Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 119 of 208
Found at i:36213138 original size:18 final size:19
Alignment explanation
Indices: 36213093--36213141 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
36213083 TAAGAAAACA
36213093 TTTTGAAATTGAATAACGAT
1 TTTTGAAA-TGAATAACGAT
* *
36213113 TTGT-AAATGAATAA-TAT
1 TTTTGAAATGAATAACGAT
36213130 TTTTGAAATGAA
1 TTTTGAAATGAA
36213142 CGACATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 3 0.12
20 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (19 bp):
TTTTGAAATGAATAACGAT
Found at i:36213499 original size:25 final size:25
Alignment explanation
Indices: 36213458--36213523 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
36213448 ACTAAAGCTA
*
36213458 AAACTGTCTATA-ATAGTATATCCTG
1 AAACTG-CTATAGATAGTATATACTG
*
36213483 AAACTGCTATAGGTAGTATATACTG
1 AAACTGCTATAGATAGTATATACTG
* *
36213508 AGACTACTATAGATAG
1 AAACTGCTATAGATAG
36213524 ACTATATTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 5 0.14
25 30 0.86
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (25 bp):
AAACTGCTATAGATAGTATATACTG
Found at i:36218733 original size:17 final size:18
Alignment explanation
Indices: 36218711--36218745 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36218701 ATTTGGGTCA
*
36218711 TGTGGG-CCACATAGGCG
1 TGTGGGCCCACACAGGCG
36218728 TGTGGGCCCACACAGGCG
1 TGTGGGCCCACACAGGCG
36218746 AACATCATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.29, G:0.40, T:0.14
Consensus pattern (18 bp):
TGTGGGCCCACACAGGCG
Found at i:36219728 original size:18 final size:18
Alignment explanation
Indices: 36219684--36219728 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
36219674 GCAATAAGAA
36219684 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
36219702 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
36219720 AATGTTTTG
1 AATGTTTTG
36219729 GAAACGAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:36223215 original size:19 final size:19
Alignment explanation
Indices: 36223191--36223231 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36223181 CAACATGTCT
36223191 ATATATGCATAACTATCAC
1 ATATATGCATAACTATCAC
36223210 ATATATGCATAACTATCAC
1 ATATATGCATAACTATCAC
36223229 ATA
1 ATA
36223232 CTTATAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATATGCATAACTATCAC
Found at i:36233839 original size:3 final size:3
Alignment explanation
Indices: 36233831--36233889 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
36233821 CACTCTTTCT
36233831 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
36233879 TTG TTG TTG TT
1 TTG TTG TTG TT
36233890 AAGCTCTTGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:36234059 original size:39 final size:39
Alignment explanation
Indices: 36234016--36234094 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
36234006 TTAAGATAGG
36234016 TGCAAAAAATTAGGATAATTTTAAAAAGATGGTACTGGC
1 TGCAAAAAATTAGGATAATTTTAAAAAGATGGTACTGGC
36234055 TGCAAAAAATTAGGATAATTTTAAAAAGATGGTACTGGC
1 TGCAAAAAATTAGGATAATTTTAAAAAGATGGTACTGGC
36234094 T
1 T
36234095 TATAATGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (39 bp):
TGCAAAAAATTAGGATAATTTTAAAAAGATGGTACTGGC
Found at i:36243408 original size:19 final size:19
Alignment explanation
Indices: 36243384--36243421 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
36243374 CTAAAAGAGT
36243384 TGAGAGAATGATGA-ATGAG
1 TGAGAG-ATGATGAGATGAG
36243403 TGAGAGATGATGAGATGAG
1 TGAGAGATGATGAGATGAG
36243422 GGATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATGAGATGAG
Found at i:36243889 original size:14 final size:14
Alignment explanation
Indices: 36243870--36243897 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36243860 CCAATTTATT
36243870 AATGAATTATTAAA
1 AATGAATTATTAAA
36243884 AATGAATTATTAAA
1 AATGAATTATTAAA
36243898 TTAACTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:36248450 original size:19 final size:22
Alignment explanation
Indices: 36248402--36248446 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
36248392 TGAAATAAGT
36248402 ACATAATTGCTGGAAAATAACA
1 ACATAATTGCTGGAAAATAACA
36248424 ACATAATTGCTGGAAAATAACA
1 ACATAATTGCTGGAAAATAACA
36248446 A
1 A
36248447 AATTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (22 bp):
ACATAATTGCTGGAAAATAACA
Found at i:36251550 original size:31 final size:31
Alignment explanation
Indices: 36251512--36251571 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
36251502 AAAATAGTCG
**
36251512 TTGAATTATTTGAATATTTTTATTTAAGTTA
1 TTGAATTATTCAAATATTTTTATTTAAGTTA
36251543 TTGAATTATTCAAATATTTTTATTTAAGT
1 TTGAATTATTCAAATATTTTTATTTAAGT
36251572 CACTAGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (31 bp):
TTGAATTATTCAAATATTTTTATTTAAGTTA
Found at i:36252468 original size:134 final size:133
Alignment explanation
Indices: 36252296--36252564 Score: 441
Period size: 134 Copynumber: 2.0 Consensus size: 133
36252286 ATATATCAAC
*
36252296 ATAAAATACACGACACATCACATCACTGGCCGATTATACCATCAATCACACCAATTTTTAACAGT
1 ATAAAATACACGACACATCACATCACTAGCCGATTATACCATCAATCACACCAATTTTTAACAGT
* *
36252361 ATAATTTCATAAACTTTTTAGCAAAAAA-ATTAATTTGCTCTTTAATCTAACAAACATAAACTAA
66 ACAATTTCATAAACTTTTTAACAAAAAATATTAATTTGCTCTTTAATCTAACAAACATAAACTAA
36252425 TTT
131 TTT
* *
36252428 ATAAAATACACATGGCACATCACATCACTAGCCGATTATACCATCAATCACGCCAATTTTTAACA
1 ATAAAATACAC--GACACATCACATCACTAGCCGATTATACCATCAATCACACCAATTTTTAACA
* * *
36252493 GTACAATTTGATAAACTTTTTAACAAAAAATTTTAATTTGCTCTTTAATCTAACATACATAAACT
64 GTACAATTTCATAAACTTTTTAACAAAAAATATTAATTTGCTCTTTAATCTAACAAACATAAACT
36252558 AATTT
129 AATTT
36252563 AT
1 AT
36252565 CCATTTTATT
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
132 11 0.09
134 76 0.60
135 39 0.31
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.33
Consensus pattern (133 bp):
ATAAAATACACGACACATCACATCACTAGCCGATTATACCATCAATCACACCAATTTTTAACAGT
ACAATTTCATAAACTTTTTAACAAAAAATATTAATTTGCTCTTTAATCTAACAAACATAAACTAA
TTT
Found at i:36268420 original size:38 final size:39
Alignment explanation
Indices: 36268378--36268463 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 39
36268368 AGCTTATAGG
*
36268378 TAACCATTTCT-ATGGTGTCA-TTCTGAAGAGCCTGTATA
1 TAACCATTTCTGATGGTGTCACTT-TGAAGAGCCTGTAGA
36268416 TAACCATTT-TGATGGTGTCACTTTGAAGAGCCTGTAGA
1 TAACCATTTCTGATGGTGTCACTTTGAAGAGCCTGTAGA
36268454 TAACCATTTC
1 TAACCATTTC
36268464 CAACCAATCC
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
37 1 0.02
38 41 0.93
39 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (39 bp):
TAACCATTTCTGATGGTGTCACTTTGAAGAGCCTGTAGA
Found at i:36270660 original size:16 final size:18
Alignment explanation
Indices: 36270633--36270666 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36270623 GGTTTTAATA
36270633 TTTAAGTTTTAAG-GTTT
1 TTTAAGTTTTAAGTGTTT
36270650 TTTAA-TTTTAAGTGTTT
1 TTTAAGTTTTAAGTGTTT
36270667 AGGATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TTTAAGTTTTAAGTGTTT
Found at i:36270674 original size:23 final size:23
Alignment explanation
Indices: 36270618--36270675 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
36270608 TTAGATTTAG
36270618 GTTTAGG-TTTTAATATTTAAGT
1 GTTTAGGTTTTTAATATTTAAGT
36270640 -TTTAAGGTTTTTTAAT-TTTAAGT
1 GTTT-AGG-TTTTTAATATTTAAGT
*
36270663 GTTTAGGATTTTA
1 GTTTAGGTTTTTA
36270676 GGGTTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 3 0.10
22 8 0.26
23 10 0.32
24 10 0.32
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (23 bp):
GTTTAGGTTTTTAATATTTAAGT
Found at i:36270762 original size:29 final size:29
Alignment explanation
Indices: 36270730--36270788 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
36270720 TAGGATAATA
*
36270730 TCTAAA-AAACTAATTTTGATGGGATGGGT
1 TCTAAAGAAA-TAATTTTGATGAGATGGGT
*
36270759 TCTAAAGAAATAATTTTTATGAGATGGGT
1 TCTAAAGAAATAATTTTGATGAGATGGGT
36270788 T
1 T
36270789 GAGTGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (29 bp):
TCTAAAGAAATAATTTTGATGAGATGGGT
Found at i:36280632 original size:61 final size:61
Alignment explanation
Indices: 36280505--36280622 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
36280495 ATTTTTTTAA
* * * * *
36280505 TTTTTAGAGTTAGGAATAAATTGATAGGTTTTGTAAATATTAAGGGCCAAATTTATTGAAT
1 TTTTTAGAATTAGAAATAAAATGATAGATTTTGTAAATATTAAGAGCCAAATTTATTGAAT
36280566 TTTTTAGAATTAGAAATAAAATGATCA-ATTTTGTAAATATTAAGAGCTC-AATTTATT
1 TTTTTAGAATTAGAAATAAAATGAT-AGATTTTGTAAATATTAAGAGC-CAAATTTATT
36280623 ATTTCTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 48 0.96
62 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGAAATAAAATGATAGATTTTGTAAATATTAAGAGCCAAATTTATTGAAT
Found at i:36289201 original size:1 final size:1
Alignment explanation
Indices: 36289195--36289220 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
36289185 GATTAAAATC
36289195 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
36289221 GATTTTGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:36291179 original size:28 final size:28
Alignment explanation
Indices: 36291124--36291245 Score: 82
Period size: 28 Copynumber: 4.1 Consensus size: 28
36291114 TCTCCAGTTC
* *
36291124 TTTTTTTAGACCTGAAGAGTACTATTTA
1 TTTTTTTAGACATGAAGAGTATTATTTA
* *
36291152 TTTTTTTAGACATGAAGATTATTGTTTA
1 TTTTTTTAGACATGAAGAGTATTATTTA
* *
36291180 TTGTGCAATCTTTTGATCCTGAAGAGTATTATTTA
1 TT-T----T-TTTAGA-CATGAAGAGTATTATTTA
* * * *
36291215 TTTTTATTAGACACGAAAATTATTGTTTA
1 TTTTT-TTAGACATGAAGAGTATTATTTA
36291244 TT
1 TT
36291246 GTGCAATCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
28 26 0.36
29 17 0.24
30 5 0.07
33 1 0.01
34 6 0.08
35 17 0.24
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (28 bp):
TTTTTTTAGACATGAAGAGTATTATTTA
Found at i:36291247 original size:64 final size:63
Alignment explanation
Indices: 36291134--36291260 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 63
36291124 TTTTTTTAGA
* *
36291134 CCTGAAGAGTACTATTTATTTTTTTAGACATGAAGATTATTGTTTATTGTGCAATCTTTTGAT
1 CCTGAAGAGTACTATTTATTTTTTTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
*
36291197 CCTGAAGAGTATTATTTATTTTTATTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
1 CCTGAAGAGTACTATTTATTTTT-TTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
36291261 TGAGCTCTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 22 0.37
64 38 0.63
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (63 bp):
CCTGAAGAGTACTATTTATTTTTTTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
Found at i:36294511 original size:9 final size:8
Alignment explanation
Indices: 36294481--36294509 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
36294471 GCCAAACTAG
36294481 AAAAATTC
1 AAAAATTC
36294489 AAAAATTC
1 AAAAATTC
36294497 AAAAATTC
1 AAAAATTC
36294505 AAAAA
1 AAAAA
36294510 ATAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATTC
Found at i:36297739 original size:6 final size:6
Alignment explanation
Indices: 36297728--36297792 Score: 112
Period size: 6 Copynumber: 10.8 Consensus size: 6
36297718 GTTTTCCAAA
36297728 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
* *
36297776 AAATGA AAATTG AAATG
1 AAATGG AAATGG AAATG
36297793 ATTCATTTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:36298011 original size:26 final size:26
Alignment explanation
Indices: 36297937--36298013 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
36297927 GCATATTTTC
*
36297937 TCAAAACTTTATTAGGG-GTAAAATCA
1 TCAAAATTTTA-TAGGGTGTAAAATCA
* *
36297963 TCAAAATTTTTATCGGGAT-TAAAATCG
1 TCAAAA-TTTTATAGGG-TGTAAAATCA
36297990 TCAAAATTTTACT-GGGTGTAAAAT
1 TCAAAATTTTA-TAGGGTGTAAAAT
36298014 AAGATGAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 1 0.02
26 24 0.56
27 18 0.42
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATAGGGTGTAAAATCA
Found at i:36303265 original size:37 final size:38
Alignment explanation
Indices: 36303211--36303283 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
36303201 TTTTCATAAT
* * *
36303211 TTCACTTTTTCACTTTCAA-TCACTATTTAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
36303248 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAA
36303284 TTCCACACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:36303314 original size:23 final size:22
Alignment explanation
Indices: 36303271--36303314 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36303261 TTTCAAGTCA
36303271 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
36303294 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36303315 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:36303579 original size:51 final size:51
Alignment explanation
Indices: 36303484--36303674 Score: 179
Period size: 51 Copynumber: 3.8 Consensus size: 51
36303474 GATACCGGTT
* * * *
36303484 CACATAATAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATACTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGATA
** * * *
36303535 CATGTACTAGCTTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATACTAGCCTGCACATAGTACTACACACGTGA-CCATAACTATCCGATA
* * * * * ** *
36303586 CACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTA
1 CACATACTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGATA
* * *
36303636 CACGTAGTAGCCCGCACATAGTACTACACACGTGACCAT
1 CACATACTAGCCTGCACATAGTACTACACACGTGACCAT
36303675 CACTTTCACT
Statistics
Matches: 113, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
50 42 0.37
51 69 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
CACATACTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGATA
Found at i:36303693 original size:101 final size:101
Alignment explanation
Indices: 36303478--36303708 Score: 252
Period size: 101 Copynumber: 2.3 Consensus size: 101
36303468 ATTAATGATA
* * *
36303478 CCGGTTCACATAATAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACATGTACT
1 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTACT
** *
36303543 AGCTTGCACATAGTACTACACACGTGATCGAAACTAT
65 AGCCCGCACATAGTACTACACACGTGATCCAAACTAT
* * * ** * *
36303580 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTACACGTAGT
1 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTACT
* *
36303644 AGCCCGCACATAGTACTACACACGTGA-CCATCACTTT
65 AGCCCGCACATAGTACTACACACGTGATCCA-AACTAT
* *
36303681 CAC-TTTCACATAGTGGCCTACACATAGT
1 C-CGGTTCACATAGTAGCCTACACATAGT
36303709 CCGTGCCACA
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
100 3 0.03
101 64 0.60
102 40 0.37
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (101 bp):
CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTACTA
GCCCGCACATAGTACTACACACGTGATCCAAACTAT
Found at i:36314345 original size:21 final size:21
Alignment explanation
Indices: 36314317--36314356 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36314307 CTCATACAAT
36314317 TCATTATTTCACA-ATTTTCA
1 TCATTATTTCACACATTTTCA
*
36314337 TCATGTATTTTACACATTTT
1 TCAT-TATTTCACACATTTT
36314357 ACGAACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTATTTCACACATTTTCA
Found at i:36319299 original size:33 final size:34
Alignment explanation
Indices: 36319251--36319315 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
36319241 TTCATGCTAA
**
36319251 TTTCTTTTGAATTTTTATGA-ATTTTTTTATATC
1 TTTCTTTTGAATTTTTAAAATATTTTTTTATATC
36319284 TTTCTTTT-AATTTTTTAAAATATTTTTTTATA
1 TTTCTTTTGAA-TTTTTAAAATATTTTTTTATA
36319316 ATTTGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 15 0.54
34 11 0.39
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (34 bp):
TTTCTTTTGAATTTTTAAAATATTTTTTTATATC
Found at i:36320253 original size:37 final size:37
Alignment explanation
Indices: 36320203--36320279 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
36320193 ATTTCCCTCC
36320203 TCTGATTTATATTTTTCACCTCTCTGCTTATTGCTTA
1 TCTGATTTATATTTTTCACCTCTCTGCTTATTGCTTA
36320240 TCTGATTTATATTTTTCACCTCTCTGCTTATTGCTTA
1 TCTGATTTATATTTTTCACCTCTCTGCTTATTGCTTA
36320277 TCT
1 TCT
36320280 TAATCTAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.08, T:0.55
Consensus pattern (37 bp):
TCTGATTTATATTTTTCACCTCTCTGCTTATTGCTTA
Found at i:36320595 original size:22 final size:22
Alignment explanation
Indices: 36320532--36320598 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
36320522 TATTGTTCAA
* *
36320532 ACATGAGAGCTTAGTACGTGAA
1 ACATGAGAGCTTAGTACGTTAG
36320554 ACATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
*
36320576 CCATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
36320598 A
1 A
36320599 TGGAGTCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (22 bp):
ACATGAGAGCTTAGTACGTTAG
Found at i:36323739 original size:107 final size:106
Alignment explanation
Indices: 36323548--36323872 Score: 440
Period size: 107 Copynumber: 3.1 Consensus size: 106
36323538 AAAGAAATTT
* *
36323548 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAGC-TGCCCTAACGTGCTGGGTTT
* *
36323613 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
65 CGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
* * * *
36323655 TTTTAAAATAAGACAATATTTCGCGTTTGGAAAATCGAGAAAGCCTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAG-CTGCCCTAACGTGCTGGGTTT
* *
36323720 CGATTCCTCGTTCGACCAAATAGCCAAATATCCTTTTTGAAC
65 CGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
** * *
36323762 TTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGATAGAATG-TGCCCTAACGTGCTGGGTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCG--AGAAAGCTGCCCTAACGTGCTGGGTT
* * *
36323826 TCGATTTCTCGTTCGACCAAATAGCTAAATAT-CTTCTT-AAC
64 TCGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
36323867 TTTCAA
1 TTTCAA
36323873 TCAATATTAT
Statistics
Matches: 194, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
105 9 0.05
106 5 0.03
107 174 0.90
108 1 0.01
109 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (106 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAGCTGCCCTAACGTGCTGGGTTTC
GATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
Found at i:36335159 original size:24 final size:24
Alignment explanation
Indices: 36335127--36335182 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
36335117 ATGTCCCAAA
36335127 ATTACAGTGGACTT-AACCTTAAAG
1 ATTACAGTGGA-TTAAACCTTAAAG
* *
36335151 ATTACAGTGGATTAAACTTTGAAG
1 ATTACAGTGGATTAAACCTTAAAG
36335175 ATTACAGT
1 ATTACAGT
36335183 AGGGGCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTAAACCTTAAAG
Found at i:36335550 original size:44 final size:44
Alignment explanation
Indices: 36335503--36335996 Score: 260
Period size: 44 Copynumber: 11.5 Consensus size: 44
36335493 TATCCAGTCC
* * *
36335503 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
* ** **
36335547 TATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGT-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAG-ATCT
* * * ** ** ** *
36335591 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
* * * *
36335634 TATCTCGCTAAGCATTAGCGGAGCAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
* * * *
36335678 TATCTCCTTAAGCAGCAGTGGAGCAGATCG--CATCA--AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT-AGTAGATCT
** * * * *
36335718 TATCTCCCTAAGCAGTAGCAGAGCA-GACAAAGGA-AATCA-AGTCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA-GATAGT-AGA-TCT
* * * * * *
36335762 TATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGCTTA-CAGATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAG-ATAGTAGATCT
* *
36335806 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CATCA--AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT-AGTAGATCT
* * * *
36335846 TATCTCACTAAGCAGTAGTGGAGCA-GACAGAAGA-AATCA-AGTCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATAGT-AGA-TCT
* * * *
36335890 TATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
* * * **
36335934 TATCTCCCTAAGCAGTAGTGGAGCAGATAGCA-CCA--AG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
36335974 TATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAG
36335997 TAGACAGAAG
Statistics
Matches: 334, Mismatches: 88, Indels: 60
0.69 0.18 0.12
Matches are distributed among these distances:
39 2 0.01
40 78 0.23
41 7 0.02
42 5 0.01
43 32 0.10
44 199 0.60
45 10 0.03
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATAGTAGATCT
Found at i:36335809 original size:128 final size:128
Alignment explanation
Indices: 36335498--36336102 Score: 677
Period size: 128 Copynumber: 4.7 Consensus size: 128
36335488 CATCTTATCC
* * * * **
36335498 AGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGT
1 AGTCCTATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGT
* * * * * * *** **
36335563 AGTGGAGAAAATCGAAGACGGTGAA-TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATC---G-C-ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAA
*
36335627 -CC
126 TCA
* * * * *
36335629 AGTCCTATC-TCGCTAAGCATTAGCGGAGCAGGTCGAAGATTGTAGATCTTATCTCCTTAAGCAG
1 AGTCCTATCTTC-CTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAG
* **
36335693 CAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCAGAGCAGACA-AAGGAAATCA
65 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAA-GAAATCA
* * **
36335757 AGTCCTATCTTCTTAAGCAGTAGTGGAGTAGGTCGAAGCTTACAGATTTTATCTCCCTAAGCAGT
1 AGTCCTATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGT
*
36335822 AGTGGAGCAGATCGCATCAAGTCTTATCTCACTAAGCAGTAGTGGAGCAGACAGAAGAAATCA
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCA
36335885 AGTCCTATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGT
1 AGTCCTATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGT
* * * *
36335950 AGTGGAGCAGATAGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACAGAAGAAACCA
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCA
* * * * * ** *
36336013 A-TCCTATCTTCCTGAAGTTA-CAGTGGAG-CGGAT-TAAAACCGTAGATCTTATCTCCCTAAGC
1 AGTCCTATCTTCCT-AAG-CAGTAGTGGAGTAGG-TCGAAGATTGTAGATTTTATCTCCCTAAGC
36336074 AGTAGTGGAGCAGATCGCATCAAGTCTTA
63 AGTAGTGGAGCAGATCGCATCAAGTCTTA
36336103 ACCAATCCTG
Statistics
Matches: 412, Mismatches: 53, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
126 5 0.01
127 93 0.23
128 242 0.59
129 5 0.01
130 1 0.00
131 66 0.16
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (128 bp):
AGTCCTATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCA
Found at i:36335999 original size:84 final size:84
Alignment explanation
Indices: 36335547--36335996 Score: 322
Period size: 84 Copynumber: 5.3 Consensus size: 84
36335537 TGGTAGATCC
* ** ** *
36335547 TATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGT-GAATCTTATCTTCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAG-ATCTTATCTCCCTAAGCAGTAGTG
* *
36335611 AAGCAGATTTAAGCCACC-AGTCC
65 GAGCAGA--T-AG-CACCAAGTCT
* * * * *
36335634 TATCTCGCTAAGCATTAGCGGAGCAGGTCGAAGATTGTAGATCTTATCTCCTTAAGCAGCAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
36335699 AGCAGATCGCATCAAGTCT
66 AGCAGATAGCACCAAGTCT
** * * * ** * * *
36335718 TATCTCCCTAAGCAGTAGCAGAGCA-GACAAAGGAAATCAAG-TCCTATCTTCTTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA-G-ATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * * * *
36335781 GGAGTAGGTCGAAGCTTACAGATTT
64 GGAGCAGATAGCA-C-CA-AG-TCT
* * ** *
36335806 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CA-TCAAG-TCTTATCTCACTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * * *
36335867 AGCAGACAGAAGAAATCAAGTCC
66 AGCAG--A-TAG-CACCAAGTCT
* * *
36335890 TATCTTCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
36335955 AGCAGATAGCACCAAGTCT
66 AGCAGATAGCACCAAGTCT
36335974 TATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAG
36335997 TAGACAGAAG
Statistics
Matches: 283, Mismatches: 63, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
83 7 0.02
84 143 0.51
85 10 0.04
86 4 0.01
87 63 0.22
88 55 0.19
89 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (84 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATAGCACCAAGTCT
Found at i:36338191 original size:107 final size:106
Alignment explanation
Indices: 36338000--36338324 Score: 447
Period size: 107 Copynumber: 3.1 Consensus size: 106
36337990 AAAGAAATTT
* * *
36338000 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-GAATGTGCCCTAACGTGCTGGGTTT
* *
36338065 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
65 CGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
* * *
36338107 TTTTAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAGTGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAA-TGTGCCCTAACGTGCTGGGTTT
* *
36338172 CGATTCCTCGTTCGACCAAATAGCCAAATATCCTTTTTGAAC
65 CGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
** * * *
36338214 TTTCAAAACGAGGTAATGTTTTGCGTTTGGAAATTCGAGAGAATGTACCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-GAATGTGCCCTAACGTGCTGGGTTT
* * *
36338279 CGATTTCTCGTTCGACCAAATAGCTAAATAT-CTTCTT-AAC
65 CGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
36338319 TTTCAA
1 TTTCAA
36338325 TCAATATTAT
Statistics
Matches: 195, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
105 9 0.05
106 7 0.04
107 176 0.90
108 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (106 bp):
TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAATGTGCCCTAACGTGCTGGGTTTC
GATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
Found at i:36345437 original size:40 final size:40
Alignment explanation
Indices: 36345354--36345447 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
36345344 TATTAATGAT
* * *
36345354 TGCACATACGTG-CCTTTTTTGTAATTCGGTACCTCTGAT
1 TGCACATACGTGCCCTTGTTTGTAATTCAGTACCTCTGAA
* *
36345393 TGCACATACGTGCCCTTGTTTGTACTTTAGTA-CTCCTGAA
1 TGCACATACGTGCCCTTGTTTGTAATTCAGTACCT-CTGAA
* *
36345433 TGCACTTACATGCCC
1 TGCACATACGTGCCC
36345448 CTAATTATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 14 0.30
40 32 0.70
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (40 bp):
TGCACATACGTGCCCTTGTTTGTAATTCAGTACCTCTGAA
Found at i:36357277 original size:18 final size:17
Alignment explanation
Indices: 36357235--36357278 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
36357225 TGTCGTTCGT
36357235 TTTCAAAATATTATTCA
1 TTTCAAAATATTATTCA
36357252 TTT-ACAAATAATTATTCAA
1 TTTCA-AAAT-ATTATTC-A
36357271 TTTCAAAA
1 TTTCAAAA
36357279 CATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 7 0.30
19 7 0.30
20 1 0.04
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:36366546 original size:14 final size:14
Alignment explanation
Indices: 36366527--36366572 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
36366517 AGCAAACAAG
*
36366527 AAAAATTAAAATGT
1 AAAAATTAAAATGA
36366541 AAAAATT-AAATGA
1 AAAAATTAAAATGA
*
36366554 AAAAAATAAAAT-A
1 AAAAATTAAAATGA
36366567 AAAAAT
1 AAAAAT
36366573 GACTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAAAATTAAAATGA
Found at i:36367806 original size:29 final size:29
Alignment explanation
Indices: 36367623--36367793 Score: 159
Period size: 29 Copynumber: 5.9 Consensus size: 29
36367613 GTGGAATCAC
* * *
36367623 GATGGTCATCACCATCCCTATTAATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
** * * *
36367652 GATGGTCG-CTAGAATCTCTTTTCATAATC
1 GATGGTCGTC-ACCATCCCTTTTCATAGTT
* * * * *
36367681 GATAGTCG-AAGCTATCCCGTTTCATA-TCC
1 GATGGTCGTCA-CCATCCCTTTTCATAGT-T
36367710 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
36367739 GATGGTCGTCACCATCCCTTTTGATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
36367768 GATGGTTGTCACCATCCCTTTTCATA
1 GATGGTCGTCACCATCCCTTTTCATA
36367794 TTCGATGTCT
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
28 3 0.03
29 110 0.96
30 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:36375492 original size:29 final size:29
Alignment explanation
Indices: 36375460--36375527 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
36375450 AGCTGAAGCT
*
36375460 ATCCCTTTTCGTAGTTGATGATCGTTACC
1 ATCCCTTTTCGTAGTTGATGATCGTCACC
* *
36375489 ATCCCTTTTTGTAGTTGATGGTCGTCACC
1 ATCCCTTTTCGTAGTTGATGATCGTCACC
36375518 ATCCCTTTTC
1 ATCCCTTTTC
36375528 ATAATCGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.15, C:0.26, G:0.16, T:0.43
Consensus pattern (29 bp):
ATCCCTTTTCGTAGTTGATGATCGTCACC
Found at i:36379733 original size:22 final size:21
Alignment explanation
Indices: 36379708--36379780 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
36379698 GAGCACCTAG
36379708 GTGCTAAACAAAGAGCACTAAT
1 GTGCTAAACAAA-AGCACTAAT
* *
36379730 GTGCTAATCAGATAGCACTAAT
1 GTGCTAAACA-AAAGCACTAAT
*
36379752 GTGTTAAACAGAAAGCACT-AT
1 GTGCTAAACA-AAAGCACTAAT
36379773 CGTGCTAA
1 -GTGCTAA
36379781 TGAATCAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.05
22 40 0.93
23 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (21 bp):
GTGCTAAACAAAAGCACTAAT
Found at i:36382342 original size:91 final size:91
Alignment explanation
Indices: 36382165--36382343 Score: 245
Period size: 92 Copynumber: 2.0 Consensus size: 91
36382155 GGCAATTTAT
* * * *
36382165 TTGCAAACAGTGGTGGTTTATCCACAAACTTACTAGTAGTTTTTATCTGCAAAACCATTATGTAT
1 TTGCAAACACTGGTGGTTTACCCACAAACTTACTAGTAGCTTTTATCTACAAAACCATTATGTAT
*
36382230 TCACAACCTATTGACAGTGTATTAAC
66 TCACAACCTACTGACAGTGTATTAAC
* * *
36382256 TTGCAAGCACTGGTGGTTTACCCAC-AACTTTTACTAGTAGCTTTTATCTACAAACCCATTGTGT
1 TTGCAAACACTGGTGGTTTACCCACAAAC--TTACTAGTAGCTTTTATCTACAAAACCATTATGT
*
36382320 ATTCACAA-CTACTGATAGTGTATT
64 ATTCACAACCTACTGACAGTGTATT
36382344 CACCTGCCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 3 0.04
91 36 0.47
92 38 0.49
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (91 bp):
TTGCAAACACTGGTGGTTTACCCACAAACTTACTAGTAGCTTTTATCTACAAAACCATTATGTAT
TCACAACCTACTGACAGTGTATTAAC
Found at i:36387385 original size:2 final size:2
Alignment explanation
Indices: 36387378--36387405 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36387368 CTGAATATTC
36387378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36387406 TCCTCCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36388557 original size:8 final size:8
Alignment explanation
Indices: 36388544--36388572 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
36388534 TATATATACT
36388544 AAATAATA
1 AAATAATA
36388552 AAATAATA
1 AAATAATA
36388560 AAATAATA
1 AAATAATA
36388568 AAATA
1 AAATA
36388573 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:36390589 original size:19 final size:20
Alignment explanation
Indices: 36390547--36390589 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
36390537 TCATGCTTTC
*
36390547 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
36390567 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
36390585 TATTC
1 TATTC
36390590 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:36390718 original size:44 final size:45
Alignment explanation
Indices: 36390663--36390760 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
36390653 ATAATAACAA
36390663 ATACACGGTGGAATCAGCACATAGCAACCACC-TTATAATCAATG
1 ATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* * *
36390707 ATACTCGGTGGAATCAGCACATTGCAACCACCTTTATAGTCAATG
1 ATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
* *
36390752 GTACCCGGT
1 ATACACGGT
36390761 TCACATAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 30 0.62
45 18 0.38
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (45 bp):
ATACACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
Found at i:36390831 original size:51 final size:50
Alignment explanation
Indices: 36390766--36390950 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
36390756 CCGGTTCACA
* * *
36390766 TAGTAGCCTACACATAGTACTACACATGTGA-CCATTTCCATCCAATGCACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCCA--TCCATCCGATACACG
** * * * *
36390817 TAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCTATCCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCCATCCATCCGATACACG
* *
36390868 TAGTAGCCTGCACATAGTACTACACATGCGACCCAT-CATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCCATCCA-TCCGATACACG
* *
36390918 TAGTAGACTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACATGTGACC
36390951 ATCACTTTCA
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 69 0.62
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCCATCCATCCGATACACG
Found at i:36390943 original size:101 final size:101
Alignment explanation
Indices: 36390764--36390948 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
36390754 ACCCGGTTCA
* * *
36390764 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTCCATCCAATGCACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TTCCATCCAATACACGTAGTAGACTGCA
*
36390829 CATAGTACTACACATGTGATCGAAGCTATCCGATACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGATACG
* **
36390866 CATAGTAGCCTGCACATAGTACTACACATGCGACCCA-T-CATTCCGGTACACGTAGTAGACTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGA-CCATTCCA-TCCAATACACGTAGTAGACTGC
36390929 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
36390949 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.51
102 31 0.42
103 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATTCCATCCAATACACGTAGTAGACTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGATACG
Found at i:36400687 original size:44 final size:41
Alignment explanation
Indices: 36400613--36400729 Score: 103
Period size: 42 Copynumber: 2.7 Consensus size: 41
36400603 TTTAAATATA
*
36400613 AAAAATTCAAAAAAGTATA-AAAATTGTTTAAAAATTTAAAAAAT
1 AAAAATT-AAAAAA-TATATAATATT-TTTAAAAA-TTAAAAAAT
** * *
36400657 AAAAAGTATAAAAAATATATAATATTTTTAATTATTGAAAATT
1 AAAAA-T-TAAAAAATATATAATATTTTTAAAAATTAAAAAAT
36400700 AAAAATTAGAAAAATATAT-ATATTTGTTAA
1 AAAAATTA-AAAAATATATAATATTT-TTAA
36400730 TAGTTTTAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
41 8 0.13
42 15 0.24
43 12 0.19
44 15 0.24
45 12 0.19
46 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (41 bp):
AAAAATTAAAAAATATATAATATTTTTAAAAATTAAAAAAT
Found at i:36430551 original size:25 final size:25
Alignment explanation
Indices: 36430517--36430565 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
36430507 TTCTCATCCC
36430517 AATTTTACCCCAG-TAAAATTTTGAT
1 AATTTTACCCCAGAT-AAATTTTGAT
*
36430542 AATTTTACCCCCGATAAATTTTGA
1 AATTTTACCCCAGATAAATTTTGA
36430566 GAAAATTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (25 bp):
AATTTTACCCCAGATAAATTTTGAT
Found at i:36444079 original size:20 final size:20
Alignment explanation
Indices: 36444054--36444095 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
36444044 AAATTATACA
36444054 CTGATTGCACATACGTACCC
1 CTGATTGCACATACGTACCC
*
36444074 CTGATTGCACATACGTGCCC
1 CTGATTGCACATACGTACCC
36444094 CT
1 CT
36444096 ATTCGTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (20 bp):
CTGATTGCACATACGTACCC
Found at i:36462166 original size:27 final size:27
Alignment explanation
Indices: 36462126--36462507 Score: 532
Period size: 27 Copynumber: 14.2 Consensus size: 27
36462116 CAGAAAGGTT
*
36462126 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
36462153 GTTAAATGACCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
36462180 GTAAAATGACAGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462207 GTAAAATGATCGTAATACCCCTCTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * * * *
36462234 GTAAAATGAACATAATGCCCTTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462261 GTAAAATAACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462288 TTAAAATCACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
36462315 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462342 GTAAAATGACTGTAATACCCCTGTAAG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
36462369 GTAAAATGACCGTAATACCCCTTTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
36462396 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462423 GTAGAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
36462450 GTAGAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
36462477 GTAAAATGACCGTAATA-CCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
36462503 TTAAA
1 GTAAA
36462508 TGATTATTTT
Statistics
Matches: 316, Mismatches: 39, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 12 0.04
27 304 0.96
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:36462607 original size:24 final size:23
Alignment explanation
Indices: 36462532--36462614 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
36462522 CTCGAGGTCA
* *
36462532 AATGATTGATTTGTCTGTGGTTA
1 AATGATTGATTTGTCTGTGTTTG
* *
36462555 AATGACTGATTTGTCTATGTTTGG
1 AATGATTGATTTGTCTGTGTTT-G
* *
36462579 TATGATTTATTTGTCTGTGATTTG
1 AATGATTGATTTGTCTGTG-TTTG
*
36462603 AATGATTAATTT
1 AATGATTGATTT
36462615 TGAGCATGGC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 19 0.40
24 26 0.54
25 3 0.06
ACGTcount: A:0.23, C:0.05, G:0.22, T:0.51
Consensus pattern (23 bp):
AATGATTGATTTGTCTGTGTTTG
Found at i:36462794 original size:26 final size:26
Alignment explanation
Indices: 36462741--36462794 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
36462731 AGTATTACTA
* **
36462741 GCAGCTTTGCTGCGATGCTGCTGCTG
1 GCAGCTTTGCTGCGATGCTACTAATG
36462767 GCAGCTTTGCTGCGATGCTACTAATG
1 GCAGCTTTGCTGCGATGCTACTAATG
36462793 GC
1 GC
36462795 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.30
Consensus pattern (26 bp):
GCAGCTTTGCTGCGATGCTACTAATG
Found at i:36462834 original size:32 final size:32
Alignment explanation
Indices: 36462785--36463019 Score: 353
Period size: 32 Copynumber: 7.3 Consensus size: 32
36462775 GCTGCGATGC
*
36462785 TACTAATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
36462817 TACTGATAGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
36462849 TACTGATGGATTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
36462881 TACTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
36462913 TACTGATGGCTTTGTGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
36462945 TACTGATGGCTTTGTGCCGATCGTATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * * *
36462977 TACTGATGGATGTATGCCGGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
36463009 TACTGATGGCT
1 TACTGATGGCT
36463020 GTCCCAATTA
Statistics
Matches: 184, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 184 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:36463298 original size:27 final size:26
Alignment explanation
Indices: 36463234--36463298 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
36463224 CTTGCACCAT
*
36463234 ACTGATACTGTATTGGGCTTAGGACAC
1 ACTG-TACTGTATTGGGCTAAGGACAC
* * *
36463261 ACTATTTCTGTATTGGGCTAAGGCCCAC
1 ACT-GTACTGTATTGGGCTAAGG-ACAC
36463289 ACTGTACTGT
1 ACTGTACTGT
36463299 TACTATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (26 bp):
ACTGTACTGTATTGGGCTAAGGACAC
Found at i:36464842 original size:13 final size:13
Alignment explanation
Indices: 36464824--36464848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36464814 TTCTATCCCT
36464824 AGCATGTTTTATA
1 AGCATGTTTTATA
36464837 AGCATGTTTTAT
1 AGCATGTTTTAT
36464849 CAGTAGGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
AGCATGTTTTATA
Found at i:36469212 original size:20 final size:20
Alignment explanation
Indices: 36469187--36469257 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 20
36469177 ATTCCAAAAA
36469187 TAATATTATTTTAATAAATT
1 TAATATTATTTTAATAAATT
36469207 TAATATTATCTTGTAGATAAATAT
1 TAATATTAT-TT-TA-ATAAAT-T
* *
36469231 T-CTATTAATTTAATAAATT
1 TAATATTATTTTAATAAATT
36469250 TAATATTA
1 TAATATTA
36469258 AATTTAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 20 0.47
21 4 0.09
22 4 0.09
23 11 0.26
24 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TAATATTATTTTAATAAATT
Found at i:36469258 original size:20 final size:20
Alignment explanation
Indices: 36469187--36469265 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
36469177 ATTCCAAAAA
*
36469187 TAATATTATTTTAATAAATT
1 TAATATTAATTTAATAAATT
*
36469207 TAATATTATCTTGTAGATAAATAT
1 TAATATTA-ATT-TA-ATAAAT-T
*
36469231 T-CTATTAATTTAATAAATT
1 TAATATTAATTTAATAAATT
36469250 TAATATTAAATTTAAT
1 TAATATT-AATTTAAT
36469266 CTAATATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 18 0.37
21 12 0.24
22 4 0.08
23 11 0.22
24 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TAATATTAATTTAATAAATT
Found at i:36471195 original size:14 final size:14
Alignment explanation
Indices: 36471178--36471225 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
36471168 TTGTTAATGA
36471178 ATAATTAAGTTAAT
1 ATAATTAAGTTAAT
36471192 ATAATTAAGATTAAT
1 ATAATTAAG-TTAAT
*
36471207 TTAATTAAGTTAAT
1 ATAATTAAGTTAAT
36471221 ATAAT
1 ATAAT
36471226 AAAGATTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATAATTAAGTTAAT
Found at i:36472064 original size:30 final size:30
Alignment explanation
Indices: 36472025--36472087 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
36472015 AATTCAAGTA
36472025 TATTAATATATTACTTATATGACTTCAAAT
1 TATTAATATATTACTTATATGACTTCAAAT
* * *
36472055 TATTCATATATTACTTATATGGCTTGAAAT
1 TATTAATATATTACTTATATGACTTCAAAT
36472085 TAT
1 TAT
36472088 CTTAATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (30 bp):
TATTAATATATTACTTATATGACTTCAAAT
Found at i:36480380 original size:21 final size:21
Alignment explanation
Indices: 36480336--36480394 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
36480326 TCAGCACATT
**
36480336 CAGATGCATCCACAACAAGGC
1 CAGATGCATCCACAACAAACC
* *
36480357 CAGATGCATCCATACCAAACC
1 CAGATGCATCCACAACAAACC
* *
36480378 CAGACGCAACCACAACA
1 CAGATGCATCCACAACA
36480395 TTCTTCAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.37, G:0.14, T:0.08
Consensus pattern (21 bp):
CAGATGCATCCACAACAAACC
Found at i:36481151 original size:30 final size:30
Alignment explanation
Indices: 36481115--36481173 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
36481105 AATAAGTTGC
36481115 CCCCAAAATAAAAGATCCTAGGAGCTTTAA
1 CCCCAAAATAAAAGATCCTAGGAGCTTTAA
36481145 CCCCAAAATAAAAGATCCTAGGAGCTTTA
1 CCCCAAAATAAAAGATCCTAGGAGCTTTA
36481174 CTACCCCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (30 bp):
CCCCAAAATAAAAGATCCTAGGAGCTTTAA
Found at i:36497354 original size:21 final size:20
Alignment explanation
Indices: 36497306--36497354 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36497296 AAGTTTTTAA
36497306 TTAAATAAATATATTTTGAT
1 TTAAATAAATATATTTTGAT
*
36497326 ATATAATAAATATGATTTT-ATT
1 TTA-AATAAATAT-ATTTTGA-T
36497348 TTAAATA
1 TTAAATA
36497355 TGATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TTAAATAAATATATTTTGAT
Found at i:36498014 original size:24 final size:23
Alignment explanation
Indices: 36497986--36498037 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 23
36497976 AATCCTCATT
36497986 TAATTAGTAAATATATACTT-TTTAA
1 TAATTA-TAAA-ATATA-TTATTTAA
36498011 -AATTATAAAATATATTATTTAA
1 TAATTATAAAATATATTATTTAA
36498033 TAATT
1 TAATT
36498038 TTTTAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 10 0.40
23 8 0.32
24 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTATAAAATATATTATTTAA
Found at i:36502300 original size:21 final size:23
Alignment explanation
Indices: 36502258--36502312 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
36502248 TTTATTTATA
*
36502258 TATTTA-ATATTCTATTCAA-TT
1 TATTTATATATTATATTCAATTT
*
36502279 TATTTATATATTATA-TCTATTT
1 TATTTATATATTATATTCAATTT
36502301 TATTCTATATAT
1 TATT-TATATAT
36502313 ATTCTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.31
22 13 0.45
23 7 0.24
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTATATATTATATTCAATTT
Found at i:36502356 original size:13 final size:13
Alignment explanation
Indices: 36502335--36502374 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
36502325 TTAGTTATTT
*
36502335 TTATATTTATATA
1 TTATTTTTATATA
36502348 TTATTTTTATATA
1 TTATTTTTATATA
*
36502361 TTA-TTATATATA
1 TTATTTTTATATA
36502373 TT
1 TT
36502375 TTTATTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTTTATATA
Found at i:36502362 original size:21 final size:22
Alignment explanation
Indices: 36502330--36502379 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 22
36502320 CTATTTTAGT
36502330 TATTTTTATAT-TTA-TATAT-
1 TATTTTTATATATTATTATATA
36502349 TATTTTTATATATTATTATATA
1 TATTTTTATATATTATTATATA
36502371 TATTTTTAT
1 TATTTTTAT
36502380 TTCTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 5 0.18
22 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTTTATATATTATTATATA
Found at i:36506775 original size:22 final size:22
Alignment explanation
Indices: 36506741--36506784 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36506731 AAAAAAAAGT
*
36506741 AAAAAAAAAAAAACTTTGATGG
1 AAAAAAAAAAAAACGTTGATGG
* *
36506763 AAAAAATAGAAAACGTTGATGG
1 AAAAAAAAAAAAACGTTGATGG
36506785 CTAAAGGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAAAAAAAAAAACGTTGATGG
Found at i:36507048 original size:21 final size:21
Alignment explanation
Indices: 36507001--36507055 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
36506991 ACCGCTATTT
* *
36507001 CTAATCTCACTGCTACAATAC
1 CTAATCTCACCGCTACAATAA
* * *
36507022 CCAATCTCACCGCTATAGTAA
1 CTAATCTCACCGCTACAATAA
36507043 CTAATCTCACCGC
1 CTAATCTCACCGC
36507056 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.36, G:0.07, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:36509906 original size:17 final size:19
Alignment explanation
Indices: 36509863--36509909 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
36509853 TTGTTAGTAT
36509863 TTTTTACTAATTATCAATTA
1 TTTTTA-TAATTATCAATTA
*
36509883 TTATTATAATTATC-A-TA
1 TTTTTATAATTATCAATTA
36509900 TTTTTATAAT
1 TTTTTATAAT
36509910 AATTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.44
18 1 0.04
19 8 0.32
20 5 0.20
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTATAATTATCAATTA
Found at i:36509911 original size:20 final size:20
Alignment explanation
Indices: 36509860--36509922 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 20
36509850 AGTTTGTTAG
*
36509860 TATTTTT-TACTAATTATCA
1 TATTTTTATAATAATTATCA
* *
36509879 -ATTATTATTATAATTATCA
1 TATTTTTATAATAATTATCA
36509898 TATTTTTATAATAATT-T-A
1 TATTTTTATAATAATTATCA
36509916 TATTTTT
1 TATTTTT
36509923 TTTATAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 13 0.35
19 11 0.30
20 13 0.35
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTATAATAATTATCA
Found at i:36509929 original size:18 final size:20
Alignment explanation
Indices: 36509870--36509930 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 20
36509860 TATTTTTTAC
*
36509870 TAATTATCA-ATTATTATTA
1 TAATTATCATATTTTTATTA
*
36509889 TAATTATCATATTTTTATAA
1 TAATTATCATATTTTTATTA
*
36509909 TAATT-T-ATATTTTTTTTA
1 TAATTATCATATTTTTATTA
36509927 TAAT
1 TAAT
36509931 ATTTTGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 14 0.38
19 10 0.27
20 13 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTATCATATTTTTATTA
Found at i:36512643 original size:42 final size:41
Alignment explanation
Indices: 36512553--36512702 Score: 140
Period size: 42 Copynumber: 3.6 Consensus size: 41
36512543 TAGAAAAAAA
** * * **
36512553 CGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTGTAATAAG
*
36512595 TC-CCGCTAAAGAACATGATCTTTAGTGGCGTTTGTGAATATG
1 -CGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGT-AATAAG
* * *
36512637 CGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTTGTAAAAAG
1 CGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTGTAATAAG
* * *
36512679 CGCCGCTAGAGATCATAATCTTTA
1 CGCCGCTAAAGAACATGATCTTTA
36512703 ACGACGCTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 5 0.06
42 78 0.88
43 6 0.07
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGTGGCGTTTGTAATAAG
Found at i:36513162 original size:21 final size:21
Alignment explanation
Indices: 36513138--36513188 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
36513128 TTCTTTTGAA
*
36513138 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
36513159 CCTCTGCTTCCCTCGCTGCTG
1 CCTCTGCTTCCCTCGCTGCAG
36513180 CCTCTGCTT
1 CCTCTGCTT
36513189 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:36513241 original size:87 final size:87
Alignment explanation
Indices: 36513073--36513232 Score: 257
Period size: 87 Copynumber: 1.8 Consensus size: 87
36513063 TTCTGCTCTA
* *
36513073 CTCTGCTTCTCTCGCTGCAGCCTCTACTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
** *
36513138 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* *
36513160 CTCTGCTTCCCTCGCTGCTGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
36513225 CCTCAACT
66 CCTCAACT
36513233 GTGGTCGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.13, C:0.30, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:36514755 original size:18 final size:19
Alignment explanation
Indices: 36514720--36514756 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36514710 CCCATCAGCC
36514720 CAAACCCGAATGGCCCAATA
1 CAAACCCGAA-GGCCCAATA
36514740 CAAACCCGAA-GCCCAAT
1 CAAACCCGAAGGCCCAAT
36514757 TTAACCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.38, G:0.14, T:0.08
Consensus pattern (19 bp):
CAAACCCGAAGGCCCAATA
Found at i:36524239 original size:88 final size:88
Alignment explanation
Indices: 36524090--36524663 Score: 1004
Period size: 88 Copynumber: 6.5 Consensus size: 88
36524080 CAACGAAGTT
36524090 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
36524155 TGTGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGATA
*
36524178 AAAGATCTTGCCTTCCTGCAATGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
36524243 TATGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGATA
* * * *
36524266 AAGGATCTTGCCTTCCTACATTGACAACGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
36524331 TGTGATGGAGCTGATTGAAGATA
66 TGTGATGGAGCTGGTTGAAGATA
*
36524354 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
36524419 TGTGATGGAGCTGGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGATA
* * *
36524442 ATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGCCAAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
36524507 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGATA
*
36524530 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAAGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
36524595 TGTGATGGAGCTAGTTGAAGATA
66 TGTGATGGAGCTGGTTGAAGATA
* *
36524618 AAAGATCTTGCCTTCCTGAAATGACAGCGAAGCAGGTCGAAGACAC
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
36524664 NNNNNNNNNN
Statistics
Matches: 457, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 457 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATGGAGCTGGTTGAAGATA
Found at i:36526833 original size:14 final size:14
Alignment explanation
Indices: 36526814--36526843 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36526804 AAAATAGGGG
*
36526814 AAAAAGAAAGAGAA
1 AAAAAGAAAAAGAA
36526828 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
36526842 AA
1 AA
36526844 GGAGAGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:36528252 original size:19 final size:18
Alignment explanation
Indices: 36528228--36528271 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
36528218 CATGAATATC
36528228 ATATTTTAAAAAAAGGAAA
1 ATATTTTAAAAAAAGG-AA
* * *
36528247 ATATTTCAAAAGAAGGTA
1 ATATTTTAAAAAAAGGAA
36528265 ATATTTT
1 ATATTTT
36528272 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:36528510 original size:108 final size:108
Alignment explanation
Indices: 36528282--36528632 Score: 598
Period size: 108 Copynumber: 3.2 Consensus size: 108
36528272 GCGTTTGGAA
*
36528282 AAGGTACTGGGTTTCGATTTCTCGTTCGACCAAAT-AGCTAAATATCCTTTT-AAAAACTTTTCA
1 AAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATGA-CTTAATATCCTTTTCAAAAA-TTTTC-
* *
36528345 AAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGGAACGTGCCCT
63 AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
*
36528391 AAGGTACTGGGTTTCGATTTCTCGTTCCACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAA
1 AAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAA
36528456 ATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
66 ATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
* *
36528499 AAGGTATTGGGTTTCGATTTCTCATTCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAA
1 AAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAA
36528564 ATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
66 ATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
*
36528607 AAGGTACTGGGTTTCGATTTCACGTT
1 AAGGTACTGGGTTTCGATTTCTCGTT
36528633 TAGCCAAATT
Statistics
Matches: 230, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
108 172 0.75
109 52 0.23
110 6 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (108 bp):
AAGGTACTGGGTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCAAAAATTTTCAAA
ATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCT
Found at i:36532195 original size:26 final size:26
Alignment explanation
Indices: 36532163--36532220 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
36532153 TTAAAACGCC
36532163 AGTTATAACCATAAATGAGTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
*
36532189 ATTTATAACCATAAATGAGTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
36532215 AGTTAT
1 AGTTAT
36532221 TTAATTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (26 bp):
AGTTATAACCATAAATGAGTTATGTA
Found at i:36532220 original size:9 final size:9
Alignment explanation
Indices: 36532206--36532657 Score: 291
Period size: 9 Copynumber: 51.7 Consensus size: 9
36532196 ACCATAAATG
36532206 AGTTATGTA
1 AGTTATGTA
*
36532215 AGTTATTTA
1 AGTTATGTA
*
36532224 ATTTATGTA
1 AGTTATGTA
36532233 AGTTATGTA
1 AGTTATGTA
*
36532242 AGTTATTTA
1 AGTTATGTA
**
36532251 AGCAATGT-
1 AGTTATGTA
36532259 A-TTATGTA
1 AGTTATGTA
* *
36532267 AATAATGTA
1 AGTTATGTA
*
36532276 AGTTA-GGA
1 AGTTATGTA
36532284 AGGTTATGT-
1 A-GTTATGTA
36532293 A-TTATGTA
1 AGTTATGTA
*
36532301 AGTTATTTA
1 AGTTATGTA
36532310 AGTTATGTA
1 AGTTATGTA
36532319 AGTTATGTA
1 AGTTATGTA
*
36532328 AGTTATTTA
1 AGTTATGTA
*
36532337 ATTTATGTA
1 AGTTATGTA
36532346 AGTTATGTA
1 AGTTATGTA
36532355 AGTTATGTA
1 AGTTATGTA
*
36532364 AGTTATTTA
1 AGTTATGTA
*
36532373 ATTTATGTA
1 AGTTATGTA
*
36532382 ACTTATGTA
1 AGTTATGTA
36532391 AGTTATGTA
1 AGTTATGTA
*
36532400 AGTTATTTA
1 AGTTATGTA
*
36532409 ATTTATGTA
1 AGTTATGTA
36532418 AGTTATGTA
1 AGTTATGTA
*
36532427 AGTTATTTA
1 AGTTATGTA
* **
36532436 GGCAATGTA
1 AGTTATGTA
*
36532445 CTATGTTA-GTT
1 --A-GTTATGTA
*
36532456 A-TTATGTT
1 AGTTATGTA
*
36532464 A-TTATATA
1 AGTTATGTA
*
36532472 AGTTATGCA
1 AGTTATGTA
** *
36532481 AGTTACATT
1 AGTTATGTA
36532490 A-TATATGTTA
1 AGT-TATG-TA
36532500 A-TATATTGTA
1 AGT-TA-TGTA
* *
36532510 TGTTA-GTT
1 AGTTATGTA
*
36532518 A-TTATGTT
1 AGTTATGTA
*
36532526 A-TTATATA
1 AGTTATGTA
*
36532534 AGTTATGCA
1 AGTTATGTA
*
36532543 AGTTATATA
1 AGTTATGTA
*
36532552 AGTTATTTA
1 AGTTATGTA
*
36532561 AGTTGTGTA
1 AGTTATGTA
36532570 AGTGT-TGT-
1 AGT-TATGTA
36532578 A-TTATGTA
1 AGTTATGTA
36532586 AGTTATGT-
1 AGTTATGTA
36532594 A-TTATGTA
1 AGTTATGTA
*
36532602 AGATATGTA
1 AGTTATGTA
36532611 AG-T-TGTA
1 AGTTATGTA
**
36532618 TTTTATGTA
1 AGTTATGTA
* * *
36532627 AATTCTAT-
1 AGTTATGTA
36532635 A-TTATGTA
1 AGTTATGTA
*
36532643 TGTTATGTA
1 AGTTATGTA
36532652 AGTTAT
1 AGTTAT
36532658 TATGCAAGAT
Statistics
Matches: 343, Mismatches: 73, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
6 1 0.00
7 34 0.10
8 36 0.10
9 253 0.74
10 12 0.03
11 5 0.01
12 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:36532474 original size:54 final size:58
Alignment explanation
Indices: 36532411--36532551 Score: 164
Period size: 62 Copynumber: 2.4 Consensus size: 58
36532401 GTTATTTAAT
* * *
36532411 TTATGTAAGTTATGTAAGTTAT-T-TA-GGCAATGTA-CTATGTTAGTTATTATGTTA
1 TTATATAAGTTATGCAAGTTATATATATGGCAATATATCTATGTTAGTTATTATGTTA
** *
36532465 TTATATAAGTTATGCAAGTTACATTATATATGTTAATATATTGTATGTTAGTTATTATGTTA
1 TTATATAAGTTATGCAAGTT--A-TATATATGGCAATATA-TCTATGTTAGTTATTATGTTA
36532527 TTATATAAGTTATGCAAGTTATATA
1 TTATATAAGTTATGCAAGTTATATA
36532552 AGTTATTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
54 18 0.25
56 1 0.01
57 1 0.01
58 1 0.01
59 6 0.08
60 7 0.10
62 39 0.53
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (58 bp):
TTATATAAGTTATGCAAGTTATATATATGGCAATATATCTATGTTAGTTATTATGTTA
Found at i:36532484 original size:29 final size:29
Alignment explanation
Indices: 36532452--36532558 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 29
36532442 GTACTATGTT
36532452 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
* * * **
36532481 AGTTACATTATATATGTTA-ATATATTGTATGTT
1 AGTT--ATTATGT-TATTATATA-AGT-TATGCA
36532514 AGTTATTATGTTATTATATAAGTTATGCA
1 AGTTATTATGTTATTATATAAGTTATGCA
*
36532543 AGTTATATAAGTTATT
1 AGTTAT-TATGTTATT
36532559 TAAGTTGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
29 14 0.23
30 14 0.23
31 18 0.30
32 6 0.10
33 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.50
Consensus pattern (29 bp):
AGTTATTATGTTATTATATAAGTTATGCA
Found at i:36532587 original size:16 final size:16
Alignment explanation
Indices: 36532519--36532610 Score: 69
Period size: 16 Copynumber: 5.4 Consensus size: 16
36532509 ATGTTAGTTA
*
36532519 TTATGTTATTATATAAG
1 TTATG-TATTATGTAAG
* *
36532536 TTATGCAAGTTATATAAG
1 TTATG-TA-TTATGTAAG
* *
36532554 TTATTTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
36532572 TGT-TGTATTATGTAAG
1 T-TATGTATTATGTAAG
36532588 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
36532604 ATATGTA
1 TTATGTA
36532611 AGTTGTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
15 1 0.02
16 28 0.45
17 7 0.11
18 25 0.40
19 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:36532623 original size:25 final size:25
Alignment explanation
Indices: 36532580--36532627 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36532570 AGTGTTGTAT
*
36532580 TATGTAAGTTATGTATTATGTAAGA
1 TATGTAAGTTATATATTATGTAAGA
* *
36532605 TATGTAAGTTGTATTTTATGTAA
1 TATGTAAGTTATATATTATGTAA
36532628 ATTCTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (25 bp):
TATGTAAGTTATATATTATGTAAGA
Found at i:36534260 original size:191 final size:191
Alignment explanation
Indices: 36533936--36534314 Score: 652
Period size: 191 Copynumber: 2.0 Consensus size: 191
36533926 AGCAACACAA
36533936 AATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGAA
1 AATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGAA
* *
36534001 CAGCCATATACGTATTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAGTCAGCCCAGAC
66 CAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAGTCAGCCCAGAC
*
36534066 GAGAAGCAATATTCGATCGAGAAGAGGGGAAATCATCATTGAACG-GGTGAAAGGTCTATGG
131 GAGAAGCAATATTCGACCGAGAAGAGGGGAAATCATCATTGAA-GAGGTGAAAGGTCTATGG
* *
36534127 AATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTAGAGAAAGAAAAAATCGAACAGAAAAATGAA
1 AATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGAA
* *
36534192 CAGCCATATACGGAGTCAATGGAGAAATTAGGGATTTGGAAAGTTTTTTACCAGTCAGCCCAGAC
66 CAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAGTCAGCCCAGAC
* * *
36534257 GAGAAGCGATATTCGACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTGAAAGGTCTA
131 GAGAAGCAATATTCGACCGAGAAGAGGGGAAATCATCATTGAAGAGGTGAAAGGTCTA
36534315 GGGATTTGTA
Statistics
Matches: 177, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
190 1 0.01
191 176 0.99
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.18
Consensus pattern (191 bp):
AATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAGAAAAATGAA
CAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAGTCAGCCCAGAC
GAGAAGCAATATTCGACCGAGAAGAGGGGAAATCATCATTGAAGAGGTGAAAGGTCTATGG
Found at i:36535252 original size:21 final size:20
Alignment explanation
Indices: 36535228--36535292 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
36535218 ATAAACTATA
36535228 AACCTTAAACCCATAACCCTT
1 AACCTTAAACCC-TAACCCTT
*
36535249 AACCCTT-AACCCGCAACACC-T
1 AA-CCTTAAACCC-TAAC-CCTT
*
36535270 ATACATTAAACCCTAACCCTT
1 A-ACCTTAAACCCTAACCCTT
36535291 AA
1 AA
36535293 ACCATGGCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.09
21 20 0.57
22 12 0.34
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.22
Consensus pattern (20 bp):
AACCTTAAACCCTAACCCTT
Found at i:36535260 original size:14 final size:15
Alignment explanation
Indices: 36535225--36535295 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 15
36535215 AACATAAACT
*
36535225 ATAAACCTTAAACCC
1 ATAACCCTTAAACCC
36535240 ATAACCCTT-AACCC
1 ATAACCCTTAAACCC
* ** *
36535254 TTAACCCGCAACACCT
1 ATAACCCTTAA-ACCC
*
36535270 AT-A-CATTAAACCC
1 ATAACCCTTAAACCC
36535283 -TAACCCTTAAACC
1 ATAACCCTTAAACC
36535296 ATGGCCCATA
Statistics
Matches: 41, Mismatches: 11, Indels: 9
0.67 0.18 0.15
Matches are distributed among these distances:
12 1 0.02
13 4 0.10
14 22 0.54
15 10 0.24
16 4 0.10
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.21
Consensus pattern (15 bp):
ATAACCCTTAAACCC
Found at i:36535381 original size:14 final size:14
Alignment explanation
Indices: 36535344--36535381 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
36535334 ATTTGTTAGA
36535344 AAACCCTAAATTAT
1 AAACCCTAAATTAT
*
36535358 AAGA-CATAAATTAT
1 AA-ACCCTAAATTAT
36535372 AAACCCTAAA
1 AAACCCTAAA
36535382 CCCCTAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.05
14 18 0.90
15 1 0.05
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATTAT
Found at i:36535996 original size:114 final size:114
Alignment explanation
Indices: 36535774--36536646 Score: 894
Period size: 114 Copynumber: 7.7 Consensus size: 114
36535764 TTTCGGTTTA
** * *
36535774 AAACGATATGTTTTGGTTAAGATTTTTTTTGCGGCG-CTTTGTATAATGCGCCGCTAATGATGTA
1 AAACGATGCGTTTTGGTTAAGA--TTTTTTACGGCGCCTTT-TATAATGCGCCGCTAATGATGTG
* * *
36535838 CTTTCA-TGGCGTTTTACTC-T-AGTGCCACTAATTCTAAAATACCTCAAGACC
63 CTTT-AGCGGCGTTTTTC-CATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * **
36535889 AAACGATGCGTTTTGGTTAATATTTTTTACGGCGCCTTTCATAATGCGTCGCTAATTCTGTGCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
* * *
36535954 TAGCGGTGTTTGTCCATAAGCGCCACTAATTCTAATATACCTCAAGACC
66 TAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * *
36536003 AAATGCTGCGTATTGGTAAAGATATTTTACGGTGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
* * *
36536068 TAGCGGCGTTTTAT-TATAAGCGCCACTAATTCTCAAATACCTCAA-CCC
66 TAGCGGCGTTTT-TCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
36536116 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCG-CTTTGAATAATGCACCACTAATGGTGTGC
1 -AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTT-TATAATGCGCCGCTAATGATGTGC
* * * *
36536180 TTTAGCGGCATTTTTCCATAAACGCCACTAATTCTAAAATACATCAA-CCC
64 TTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* *
36536230 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCG-CTTTGTATAATGCGCCGC-AATGGTGTGC
1 -AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTT-TATAATGCGCCGCTAATGATGTGC
* * *
36536293 TTTAGAGGCATTTTTCCATAAGCGCCACTAATTCTAATATACCTCAA-AGCC
64 TTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACCTCAAGA-CC
* * * * * * *
36536344 AAACGCTGTGTTTTGGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAATGATGTTCGT
1 AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
*
36536409 TAGCGGTGTTTCATT--ATAAGCGCCACTAATTCTAAAATACCTCAAGACC
66 TAGCGGCGTTT--TTCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * *
36536458 AAACGATGCGTTTTTGTTAATA-TTTTTGCAGCGCTTTTTATAATGCGCC-CTAATGCTGTGCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
* * * *
36536521 TAGTGGCGTTTTTCCATAAGCACCACTAATTCTAATATATCTCAAGACC
66 TAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * * ** * * **
36536570 AAACGCTGTGTTTTGGTTAAGATATTCTGCGGTGCTTTTTGCATTGCGCCGCTAATTATGCCCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
36536635 TAGCGGCGTTTT
66 TAGCGGCGTTTT
36536647 ACGAAGATCG
Statistics
Matches: 637, Mismatches: 103, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
110 2 0.00
112 71 0.11
113 185 0.29
114 356 0.56
115 21 0.03
116 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (114 bp):
AAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCCTTTTATAATGCGCCGCTAATGATGTGCTT
TAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:36536379 original size:227 final size:225
Alignment explanation
Indices: 36535774--36536595 Score: 930
Period size: 227 Copynumber: 3.6 Consensus size: 225
36535764 TTTCGGTTTA
** *
36535774 AAACGATATGTTTTGGTTAAGATTTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTAC
1 AAACGATGCGTTTTGGTTAAGA--TTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTGC
* * *
36535839 TTTCA-TGGCGTTTTACTC-T-AGTGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGTT
64 TTT-AGTGGCGTTTTTC-CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTT
* * * * **
36535901 TTGGTTAATATTTTTTACGGCGCCTTTCATAATGCGTCGCTAATTCTGTGCTTTAGCGGTGTTTG
127 TTGGTTAAGATATTTTACGGCG-CTTTAATAATGCGCCGCTAATGATGTGCTTTAGCGGT-TTT-
* *
36535966 TCCATAAGCGCCACTAATTCTAATATACCTCAAGACC
189 TCCATAAACGCCACTAATTCTAAAATACCTCAAGACC
* * * * * * * *
36536003 AAATGCTGCGTATTGGTAAAGATATTTTACGGTGCTTTTTATAATGCGCCGCTAATGATGTGCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTGCTT
* * *
36536068 TAGCGGCGTTTTAT-TATAAGCGCCACTAATTCTCAA-ATACCTCAA-CCCAAAACGATGCGTTT
66 TAGTGGCGTTTT-TCCATAAGCGCCACTAATTCT-AATATACCTCAAGACC-AAACGATGCGTTT
* * * * *
36536130 TGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCACCACTAATGGTGTGCTTTAGCGGCATTTTT
128 TGGTTAAGATATTTTACGGCGCTTT-AATAATGCGCCGCTAATGATGTGCTTTAGCGG--TTTTT
* *
36536195 CCATAAACGCCACTAATTCTAAAATACATCAA-CCC
190 CCATAAACGCCACTAATTCTAAAATACCTCAAGACC
*
36536230 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGC-AATGGTGTGCT
1 -AAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTGCT
* * * *
36536294 TTAGAGGCATTTTTCCATAAGCGCCACTAATTCTAATATACCTCAA-AGCCAAACGCTGTGTTTT
65 TTAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGA-CCAAACGATGCGTTTT
* * * * *
36536358 GGTTAAGATATTTTACGGCGCTTTTTATATTGCGCCGCTAATGATGTTCGTTAGCGGTGTTT-CA
129 GGTTAAGATATTTTACGGCGC-TTTAATAATGCGCCGCTAATGATGTGCTTTAGCGGTTTTTCCA
36536422 TTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
193 -TA-AA-CGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
36536458 AAACGATGCGTTTTTGTTAATA-TTTTTGCAGCGCTTTTTATAATGCGCC-CTAATGCTGTGCTT
1 AAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTGCTT
* * * *
36536521 TAGTGGCGTTTTTCCATAAGCACCACTAATTCTAATATATCTCAAGACCAAACGCTGTGTTTTGG
66 TAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGG
36536586 TTAAGATATT
131 TTAAGATATT
36536596 CTGCGGTGCT
Statistics
Matches: 509, Mismatches: 64, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
224 2 0.00
225 7 0.01
226 111 0.22
227 205 0.40
228 162 0.32
229 21 0.04
230 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (225 bp):
AAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTGCTT
TAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGATGCGTTTTGG
TTAAGATATTTTACGGCGCTTTAATAATGCGCCGCTAATGATGTGCTTTAGCGGTTTTTCCATAA
ACGCCACTAATTCTAAAATACCTCAAGACC
Found at i:36536427 original size:341 final size:340
Alignment explanation
Indices: 36535773--36536607 Score: 1076
Period size: 341 Copynumber: 2.4 Consensus size: 340
36535763 GTTTCGGTTT
** *
36535773 AAAACGATATGTTTTGGTTAAGATTTTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGATGTA
1 AAAACGATGCGTTTTGGTTAAGA--TTTTTTGCGGCGCTTTGTATAATGCGCC-CTAATGATGTG
* *
36535838 CTTTCA-TGGCGTTTTACTC-T-AGTGCCACTAATTCTAAAATACCTCAAGACCAAACGATGCGT
63 CTTT-AGTGGCGTTTTTC-CATAAGCGCCACTAATTCTAAAATA-CTCAAGACCAAACGATGCGT
* * * * * **
36535900 TTTGGTTAATATTTTTTACGGCGCCTTTCATAATGCGTCGCTAATTCTGTGCTTTAGCGGTGTTT
125 TTTGGTTAAGATTTTTTGCGGCG-CTTTCATAATGCGCCGCTAATGCTGTGCTTTAGAGGCATTT
*
36535965 GTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAATGCTGCGTATTGGTAAAGATATTT
189 GTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTATTGGTAAAGATATTT
* * *
36536030 TACGGTGCTTTTTATAATGCGCCGCTAATGATGTGCTTTAGCGGCGTTTTATTATAAGCGCCACT
254 TACGGCGCTTTTTATAATGCGCCGCTAATGATGTGCGTTAGCGGCGTTTCATTATAAGCGCCACT
* *
36536095 AATTCTCAAATACCTCAA-CCC
319 AATTCTAAAATACCTCAAGACC
* * *
36536116 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCACCACTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCC-CTAATGATGTGCT
* * * *
36536181 TTAGCGGCATTTTTCCATAAACGCCACTAATTCTAAAATACATCAA-CCCAAAACGATGCGTTTT
65 TTAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATAC-TCAAGACC-AAACGATGCGTTTT
* * *
36536245 GGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGC-AATGGTGTGCTTTAGAGGCATTTTTC
128 GGTTAAGATTTTTTGCGGCGCTTT-CATAATGCGCCGCTAATGCTGTGCTTTAGAGGCATTTGTC
* * *
36536309 CATAAGCGCCACTAATTCTAATATACCTCAA-AGCCAAACGCTGTGTTTTGGTTAAGATATTTTA
192 CATAAGCGCCACTAATTCTAATATACCTCAAGA-CCAAACGCTGCGTATTGGTAAAGATATTTTA
* * *
36536373 CGGCGCTTTTTATATTGCGCCGCTAATGATGTTCGTTAGCGGTGTTTCATTATAAGCGCCACTAA
256 CGGCGCTTTTTATAATGCGCCGCTAATGATGTGCGTTAGCGGCGTTTCATTATAAGCGCCACTAA
36536438 TTCTAAAATACCTCAAGACC
321 TTCTAAAATACCTCAAGACC
* * * * *
36536458 -AAACGATGCGTTTTTGTTAATA-TTTTTGCAGCGCTTTTTATAATGCGCCCTAATGCTGTGCTT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCCTAATGATGTGCTT
* * * *
36536521 TAGTGGCGTTTTTCCATAAGCACCACTAATTCTAATATATCTCAAGACCAAACGCTGTGTTTTGG
66 TAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATA-CTCAAGACCAAACGATGCGTTTTGG
* * *
36536586 TTAAGATATTCTGCGGTGCTTT
130 TTAAGATTTTTTGCGGCGCTTT
36536608 TTGCATTGCG
Statistics
Matches: 429, Mismatches: 53, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
339 84 0.20
340 29 0.07
341 227 0.53
342 68 0.16
343 21 0.05
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (340 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCCTAATGATGTGCTT
TAGTGGCGTTTTTCCATAAGCGCCACTAATTCTAAAATACTCAAGACCAAACGATGCGTTTTGGT
TAAGATTTTTTGCGGCGCTTTCATAATGCGCCGCTAATGCTGTGCTTTAGAGGCATTTGTCCATA
AGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTATTGGTAAAGATATTTTACGGCG
CTTTTTATAATGCGCCGCTAATGATGTGCGTTAGCGGCGTTTCATTATAAGCGCCACTAATTCTA
AAATACCTCAAGACC
Found at i:36537173 original size:9 final size:8
Alignment explanation
Indices: 36537141--36537170 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
36537131 CAGCAATTAA
36537141 TTAAAATT
1 TTAAAATT
36537149 TTAAAATT
1 TTAAAATT
36537157 TTAAAATT
1 TTAAAATT
36537165 TTAAAA
1 TTAAAA
36537171 ATTCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAAATT
Found at i:36537178 original size:16 final size:15
Alignment explanation
Indices: 36537139--36537178 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
36537129 ATCAGCAATT
36537139 AATTAAAATTTTAAA
1 AATTAAAATTTTAAA
*
36537154 ATTTTAAAATTTTAAA
1 A-ATTAAAATTTTAAA
36537170 AATTCAAAA
1 AATT-AAAA
36537179 AAATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTAAAATTTTAAA
Found at i:36537211 original size:20 final size:21
Alignment explanation
Indices: 36537177--36537225 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
36537167 AAAAATTCAA
**
36537177 AAAAATAAAATAAAATTATTT
1 AAAAATAAAATAAAAACATTT
*
36537198 AAAAATATAA-AAAAACATTT
1 AAAAATAAAATAAAAACATTT
36537218 AAAAATAA
1 AAAAATAA
36537226 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATAAAATAAAAACATTT
Found at i:36543631 original size:22 final size:22
Alignment explanation
Indices: 36543593--36543634 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36543583 AAAATTAGTG
*
36543593 AATTTAAGTGGGTATTGAGAGA
1 AATTTAAGAGGGTATTGAGAGA
36543615 AATTTAAGAGAGG-ATTGAGA
1 AATTTAAGAG-GGTATTGAGA
36543635 ATGCGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (22 bp):
AATTTAAGAGGGTATTGAGAGA
Found at i:36559123 original size:22 final size:24
Alignment explanation
Indices: 36559082--36559128 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
36559072 CACCAAGATT
*
36559082 CACCATTAATTTCTCCTCTTTTTG
1 CACCATTAATTTCTCCTCTTATTG
36559106 CACCATT-ATTT-TCCTCTTATTG
1 CACCATTAATTTCTCCTCTTATTG
36559128 C
1 C
36559129 TGTCATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.17, C:0.30, G:0.04, T:0.49
Consensus pattern (24 bp):
CACCATTAATTTCTCCTCTTATTG
Found at i:36565933 original size:26 final size:26
Alignment explanation
Indices: 36565904--36566037 Score: 117
Period size: 26 Copynumber: 5.0 Consensus size: 26
36565894 TAAGTGAGCG
*
36565904 TTTGTGGCTATCTCTGAAAGGAAGTC
1 TTTGTGGCTATCTCTGAAAGGAAGCC
* *
36565930 TTTGTGACGATCTCTGTTATAAGGAATGCC
1 TTTGTGGCTATCTCTG--A-AAGGAA-GCC
* * *
36565960 TTTGTAGTTAACTCT-AAATGGAAGCC
1 TTTGTGGCTATCTCTGAAA-GGAAGCC
* * *
36565986 TCTGTGGTTATCTCTGAATGGAAGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCC
* *
36566012 TTTGTAGCTATCTCTGAAGGGAAGCC
1 TTTGTGGCTATCTCTGAAAGGAAGCC
36566038 AGTGTGGTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
26 60 0.70
27 7 0.08
28 1 0.01
29 6 0.07
30 12 0.14
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (26 bp):
TTTGTGGCTATCTCTGAAAGGAAGCC
Found at i:36570650 original size:28 final size:28
Alignment explanation
Indices: 36570610--36570710 Score: 143
Period size: 27 Copynumber: 3.7 Consensus size: 28
36570600 AACATGACAT
* *
36570610 AAAAGAATAACCTTTGCGGTGAACTCTG
1 AAAAGAATAACCTTTGTGGTAAACTCTG
*
36570638 AAAAGAATAACCTTTGTGGCAAACTCTG
1 AAAAGAATAACCTTTGTGGTAAACTCTG
*
36570666 -AAAGAATAGCCTTTGTGGTAAACTCT-
1 AAAAGAATAACCTTTGTGGTAAACTCTG
*
36570692 AAAAGAATAGCCTTTGTGG
1 AAAAGAATAACCTTTGTGG
36570711 CGATCTCTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 42 0.63
28 25 0.37
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (28 bp):
AAAAGAATAACCTTTGTGGTAAACTCTG
Found at i:36570718 original size:27 final size:27
Alignment explanation
Indices: 36570609--36570736 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
36570599 AAACATGACA
* * **
36570609 TAAAAGAATAACCTTTGCGGTGAACTC
1 TAAAAGAATAGCCTTTGTGGCAAACTC
*
36570636 TGAAAAGAATAACCTTTGTGGCAAACTC
1 T-AAAAGAATAGCCTTTGTGGCAAACTC
* *
36570664 TGAAAGAATAGCCTTTGTGGTAAACTC
1 TAAAAGAATAGCCTTTGTGGCAAACTC
* *
36570691 TAAAAGAATAGCCTTTGTGGCGATCTC
1 TAAAAGAATAGCCTTTGTGGCAAACTC
*
36570718 TAAAAGTGAT-GCCTTTGTG
1 TAAAAG-AATAGCCTTTGTG
36570737 ATAAATTCTG
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
27 62 0.70
28 26 0.30
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
TAAAAGAATAGCCTTTGTGGCAAACTC
Found at i:36570732 original size:54 final size:55
Alignment explanation
Indices: 36570609--36570748 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 55
36570599 AAACATGACA
* * *
36570609 TAAAAGAATAACCTTTGCGGTGAACTCTGAAAAGAATAACCTTTGTGGCAAACTC
1 TAAAAGAATAGCCTTTGTGGTAAACTCTGAAAAGAATAACCTTTGTGGCAAACTC
* * * *
36570664 TGAAAGAATAGCCTTTGTGGTAAACTCT-AAAAGAATAGCCTTTGTGGCGATCTC
1 TAAAAGAATAGCCTTTGTGGTAAACTCTGAAAAGAATAACCTTTGTGGCAAACTC
* * *
36570718 TAAAAGTGAT-GCCTTTGTGATAAATTCTGAA
1 TAAAAG-AATAGCCTTTGTGGTAAACTCTGAA
36570749 TGTATCGCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
54 44 0.61
55 28 0.39
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (55 bp):
TAAAAGAATAGCCTTTGTGGTAAACTCTGAAAAGAATAACCTTTGTGGCAAACTC
Found at i:36574938 original size:25 final size:25
Alignment explanation
Indices: 36574835--36574938 Score: 75
Period size: 25 Copynumber: 4.2 Consensus size: 25
36574825 CCACAAAGGC
* * * *
36574835 TTTCTAGAGAATTCGCTATAGAGGA
1 TTTCTAGAGAATTCACCATAAAAGA
* * * *
36574860 TGTCTAGAGAATTCACGACAAAAGC
1 TTTCTAGAGAATTCACCATAAAAGA
* * ** *
36574885 TTTCCAAAGAATTTTCCA-CAAAGA
1 TTTCTAGAGAATTCACCATAAAAGA
36574909 CTTTCTAGAGAATTCACCATAAAAGA
1 -TTTCTAGAGAATTCACCATAAAAGA
36574935 TTTC
1 TTTC
36574939 CATGAAATCC
Statistics
Matches: 57, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
24 4 0.07
25 48 0.84
26 5 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (25 bp):
TTTCTAGAGAATTCACCATAAAAGA
Found at i:36582030 original size:163 final size:164
Alignment explanation
Indices: 36581758--36582080 Score: 630
Period size: 163 Copynumber: 2.0 Consensus size: 164
36581748 TGAAATCTAT
36581758 ATTAACCTTGATTGAATCTTGATAACGTATGCTAACTCGTGTATAAATATTGTTTGTAGGACTCG
1 ATTAACCTTGATTGAATCTTGATAACGTATGCTAACTCGTGTATAAATATTGTTTGTAGGACTCG
36581823 TTTTAGGTGCATCAGATCAAATTGAATCGTGAAAAACGTCGCTCGAGATTCTGGTGAAAGTTGTG
66 TTTTAGGTGCATCAGATCAAATTGAATCGTGAAAAACGTCGCTCGAGATTCTGGTGAAAGTTGTG
36581888 ATCTTCTACAAGCAAATCAGAGCAAACTGTCTTC
131 ATCTTCTACAAGCAAATCAGAGCAAACTGTCTTC
36581922 ATTAACCTTGATTGAATCTTGATAACGTATGCTAACTCGTGTAT-AATATTGTTTGTAGGACTCG
1 ATTAACCTTGATTGAATCTTGATAACGTATGCTAACTCGTGTATAAATATTGTTTGTAGGACTCG
*
36581986 TTTTAGGTGCATCAGATCAAATTGAATCGTGAAAAACTTCGCTCGAGATTCTGGTGAAAGTTGTG
66 TTTTAGGTGCATCAGATCAAATTGAATCGTGAAAAACGTCGCTCGAGATTCTGGTGAAAGTTGTG
36582051 ATCTTCTACAAGCAAATCAGAGCAAACTGT
131 ATCTTCTACAAGCAAATCAGAGCAAACTGT
36582081 GCCTAGGATT
Statistics
Matches: 158, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
163 114 0.72
164 44 0.28
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (164 bp):
ATTAACCTTGATTGAATCTTGATAACGTATGCTAACTCGTGTATAAATATTGTTTGTAGGACTCG
TTTTAGGTGCATCAGATCAAATTGAATCGTGAAAAACGTCGCTCGAGATTCTGGTGAAAGTTGTG
ATCTTCTACAAGCAAATCAGAGCAAACTGTCTTC
Found at i:36582858 original size:21 final size:21
Alignment explanation
Indices: 36582832--36582871 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36582822 TTTATCCATA
36582832 ATGAGTGGTTCATCCACAATG
1 ATGAGTGGTTCATCCACAATG
*
36582853 ATGAGTGGTTTATCCACAA
1 ATGAGTGGTTCATCCACAA
36582872 CGTGGTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGAGTGGTTCATCCACAATG
Found at i:36589567 original size:12 final size:12
Alignment explanation
Indices: 36589550--36589574 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36589540 TTTGAGTCTG
36589550 TGAAACCTCTAC
1 TGAAACCTCTAC
36589562 TGAAACCTCTAC
1 TGAAACCTCTAC
36589574 T
1 T
36589575 TTATTTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (12 bp):
TGAAACCTCTAC
Found at i:36595986 original size:28 final size:28
Alignment explanation
Indices: 36595955--36596033 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
36595945 GTTTATGATT
36595955 TTTTATAAGTTTTTATAATATTTATAAG
1 TTTTATAAGTTTTTATAATATTTATAAG
*
36595983 TTTT-TATGATTTTTATAATATTTATAAG
1 TTTTATAAG-TTTTTATAATATTTATAAG
* *
36596011 TTTATATAAATATTT-TAATATTT
1 TTT-TATAAGTTTTTATAATATTT
36596034 TAATATGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 3 0.07
28 34 0.77
29 5 0.11
30 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTATAAGTTTTTATAATATTTATAAG
Found at i:36596057 original size:8 final size:9
Alignment explanation
Indices: 36596046--36596166 Score: 50
Period size: 9 Copynumber: 12.7 Consensus size: 9
36596036 ATATGTGTTA
36596046 TATT-TTTT
1 TATTATTTT
36596054 TATTATTTT
1 TATTATTTT
**
36596063 TAGAAAATTTT
1 T--ATTATTTT
36596074 TA-TATTTTAT
1 TATTA-TTT-T
*
36596084 TATAAATTTT
1 TATTA-TTTT
36596094 TA-TATTTT
1 TATTATTTT
*
36596102 ATATAAATTTT
1 -TAT-TATTTT
*
36596113 TAATATTTTT
1 TATTA-TTTT
*
36596123 TATAAATTTT
1 TAT-TATTTT
*
36596133 TAATATTTT
1 TATTATTTT
*
36596142 TAATATTTT
1 TATTATTTT
*
36596151 TATTATAATT
1 TATTAT-TTT
36596161 TATTAT
1 TATTAT
36596167 GATATTTTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
8 9 0.10
9 32 0.37
10 28 0.33
11 17 0.20
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (9 bp):
TATTATTTT
Found at i:36596073 original size:20 final size:18
Alignment explanation
Indices: 36596050--36596153 Score: 111
Period size: 20 Copynumber: 5.4 Consensus size: 18
36596040 GTGTTATATT
*
36596050 TTTTTATTATTTTTAGAAAA
1 TTTTTA-TATTTTTA-TAAA
36596070 TTTTTATATTTTATTATAAA
1 TTTTTATA-TTT-TTATAAA
36596090 TTTTTATATTTTATATAAA
1 TTTTTATATTTT-TATAAA
36596109 TTTTTAATATTTTTTATAAA
1 TTTTT-ATA-TTTTTATAAA
*
36596129 TTTTTAATATTTTTA-ATA
1 TTTTT-ATATTTTTATAAA
36596147 TTTTTAT
1 TTTTTAT
36596154 TATAATTTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
17 2 0.03
18 8 0.10
19 22 0.29
20 38 0.49
21 7 0.09
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTTATATTTTTATAAA
Found at i:36596073 original size:39 final size:38
Alignment explanation
Indices: 36596030--36596143 Score: 120
Period size: 40 Copynumber: 2.9 Consensus size: 38
36596020 ATATTTTAAT
* * **
36596030 ATTTTAATATGTGTTATATTTTTTTATTATTTTTAGAAA
1 ATTTTAATATTTATTATAAATTTTTA-TATTTTTAGAAA
* *
36596069 ATTTTTATATTTTATTATAAATTTTTATATTTTATATAAA
1 ATTTTAATA-TTTATTATAAATTTTTATATTTT-TAGAAA
* *
36596109 TTTTTAATATTTTTTATAAATTTTTAATATTTTTA
1 ATTTTAATATTTATTATAAATTTTT-ATATTTTTA
36596144 ATATTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
39 31 0.49
40 32 0.51
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (38 bp):
ATTTTAATATTTATTATAAATTTTTATATTTTTAGAAA
Found at i:36596079 original size:19 final size:18
Alignment explanation
Indices: 36595954--36596153 Score: 112
Period size: 19 Copynumber: 10.9 Consensus size: 18
36595944 AGTTTATGAT
*
36595954 TTTTTATAAGTTTTTATAA
1 TTTTTATAAATTTTTAT-A
* *
36595973 TATTTATAAGTTTTTATGA
1 TTTTTATAAATTTTTAT-A
*
36595992 TTTTTAT-AATATTTATA
1 TTTTTATAAATTTTTATA
**
36596009 AGTTTATATAA-----ATA
1 TTTTTATA-AATTTTTATA
* *
36596023 -TTTTA-ATATTTTAATA
1 TTTTTATAAATTTTTATA
* **
36596039 TGTGTTATATTTTTTTATTA
1 T-TTTTATAAATTTTTA-TA
*
36596059 TTTTTAGAAAATTTTTATA
1 TTTTTA-TAAATTTTTATA
36596078 TTTTATTATAAATTTTTATA
1 -TTT-TTATAAATTTTTATA
36596098 TTTTATATAAATTTTTAATA
1 TTTT-TATAAATTTTT-ATA
36596118 TTTTTTATAAATTTTTAATA
1 -TTTTTATAAATTTTT-ATA
*
36596138 TTTTTA-ATATTTTTAT
1 TTTTTATAAATTTTTAT
36596154 TATAATTTAT
Statistics
Matches: 146, Mismatches: 18, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
11 1 0.01
12 1 0.01
13 4 0.03
14 3 0.02
16 3 0.02
17 8 0.05
18 19 0.13
19 58 0.40
20 42 0.29
21 7 0.05
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTTATAAATTTTTATA
Found at i:36596087 original size:40 final size:38
Alignment explanation
Indices: 36596031--36596152 Score: 131
Period size: 39 Copynumber: 3.1 Consensus size: 38
36596021 TATTTTAATA
* * **
36596031 TTTTAATATGTGTTATATTTTTTTATTATTTTTAGAAAAT
1 TTTTAATATTTTTTATAAATTTTTA-TATTTTTA-AAAAT
*
36596071 TTTT-ATATTTTATTATAAATTTTTATATTTTATATAAAT
1 TTTTAATATTTT-TTATAAATTTTTATATTTT-TAAAAAT
*
36596110 TTTTAATATTTTTTATAAATTTTTAATATTTTT-AATAT
1 TTTTAATATTTTTTATAAATTTTT-ATATTTTTAAAAAT
36596148 TTTTA
1 TTTTA
36596153 TTATAATTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
38 8 0.11
39 32 0.45
40 31 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (38 bp):
TTTTAATATTTTTTATAAATTTTTATATTTTTAAAAAT
Found at i:36596123 original size:29 final size:28
Alignment explanation
Indices: 36596090--36596161 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 28
36596080 TTATTATAAA
36596090 TTTTTAT-ATTTTATATAAATTTTTAATAT
1 TTTTTATAATTTT-TA-AAATTTTTAATAT
*
36596119 TTTTTATAAATTTTTAATATTTTTAATATT
1 TTTTTAT-AATTTTTAAAATTTTTAATA-T
36596149 TTTATTATAATTT
1 TTT-TTATAATTT
36596162 ATTATGATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 18 0.47
30 11 0.29
31 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTATAATTTTTAAAATTTTTAATAT
Found at i:36596175 original size:13 final size:11
Alignment explanation
Indices: 36596073--36596177 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 11
36596063 TAGAAAATTT
36596073 TTAT-ATTTTA
1 TTATAATTTTA
*
36596083 TTATAAATTT-
1 TTATAATTTTA
36596093 TTAT-ATTTTA
1 TTATAATTTTA
*
36596103 -TATAAATTT-
1 TTATAATTTTA
36596112 TTA-ATATTTT-
1 TTATA-ATTTTA
*
36596122 TTATAAATTT-
1 TTATAATTTTA
36596132 TTA-ATATTTT-
1 TTATA-ATTTTA
* *
36596142 TAATATTTTTA
1 TTATAATTTTA
36596153 TTATAA-TTTA
1 TTATAATTTTA
36596163 TTATGATATTTTA
1 TTAT-A-ATTTTA
36596176 TT
1 TT
36596178 GGAAAAATAA
Statistics
Matches: 73, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
9 9 0.12
10 46 0.63
11 11 0.15
12 1 0.01
13 6 0.08
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (11 bp):
TTATAATTTTA
Found at i:36615796 original size:90 final size:90
Alignment explanation
Indices: 36615643--36615820 Score: 329
Period size: 90 Copynumber: 2.0 Consensus size: 90
36615633 TAACGAACCG
36615643 ATAGTCAGGATGTCAAATAGTAAGATTCGTGACTCCATTTCCATAAAATTAACCTGTAAATATTT
1 ATAGTCAGGATGTCAAATAGTAAGATTCGTGACTCCATTTCCATAAAATTAACCTGTAAATATTT
36615708 TTATTTAATATTTACGAGGTTAGCA
66 TTATTTAATATTTACGAGGTTAGCA
* * *
36615733 ATAGTTAGGATGTCAAATAGTGAGATTCGTTACTCCATTTCCATAAAATTAACCTGTAAATATTT
1 ATAGTCAGGATGTCAAATAGTAAGATTCGTGACTCCATTTCCATAAAATTAACCTGTAAATATTT
36615798 TTATTTAATATTTACGAGGTTAG
66 TTATTTAATATTTACGAGGTTAG
36615821 TTTAGCAGTG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (90 bp):
ATAGTCAGGATGTCAAATAGTAAGATTCGTGACTCCATTTCCATAAAATTAACCTGTAAATATTT
TTATTTAATATTTACGAGGTTAGCA
Found at i:36618263 original size:54 final size:54
Alignment explanation
Indices: 36618188--36618312 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
36618178 CATGGCCTAA
* * * *
36618188 GACACGGCCATGTGGCCCAAGTTAGAGAGTTACACAGGC-AGAGACACGGGTTGG
1 GACACGACCATGTGTCTCAAGTCAGAGAGTTACACAGGCAAG-GACACGGGTTGG
* * * * *
36618242 GACACGACCGTGTGTCTCAAGTCAGTGAGTTACACGGGCAAGGACATGGTTTGG
1 GACACGACCATGTGTCTCAAGTCAGAGAGTTACACAGGCAAGGACACGGGTTGG
*
36618296 GACACGGCCATGTGTCT
1 GACACGACCATGTGTCT
36618313 TGATTTCGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.34, T:0.19
Consensus pattern (54 bp):
GACACGACCATGTGTCTCAAGTCAGAGAGTTACACAGGCAAGGACACGGGTTGG
Found at i:36625207 original size:31 final size:31
Alignment explanation
Indices: 36625145--36625216 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
36625135 ACGTGCTTCC
* * *
36625145 TGTCCTGACGGACTATCTGTTCTGTGCTTAT
1 TGTCCTAACGGACTATCTATTATGTGCTTAT
*
36625176 TGTCCTAACGGACTATCTATTATGTGTTTAT
1 TGTCCTAACGGACTATCTATTATGTGCTTAT
*
36625207 TGTCCCAACG
1 TGTCCTAACG
36625217 AACTTTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.40
Consensus pattern (31 bp):
TGTCCTAACGGACTATCTATTATGTGCTTAT
Done.