Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 50
Found at i:10622350 original size:21 final size:20
Alignment explanation
Indices: 10622236--10622406 Score: 191
Period size: 20 Copynumber: 8.4 Consensus size: 20
10622226 TTAAAAATCG
10622236 CGTTGCGATTTACGGATA-T
1 CGTTGCGATTTACGGATACT
* * *
10622255 GCATTGCGATTTACGTATTCT
1 -CGTTGCGATTTACGGATACT
* *
10622276 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACT
* *
10622296 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
*
10622316 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
* * **
10622336 CGTTACGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
*
10622357 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
10622377 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
10622398 CGTTGCGAT
1 CGTTGCGAT
10622407 AGTCAGAATC
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
20 87 0.71
21 35 0.29
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:10622361 original size:41 final size:40
Alignment explanation
Indices: 10622236--10622406 Score: 252
Period size: 40 Copynumber: 4.2 Consensus size: 40
10622226 TTAAAAATCG
* *
10622236 CGTTGCGATTTACGGATATGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
*
10622276 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
10622316 CGTTGCGATTTACGGATACACGTTACGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
10622357 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
10622398 CGTTGCGAT
1 CGTTGCGAT
10622407 AGTCAGAATC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 62 0.53
41 56 0.47
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:10622995 original size:32 final size:34
Alignment explanation
Indices: 10622959--10623049 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
10622949 TTTTCTAACT
*
10622959 TACTAACATTCCAAC-TCTTA-TTTTATTGTTCA
1 TACTAACATACCAACTTCTTATTTTTATTGTTCA
** * *
10622991 TACTAACATACTGACTTTTTATTTTTATTGTTCT
1 TACTAACATACCAACTTCTTATTTTTATTGTTCA
* *
10623025 TACTAACTTACTAACATT-TTATTTT
1 TACTAACATACCAAC-TTCTTATTTT
10623050 ATTACACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
32 12 0.24
33 4 0.08
34 31 0.63
35 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (34 bp):
TACTAACATACCAACTTCTTATTTTTATTGTTCA
Found at i:10623021 original size:34 final size:34
Alignment explanation
Indices: 10622979--10623049 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
10622969 CCAACTCTTA
* *
10622979 TTTTATTGTTCATACTAACATACTGACTTTTTAT
1 TTTTATTGTTCATACTAACATACTAACATTTTAT
* *
10623013 TTTTATTGTTCTTACTAACTTACTAACATTTTAT
1 TTTTATTGTTCATACTAACATACTAACATTTTAT
10623047 TTT
1 TTT
10623050 ATTACACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.04, T:0.56
Consensus pattern (34 bp):
TTTTATTGTTCATACTAACATACTAACATTTTAT
Found at i:10624485 original size:13 final size:14
Alignment explanation
Indices: 10624467--10624498 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10624457 TATAATCGCC
10624467 TTTTTC-CGAATTA
1 TTTTTCTCGAATTA
10624480 TTTTTCTCGAATTA
1 TTTTTCTCGAATTA
10624494 TTTTT
1 TTTTT
10624499 TTAAGTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTTCTCGAATTA
Found at i:10625720 original size:24 final size:24
Alignment explanation
Indices: 10625663--10625722 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
10625653 TAGTCAGTAT
10625663 TCGAAATTTGATATTGGTCAATAC
1 TCGAAATTTGATATTGGTCAATAC
* * *
10625687 -CCAGACTTTGATCTTGGTCAATAC
1 TCGA-AATTTGATATTGGTCAATAC
*
10625711 TCGAATTTTGAT
1 TCGAAATTTGAT
10625723 GATGTGATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.07
24 25 0.86
25 2 0.07
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATATTGGTCAATAC
Found at i:10627988 original size:6 final size:6
Alignment explanation
Indices: 10627977--10628012 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
10627967 CAAGCAAAAG
**
10627977 AAAATC AAAATC AAAATC GCAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
10628013 CCAATCACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:10628002 original size:18 final size:18
Alignment explanation
Indices: 10627979--10628019 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10627969 AGCAAAAGAA
*
10627979 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
10627997 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
10628015 AATCA
1 AATCA
10628020 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:10628498 original size:25 final size:25
Alignment explanation
Indices: 10628470--10628519 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10628460 AAATCAATTA
*
10628470 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
10628495 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
10628520 GAAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:10628926 original size:18 final size:18
Alignment explanation
Indices: 10628905--10628941 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10628895 GTAATTGGAG
10628905 TTTGAATTTCAATTTCAA
1 TTTGAATTTCAATTTCAA
* *
10628923 TTTGAGTTTGAATTTCAA
1 TTTGAATTTCAATTTCAA
10628941 T
1 T
10628942 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTCAATTTCAA
Found at i:10628948 original size:24 final size:24
Alignment explanation
Indices: 10628897--10628949 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
10628887 TTTCATATGT
* * *
10628897 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
10628921 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTCAATATA
10628945 AATTT
1 AATTT
10628950 TGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:10630158 original size:14 final size:14
Alignment explanation
Indices: 10630139--10630175 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10630129 ATCAAATTAA
10630139 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10630153 ATAAATCAACTTTT
1 ACAAATCAACTTTT
10630167 ACAAATCAA
1 ACAAATCAA
10630176 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10631615 original size:21 final size:21
Alignment explanation
Indices: 10631591--10631689 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
10631581 ACGGGCGGGA
*
10631591 CCTCTTGAATGATGACAGGGG
1 CCTCTTGAATGATGAGAGGGG
* * * *
10631612 CCTCTTGAACGGTGGGAAGGG
1 CCTCTTGAATGATGAGAGGGG
*
10631633 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGGG
* *
10631654 CGTCTTGAATGAT-AGGAGGCG
1 CCTCTTGAATGATGA-GAGGGG
10631675 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
10631690 TAGGTACATC
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:10631687 original size:42 final size:42
Alignment explanation
Indices: 10631591--10631689 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
10631581 ACGGGCGGGA
* *
10631591 CCTCTTGAATGATGACAGGGGCCTCTTGAACGGTGGGAAGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAAGGG
* * * *
10631633 CTTCTTCG-ATGATGAGAGGGGCGTCTTGAATGATAGG-AGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACGATAGGAAGG-G
10631675 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
10631690 TAGGTACATC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 4 0.09
42 42 0.89
43 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAAGGG
Found at i:10634361 original size:22 final size:22
Alignment explanation
Indices: 10634311--10634366 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10634301 GATGGAGATA
*
10634311 GACGGATTTCGCCGGAGATGTG
1 GACGGATTTCGCCGGAGATGGG
* * *
10634333 TATGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
10634355 GACGGATGTCGC
1 GACGGATTTCGC
10634367 TGTAGAGAGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.41, T:0.25
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:10634496 original size:20 final size:20
Alignment explanation
Indices: 10634471--10634592 Score: 181
Period size: 20 Copynumber: 6.1 Consensus size: 20
10634461 TAATATTGTG
10634471 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
10634491 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
10634511 TTTCGCATTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
10634531 TATCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
10634551 TATCGCGTTGCGAATTTGAT
1 TTTCGCGTTGCGAATTTGAC
* *
10634571 TTTTGTGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
10634591 TT
1 TT
10634593 CTGTGTTGCG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 92 1.00
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:10634620 original size:20 final size:20
Alignment explanation
Indices: 10634597--10634648 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
10634587 TGACTTCTGT
**
10634597 GTTGCGATTTACAAATTTGC
1 GTTGCGATTTACAAATTCAC
* *
10634617 GTTGTGATTTACAGATTCAC
1 GTTGCGATTTACAAATTCAC
10634637 GTTGCGAATTTA
1 GTTGCG-ATTTA
10634649 GAAAATCGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:10635701 original size:18 final size:18
Alignment explanation
Indices: 10635678--10635715 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10635668 GGTTTTGTCG
10635678 TTAATT-TAAAATAATTTA
1 TTAATTATAAAAT-ATTTA
*
10635696 TTAATTATTAAATATTTA
1 TTAATTATAAAATATTTA
10635714 TT
1 TT
10635716 GTAGGAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAATTATAAAATATTTA
Found at i:10642131 original size:20 final size:20
Alignment explanation
Indices: 10642106--10642158 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10642096 CCCTTAAAGA
* *
10642106 AGTATCGATACTGAGGGGTC
1 AGTATCGAAACCGAGGGGTC
*
10642126 AGTATCGAAACCGAGGGGATT
1 AGTATCGAAACCGAGGGG-TC
*
10642147 GGTATCGAAACC
1 AGTATCGAAACC
10642159 AAAAATCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (20 bp):
AGTATCGAAACCGAGGGGTC
Found at i:10644921 original size:16 final size:15
Alignment explanation
Indices: 10644888--10644931 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 15
10644878 GTTTACTTCA
*
10644888 GAATGATTAAGAGTT
1 GAATGATTCAGAGTT
10644903 GAATGATTCAGATGTT
1 GAATGATTCAGA-GTT
10644919 GAATGATTCAGAG
1 GAATGATTCAGAG
10644932 GCTCTCTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (15 bp):
GAATGATTCAGAGTT
Found at i:10650454 original size:51 final size:51
Alignment explanation
Indices: 10650390--10650504 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
10650380 AGGACCCTAC
*
10650390 TTCATATGGTGTGGTTTGATTATAGATAGTGTGGTTGTGGGGAGCCTATTA
1 TTCAGATGGTGTGGTTTGATTATAGATAGTGTGGTTGTGGGGAGCCTATTA
* *
10650441 TTTAGATGGTGTGGTTTGATTATAGATAGTGTGGTTGTGGGGAGCCTATTC
1 TTCAGATGGTGTGGTTTGATTATAGATAGTGTGGTTGTGGGGAGCCTATTA
*
10650492 TTCATATGGTGTG
1 TTCAGATGGTGTG
10650505 ACAGAAGTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.18, C:0.06, G:0.34, T:0.42
Consensus pattern (51 bp):
TTCAGATGGTGTGGTTTGATTATAGATAGTGTGGTTGTGGGGAGCCTATTA
Found at i:10654032 original size:25 final size:22
Alignment explanation
Indices: 10653987--10654038 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 22
10653977 AAACATTAGT
*
10653987 AAAAATTAAATAATAATAAATA
1 AAAAATTAAATAATAAAAAATA
10654009 AAAAATGTGAAATAAATAAAAAATA
1 AAAAAT-T-AAAT-AATAAAAAATA
10654034 AAAAA
1 AAAAA
10654039 CAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
24 4 0.15
25 15 0.58
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAATTAAATAATAAAAAATA
Found at i:10655290 original size:34 final size:35
Alignment explanation
Indices: 10655246--10655400 Score: 112
Period size: 34 Copynumber: 4.5 Consensus size: 35
10655236 ACAATTTTCA
10655246 AAAACCTATATAATATATATTTTTAAAAAT-ATTTT
1 AAAA-CTATATAATATATATTTTTAAAAATGATTTT
* * * *
10655281 AAAATTATATATATACTTTTTTTTTTAAAAACG-TTTT
1 AAAACTATATA-ATA--TATATTTTTAAAAATGATTTT
* * * *
10655318 CAAA--AT-T-ATATA-GTTTTCAAAAATGTTTTT
1 AAAACTATATAATATATATTTTTAAAAATGATTTT
* *
10655348 AAAACTATATATTATA-AGTTTTT-AAAATGATTTC
1 AAAACTATATAATATATA-TTTTTAAAAATGATTTT
10655382 AAAACTATATAATATATAT
1 AAAACTATATAATATATAT
10655401 ATGTTTTCAA
Statistics
Matches: 93, Mismatches: 16, Indels: 23
0.70 0.12 0.17
Matches are distributed among these distances:
29 10 0.11
30 8 0.09
32 5 0.05
33 1 0.01
34 36 0.39
35 14 0.15
37 19 0.20
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (35 bp):
AAAACTATATAATATATATTTTTAAAAATGATTTT
Found at i:10655293 original size:36 final size:37
Alignment explanation
Indices: 10655252--10655329 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
10655242 TTCAAAAACC
*
10655252 TATATA-ATA-TATATTTTTAAAAATATTTT-AAAAT
1 TATATATATACTATATTTTTAAAAACATTTTCAAAAT
* * *
10655286 TATATATATACTTTTTTTTTTAAAAACGTTTTCAAAAT
1 TATATATATAC-TATATTTTTAAAAACATTTTCAAAAT
10655324 TATATA
1 TATATA
10655330 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.17
35 3 0.08
37 16 0.44
38 11 0.31
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (37 bp):
TATATATATACTATATTTTTAAAAACATTTTCAAAAT
Found at i:10655345 original size:29 final size:29
Alignment explanation
Indices: 10655302--10655358 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10655292 TATACTTTTT
* *
10655302 TTTTTAAAAACGTTTTCAAAATTATATAG
1 TTTTCAAAAACGTTTTCAAAACTATATAG
* *
10655331 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTCAAAAACGTTTTCAAAACTATATA
10655359 TTATAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTCAAAAACGTTTTCAAAACTATATAG
Found at i:10655362 original size:36 final size:36
Alignment explanation
Indices: 10655322--10655588 Score: 122
Period size: 36 Copynumber: 7.2 Consensus size: 36
10655312 CGTTTTCAAA
10655322 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
* * *
10655358 ATTATA-AGTTTT-TAAAATGATTTCAAAACTATAT
1 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
*
10655392 AATATATATATGTTTTC-AAACTGTTTCTTTTTAAAA--AT-T
1 -AT-TATATA-GTTTTCAAAAATG----TTTTTAAAACTATAT
* **
10655431 A-TATTTA-TTTT-AAAAATGTTTTTTTTTAAAACCGTAT
1 ATTATATAGTTTTCAAAAATG----TTTTTAAAACTATAT
* * * * *
10655468 AATATATATTTTTTTAAAAACGTTTTAAAAACTATAT
1 ATTATATA-GTTTTCAAAAATGTTTTTAAAACTATAT
* * ** *
10655505 ATTATAT-TTATTTCCAAAGCGTTTTAAAAACTATAT
1 ATTATATAGT-TTTCAAAAATGTTTTTAAAACTATAT
* * * *
10655541 AATATATAATTGTTTCAAATATGTTTTCAAAACTATATT
1 ATTATAT-AGT-TTTCAAAAATGTTTTTAAAACTATA-T
10655580 ATATATATA
1 AT-TATATA
10655589 TATATATATA
Statistics
Matches: 182, Mismatches: 27, Indels: 41
0.73 0.11 0.16
Matches are distributed among these distances:
34 40 0.22
35 10 0.05
36 45 0.25
37 21 0.12
38 38 0.21
39 4 0.02
40 11 0.06
41 6 0.03
42 7 0.04
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (36 bp):
ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
Found at i:10655434 original size:34 final size:34
Alignment explanation
Indices: 10655396--10655461 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
10655386 CTATATAATA
* * *
10655396 TATATATGTTTTCAAACTGTTTCTTTTTAAAAAT
1 TATATATATTTTAAAAATGTTTCTTTTTAAAAAT
* *
10655430 TATATTTATTTTAAAAATGTTTTTTTTTAAAA
1 TATATATATTTTAAAAATGTTTCTTTTTAAAA
10655462 CCGTATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (34 bp):
TATATATATTTTAAAAATGTTTCTTTTTAAAAAT
Found at i:10655573 original size:38 final size:37
Alignment explanation
Indices: 10655465--10655586 Score: 131
Period size: 38 Copynumber: 3.3 Consensus size: 37
10655455 TTTAAAACCG
* * *
10655465 TATAATATATATTTTTTTAAAAACGTTTTAAAAACTA
1 TATAATATATAATTATTTCAAAACGTTTTAAAAACTA
* *
10655502 TAT-AT-TATATTTATTTCCAAAGCGTTTTAAAAACTA
1 TATAATATATAATTATTT-CAAAACGTTTTAAAAACTA
* * *
10655538 TATAATATATAATTGTTTCAAATATGTTTTCAAAACTA
1 TATAATATATAATTATTTCAAA-ACGTTTTAAAAACTA
*
10655576 TATTATATATA
1 TATAATATATA
10655587 TATATATATA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 10 0.14
36 22 0.31
37 9 0.12
38 31 0.43
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATAATATATAATTATTTCAAAACGTTTTAAAAACTA
Found at i:10655586 original size:2 final size:2
Alignment explanation
Indices: 10655574--10655608 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10655564 TTTTCAAAAC
10655574 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10655609 AAAAAATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10656360 original size:84 final size:82
Alignment explanation
Indices: 10656219--10656903 Score: 717
Period size: 84 Copynumber: 8.3 Consensus size: 82
10656209 ACCCCGCAGT
* *
10656219 TGAGTGTAATCGAACTCG-GGAGTC-TTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
1 TGAGTGTAATCGAACTCGAAG-GTCTTTTGGTCAGATAACCCTTCTCGACTTAAGCTATGCTGCA
*
10656281 TATGATGTGCCTTGGAGC
65 AATGATGTGCCTTGGAGC
* * * * * * *
10656299 TGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGTCTTTTGGT--CAGATAACCCTTCTCGACTTAAGCTATGCTGC
* *
10656364 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* ** *
10656384 TGAGTGTAATCGAACTTGGGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAA
1 TGAGTGTAATCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTAAGCTATGCTGCAA
*
10656447 ATGATATGCCTTGGAGC
66 ATGATGTGCCTTGGAGC
* * * *
10656464 TGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC
1 TGAGTGTAATCGAACTCGAAGGTCTTTTG--GTCAGATAACCCTTCTCGACTTAAGCTATGCTGC
*
10656529 AAATGATATGCCTTGGAGC
64 AAATGATGTGCCTTGGAGC
* * * * * * *
10656548 TGAGTGTAATCGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTGTGCTGC
1 TGAGTGTAATCGAACTCGAAGGTCTTTTG--GTCAGATAACCCTTCTCGACTTAAGCTATGCTGC
* *
10656613 AAATGATGTGCCCTCGAAGC
64 AAATGATGTG-CCTTGGAGC
* * * *
10656633 TGAGTGTAATCGAACTCG-GGGTC-TTTGG-CAGATAGCCCTTCTCGACTTAAGCTATACTGTAA
1 TGAGTGTAATCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTAAGCTATGCTGCAA
10656695 ATGATGTGCCTTGGAGC
66 ATGATGTGCCTTGGAGC
* * * * * *
10656712 TGAGTGTAATCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGTCTTTTGGT--CAGATAACCCTTCTCGACTTAAGCTATGCTGC
* * **
10656777 AAATGTTATGCCCTTAAAGC
64 AAATGATGTG-CCTTGGAGC
* * *
10656797 TGAGTGTAATCGAACT-TAAGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTTAAGCTATTCTGC
1 TGAGTGTAATCGAACTCGAA-GGTCTTTTGGTCAGATAACCCTTCTCGAC-TTAAGCTATGCTGC
10656859 AAATGATGTGCCTTGGAGC
64 AAATGATGTGCCTTGGAGC
* *
10656878 TGAGCGTAGTCGAACTCGAAGGTCTT
1 TGAGTGTAATCGAACTCGAAGGTCTT
10656904 GGTGGCATGT
Statistics
Matches: 502, Mismatches: 82, Indels: 40
0.80 0.13 0.06
Matches are distributed among these distances:
79 24 0.05
80 83 0.17
81 91 0.18
82 21 0.04
83 5 0.01
84 201 0.40
85 77 0.15
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (82 bp):
TGAGTGTAATCGAACTCGAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTAAGCTATGCTGCAA
ATGATGTGCCTTGGAGC
Found at i:10656411 original size:165 final size:162
Alignment explanation
Indices: 10656188--10656944 Score: 691
Period size: 165 Copynumber: 4.6 Consensus size: 162
10656178 TCTTGCCATG
* * * * *
10656188 AGCTATGTTGTAAATGATATGACCCCGCAGTTGAGTGTAATCGAACTCGGGAGTCTTTGGCAGAT
1 AGCTATGCTGTAAATGATATG-CCTCGGAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
*
10656253 AGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
65 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
* * *
10656318 AGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
130 AGGTCTTTTGGT--CAGATAACCCTTCTCGACTTA
* * * *
10656353 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGAT
1 AGCTATGCTGTAAATGATATG-CCTCGGAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
*
10656418 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGA
65 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
*
10656483 AGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTA
130 AGGTCTTTTG--GTCAGATAACCCTTCTCGACTTA
* * * ***
10656518 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTGTTGGCA
1 AGCTATGCTGTAAATGATATGCCTCGGAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGGCA
* * * * * * * * * *
10656583 AACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAAC
62 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
* *
10656648 TCG-GGGTC-TTTGG-CAGATAGCCCTTCTCGACTTA
126 TCGAAGGTCTTTTGGTCAGATAACCCTTCTCGACTTA
* * * ***
10656682 AGCTATACTGTAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTGGTCACA
1 AGCTATGCTGTAAATGATATGCCTCGGAGCTGAGTGTAATCGAACTCGGGGGTC-TTTGG---CA
* * * * * * * * ** * *
10656747 GATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTAAAGCTGAGTGTAATCGAAC
62 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAAC
* *
10656812 T-TAAGGGTC-TTTGG-CAGATAGCCCTTCTCGACTTTA
126 TCGAA-GGTCTTTTGGTCAGATAACCCTTCTCGAC-TTA
* * * * * * **
10656848 AGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGGCATG
1 AGCTATGCTGTAAATGATATGCCTCGGAGCTGAGTGTAATCGAACTCGGGGGTCTT--TGGCA-G
* * * *
10656913 -TAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
63 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
10656945 AGTTTGTTTA
Statistics
Matches: 514, Mismatches: 62, Indels: 33
0.84 0.10 0.05
Matches are distributed among these distances:
161 4 0.01
162 2 0.00
164 184 0.36
165 197 0.38
166 52 0.10
167 9 0.02
168 43 0.08
169 23 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (162 bp):
AGCTATGCTGTAAATGATATGCCTCGGAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATA
GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
GGTCTTTTGGTCAGATAACCCTTCTCGACTTA
Found at i:10656527 original size:249 final size:248
Alignment explanation
Indices: 10656244--10656944 Score: 831
Period size: 249 Copynumber: 2.8 Consensus size: 248
10656234 TCGGGAGTCT
* * * * *
10656244 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAAT
* * * * * *
10656309 CGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
66 CGAACTCAAAGGTCTTTTGGTCACAAACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
*
10656374 CCCTCGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAAC-TCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* * *
10656439 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
195 TACTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTG
*
10656493 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAAT
* ** *
10656558 CGAACTCAAAGGTCTTTTGTTGGCAAACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATGTG
66 CGAACTCAAAGGTCTTTTGGTCACAAACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
10656623 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* * *
10656688 ACTGTAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTG
196 ACTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTG
* ** * * * * * ** *
10656741 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTAAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAA
* * * * * * * *
10656806 TCGAACTTAAGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTTAAGCTATTCTGCAAATGATG
65 TCGAACTCAAAGGTCTTTTGGTCACAAACAACCCTTCTAGAC-TTAAGTTATGCTGCAAATGATG
* * * * * * * *
10656867 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGGCATG-TAGCCCTTCTGGCCTTG
129 TGCCCTCGAAGCTGAGTGTAATCGAACTCG-GGGTCTT--TGGCA-GATAGCCCTTCTCGACTTA
10656930 AGCTA-AGCTGCAAAT
190 AGCTATA-CTGCAAAT
10656945 AGTTTGTTTA
Statistics
Matches: 393, Mismatches: 52, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
245 37 0.09
246 27 0.07
247 1 0.00
248 159 0.40
249 169 0.43
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (248 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAAT
CGAACTCAAAGGTCTTTTGGTCACAAACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
ACTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTG
Found at i:10662005 original size:25 final size:22
Alignment explanation
Indices: 10661960--10662011 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 22
10661950 AAACATTAGT
*
10661960 AAAAATTAAATAATAATAAATA
1 AAAAATTAAATAATAAAAAATA
10661982 AAAAATGTGAAATAAATAAAAAATA
1 AAAAAT-T-AAAT-AATAAAAAATA
10662007 AAAAA
1 AAAAA
10662012 CAAAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
24 4 0.15
25 15 0.58
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAATTAAATAATAAAAAATA
Found at i:10663316 original size:29 final size:29
Alignment explanation
Indices: 10663273--10663329 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10663263 ATATACTTTT
*
10663273 TTTTAAAAAACGTTTTCAAAATTATATAG
1 TTTTAAAAAACGTTTTCAAAACTATATAG
* * *
10663302 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTAAAAAACGTTTTCAAAACTATATA
10663330 TTATAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTTAAAAAACGTTTTCAAAACTATATAG
Found at i:10663347 original size:34 final size:36
Alignment explanation
Indices: 10663293--10663370 Score: 106
Period size: 34 Copynumber: 2.2 Consensus size: 36
10663283 CGTTTTCAAA
* *
10663293 ATTATATAGTTTTCAAAAATGTTTTTAAAACTATAT
1 ATTATATAGTTTTCAAAAATGATTTCAAAACTATAT
*
10663329 ATTATA-AGTTTT-TAAAATGATTTCAAAACTATAT
1 ATTATATAGTTTTCAAAAATGATTTCAAAACTATAT
*
10663363 AATATATA
1 ATTATATA
10663371 TATATGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 24 0.65
35 7 0.19
36 6 0.16
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (36 bp):
ATTATATAGTTTTCAAAAATGATTTCAAAACTATAT
Found at i:10663431 original size:17 final size:18
Alignment explanation
Indices: 10663392--10663435 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
10663382 AAACTGTTTC
10663392 TTTTTAAAAATTATATTT
1 TTTTTAAAAATTATATTT
*
10663410 ATTTTAAAAATGT-T-TTT
1 TTTTTAAAAAT-TATATTT
10663427 TTTTTAAAA
1 TTTTTAAAA
10663436 CCGTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 11 0.48
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTAAAAATTATATTT
Found at i:10663486 original size:38 final size:38
Alignment explanation
Indices: 10663439--10663562 Score: 144
Period size: 38 Copynumber: 3.3 Consensus size: 38
10663429 TTTAAAACCG
* *
10663439 TATAATATATATTTTTTTTAAAAACGTTTTAAAAACTA
1 TATAATATATATTTATTTCAAAAACGTTTTAAAAACTA
* *
10663477 TAT-AT-TATATTTATTTCCAAAGCGTTTTAAAAACTA
1 TATAATATATATTTATTTCAAAAACGTTTTAAAAACTA
* * * * *
10663513 TATAATATATAATTGTTTCAAATATGTTTTCAAAACTA
1 TATAATATATATTTATTTCAAAAACGTTTTAAAAACTA
*
10663551 TATTATATATAT
1 TATAATATATAT
10663563 ATATATATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
36 30 0.42
37 4 0.06
38 37 0.52
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (38 bp):
TATAATATATATTTATTTCAAAAACGTTTTAAAAACTA
Found at i:10663503 original size:36 final size:36
Alignment explanation
Indices: 10663428--10663562 Score: 119
Period size: 36 Copynumber: 3.6 Consensus size: 36
10663418 AATGTTTTTT
* * *
10663428 TTTTAAAACCGTATA-ATATATATTTTTTTTAAAAACG
1 TTTTAAAAAC-TATATAT-TATATTTATTTCAAAAACG
* *
10663465 TTTTAAAAACTATATATTATATTTATTTCCAAAGCG
1 TTTTAAAAACTATATATTATATTTATTTCAAAAACG
* * * *
10663501 TTTTAAAAACTATATAATATATAATTGTTTCAAATATG
1 TTTTAAAAACTATAT-AT-TATATTTATTTCAAAAACG
*
10663539 TTTTCAAAACTATATTATATATAT
1 TTTTAAAAACTATA-TAT-TATAT
10663563 ATATATATGT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
36 34 0.42
37 13 0.16
38 33 0.41
39 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATTTATTTCAAAAACG
Found at i:10663948 original size:113 final size:111
Alignment explanation
Indices: 10663815--10664049 Score: 312
Period size: 113 Copynumber: 2.1 Consensus size: 111
10663805 TATTCATTTC
* * *
10663815 AATAAAAAAATCAATTTAATTTATGACAGG-ACAATGATCCCGTCAAAAAATTTATTCACCTTTA
1 AATAAAAAAATCAATTTAATTTATGAC-GGAACAACGATCCCATCAAAAAATTTATTCAACTTTA
* * *
10663879 ATTAAAATATACTAATTTAATTTGTGATGGAATAATTA-TTCTGTCGGA
65 ATTAAAATATACCAATTTAATTTGTAATGGAATAATCATTTC-GTC-GA
* * * * *
10663927 AATAAAAAGTATCAATTTAATTTATGACGGAACAACGATTCCATCAGAAATTTTATTCAACTTTC
1 AATAAAAA-AATCAATTTAATTTATGACGGAACAACGATCCCATCAAAAAATTTATTCAACTTTA
*
10663992 ATTAAAATATACCAATTTAATTTGTAATGGAATACTCATTTCGTCGA
65 ATTAAAATATACCAATTTAATTTGTAATGGAATAATCATTTCGTCGA
10664039 AATAAAAAAAT
1 AATAAAAAAAT
10664050 AACTACATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
111 2 0.02
112 20 0.19
113 82 0.77
114 3 0.03
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (111 bp):
AATAAAAAAATCAATTTAATTTATGACGGAACAACGATCCCATCAAAAAATTTATTCAACTTTAA
TTAAAATATACCAATTTAATTTGTAATGGAATAATCATTTCGTCGA
Found at i:10667999 original size:31 final size:31
Alignment explanation
Indices: 10667961--10668022 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10667951 AAGTGTTCTA
10667961 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
10667992 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
10668023 ATGCGCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.23
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:10668139 original size:29 final size:29
Alignment explanation
Indices: 10668101--10668188 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
10668091 AAGGCGCAGG
*
10668101 ACAAGGTCGCCCAGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* * *
10668130 ACCATGTCGCCTGGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* *
10668159 ACAAGGTCGCCCGGAGGGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
10668188 A
1 A
10668189 TGCTGGGAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.15
Consensus pattern (29 bp):
ACAAGGTCGCCCGGCGTGCATGGCGACCT
Found at i:10669927 original size:113 final size:111
Alignment explanation
Indices: 10669794--10670028 Score: 308
Period size: 113 Copynumber: 2.1 Consensus size: 111
10669784 TATTCATTTC
* * * *
10669794 AATAAAAAAATCAATTTAATTTATGACGGGACAATGACCCCGTCAAAAAATTTATTCACCTTTAA
1 AATAAAAAAATCAATTTAATTTATGACGGAACAACGACCCCATCAAAAAATTTATTCAACTTTAA
* *
10669859 TTAAAATATACTAATTTAATTTGTGATGAAATAATTATTCCGTCGGA
66 TTAAAATATACTAATTTAATTTGTAATGAAATAATCATTCCGTC-GA
* ** * * * *
10669906 AATAAAAAGTATCAATTTAATTTATGACGGAACAACGATTCCATCAGAAATTTTGTTCAACTTTC
1 AATAAAAA-AATCAATTTAATTTATGACGGAACAACGACCCCATCAAAAAATTTATTCAACTTTA
* * *
10669971 ATTAAAATATACTAATTTAATTTGTAATGGAATACTCATTTCGTCGA
65 ATTAAAATATACTAATTTAATTTGTAATGAAATAATCATTCCGTCGA
10670018 AATAAAAAAAT
1 AATAAAAAAAT
10670029 AACTACATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
111 2 0.02
112 18 0.17
113 85 0.81
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (111 bp):
AATAAAAAAATCAATTTAATTTATGACGGAACAACGACCCCATCAAAAAATTTATTCAACTTTAA
TTAAAATATACTAATTTAATTTGTAATGAAATAATCATTCCGTCGA
Found at i:10672518 original size:16 final size:17
Alignment explanation
Indices: 10672488--10672522 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10672478 ATTATGTTTC
*
10672488 AAAGTAAAAGCAAAAAA
1 AAAGAAAAAGCAAAAAA
10672505 AAAGAAAAAG-AAAAAA
1 AAAGAAAAAGCAAAAAA
10672521 AA
1 AA
10672523 CACAACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAGCAAAAAA
Found at i:10676099 original size:149 final size:149
Alignment explanation
Indices: 10675832--10676105 Score: 334
Period size: 149 Copynumber: 1.8 Consensus size: 149
10675822 AGTAGTTTCA
* * * * *
10675832 AGAGGGAGCCTACCTACTAAGGAGAATAGCCAGACATTTGCCTACTGAGGTAACAAGTTGGACTC
1 AGAGGGAGCCTACCCACCAAGGAGAAGAGCCAGACATCTGCCTACTGAGGTAACAAGTTGAACTC
* ** *
10675897 GAGACGATTCGACGCTGAAGCCAACAATTGAAGATCACAAACTAGCTTGAAAGATTTCTGTAAAT
66 GAGACGATTCGACGCTGAAACCAACAATTGAAGATCACAAACTAGCTCAAAAGACTTCTGTAAAT
10675962 AGGAGATGAAGTAGGAGAT
131 AGGAGATGAAGTAGGAGAT
* * * * *
10675981 AGAGGGAGTCTACCCACCAAGGAGACGAGCCAGACATCTGTCTGCTGAGGTAACAAGTTGAACTT
1 AGAGGGAGCCTACCCACCAAGGAGAAGAGCCAGACATCTGCCTACTGAGGTAACAAGTTGAACTC
* * * * ****
10676046 GAGACGATTCGACG-TCGAAACTAATAGTTTAAGATCGTGTACTAGCTCAAAAGACTTCTG
66 GAGACGATTCGACGCT-GAAACCAACAATTGAAGATCACAAACTAGCTCAAAAGACTTCTG
10676106 AAAGTAAAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
148 1 0.01
149 101 0.99
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (149 bp):
AGAGGGAGCCTACCCACCAAGGAGAAGAGCCAGACATCTGCCTACTGAGGTAACAAGTTGAACTC
GAGACGATTCGACGCTGAAACCAACAATTGAAGATCACAAACTAGCTCAAAAGACTTCTGTAAAT
AGGAGATGAAGTAGGAGAT
Found at i:10678918 original size:38 final size:38
Alignment explanation
Indices: 10678867--10678942 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
10678857 TCTTTAAACC
* *
10678867 ATCTCGCTTGAGATGGTTTCACTCAAAACAAAAGATTT
1 ATCTCACTTGAGATAGTTTCACTCAAAACAAAAGATTT
*
10678905 ATCTCACTTGAGATAGTTTCGCTCAAAACAAAAGATTT
1 ATCTCACTTGAGATAGTTTCACTCAAAACAAAAGATTT
10678943 TAAGAAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (38 bp):
ATCTCACTTGAGATAGTTTCACTCAAAACAAAAGATTT
Found at i:10679523 original size:50 final size:51
Alignment explanation
Indices: 10679431--10679528 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 51
10679421 AGCCTGAGAT
* *
10679431 TGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGAGAGTTTCT-TTGACAA
1 TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAGAATTTCTCTTGACAA
* * *
10679481 TGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAATTTCTCTTGA
1 TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAGAATTTCTCTTGA
10679529 AACATAAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 38 0.90
51 4 0.10
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.44
Consensus pattern (51 bp):
TGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAGAATTTCTCTTGACAA
Found at i:10679551 original size:65 final size:65
Alignment explanation
Indices: 10679472--10679597 Score: 173
Period size: 65 Copynumber: 1.9 Consensus size: 65
10679462 GAGAGAGTTT
* * * * *
10679472 CTTTGACAATGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAA-TTTCTCTTGAAACATAA
1 CTTTGAAAACGTTTCCCTTGAAACGAATTTCGTCTCCCTTGAGACAATTTTC-CTTGAAACATAA
10679536 A
65 A
* *
10679537 CTTTGAAAACGTTTCCTTTGAAACGAATTTCGTCTCCCTTGAGACAGTTTTCCTTGAAACA
1 CTTTGAAAACGTTTCCCTTGAAACGAATTTCGTCTCCCTTGAGACAATTTTCCTTGAAACA
10679598 AAGTTTTGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 49 0.92
66 4 0.08
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (65 bp):
CTTTGAAAACGTTTCCCTTGAAACGAATTTCGTCTCCCTTGAGACAATTTTCCTTGAAACATAAA
Found at i:10679609 original size:37 final size:37
Alignment explanation
Indices: 10679554--10679740 Score: 188
Period size: 36 Copynumber: 5.1 Consensus size: 37
10679544 AACGTTTCCT
* * *
10679554 TTGAAACGAA-TTTCGTCTCCCTTGAGACAGTTT-TCC
1 TTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT-C
* * *
10679590 TTGAAACAAAGTTTTGTCTCCCTTAAGATAGTTTCTC
1 TTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
**
10679627 TT-ATAA-AAAAATTTGTCTCTCTTGAGACAGTTTCTC
1 TTGA-AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
* *
10679663 TTGAAACAAAGGTTTT-TCTCTCTTGAAACAATTTCTC
1 TTGAAACAAA-GTTTTGTCTCTCTTGAGACAGTTTCTC
* * *
10679700 TAGAAA-TAAGTTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
10679736 TTGAA
1 TTGAA
10679741 CATAATCTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
35 5 0.04
36 63 0.50
37 53 0.42
38 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
TTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
Found at i:10679666 original size:73 final size:73
Alignment explanation
Indices: 10679562--10679740 Score: 213
Period size: 73 Copynumber: 2.4 Consensus size: 73
10679552 CTTTGAAACG
* * *
10679562 AATTTCGTCTCCCTTGAGACAGTTT-TCCTTGAAACAAA-GTTTTGTCTCCCTT-AAGATAGTTT
1 AATTT-GTCTCTCTTGAGACAGTTTCT-CTTGAAACAAAGGTTTT-TCTCCCTTGAA-ACAATTT
*
10679624 CTCTTATAAA-AA
62 CTC-TAGAAATAA
*
10679636 AATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGGTTTTTCTCTCTTGAAACAATTTCTCT
1 AATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGGTTTTTCTCCCTTGAAACAATTTCTCT
10679701 AGAAATAA
66 AGAAATAA
** *
10679709 GTTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
1 AATTTGTCTCTCTTGAGACAGTTTCTCTTGAA
10679741 CATAATCTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
72 5 0.05
73 75 0.81
74 13 0.14
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (73 bp):
AATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGGTTTTTCTCCCTTGAAACAATTTCTCT
AGAAATAA
Found at i:10679824 original size:36 final size:35
Alignment explanation
Indices: 10679757--10679954 Score: 110
Period size: 36 Copynumber: 5.5 Consensus size: 35
10679747 CTTTGAAAAT
** *
10679757 GTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAAATTGTCTCACTTGAGACA
*
10679793 GTTTCCCTTGAAACAAAATGTATCTCACTTGAGA-A
1 GTTTCCCTTGAAACAAAAT-TGTCTCACTTGAGACA
** * * * **
10679828 GGTTTTTCTTAAAACCAACTTCGTCTTGCTTGAGACAA
1 -GTTTCCCTTGAAACAAAATT-GTCTCACTTGAGAC-A
* * * * **
10679866 TTTTCCCTTGAAACAAAATTTATCTAACTCGAGATG
1 GTTTCCCTTGAAACAAAA-TTGTCTCACTTGAGACA
** * * * *
10679902 GTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACA
1 GTTTCCCTTGAAACAAAATT-GTCTCACTTGAGACA
10679938 GTTTTCCCTTGAAACAA
1 G-TTTCCCTTGAAACAA
10679955 TAAATTTTAT
Statistics
Matches: 114, Mismatches: 40, Indels: 15
0.67 0.24 0.09
Matches are distributed among these distances:
35 7 0.06
36 72 0.63
37 32 0.28
38 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (35 bp):
GTTTCCCTTGAAACAAAATTGTCTCACTTGAGACA
Found at i:10679905 original size:73 final size:73
Alignment explanation
Indices: 10679778--10679954 Score: 275
Period size: 73 Copynumber: 2.4 Consensus size: 73
10679768 AACGAATTTT
* * * *
10679778 GTCTCTCTTGAGAC-AGTTTCCCTTGAAACAAAATGTATCTCACTTGAGAAGGTTTTTCTTAAAA
1 GTCTCGCTTGAGACAATTTTCCCTTGAAACAAAATGTATCTAACTCGAGAAGGTTTTTCTTAAAA
10679842 CCAACTTC
66 CCAACTTC
* * *
10679850 GTCTTGCTTGAGACAATTTTCCCTTGAAACAAAATTTATCTAACTCGAGATGGTTTTTCTTAAAA
1 GTCTCGCTTGAGACAATTTTCCCTTGAAACAAAATGTATCTAACTCGAGAAGGTTTTTCTTAAAA
10679915 CCAACTTC
66 CCAACTTC
*
10679923 GTCTCGCTTGAGACAGTTTTCCCTTGAAACAA
1 GTCTCGCTTGAGACAATTTTCCCTTGAAACAA
10679955 TAAATTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 12 0.13
73 83 0.87
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (73 bp):
GTCTCGCTTGAGACAATTTTCCCTTGAAACAAAATGTATCTAACTCGAGAAGGTTTTTCTTAAAA
CCAACTTC
Found at i:10680410 original size:91 final size:91
Alignment explanation
Indices: 10680255--10680697 Score: 474
Period size: 91 Copynumber: 4.9 Consensus size: 91
10680245 ACCGATTAAC
* * *
10680255 ATTTCCAGTGTAGAGTTCATAATGAGAAGAACTCATCCAACGAGGCAGAATAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
*
10680320 AAGAACTTGTTCAACCTTGTATCAAT
66 AAGAACTTGTTCAACCTTGCATCAAT
*
10680346 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAATAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* *
10680411 AAGACCTT-TTCAACCTTGCATCAAC
66 AAGAACTTGTTCAACCTTGCATCAAT
*
10680436 ATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT--G
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
* * * * ** *
10680499 -AG-A-TTAGCTCAGCGATTCCAGTGGAG
66 AAGAACTT-GTTCAAC-CTTGCA-TCAAT
* * * ** * ** * * * * *
10680525 AGTTCATAAT-GAGAAGAAC-TCATCCGACGAA-TAATCCAATGAGAGATAAGAAGTTCATAATG
1 ATTTC-CAGTGGAG-AGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATG
*
10680587 AGAAGAACTTGTTCAACCTTGGC-TCAGT
64 AGAAGAACTTGTTCAACCTT-GCATCAAT
* * *
10680615 AATTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAACAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
10680680 AAGAACTTGTTCAACCTT
66 AAGAACTTGTTCAACCTT
10680698 AGCTCGATTC
Statistics
Matches: 286, Mismatches: 51, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
85 2 0.01
87 6 0.02
88 31 0.11
89 22 0.08
90 96 0.34
91 120 0.42
92 7 0.02
93 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (91 bp):
ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTGCATCAAT
Found at i:10681084 original size:132 final size:132
Alignment explanation
Indices: 10680829--10681225 Score: 586
Period size: 132 Copynumber: 3.0 Consensus size: 132
10680819 AAGAACTTGT
* * * *
10680829 TCAATTTTTTGCTCGATTCTATCACAGAAAGAGATATATCAGCACCGACATCTCGTTCGATTCCA
1 TCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* * *
10680894 TCATAGAATGAGGTGGATCGATATTTTTATTTTGCTCAAATCCATCACATAAGAAGTTGGATCAG
66 TCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGGATCAG
10680959 CA
131 CA
* *
10680961 TCAACCTTTTT-CTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTTGTTAGATTCC
1 TCAA-CTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCGTTCGATTCC
** *
10681025 ATCACCGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACAGAAGGAGTTGGATCA
65 ATCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGGATCA
10681090 GCA
130 GCA
*
10681093 TCAACTTTTTGCTCTATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
1 TCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
* * * * *
10681158 TCATAGAAGGAGGTGGATCAACATTCTTATTTGGCTC--ATCCATCGCATACA-GAGTTGGATCA
66 TCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACATA-AGGAGTTGGATCA
10681220 GCA
130 GCA
10681223 TCA
1 TCA
10681226 TAAACATTGT
Statistics
Matches: 239, Mismatches: 23, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
130 27 0.11
131 7 0.03
132 200 0.84
133 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (132 bp):
TCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
TCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGGATCAG
CA
Found at i:10681171 original size:44 final size:44
Alignment explanation
Indices: 10680839--10681177 Score: 162
Period size: 44 Copynumber: 7.7 Consensus size: 44
10680829 TCAATTTTTT
* * * **
10680839 GCTCGATTCTATCACAGAAAGAGATATATCAGCACCGACATCTC
1 GCTCGATTCCATCACAGAATGAGGTGGATCAGCACCGACATCTC
* * * ***** * *
10680883 GTTCGATTCCATCATAGAATGAGGTGGATC-GATATTTTTATTTT
1 GCTCGATTCCATCACAGAATGAGGTGGATCAG-CACCGACATCTC
* * * * * * * * *
10680927 GCTCAAATCCATCACATAA-GAAGTTGGATCAGCATCAACCTTTT
1 GCTCGATTCCATCACAGAATG-AGGTGGATCAGCACCGACATCTC
* * * *
10680971 TCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTT
1 GCTCGATTCCATCACAGAATGAGGTGGATCAGCACCGACATCTC
* * * ***** *
10681015 GTTAGATTCCATCACCGAATGAGGTGGATC-GACATTTTTATTTC
1 GCTCGATTCCATCACAGAATGAGGTGGATCAG-CACCGACATCTC
* * * * * * * * *
10681059 GCTCAAATCCATCACAGAAGGAGTTGGATCAGCATCAACTTTTT
1 GCTCGATTCCATCACAGAATGAGGTGGATCAGCACCGACATCTC
* * *
10681103 GCTCTATTCTATCACAGAATGAGGTAGATCAGCACCGACATCTC
1 GCTCGATTCCATCACAGAATGAGGTGGATCAGCACCGACATCTC
* * *
10681147 GTTCGATTCCATCATAGAAGGAGGTGGATCA
1 GCTCGATTCCATCACAGAATGAGGTGGATCA
10681178 ACATTCTTAT
Statistics
Matches: 208, Mismatches: 81, Indels: 12
0.69 0.27 0.04
Matches are distributed among these distances:
43 3 0.01
44 202 0.97
45 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
GCTCGATTCCATCACAGAATGAGGTGGATCAGCACCGACATCTC
Found at i:10681313 original size:96 final size:95
Alignment explanation
Indices: 10681188--10681371 Score: 273
Period size: 96 Copynumber: 1.9 Consensus size: 95
10681178 ACATTCTTAT
* *
10681188 TTGGCTCATCCATCGCATACAGAGTTGGATCAGCATCATAAACAT-TGTCATTCTTGCTCGATTC
1 TTGGCTAATCCATCGCATACAGAGTTGGATCAGAATCATAAACATAT-TCATTCTTGCTCGATT-
10681252 CATCACATACGGAGTTGGAA-CAGCACCAATAC
64 CATCACATACGGAGTT-GAATCAGCACCAATAC
* *
10681284 TTGGCTAATCCATCGCATACAGAGTTGGATCAGAATCATCAATATATTCATTCTTGCTCGATTCA
1 TTGGCTAATCCATCGCATACAGAGTTGGATCAGAATCATAAACATATTCATTCTTGCTCGATTCA
* *
10681349 TCATATATGGAGTTGAATCAGCA
66 TCACATACGGAGTTGAATCAGCA
10681372 ACACCTATCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
94 3 0.04
95 19 0.24
96 57 0.71
97 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (95 bp):
TTGGCTAATCCATCGCATACAGAGTTGGATCAGAATCATAAACATATTCATTCTTGCTCGATTCA
TCACATACGGAGTTGAATCAGCACCAATAC
Found at i:10681718 original size:19 final size:19
Alignment explanation
Indices: 10681662--10681718 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
10681652 ATTATGTTTC
* *
10681662 AAAGTAAAAGCAAAAAAGA
1 AAAGTAAAAGAAAAAAACA
* *
10681681 AAAGTCAAAGAAAATAACA
1 AAAGTAAAAGAAAAAAACA
*
10681700 AAAGAAAAAGAAAAAAACA
1 AAAGTAAAAGAAAAAAACA
10681719 CATTGATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAGTAAAAGAAAAAAACA
Found at i:10684260 original size:23 final size:23
Alignment explanation
Indices: 10684233--10684276 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10684223 TATAGAGTTT
* *
10684233 TGTCCCGAAGGACCGCATAGAAA
1 TGTCCCGAAAGACCACATAGAAA
10684256 TGTCCCGAAAGACCACATAGA
1 TGTCCCGAAAGACCACATAGA
10684277 TGCCGCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (23 bp):
TGTCCCGAAAGACCACATAGAAA
Found at i:10684418 original size:42 final size:41
Alignment explanation
Indices: 10684325--10684423 Score: 99
Period size: 42 Copynumber: 2.4 Consensus size: 41
10684315 GACCACTCCT
* *
10684325 TAAGGACCACATACATCTTCCAATGGACCAAATAGATGTACC
1 TAAGGACCACATAGATCTTCCAAAGGACCAAATAGATGT-CC
* * ** * *
10684367 TAAGTACCACATAGATGTTCCAAAGGATTATATATATGTCC
1 TAAGGACCACATAGATCTTCCAAAGGACCAAATAGATGTCC
*
10684408 TAAAGGACCACGTAGA
1 T-AAGGACCACATAGA
10684424 ACCCTCGACC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
41 3 0.07
42 43 0.93
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (41 bp):
TAAGGACCACATAGATCTTCCAAAGGACCAAATAGATGTCC
Found at i:10684518 original size:19 final size:20
Alignment explanation
Indices: 10684494--10684542 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
10684484 TTTATATTTG
10684494 TCACATATACACA-TTCATA
1 TCACATATACACATTTCATA
*
10684513 TCACATAGT-CATATTTTCATA
1 TCACATA-TACACA-TTTCATA
10684534 TCACATATA
1 TCACATATA
10684543 TCATGTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.40
20 2 0.08
21 13 0.52
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (20 bp):
TCACATATACACATTTCATA
Found at i:10684835 original size:30 final size:30
Alignment explanation
Indices: 10684801--10684865 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
10684791 TACTACTAAA
10684801 ATATCAAATAAGTCCTTAAACAATTATTTT
1 ATATCAAATAAGTCCTTAAACAATTATTTT
10684831 ATATCAAATAAGTCCTTAAACAATTATTTT
1 ATATCAAATAAGTCCTTAAACAATTATTTT
10684861 ATATC
1 ATATC
10684866 TAATTTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (30 bp):
ATATCAAATAAGTCCTTAAACAATTATTTT
Found at i:10685241 original size:23 final size:23
Alignment explanation
Indices: 10685211--10685258 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
10685201 TGTTAGAATA
10685211 AATTAGATATAAAATCATTGTTT
1 AATTAGATATAAAATCATTGTTT
*
10685234 AATTAGATATAAAATTATTGTTT
1 AATTAGATATAAAATCATTGTTT
10685257 AA
1 AA
10685259 GGACCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (23 bp):
AATTAGATATAAAATCATTGTTT
Found at i:10685403 original size:24 final size:24
Alignment explanation
Indices: 10685376--10685423 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10685366 TTTTATTACA
* * *
10685376 AATCGATAATATTAGTGACCATTT
1 AATCAATAACATTACTGACCATTT
10685400 AATCAATAACATTACTGACCATTT
1 AATCAATAACATTACTGACCATTT
10685424 TGTTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (24 bp):
AATCAATAACATTACTGACCATTT
Found at i:10685439 original size:30 final size:31
Alignment explanation
Indices: 10685400--10685457 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
10685390 GTGACCATTT
* *
10685400 AATCAATAACATTACTGACCATTTTGTTACA
1 AATCAATAACATTAATGACCAATTTGTTACA
*
10685431 AATC-ATAACATTAATGACTAATTTGTT
1 AATCAATAACATTAATGACCAATTTGTT
10685458 GCTTTTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (31 bp):
AATCAATAACATTAATGACCAATTTGTTACA
Found at i:10693096 original size:39 final size:39
Alignment explanation
Indices: 10693053--10693150 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
10693043 TAATTCCCAG
*
10693053 AATCCCTAATTTCCCATTTT-CATTTC-CCTCTCGCACCTC
1 AATCCCTAA-TTCCCATTTTACAATTCTCCT-TCGCACCTC
* *
10693092 AATCCCTAATTCCCCTTTTACAATTCTCCTTCGCATCTC
1 AATCCCTAATTCCCATTTTACAATTCTCCTTCGCACCTC
10693131 AATCCCTAATTCACCATTTT
1 AATCCCTAATTC-CCATTTT
10693151 TCTCTTCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 9 0.17
39 34 0.65
40 9 0.17
ACGTcount: A:0.21, C:0.38, G:0.02, T:0.39
Consensus pattern (39 bp):
AATCCCTAATTCCCATTTTACAATTCTCCTTCGCACCTC
Found at i:10698673 original size:39 final size:40
Alignment explanation
Indices: 10698630--10698727 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 40
10698620 CAATTCCCAG
* *
10698630 AATCCCTAATTTC-CCATTTT-CATTTC-CCTCTCGCACCTC
1 AATCCCTAA-TTCACCATTTTACAATTCTCAT-TCGCACCTC
* *
10698669 AATCCCTAATTCTCC-TTTTACAATTCTCATTCGCATCTC
1 AATCCCTAATTCACCATTTTACAATTCTCATTCGCACCTC
10698708 AATCCCTAATTCACCATTTT
1 AATCCCTAATTCACCATTTT
10698728 TCTCTTCGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
38 7 0.14
39 38 0.75
40 6 0.12
ACGTcount: A:0.22, C:0.36, G:0.02, T:0.40
Consensus pattern (40 bp):
AATCCCTAATTCACCATTTTACAATTCTCATTCGCACCTC
Found at i:10699554 original size:15 final size:15
Alignment explanation
Indices: 10699534--10699563 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10699524 GATTAGTATC
10699534 TTTCCTAACTTAGAG
1 TTTCCTAACTTAGAG
*
10699549 TTTCCTAATTTAGAG
1 TTTCCTAACTTAGAG
10699564 ATATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTCCTAACTTAGAG
Found at i:10701673 original size:36 final size:35
Alignment explanation
Indices: 10701622--10701761 Score: 181
Period size: 36 Copynumber: 3.9 Consensus size: 35
10701612 TGAATAAGAA
*
10701622 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
1 GAACGGAAGGAAGCATCAGCACTTTCGATTC-AAGT
* * *
10701658 GGACGGAAGGAAGCATCGGCACTTTCGATTCAAGAA
1 GAACGGAAGGAAGCATCAGCACTTTCGATTCAAG-T
* * *
10701694 GAATGAAAGGAAGCATCGGCACTTTCGATTCAAGT
1 GAACGGAAGGAAGCATCAGCACTTTCGATTCAAGT
* *
10701729 GAACGGAAGGAAGCGTCAGCACTTTCGGTTCAA
1 GAACGGAAGGAAGCATCAGCACTTTCGATTCAA
10701762 TTGTTTATCT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
35 31 0.34
36 59 0.66
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (35 bp):
GAACGGAAGGAAGCATCAGCACTTTCGATTCAAGT
Found at i:10705298 original size:3 final size:3
Alignment explanation
Indices: 10705274--10705323 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
10705264 GTCTTTTTTA
*
10705274 TAT TAT T-T AAT T-T TAT TAAT TAT TAT TAAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT
10705319 TAT TA
1 TAT TA
10705324 AATTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 3 0.07
3 32 0.78
4 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:10705299 original size:10 final size:10
Alignment explanation
Indices: 10705274--10705335 Score: 72
Period size: 10 Copynumber: 5.8 Consensus size: 10
10705264 GTCTTTTTTA
10705274 TATTATTTAAT
1 TATTA-TTAAT
10705285 T-TTATTAAT
1 TATTATTAAT
10705294 TATTATTAAT
1 TATTATTAAT
10705304 TATTATTATTAT
1 TATTATTA--AT
10705316 TATTATTAAAT
1 TATTATT-AAT
10705327 TATATATTA
1 TAT-TATTA
10705336 CAAATTTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.13
10 19 0.41
11 7 0.15
12 13 0.28
13 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TATTATTAAT
Found at i:10705481 original size:25 final size:25
Alignment explanation
Indices: 10705452--10705550 Score: 157
Period size: 25 Copynumber: 4.0 Consensus size: 25
10705442 GAACCAACCC
10705452 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
10705477 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
10705502 ATCAAATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
10705527 AACA-ATTTAGGGTTTC-AACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
10705551 TCCCCTAACT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
24 9 0.13
25 62 0.87
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:10705916 original size:14 final size:15
Alignment explanation
Indices: 10705899--10705929 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10705889 GAAACGAAAG
10705899 AAGGGA-GAAAAAAA
1 AAGGGAGGAAAAAAA
10705913 AAGGGAGGAAAAAAA
1 AAGGGAGGAAAAAAA
10705928 AA
1 AA
10705930 AGGGGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAGGGAGGAAAAAAA
Found at i:10705936 original size:14 final size:14
Alignment explanation
Indices: 10705899--10705937 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10705889 GAAACGAAAG
10705899 AAGGGAGAAAAAAAA
1 AAGGG-GAAAAAAAA
*
10705914 AGGGAGGAAAAAAAA
1 AAGG-GGAAAAAAAA
10705929 AAGGGGAAA
1 AAGGGGAAA
10705938 CATCCATTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 5 0.24
15 15 0.71
16 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAGGGGAAAAAAAA
Found at i:10720396 original size:130 final size:130
Alignment explanation
Indices: 10720081--10720389 Score: 424
Period size: 130 Copynumber: 2.3 Consensus size: 130
10720071 TCAACATCAA
*
10720081 CTGACCAGA-CTTCCTCATCACGTAGGAGCCGTGTCAACATTAGGATAACCAGCCGTCCTCATCA
1 CTGACCAGATC-TCCTCATCACGTAGGAGCCGTGTCAACCTTA-GATAACCAGCCGTCCTCATCA
* * * * *
10720145 CGTAGGAACCGAGTTATCACCCTTCCTAAAGGTGGCCAGAGTTTTTCATCATGTATGAACCGTGT
64 CGTAGGAACCGAGTTATCA--C--CCTAAAGATGGCCAGAATTCTTCATCATGTAGGAACAGTGT
10720210 CATCCC
125 CATCCC
* * * *
10720216 CAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACG
1 CTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCACG
* *
10720281 TAGGAACCGTGTTATCA-CCTAAAGATGGCCAAGAATTCTTCATCATGTAGGAGCAGTGTCATCC
66 TAGGAACCGAGTTATCACCCTAAAGATGGCC-AGAATTCTTCATCATGTAGGAACAGTGTCATCC
10720345 C
130 C
*
10720346 CTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
1 CTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGA
10720390 CGACCAGACC
Statistics
Matches: 155, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
129 12 0.08
130 68 0.44
134 39 0.25
135 35 0.23
136 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (130 bp):
CTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGCCGTCCTCATCACG
TAGGAACCGAGTTATCACCCTAAAGATGGCCAGAATTCTTCATCATGTAGGAACAGTGTCATCCC
Found at i:10720597 original size:9 final size:10
Alignment explanation
Indices: 10720579--10720636 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 10
10720569 GTCTTTTTTA
10720579 TATTATTTAAT
1 TATTA-TTAAT
10720590 T-TTATTAAT
1 TATTATTAAT
10720599 TATTATT-AT
1 TATTATTAAT
10720608 TATTATT-AT
1 TATTATTAAT
10720617 TATTATTAAAT
1 TATTATT-AAT
10720628 TATATATTA
1 TAT-TATTA
10720637 CAAATTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
9 24 0.56
10 8 0.19
11 7 0.16
12 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTAAT
Found at i:10720603 original size:3 final size:3
Alignment explanation
Indices: 10720579--10720624 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
10720569 GTCTTTTTTA
*
10720579 TAT TAT T-T AAT T-T TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
10720623 TA
1 TA
10720625 AATTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10720782 original size:25 final size:25
Alignment explanation
Indices: 10720753--10720851 Score: 157
Period size: 25 Copynumber: 4.0 Consensus size: 25
10720743 GAACCAACCC
10720753 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
10720778 ATCAGATTAGGGTTTGAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
10720803 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
10720828 AACA-ATTTAGGGTTTC-AACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
10720852 TCCCCTAACT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.13
25 61 0.87
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:10721225 original size:16 final size:15
Alignment explanation
Indices: 10721200--10721238 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10721190 GAAACGAAAG
10721200 AAGGGAGAAAAAAAA
1 AAGGGAGAAAAAAAA
*
10721215 AAGGGAGGAAAAAAA
1 AAGGGAGAAAAAAAA
10721230 AAGGG-GAAA
1 AAGGGAGAAA
10721239 CATCCATTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGGGAGAAAAAAAA
Found at i:10724987 original size:39 final size:39
Alignment explanation
Indices: 10724925--10725035 Score: 129
Period size: 39 Copynumber: 2.8 Consensus size: 39
10724915 TTATTTATAA
* *
10724925 TTCTCAAATTATTTCAC-TCTAACATTCTAAATTCCTAAT
1 TTCTTAAATTATTCCACAT-TAACATTCTAAATTCCTAAT
* *
10724964 TTCTTAAATT-TTACCACCA-TAACATTCTATATTCTTAAT
1 TTCTTAAATTATT-CCA-CATTAACATTCTAAATTCCTAAT
*
10725003 TTCTTAAATTATTTCACATTAACATTCTAAATT
1 TTCTTAAATTATTCCACATTAACATTCTAAATT
10725036 ATTTTTGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
38 4 0.07
39 54 0.89
40 3 0.05
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (39 bp):
TTCTTAAATTATTCCACATTAACATTCTAAATTCCTAAT
Found at i:10725890 original size:17 final size:16
Alignment explanation
Indices: 10725868--10725919 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 16
10725858 TAACATTCAA
10725868 ATTATAATATATAGTAT
1 ATTATAATATATA-TAT
10725885 ATTATAAT-TA-ATGAT
1 ATTATAATATATAT-AT
10725900 A-TAT-ATATATATAT
1 ATTATAATATATATAT
10725914 ATTATA
1 ATTATA
10725920 GCTAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
13 2 0.07
14 9 0.30
15 9 0.30
16 2 0.07
17 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTATAATATATATAT
Found at i:10725925 original size:29 final size:29
Alignment explanation
Indices: 10725870--10725925 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10725860 ACATTCAAAT
*
10725870 TATAATATATAGTATATTATAATTAATGA
1 TATAATATATAGTATATTATAACTAATGA
*
10725899 TATATATATATA-TATATTATAGCTAAT
1 TATA-ATATATAGTATATTATAACTAAT
10725926 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (29 bp):
TATAATATATAGTATATTATAACTAATGA
Found at i:10727324 original size:13 final size:13
Alignment explanation
Indices: 10727306--10727331 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10727296 TTGACAACAC
10727306 GTGTCACAATATT
1 GTGTCACAATATT
10727319 GTGTCACAATATT
1 GTGTCACAATATT
10727332 ATTAGAGAAC
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTGTCACAATATT
Found at i:10728277 original size:58 final size:58
Alignment explanation
Indices: 10728182--10728316 Score: 243
Period size: 58 Copynumber: 2.3 Consensus size: 58
10728172 GCGAAAACGA
* *
10728182 AATTCGCGTTGCGAATTTGAAAACTGAGTTGCTAATAGTTGTGTTTACCTATATCGAT
1 AATTAGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGAT
*
10728240 AATTAGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGT
1 AATTAGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGAT
10728298 AATTAGCGTTGCGAATTTG
1 AATTAGCGTTGCGAATTTG
10728317 GAGAATCGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (58 bp):
AATTAGCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGAT
Found at i:10728329 original size:21 final size:21
Alignment explanation
Indices: 10728303--10728358 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
10728293 TCGGTAATTA
10728303 GCGTTGCGAATTTGGAGAATC
1 GCGTTGCGAATTTGGAGAATC
10728324 GCGTTGCGAATTTGGAGAATC
1 GCGTTGCGAATTTGGAGAATC
*
10728345 GCGTTACGAATTTG
1 GCGTTGCGAATTTG
10728359 AAAACTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.30
Consensus pattern (21 bp):
GCGTTGCGAATTTGGAGAATC
Found at i:10728418 original size:100 final size:100
Alignment explanation
Indices: 10728245--10728439 Score: 363
Period size: 100 Copynumber: 1.9 Consensus size: 100
10728235 TCGATAATTA
*
10728245 GCGTTGCGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGC
1 GCGTTACGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGC
*
10728310 GAATTTGGAGAATCGCGTTGCGAATTTGGAGAATC
66 AAATTTGGAGAATCGCGTTGCGAATTTGGAGAATC
*
10728345 GCGTTACGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGT
1 GCGTTACGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGC
10728410 AAATTTGGAGAATCGCGTTGCGAATTTGGA
66 AAATTTGGAGAATCGCGTTGCGAATTTGGA
10728440 AACTGTGTTG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (100 bp):
GCGTTACGAATTTGAAAACTGAGTTGCGAATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGC
AAATTTGGAGAATCGCGTTGCGAATTTGGAGAATC
Found at i:10729593 original size:24 final size:24
Alignment explanation
Indices: 10729556--10729615 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
10729546 CAAATAACTT
10729556 TATATATATA--TATTTAAAAATA
1 TATATATATACTTATTTAAAAATA
* *
10729578 TATATATATACTTATTTGAATATA
1 TATATATATACTTATTTAAAAATA
* *
10729602 TAGAAATATACTTA
1 TATATATATACTTA
10729616 CACCAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 10 0.31
24 22 0.69
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
TATATATATACTTATTTAAAAATA
Found at i:10730547 original size:31 final size:31
Alignment explanation
Indices: 10730506--10730579 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
10730496 ATTAAAAGTG
* * *
10730506 ACAAATTGGTCTCTAACGTTACC-GATTTGTA
1 ACAAAATGGTCACTAACATTACCAG-TTTGTA
10730537 ACAAAATGGTCACTAACATTACCAGTTTGTA
1 ACAAAATGGTCACTAACATTACCAGTTTGTA
*
10730568 ACAAAATAGTCA
1 ACAAAATGGTCA
10730580 TTCTATCGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (31 bp):
ACAAAATGGTCACTAACATTACCAGTTTGTA
Found at i:10737445 original size:21 final size:21
Alignment explanation
Indices: 10737419--10737481 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
10737409 TTTTGGTGCA
*
10737419 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCCCT
* **
10737440 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCCT
*
10737461 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATCCCCCCC
10737482 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCCT
Found at i:10737489 original size:21 final size:21
Alignment explanation
Indices: 10737463--10737502 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10737453 CCCCCTTTGA
*
10737463 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
10737484 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
10737503 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:10748432 original size:17 final size:17
Alignment explanation
Indices: 10748398--10748431 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10748388 TGCTGTGTTC
10748398 TCTTTCTCTGTTTTTTT
1 TCTTTCTCTGTTTTTTT
10748415 TCTTT-TCTGTTTTTTT
1 TCTTTCTCTGTTTTTTT
10748431 T
1 T
10748432 TTCTTGTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TCTTTCTCTGTTTTTTT
Found at i:10748710 original size:27 final size:27
Alignment explanation
Indices: 10748674--10748764 Score: 173
Period size: 27 Copynumber: 3.4 Consensus size: 27
10748664 GCAGTGAGGC
*
10748674 GGCGGCTGGGATTCTTGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10748701 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10748728 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10748755 GGCGGCTGGG
1 GGCGGCTGGG
10748765 GGTGGCTAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (27 bp):
GGCGGCTGGGATTCTGGAAGCATCAGA
Found at i:10748890 original size:3 final size:3
Alignment explanation
Indices: 10748882--10748994 Score: 136
Period size: 3 Copynumber: 36.7 Consensus size: 3
10748872 TTATTTATTA
* * *
10748882 AAT AAT AAT AAT ATAT AAT ATT GAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
10748929 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
**
10748978 TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
10748995 ATTTAAATGA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
3 86 0.92
4 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:10750033 original size:113 final size:113
Alignment explanation
Indices: 10749636--10750278 Score: 921
Period size: 113 Copynumber: 5.7 Consensus size: 113
10749626 TAGAATTATG
*
10749636 CAAAAA-GTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
10749700 ATTATGAACTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
66 ATTATGAACTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAA
10749748 C-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
*
10749812 CTCATTATGAACTCTACCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGA
63 CTCATTATGAACT-T--CTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAA
10749866 -AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
10749930 ATTATGAACTTCTCTGGCAACAATAATCCATCAAGTGATGAATTCAAA
66 ATTATGAACTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAA
*
10749978 CAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * *
10750043 ATTATGAAC-TCTACCTGG-AAAGGCTGATCCAGCAAATGATGGATTC-AA
66 ATTATGAACTTCT--CTGGCAAA-AATAATCCATCAAGTGATGAATTCAAA
**
10750091 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
10750156 ATTATGAAC-TCGAACTGG-AAATACTGAAT-CATCGAA-TGATGAATTCAAG
66 ATTATGAACTTC--TCTGGCAAA-AAT-AATCCATC-AAGTGATGAATTCAAA
* *
10750205 CGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
10750269 ATTATGAACT
66 ATTATGAACT
10750279 CGAACTGGAA
Statistics
Matches: 489, Mismatches: 24, Indels: 34
0.89 0.04 0.06
Matches are distributed among these distances:
111 4 0.01
112 85 0.17
113 236 0.48
114 32 0.07
115 42 0.09
116 1 0.00
118 89 0.18
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (113 bp):
CAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAA
Found at i:10750774 original size:22 final size:22
Alignment explanation
Indices: 10750749--10750803 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
10750739 CATAAAGTTT
*
10750749 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
10750771 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
10750793 TCATCTTTGAA
1 TCATCTTTGAA
10750804 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:10751299 original size:54 final size:53
Alignment explanation
Indices: 10751175--10751375 Score: 232
Period size: 54 Copynumber: 3.8 Consensus size: 53
10751165 CACTGGTTCA
* * * *
10751175 TAAAACATTTGATAATACATTCAT-CTTTTCCTGTGGTTTCTG-TC-GAG-ATG
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGCTCAGAGTTTG
*
10751225 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGA-GTTTG
* * **
10751279 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGA-GTTTG
* *
10751333 TAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
10751376 CAAGATTTCT
Statistics
Matches: 129, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
50 32 0.25
51 7 0.05
52 2 0.02
53 5 0.04
54 79 0.61
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (53 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAGTTTG
Found at i:10751369 original size:108 final size:104
Alignment explanation
Indices: 10751175--10751375 Score: 278
Period size: 104 Copynumber: 1.9 Consensus size: 104
10751165 CACTGGTTCA
* * * *
10751175 TAAAACATTTGATAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGATGTAAAACACTTGACAA
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
10751240 CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
66 CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
* * **
10751279 TAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTGCTC-AGACGTTCATAAAGCGTTT
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG-TCGAGACG-T-A-AAA-CACTT
10751343 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
61 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
10751376 CAAGATTTCT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
104 41 0.49
105 3 0.04
106 1 0.01
107 3 0.04
108 36 0.43
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (104 bp):
TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
Found at i:10752687 original size:104 final size:104
Alignment explanation
Indices: 10752507--10752706 Score: 310
Period size: 104 Copynumber: 1.9 Consensus size: 104
10752497 ATTCCTACCG
* * * *
10752507 AACCAGATCAGATAACTCAAAGAATACTTCCAGAAAATGCTATTGAGTATCCTTATTTTTACTAT
1 AACCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGAGCATCCTTATTTCTACTAT
* *
10752572 GAGCAAATTCATCTTCCAAATTCAATGATTGTTCTGTCC
66 GAGCAAATTCATCTTCAAAATCCAATGATTGTTCTGTCC
* * *
10752611 AACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTATTAT
1 AACCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGAGCATCCTTATTTCTACTAT
*
10752676 GAGCAAATTCATCTTTAAAATCCAATGATTG
66 GAGCAAATTCATCTTCAAAATCCAATGATTG
10752707 GTTTTTGGGG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 86 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (104 bp):
AACCAAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGAGCATCCTTATTTCTACTAT
GAGCAAATTCATCTTCAAAATCCAATGATTGTTCTGTCC
Found at i:10752867 original size:84 final size:84
Alignment explanation
Indices: 10752726--10753281 Score: 960
Period size: 84 Copynumber: 6.7 Consensus size: 84
10752716 GTTCATACCA
* * * * * *
10752726 AACCATATTAGATAACTCAAAGAACATTTCCAAAAGATGCTATTGAACACATTATTCTTCTAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
* *
10752791 TCAATGATTAGTCTTGTTC
66 TCAATGATTGGTCTTGTCC
10752810 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
10752875 TCAATGATTGGTCTTGTCC
66 TCAATGATTGGTCTTGTCC
10752894 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
10752959 TCAATGATTGGT-TCTGTCC
66 TCAATGATTGGTCT-TGTCC
*
10752978 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTA-T-ATCC-AAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
10753040 TCAATGATTGGT-TCTGTCC
66 TCAATGATTGGTCT-TGTCC
10753059 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
10753124 TCAATGATTGGTCTTGTCC
66 TCAATGATTGGTCTTGTCC
10753143 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
* *
10753208 TCAATGATTAGTCTTGTTC
66 TCAATGATTGGTCTTGTCC
10753227 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
10753282 ATTTGTTCCA
Statistics
Matches: 455, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
81 76 0.17
82 4 0.01
83 5 0.01
84 369 0.81
85 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
TCAATGATTGGTCTTGTCC
Found at i:10753176 original size:249 final size:251
Alignment explanation
Indices: 10752726--10753283 Score: 964
Period size: 249 Copynumber: 2.2 Consensus size: 251
10752716 GTTCATACCA
* * * * *
10752726 AACCATATTAGATAACTCAAAGAACATTTCCAAAAGATGCTATTGAACACATTAT-TCTTCTAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATATC-TC-AAA
*
10752790 TTCAATGATTAGTCTTGTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
64 TTCAATGATTAGTCTTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
10752855 AGCACATTATTCTTCCAAATTCAATGATTGGTCTTGTCCAACCAGATCAGATAACTCAAAGAACA
129 AGCACATTATTCTTCCAAATTCAATGATTGGTCTTGTCCAACCAGATCAGATAACTCAAAGAACA
*
10752920 CTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAATTCAATGATTGGT-TCTGTCC
194 CTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAATTCAATGATTAGTCT-TGTCC
10752978 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATATC-C-AATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATATCTCAAATT
*
10753041 CAATGATTGGT-TCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA
66 CAATGATTAGTCT-TGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA
10753105 GCACATTATTCTTCCAAATTCAATGATTGGTCTTGTCCAACCAGATCAGATAACTCAAAGAACAC
130 GCACATTATTCTTCCAAATTCAATGATTGGTCTTGTCCAACCAGATCAGATAACTCAAAGAACAC
*
10753170 TTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAATTCAATGATTAGTCTTGTTC
195 TTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAATTCAATGATTAGTCTTGTCC
10753227 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATAT
10753284 TTGTTCCAGT
Statistics
Matches: 294, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
248 1 0.00
249 239 0.81
250 1 0.00
251 1 0.00
252 50 0.17
253 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (251 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATATCTCAAATT
CAATGATTAGTCTTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG
CACATTATTCTTCCAAATTCAATGATTGGTCTTGTCCAACCAGATCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTGAGCACATTATTCTTCCAAATTCAATGATTAGTCTTGTCC
Found at i:10756810 original size:1 final size:1
Alignment explanation
Indices: 10756804--10756833 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
10756794 AGGAAATGGG
10756804 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10756834 GTTTAGACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10758161 original size:14 final size:14
Alignment explanation
Indices: 10758142--10758181 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
10758132 GCAAAGATGC
10758142 CAAATGTAAATATG
1 CAAATGTAAATATG
*
10758156 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
10758170 TAAATGTAAATA
1 CAAATGTAAATA
10758182 CAAACGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:10759627 original size:13 final size:15
Alignment explanation
Indices: 10759605--10759641 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10759595 TTTGACATAA
10759605 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
10759617 AAATAAAATACTTGC
1 AAATAAAATACTTGC
10759632 AAATAAAATA
1 AAATAAAATA
10759642 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:10761517 original size:17 final size:17
Alignment explanation
Indices: 10761483--10761516 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10761473 TGCTGTGTTC
10761483 TCTTTCTCTGTTTTTTT
1 TCTTTCTCTGTTTTTTT
10761500 TCTTT-TCTGTTTTTTT
1 TCTTTCTCTGTTTTTTT
10761516 T
1 T
10761517 TTCTTGTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TCTTTCTCTGTTTTTTT
Found at i:10761795 original size:27 final size:27
Alignment explanation
Indices: 10761759--10761849 Score: 173
Period size: 27 Copynumber: 3.4 Consensus size: 27
10761749 GCAGTGAGGC
*
10761759 GGCGGCTGGGATTCTTGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10761786 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10761813 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
10761840 GGCGGCTGGG
1 GGCGGCTGGG
10761850 GGTGGCTAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (27 bp):
GGCGGCTGGGATTCTGGAAGCATCAGA
Found at i:10761975 original size:3 final size:3
Alignment explanation
Indices: 10761967--10762087 Score: 170
Period size: 3 Copynumber: 39.7 Consensus size: 3
10761957 TTATTTATTA
* * *
10761967 AAT AAT AAT AAT ATAT AAT ATT GAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
10762014 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
10762062 AAT AAT TTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10762088 ATTTAAATGA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 98 0.94
4 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:10764587 original size:15 final size:15
Alignment explanation
Indices: 10764552--10764587 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10764542 TGAAATGTCA
10764552 TGCTTTGCTTAAAAT
1 TGCTTTGCTTAAAAT
* *
10764567 TTCTTTGCTTAAACT
1 TGCTTTGCTTAAAAT
10764582 TGCTTT
1 TGCTTT
10764588 TAATTGTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (15 bp):
TGCTTTGCTTAAAAT
Found at i:10765143 original size:34 final size:35
Alignment explanation
Indices: 10765076--10765145 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
10765066 ATAATTATGA
* *
10765076 GAATTATCCTTTGAAATTATCTTTTGTAATTTTAG
1 GAATTATCCTTTGAAATTATCTTTAGGAATTTTAG
*
10765111 GAATTAT-CTTTG-AATTATCTCTTAGGATTTTTAG
1 GAATTATCCTTTGAAATTATCT-TTAGGAATTTTAG
10765145 G
1 G
10765146 GCTTTTGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 8 0.26
34 16 0.52
35 7 0.23
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (35 bp):
GAATTATCCTTTGAAATTATCTTTAGGAATTTTAG
Found at i:10765271 original size:20 final size:19
Alignment explanation
Indices: 10765240--10765277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10765230 TTTTATAAAA
*
10765240 GTTTTTACTTTTCTCTTTC
1 GTTTTTACTTTTCACTTTC
10765259 GTTTTTACTTTTTCACTTT
1 GTTTTTAC-TTTTCACTTT
10765278 TACTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.18, G:0.05, T:0.68
Consensus pattern (19 bp):
GTTTTTACTTTTCACTTTC
Found at i:10773958 original size:29 final size:30
Alignment explanation
Indices: 10773907--10774046 Score: 142
Period size: 30 Copynumber: 4.7 Consensus size: 30
10773897 AATTGAAGAG
** * *
10773907 CCAAAATAGCGAAAATAGAAACTTTAGGGG
1 CCAAAATAGAAAAAACAGAAACTTTAGGGA
*
10773937 CTAAAATA-AAAAAACATG-AACTTTAGGGA
1 CCAAAATAGAAAAAACA-GAAACTTTAGGGA
* * *
10773966 CCAAAATATATAAAAGAGAAACTTTAGGGA
1 CCAAAATAGAAAAAACAGAAACTTTAGGGA
*
10773996 CCAAAATAGATAAAACAGAAACTTATAGGG-
1 CCAAAATAGAAAAAACAGAAACTT-TAGGGA
* *
10774026 CTAAAATAGAAAAAATAGAAA
1 CCAAAATAGAAAAAACAGAAA
10774047 GTTAAAGGAC
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
29 23 0.25
30 65 0.70
31 5 0.05
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (30 bp):
CCAAAATAGAAAAAACAGAAACTTTAGGGA
Found at i:10774046 original size:60 final size:59
Alignment explanation
Indices: 10773909--10774116 Score: 183
Period size: 60 Copynumber: 3.5 Consensus size: 59
10773899 TTGAAGAGCC
** * * *
10773909 AAAATAGCGAAAATAGAAACTTTAGGGGCTAAAATAAAAAAACATG-AACTT-TAGGGACC
1 AAAATAGAAAAAATAGAAACTTTAGGGACTAAAATAGAAAAACA-GAAACTTATAGGG-CT
* * * *
10773968 AAAATATATAAAAGAGAAACTTTAGGGACCAAAATAGATAAAACAGAAACTTATAGGGCT
1 AAAATAGAAAAAATAGAAACTTTAGGGACTAAAATAGA-AAAACAGAAACTTATAGGGCT
* * * * * * * *
10774028 AAAATAGAAAAAATAGAAAGTTAAAGGACTGAAATAGAATAAACATAAATTTATATGACT
1 AAAATAGAAAAAATAGAAACTTTAGGGACTAAAATAGAA-AAACAGAAACTTATAGGGCT
10774088 -AAAT-GAAACAAATAGAAAC-TTAGGGACTA
1 AAAATAGAAA-AAATAGAAACTTTAGGGACTA
10774117 CAACAATAAT
Statistics
Matches: 120, Mismatches: 24, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
58 11 0.09
59 46 0.38
60 58 0.48
61 5 0.04
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.20
Consensus pattern (59 bp):
AAAATAGAAAAAATAGAAACTTTAGGGACTAAAATAGAAAAACAGAAACTTATAGGGCT
Found at i:10774063 original size:30 final size:29
Alignment explanation
Indices: 10773977--10774109 Score: 99
Period size: 30 Copynumber: 4.5 Consensus size: 29
10773967 CAAAATATAT
* * *
10773977 AAAAGAGAAACTT-TAGGGACCAAAATAGAT
1 AAAACAGAAACTTATA-GGA-CTAAATAGAA
*
10774007 AAAACAGAAACTTATAGGGCTAAAATAGAA
1 AAAACAGAAACTTATAGGACT-AAATAGAA
* * *
10774037 AAAATAGAAAGTTAAAGGACTGAAATAGAA
1 AAAACAGAAACTTATAGGACT-AAATAGAA
* * * *
10774067 TAAACATAAATTTATATGACTAAAT-GAA
1 AAAACAGAAACTTATAGGACTAAATAGAA
*
10774095 ACAAATAGAAACTTA
1 A-AAACAGAAACTTA
10774110 GGGACTACAA
Statistics
Matches: 81, Mismatches: 19, Indels: 7
0.76 0.18 0.07
Matches are distributed among these distances:
28 3 0.04
29 15 0.19
30 61 0.75
31 2 0.02
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (29 bp):
AAAACAGAAACTTATAGGACTAAATAGAA
Found at i:10776055 original size:134 final size:134
Alignment explanation
Indices: 10775858--10776173 Score: 508
Period size: 134 Copynumber: 2.4 Consensus size: 134
10775848 ATTTAGTCAG
* * *
10775858 GGGATGACACTGCTCATACTTTATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTCGGT
1 GGGATGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGTGATAACTCGGT
*
10775923 TCCTACGCGATGAGGACTGCTGGTTATATATGGGTGACACGACTCCTACGTGAT-AAGGAGGTAT
65 TCCTACGCGATGAGGACTGCTGGTTATATATGGGTGACACGACTCCTACGTGATGAA-GAGATAT
10775987 GGTCGA
129 GGTCGA
10775993 GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTT
1 GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTT
* * * *
10776058 CCTACGCGATGAGGACTGCTGGTTATCTATGGGTGACATGGCTCCTACGTGATGAAGAGATCTGG
66 CCTACGCGATGAGGACTGCTGGTTATATATGGGTGACACGACTCCTACGTGATGAAGAGATATGG
*
10776123 TCGG
131 TCGA
* *
10776127 GGGATGACACGACTCATACGTGATGAAGTGTTCTGGCCATCTTTAGG
1 GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGG
10776174 GATACAATTT
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
134 137 0.81
135 32 0.19
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (134 bp):
GGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTT
CCTACGCGATGAGGACTGCTGGTTATATATGGGTGACACGACTCCTACGTGATGAAGAGATATGG
TCGA
Found at i:10776417 original size:30 final size:30
Alignment explanation
Indices: 10776381--10776439 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10776371 CAAATATTTT
* *
10776381 TTTTGTTTTAATAGAAACAAACTCAAAGAC
1 TTTTGTTTCAAGAGAAACAAACTCAAAGAC
10776411 TTTTGTTTCAAGAGAAACAAACTCAAAGA
1 TTTTGTTTCAAGAGAAACAAACTCAAAGA
10776440 TACTGTCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (30 bp):
TTTTGTTTCAAGAGAAACAAACTCAAAGAC
Found at i:10776460 original size:29 final size:30
Alignment explanation
Indices: 10776393--10776460 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
10776383 TTGTTTTAAT
** *
10776393 AGAAACAAACTCAAAGACTTTTGTTTCAAG
1 AGAAACAAACTCAAAGACTACTGTCTCAAG
10776423 AGAAACAAACTCAAAGA-TACTGTCTCAAG
1 AGAAACAAACTCAAAGACTACTGTCTCAAG
*
10776452 AGAGACAAA
1 AGAAACAAA
10776461 ATTTTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (30 bp):
AGAAACAAACTCAAAGACTACTGTCTCAAG
Found at i:10776717 original size:31 final size:32
Alignment explanation
Indices: 10776635--10776709 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
10776625 ACAATATTCG
* * *
10776635 TTTCAAGGGAAAC-GACTCAAAAATGTTTTTA
1 TTTCAAGAGAAACAAACTCAAAAATGTTTGTA
*
10776666 TTTCAAGAGAAACAAACTCAAAGAT-TTTGTA
1 TTTCAAGAGAAACAAACTCAAAAATGTTTGTA
*
10776697 TTTCTAGAGAAAC
1 TTTCAAGAGAAAC
10776710 TGCCTCAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 29 0.76
32 9 0.24
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (32 bp):
TTTCAAGAGAAACAAACTCAAAAATGTTTGTA
Found at i:10776765 original size:30 final size:29
Alignment explanation
Indices: 10776731--10776845 Score: 88
Period size: 30 Copynumber: 3.9 Consensus size: 29
10776721 AGACAAAATT
* * *
10776731 TGTTTTAATAGAAACGATCTCAAAGGTGGG
1 TGTTTTAAAAGAAACGA-CTCAAAGATAGG
*
10776761 TGTTTTAAGAA-AAACTAACTCAAAGATAGG
1 TGTTTTAA-AAGAAAC-GACTCAAAGATAGG
* ** ***
10776791 TGTTTCAAAAGAAACGACTCAATTATTTT
1 TGTTTTAAAAGAAACGACTCAAAGATAGG
* *
10776820 TGTTTGAAAAGAAACGACTCGAAGAT
1 TGTTTTAAAAGAAACGACTCAAAGAT
10776846 TTTTCTCACG
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
29 32 0.48
30 33 0.49
31 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (29 bp):
TGTTTTAAAAGAAACGACTCAAAGATAGG
Found at i:10776847 original size:29 final size:29
Alignment explanation
Indices: 10776791--10776849 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
10776781 CAAAGATAGG
*
10776791 TGTTTCAAAAGAAACGACTCAATTATTTT
1 TGTTTCAAAAGAAACGACTCAATGATTTT
*
10776820 TGTTTGAAAAGAAACGACTCGAA-GATTTT
1 TGTTTCAAAAGAAACGACTC-AATGATTTT
10776849 T
1 T
10776850 CTCACGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (29 bp):
TGTTTCAAAAGAAACGACTCAATGATTTT
Found at i:10776916 original size:28 final size:29
Alignment explanation
Indices: 10776882--10777046 Score: 138
Period size: 29 Copynumber: 5.6 Consensus size: 29
10776872 GAGACAAAAC
*
10776882 TTTGTTTCAAAATAAACAAACTCAAAGA-
1 TTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
10776910 TTTGTTTCAAAAGAAA-TAACTCCAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGA-T
* *
10776939 TTTATTTCAAAAGAAAC-AACTCACAGACT
1 TTTGTTTCAAAAGAAACAAACTCAAAGA-T
* *
10776968 TTTGTTTCAAGAGAAACATACTCAAAGATAGGT
1 TTTGTTTCAAAAGAAACAAACTCAAAG--A--T
** * *
10777001 TTTGTTTCAAGGGAAACAATCTTAAAGAT
1 TTTGTTTCAAAAGAAACAAACTCAAAGAT
*
10777030 GTTTGTTTTAAAAGAAA
1 -TTTGTTTCAAAAGAAA
10777047 TTGTCTCAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
27 9 0.08
28 15 0.14
29 40 0.36
30 20 0.18
31 1 0.01
32 1 0.01
33 24 0.22
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:10777126 original size:66 final size:64
Alignment explanation
Indices: 10777024--10777234 Score: 264
Period size: 66 Copynumber: 3.2 Consensus size: 64
10777014 AAACAATCTT
* * *
10777024 AAAGATGTTTGTTTTAAAAGAAATTGTCTCAAAAGAGACAAACCTTTGTTTTCATAA-AAACAGA
1 AAAGAT-TTT-TTTCAAAAGAAACTGTCTCAAAAGAGACAAA-ATTTGTTTTCA-AAGAAACAGA
*
10777088 CTT
62 CTC
*
10777091 AAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCCAAAGAAACAGACT
1 AAAGATTTTT-TTCAAAAGAAACTGTCTCAAAAGAGACAAAA-TTTGTTTTCAAAGAAACAGACT
10777156 C
64 C
* * * *
10777157 AAAGATTCTTTT-AAAAGAAACTTTCTCAAAAGAGACAAAATTTTTTTATCAAAGAAACATACTC
1 AAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTGTTT-TCAAAGAAACAGACTC
10777221 AAAGATTTTTTTCA
1 AAAGATTTTTTTCA
10777235 TTTTGTTTTA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
63 6 0.05
64 52 0.41
65 6 0.05
66 58 0.45
67 6 0.05
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (64 bp):
AAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTGTTTTCAAAGAAACAGACTC
Found at i:10777197 original size:64 final size:64
Alignment explanation
Indices: 10777035--10777232 Score: 267
Period size: 64 Copynumber: 3.1 Consensus size: 64
10777025 AAGATGTTTG
** *
10777035 TTTTAAAAGAAA-TTGTCTCAAAAGAGACAAACCTTTGTTTTCATAA-AAACAGACTTAAAGATT
1 TTTTAAAAGAAACTT-TCTCAAAAGAGACAAAATTTTGTTTTCA-AAGAAACAGACTCAAAGATT
10777098 T
64 T
* *
10777099 TTCTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATT
1 TT-TT-AAAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTTTCAAAGAAACAGACTCAAAGATT
*
10777164 C
64 T
*
10777165 TTTTAAAAGAAACTTTCTCAAAAGAGACAAAATTTT-TTTATCAAAGAAACATACTCAAAGATTT
1 TTTTAAAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTT-TCAAAGAAACAGACTCAAAGATTT
10777229 TTTT
1 TTTT
10777233 CATTTTGTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
63 3 0.03
64 58 0.49
65 6 0.05
66 51 0.43
67 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (64 bp):
TTTTAAAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTTTCAAAGAAACAGACTCAAAGATTT
Found at i:10777353 original size:30 final size:31
Alignment explanation
Indices: 10777299--10777357 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10777289 GATACAAAGT
10777299 TTTGTTTCAAAAGAAATAGACTCAAAGATCA
1 TTTGTTTCAAAAGAAATAGACTCAAAGATCA
*
10777330 TTTGTTTCAAAAGAAA-CGACTCAAAGAT
1 TTTGTTTCAAAAGAAATAGACTCAAAGAT
10777358 GATGTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAATAGACTCAAAGATCA
Done.