:31 final size:31
Alignment explanation
Indices: 95129820--95129883 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
95129810 CGTTTACAGT
* *
95129820 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGCCTTCGCCCCAGTAATATGAAATATGA
**
95129851 AAAGCCTTCGCCCCAGTGTTATGAAATATGA
1 AAAGCCTTCGCCCCAGTAATATGAAATATGA
95129882 AA
1 AA
95129884 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGCCTTCGCCCCAGTAATATGAAATATGA
Found at i:95137599 original size:23 final size:23
Alignment explanation
Indices: 95137569--95137705 Score: 199
Period size: 23 Copynumber: 6.0 Consensus size: 23
95137559 AGGAAGTGCA
95137569 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
95137592 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95137615 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95137638 AAAGGGCTTATG-CCCAGTT-TT
1 AAAGGGCTTATGCCCCAGTTATT
*
95137659 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
95137683 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
95137706 ACAATAAAGC
Statistics
Matches: 104, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.02
22 18 0.17
23 71 0.68
24 13 0.12
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:95137931 original size:31 final size:31
Alignment explanation
Indices: 95137896--95137959 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
95137886 CGTTTACAGT
95137896 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
95137927 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
95137958 AA
1 AA
95137960 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:95139312 original size:34 final size:33
Alignment explanation
Indices: 95139274--95139338 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
95139264 GCAATAGAAA
* *
95139274 CAGTCTGGGCCTAAGCCCATTTTAGTATCAGTGG
1 CAGTCTAGGCCTAAGCCCATTTCAGTA-CAGTGG
*
95139308 CAGTCTAGGCCTTAGCCCATTTCAGTACAGT
1 CAGTCTAGGCCTAAGCCCATTTCAGTACAGT
95139339 ATGCAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (33 bp):
CAGTCTAGGCCTAAGCCCATTTCAGTACAGTGG
Found at i:95140485 original size:6 final size:6
Alignment explanation
Indices: 95140471--95140504 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
95140461 CACTATGACC
*
95140471 AAGAGA AAGACA AAGACA AAGACA AAGACA AAGA
1 AAGACA AAGACA AAGACA AAGACA AAGACA AAGA
95140505 TGAGAGTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.68, C:0.12, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGACA
Found at i:95145906 original size:13 final size:13
Alignment explanation
Indices: 95145888--95145915 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95145878 CCCTACGACT
95145888 CATAATCCTTAAG
1 CATAATCCTTAAG
95145901 CATAATCCTTAAG
1 CATAATCCTTAAG
95145914 CA
1 CA
95145916 ATTCAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
CATAATCCTTAAG
Found at i:95151069 original size:6 final size:6
Alignment explanation
Indices: 95151058--95151083 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95151048 CATCATGACC
95151058 AAGACA AAGACA AAGACA AAGACA AA
1 AAGACA AAGACA AAGACA AAGACA AA
95151084 AATGAGAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGACA
Found at i:95153549 original size:28 final size:28
Alignment explanation
Indices: 95153509--95153600 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
95153499 ATTGCATGAC
*
95153509 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
95153537 TATGAATGTGATTGGGGCC-CATGGGCCA
1 TATGAATGTGATT-GGGCCTAATGGGCCA
* * *
95153565 TATGAATGAGATTAGGCTTAAATGGGCCA
1 TATGAATGTGATTGGGCCT-AATGGGCCA
*
95153594 AATGAAT
1 TATGAAT
95153601 AAGTGTGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 3 0.05
28 33 0.60
29 19 0.35
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:95154638 original size:17 final size:18
Alignment explanation
Indices: 95154605--95154638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95154595 TCTTTCGAAT
95154605 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
95154623 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
95154639 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:95159538 original size:27 final size:26
Alignment explanation
Indices: 95159508--95159568 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
95159498 CGACTTGTAA
*
95159508 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTA-CCCCGATTTACAG
*** *
95159535 AATTACCATTTTACCTCGATTTACAG
1 AATTACCAAAGTACCCCGATTTACAG
95159561 AATTACCA
1 AATTACCA
95159569 TTTTACCCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTACCAAAGTACCCCGATTTACAG
Found at i:95159565 original size:53 final size:54
Alignment explanation
Indices: 95159492--95159619 Score: 136
Period size: 53 Copynumber: 2.4 Consensus size: 54
95159482 ATTATTGAAA
* *
95159492 TACCCTCGACTTGTA-A-AATTACCAAAGTACCCCCGATTTACATAATTACCATTT
1 TACCCTCGA-TT-TACAGAATTACCAAAGTACCCCCAATTTACAGAATTACCATTT
*** * * *
95159546 TA-CCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCAAAGTACCCCCAATTTACAGAATTACCATTT
*
95159599 TACCCTTGATTTACAGAATTA
1 TACCCTCGATTTACAGAATTA
95159620 TTGTTTTACC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
51 2 0.03
52 3 0.05
53 38 0.61
54 19 0.31
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCAAAGTACCCCCAATTTACAGAATTACCATTT
Found at i:95159656 original size:27 final size:27
Alignment explanation
Indices: 95159489--95159873 Score: 163
Period size: 27 Copynumber: 14.3 Consensus size: 27
95159479 CCAATTATTG
* **
95159489 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* * *
95159516 AAGTACCCCCGATTTACATAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** *
95159543 TTTTA-CCTCGATTTACAGAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*** * * * *
95159569 TTTTACCCTCAATTTATAGAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
*** * * ***
95159596 TTTTACCCTTGATTTACAGAATTATTG
1 AAATACCCTCGATTTACAAAATTACCA
*** *
95159623 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
* *
95159650 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* * *
95159677 AAATACCTTCGA-TCAGTAAAATTACCA
1 AAATACCCTCGATTTA-CAAAATTACCA
* * ** * *
95159704 AAATACCCT-GGTCTGTAAAATTGCTA
1 AAATACCCTCGATTTACAAAATTACCA
* * **
95159730 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* **
95159757 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTACAAAATTACCA
* * *** **
95159784 AAATACCAT-TAGTTTGTGAAATTACTG
1 AAATACCCTCGA-TTTACAAAATTACCA
* **
95159811 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
95159838 AAATACCC-CTGATTTACAAAATTA-CA
1 AAATACCCTC-GATTTACAAAATTACCA
95159864 GAAATACCCT
1 -AAATACCCT
95159874 TGACTTTCTA
Statistics
Matches: 289, Mismatches: 59, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
26 48 0.17
27 240 0.83
28 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACCA
Found at i:95159739 original size:80 final size:81
Alignment explanation
Indices: 95159640--95159846 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 81
95159630 CTCGATTTAC
** *
95159640 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCTTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACC-CCGAGTCAGTAAAATTACCA
*
95159704 AAATACC-CTGGTCTGT
65 AAATACCACTAGTCTGT
* * **
95159720 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
* *
95159785 AATACCATTAGTTTGT
66 AATACCACTAGTCTGT
* * ***
95159801 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCC
95159847 TGATTTACAA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
79 2 0.02
80 61 0.56
81 46 0.42
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTAGTCTGT
Found at i:95159932 original size:27 final size:27
Alignment explanation
Indices: 95159626--95159958 Score: 224
Period size: 27 Copynumber: 12.3 Consensus size: 27
95159616 ATTATTGTTT
* * * *
95159626 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
95159653 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
95159680 TA-CCTTCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * *
95159707 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
95159733 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
95159760 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * * **
95159787 TACCATTAGTTTGTGAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*** *
95159814 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
95159841 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * * *
95159868 TACCCTTGACTTTCTAAAAATTA-TAGAAG
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * * *
95159897 CACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
95159924 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
95159951 CACCCTTG
1 TACCCTTG
95159959 TACGGTGAAA
Statistics
Matches: 244, Mismatches: 55, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
26 26 0.11
27 191 0.78
28 10 0.04
29 17 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:95160052 original size:27 final size:27
Alignment explanation
Indices: 95159988--95160052 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
95159978 TACCCTATTA
*
95159988 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
95160015 GGTAAAGTGACCGTAATA-CCTCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
95160042 GGTAAAATGAC
1 GGTAAAATGAC
95160053 GAATATACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:95160899 original size:25 final size:24
Alignment explanation
Indices: 95160861--95160929 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
95160851 AGGAAGTGCT
* *
95160861 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAGTTTACC
* *
95160885 GAAAAGGACTTTGCCCCAGTTTATC
1 AAAAAGG-CTTTGCCCCAGTTTACC
95160910 AAAAAGGCTTTGCCCCAGTT
1 AAAAAGGCTTTGCCCCAGTT
95160930 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTTACC
Found at i:95160936 original size:23 final size:24
Alignment explanation
Indices: 95160861--95160942 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
95160851 AGGAAGTGCT
* * *
95160861 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAGTTTATC
*
95160885 GAAAAGGACTTTGCCCCAGTTTATC
1 AAAAAGG-CTTTGCCCCAGTTTATC
*
95160910 AAAAAGGCTTTGCCCCAG-TTATT
1 AAAAAGGCTTTGCCCCAGTTTATC
95160933 AAAAGAGGCT
1 AAAA-AGGCT
95160943 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.16
24 21 0.42
25 21 0.42
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAAAGGCTTTGCCCCAGTTTATC
Found at i:95161183 original size:31 final size:31
Alignment explanation
Indices: 95161148--95161319 Score: 254
Period size: 31 Copynumber: 5.5 Consensus size: 31
95161138 TATTTACAGT
* *
95161148 AAAGGCTTCAGCCAAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95161179 AAAGGCTTCGGCCCAGAGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
95161210 TAAGGCTTCGGCACAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95161241 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
95161272 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
95161303 AAAGACTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
95161320 AACCGTTAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:95164336 original size:11 final size:11
Alignment explanation
Indices: 95164320--95164348 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
95164310 TAATGTCTCA
95164320 AAATAATTCAC
1 AAATAATTCAC
95164331 AAATAATTCAC
1 AAATAATTCAC
95164342 AAATAAT
1 AAATAAT
95164349 CATTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATAATTCAC
Found at i:95164599 original size:13 final size:13
Alignment explanation
Indices: 95164581--95164606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95164571 AGAAAGGTTA
95164581 TTACGATAGGCTT
1 TTACGATAGGCTT
95164594 TTACGATAGGCTT
1 TTACGATAGGCTT
95164607 GCATGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTACGATAGGCTT
Found at i:95165866 original size:6 final size:6
Alignment explanation
Indices: 95165857--95165921 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
95165847 TAAATATAAG
* * * *
95165857 AAAATA AAAATA AAGCAGCTA AAAACA AAATTC AAAATA AAAATA AAAAT-
1 AAAATA AAAATA AA--A-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
95165907 AAAATAA AAAATA AA
1 AAAAT-A AAAATA AA
95165922 GGAAATAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.11
6 30 0.65
7 6 0.13
8 1 0.02
9 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:95165910 original size:24 final size:24
Alignment explanation
Indices: 95165876--95165921 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
95165866 ATAAAGCAGC
**
95165876 TAAAAACAAAATTCAAAATAAAAA
1 TAAAAACAAAATAAAAAATAAAAA
*
95165900 TAAAAATAAAATAAAAAATAAA
1 TAAAAACAAAATAAAAAATAAA
95165922 GGAAATAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (24 bp):
TAAAAACAAAATAAAAAATAAAAA
Found at i:95165917 original size:18 final size:19
Alignment explanation
Indices: 95165834--95165921 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 19
95165824 AGTTCAAAAG
* *
95165834 ATAAAAAAT-GAAATAAAT
1 ATAAAAAATAAAAATAAAC
95165852 ATAAGAAAATAAAAATAAAGC
1 ATAA-AAAATAAAAATAAA-C
* *
95165873 AGCT-AAAAACAAAATTCAAA-
1 A--TAAAAAATAAAAAT-AAAC
95165893 AT-AAAAATAAAAATAAA-
1 ATAAAAAATAAAAATAAAC
95165910 ATAAAAAATAAA
1 ATAAAAAATAAA
95165922 GGAAATAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
17 5 0.09
18 24 0.42
19 5 0.09
20 8 0.14
21 10 0.18
22 4 0.07
23 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAAAAATAAAAATAAAC
Found at i:95170785 original size:49 final size:46
Alignment explanation
Indices: 95170674--95170802 Score: 152
Period size: 49 Copynumber: 2.7 Consensus size: 46
95170664 GGGTATAATA
*
95170674 CCGATGCCATGTCCCAGACATGGTCTTACACTGGATCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GATCATCAATCAAG
* * *
95170721 TCGATGCCATGTCCCAGATATGGTCTTACACTGA-CTATCAAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGATC-ATC--AATC-AAG
* *
95170770 CCGATGACATGTCCCAAACATGGTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
95170803 TAACATCCTG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 5 0.07
47 30 0.43
48 3 0.04
49 31 0.44
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGATCATCAATCAAG
Found at i:95172521 original size:25 final size:25
Alignment explanation
Indices: 95172493--95172541 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
95172483 TTATAATATG
* * *
95172493 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
95172518 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
95172542 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:95172604 original size:11 final size:10
Alignment explanation
Indices: 95172572--95172625 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
95172562 CATGAGACTT
95172572 TGATAT-ACA
1 TGATATGACA
95172581 TGAT-TGGACA
1 TGATAT-GACA
95172591 TGATATGCACA
1 TGATATG-ACA
*
95172602 TGATATG-TA
1 TGATATGACA
95172611 TGATATGTACA
1 TGATATG-ACA
95172622 TGAT
1 TGAT
95172626 GTATTCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 1 0.03
9 12 0.32
10 8 0.22
11 16 0.43
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:95172756 original size:24 final size:26
Alignment explanation
Indices: 95172673--95172756 Score: 104
Period size: 25 Copynumber: 3.3 Consensus size: 26
95172663 GAGGAAGTGC
95172673 AAAAGGGCTTTTGCCCCAGTTTACCG-
1 AAAAGGGC-TTTGCCCCAGTTTACCGA
*
95172699 AAAAGGGCTTTGCCCCAGTTTATC-A
1 AAAAGGGCTTTGCCCCAGTTTACCGA
*
95172724 AAAAGGGCTTTGCCCTAG-TTA-CGA
1 AAAAGGGCTTTGCCCCAGTTTACCGA
*
95172748 AAAATGGCT
1 AAAAGGGCT
95172757 AGGTCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.02
24 12 0.23
25 32 0.60
26 8 0.15
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTACCGA
Found at i:95172998 original size:30 final size:31
Alignment explanation
Indices: 95172964--95173046 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
95172954 CGTTTACAGT
95172964 AAAGGCTTTGGCCCAGTGATATG-ATAATGC
1 AAAGGCTTTGGCCCAGTGATATGAATAATGC
* *
95172994 AAAGGCTTTGGCCTAGTGACATGAATAATGC
1 AAAGGCTTTGGCCCAGTGATATGAATAATGC
*
95173025 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
95173047 TTGAGATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGC
Found at i:95173025 original size:31 final size:30
Alignment explanation
Indices: 95172964--95173041 Score: 120
Period size: 31 Copynumber: 2.6 Consensus size: 30
95172954 CGTTTACAGT
*
95172964 AAAGGCTTTGGCCCAGTGATATGATAATGC
1 AAAGGCTTTGGCCCAGTGACATGATAATGC
*
95172994 AAAGGCTTTGGCCTAGTGACATGAATAATGC
1 AAAGGCTTTGGCCCAGTGACATG-ATAATGC
*
95173025 AAAGGCTTCGGCCCAGT
1 AAAGGCTTTGGCCCAGT
95173042 ATATGTTGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 21 0.49
31 22 0.51
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (30 bp):
AAAGGCTTTGGCCCAGTGACATGATAATGC
Found at i:95174612 original size:42 final size:42
Alignment explanation
Indices: 95174540--95174623 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
95174530 TGGCCCATAG
* ** *
95174540 GCCCATTTCAATATCACATGTAATGTCAATGGATATATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
* *
95174582 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
95174624 AACCATTTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
Found at i:95174848 original size:26 final size:26
Alignment explanation
Indices: 95174764--95174899 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
95174754 CTGGAGGCCT
95174764 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
95174788 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
95174813 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
95174839 AGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95174865 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95174891 AGCCCTTTT
1 AGCCCTTTT
95174900 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.32
26 57 0.58
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:95174883 original size:52 final size:51
Alignment explanation
Indices: 95174764--95174899 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
95174754 CTGGAGGCCT
*
95174764 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAA
*
95174813 AGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCA-A
95174865 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
95174900 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 24 0.30
52 35 0.44
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAA
Found at i:95175736 original size:27 final size:26
Alignment explanation
Indices: 95175701--95175794 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
95175691 GGGCATATTC
*
95175701 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
95175728 GTCACTTTATCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
95175755 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
95175782 GTCTTTTTACCTA
1 GTCACTTTACCTA
95175795 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:95175801 original size:27 final size:27
Alignment explanation
Indices: 95175701--95175784 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
95175691 GGGCATATTC
* *
95175701 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
95175728 GTCACTTTATCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
95175755 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
95175782 GTC
1 GTC
95175785 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:95175876 original size:27 final size:27
Alignment explanation
Indices: 95175846--95175897 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
95175836 GTAAATCTAC
95175846 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTGT
* * *
95175873 AAACCAATGGTGTTTCTATAATTTT
1 AAACCAAGGGTATTTCAATAATTTT
95175898 CAGAAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTGT
Found at i:95175959 original size:27 final size:27
Alignment explanation
Indices: 95175933--95176061 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
95175923 CTTTGTAAAT
95175933 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
95175959 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
95175987 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
95176014 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* ** *
95176041 CAATGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
95176062 GTAAATCGAG
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 84 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:95175995 original size:54 final size:54
Alignment explanation
Indices: 95175937--95176075 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
95175927 GTAAATTAGG
*
95175937 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAT
* * *
95175991 GGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAT
1 GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAT
* ** *
95176045 GGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGTATTTTGGTAATTTTACAAATTGAGGGTA
95176076 AAACAGTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAT
Found at i:95176083 original size:27 final size:26
Alignment explanation
Indices: 95176054--95176264 Score: 244
Period size: 27 Copynumber: 7.8 Consensus size: 26
95176044 TGGTATTTTA
*
95176054 GTAATTTTGTAAATCGAGGGTAAAAC
1 GTAATTCTGTAAATCGAGGGTAAAAC
* * *
95176080 AGTAATTTTGTAAATCAAGTGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAAC
*
95176107 AGTAATTCTATAAATCGAGGGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAAC
*
95176134 GGTAATTCTATAAATCGAGGGTAAAAC
1 -GTAATTCTGTAAATCGAGGGTAAAAC
*
95176161 GATAATTCTGTAAGTCGAGGGTAAAAC
1 G-TAATTCTGTAAATCGAGGGTAAAAC
95176188 GGTAATTCTGTAAATC-AGGGGTAAAAC
1 -GTAATTCTGTAAATCGA-GGGTAAAAC
* *
95176215 GATAATTATGTAAATCGGGGGTAAAAC
1 G-TAATTCTGTAAATCGAGGGTAAAAC
* *
95176242 GATAATTCTATAAATCGGGGGTA
1 G-TAATTCTGTAAATCGAGGGTA
95176265 CTTTGGTAAT
Statistics
Matches: 165, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
26 3 0.02
27 161 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (26 bp):
GTAATTCTGTAAATCGAGGGTAAAAC
Found at i:95176111 original size:54 final size:54
Alignment explanation
Indices: 95176055--95176257 Score: 273
Period size: 54 Copynumber: 3.8 Consensus size: 54
95176045 GGTATTTTAG
* * * *
95176055 TAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGTGTAAAAC-A
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGA
* * *
95176108 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA
1 -TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGA
* *
95176163 TAATTCTGTAAGTCGAGGGTAAAACGGTAATTCTGTAAATCAGGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGA
* * * *
95176217 TAATTATGTAAATCGGGGGTAAAACGATAATTCTATAAATC
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
95176258 GGGGGTACTT
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
54 130 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGA
Found at i:95176264 original size:81 final size:81
Alignment explanation
Indices: 95176055--95176264 Score: 271
Period size: 81 Copynumber: 2.6 Consensus size: 81
95176045 GGTATTTTAG
* * * *
95176055 TAATTTTGTAAATCGAGGGTAAAAC-AGTAATTTTGTAAATCAAGTGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
95176119 AATCGAGGGTAAAACGG
65 AATCGAGGGTAAAACGA
* * * * *
95176136 TAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAA
95176201 ATC-AGGGGTAAAACGA
66 ATCGA-GGGTAAAACGA
* * *
95176217 TAATTATGTAAATCGGGGGTAAAACGATAATTCTATAAATCGGGGGTA
1 TAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
95176265 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 110 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACGA
Found at i:95176318 original size:27 final size:27
Alignment explanation
Indices: 95176244--95176359 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
95176234 GGTAAAACGA
* * * *
95176244 TAATTCTATAAATCGGGGGTACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCAG
* * * *
95176271 TAATTTTACAAGTTGAAGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCAG
95176298 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * *
95176325 TATTTTTACAAA-CTATGGGTATTTCGG
1 TAATTTTACAAATCGA-GGGTATTTCAG
95176352 TAATTTTA
1 TAATTTTA
95176360 GTAAACTAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
26 5 0.07
27 67 0.93
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:95178634 original size:31 final size:31
Alignment explanation
Indices: 95178591--95178665 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
95178581 ATGGTTACTA
*
95178591 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
95178622 GGCCAAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
95178653 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
95178666 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:95178739 original size:42 final size:42
Alignment explanation
Indices: 95178687--95178778 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
95178677 TATGGCCCAT
* ** * *
95178687 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATCC
* *
95178729 AAGCCTATTTCAATATCATATGAAATACCAATGAATGTATCC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATCC
95178771 AAGCCCAT
1 AAGCCCAT
95178779 ATGGGGAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATCC
Found at i:95178997 original size:26 final size:26
Alignment explanation
Indices: 95178913--95179048 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
95178903 CTGGAGGCCT
*
95178913 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
95178937 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
95178962 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
95178988 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95179014 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95179040 AGCCCTTTT
1 AGCCCTTTT
95179049 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.32
26 57 0.58
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:95179038 original size:52 final size:51
Alignment explanation
Indices: 95178913--95179048 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
95178903 CTGGAGGCCT
*
95178913 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
95178962 AGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
95179014 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
95179049 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 8 0.10
51 25 0.31
52 35 0.44
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:95179941 original size:27 final size:27
Alignment explanation
Indices: 95179850--95179933 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
95179840 GGGCATATTC
* *
95179850 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
95179877 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
95179904 GCCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
95179931 GTC
1 GTC
95179934 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:95180025 original size:27 final size:27
Alignment explanation
Indices: 95179995--95180046 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
95179985 GTAAATCTAC
95179995 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTGT
* *
95180022 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCAATAATTTT
95180047 CAGAAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTGT
Found at i:95180090 original size:56 final size:54
Alignment explanation
Indices: 95179972--95180210 Score: 162
Period size: 54 Copynumber: 4.4 Consensus size: 54
95179962 TTTCATCCTA
* * * * ** * *
95179972 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAATAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAACTTTGTAAAC
* * * *
95180026 CAATGGTATTTCT-ATAATTTTCAGAAAGTTAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGATAATTTT-ACAAA-TTAAGGGTATTTCAGTAACTTTGTAAAC
* * * * **
95180082 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTCACAAAC
1 CAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAACTTT-GTAAAC
* * * ** * **
95180136 C-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAACTTTGTAAAC
95180190 CAAGGGTATTTT-AGTAATTTT
1 CAAGGGTATTTTGA-TAATTTT
95180211 GTAAATCGAG
Statistics
Matches: 149, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
53 4 0.03
54 92 0.62
55 15 0.10
56 38 0.26
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCAGTAACTTTGTAAAC
Found at i:95180098 original size:27 final size:27
Alignment explanation
Indices: 95180078--95180210 Score: 162
Period size: 27 Copynumber: 4.9 Consensus size: 27
95180068 GTAACTTTGT
95180078 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
95180105 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
95180132 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
95180159 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* * *
95180186 AAACCAAGGGTATTTTAGTAATTTT
1 AAATCAGGGGTATTTTGGTAATTTT
95180211 GTAAATCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 87 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:95180144 original size:54 final size:54
Alignment explanation
Indices: 95180085--95180224 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
95180075 TGTAAATCAG
95180085 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
95180138 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
95180193 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
95180225 AAAAATAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
53 2 0.03
54 70 0.93
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:95180222 original size:27 final size:27
Alignment explanation
Indices: 95180057--95180514 Score: 138
Period size: 27 Copynumber: 16.9 Consensus size: 27
95180047 CAGAAAGTTA
* *
95180057 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TAGTAATTTTATAAATCG
* * *
95180083 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTAGTAATTTTATAAATCG
** * * *
95180111 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
95180137 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTAGTAATTTTATAAATCG
* * * *
95180164 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTTAGTAATTTTATAAATCG
*
95180192 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
*** * * *
95180219 AGGGTAAAAAATAGTAATTCTGTAAATCA
1 AGGGT--ATTTTAGTAATTTTATAAATCG
****
95180248 AGGGTAAAACAGTAATTTTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
**** *
95180275 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* **** * * *
95180302 AGGTTAAACGA-TAATTCTGTAAGTCG
1 AGGGTATTTTAGTAATTTTATAAATCG
***** * *
95180328 AGGGTAAAACGGTAATTATGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
*** * *
95180355 AGGGTAAAAT-GATAATTATGTAAATCG
1 AGGGTATTTTAG-TAATTTTATAAATCG
* ***** *
95180382 GGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * *
95180409 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
95180436 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
95180463 AGGGTATTTTAGTATTTTTACAAA-CTA
1 AGGGTATTTTAGTAATTTTATAAATC-G
**
95180490 AGGGTATTTCGGTAATTTTAGTAAA
1 AGGGTATTTTAGTAATTTTA-TAAA
95180515 CTAAAGTATT
Statistics
Matches: 355, Mismatches: 64, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
26 26 0.07
27 299 0.84
28 8 0.02
29 22 0.06
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:95180362 original size:107 final size:108
Alignment explanation
Indices: 95180204--95180411 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 108
95180194 GGTATTTTAG
* * * *
95180204 TAATTTTGTAAATCGAGGGTAAAAAATAGTAATTCTGTAAATCAAGGGTAAAACAG-TAATTTTA
1 TAATTCTGTAAATCGAGGGT-AAAAACAGTAATTATGTAAATCAAGGGTAAAA-AGATAATTATA
95180268 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGTTAAACGA
64 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGTTAAACGA
* * * * *
95180313 TAATTCTGTAAGTCGAGGGT-AAAACGGTAATTATGTAAATCGAGGGTAAAATGATAATTATGTA
1 TAATTCTGTAAATCGAGGGTAAAAACAGTAATTATGTAAATCAAGGGTAAAAAGATAATTATATA
* *
95180377 AATCGGGGGTAAAACGGTAATTCTATAAATCGAGG
66 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGG
95180412 GTACTTTGGT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 68 0.78
109 18 0.21
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (108 bp):
TAATTCTGTAAATCGAGGGTAAAAACAGTAATTATGTAAATCAAGGGTAAAAAGATAATTATATA
AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGTTAAACGA
Found at i:95180390 original size:54 final size:53
Alignment explanation
Indices: 95180204--95180414 Score: 251
Period size: 54 Copynumber: 3.9 Consensus size: 53
95180194 GGTATTTTAG
* * * *
95180204 TAATTTTGTAAATCGAGGGTAAAAAATAGTAATTCTGTAAATCAAGGGTAAAACA
1 TAATTTTGTAAATCGAGGGT--AAAACAGTAATTCTATAAATCGAGGGTAAAAGA
* * *
95180259 GTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGTTAAACGA
1 -TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAGA
* * * * *
95180313 TAATTCTGTAAGTCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAATGA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA-GA
* * *
95180367 TAATTATGTAAATCGGGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
95180415 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 43 0.32
54 72 0.54
56 19 0.14
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (53 bp):
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAGA
Found at i:95182771 original size:31 final size:31
Alignment explanation
Indices: 95182733--95182811 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
95182723 TTTAACAGTT
95182733 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
95182764 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
95182795 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
95182812 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:95182882 original size:42 final size:42
Alignment explanation
Indices: 95182835--95182926 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
95182825 TAGCCCATAG
* ** *
95182835 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
95182877 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
95182919 GCCCATTT
1 GCCCATTT
95182927 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:95183112 original size:26 final size:26
Alignment explanation
Indices: 95183022--95183157 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
95183012 TTGGAGGCCT
95183022 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTAGGGCATA
** *
95183046 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTAGGGCATA
*
95183071 AACCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
* * *
95183097 AGCCTTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
95183123 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
95183149 AGCCCTTTT
1 AGCCCTTTT
95183158 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.32
26 55 0.58
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:95183147 original size:52 final size:51
Alignment explanation
Indices: 95183022--95183157 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
95183012 TTGGAGGCCT
*
95183022 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCATAAGCCCTTTTCAGTAAACTGGGGCAA
* *
95183071 AACCCTTTTCAATAAACTAGGGCATAAGCCTTTTTCAGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAGTAAACTGGGGCA-A
95183123 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
95183158 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 5 0.06
49 6 0.08
50 10 0.13
51 23 0.29
52 34 0.44
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCAGTAAACTGGGGCAA
Found at i:95183993 original size:27 final size:27
Alignment explanation
Indices: 95183958--95184041 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
95183948 GAACATATTC
* *
95183958 GTCATTTTACCATACAGGGG-TATTATG
1 GTCACTTTACCCTACAGGGGCT-TTATG
95183985 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTATG
*
95184012 GTCACTTTACCCTACAGGGACTTTATG
1 GTCACTTTACCCTACAGGGGCTTTATG
95184039 GTC
1 GTC
95184042 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTATG
Found at i:95184215 original size:27 final size:27
Alignment explanation
Indices: 95184147--95184317 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
95184137 TATATTTCTA
* * *
95184147 TAATTTTCAGAAAGTCAAGGGTATTTTTG
1 TAATTTT-ACAAA-TCAGGGGTATTTTGG
* **
95184176 TAACTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* * *
95184203 TAATTTTACAAAT-TGAGGGTATTTCGT
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
95184230 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
95184257 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
* * *
95184284 TAATTTTACAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAGGGGTATTTTGG
95184311 TAATTTT
1 TAATTTT
95184318 GTAAATCGAG
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.02
27 104 0.89
28 5 0.04
29 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:95184251 original size:54 final size:54
Alignment explanation
Indices: 95184192--95184331 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
95184182 TGTAAATCAG
*
95184192 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGTTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
95184245 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
95184300 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
95184332 AACATTAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.03
54 69 0.93
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:95184375 original size:27 final size:27
Alignment explanation
Indices: 95184310--95184519 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
95184300 GGGTATTTTA
*
95184310 GTAATTTTGTAAATCGAGGGTAAACAT-
1 GTAATTCTGTAAATCGAGGGTAAA-ATG
* *
95184337 -TAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
95184363 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
95184390 GCAATTCTATAAATCCAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
95184417 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
95184444 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
95184471 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
95184498 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
95184520 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.01
26 21 0.13
27 140 0.86
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:95184546 original size:27 final size:27
Alignment explanation
Indices: 95184525--95184614 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
95184515 GGGTACTTTG
*
95184525 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
95184552 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
95184579 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
95184606 GTAATTTTA
1 GTAATTTTA
95184615 GTAAACTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:95184566 original size:54 final size:54
Alignment explanation
Indices: 95184508--95184614 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
95184498 GTAATTCTGT
* * *
95184508 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
95184562 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
95184615 GTAAACTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:95185702 original size:46 final size:46
Alignment explanation
Indices: 95185606--95185832 Score: 191
Period size: 46 Copynumber: 4.9 Consensus size: 46
95185596 ATTTGAGGTG
95185606 TTACATC-CGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
1 TTACATCTCGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGAC
*
95185652 --ACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 TTACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGAC
* *
95185696 TTACATCTCG-AGGTCGATGCATGTCCCAGACATGTCTTACACTAAC
1 TTACATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGAC
* * * * * *
95185742 --ACTTGTCTTAATGTCGATGCCATGTCCCAGACATGGTCTTACATTGGC
1 TTACATCTCGT-A-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGAC
* * * * * *
95185790 TTTCATAAT-ATGGCTGATGCATGTCCTAGACATGTCTTACACT
1 TTACAT-CTCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
95185833 AGCATACAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
44 22 0.15
45 18 0.12
46 63 0.42
47 27 0.18
48 15 0.10
50 3 0.02
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
TTACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGAC
Found at i:95185809 original size:94 final size:89
Alignment explanation
Indices: 95185618--95185833 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 89
95185608 ACATCCGTGC
*
95185618 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACAT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAT
*
95185683 GTCTTACACTGGCTTACATCTCGAGGT
64 GTCTTACACTGGCTTACATATC-AGGT
* * * *
95185710 CGATGCATGTCCCAGACATGTCTTACACTAACACTTGTCTTAATGTCGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGT-A-GCCGATG-CATGTCCCAGACA
* *
95185775 TGGTCTTACATTGGCTTTCATAAT-ATGG-
63 T-GTCTTACACTGGCTTACAT-ATCA-GGT
*
95185803 CTGATGCATGTCCTAGACATGTCTTACACTA
1 C-GATGCATGTCCCAGACATGTCTTACACTA
95185834 GCATACAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 18 0.17
91 15 0.14
92 11 0.10
93 16 0.15
94 47 0.44
95 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (89 bp):
CGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACATGT
CTTACACTGGCTTACATATCAGGT
Found at i:95191276 original size:20 final size:20
Alignment explanation
Indices: 95191240--95191277 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95191230 GTATAACTCA
*
95191240 TAAATATTTTTTACAAATTT
1 TAAATATTTTCTACAAATTT
95191260 TAAATGATTTTCT-CAAAT
1 TAAAT-ATTTTCTACAAAT
95191278 CAGAACAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
TAAATATTTTCTACAAATTT
Found at i:95192133 original size:46 final size:47
Alignment explanation
Indices: 95191900--95192261 Score: 232
Period size: 46 Copynumber: 7.7 Consensus size: 47
95191890 GGGTATAATA
* *
95191900 CCGATGTCATGTCCTAGACATGGTCTTACACTGGC-T-CATCCATC-AAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGTAG
* * * **
95191947 TCGATGCCATGTCCCAGACATGGTCTTACATTGAC-TATCGAAATCG-AGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGTA-G
* * * * *
95191996 TCGACGCCATGTCTCAGACATGGTCTTACACTAGCTTTCACATATTCGT-G
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGC-TT-ACAT-CTCGTAG
* *
95192046 TCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
* **
95192092 CCGATGCATGTCCCAGACAT-GTCTTTCACTGGCTTACATCTCAAAG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
* * * *
95192138 CCGGTGCATGTCCCAGACAT-TTCTTACACTAGC--AC-TCGTCTTAATG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATC-TCGT-A-G
* * * *
95192184 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTCGTAG
*
95192232 CTGATGCATGTCCCAGACAT-GTCTTACACT
1 CCGATGCATGTCCCAGACATGGTCTTACACT
95192262 AGCCTACAAT
Statistics
Matches: 253, Mismatches: 40, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 15 0.06
45 19 0.08
46 63 0.25
47 59 0.23
48 19 0.08
49 32 0.13
50 36 0.14
51 7 0.03
52 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
Found at i:95192240 original size:94 final size:92
Alignment explanation
Indices: 95191900--95192264 Score: 275
Period size: 94 Copynumber: 3.9 Consensus size: 92
95191890 GGGTATAATA
* * * ** *
95191900 CCGATGTCATGTCCTAGACATGGTCTTACACTGGC--TCATCCATCAAGTCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCAT-AATCGTGGCGATG-CATGTCCCA
*
95191963 GACATGGTCTTACA-TTG-ACTATCGAAATCG-AGG
64 GACAT-GTCTTACACTAGCAC-ATC----TCGTA-G
* * * * * *
95191996 TCGACGCCATGTCTCAGACATGGTCTTACACTAGCTTTCACATATTCGTGTCGATGCCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTT--CATAATCGTGGCGATG-CATGTCCC
95192061 AGACATGGTCTTACACT-GACACATCTCGTAG
63 AGACAT-GTCTTACACTAG-CACATCTCGTAG
* * * ** * *
95192092 CCGATG-CATGTCCCAGACAT-GTCTTTCACTGGCTTACAT-CTCAAAGCCGGTGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATC-GTGGCGATGCATGTCCCAG
* *
95192154 ACATTTCTTACACTAGCAC-TCGTCTTAATG
65 ACATGTCTTACACTAGCACATC-TCGT-A-G
*
95192184 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAAT-GTGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCGTGGC-GATGCATGTCCCAG
95192248 ACATGTCTTACACTAGC
65 ACATGTCTTACACTAGC
95192265 CTACAATAAC
Statistics
Matches: 220, Mismatches: 32, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
90 15 0.07
91 18 0.08
92 15 0.07
93 16 0.07
94 58 0.26
95 14 0.06
96 37 0.17
97 1 0.00
98 1 0.00
99 34 0.15
100 7 0.03
101 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCGTGGCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCTCGTAG
Found at i:95214060 original size:32 final size:32
Alignment explanation
Indices: 95214011--95214095 Score: 143
Period size: 32 Copynumber: 2.6 Consensus size: 32
95214001 ACGGGCGTGT
*
95214011 CCCAAGCCACACGGGCGTGTGTGACCACACGCC
1 CCCAA-CCACACAGGCGTGTGTGACCACACGCC
*
95214044 CCCAACCACACAGGCGTGTGTGACTACACGCC
1 CCCAACCACACAGGCGTGTGTGACCACACGCC
95214076 CCCAACCACACAGGCGTGTG
1 CCCAACCACACAGGCGTGTG
95214096 ACTCACTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 45 0.90
33 5 0.10
ACGTcount: A:0.24, C:0.41, G:0.25, T:0.11
Consensus pattern (32 bp):
CCCAACCACACAGGCGTGTGTGACCACACGCC
Found at i:95214528 original size:20 final size:20
Alignment explanation
Indices: 95214506--95214547 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
95214496 CTTTAATTCA
*
95214506 TTTATTAAAATATTAAAATAT
1 TTTA-TAAAATAATAAAATAT
*
95214527 TTTATAATATAATAAAATAT
1 TTTATAAAATAATAAAATAT
95214547 T
1 T
95214548 CCATCAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTATAAAATAATAAAATAT
Found at i:95216894 original size:43 final size:40
Alignment explanation
Indices: 95216775--95216895 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 40
95216765 TCACATATCG
* * * *
95216775 ATGCCACTGTCCCAGACAAGGTCTTATATGAAATCGATTA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCGATTA
** *
95216815 ATGACTCTAATGTCCCAGACATGGTCTTACCCGTAATTGTAATTCA
1 ATG-C-C-AATGTCCCAGACATGGTCTTACATGTAATCG--ATT-A
95216861 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
95216896 ACATCTAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.05
41 1 0.02
42 1 0.02
43 51 0.78
44 1 0.02
45 4 0.06
46 4 0.06
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (40 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCGATTA
Found at i:95221390 original size:44 final size:42
Alignment explanation
Indices: 95221337--95221434 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 42
95221327 CGATATGTGT
95221337 TTTCGTGTAAGACCACATCTAAGACATTGGCATC-TACTTATGA
1 TTTCGTGTAAGACCACATCTAAGACATTGGCATCGTA-TT-TGA
* ** * **
95221380 TTTACGTGTAAGATCATGTTTGGGACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACATCTAAGACATTGGCATCGTATTTGA
95221423 TTTCGTGTAAGA
1 TTTCGTGTAAGA
95221435 TCTTGTTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 9 0.19
43 9 0.19
44 27 0.57
45 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATCTAAGACATTGGCATCGTATTTGA
Found at i:95221442 original size:42 final size:42
Alignment explanation
Indices: 95221359--95221503 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 42
95221349 CCACATCTAA
95221359 GACATTGGCATC-TACTTATGATTTACGTGTAAGATCATGTTTGG
1 GACATTGGCATCGTA-TT-TGATTT-CGTGTAAGATCATGTTTGG
* *
95221403 GACATTGGCATCGTATTTGATTTCGTGTAAGATCTTGTTTAG
1 GACATTGGCATCGTATTTGATTTCGTGTAAGATCATGTTTGG
* * * *
95221445 GACAGTGGCATCGATATTTGATTAT-ATGTAAGACCACGTTTGG
1 GACATTGGCATCG-TATTTGATT-TCGTGTAAGATCATGTTTGG
*
95221488 GACATTGGCATTGTAT
1 GACATTGGCATCGTAT
95221504 GAGCTTTCTG
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 32 0.36
43 39 0.44
44 15 0.17
45 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (42 bp):
GACATTGGCATCGTATTTGATTTCGTGTAAGATCATGTTTGG
Found at i:95223402 original size:27 final size:28
Alignment explanation
Indices: 95223372--95223428 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
95223362 ATTTTTGATG
95223372 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
95223399 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
95223428 A
1 A
95223429 TTTAACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:95229960 original size:54 final size:54
Alignment explanation
Indices: 95229878--95230020 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
95229868 TTAGTTTACC
* *
95229878 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCTCCAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCTCCAATTTATA
** * * *
95229932 AAATTACCCAAATATCCTCGATTTGTAAAATTACCAAAATACCTTCAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCTCCAATTTATA
*
95229986 AAATTTCTGAAATACCCTCGATTTTGTAAAATTAC
1 AAATTACTGAAATACCCTCGA-TTTGTAAAATTAC
95230021 TGAAATACTC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 64 0.83
55 13 0.17
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCTCCAATTTATA
Found at i:95230024 original size:28 final size:27
Alignment explanation
Indices: 95229878--95230028 Score: 144
Period size: 27 Copynumber: 5.6 Consensus size: 27
95229868 TTAGTTTACC
*
95229878 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
95229905 AAATTAC-CAAAGTA-CCTCCAATTTATA
1 AAATTACTGAAA-TACCCT-CGATTTGTA
** *
95229932 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * * *
95229959 AAATTACCAAAATACCTTCAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
95229986 AAATTTCTGAAATACCCTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
95230014 AAATTACTGAAATAC
1 AAATTACTGAAATAC
95230029 TCCTGTAAGA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.06
27 69 0.68
28 26 0.26
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:95230090 original size:27 final size:27
Alignment explanation
Indices: 95230060--95230111 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
95230050 TTTTATTTGT
95230060 AAAATTACCA-AAATACCCCTGATTTAC
1 AAAATTA-CAGAAATACCCCTGATTTAC
*
95230087 AAAATTACAGAAATACCCTTGATTT
1 AAAATTACAGAAATACCCCTGATTT
95230112 TTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTACAGAAATACCCCTGATTTAC
Found at i:95230962 original size:20 final size:21
Alignment explanation
Indices: 95230937--95231003 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
95230927 GATATGATAT
*
95230937 ACATGAT-TGATATGATATGC
1 ACATGATATGATATGAAATGC
*
95230957 ACATGATAT-CTATGAAATGC
1 ACATGATATGATATGAAATGC
95230977 ACATGATATG-TATGAAATGC
1 ACATGATATGATATGAAATGC
95230997 ACATGAT
1 ACATGAT
95231004 GTATTCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
ACATGATATGATATGAAATGC
Found at i:95231118 original size:25 final size:26
Alignment explanation
Indices: 95231053--95231124 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
95231043 GAGGAAGTGC
***
95231053 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCA
95231079 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
* *
95231105 AAAAAGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
95231125 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 9 0.22
26 32 0.78
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:95231317 original size:42 final size:42
Alignment explanation
Indices: 95231270--95231361 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
95231260 TAGTCTCCCC
* ** *
95231270 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
95231312 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
95231354 AAATGGGC
1 AAATGGGC
95231362 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:95233244 original size:27 final size:28
Alignment explanation
Indices: 95233213--95233269 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
95233203 ATTTTTTATG
95233213 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
95233240 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
95233269 A
1 A
95233270 TTTAACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:95235384 original size:6 final size:6
Alignment explanation
Indices: 95235366--95235533 Score: 94
Period size: 6 Copynumber: 27.3 Consensus size: 6
95235356 AAGAAACATT
* * *
95235366 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATCAGA ACCAGA ATCATA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * * *
95235414 ATTAG- GTGACAGA ATCAGA ATAAGA ATCAGT ATCAGGTA A-CCGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
95235464 ATCAGA ATCAGC ATCAGGTA A-CAGA ATCAAA ATCAGA ATTAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
95235515 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
95235534 GTGAATGCAA
Statistics
Matches: 120, Mismatches: 28, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
5 8 0.07
6 97 0.81
7 11 0.09
8 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:95235431 original size:31 final size:31
Alignment explanation
Indices: 95235393--95235533 Score: 185
Period size: 31 Copynumber: 4.5 Consensus size: 31
95235383 AATCAGAATT
* * * *
95235393 AGAATCAGAACCAGAATCA-TAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGT-ATCAGGTAAC
* *
95235424 AGAATCAGAATAAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
95235455 CGAATCAAAATCAGAATCAGCATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
95235486 AGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
95235517 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
95235534 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 97 0.99
32 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:95235729 original size:26 final size:27
Alignment explanation
Indices: 95235665--95235738 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
95235655 GCTCACTTAT
* * *
95235665 CAGATATTGTGACAGAGTCACCAGAAA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
95235692 TAGATATTGTGGCAAAGCCACCAG-AA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
95235718 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
95235739 TTAACATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:95236086 original size:27 final size:27
Alignment explanation
Indices: 95236048--95236191 Score: 227
Period size: 27 Copynumber: 5.3 Consensus size: 27
95236038 CAGCCATTGA
95236048 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
95236075 TCGGTAATTCTACCCTACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
*
95236101 TCTAGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
* *
95236129 CCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
95236156 CCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
95236183 TTGGTAATT
1 TCGGTAATT
95236192 TTGTAAATCG
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
26 3 0.03
27 103 0.95
28 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:95236206 original size:27 final size:27
Alignment explanation
Indices: 95236176--95236456 Score: 177
Period size: 27 Copynumber: 10.5 Consensus size: 27
95236166 TACCCTACAG
** *
95236176 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCCA
*** * **
95236203 GGGTAAAATGGTAATTCTGTAAAT-CA
1 GGGTATTTTGGTAATTTTACAAATCCA
* * * *
95236229 GGGGTACTTTGGTAATTCTACAAGTCGA
1 -GGGTATTTTGGTAATTTTACAAATCCA
*** ** *
95236257 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATCCA
** *
95236284 GGGTATTTCAGTAATTTCACAAAT-CA
1 GGGTATTTTGGTAATTTTACAAATCCA
* *
95236310 GGGATATTTTGGTAATTTTAC-AAGCTA
1 GGG-TATTTTGGTAATTTTACAAATCCA
*
95236337 GGGGTA--TTGATAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTACAAATCCA
95236362 GGGGTATTTTGGTAA-TTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTACAAATCCA
*
95236388 GGGGTATTTTGGTAATTTTATAAA-CCAA
1 -GGGTATTTTGGTAATTTTACAAATCC-A
* *
95236416 GGGTATTCTAGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCCA
95236442 GTGGTATTTTGGTAA
1 G-GGTATTTTGGTAA
95236457 ACTAAAGTAT
Statistics
Matches: 206, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
25 20 0.10
26 37 0.18
27 144 0.70
28 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCCA
Found at i:95236385 original size:26 final size:27
Alignment explanation
Indices: 95236284--95236456 Score: 208
Period size: 27 Copynumber: 6.5 Consensus size: 27
95236274 TACAGGTCGA
** * *
95236284 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
95236311 GGATATTTTGGTAATTTTACAAGCTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
95236338 GGGTA--TTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
95236363 GGGTATTTTGGTAA-TTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
95236389 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
95236416 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
95236443 TGGTATTTTGGTAA
1 GGGTATTTTGGTAA
95236457 ACTAAAGTAT
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 22 0.18
26 26 0.21
27 74 0.61
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:95239734 original size:38 final size:38
Alignment explanation
Indices: 95239683--95239762 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
95239673 TTTTGTTTCA
95239683 GGTTTGCCCCTATCTCCACGAAAGAAAGGTGCTATTTG
1 GGTTTGCCCCTATCTCCACGAAAGAAAGGTGCTATTTG
*
95239721 GGTTTGCCCCTATCTCCATGAAAGAAAGGTGCTATTTG
1 GGTTTGCCCCTATCTCCACGAAAGAAAGGTGCTATTTG
95239759 GGTT
1 GGTT
95239763 CTAGTTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
GGTTTGCCCCTATCTCCACGAAAGAAAGGTGCTATTTG
Found at i:95241913 original size:22 final size:22
Alignment explanation
Indices: 95241873--95241930 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
95241863 CTTTAGCCAT
95241873 TTTTATTTTTATTGCAATT-TAA
1 TTTT-TTTTTATTGCAATTATAA
**
95241895 TTTTGTTTTTATTTTAATTACTAA
1 TTTT-TTTTTATTGCAATTA-TAA
95241919 TTTTTCTTTTAT
1 TTTTT-TTTTAT
95241931 CTGCTTTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 16 0.53
23 1 0.03
24 13 0.43
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTATTGCAATTATAA
Found at i:95257714 original size:40 final size:40
Alignment explanation
Indices: 95257617--95257760 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 40
95257607 TGAATGATGT
* * * *
95257617 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAA
* * *
95257656 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAATTACTATAA
* *
95257695 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
*
95257736 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95257761 AACGAGGAGC
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
39 18 0.21
40 57 0.68
41 9 0.11
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
Found at i:95265622 original size:40 final size:40
Alignment explanation
Indices: 95265525--95265668 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 40
95265515 TGAATGATGT
* * * *
95265525 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAA
* * *
95265564 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAATTACTATAA
*
95265603 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
* *
95265644 CCGGGCTATGTCCCGGAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95265669 AACGAGGAGC
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
39 18 0.21
40 58 0.68
41 9 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
Found at i:95274653 original size:31 final size:31
Alignment explanation
Indices: 95274618--95274679 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
95274608 AGAAGAGATA
*
95274618 AATGCAATAGTGTAGAGGAAGGAGGTTGGTC
1 AATGCAATAGTGTAGAGGAAGAAGGTTGGTC
95274649 AATGCAATAGTGTAGAGGAAGAAGGTTGGTC
1 AATGCAATAGTGTAGAGGAAGAAGGTTGGTC
95274680 GTCCGAGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.37, T:0.23
Consensus pattern (31 bp):
AATGCAATAGTGTAGAGGAAGAAGGTTGGTC
Found at i:95279611 original size:44 final size:42
Alignment explanation
Indices: 95279561--95279695 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 42
95279551 GTGTTTTCGC
*
95279561 GTAAGACCATGTTTGGGACATTGGCATCGACT-TATGATTTACGT
1 GTAAGACCATGTTTGGGACATTGGCATC-A-TATATGATTT-CAT
* * * *
95279605 GTAAGACCTTGTTTGGGACATCGACATCATATTTGATTTCAT
1 GTAAGACCATGTTTGGGACATTGGCATCATATATGATTTCAT
* * * * * *
95279647 GTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACAC
1 GTAAGACCATGTTTGGGACATTGGCATC-ATATATGATTTCAT
95279690 GTAAGA
1 GTAAGA
95279696 TCACGTCTAG
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 26 0.34
43 26 0.34
44 25 0.32
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
GTAAGACCATGTTTGGGACATTGGCATCATATATGATTTCAT
Found at i:95279680 original size:43 final size:42
Alignment explanation
Indices: 95279561--95279695 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 42
95279551 GTGTTTTCGC
* * *
95279561 GTAAGACCATGTTTGGGACATTGGCATCGACT-TATGATTTACGT
1 GTAAGACCATGTTTGGGACA-TGGCATC-AATATTTGATTT-CAT
* *
95279605 GTAAGACCTTGTTTGGGACATCGACATC-ATATTTGATTTCAT
1 GTAAGACCATGTTTGGGACAT-GGCATCAATATTTGATTTCAT
* * * *
95279647 GTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACAC
1 GTAAGACCATGTTTGGGACA-TGGCATCAATATTTGATTTCAT
95279690 GTAAGA
1 GTAAGA
95279696 TCACGTCTAG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
42 26 0.34
43 27 0.35
44 24 0.31
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
GTAAGACCATGTTTGGGACATGGCATCAATATTTGATTTCAT
Found at i:95279715 original size:43 final size:42
Alignment explanation
Indices: 95279629--95279716 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
95279619 GGGACATCGA
* * * *
95279629 CATCATATTTGATTTCATGTAAGACCCTGTCTGGGACAGTGG
1 CATCATATTTGATTACACGTAAGACACTGTCTAGGACAGTGG
95279671 CATCAATATTTGATTACACGTAAGATCAC-GTCTAGGAC-GTTGG
1 CATC-ATATTTGATTACACGTAAGA-CACTGTCTAGGACAG-TGG
95279714 CAT
1 CAT
95279717 TGTATCAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
42 5 0.13
43 32 0.82
44 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
CATCATATTTGATTACACGTAAGACACTGTCTAGGACAGTGG
Found at i:95289542 original size:49 final size:49
Alignment explanation
Indices: 95289470--95289644 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 49
95289460 TCTGGTAGCA
* * * *
95289470 TAGTACCCTGGACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * *
95289519 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
* ** *
95289570 TAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
95289619 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
95289645 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 61 0.58
50 6 0.06
51 38 0.36
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:95289584 original size:51 final size:49
Alignment explanation
Indices: 95289457--95289651 Score: 203
Period size: 49 Copynumber: 4.0 Consensus size: 49
95289447 GTAGCTGAAG
* * * *
95289457 CTATCTGGTA-GCATAGTACCCTGGACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * * * *
95289505 TTATCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
95289555 GTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
95289605 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
95289652 TCACAATAGC
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
48 7 0.06
49 67 0.57
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:95289592 original size:100 final size:99
Alignment explanation
Indices: 95289453--95289649 Score: 304
Period size: 100 Copynumber: 2.0 Consensus size: 99
95289443 ACTTGTAGCT
* ** **
95289453 GAAGCTATCTGGTAGCATAGTACCCTGGACTTAGTACTACACATGCGACCAATTATCCGATACAC
1 GAAGCTATCAGGTAGCATAGTACCCTACACTTAGTACTACACATGCGACCAACAATCCGATACAC
95289518 GTAGTAGCCTGCACTTAGTACTACACACGTGATC
66 GTAGTAGCCTGCACTTAGTACTACACACGTGATC
* * * *
95289552 GAAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAATCTGGTACA
1 GAAGCTATCAGGTA-GCATAGTACCCTACACTTAGTACTACACATGCGACCAACAATCCGATACA
95289617 CGTAGTAGCCTGCACTTAGTACTACACACGTGA
65 CGTAGTAGCCTGCACTTAGTACTACACACGTGA
95289650 CCTCACAATA
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 12 0.14
100 76 0.86
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (99 bp):
GAAGCTATCAGGTAGCATAGTACCCTACACTTAGTACTACACATGCGACCAACAATCCGATACAC
GTAGTAGCCTGCACTTAGTACTACACACGTGATC
Found at i:95290333 original size:30 final size:30
Alignment explanation
Indices: 95290299--95290355 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95290289 CTTTAATACG
95290299 AACTTTGGCAAAATTAC-CATTTTGCCTTTA
1 AACTTTGGCAAAATTACAC-TTTTGCCTTTA
* *
95290329 AACTTTTGCATAATTACACTTTTGCCT
1 AACTTTGGCAAAATTACACTTTTGCCT
95290356 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCTTTA
Found at i:95295437 original size:56 final size:56
Alignment explanation
Indices: 95295266--95295438 Score: 274
Period size: 56 Copynumber: 3.1 Consensus size: 56
95295256 ATATGGTTCC
* * *
95295266 GATATATGTGTGCAAGTAAGACCACGTTTTATACGTTCGCATCTATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGATTCT
* * *
95295322 AATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGATTCT
* *
95295378 GATATATGTGTGCGAGTAAGACCACGTTTTATACATTGGCATCGATATGTGATTTT
1 GATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGATTCT
95295434 GATAT
1 GATAT
95295439 GTTTTTATGA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 106 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGATTCT
Found at i:95304258 original size:27 final size:27
Alignment explanation
Indices: 95304227--95304404 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
95304217 TAAATTGTAC
95304227 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
95304254 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
95304280 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
95304308 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
95304336 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
95304363 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
95304390 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
95304405 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:95304341 original size:82 final size:81
Alignment explanation
Indices: 95304228--95304383 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
95304218 AAATTGTACA
* *
95304228 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
95304292 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
95304309 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
95304374 TGCGAGTTGA
65 TGCGAATTGA
95304384 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Done.