Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 106 of 311
Found at i:34819580 original size:18 final size:17
Alignment explanation
Indices: 34819553--34819586 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34819543 AGTTTGTTTA
34819553 TTATTATTATTCTTTAAT
1 TTATTATTATT-TTTAAT
*
34819571 TTATTCTTATTTTTAA
1 TTATTATTATTTTTAA
34819587 CTTAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTATTATTTTTAAT
Found at i:34833145 original size:53 final size:53
Alignment explanation
Indices: 34833080--34833190 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
34833070 GCCAAGCCCA
* * **
34833080 CGCCCGTGTCCCTGGCCCGTGCCCTTCACACGGCTTAGACACGCCTGTGTGGT
1 CGCCCGTGTCCCTGGCCCGTGCCCGTCACACGGCCTAGACACGCCCCTGTGGT
* *
34833133 CGCCCGTGTCCCTGGCCCGTGTCCGTCACACGGCCTAGACATGCCCCTGTGGT
1 CGCCCGTGTCCCTGGCCCGTGCCCGTCACACGGCCTAGACACGCCCCTGTGGT
34833186 CGCCC
1 CGCCC
34833191 ATGCCCAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.09, C:0.42, G:0.28, T:0.21
Consensus pattern (53 bp):
CGCCCGTGTCCCTGGCCCGTGCCCGTCACACGGCCTAGACACGCCCCTGTGGT
Found at i:34857306 original size:12 final size:12
Alignment explanation
Indices: 34857289--34857314 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34857279 AAAATAGGGC
34857289 TTTAGCGGCGTT
1 TTTAGCGGCGTT
34857301 TTTAGCGGCGTT
1 TTTAGCGGCGTT
34857313 TT
1 TT
34857315 ATAAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:34857391 original size:40 final size:40
Alignment explanation
Indices: 34857337--34857472 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 40
34857327 GTAAAAATTA
* * * *
34857337 TAAAACACGGAGCAATAGCTGCG-TTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCAGCGCTTTT-GCTAAAACGCCGC
* * * *
34857378 TAAAAACAGAGCAATAGCGGGGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCAGCG-CTTTTGCTAAAACGCCGC
* *
34857419 TAAAAACAGAGCATTAGCAGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCAGCGCTTTTGCTAAAACGCCGC
34857459 TAAAAACTAGAGCA
1 TAAAAAC-AGAGCA
34857473 TTAACGCCGC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 37 0.46
41 40 0.49
42 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCAGCGCTTTTGCTAAAACGCCGC
Found at i:34857413 original size:41 final size:40
Alignment explanation
Indices: 34857368--34857472 Score: 147
Period size: 41 Copynumber: 2.6 Consensus size: 40
34857358 CGTTTTACCA
* * * *
34857368 AAAACGCCGCTAAAAACAGAGCAATAGCGGGGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGCAGCG-CTTTTGGT
*
34857409 AAAACGCCGCTAAAAACAGAGCATTAGCAGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCAGCGCTTTTGGT
34857449 AAAACGCCGCTAAAAACTAGAGCA
1 AAAACGCCGCTAAAAAC-AGAGCA
34857473 TTAACGCCGC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 23 0.40
41 35 0.60
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCAGCGCTTTTGGT
Found at i:34857507 original size:24 final size:24
Alignment explanation
Indices: 34857451--34857499 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34857441 CTTTTGGTAA
*
34857451 AACGCCGCTAAAAACTAGAGCATT
1 AACGCCGCTAAAAACCAGAGCATT
34857475 AACGCCGCTAAAAACCAGAGCATT
1 AACGCCGCTAAAAACCAGAGCATT
34857499 A
1 A
34857500 GCGGCGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (24 bp):
AACGCCGCTAAAAACCAGAGCATT
Found at i:34857592 original size:46 final size:46
Alignment explanation
Indices: 34857539--34857663 Score: 117
Period size: 54 Copynumber: 2.5 Consensus size: 46
34857529 GTCATACAAT
*
34857539 CCCTAAAACCCTAAACCCCAAAAAATAA-TAAACACTAATCTATAAC
1 CCCTAAAACCCTAAACCCCAAAAAA-AACTAAACACTAAACTATAAC
* *
34857585 CCCTAAAACACTAAACCTCTAAATCCTAAAAACCCTTAAACACTAAACTATAAC
1 CCCTAAAACCCTAAACC-CCAAA----AAAAA--C-TAAACACTAAACTATAAC
* *
34857639 CCCTAAAATCCTAAACTCCAAAAAA
1 CCCTAAAACCCTAAACCCCAAAAAA
34857664 CATCATATGG
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
46 16 0.25
47 4 0.06
49 3 0.05
50 2 0.03
51 3 0.05
53 4 0.06
54 31 0.49
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.18
Consensus pattern (46 bp):
CCCTAAAACCCTAAACCCCAAAAAAAACTAAACACTAAACTATAAC
Found at i:34858947 original size:13 final size:13
Alignment explanation
Indices: 34858929--34858962 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
34858919 ATTGGAACGT
*
34858929 CTAAAATTTCCCC
1 CTAAAATCTCCCC
34858942 CTAAAATCTCCCC
1 CTAAAATCTCCCC
34858955 CTAAAATC
1 CTAAAATC
34858963 GGTATCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (13 bp):
CTAAAATCTCCCC
Found at i:34859010 original size:14 final size:14
Alignment explanation
Indices: 34858991--34859020 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34858981 CTAATTTTTC
*
34858991 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
34859005 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
34859019 CC
1 CC
34859021 TTCTACCATT
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:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:34859107 original size:14 final size:14
Alignment explanation
Indices: 34859088--34859117 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34859078 ATTTCTTGCT
34859088 TCTCTAAAGCTCCA
1 TCTCTAAAGCTCCA
*
34859102 TCTCTAAATCTCCA
1 TCTCTAAAGCTCCA
34859116 TC
1 TC
34859118 CTTTTGATTT
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:0.27, C:0.37, G:0.03, T:0.33
Consensus pattern (14 bp):
TCTCTAAAGCTCCA
Found at i:34861744 original size:5 final size:5
Alignment explanation
Indices: 34861730--34861759 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
34861720 ACGTGGCAAT
*
34861730 TTTAA ATTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
34861760 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:34863240 original size:19 final size:19
Alignment explanation
Indices: 34863217--34863263 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
34863207 ATTTAATCTA
*
34863217 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
34863235 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
34863255 ATTTTTATT
1 ATTTTTATT
34863264 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:34863642 original size:19 final size:19
Alignment explanation
Indices: 34863620--34863659 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
34863610 CTATATAACT
34863620 TATAAATTTTT-TATATTTC
1 TATAAATTTTTATA-ATTTC
34863639 TATAAATTTTTATAATTTC
1 TATAAATTTTTATAATTTC
34863658 TA
1 TA
34863660 AGCTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TATAAATTTTTATAATTTC
Found at i:34870955 original size:20 final size:21
Alignment explanation
Indices: 34870930--34870968 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34870920 AACAAAAAAA
*
34870930 TAAAAATT-ACTTAAATATTT
1 TAAAAATTAAATTAAATATTT
34870950 TAAAAATTAAATTAAATAT
1 TAAAAATTAAATTAAATAT
34870969 AAATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATTAAATTAAATATTT
Found at i:34870994 original size:22 final size:24
Alignment explanation
Indices: 34870969--34871023 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
34870959 AATTAAATAT
*
34870969 AAATATAA-ATATA-ACTTTTAAA
1 AAATATAATATATATAATTTTAAA
*
34870991 AAATTTTAATATATATAATTTTAAA
1 AAA-TATAATATATATAATTTTAAA
34871016 AATATATA
1 AA-ATATA
34871024 TCTAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 4 0.15
24 5 0.19
25 13 0.50
26 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATAATATATATAATTTTAAA
Found at i:34871412 original size:17 final size:18
Alignment explanation
Indices: 34871374--34871421 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
34871364 TTAGTTTTTG
*
34871374 ATATATAT-TTTTTAATT
1 ATATATATATTTTTAATA
*
34871391 TTATATATATTTTTAA-A
1 ATATATATATTTTTAATA
34871408 ATATATATAATTTT
1 ATATATAT-ATTTT
34871422 GATTTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATATATATTTTTAATA
Found at i:34871414 original size:19 final size:19
Alignment explanation
Indices: 34871374--34871421 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
34871364 TTAGTTTTTG
* * *
34871374 ATATATATTTTTTAATTTT
1 ATATATATTTTTAAAATAT
34871393 ATATATATTTTTAAAATAT
1 ATATATATTTTTAAAATAT
34871412 ATATA-ATTTT
1 ATATATATTTT
34871422 GATTTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATATTTTTAAAATAT
Found at i:34874451 original size:27 final size:26
Alignment explanation
Indices: 34874403--34874561 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 26
34874393 GCGAGGCTGC
* * *
34874403 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
34874430 TAGATATTGTGGCAAAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
34874456 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAAAGCCACCAGAA
* *
34874483 CAGATAATTGTGGCATAGCCACCAGGA
1 CAGAT-ATTGTGGCAAAGCCACCAGAA
*
34874510 CAGATATATGTGGCAGAGCCACCA-AA
1 CAGATAT-TGTGGCAAAGCCACCAGAA
*
34874536 TCAGATAATTGTGGCATAGCCACCAG
1 -CAGAT-ATTGTGGCAAAGCCACCAG
34874562 GAGCTTCCTC
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
26 10 0.09
27 99 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:34874562 original size:54 final size:54
Alignment explanation
Indices: 34874431--34874563 Score: 232
Period size: 54 Copynumber: 2.5 Consensus size: 54
34874421 CACCAGATAT
* * *
34874431 AGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAATC
34874484 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAATC
34874538 AGATAATTGTGGCATAGCCACCAGGA
1 AGATAATTGTGGCATAGCCACCAGGA
34874564 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 4 0.05
54 72 0.95
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAAATC
Found at i:34875039 original size:102 final size:102
Alignment explanation
Indices: 34874863--34875064 Score: 361
Period size: 102 Copynumber: 2.0 Consensus size: 102
34874853 GTTTGCGCGA
*
34874863 TATGCTGACGAGATCCACACACGAACTGCCTAGAATTGGTTACTAACACGTTAATCTAACTATTC
1 TATGCTGACGAGATCCACACACGAACTGCCTACAATTGGTTACTAACACGTTAATCTAACTATTC
*
34874928 AAGCACGAACTACATATTAACCCCATACCATATTCAG
66 AAGCACGAACTACATATTAACCCCATACAATATTCAG
34874965 TATGCTGACGAGATCCACACACGAACTGCCTACAATTGGATTACTAACACGTTAATCTAACTATT
1 TATGCTGACGAGATCCACACACGAACTGCCTACAATTGG-TTACTAACACGTTAATCTAACTATT
*
34875030 CAA-CACGAACTACGTATTAACCCCATACAATATTC
65 CAAGCACGAACTACATATTAACCCCATACAATATTC
34875065 GGCCAACCAC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 68 0.71
103 28 0.29
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (102 bp):
TATGCTGACGAGATCCACACACGAACTGCCTACAATTGGTTACTAACACGTTAATCTAACTATTC
AAGCACGAACTACATATTAACCCCATACAATATTCAG
Found at i:34875998 original size:10 final size:10
Alignment explanation
Indices: 34875980--34876009 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34875970 TTTAGGCTAT
*
34875980 GATGAACAAA
1 GATGGACAAA
34875990 GATGGACAAA
1 GATGGACAAA
34876000 GATGGACAAA
1 GATGGACAAA
34876010 ACTTTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.27, T:0.10
Consensus pattern (10 bp):
GATGGACAAA
Found at i:34876126 original size:26 final size:26
Alignment explanation
Indices: 34876096--34876201 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
34876086 AAATTCCCAC
34876096 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
*
34876122 TATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
34876148 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
*
34876174 CATGGAACATTTACCTAACTCATTAT
1 CATGGAACATTTACCTAACCCATTAT
34876200 CA
1 CA
34876202 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAT
Found at i:34878476 original size:41 final size:42
Alignment explanation
Indices: 34878410--34878522 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 42
34878400 TTTAACTTAT
* * *
34878410 ATGAGTTTCAGTTCAACCCTAATGGGTTTCCGTTCAGCTC-A
1 ATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTA
* * * *
34878451 ATGAGCTTCTGTTTAATCCTTATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTA
*
34878493 ATGAGCTTCCGTTCAACCCTTATAGGTTTC
1 ATGAGCTTCCGTTCAACCCTTATGGGTTTC
34878523 TGTTTAGCAC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 35 0.57
42 26 0.43
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (42 bp):
ATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTA
Found at i:34878495 original size:21 final size:21
Alignment explanation
Indices: 34878409--34878522 Score: 77
Period size: 21 Copynumber: 5.5 Consensus size: 21
34878399 ATTTAACTTA
* *
34878409 TATGAGTTTCAGTTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * *
34878430 AATGGGTTTCCGTTCAGCTC-
1 TATGGGTTTCCGTTCAACCCT
* * * * * *
34878450 AATGAGCTTCTGTTTAATCCT
1 TATGGGTTTCCGTTCAACCCT
* *
34878471 TATGGGTTTCCGTTCAGCTCT
1 TATGGGTTTCCGTTCAACCCT
* *
34878492 TATGAGCTTCCGTTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
*
34878513 TATAGGTTTC
1 TATGGGTTTC
34878523 TGTTTAGCAC
Statistics
Matches: 65, Mismatches: 27, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
20 13 0.20
21 52 0.80
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (21 bp):
TATGGGTTTCCGTTCAACCCT
Found at i:34887750 original size:29 final size:30
Alignment explanation
Indices: 34887695--34887754 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
34887685 ATTTCCGAGC
34887695 TTGGGGACAAAAGTGTAATTATGCAAAAGT
1 TTGGGGACAAAAGTGTAATTATGCAAAAGT
* * *
34887725 TTGGGGGCAAAA-TGTAATTTTTCAAAAGT
1 TTGGGGACAAAAGTGTAATTATGCAAAAGT
34887754 T
1 T
34887755 GGGTGGGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTATGCAAAAGT
Found at i:34889393 original size:40 final size:40
Alignment explanation
Indices: 34889349--34889479 Score: 158
Period size: 39 Copynumber: 3.3 Consensus size: 40
34889339 TAACTCATTC
*
34889349 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACA
* *
34889389 AATGCCTTCGGGACTTAACCCGGATTGGT--ATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATT-TTAAAACTCGCACA
* * **
34889428 AAGGCCTTCGGGACTTAACTCGGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACA
*
34889469 AATACCTTCGG
1 AATGCCTTCGG
34889480 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.39
40 26 0.34
41 19 0.25
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACA
Found at i:35008121 original size:19 final size:19
Alignment explanation
Indices: 35008099--35008162 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
35008089 CACGAACCTT
35008099 TGAGTTGAGTCCGAGTTCG
1 TGAGTTGAGTCCGAGTTCG
* *
35008118 TGAGATGTTAG-CATCGA-CTCG
1 TGAG-T-TGAGTC--CGAGTTCG
35008139 TTGAGTTGAGTCCGAGTTCG
1 -TGAGTTGAGTCCGAGTTCG
35008159 TGAG
1 TGAG
35008163 ATTGTAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
19 11 0.32
20 8 0.24
21 8 0.24
22 7 0.21
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (19 bp):
TGAGTTGAGTCCGAGTTCG
Found at i:35008155 original size:41 final size:46
Alignment explanation
Indices: 35008098--35008203 Score: 159
Period size: 41 Copynumber: 2.4 Consensus size: 46
35008088 GCACGAACCT
35008098 TTGAGTTGAGTCCGAGTTCGTGAGA-TGT-TA-GCAT-CG-ACTCG
1 TTGAGTTGAGTCCGAGTTCGTGAGATTGTATAGGCATCCGAACTCG
35008139 TTGAGTTGAGTCCGAGTTCGTGAGATTGTAACTAGGCATCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCGTGAGATTGT-A-TAGGCATCCGAACTCG
35008187 TTGAGTTGAGTCCGAGT
1 TTGAGTTGAGTCCGAGT
35008204 CACTTATGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
41 25 0.43
42 3 0.05
45 2 0.03
46 4 0.07
47 2 0.03
48 22 0.38
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCGTGAGATTGTATAGGCATCCGAACTCG
Found at i:35013159 original size:51 final size:54
Alignment explanation
Indices: 35013063--35013190 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 54
35013053 AGTGAACTAC
*
35013063 CGGC-ACTGCAACTCAACGAG-TCGGATGGCCTTAGTTACGACTCTCACGA-ACTT
1 CGGCGACT-CAACTCAACGAGTTCGGATCGCCTTAGTTACGACTCTCACGACAC-T
35013116 C-G-G-CTCAACTCAACCGAGTTCGCGATCGCC-TAGTGTAC-A-TCTCACGACACT
1 CGGCGACTCAACTCAA-CGAGTTCG-GATCGCCTTAGT-TACGACTCTCACGACACT
35013167 CGGCGACTCAACTCAACGAGTTCG
1 CGGCGACTCAACTCAACGAGTTCG
35013191 ATCAGCTCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 18
0.77 0.01 0.21
Matches are distributed among these distances:
50 8 0.12
51 16 0.25
52 12 0.18
53 19 0.29
54 10 0.15
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (54 bp):
CGGCGACTCAACTCAACGAGTTCGGATCGCCTTAGTTACGACTCTCACGACACT
Found at i:35013193 original size:51 final size:53
Alignment explanation
Indices: 35013063--35013193 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 53
35013053 AGTGAACTAC
*
35013063 CGGC-ACTGCAACTCAACGAG-TCGGATGGCCTTAGTTACGACTCTCACGAACTT
1 CGGCGACT-CAACTCAACGAGTTC-GATCGCCTTAGTTACGACTCTCACGAACTT
35013116 C-G-G-CTCAACTCAACCGAGTTCGCGATCGCC-TAGTGTAC-A-TCTCACGACAC-T
1 CGGCGACTCAACTCAA-CGAGTT--CGATCGCCTTAGT-TACGACTCTCACGA-ACTT
35013167 CGGCGACTCAACTCAACGAGTTCGATC
1 CGGCGACTCAACTCAACGAGTTCGATC
35013194 AGCTCAATCA
Statistics
Matches: 67, Mismatches: 1, Indels: 22
0.74 0.01 0.24
Matches are distributed among these distances:
50 8 0.12
51 21 0.31
52 10 0.15
53 17 0.25
54 11 0.16
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (53 bp):
CGGCGACTCAACTCAACGAGTTCGATCGCCTTAGTTACGACTCTCACGAACTT
Found at i:35020639 original size:27 final size:27
Alignment explanation
Indices: 35020609--35020687 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
35020599 CTCAACGAGT
35020609 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* **
35020636 TCGGA---CTCA---AC-TC-AACGAGT
1 TCGGATGCCT-AGTTACATCTCACGAAC
35020656 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
35020683 TCGGA
1 TCGGA
35020688 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 14 0.38
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:35020653 original size:47 final size:47
Alignment explanation
Indices: 35020585--35020709 Score: 243
Period size: 47 Copynumber: 2.7 Consensus size: 47
35020575 ATCCATAAGT
35020585 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
35020632 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
35020679 GAACTCGGACTCAACTCAACGAGTTC-GATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
35020710 TCAATCATCC
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
46 5 0.06
47 73 0.94
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35026831 original size:9 final size:9
Alignment explanation
Indices: 35026817--35026872 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
35026807 AACACTTTAA
35026817 AAACACATT
1 AAACACATT
*
35026826 AAACACACT
1 AAACACATT
35026835 AAACACATT
1 AAACACATT
* *
35026844 AAGCACACT
1 AAACACATT
35026853 AAACACATT
1 AAACACATT
*
35026862 AAACAGATT
1 AAACACATT
35026871 AA
1 AA
35026873 TTACTATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.55, C:0.23, G:0.04, T:0.18
Consensus pattern (9 bp):
AAACACATT
Found at i:35026840 original size:18 final size:18
Alignment explanation
Indices: 35026817--35026866 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
35026807 AACACTTTAA
35026817 AAACACATTAAACACACT
1 AAACACATTAAACACACT
*
35026835 AAACACATTAAGCACACT
1 AAACACATTAAACACACT
35026853 AAACACATTAAACA
1 AAACACATTAAACA
35026867 GATTAATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.56, C:0.26, G:0.02, T:0.16
Consensus pattern (18 bp):
AAACACATTAAACACACT
Found at i:35026882 original size:27 final size:27
Alignment explanation
Indices: 35026820--35026892 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
35026810 ACTTTAAAAA
* *
35026820 CACATTAAACACACTAAACACATTAAG
1 CACAATAAACACATTAAACACATTAAG
* * *
35026847 CACACTAAACACATTAAACAGATTAAT
1 CACAATAAACACATTAAACACATTAAG
* * *
35026874 TACTATAAACACATGAAAC
1 CACAATAAACACATTAAAC
35026893 TTAATTAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.52, C:0.23, G:0.04, T:0.21
Consensus pattern (27 bp):
CACAATAAACACATTAAACACATTAAG
Found at i:35026990 original size:34 final size:34
Alignment explanation
Indices: 35026952--35027023 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
35026942 CCAGTAATTA
* *
35026952 AATTAACTAAGATAAAGATTTATTCTAACAACTC
1 AATTAACTAAGATAAAGATTGATTCCAACAACTC
* * * *
35026986 AATTAACTAAGTTGAATATTGATTCCAACAACTT
1 AATTAACTAAGATAAAGATTGATTCCAACAACTC
35027020 AATT
1 AATT
35027024 TAATAACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (34 bp):
AATTAACTAAGATAAAGATTGATTCCAACAACTC
Found at i:35029406 original size:68 final size:67
Alignment explanation
Indices: 35029334--35029519 Score: 175
Period size: 67 Copynumber: 2.8 Consensus size: 67
35029324 CATCATGTGT
* * * *
35029334 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
35029396 ATGTAG
62 ATGTAG
** * *
35029402 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
35029467 AG
66 AG
* * * * *
35029469 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGAGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATAC-AAGTG
35029520 TTCACCATGT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 26 0.26
67 32 0.32
68 13 0.13
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:35029439 original size:64 final size:64
Alignment explanation
Indices: 35029358--35029541 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
35029348 AGACATTATG
* * *
35029358 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
35029422 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGAGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35029487 AA
63 AA
* * * * *
35029489 AT-TGGCTAGGTCACATGAGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
35029542 CAAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 17 0.17
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35032618 original size:31 final size:32
Alignment explanation
Indices: 35032583--35032642 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
35032573 AGTTTCAAAA
* *
35032583 TCTA-TAGTTTTTAGAATCTAAAATTTCATAG
1 TCTATTAGTTTTCAAAATCTAAAATTTCATAG
* *
35032614 TCTATTTGTTTTCAAAATCTAAAGTTTCA
1 TCTATTAGTTTTCAAAATCTAAAATTTCA
35032643 GTATATCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (32 bp):
TCTATTAGTTTTCAAAATCTAAAATTTCATAG
Found at i:35034135 original size:44 final size:44
Alignment explanation
Indices: 35034087--35034176 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
35034077 ACTCAACAAA
35034087 AAGCAACACCAATCCAAGCATATACATACAACCAAATCAGCAAC
1 AAGCAACACCAATCCAAGCATATACATACAACCAAATCAGCAAC
* *
35034131 AAGCAACACCAATCCAAGCATATATATACAACCAAATCAGCCAC
1 AAGCAACACCAATCCAAGCATATACATACAACCAAATCAGCAAC
35034175 AA
1 AA
35034177 ACAAGTTATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.31, G:0.07, T:0.12
Consensus pattern (44 bp):
AAGCAACACCAATCCAAGCATATACATACAACCAAATCAGCAAC
Found at i:35036775 original size:35 final size:35
Alignment explanation
Indices: 35036691--35036775 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
35036681 GATGATATGT
* * * *
35036691 TTAACTTGTGAGTCCTAATCAAAATAATAGCATGC
1 TTAACATGTGAATCATAATCAAAATAATAGCATGA
** *
35036726 TTAACATGCAAATCATAATCAGAATAATAGCATGA
1 TTAACATGTGAATCATAATCAAAATAATAGCATGA
35036761 TTAACATGTGAATCA
1 TTAACATGTGAATCA
35036776 AAATATTGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (35 bp):
TTAACATGTGAATCATAATCAAAATAATAGCATGA
Found at i:35040297 original size:43 final size:43
Alignment explanation
Indices: 35040139--35040297 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
35040129 CAATGCCATA
* ** ** *
35040139 TCCCAGATATGGTCTTACATGTTTTCACAT-ATCGATGCAGATAG
1 TCCCAGACATGGTCTTACACATAATCACATAAT-GATGCAAAT-G
*
35040183 -CCCA-ACTATGGTCTTACACGA-AATCAAATAATGATGCAAATG
1 TCCCAGAC-ATGGTCTTACAC-ATAATCACATAATGATGCAAATG
* * * *
35040225 TCCCAGACATGATCGTACATATAATCACATAATGATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCACATAATGATGCAAATG
*
35040268 TCCCAGACATGGTCTTACACATAAACACAT
1 TCCCAGACATGGTCTTACACATAATCACAT
35040298 CTATTTGATC
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 3 0.03
43 86 0.92
44 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCACATAATGATGCAAATG
Found at i:35044426 original size:25 final size:25
Alignment explanation
Indices: 35044398--35044453 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
35044388 AGAAACTCAT
*
35044398 AAGAGTTTATAA-CAGGAAGTTCACA
1 AAGAGTTT-TAATCAGGAAGCTCACA
* *
35044423 AAGAACTTTTAATTAGGAAGCTCACA
1 AAG-AGTTTTAATCAGGAAGCTCACA
35044449 AAGAG
1 AAGAG
35044454 CCTATCAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (25 bp):
AAGAGTTTTAATCAGGAAGCTCACA
Found at i:35045643 original size:22 final size:21
Alignment explanation
Indices: 35045592--35045656 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
35045582 AATTGATGAT
35045592 ATTTTCATTTTTTATCATTTATC
1 ATTTT-ATTTTTT-TCATTTATC
35045615 ATCTTTATTTTTTTCACTTT-TC
1 AT-TTTATTTTTTTCA-TTTATC
*
35045637 ACTTTTATTCTTTTC-TTTAT
1 A-TTTTATTTTTTTCATTTAT
35045657 TTTATTTTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 17 0.46
23 13 0.35
24 3 0.08
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTATTTTTTTCATTTATC
Found at i:35049772 original size:27 final size:27
Alignment explanation
Indices: 35049735--35049937 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
35049725 TAAATTGTAC
*
35049735 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
35049762 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
35049789 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
35049814 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
35049842 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
35049870 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
35049896 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
35049923 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
35049938 GACTCAATAT
Statistics
Matches: 154, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 47 0.31
27 84 0.55
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:35049830 original size:53 final size:53
Alignment explanation
Indices: 35049735--35049937 Score: 230
Period size: 53 Copynumber: 3.8 Consensus size: 53
35049725 TAAATTGTAC
*
35049735 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-TTGACTATGT
* * * *
35049789 TGCACTAAGTGTGCGAAATGA-AATG-ATGCACTAAGTGTGCGAATTGACCATGT
1 AGCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGTGTGCG-ATTGACTATGT
* * * *
35049842 GGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTGTGCGATTGATTACGT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGATTGACTATGT
* * * * *
35049896 AGCACTAAGTGTGCGAGTTGATTATATAGCATTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
35049938 GACTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 63 0.49
54 46 0.36
55 17 0.13
56 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (53 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTGACTATGT
Found at i:35057744 original size:27 final size:27
Alignment explanation
Indices: 35057707--35057910 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
35057697 TAAATTGTAC
*
35057707 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
35057734 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
35057761 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
35057787 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
35057815 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
35057843 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
35057869 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
35057896 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
35057911 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 106 0.69
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:35061590 original size:17 final size:18
Alignment explanation
Indices: 35061543--35061591 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
35061533 GTGTTTATCT
35061543 TAAGTAATTATTACTGAAA
1 TAAGTAATT-TTACTGAAA
*
35061562 TAAGTGAATTTTACT-TAA
1 TAAGT-AATTTTACTGAAA
*
35061580 TTAGTAATTTTA
1 TAAGTAATTTTA
35061592 GACATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 10 0.37
20 4 0.15
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (18 bp):
TAAGTAATTTTACTGAAA
Found at i:35068250 original size:42 final size:42
Alignment explanation
Indices: 35068204--35068285 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
35068194 TCTTACATGT
* *
35068204 AATC-AATATCGATGCC-ACTGTCCTAGACAGGGTCTTACACAA
1 AATCAAATA-CGATGCCTA-TGTCCCAAACAGGGTCTTACACAA
*
35068246 AATCAAATACGATGCCTATGTCCCAAACATGGTCTTACAC
1 AATCAAATACGATGCCTATGTCCCAAACAGGGTCTTACAC
35068286 GTAAATCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATGCCTATGTCCCAAACAGGGTCTTACACAA
Found at i:35077673 original size:46 final size:46
Alignment explanation
Indices: 35077623--35077795 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
35077613 TGGTTGAGCA
*
35077623 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
35077669 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACGAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
35077716 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
35077762 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35077796 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35077779 original size:93 final size:93
Alignment explanation
Indices: 35077620--35077790 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
35077610 GGATGGTTGA
* *
35077620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
35077685 TGAGTCCGAGTTCGTGAGATGTAACGAG
66 TGAGTCCGAGTTCGTGAGATGTAACGAG
* * *
35077713 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
35077778 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
35077791 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACGAG
Found at i:35082301 original size:40 final size:40
Alignment explanation
Indices: 35082257--35082477 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
35082247 GCTCCTCGTT
* *
35082257 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35082297 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35082337 CAAATGCCTTCGGGACTTAACCCGGAT-TAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35082375 CAAATGCCTTCGGG-CTTA--CCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
35082412 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35082453 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35082478 CATCATTCAA
Statistics
Matches: 161, Mismatches: 10, Indels: 20
0.84 0.05 0.10
Matches are distributed among these distances:
35 5 0.03
36 6 0.04
37 21 0.13
38 25 0.16
39 4 0.02
40 88 0.55
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35082415 original size:75 final size:80
Alignment explanation
Indices: 35082257--35082477 Score: 267
Period size: 75 Copynumber: 2.8 Consensus size: 80
35082247 GCTCCTCGTT
* *
35082257 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
35082322 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
35082337 CAAATGCCTTCGGGACTTAACCCGGAT-TAGT-ACTCGCACAAATGCCTTCGGG-CTT-A-CCGG
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
35082397 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* ** * * * *
35082412 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
35082475 GGA
64 GGA
35082478 CATCATTCAA
Statistics
Matches: 124, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
74 3 0.02
75 38 0.31
76 4 0.03
77 14 0.11
78 32 0.26
79 4 0.03
80 29 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:35090436 original size:40 final size:40
Alignment explanation
Indices: 35090211--35090436 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
35090201 GCTCCTCGTT
* *
35090211 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35090251 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35090291 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35090331 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTATCTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
35090371 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35090412 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35090437 CATCATTCAA
Statistics
Matches: 166, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 152 0.92
41 11 0.07
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35093365 original size:42 final size:42
Alignment explanation
Indices: 35093272--35093419 Score: 117
Period size: 42 Copynumber: 3.5 Consensus size: 42
35093262 CAACGCCAAC
* *
35093272 GTCCCAGAC-GTGGTCTTATATGTAATCAATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACATGAAATCAATATCGATGCCACT
* * *
35093314 ATCCTAGACAGGGTTTTACATGAAATCAAATAT-GATGCCTA-T
1 GTCCCAGACAGGGTCTTACATGAAATC-AATATCGATGCC-ACT
* * * *
35093356 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGACGCCAAT
1 GTCCCAGACAGGGTCTTACATG-AAA--TCAATATCGATGCCACT
35093400 GTCCCAGAC-GTGGTCTTACA
1 GTCCCAGACAG-GGTCTTACA
35093420 CGACAACTCA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
42 44 0.52
43 13 0.15
44 26 0.31
45 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGAAATCAATATCGATGCCACT
Found at i:35101415 original size:43 final size:43
Alignment explanation
Indices: 35101367--35101482 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
35101357 ATCACATGTA
* *
35101367 TCGCATCCATTATGAACTTGGACCACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGC
**
35101410 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGC
* ** * *
35101453 -CACATATATCACGAACTTGGACCACTCAAC
1 TCGCATCCATAATGAACTTGGACCACTCAAC
35101483 AAGTCCGGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 23 0.37
43 39 0.63
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGC
Found at i:35108714 original size:47 final size:47
Alignment explanation
Indices: 35108645--35108741 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
35108635 ACGGGCATAG
*
35108645 ATACTGTTTATACAGATGAGTTATGGTTTTCAAATGAATTATTGTTT
1 ATACTGTTTATACAGATGAGTTACGGTTTTCAAATGAATTATTGTTT
* *
35108692 ATACTGTTTATACATATGAGTTACGGTTTTGAAATGAATTATTGTTT
1 ATACTGTTTATACAGATGAGTTACGGTTTTCAAATGAATTATTGTTT
35108739 ATA
1 ATA
35108742 TGATTGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.46
Consensus pattern (47 bp):
ATACTGTTTATACAGATGAGTTACGGTTTTCAAATGAATTATTGTTT
Found at i:35121851 original size:26 final size:25
Alignment explanation
Indices: 35121818--35121944 Score: 92
Period size: 23 Copynumber: 5.2 Consensus size: 25
35121808 CGACTTACCA
35121818 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGAT-TAT
* *
35121844 CAGCTCGT-TGGAGCTTA-CTATTCT
1 CAGCTCGTAT-GAGCTTACCGATTAT
*
35121868 CAGCTCGTATGAGCTTACTGA-T-T
1 CAGCTCGTATGAGCTTACCGATTAT
* *
35121891 CAACTCGTCA-GAGCTTACTG-TT-T
1 CAGCTCGT-ATGAGCTTACCGATTAT
*
35121914 CAGCTCAGTA-GAGCTTACTG-TTCAT
1 CAGCTC-GTATGAGCTTACCGATT-AT
35121939 CAGCTC
1 CAGCTC
35121945 AACAGGAGCT
Statistics
Matches: 87, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
23 38 0.44
24 21 0.24
25 13 0.15
26 15 0.17
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTAT
Found at i:35121877 original size:50 final size:46
Alignment explanation
Indices: 35121818--35121931 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 46
35121808 CGACTTACCA
* **
35121818 CAGCTCGTATGAGCTTACCGATATATCAGCTCGTTGGAGCTTACTATTCT
1 CAGCTCGTATGAGCTTACCG--AT-TCAACTCGTCAGAGCTTACTATT-T
* *
35121868 CAGCTCGTATGAGCTTACTGATTCAACTCGTCAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACCGATTCAACTCGTCAGAGCTTACTATTT
35121914 CAGCTCAGTA-GAGCTTAC
1 CAGCTC-GTATGAGCTTAC
35121932 TGTTCATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
46 15 0.26
47 22 0.38
48 2 0.03
50 19 0.33
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (46 bp):
CAGCTCGTATGAGCTTACCGATTCAACTCGTCAGAGCTTACTATTT
Found at i:35127790 original size:30 final size:30
Alignment explanation
Indices: 35127731--35127802 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
35127721 ACCGATACAA
** *
35127731 AGTACCTGAT-AATATGGTCACTAGTACAT
1 AGTACCTGATAAATATAATCACTAGCACAT
35127760 AGTACCTGATAAATATAATCACCT-GCACAT
1 AGTACCTGATAAATATAATCA-CTAGCACAT
*
35127790 AGTGCCTGATAAA
1 AGTACCTGATAAA
35127803 CTCAAATGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 10 0.27
30 25 0.68
31 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (30 bp):
AGTACCTGATAAATATAATCACTAGCACAT
Found at i:35131335 original size:48 final size:47
Alignment explanation
Indices: 35131283--35131501 Score: 175
Period size: 48 Copynumber: 4.6 Consensus size: 47
35131273 CGAGGCTGAT
* *
35131283 GCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTTTCAATTTCGAA
1 GCCATGTCCCAGAAATGGTCTTACACTGGCTCTC-TATCAATTTCGAA
* *
35131331 GCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAACATTGTC-AA
1 GCCATGTCCCAGAAATGGTCTTACACTGGCTCTCTATCA-ATT-TCGAA
* * * *
35131378 TGCCATGTCTCAGACATGGTATTACACTGGCTCTC-AT-AATATTGCCGAT
1 -GCCATGTCCCAGAAATGGTCTTACACTGGCTCTCTATCAAT-TT--CGAA
*
35131427 GCCATGTCCCA-AACATGGTCTTACACTGGCTCT-TAT-AATATTGCTGAT
1 GCCATGTCCCAGAA-ATGGTCTTACACTGGCTCTCTATCAAT-TT-C-GAA
**
35131475 GCCATGTTTCA-AACATGGTCTTACACT
1 GCCATGTCCCAGAA-ATGGTCTTACACT
35131502 AGCACACATA
Statistics
Matches: 148, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
46 5 0.03
47 9 0.06
48 133 0.90
49 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (47 bp):
GCCATGTCCCAGAAATGGTCTTACACTGGCTCTCTATCAATTTCGAA
Found at i:35131403 original size:96 final size:95
Alignment explanation
Indices: 35131236--35131504 Score: 305
Period size: 96 Copynumber: 2.8 Consensus size: 95
35131226 AATTACCAAT
* ** * * *
35131236 GCCATGTCCCAGACAT-GTCTTACACTGGCTCACATGTCGA-GGCTGATGCCATGTCCCAGAAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATTGCTGATGCCATGTCTCAGACAT
*
35131299 GGTCTTACACTAGCTCTCGTTTCAAT-TT-CGAA
65 GGTCTTACACTAGCTCTC--AT-AATATTCCGAA
*
35131331 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTG-TCAATGCCATGTCTCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCT-GATGCCATGTCTCAGACAT
* * *
35131395 GGTATTACACTGGCTCTCATAATATTGCCGAT
65 GGTCTTACACTAGCTCTCATAATATT-CCGAA
* * * * *
35131427 GCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATTGCTGATGCCATGTTTCAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTCTCAGACATG
35131492 GTCTTACACTAGC
66 GTCTTACACTAGC
35131505 ACACATATCA
Statistics
Matches: 148, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
93 3 0.02
94 3 0.02
95 18 0.12
96 123 0.83
97 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (95 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCCATGTCTCAGACATG
GTCTTACACTAGCTCTCATAATATTCCGAA
Found at i:35131491 original size:144 final size:141
Alignment explanation
Indices: 35131232--35131501 Score: 323
Period size: 144 Copynumber: 1.9 Consensus size: 141
35131222 GGCAAATTAC
* * *
35131232 CAATGCCATGTCCCAGACATGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGAA
1 CAATGCCATGTCCCAGACATGTATTACACTGGCTCACATATC-AGGCCGATGCCATGTCCCAGAA
* *
35131297 ATGGTCTTACACTAGCTCTCGTTTCAATTTCGAAGCCATGTCCCAGACATGGTCTTACACTGGCT
65 ATGGTCTTACACTAGCTCTC-TATCAATTTCGAAGCCATGTCCCAAACATGGTCTTACACTGGCT
35131362 CTCATAACATTGT
129 CTCATAACATTGT
* * *
35131375 CAATGCCATGTCTCAGACATGGTATTACACTGGCTCTCATAAT-ATTGCCGATGCCATGTCCCA-
1 CAATGCCATGTCCCAGACAT-GTATTACACTGGCTCACAT-ATCA-GGCCGATGCCATGTCCCAG
* * **
35131438 AACATGGTCTTACACTGGCTCT-TAT-AATATTGCTGATGCCATGTTTCAAACATGGTCTTACAC
63 AA-ATGGTCTTACACTAGCTCTCTATCAAT-TT-C-GAAGCCATGTCCCAAACATGGTCTTACAC
35131501 T
124 T
35131502 AGCACACATA
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
141 3 0.03
142 4 0.04
143 23 0.21
144 77 0.71
145 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (141 bp):
CAATGCCATGTCCCAGACATGTATTACACTGGCTCACATATCAGGCCGATGCCATGTCCCAGAAA
TGGTCTTACACTAGCTCTCTATCAATTTCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTCT
CATAACATTGT
Found at i:35135115 original size:46 final size:47
Alignment explanation
Indices: 35134960--35135114 Score: 181
Period size: 47 Copynumber: 3.3 Consensus size: 47
35134950 GTGTCGATTC
* * *
35134960 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCA-AGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGTCGATG
** * * *
35135006 TCATGTCCCAGACATGGTCTTACACTCAC-TATCCTCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCATAGTCGATG
* *
35135054 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCATGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGTCGATG
35135100 CATGTCCCAGACATG
1 CATGTCCCAGACATG
35135115 TTTTGCACTA
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
46 38 0.42
47 45 0.50
48 7 0.08
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGTCGATG
Found at i:35135134 original size:46 final size:45
Alignment explanation
Indices: 35134960--35135136 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
35134950 GTGTCGATTC
* * *
35134960 CATGTCCTAGACATGGTCTTACACTGGC-TCATATCTCA-AGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTC--GTCTCATAGTCGATG
* * *
35135006 TCATGTCCCAGACATGGTCTTACACTCA-CTATCCTCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACT-AGCT-TCGTCTCATAGTCGATG
* *
35135054 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCATGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCATAGTCGATG
* *
35135100 CATGTCCCAGACATGTTTTGCACTAGCTCTCGTCTCA
1 CATGTCCCAGACATGTCTTACACTAGCT-TCGTCTCA
35135137 ATGCCAATGC
Statistics
Matches: 110, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 56 0.51
47 44 0.40
48 7 0.06
49 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.31
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCGTCTCATAGTCGATG
Found at i:35135152 original size:93 final size:94
Alignment explanation
Indices: 35134960--35135169 Score: 241
Period size: 93 Copynumber: 2.2 Consensus size: 94
35134950 GTGTCGATTC
*
35134960 CATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGTCATGTCCCAGACATGGTC
1 CATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGTCATGTCCCAGACATGGTC
* *
35135025 TTACACTCACTATCCTCTCGTAGCCGATG
66 TTACACTCACTATCCTCTCATAGCCAATG
* * * *
35135054 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCATGGTCGATG-CATGTCCCAGACAT-GT
1 CATGTCCTAGACATGGTCTTACACTGGCTCACATCTCA-AGTCGATGTCATGTCCCAGACATGGT
* * * *
35135116 TTTGCACT-AGCTCTCGTCTCA-ATGCCAATG
65 CTTACACTCA-CTATCCTCTCATA-GCCAATG
*
35135146 CTATGTCCTAAACATGGTCTTACA
1 C-ATGTCCTAGACATGGTCTTACA
35135170 TTGACTCTCA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 2 0.02
92 23 0.23
93 45 0.46
94 28 0.29
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (94 bp):
CATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGTCATGTCCCAGACATGGTC
TTACACTCACTATCCTCTCATAGCCAATG
Found at i:35152537 original size:9 final size:9
Alignment explanation
Indices: 35152523--35152554 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
35152513 GCAATTTAAT
35152523 TTAATTTTA
1 TTAATTTTA
35152532 TTAATTTTA
1 TTAATTTTA
35152541 TT-A-TTTA
1 TTAATTTTA
35152548 TTAATTT
1 TTAATTT
35152555 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTA
Found at i:35155326 original size:16 final size:17
Alignment explanation
Indices: 35155297--35155329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35155287 CACTAACATA
35155297 TTTTGATTTCTTTATTT
1 TTTTGATTTCTTTATTT
*
35155314 TTTTTATTT-TTTATTT
1 TTTTGATTTCTTTATTT
35155330 CTAACACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTGATTTCTTTATTT
Found at i:35157602 original size:6 final size:6
Alignment explanation
Indices: 35157586--35157630 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
35157576 TCCTCTTATC
*
35157586 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA -TTTTA TTTTCA TTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
35157631 CAATTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
5 5 0.14
6 25 0.69
7 6 0.17
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:35157620 original size:17 final size:17
Alignment explanation
Indices: 35157586--35157640 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
35157576 TCCTCTTATC
35157586 TTTTTATTTTTTATTTTTA
1 TTTTTA-TTTTTA-TTTTA
35157605 TTTTTATTTTTATTTTA
1 TTTTTATTTTTATTTTA
* **
35157622 TTTTCATTTCAATTTTA
1 TTTTTATTTTTATTTTA
35157639 TT
1 TT
35157641 ATTTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 21 0.64
18 6 0.18
19 6 0.18
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTATTTTA
Found at i:35163568 original size:11 final size:11
Alignment explanation
Indices: 35163552--35163581 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35163542 ACTTAGACAC
35163552 ATTAAATAACT
1 ATTAAATAACT
*
35163563 ATTAAACAACT
1 ATTAAATAACT
35163574 ATTAAATA
1 ATTAAATA
35163582 TTTATTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
ATTAAATAACT
Found at i:35166578 original size:46 final size:46
Alignment explanation
Indices: 35166511--35166682 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
35166501 AACTCGCCCC
* *
35166511 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
35166557 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
35166605 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
35166650 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
35166683 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:35166624 original size:93 final size:93
Alignment explanation
Indices: 35166516--35166686 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35166506 GCCCCTAAGT
* *
35166516 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35166581 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
35166609 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35166674 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35166687 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35167140 original size:30 final size:30
Alignment explanation
Indices: 35167106--35167165 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35167096 ATTTAATACG
35167106 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
35167136 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
35167166 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35171486 original size:39 final size:39
Alignment explanation
Indices: 35171434--35171604 Score: 202
Period size: 39 Copynumber: 4.3 Consensus size: 39
35171424 GGACTAAGAT
*
35171434 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAA-ATCCGGGTTAAGTC
*
35171473 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
35171513 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
35171553 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
35171592 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35171605 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
39 65 0.57
40 50 0.43
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:35171517 original size:79 final size:79
Alignment explanation
Indices: 35171381--35171604 Score: 222
Period size: 79 Copynumber: 2.8 Consensus size: 79
35171371 TTGAATGCTG
* * * * * * *
35171381 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
35171444 TTGTGCGAGATA-CAAGT
63 TTGTGCGAGATATCAA-A
* * * *
35171461 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
35171525 GTGCGAGTTATTAAA
65 GTGCGAGATATCAAA
* * *
35171540 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
35171605 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 90 0.74
80 30 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:35171622 original size:79 final size:80
Alignment explanation
Indices: 35171461--35171637 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
35171451 AGATACAAGT
* * *
35171461 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
35171525 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35171540 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
35171604 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
35171619 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35171638 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35179371 original size:39 final size:38
Alignment explanation
Indices: 35179268--35179445 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 38
35179258 TTGAATGCTG
* *
35179268 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGA-T-A-TAAT
**
35179307 ATCCGGACTAAGAT-CCGAAGG-TTTGTGCGAGATATAAT
1 -TCCGGGTTAAG-TCCCGAAGGCTTTGTGCGAGATATAAT
35179345 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGATA-TAAT
* * * *
35179385 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGATAT-AAT
35179425 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35179446 ATTGAATGAG
Statistics
Matches: 121, Mismatches: 8, Indels: 18
0.82 0.05 0.12
Matches are distributed among these distances:
36 1 0.01
37 17 0.14
38 3 0.02
39 24 0.20
40 75 0.62
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGATATAAT
Found at i:35179402 original size:77 final size:80
Alignment explanation
Indices: 35179268--35179445 Score: 199
Period size: 77 Copynumber: 2.3 Consensus size: 80
35179258 TTGAATGCTG
* * *
35179268 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGG-TTT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGATTC
*
35179331 GTGCGAGATAT-AAT
66 GTGCGAGATATAAAA
**
35179345 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGG-
* *
35179406 ATTCGTGCGAGTTTTAAAA
62 ATTCGTGCGAGATATAAAA
35179425 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
35179446 ATTGAATGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
76 2 0.02
77 41 0.48
78 9 0.10
79 11 0.13
80 23 0.27
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGATTC
GTGCGAGATATAAAA
Found at i:35179469 original size:39 final size:38
Alignment explanation
Indices: 35179346--35179495 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
35179336 AGATATAATT
* ** * *
35179346 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
35179386 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
35179425 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
35179465 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
35179496 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:35182745 original size:43 final size:43
Alignment explanation
Indices: 35182674--35182825 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
35182664 AGCTCGTACA
*
35182674 ATGCCAAC-GTCCCAGACATGGTCATACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCATACATGAAATCAAATA-CG
* *
35182717 ATGCC-ACTGTCCCAGACAGGGTCCTACATGAAATCAAATACG
1 ATGCCAACTGTCCCAGACATGGTCATACATGAAATCAAATACG
* *
35182759 ATGCCGA-TGTCCCAGACATGGTCTTACACAT-AAATCTCAAAT-CG
1 ATGCCAACTGTCCCAGACATGGTC--ATACATGAAA--TCAAATACG
* *
35182803 ATACCAAC-GTCCCAGACGTGGTC
1 ATGCCAACTGTCCCAGACATGGTC
35182826 TTATACAGAA
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
42 24 0.26
43 38 0.41
44 25 0.27
45 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACATGGTCATACATGAAATCAAATACG
Found at i:35182818 original size:44 final size:44
Alignment explanation
Indices: 35182674--35182828 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
35182664 AGCTCGTACA
* ** *
35182674 ATGCCAACGTCCCAGACATGGTCATACATGT-AATC-AAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCG
* *
35182717 ATGCC-ACTGTCCCAGACAGGGTCCT--ACATGAAA--TCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACAT-AAATCTCAAAT-CG
* *
35182759 ATGCCGATGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
* *
35182803 ATACCAACGTCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACATGGTCTTA
35182829 TACAGAATCA
Statistics
Matches: 90, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.04
42 26 0.29
43 26 0.29
44 28 0.31
45 6 0.07
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
Found at i:35184639 original size:19 final size:19
Alignment explanation
Indices: 35184603--35184642 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35184593 TAAAATTAAT
*
35184603 ATTAACTAAATGCAAATGA
1 ATTAACTAAATACAAATGA
35184622 ATTAATCTAAATAC-AATGA
1 ATTAA-CTAAATACAAATGA
35184641 AT
1 AT
35184643 GAGATGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (19 bp):
ATTAACTAAATACAAATGA
Found at i:35201174 original size:3 final size:3
Alignment explanation
Indices: 35201166--35201190 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35201156 CAAAATGACC
35201166 CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA C
35201191 AACTCCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:35206382 original size:55 final size:53
Alignment explanation
Indices: 35206274--35206460 Score: 171
Period size: 55 Copynumber: 3.5 Consensus size: 53
35206264 ATTAGGGTTT
* * * * *
35206274 AAGGATACTATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-ACATTGATAA-G-TTCATAAGGC
* * * *
35206329 AAGGATATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTTCTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAG-TTC-ATAAGG-C
* * * * *
35206385 AAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
*
35206437 AAGGATACCATGCAAGACCATGTC
1 AAGGATACCATGTAAGACCATGTC
35206461 GATTCATGGC
Statistics
Matches: 107, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 4 0.04
53 27 0.25
54 10 0.09
55 62 0.58
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCATAAGGC
Found at i:35206480 original size:108 final size:110
Alignment explanation
Indices: 35206283--35206483 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
35206273 TAAGGATACT
* *
35206283 ATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGCAAGACC
* *
35206348 ATGTTAAGACATGGCATTGATAAGTTTCTATAAGGAAAAGGTCCC
66 ATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAAGGTCCC
* *
35206393 ATGTAAGACCATGCCAAGGCATG-ACATTGGTGA-G-TTCATAAGGCAAGGATACCATGCAAGAC
1 ATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGCAAGAC
* ** *
35206455 CATGTCGATTCATGGCAATGGTAAGTTTC
65 CATGTCAAGACATGGCAATGATAAGTTTC
35206484 AAAAGGATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 8 0.10
110 23 0.29
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGCAAGACC
ATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAAGGTCCC
Found at i:35206742 original size:16 final size:16
Alignment explanation
Indices: 35206721--35206751 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35206711 ATAAATTTGA
35206721 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
35206737 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
35206752 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:35212071 original size:27 final size:26
Alignment explanation
Indices: 35212023--35212074 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35212013 GCGAAGCTGC
* *
35212023 CAGATATTGTGGTGAAGTCACCAGAA
1 CAGATATTGTGGCGAAGCCACCAGAA
*
35212049 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGGCGAAGCCACCAGA
35212075 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCGAAGCCACCAGAA
Found at i:35216512 original size:55 final size:54
Alignment explanation
Indices: 35216371--35216624 Score: 247
Period size: 53 Copynumber: 4.8 Consensus size: 54
35216361 ATTAGGGTTT
*
35216371 AAGGATACCATGTAAGACTATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-AATTGGTAA-GTTTCATAAGGC
* * * * *
35216426 AAGGATATCA-GTAAGACCATGTCAAGACATGGTATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTTC-ATAAGGC
* *
35216480 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTTCATAAGGC
* * * * *
35216533 AAGGATACCATGTAAAACCATGTCGAGACATGGAAATGGTAAGTTT-A-AA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTTCATAAGGC
* * * * *
35216582 AAGGATACCACGTAAGACCATGACATGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAG
35216625 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
49 37 0.22
52 11 0.07
53 46 0.28
54 33 0.20
55 40 0.24
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTTCATAAGGC
Found at i:35216576 original size:108 final size:109
Alignment explanation
Indices: 35216378--35216578 Score: 291
Period size: 108 Copynumber: 1.9 Consensus size: 109
35216368 TTTAAGGATA
* * *
35216378 CCATGTAAGACTATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCAGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCAGTAAAAC
* *
35216443 CATGTCAAGACATGGTATTGATAAGTTTCTATAAGGCAAAGGTC
66 CATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
*
35216487 CCATGTAAGACCATGCCAAGGCATGG-AATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCA-GTAAA
* *
35216549 ACCATGTCGAGACATGGAAATGGTAAGTTT
64 ACCATGTCAAGACATGGAAATGATAAGTTT
35216579 AAAAAGGATA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
106 3 0.04
107 16 0.20
108 38 0.46
109 25 0.30
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCAGTAAAAC
CATGTCAAGACATGGAAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:35216838 original size:16 final size:16
Alignment explanation
Indices: 35216817--35216847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35216807 ATAATTTTGA
35216817 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
35216833 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
35216848 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:35221702 original size:38 final size:38
Alignment explanation
Indices: 35221660--35221749 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 38
35221650 TGTCACCCAG
35221660 AAGGACCAGTAGATAATCATTTACACAGTGTTG-CCTCA
1 AAGGACCAGTAGATAATCATTTACACAGTGTTGCCCT-A
* * **
35221698 AAGGACC--TATAT-ATCGTTTACATGGTGTTGCCCTA
1 AAGGACCAGTAGATAATCATTTACACAGTGTTGCCCTA
*
35221733 AAGGACAAGTAGATAAT
1 AAGGACCAGTAGATAAT
35221750 TGTTCCATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
35 22 0.52
36 7 0.17
37 4 0.10
38 9 0.21
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (38 bp):
AAGGACCAGTAGATAATCATTTACACAGTGTTGCCCTA
Found at i:35225440 original size:48 final size:48
Alignment explanation
Indices: 35225315--35225454 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
35225305 TGTCTCATAT
* * * ** *
35225315 CAATGCCATGTTCCAAACATGGTCTTACACGAAATTACATATAAATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGC
* * * **
35225363 CAATGCCCTATCCCAGATATGGTCTTACATGGGATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGC
*
35225411 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCACATATAA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAA
35225455 CCCTAATGTC
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATAAATGC
Found at i:35227270 original size:15 final size:15
Alignment explanation
Indices: 35227250--35227282 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35227240 AAATGACAAT
35227250 TTTGTCAAAAATCAC
1 TTTGTCAAAAATCAC
35227265 TTTGTCAAAAATCAC
1 TTTGTCAAAAATCAC
35227280 TTT
1 TTT
35227283 ACAAATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (15 bp):
TTTGTCAAAAATCAC
Found at i:35227287 original size:14 final size:15
Alignment explanation
Indices: 35227250--35227287 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35227240 AAATGACAAT
*
35227250 TTTGTCAAAAATCAC
1 TTTGACAAAAATCAC
*
35227265 TTTGTCAAAAATCAC
1 TTTGACAAAAATCAC
35227280 TTT-ACAAA
1 TTTGACAAA
35227288 TGTTGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (15 bp):
TTTGACAAAAATCAC
Found at i:35231730 original size:40 final size:40
Alignment explanation
Indices: 35231678--35231908 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
35231668 ATAACCACAA
* * * *
35231678 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35231718 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35231758 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35231798 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
35231838 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCATCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
35231879 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
35231909 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 141 0.80
41 35 0.20
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:35240272 original size:40 final size:40
Alignment explanation
Indices: 35240220--35240449 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
35240210 ATAACCACAA
* * * *
35240220 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35240260 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35240300 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35240340 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35240380 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
35240420 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
35240450 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 172 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:35244950 original size:40 final size:40
Alignment explanation
Indices: 35244856--35245120 Score: 227
Period size: 40 Copynumber: 6.6 Consensus size: 40
35244846 TATTCGAATG
* *
35244856 ATATCTGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
35244897 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
35244937 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* ** *
35244977 ATATCCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* * *
35245017 ATATTCGGGCTATA-A-CTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTA-AGATC-CGAAGGCATTTGTGCTAGTGACT
* * *
35245057 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
35245097 ACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
35245121 CTTGTGCAAG
Statistics
Matches: 188, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.02
40 152 0.81
41 31 0.16
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:35252488 original size:40 final size:40
Alignment explanation
Indices: 35252394--35252658 Score: 261
Period size: 40 Copynumber: 6.6 Consensus size: 40
35252384 TATTCGAATG
* * *
35252394 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGATT
* * * * * *
35252435 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGATT
*
35252475 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
*
35252515 ATATCCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
* *
35252555 ATATCCGGGCTAA-AACTCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
* * * **
35252595 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGATT
* *
35252635 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
35252659 CTTGTGCAAG
Statistics
Matches: 193, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
39 3 0.02
40 159 0.82
41 30 0.16
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
Found at i:35272465 original size:25 final size:25
Alignment explanation
Indices: 35272437--35272490 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
35272427 TCCTCTGAGT
*
35272437 TGAATAATGGTAAGCTCATACAAGC
1 TGAATAACGGTAAGCTCATACAAGC
*
35272462 TGAATAACGGTAAGCTCATACGAGC
1 TGAATAACGGTAAGCTCATACAAGC
35272487 TGAA
1 TGAA
35272491 ATCAATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
TGAATAACGGTAAGCTCATACAAGC
Found at i:35273964 original size:24 final size:24
Alignment explanation
Indices: 35273936--35273987 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35273926 TTCGTAGGTG
* *
35273936 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
35273960 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
35273984 AAAT
1 AAAT
35273988 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:35277852 original size:48 final size:47
Alignment explanation
Indices: 35277634--35277954 Score: 220
Period size: 49 Copynumber: 6.7 Consensus size: 47
35277624 GATAAGATGA
* * * * * *
35277634 CGATGCCATGTCCTAGACATGGTCTTACACTAG--TTAGCACATCAAAGT
1 CGATG-CATGTCCCAGACA-GGTCTTACACTAGCTTTA-TATATCGAGGC
* *
35277682 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATTGAGGC
1 CGATG-CATGTCCCAGACAGGTCTTACACTAGCTTT-ATATATCGAGGC
* * * * * * *
35277731 CGATACCGTGTCCTAGACAGGTATTACACTATCTCTCATCTATCG-GTGC
1 CGAT-GCATGTCCCAGACAGGTCTTACACTAGCT-TTATATATCGAG-GC
* *
35277780 CGATGCCATGTCTCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACAGGTCTTACACTAGCTT-TATATATCGAGGC
* * * *
35277829 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-T-TCAATGC
1 CGATGCATGTCCCAGACAGGTCTTACACTAGCT-TTATATATCGAGGC
* * * * * *
35277875 TGATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGT
1 CGATGCATGTCCCAGACAGGTCTTACACTAGCT-TTATATATCGAGGC
** * *
35277923 CGATGCATGTTTCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACAGGTCTTACACTAGC
35277955 ATACATATCA
Statistics
Matches: 218, Mismatches: 43, Indels: 24
0.76 0.15 0.08
Matches are distributed among these distances:
46 38 0.17
47 14 0.06
48 79 0.36
49 84 0.39
50 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
CGATGCATGTCCCAGACAGGTCTTACACTAGCTTTATATATCGAGGC
Found at i:35277894 original size:46 final size:48
Alignment explanation
Indices: 35277682--35277954 Score: 221
Period size: 49 Copynumber: 5.7 Consensus size: 48
35277672 ACATCAAAGT
* * * *
35277682 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATTGAGGC
1 CGATG-CATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGATGC
* * * * * * *
35277731 CGATACCGTGTCCTAGACAGGTATTACACTATCTCTCATCTATCGGTGC
1 CGAT-GCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGATGC
* * * *
35277780 CGATGCCATGTCTCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATCGATGC
* *
35277829 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-T-TCAATGC
1 CGATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGATGC
* * * * * * *
35277875 TGATGCATGTCCCAGACATGTCTTACACTGGCTGGT-ATATCTCGAGGT
1 CGATGCATGTCCCAGACAGGTCTTACACTAGCT-CTCATATATCGATGC
** * *
35277923 CGATGCATGTTTCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACAGGTCTTACACTAGC
35277955 ATACATATCA
Statistics
Matches: 180, Mismatches: 37, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
46 38 0.21
47 3 0.02
48 60 0.33
49 79 0.44
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
CGATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGATGC
Found at i:35277913 original size:94 final size:94
Alignment explanation
Indices: 35277634--35277954 Score: 304
Period size: 94 Copynumber: 3.3 Consensus size: 94
35277624 GATAAGATGA
* * ** ** *
35277634 CGATGCCATGTCCTAGACATGGTCTTACACTAGTTAGCACATCAAAG-TCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATTTCAATGCT-GATGCCATGTCCCAG
* * * *
35277698 ACAGGTCTTACACTAACTTTCATATATTGAGGC
63 ACAGGTCTTACACTAGCTGT-ATATCTCGAGGC
* * * * * * ** * *
35277731 CGATACCGTGTCCTAGACAGGTATTACACTATCTCTCATCTATCGGTGCCGATGCCATGTCTCAG
1 CGAT-GCATGTCCCAGACATGTCTTACACTAGCTCTCAT-T-TCAATGCTGATGCCATGTCCCAG
35277796 ACAGGTCTTACACTAGCTTGTATATCTCGAGGC
63 ACAGGTCTTACACTAGC-TGTATATCTCGAGGC
35277829 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATTTCAATGCTGATG-CATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATTTCAATGCTGATGCCATGTCCCAGACA
* * *
35277893 TGTCTTACACTGGCTGGTATATCTCGAGGT
66 GGTCTTACACTAGCT-GTATATCTCGAGGC
** *
35277923 CGATGCATGTTTCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
35277955 ATACATATCA
Statistics
Matches: 183, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
93 1 0.01
94 66 0.36
95 9 0.05
96 14 0.08
97 44 0.24
98 47 0.26
99 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATTTCAATGCTGATGCCATGTCCCAGACA
GGTCTTACACTAGCTGTATATCTCGAGGC
Found at i:35277963 original size:48 final size:46
Alignment explanation
Indices: 35277634--35277963 Score: 182
Period size: 48 Copynumber: 6.9 Consensus size: 46
35277624 GATAAGATGA
* * * ** *
35277634 CGATGCCATGTCCTAGACATGGTCTTACACTAGTTAGCACATC-AAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-GCATATCTCGAGG
* * * * *
35277682 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATTGAGG
1 CGATG-CATGTCCCAGACATGTCTTACACTAGC-TGCATATCTCGAGG
* * * * * * * * *
35277730 CCGATACCGTGTCCTAGACAGGTATTACACTATCTCTCATCTATCG-GTG
1 -CGAT-GCATGTCCCAGACATGTCTTACACTAGCT-GCATATCTCGAG-G
* * *
35277779 CCGATGCCATGTCTCAGACAGGTCTTACACTAGCTTGTATATCTCGAGG
1 -CGATG-CATGTCCCAGACATGTCTTACACTAGC-TGCATATCTCGAGG
* * *
35277828 CCGATGCATGTCCCAGACATGTCTTACACTAGCT-C-TCATTTCAATG
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCTGCAT-ATCTCGAGG
* *
35277874 CTGATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGG
1 C-GATGCATGTCCCAGACATGTCTTACACTAGCT-GCATATCTCGAGG
** * *
35277922 TCGATGCATGTTTCAAACATGTCTTACACTAGCATACATATC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGC-TGCATATC
35277964 ACCCAATGTC
Statistics
Matches: 222, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
45 2 0.01
46 37 0.17
47 16 0.07
48 86 0.39
49 79 0.36
50 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTGCATATCTCGAGG
Found at i:35279705 original size:13 final size:13
Alignment explanation
Indices: 35279689--35279713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35279679 ATTATTTTAT
35279689 TAAATTTAAAATA
1 TAAATTTAAAATA
35279702 TAAATTTAAAAT
1 TAAATTTAAAAT
35279714 TTATGAAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATTTAAAATA
Found at i:35301687 original size:5 final size:5
Alignment explanation
Indices: 35301677--35301704 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
35301667 AATCTGTTTG
35301677 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
35301705 CTAGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:35301928 original size:34 final size:34
Alignment explanation
Indices: 35301890--35301955 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
35301880 TTCTCTATAT
* *
35301890 TATAACTCTATTTTAAACTAATGCCCTTAATAAC
1 TATAACTCCATTTTAAACTAATGCCCTAAATAAC
35301924 TATAACTCCATTTTAAACTAATGCCCTAAATA
1 TATAACTCCATTTTAAACTAATGCCCTAAATA
35301956 TCCATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.36
Consensus pattern (34 bp):
TATAACTCCATTTTAAACTAATGCCCTAAATAAC
Found at i:35302069 original size:21 final size:20
Alignment explanation
Indices: 35302021--35302074 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
35302011 CTACCATTGA
35302021 TTTTAATCTCACCATTACAC
1 TTTTAATCTCACCATTACAC
** *
35302041 TGACTAATCTCATCATTACTAC
1 T-TTTAATCTCACCATTAC-AC
*
35302063 TTTTAATGTCAC
1 TTTTAATCTCAC
35302075 TGCCCATCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.41
Consensus pattern (20 bp):
TTTTAATCTCACCATTACAC
Found at i:35304717 original size:25 final size:25
Alignment explanation
Indices: 35304689--35304753 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
35304679 CATGTGAGCC
*
35304689 ATATAACAGGAAGCTTATCTGGGAT
1 ATATAACATGAAGCTTATCTGGGAT
35304714 ATATAACATGAAGCTTATCTGGGAT
1 ATATAACATGAAGCTTATCTGGGAT
35304739 ATATAACATGAAGCT
1 ATATAACATGAAGCT
35304754 CATAAGAGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (25 bp):
ATATAACATGAAGCTTATCTGGGAT
Found at i:35306736 original size:42 final size:42
Alignment explanation
Indices: 35306648--35306737 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
35306638 GTCGATGCCG
* * *
35306648 ATGCCATGTCCCAAACATGGTCTTATACGGGACCCCATATCG
1 ATGCCATGTCCCAAACATGGTCTTACACGAGACCCCATATCA
* * * *
35306690 ATGCCATGTCCTATACATGGTCTTACACGA-AGTCTCATATCA
1 ATGCCATGTCCCAAACATGGTCTTACACGAGA-CCCCATATCA
35306732 ATGCCA
1 ATGCCA
35306738 CATCCCAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAAACATGGTCTTACACGAGACCCCATATCA
Found at i:35306817 original size:48 final size:46
Alignment explanation
Indices: 35306732--35306900 Score: 140
Period size: 48 Copynumber: 3.5 Consensus size: 46
35306722 TCTCATATCA
* ** ** *
35306732 ATGCCACATCCCAGATGTGGTCTTACATGAAATCACATACCGAGGCCG
1 ATGCCATATCCCAGACATGGTCTTACATGGCA-CACATACC-ACGCCG
* * *
35306780 ATGCCATATCCCAGATATGGTCTTACATTGGCACACATATCAATGCCG
1 ATGCCATATCCCAGACATGGTCTTACA-TGGCACACATA-CCACGCCG
* * * * * *
35306828 ATGTCATGTCTCGGACATGGTCTTACACTGGCTCTCATATCCACGCCG
1 ATGCCATATCCCAGACATGGTCTTACA-TGGCACACATA-CCACGCCG
*
35306876 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATATCCCAGACATGGTCTTA
35306901 TTTGAATTGA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
48 96 0.96
49 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (46 bp):
ATGCCATATCCCAGACATGGTCTTACATGGCACACATACCACGCCG
Found at i:35311865 original size:46 final size:47
Alignment explanation
Indices: 35311781--35311949 Score: 177
Period size: 46 Copynumber: 3.6 Consensus size: 47
35311771 CAAGAGCCAA
* * * *
35311781 TGTAAGACCTTGTTTGGGACATGGCATCGGCATTGAGACTAGGGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAGACTA-AGCTAG
*
35311829 TGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGACATAAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAGAC-TAAGCTAG
* ** * *
35311875 TGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGAAGATAGTTAA
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCT-CGAGACTA-AGCTAG
35311921 TGTAAGACCATGTTTGGGACATGGCATCG
1 TGTAAGACCATGTTTGGGACATGGCATCG
35311950 ACACCTTACC
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
45 3 0.03
46 60 0.58
47 28 0.27
48 13 0.12
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAGACTAAGCTAG
Found at i:35319199 original size:46 final size:46
Alignment explanation
Indices: 35319067--35319282 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 46
35319057 TGTGTGAGCT
* * * * *
35319067 AGTGTAATACATCTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAAGA-CC
* * * *
35319113 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAAGACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAAGACC
* *
35319161 AGTGTAAGGCATATCTGGGACATGCATCGGCCTCGAGACGTAAG-CC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGACC
* * *
35319207 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGATAG-TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA-AGACC
*
35319253 AGTGTAAGACTATTTCTGGGACATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATC
35319283 AACACCTTAC
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.51
47 41 0.29
48 23 0.16
49 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGACC
Found at i:35322814 original size:47 final size:47
Alignment explanation
Indices: 35322760--35322880 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
35322750 TATTTGAATA
* * *
35322760 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
35322807 AATGTGAAAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35322854 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35322881 TCCCGAAGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:35331212 original size:48 final size:48
Alignment explanation
Indices: 35331082--35331367 Score: 287
Period size: 48 Copynumber: 6.0 Consensus size: 48
35331072 GAGATTTGGG
* * * * *
35331082 TGATATGTGTGCTAGTGTAAGACCATGTTTGGAACATGACATCGG-AA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
*
35331129 TG-TAAT-TAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGAT-ATGT-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
35331177 TGATATGTGCGCTAGTGTAAGACCATATCTAGGACATGGCATCGGCCA-
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT
* *
35331225 T-ATTATGAGAGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGACAT
1 TGA-TATGTGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
35331273 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * * *
35331321 CGACATGTAAGCCACTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
35331368 ATTCACCCTC
Statistics
Matches: 199, Mismatches: 29, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.01
47 40 0.20
48 151 0.76
49 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:35331274 original size:96 final size:96
Alignment explanation
Indices: 35331082--35331364 Score: 322
Period size: 96 Copynumber: 3.0 Consensus size: 96
35331072 GAGATTTGGG
* * * * * * *
35331082 TGATATGTGTGCTAGTGTAAGACCATGT-TTGGAACATGACATCGG-AATGTAATTAGAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCATATAATGAGAGACAGT
*
35331145 GTAAGACCATGTCTGGGACATGGCATCGGCAT
65 GTAAGACCATGTCTGGGACATGGCATCGACAT
* * *
35331177 TGATATGTGCGCTAGTGTAAGACCATATCTAGGACATGGCATCGGCCATATTATGAGAGACAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCATATAATGAGAGACAGTG
35331242 TAAGACCATGTCTGGGACATGGCATCGACAT
66 TAAGACCATGTCTGGGACATGGCATCGACAT
* * * * ** * *
35331273 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGACATGTA-AGCCAC
1 TGATATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCATATA-ATG-AGAGACAG
* *
35331336 TGTAAGACCATGTTTGGAACATGGCATCG
64 TGTAAGACCATGTCTGGGACATGGCATCG
35331365 GCAATTCACC
Statistics
Matches: 161, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 38 0.24
96 122 0.76
97 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCATATAATGAGAGACAGTG
TAAGACCATGTCTGGGACATGGCATCGACAT
Found at i:35332393 original size:11 final size:11
Alignment explanation
Indices: 35332377--35332407 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
35332367 GGCTGAGATT
35332377 TGGCCGTGTCA
1 TGGCCGTGTCA
35332388 TGGCCGTGTCA
1 TGGCCGTGTCA
35332399 TGGCCGTGT
1 TGGCCGTGT
35332408 GGGAGACACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.06, C:0.26, G:0.39, T:0.29
Consensus pattern (11 bp):
TGGCCGTGTCA
Found at i:35332890 original size:15 final size:15
Alignment explanation
Indices: 35332870--35332899 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35332860 CATAATCGAA
35332870 CACACATATTAATAG
1 CACACATATTAATAG
35332885 CACACATATTAATAG
1 CACACATATTAATAG
35332900 GTTTATCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
CACACATATTAATAG
Found at i:35334819 original size:39 final size:40
Alignment explanation
Indices: 35334718--35334902 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
35334708 TTGAATGATG
* * * *
35334718 TCCGGGCTAAGTCCCGAA-GCCTTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
35334757 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35334798 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35334837 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35334876 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35334903 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 74 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Done.