Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 196 of 203
Found at i:62554393 original size:30 final size:31
Alignment explanation
Indices: 62554327--62554395 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
62554317 ATGTTAGTGG
*
62554327 GTGACTAATTTGTTACTTTTCGATAACGTTA
1 GTGACTGATTTGTTACTTTTCGATAACGTTA
* *
62554358 GTGACTGATTTGTTATTTTTTGA-AA-GTTAA
1 GTGACTGATTTGTTACTTTTCGATAACGTT-A
62554388 GTGACTGA
1 GTGACTGA
62554396 GTTGAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (31 bp):
GTGACTGATTTGTTACTTTTCGATAACGTTA
Found at i:62563237 original size:24 final size:24
Alignment explanation
Indices: 62563184--62563238 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
62563174 ATGGAGATGA
* * *
62563184 AAAACTAA-AACCCTGAAAACTTG
1 AAAACAAAGAACCCTCAAAACGTG
62563207 AAAACAAAGAACCCTCAAAACGT-
1 AAAACAAAGAACCCTCAAAACGTG
62563230 AAATACAAA
1 AAA-ACAAA
62563239 ATTCTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.58, C:0.22, G:0.07, T:0.13
Consensus pattern (24 bp):
AAAACAAAGAACCCTCAAAACGTG
Found at i:62563793 original size:6 final size:6
Alignment explanation
Indices: 62563782--62563821 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
62563772 GTAAAACATA
62563782 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
62563822 AAAGTCACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:62576536 original size:17 final size:17
Alignment explanation
Indices: 62576514--62576548 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62576504 GGACGAAAAT
62576514 AGGCCATTTTCCAGGCC
1 AGGCCATTTTCCAGGCC
62576531 AGGCCATTTTCCAGGCC
1 AGGCCATTTTCCAGGCC
62576548 A
1 A
62576549 CATTTCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (17 bp):
AGGCCATTTTCCAGGCC
Found at i:62577571 original size:27 final size:27
Alignment explanation
Indices: 62577540--62577624 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
62577530 CGGAGAGTCA
62577540 TTAATTTGGAAGCTCATAAAAGAGCCT
1 TTAATTTGGAAGCTCATAAAAGAGCCT
*** * *
62577567 TTAA-TTGAGAAGCTC--CGGAGATCCA
1 TTAATTTG-GAAGCTCATAAAAGAGCCT
**
62577592 TTAATCAGGAAGCTCATAAAAGAGCCT
1 TTAATTTGGAAGCTCATAAAAGAGCCT
62577619 TTAATT
1 TTAATT
62577625 GAGAACCTCT
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
25 16 0.39
26 4 0.10
27 21 0.51
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (27 bp):
TTAATTTGGAAGCTCATAAAAGAGCCT
Found at i:62577594 original size:52 final size:52
Alignment explanation
Indices: 62577530--62577662 Score: 178
Period size: 52 Copynumber: 2.6 Consensus size: 52
62577520 CAAAAAGATA
**
62577530 CGGAGAGTCATTAATTTGGAAGCTCATAAAAGAGCCTTTAATTGAGAAGCTC
1 CGGAGAGTCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAAGCTC
*
62577582 CGGAGA-TCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTC
1 CGGAGAGT-CATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAAGCTC
** * * *
62577634 TAGAGAGCCATTTATCAGGACGCTCATAA
1 CGGAGAGTCATTAATCAGGAAGCTCATAA
62577663 GAGCTGCGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
51 1 0.01
52 70 0.99
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (52 bp):
CGGAGAGTCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAAGCTC
Found at i:62577807 original size:24 final size:24
Alignment explanation
Indices: 62577705--62577808 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 24
62577695 TACAACCAAT
*
62577705 CAGGATGCTCA-GAAGAGCTATTAA
1 CAGGATGCTCATG-AGAGCTAATAA
** * * * *
62577729 TGGGAAGCTCGTGAGAGCTATTTAT
1 CAGGATGCTCATGAGAGCTA-ATAA
* * * *
62577754 CAGGAAGCTCAAGAGAGCCAATAT
1 CAGGATGCTCATGAGAGCTAATAA
62577778 CAGGATGCTCATGAGAGCTAATAA
1 CAGGATGCTCATGAGAGCTAATAA
*
62577802 CGGGATG
1 CAGGATG
62577809 TTCTTTTGAG
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
24 43 0.69
25 19 0.31
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (24 bp):
CAGGATGCTCATGAGAGCTAATAA
Found at i:62584593 original size:24 final size:24
Alignment explanation
Indices: 62584562--62584646 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
62584552 CCATGTAAGG
*
62584562 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCA
**
62584586 GGAAGCTCATGCGAGCCA-ATATCA
1 GGAAGCTCATAAGAGCCATA-ATCA
*** *
62584610 GGAAGCTCCGGAGAACCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
62584635 GGAAGCTCATAA
1 GGAAGCTCATAA
62584647 AAGAGCCTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 33 0.69
25 13 0.27
26 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:62585948 original size:15 final size:16
Alignment explanation
Indices: 62585898--62585958 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 16
62585888 AACGAGCAAG
62585898 ATAAA-AAATAATATAA
1 ATAAACAAATAA-ATAA
*
62585914 ATGAAA-ACATAAATAA
1 AT-AAACAAATAAATAA
62585930 ATAAACAAATAAA-AA
1 ATAAACAAATAAATAA
62585945 ATAAACAAA-AAATA
1 ATAAACAAATAAATA
62585959 TAAAGAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.08
15 15 0.38
16 14 0.35
17 8 0.20
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAACAAATAAATAA
Found at i:62585967 original size:20 final size:19
Alignment explanation
Indices: 62585924--62585969 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
62585914 ATGAAAACAT
*
62585924 AAATAAATAAACAAATAAA
1 AAATAAACAAACAAATAAA
62585943 AAATAAACAAA-AAATATAA
1 AAATAAACAAACAAATA-AA
62585962 AGAATAAA
1 A-AATAAA
62585970 AGGTACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 13 0.54
20 6 0.25
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (19 bp):
AAATAAACAAACAAATAAA
Found at i:62587586 original size:18 final size:18
Alignment explanation
Indices: 62587563--62587597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62587553 TTTTGGGCCG
* *
62587563 CGTTTGTAATTGGGCCAC
1 CGTTTGAAATCGGGCCAC
62587581 CGTTTGAAATCGGGCCA
1 CGTTTGAAATCGGGCCA
62587598 TCTATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTTTGAAATCGGGCCAC
Found at i:62588298 original size:44 final size:44
Alignment explanation
Indices: 62588120--62588568 Score: 312
Period size: 44 Copynumber: 10.5 Consensus size: 44
62588110 TGCCTCACTG
* * * * * *
62588120 CCAATATAAGAAGACATGATTTGCTATTTTCGATCAACTT--TA
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
* * * * *
62588162 CGCCAATACATGAAGACAAGATCTGCTT-TCTTTGATCTATTTCGCCA
1 --CCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC-CTA
* **
62588209 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCCCCTTCCTA
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
* * *
62588252 CCAATATAGGAAGACAGGATTTGTTATCTTCGATCTACTTCATA
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
* * * ** *
62588296 CCAATACATGAAGACAAGATCAGCTT-TCTTCGATCTACTGGCGA
1 CCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTCCTA
* * *
62588340 CCAATATGGGAAGACAAGATCTG--GTCTTCGATCCACTTCCTA
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
* *
62588382 CCAATGTAGGAAGACAAGATCTG----C-T--A--T-CTT-C-G
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
* * *
62588414 CCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC-CTA
* * * *
62588459 CCAGTATGGGAAGACAAGATCTG-CATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC-CTA
* *
62588503 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC-CTA
* *
62588547 CCAATACATGAAGACAAGATCT
1 CCAATATAGGAAGACAAGATCT
62588569 ACTATTTTTT
Statistics
Matches: 316, Mismatches: 66, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
32 20 0.06
33 1 0.00
34 3 0.01
36 1 0.00
37 2 0.01
39 2 0.01
40 1 0.00
41 1 0.00
42 38 0.12
43 23 0.07
44 164 0.52
45 59 0.19
47 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTCCTA
Found at i:62589237 original size:26 final size:25
Alignment explanation
Indices: 62589190--62589243 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
62589180 AGTGTCTTGA
62589190 AAAGAAAAAGTATTCAAGAAC-AAC
1 AAAGAAAAAGTATTCAAGAACAAAC
62589214 AAAGAATAAAGTATTACAAGAACAAAC
1 AAAGAA-AAAGTATT-CAAGAACAAAC
62589241 AAA
1 AAA
62589244 TTCAATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 6 0.22
25 8 0.30
26 7 0.26
27 6 0.22
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAGAAAAAGTATTCAAGAACAAAC
Found at i:62603595 original size:16 final size:17
Alignment explanation
Indices: 62603566--62603629 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
62603556 CGAGCAAGAT
62603566 AAAAAATAATATAAATG
1 AAAAAATAATATAAATG
*
62603583 AAAACATAA-ATAAAT-
1 AAAAAATAATATAAATG
*
62603598 AAACAAATAA-AAAAAT-
1 AAA-AAATAATATAAATG
*
62603614 AAACAAAAAATATAAA
1 AAA-AAATAATATAAA
62603630 GAATAAAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 3 0.08
16 25 0.62
17 12 0.30
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAAATAATATAAATG
Found at i:62603613 original size:20 final size:20
Alignment explanation
Indices: 62603590--62603636 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62603580 ATGAAAACAT
*
62603590 AAATAAATAAACAAATA-AAA
1 AAATAAACAAA-AAATATAAA
62603610 AAATAAACAAAAAATATAAA
1 AAATAAACAAAAAATATAAA
*
62603630 GAATAAA
1 AAATAAA
62603637 AGGTACATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (20 bp):
AAATAAACAAAAAATATAAA
Found at i:62603621 original size:12 final size:12
Alignment explanation
Indices: 62603576--62603629 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
62603566 AAAAAATAAT
* *
62603576 ATAAATGAAAAC
1 ATAAATAAAAAA
*
62603588 ATAAATAAATAA
1 ATAAATAAAAAA
*
62603600 ACAAATAAAAAA
1 ATAAATAAAAAA
*
62603612 ATAAACAAAAAA
1 ATAAATAAAAAA
62603624 TATAAA
1 -ATAAA
62603630 GAATAAAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 29 0.85
13 5 0.15
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAATAAAAAA
Found at i:62603920 original size:20 final size:21
Alignment explanation
Indices: 62603882--62603930 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
62603872 ATTTGTTGGG
* *
62603882 AAAATATATATATAGATTA-AA
1 AAAATA-ATAAATACATTATAA
*
62603903 AAAATAATAAATACATTATCA
1 AAAATAATAAATACATTATAA
62603924 AAAATAA
1 AAAATAA
62603931 ATATGTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAATAAATACATTATAA
Found at i:62611976 original size:25 final size:25
Alignment explanation
Indices: 62611933--62612000 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
62611923 TCATATGATT
62611933 TTACCGATTT-CAGCTCGTGAGAGC
1 TTACCGATTTACAGCTCGTGAGAGC
*
62611957 TTACTGATTTACAGCTCGTGAGAGC
1 TTACCGATTTACAGCTCGTGAGAGC
* * *
62611982 ATACCGATTCATAGCTCGT
1 TTACCGATTTACAGCTCGT
62612001 ATGAGCATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
TTACCGATTTACAGCTCGTGAGAGC
Found at i:62623081 original size:19 final size:20
Alignment explanation
Indices: 62623040--62623081 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
62623030 ATTTCTATGC
* *
62623040 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
62623060 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
62623079 CAT
1 CAT
62623082 CACATTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:62634979 original size:44 final size:45
Alignment explanation
Indices: 62634929--62635027 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
62634919 TCGCATCTAG
*
62634929 AAGTTGCAGTGGAGG-AGACT-AAG-TAAGCAAGTCTTATC-CTCCTA
1 AAGTTGCAGT-GAGGCAGACTGAAGAT-AGCAAATCTTATCTC-CCTA
* *
62634973 AAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTA
62635018 AAGTTGCAGT
1 AAGTTGCAGT
62635028 TGAACAGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 4 0.08
44 15 0.31
45 27 0.56
46 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (45 bp):
AAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTA
Found at i:62635024 original size:45 final size:44
Alignment explanation
Indices: 62634928--62635418 Score: 159
Period size: 44 Copynumber: 11.3 Consensus size: 44
62634918 ATCGCATCTA
*
62634928 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAGTCTTATCCTCCT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAATCTTATCCTCCT
* *
62634972 AAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCCT
1 GAAGTTGCAGTGGAGG-AGACT-AAGTA-AGCAAATCTTATCCT-CCT
* ** * *
62635017 GAAGTTGCAGTTGAACAGA-TTA--AAGCCGATAATCCTAT-CTCTCT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAG-C-A-AATCTTATCCTC-CT
* *
62635061 GAAGTTGCAGTGGAGTG-GATTAA--AAACATAGATCTTAT-CTCTCT
1 GAAGTTGCAGTGGAG-GAGACTAAGTAAGCA-A-ATCTTATCCTC-CT
* * * * * *
62635105 GAAGTTGCAG-AGAGCAGA-T-TG-CATCTAATCTTAT-CTCCTT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAATCTTATCCTCC-T
* * *
62635145 GAAGTTGCAGTGGAGTAGA-TTA--AAGCCGATAATCCTAT-CTCCTT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAG-C-A-AATCTTATCCTCC-T
* * * *
62635189 GAAGTTGTAGTGGAGTG-GATTAA--AATCAGATCTTAT-CTCTCT
1 GAAGTTGCAGTGGAG-GAGACTAAGTAAGCAAATCTTATCCTC-CT
* * * * * * *
62635231 GAAGTTGCAG-AGAGTAGA-T-CG-CATCTAGTCTTAT-CTCCGT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAATCTTATCCTCC-T
* *
62635271 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCT
1 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAATCTTATCCTCCT
* *
62635315 GAAGTTGCAGT-GAGGCAGACTAAAG-ATGGCAAATCTTATCTTCCT
1 GAAGTTGCAGTGGAGG-AGACT-AAGTA-AGCAAATCTTATCCTCCT
* * * * *
62635360 GAAGTTACAGTGGAGCAGATTAAAGT-CG-ATAATCCTAT-CTCCTT
1 GAAGTTGCAGTGGAGGAGACT-AAGTAAGCA-AATCTTATCCTCC-T
62635404 GAAGTTGCAGTGGAG
1 GAAGTTGCAGTGGAG
62635419 CGGATTAAAA
Statistics
Matches: 350, Mismatches: 59, Indels: 76
0.72 0.12 0.16
Matches are distributed among these distances:
39 2 0.01
40 45 0.13
41 21 0.06
42 26 0.07
43 25 0.07
44 149 0.43
45 77 0.22
46 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAATCTTATCCTCCT
Found at i:62635063 original size:44 final size:43
Alignment explanation
Indices: 62635003--62635582 Score: 322
Period size: 44 Copynumber: 13.5 Consensus size: 43
62634993 GAAGATGGCA
* *
62635003 AATCTTATCTCCCTGAAGTTGCAGTTGAACAGATTAAAGCCGAT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* ** **
62635047 AATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAAAC-AT
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* ***
62635090 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT---GCATCT
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
*
62635131 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * ** **
62635175 AATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAAAATC-A-
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * * ***
62635217 GATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CGCATCT
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* *
62635257 AGTCTTATCTCCGTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGA-TTA--AAGCCGAT
* * **
62635301 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCA-
1 AATCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGATTAAAG-CCG-AT
* *
62635346 AATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * ** *
62635390 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATC-AC
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * * ***
62635433 AGATCTTATTTCTCTGAAGTTACAG-AGAGCAGA-T--CGCATCT
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * *
62635474 AATCTCATCTCCCTGAAGTTGTAGGGGAGTAGATTAAAGCCGAT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * *
62635518 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
*
62635561 GGATCTTATCTCTCTGAAGTTG
1 -AATCTTATCTC-CTGAAGTTG
62635583 TAGAGAGCAG
Statistics
Matches: 413, Mismatches: 84, Indels: 78
0.72 0.15 0.14
Matches are distributed among these distances:
39 2 0.00
40 59 0.14
41 33 0.08
42 21 0.05
43 30 0.07
44 228 0.55
45 37 0.09
46 2 0.00
47 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
Found at i:62635154 original size:84 final size:84
Alignment explanation
Indices: 62635003--62635552 Score: 347
Period size: 84 Copynumber: 6.4 Consensus size: 84
62634993 GAAGATGGCA
* * * * * *
62635003 AATCTTATCTCCCTGAAGTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCT-CTCTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAA-TC--TAATCTTATCTCCT-TGAAGTT
* *
62635067 GCAGTGGAGTGGATTAAAAACAT
62 GCAGTGGAGTAGATTAAAACCAT
* *
62635090 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTGCATCTAATCTTATCTCCTTGAAGTTGCA
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCA
*
62635154 GTGGAGTAGATTAAAGCCGAT
65 GTGGAGTAGATTAAAACC-AT
* * ** *
62635175 AATCCTATCTC-CTTGAAGTTGTAGTGGAGTGGATTAAAATC-AGATCTTATCT-CTCTGAAGTT
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-GAATCTA-ATCTTATCTCCT-TGAAGTT
* *** *
62635237 GCAG-AGAGTAGA-TCGCATC-T
62 GCAGTGGAGTAGATTAAAACCAT
* * *
62635257 AGTCTTATCTC-CGTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAGTCTTATCCTCC-TGAAG
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA-T-TG-AATCTAA-TCTTAT-CTCCTTGAAG
* * *
62635319 TTGCAGT-GAGGCAGACTAAAGATGGCA-
60 TTGCAGTGGA-GTAGATTAAA-A--CCAT
* * *
62635346 AATCTTATCT-TCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCTTGAAGTT
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAA-TC--TAATCTTATCTCCTTGAAGTT
** * *
62635410 GCAGTGGAGCGGATTAAAATCAC
62 GCAGTGGAGTAGATTAAAACCAT
* * * * * * * *
62635433 AGATCTTATTTCTCTGAAGTTACAG-AGAGCAGATCGCATCTAATCTCATCTCCCTGAAGTTGTA
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCA
* *
62635497 GGGGAGTAGATTAAAGCCGAT
65 GTGGAGTAGATTAAAACC-AT
* *
62635518 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
62635553 AAAACCTTGG
Statistics
Matches: 362, Mismatches: 67, Indels: 70
0.73 0.13 0.14
Matches are distributed among these distances:
82 28 0.08
83 3 0.01
84 132 0.36
85 37 0.10
86 32 0.09
87 22 0.06
88 48 0.13
89 55 0.15
90 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (84 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCAG
TGGAGTAGATTAAAACCAT
Found at i:62635283 original size:126 final size:127
Alignment explanation
Indices: 62635003--62635289 Score: 452
Period size: 128 Copynumber: 2.3 Consensus size: 127
62634993 GAAGATGGCA
* *
62635003 AATCTTATCTCCCTGAAGTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
*
62635068 CAGTGGAGTGGATTAAAAACATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCT
66 CAGTGGAGTGGATTAAAAACA-AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
62635131 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTC-CTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTC-TGAAGTT
* * *
62635195 GTAGTGGAGTGGATTAAAATC-AGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCT
65 GCAGTGGAGTGGATTAAAAACAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
62635257 AGTCTTATCTCCGTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
62635290 CTAAGTAAGC
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
126 69 0.47
127 1 0.01
128 77 0.52
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (127 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
CAGTGGAGTGGATTAAAAACAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:62635410 original size:89 final size:88
Alignment explanation
Indices: 62634928--62635466 Score: 225
Period size: 89 Copynumber: 6.2 Consensus size: 88
62634918 ATCGCATCTA
* * * * * *
62634928 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGT-GAGGCAGAC
1 GAAGTTACAGTGGAGCAGATTAAGTAAGCAAATCCTATCCTCCTGAAGTTGCAGTGGA-GCAGAC
* ** *
62634992 TGAAGATGGCAAATCTTATCTCCCT
65 T-AAAATCACAAATCTTATCTTCCT
* * * **
62635017 GAAGTTGCAGTTGAACAGATT-A--AAGCCGATAATCCTAT-CTCTCTGAAGTTGCAGTGGAGTG
1 GAAGTTACAGTGGAGCAGATTAAGTAAG-C-A-AATCCTATCCTC-CTGAAGTTGCAGTGGAGCA
* * * *
62635078 GATTAAAAACATAGATCTTATC-TCTCT
62 GACTAAAATCACAAATCTTATCTTC-CT
* * * * * * *
62635105 GAAGTTGCAG-AGAGCAGATT--G-CATCTAATCTTAT-CTCCTTGAAGTTGCAGTGGAGTAGA-
1 GAAGTTACAGTGGAGCAGATTAAGTAAGCAAATCCTATCCTCC-TGAAGTTGCAGTGGAGCAGAC
* * *
62635164 TTAAAGC-CGATAATCCTATC-TCCTT
65 TAAAATCAC-A-AATCTTATCTTCC-T
** ** * * * * *
62635189 GAAGTTGTAGTGGAGTGGATTAA--AATCAGATCTTAT-CTCTCTGAAGTTGCAG-AGAGTAGA-
1 GAAGTTACAGTGGAGCAGATTAAGTAAGCAAATCCTATCCTC-CTGAAGTTGCAGTGGAGCAGAC
*** * *
62635249 TCGCAT--CTAGTCTTATC-TCCGT
65 TAAAATCACAAATCTTATCTTCC-T
* * * *
62635271 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGAC
1 GAAGTTACAGTGGAGCAGATTAAGTAAGCAAATCCTATCCTCCTGAAGTTGCAGTGGA-GCAGAC
**
62635335 TAAAGATGGCAAATCTTATCTTCCT
65 TAAA-ATCACAAATCTTATCTTCCT
* *
62635360 GAAGTTACAGTGGAGCAGATTAAAGT-CG-ATAATCCTAT-CTCCTTGAAGTTGCAGTGGAGCGG
1 GAAGTTACAGTGGAGCAGATT-AAGTAAGCA-AATCCTATCCTCC-TGAAGTTGCAGTGGAGCAG
* *
62635422 ATTAAAATCACAGATCTTAT-TTCTCT
63 ACTAAAATCACAAATCTTATCTTC-CT
*
62635448 GAAGTTACAG-AGAGCAGAT
1 GAAGTTACAGTGGAGCAGAT
62635467 CGCATCTAAT
Statistics
Matches: 351, Mismatches: 69, Indels: 62
0.73 0.14 0.13
Matches are distributed among these distances:
82 30 0.09
83 8 0.02
84 73 0.21
85 23 0.07
86 29 0.08
87 25 0.07
88 57 0.16
89 95 0.27
90 11 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (88 bp):
GAAGTTACAGTGGAGCAGATTAAGTAAGCAAATCCTATCCTCCTGAAGTTGCAGTGGAGCAGACT
AAAATCACAAATCTTATCTTCCT
Found at i:62635412 original size:133 final size:128
Alignment explanation
Indices: 62635262--62635621 Score: 332
Period size: 128 Copynumber: 2.8 Consensus size: 128
62635252 CATCTAGTCT
* *
62635262 TATCTCCGTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATC-CTCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCACAGATCTTATCTCT-CTGAAGTTACA
* * * * *
62635324 GTGAGGCAGACTAAAG-ATGGCAAATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTAAAGTCG
63 GAGA-GCAGA-T--AGCAT--CAAATCTCATCTCCCTGAAGTTACAGGGGAGCAGATTAAAGCCG
62635388 ATAATCC
122 ATAATCC
* * * * *
62635395 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTACAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTATCTCTCTGAAGTTACAGAG
* * ** * *
62635460 AGCAGATCGCATCTAATCTCATCTCCCTGAAGTTGTAGGGGAGTAGATTAAAGCCGATAATCT
66 AGCAGATAGCATCAAATCTCATCTCCCTGAAGTTACAGGGGAGCAGATTAAAGCCGATAATCC
* * * *** **
62635523 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTATCTCTCTGAAGTTACAGAG
* * * * *
62635588 AGCAGATCGCATCTAGTCTTATCTCCATGAAGTT
66 AGCAGATAGCATCAAATCTCATCTCCCTGAAGTT
62635622 GCAGTGGATT
Statistics
Matches: 195, Mismatches: 28, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
128 130 0.67
129 1 0.01
130 2 0.01
131 5 0.03
132 7 0.04
133 48 0.25
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCACAGATCTTATCTCTCTGAAGTTACAGAG
AGCAGATAGCATCAAATCTCATCTCCCTGAAGTTACAGGGGAGCAGATTAAAGCCGATAATCC
Found at i:62635529 original size:128 final size:128
Alignment explanation
Indices: 62635346--62635625 Score: 398
Period size: 128 Copynumber: 2.2 Consensus size: 128
62635336 AAAGATGGCA
* * * * *
62635346 AATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
* *
62635411 CAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTACAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* * * *
62635474 AATCTCATCTCCCTGAAGTTGTAGGGGAGTAGATTAAAGCCGATAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
*** **
62635539 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* *
62635602 AGTCTTATCTCCATGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
62635626 TGGATTAGAC
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
128 132 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (128 bp):
AATCTTATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
Found at i:62635554 original size:343 final size:344
Alignment explanation
Indices: 62634928--62635629 Score: 1129
Period size: 343 Copynumber: 2.0 Consensus size: 344
62634918 ATCGCATCTA
*
62634928 GAAGTTGCAGTGGAGGAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACT
1 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACT
* * *
62634993 GAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCTC
66 AAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
* * *
62635058 TCTGAAGTTGCAGTGGAGTGGATTAAAAACATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
131 TCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
* * * * *
62635123 TTGCATCTAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCT
196 TCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCCC
* * *
62635188 TGAAGTTGTAGTGGAGTGGATTAAAA-TCAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCG
261 TGAAGTTGCAGTGGAGCGGATTAAAACTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
*
62635252 CATCTAGTCTTATCTCCGT
326 CATCTAGTCTTATCTCCAT
*
62635271 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
1 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACT
* * *
62635336 AAAGATGGCAAATCTTATCTTCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTC
66 AAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
* *
62635401 -CTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTACAGAGAGCAG
131 TC-TGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAG
* *
62635465 ATCGCATCTAATCTCATCTCCCTGAAGTTGTAGGGGAGTAGATTAAAGCCGATAATCTTATCTCC
195 ATCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCC
** *
62635530 CTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGAT
260 CTGAAGTTGCAGTGGAGCGGATTAAAA-CTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
62635595 CGCATCTAGTCTTATCTCCAT
324 CGCATCTAGTCTTATCTCCAT
62635616 GAAGTTGCAGTGGA
1 GAAGTTGCAGTGGA
62635630 TTAGACCCCA
Statistics
Matches: 329, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
342 1 0.00
343 262 0.80
345 66 0.20
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (344 bp):
GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACT
AAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
TCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
TCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCCC
TGAAGTTGCAGTGGAGCGGATTAAAACTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
CATCTAGTCTTATCTCCAT
Found at i:62637221 original size:26 final size:24
Alignment explanation
Indices: 62637154--62637223 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 24
62637144 TTATTTTCCT
62637154 ATATATATGTATATTTTCTATAATGTA
1 ATAT-TAT-TATATTTT-TATAATGTA
62637181 ATTATTATTAT-TTTTTAT-ATGTA
1 A-TATTATTATATTTTTATAATGTA
62637204 CATATGTATATATATTTTTA
1 -ATAT-TAT-TATATTTTTA
62637224 ACAAATGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
23 8 0.21
24 7 0.18
25 7 0.18
26 9 0.24
27 4 0.11
28 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATTATATTTTTATAATGTA
Found at i:62638991 original size:20 final size:21
Alignment explanation
Indices: 62638966--62639006 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62638956 ATTTTTCATG
62638966 AAAA-TTTAACAAAACCTTAA
1 AAAATTTTAACAAAACCTTAA
*
62638986 AAAATTTTAACAAAACTTTAA
1 AAAATTTTAACAAAACCTTAA
62639007 GGAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTTTAACAAAACCTTAA
Found at i:62639000 original size:11 final size:11
Alignment explanation
Indices: 62638966--62639006 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
62638956 ATTTTTCATG
62638966 AAAA-TTTAAC
1 AAAACTTTAAC
*
62638976 AAAACCTTAA-
1 AAAACTTTAAC
*
62638986 AAAATTTTAAC
1 AAAACTTTAAC
62638997 AAAACTTTAA
1 AAAACTTTAA
62639007 GGAGATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAACTTTAAC
Found at i:62645123 original size:12 final size:12
Alignment explanation
Indices: 62645108--62645136 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
62645098 TTACTTACTC
62645108 ACTTACTTGTTT
1 ACTTACTTGTTT
62645120 ACTTACTTGTTT
1 ACTTACTTGTTT
62645132 ACTTA
1 ACTTA
62645137 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
ACTTACTTGTTT
Found at i:62645518 original size:100 final size:104
Alignment explanation
Indices: 62645386--62645624 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 104
62645376 TTTCTGTACT
* * ** * **
62645386 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACCCCATGTCC
* * *
62645451 C-AGACATGGTCTTATAGGGGA-CT-TC-TCATCTC-GAA
66 CGA-ACATGGTCGTACAGGGGACCTCTCATAATCTCAGAA
* * *
62645486 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACCCCATGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACCCCATGTCC
* *
62645551 CGAACATGGTCGTACATGGGACCTCTCATAATCTCAATGAT
66 CGAACATGGTCGTACAGGGGACCTCTCATAATCTC-A-GAA
*
62645592 GCCAATGCCATGTCCAAGACATGGTCTTACATG
1 GCCAATGCCATGTCCCAGACATGGTCTTACATG
62645625 AGATCTCATT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
100 71 0.62
101 3 0.03
102 2 0.02
103 6 0.05
106 33 0.29
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (104 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACCCCATGTCC
CGAACATGGTCGTACAGGGGACCTCTCATAATCTCAGAA
Found at i:62645596 original size:56 final size:50
Alignment explanation
Indices: 62645335--62645624 Score: 237
Period size: 50 Copynumber: 5.7 Consensus size: 50
62645325 CTGATAATAC
* * * * **
62645335 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGTTTTC-TG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * ** * *
62645382 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * * * * *
62645434 GTGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACTTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
62645484 AAGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * *
62645534 GTGCCAACCCCATGTCCC-GAACATGGTCGTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAACGCCATGTCCCAG-ACATGGTCTTACATGGGACCTCTC---ATCT---TG
* *
62645590 ATGCCAATGCCATGTCCAAGACATGGTCTTACATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATG
62645625 AGATCTCATT
Statistics
Matches: 195, Mismatches: 35, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 33 0.17
50 122 0.63
51 3 0.02
52 1 0.01
53 4 0.02
56 30 0.15
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:62650609 original size:24 final size:24
Alignment explanation
Indices: 62650577--62650622 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
62650567 AATCTTCTGC
62650577 CTCTGTTTCGGCTAGAATACCTGA
1 CTCTGTTTCGGCTAGAATACCTGA
62650601 CTCTGTTTCGGCTAGAATACCT
1 CTCTGTTTCGGCTAGAATACCT
62650623 AGTTGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
CTCTGTTTCGGCTAGAATACCTGA
Found at i:62653066 original size:50 final size:50
Alignment explanation
Indices: 62652997--62653239 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
62652987 TTTTCTGTAC
* * * **
62652997 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCA-CATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC-TCGG
* * **
62653047 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
62653097 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
62653147 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCCCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
62653203 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
62653240 TCTCATTCCC
Statistics
Matches: 167, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
50 127 0.76
51 1 0.01
53 4 0.02
56 35 0.21
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:62654812 original size:139 final size:140
Alignment explanation
Indices: 62654529--62655036 Score: 606
Period size: 140 Copynumber: 3.6 Consensus size: 140
62654519 TTTTAAGATT
* * * * * * *
62654529 ACACTTTTGTGCCAAAACTTTTCTAAGTGTTGGGATAGACTTGTCAACATACGCTTTGGTCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * *
62654594 CTTTATATAAGAGTTGGGATATGTATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
62654659 CATTATGCCG
131 CATTATGCCG
* * * * *
62654669 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGAATGGACTTGTTGACATATACTTTGGGCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* ** *
62654734 -TTTGTATAAGGGTTGGGATATGCATGCTTAAAACAACACTTAAATAAGAGTCGGCTTAT-TCCA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTT-TGTCCA
* * *
62654797 ACACTATACCA
130 ACATTATGCCG
* * * *
62654808 ACACTTTTGGGTCGACACTTTCTTAAGTGTTGGGATAAACTTGTCGACATATGCTTTGACCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * * **
62654873 CTTTATATAAGGGTTGAGATATGTATACTTAAGGCGACGCTTAAATAAGAGTCGATTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
**
62654938 CATTATGGGG
131 CATTATGCCG
* * * * * * *
62654948 ACCCTTTTGGGCCGACACTTTCCTAAATGTTGGGATCGATTTGTCGACATATGCTTTAGCCGAGT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
*
62655013 CTTTGTATAAGGGTTGGGATATGC
66 CTTTATATAAGGGTTGGGATATGC
62655037 CTTTTCCAAC
Statistics
Matches: 305, Mismatches: 60, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
139 118 0.39
140 187 0.61
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (140 bp):
ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CATTATGCCG
Found at i:62658006 original size:35 final size:34
Alignment explanation
Indices: 62657958--62658150 Score: 176
Period size: 35 Copynumber: 5.4 Consensus size: 34
62657948 TGGATGTGTC
*
62657958 TATCCCAACCTTTTTAAGGTTGTCTTAGACGGGTT
1 TATCCTAACCTTTTTAAGGTTG-CTTAGACGGGTT
* *
62657993 TATCCTAATCTTTTTAAGGTTGCATTAGACAGGTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
62658028 TAT-CTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCT
1 TATCCT-AACC-TTTTTAAGGTTG-CTTAGACGGGT-T
* * *
62658065 GT-TCC-AACTTTTTTTAAAGGTTGCCTTAGCCGGGTC
1 -TATCCTAAC-CTTTTT-AAGGTTG-CTTAGACGGGTT
* * * *
62658101 TATCCCAACCTTTTTAGGGTTGCTTTATACGGTTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
62658136 TATCCTAACCTTTTT
1 TATCCTAACCTTTTT
62658151 TTAAAGGTTG
Statistics
Matches: 131, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
34 4 0.03
35 64 0.49
36 37 0.28
37 24 0.18
38 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (34 bp):
TATCCTAACCTTTTTAAGGTTGCTTAGACGGGTT
Found at i:62658088 original size:37 final size:35
Alignment explanation
Indices: 62657968--62658240 Score: 228
Period size: 37 Copynumber: 7.5 Consensus size: 35
62657958 TATCCCAACC
* *
62657968 TTTTTAAGGTTGTCTTAGACGGGTTTATCCTAA-TC
1 TTTTTAAGGTTGCCTTAGACGGGTTTATCC-AACTT
* * *
62658003 TTTTTAAGGTTGCATTAGACAGGTTTATCTCAACCT
1 TTTTTAAGGTTGCCTTAGACGGGTTTATC-CAACTT
62658039 TTTTTAAGGTTGCCTTAGACGGGTCTGT-TCCAACTT
1 TTTTTAAGGTTGCCTTAGACGGGT-T-TATCCAACTT
* * *
62658075 TTTTTAAAGGTTGCCTTAGCCGGGTCTATCCCAAC-C
1 TTTTT-AAGGTTGCCTTAGACGGGTTTAT-CCAACTT
* * * *
62658111 TTTTTAGGGTTGCTTTATACGGTTTTATCCTAACCTT
1 TTTTTAAGGTTGCCTTAGACGGGTTTATCC-AA-CTT
**
62658148 TTTTTAAAGGTTGCCTTAGATAAGGTTTATCACAACTT
1 TTTTT-AAGGTTGCCTTAGA-CGGGTTTATC-CAACTT
* * **
62658186 TTTTAAAAGGTTGCCTTAAATTGGTTTATTCCAACTT
1 TTTT-TAAGGTTGCCTTAGACGGGTTTA-TCCAACTT
62658223 TTTTTAAAGGTTGACCTT
1 TTTTT-AAGGTTG-CCTT
62658241 GATTAAGTCT
Statistics
Matches: 192, Mismatches: 29, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
34 2 0.01
35 48 0.25
36 40 0.21
37 54 0.28
38 38 0.20
39 9 0.05
40 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.44
Consensus pattern (35 bp):
TTTTTAAGGTTGCCTTAGACGGGTTTATCCAACTT
Found at i:62658149 original size:73 final size:72
Alignment explanation
Indices: 62657955--62658240 Score: 262
Period size: 73 Copynumber: 3.9 Consensus size: 72
62657945 CTTTGGATGT
* * *
62657955 GTCTATCCCAACCTTTTTAAGGTTG-TCTTAGACGGGTTTATCCTAA-TCTTTTT-AAGGTTGCA
1 GTCTATCCCAACCTTTTTAAGGTTGCT-TTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCC
62658017 TTAGACAG
65 TTAGACAG
* * * *
62658025 GTTTATCTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCTGT-TCC-AACTTTTTTTAAAGGTTG
1 GTCTATCCCAACC-TTTTTAAGGTTGCTTTAGAC-GGT-TTTATCCTAACTTTTTTTAAAGGTTG
* *
62658088 CCTTAGCCGG
63 CCTTAGACAG
* *
62658098 GTCTATCCCAACCTTTTTAGGGTTGCTTTATACGGTTTTATCCTAACCTTTTTTTAAAGGTTGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAA-CTTTTTTTAAAGGTTGCC
*
62658163 TTAGATAAG
65 TTAGA-CAG
* * * * * *
62658172 GTTTATCACAACTTTTTTAAAAGGTTGCCTTAAATTGG-TTTATTCC-AACTTTTTTTAAAGGTT
1 GTCTATCCCAACCTTTTT--AAGGTTGCTTTAGA-CGGTTTTA-TCCTAACTTTTTTTAAAGGTT
62658235 GACCTT
62 G-CCTT
62658241 GATTAAGTCT
Statistics
Matches: 176, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
70 13 0.07
71 26 0.15
72 30 0.17
73 49 0.28
74 16 0.09
75 16 0.09
76 21 0.12
77 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (72 bp):
GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCCT
TAGACAG
Found at i:62658256 original size:38 final size:37
Alignment explanation
Indices: 62658145--62658258 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 37
62658135 TTATCCTAAC
*
62658145 CTTTTTTTAAAGGTTGCCTTAGA-TAAGGTTTATCACAA
1 CTTTTTTTAAAGGTTGCCTTAGATTAA-GTTTTTC-CAA
* * *
62658183 CTTTTTTAAAAGGTTGCCTTAAATT-GGTTTATTCCAA
1 CTTTTTTTAAAGGTTGCCTTAGATTAAGTTT-TTCCAA
62658220 CTTTTTTTAAAGGTTGACCTT-GATTAAGTCTTTTCCAA
1 CTTTTTTTAAAGGTTG-CCTTAGATTAAGT-TTTTCCAA
62658258 C
1 C
62658259 CCTTCAATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
37 25 0.39
38 36 0.56
39 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (37 bp):
CTTTTTTTAAAGGTTGCCTTAGATTAAGTTTTTCCAA
Found at i:62663119 original size:9 final size:9
Alignment explanation
Indices: 62663105--62663159 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
62663095 ATTTACATCC
*
62663105 TTCTCTCAG
1 TTCTCTCAA
62663114 TTCTCTCAA
1 TTCTCTCAA
62663123 TTCTCTCAAA
1 TTCTCTC-AA
62663133 TTCTCTCAAA
1 TTCTCTC-AA
*
62663143 CTCTCTCAA
1 TTCTCTCAA
*
62663152 GTCTCTCA
1 TTCTCTCA
62663160 TTTTTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
9 24 0.57
10 18 0.43
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.40
Consensus pattern (9 bp):
TTCTCTCAA
Found at i:62663136 original size:10 final size:10
Alignment explanation
Indices: 62663105--62663151 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
62663095 ATTTACATCC
*
62663105 TTCTCTC-AG
1 TTCTCTCAAA
62663114 TTCTCTC-AA
1 TTCTCTCAAA
62663123 TTCTCTCAAA
1 TTCTCTCAAA
62663133 TTCTCTCAAA
1 TTCTCTCAAA
*
62663143 CTCTCTCAA
1 TTCTCTCAA
62663152 GTCTCTCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:62663146 original size:8 final size:9
Alignment explanation
Indices: 62663115--62663159 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
62663105 TTCTCTCAGT
*
62663115 TCTCTCAAT
1 TCTCTCAAA
62663124 TCTCTCAAA
1 TCTCTCAAA
62663133 TTCTCTCAAA
1 -TCTCTCAAA
*
62663143 CTCTCTCAAG
1 -TCTCTCAAA
62663153 TCTCTCA
1 TCTCTCA
62663160 TTTTTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (9 bp):
TCTCTCAAA
Found at i:62663373 original size:21 final size:20
Alignment explanation
Indices: 62663345--62663383 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
62663335 GTTAATGCTA
62663345 AATTTAATTTTTTTTATTAT
1 AATTTAATTTTTTTTATTAT
62663365 AATTATAATTTTTTTTATT
1 AATT-TAATTTTTTTTATT
62663384 GTGCAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTTAATTTTTTTTATTAT
Found at i:62667173 original size:27 final size:27
Alignment explanation
Indices: 62667142--62667319 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
62667132 TAAATTGTAC
62667142 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62667169 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62667195 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
62667223 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62667251 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62667278 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62667305 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62667320 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62667309 original size:82 final size:81
Alignment explanation
Indices: 62667139--62667319 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
62667129 GATTAAATTG
* *
62667139 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62667204 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
62667220 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62667284 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62667302 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62667320 GACTCAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 19 0.22
82 67 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62679202 original size:16 final size:15
Alignment explanation
Indices: 62679162--62679193 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
62679152 ACTTAGTCCA
62679162 ATAAATTAGTAACAC
1 ATAAATTAGTAACAC
*
62679177 ATAAATTAGTATCAC
1 ATAAATTAGTAACAC
62679192 AT
1 AT
62679194 TGAATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAAATTAGTAACAC
Found at i:62685443 original size:45 final size:45
Alignment explanation
Indices: 62685356--62685443 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
62685346 AAGTCCATAG
* * * *
62685356 TTGAAAGATGCTATGGAATCATGATAAAAATGAGTAAAACCATGA
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
* * * *
62685401 TTGAAAAATGCCATGAAATCATGGTAAACAGGATTAAGACCAT
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCAT
62685444 AACTAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (45 bp):
TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
Found at i:62688828 original size:30 final size:31
Alignment explanation
Indices: 62688758--62688829 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
62688748 TTAGTTTAAG
62688758 AAAATAAATAAAAAAATAAAGAAACTAAAACA
1 AAAATAAA-AAAAAAATAAAGAAACTAAAACA
** * *
62688790 AAGTTAAAAAAAAGATAATA-AAA-TAAAATA
1 AAAATAAAAAAAAAATAA-AGAAACTAAAACA
62688820 AAAATAAAAA
1 AAAATAAAAA
62688830 CGAAAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 14 0.42
31 12 0.36
32 7 0.21
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATAAAAAAAAAATAAAGAAACTAAAACA
Found at i:62695903 original size:43 final size:43
Alignment explanation
Indices: 62695779--62695903 Score: 196
Period size: 43 Copynumber: 2.9 Consensus size: 43
62695769 ATCTCGTACA
* * * **
62695779 GATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTTAAATT
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
62695822 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
*
62695865 GATGGCAATAGCCCAGCTATGGTTTTACACGAAATCTCA
1 GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCA
62695904 CCTCGAAAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
GATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCAAACC
Found at i:62696085 original size:31 final size:30
Alignment explanation
Indices: 62696018--62696100 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
62696008 ATCCAATACT
**
62696018 CAAATCAATTCGGCAATATATATCCATGTA
1 CAAATCAATTCGGCAATATATATCCACATA
** *
62696048 TGAATCAAATTCGGCAATATATATCTACATA
1 CAAATC-AATTCGGCAATATATATCCACATA
* *
62696079 CAAATCAATTCAGCAATGTATA
1 CAAATCAATTCGGCAATATATA
62696101 AAACATATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATCCACATA
Found at i:62702727 original size:17 final size:17
Alignment explanation
Indices: 62702705--62702739 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
62702695 AGTCATGTTG
62702705 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
62702722 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
62702739 T
1 T
62702740 GGCCTAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (17 bp):
TTACATGGACTAGCACA
Found at i:62705396 original size:19 final size:17
Alignment explanation
Indices: 62705363--62705397 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
62705353 TATAGTTGGT
62705363 TTAATTGTTAATTAATC
1 TTAATTGTTAATTAATC
62705380 TTAATTAGTTAAATTAAT
1 TTAATT-GTT-AATTAAT
62705398 TCATGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAATTGTTAATTAATC
Found at i:62707365 original size:24 final size:24
Alignment explanation
Indices: 62707337--62707385 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
62707327 ATTAAATTTT
*
62707337 ATTAATCT-TGATTAATATTAATTA
1 ATTAATCTGTAATTAAT-TTAATTA
*
62707361 ATTAATGTGTAATTAATTTAATTA
1 ATTAATCTGTAATTAATTTAATTA
62707385 A
1 A
62707386 GGTTTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTAATCTGTAATTAATTTAATTA
Found at i:62707393 original size:20 final size:19
Alignment explanation
Indices: 62707353--62707393 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
62707343 CTTGATTAAT
*
62707353 ATTAATTAATTAATGTGTA
1 ATTAATTAATTAAGGTGTA
*
62707372 ATTAATTTAATTAAGGTTTA
1 ATTAA-TTAATTAAGGTGTA
62707392 AT
1 AT
62707394 CTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTAATTAATTAAGGTGTA
Found at i:62711768 original size:35 final size:35
Alignment explanation
Indices: 62711729--62711796 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
62711719 GCCTTGAAGG
* *
62711729 ACCTATGTGTCATTTACAC-GATGCCACCCCGAAAT
1 ACCTATATATCATTTACACTG-TGCCACCCCGAAAT
* *
62711764 ACCTATATATCGTTTACACTGTGTCACCCCGAA
1 ACCTATATATCATTTACACTGTGCCACCCCGAA
62711797 GGGCCAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (35 bp):
ACCTATATATCATTTACACTGTGCCACCCCGAAAT
Found at i:62713075 original size:25 final size:25
Alignment explanation
Indices: 62713031--62713078 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62713021 TAGCATTGTT
*
62713031 TTTGAGAAGTGCTATAGAAAAGTGA
1 TTTGAGAAGTACTATAGAAAAGTGA
* *
62713056 TTTGAGAAGTACTTTTGAAAAGT
1 TTTGAGAAGTACTATAGAAAAGT
62713079 TTGGTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTGAGAAGTACTATAGAAAAGTGA
Found at i:62714311 original size:102 final size:102
Alignment explanation
Indices: 62714135--62714344 Score: 375
Period size: 102 Copynumber: 2.1 Consensus size: 102
62714125 ACCATTCCAT
* * *
62714135 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTGAACTTGTTTTATCATGTTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
*
62714200 ATTCCATACCCTCATATACCATATCACTTGATCAAGC
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
*
62714237 AATTTTACAACAACTTATTAATCCAACCTAACCAAATTCAACTTGTTTCATCATGCTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
62714302 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
62714339 AATTTT
1 AATTTT
62714345 TCATTCATGT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (102 bp):
AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
ATTCCATACCCTCATATACCATATCACTTGATCAAGA
Found at i:62717906 original size:30 final size:30
Alignment explanation
Indices: 62717872--62717935 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
62717862 TATATTTTCA
62717872 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
62717902 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
62717932 GGTT
1 GGTT
62717936 TCTAGTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (30 bp):
GGTTCTAAGTGTAAAACTGGGAATTTATGG
Found at i:62719976 original size:30 final size:30
Alignment explanation
Indices: 62719940--62720021 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
62719930 ACATGTTTAA
62719940 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
62719970 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
62720000 TTATGTATGATTGTTGCTATAT
1 TTATGTATGATTGTTGCTATAT
62720022 GAATTAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (30 bp):
TTATGTATGATTGTTGCTATATCAATATAT
Found at i:62723960 original size:25 final size:25
Alignment explanation
Indices: 62723930--62723998 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
62723920 ATACTAATCT
*
62723930 ACAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTC
* * * *
62723955 ATAGCTAGAGTGAGCATACCGATTC
1 ACAGCTCGTGAGAGCATACCGATTC
62723980 ACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGA-GAGCATAC
62723999 ATGTACATGA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTC
Found at i:62725292 original size:60 final size:60
Alignment explanation
Indices: 62725199--62725311 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
62725189 ATGGCCTAGC
*
62725199 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTTC-AAGGGTACACGGCTTGGTACACAG
1 ACACGGCCTGGCACATGGGTGTGTGAGGTTAC-TTCGAAGGGTACACAGCTTGGTACACAG
62725259 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGG
1 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGG
62725312 CATACGGATG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (60 bp):
ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTCGAAGGGTACACAGCTTGGTACACAG
Found at i:62727775 original size:20 final size:20
Alignment explanation
Indices: 62727752--62727796 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
62727742 CACACGGGCA
*
62727752 TGTGCCTATCCACAC-AGGTG
1 TGTGACTATCCACACGA-GTG
62727772 TGTGACTATCCACACGAGTG
1 TGTGACTATCCACACGAGTG
62727792 TGTGA
1 TGTGA
62727797 GGGGTTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (20 bp):
TGTGACTATCCACACGAGTG
Found at i:62733997 original size:22 final size:22
Alignment explanation
Indices: 62733972--62734029 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
62733962 ACCATAGTGG
*
62733972 TAAGCAGATAGCATTGAACTGC
1 TAAGCAGAAAGCATTGAACTGC
*
62733994 TAAGCAGAAAGCATTGAAGTGC
1 TAAGCAGAAAGCATTGAACTGC
*
62734016 TAAGCAGAGAGCAT
1 TAAGCAGAAAGCAT
62734030 CAAAGTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (22 bp):
TAAGCAGAAAGCATTGAACTGC
Found at i:62734035 original size:22 final size:22
Alignment explanation
Indices: 62733954--62734036 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
62733944 TGCAACACAC
* * *
62733954 CAGAGAGCACCATAGTGGTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* ** *
62733976 CAGATAGCATTGAACTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* **
62733998 CAGAAAGCATTGAAGTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
62734020 CAGAGAGCATCAAAGTG
1 CAGAGAGCATCAAAGTG
62734037 TTTAATAGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (22 bp):
CAGAGAGCATCAAAGTGCTAAG
Found at i:62743323 original size:21 final size:22
Alignment explanation
Indices: 62743292--62743333 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
62743282 ATATTTCTCC
*
62743292 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
62743314 TCTT-AATTATATTATTTATG
1 TCTTGAATTATATTATTTATG
62743334 CTTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:62751114 original size:30 final size:30
Alignment explanation
Indices: 62751080--62751167 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
62751070 CTGGGCATTT
*
62751080 CCACACGGGTAGGACACGTGCCCATGTGTG
1 CCACACGGGTAGGACACATGCCCATGTGTG
* *
62751110 CCACACAGGCAGGACACATGCCCATGTGTG
1 CCACACGGGTAGGACACATGCCCATGTGTG
* * *
62751140 TCACATGGACT-GGACACATGCCCATGTG
1 CCACACGG-GTAGGACACATGCCCATGTG
62751168 CTAGCCCGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (30 bp):
CCACACGGGTAGGACACATGCCCATGTGTG
Found at i:62758942 original size:17 final size:17
Alignment explanation
Indices: 62758899--62758948 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
62758889 TTATTCTTGT
62758899 AAAAAAAG--AAG-AAG
1 AAAAAAAGAAAAGAAAG
62758913 AAAAAAATCGAAAAGAAAG
1 AAAAAAA--GAAAAGAAAG
*
62758932 AAAAAAAGAAAATAAAG
1 AAAAAAAGAAAAGAAAG
62758949 TATTCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.23
16 1 0.03
17 9 0.30
18 3 0.10
19 10 0.33
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAAAGAAAAGAAAG
Found at i:62778116 original size:24 final size:25
Alignment explanation
Indices: 62778084--62778130 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
62778074 ATTAAGGTTT
*
62778084 TATTTATTATTAAATTAT-AAATTA
1 TATTAATTATTAAATTATGAAATTA
*
62778108 TATTAATTATTATATTATGAAAT
1 TATTAATTATTAAATTATGAAAT
62778131 AAATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTAATTATTAAATTATGAAATTA
Found at i:62778714 original size:9 final size:9
Alignment explanation
Indices: 62778700--62778752 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
62778690 ATAAAGTAAG
62778700 TAAAAGAAA
1 TAAAAGAAA
62778709 CT-AAAGAAA
1 -TAAAAGAAA
62778718 TAAAAGAAA
1 TAAAAGAAA
* *
62778727 GAAAAGAAG
1 TAAAAGAAA
62778736 TAAAAGAAA
1 TAAAAGAAA
*
62778745 CAAAAGAA
1 TAAAAGAA
62778753 CAGTAGAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:62778721 original size:18 final size:18
Alignment explanation
Indices: 62778700--62778752 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
62778690 ATAAAGTAAG
*
62778700 TAAAAGAAACTAAAGAAA
1 TAAAAGAAACAAAAGAAA
* *
62778718 TAAAAGAAAGAAAAGAAG
1 TAAAAGAAACAAAAGAAA
62778736 TAAAAGAAACAAAAGAA
1 TAAAAGAAACAAAAGAA
62778753 CAGTAGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.08
Consensus pattern (18 bp):
TAAAAGAAACAAAAGAAA
Found at i:62780045 original size:23 final size:23
Alignment explanation
Indices: 62780012--62780058 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
62780002 AGTAGGGTGG
* *
62780012 TGGGTCTGTTTTGCGTCTTTTTTT
1 TGGGTCTGTTTGGC-CCTTTTTTT
62780036 TGGGT-TGTTTGGCCCTTTTTTT
1 TGGGTCTGTTTGGCCCTTTTTTT
62780058 T
1 T
62780059 CTCTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.00, C:0.13, G:0.26, T:0.62
Consensus pattern (23 bp):
TGGGTCTGTTTGGCCCTTTTTTT
Found at i:62790570 original size:17 final size:17
Alignment explanation
Indices: 62790537--62790570 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62790527 CACTAATAGT
* *
62790537 AAAATGTAATGATAATG
1 AAAATGTAATAACAATG
62790554 AAAATGTAATAACAATG
1 AAAATGTAATAACAATG
62790571 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (17 bp):
AAAATGTAATAACAATG
Found at i:62795549 original size:14 final size:14
Alignment explanation
Indices: 62795521--62795549 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62795511 GCTTAGTGGC
62795521 TTTTGACTTGATTT
1 TTTTGACTTGATTT
62795535 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
62795548 TT
1 TT
62795550 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:62808082 original size:60 final size:60
Alignment explanation
Indices: 62807989--62808108 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
62807979 TGGATGGAAT
62807989 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCG
1 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCG
*
62808049 ATATACGAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCG
1 ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCG
62808109 GTTATAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (60 bp):
ATATACAAGTCTATATTCAGGAAAAATTAACGGCAAGTGATTTGGAGTTTTGTAGCTCCG
Found at i:62808473 original size:47 final size:47
Alignment explanation
Indices: 62808406--62808843 Score: 768
Period size: 47 Copynumber: 9.3 Consensus size: 47
62808396 AAAGTGTATA
62808406 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
62808453 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
62808500 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
62808547 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
62808594 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
62808641 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
62808688 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
62808735 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * * * * * *
62808782 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
*
62808829 TATAAATGTGATAAG
1 TATATATGTGATAAG
62808844 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 377 1.00
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
Found at i:62809018 original size:37 final size:37
Alignment explanation
Indices: 62808962--62809040 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62808952 CCGAGCTCTA
* *
62808962 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
62808999 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62809036 AAGAC
1 AAGAC
62809041 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62814082 original size:46 final size:46
Alignment explanation
Indices: 62814016--62814103 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
62814006 GAGTGGTTGC
*
62814016 TATTTATTTGCTATTTTTAGTGGCCATTACCACCAATAAATAATCT
1 TATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAATCT
62814062 TATTTAGTTTG-TATTTTTAGTAGCCATTACCACCAATAAATA
1 TATTTA-TTTGCTATTTTTAGTAGCCATTACCACCAATAAATA
62814104 CCCCTATTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 36 0.90
47 4 0.10
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (46 bp):
TATTTATTTGCTATTTTTAGTAGCCATTACCACCAATAAATAATCT
Found at i:62824244 original size:13 final size:13
Alignment explanation
Indices: 62824210--62824244 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
62824200 TAATTTTGTG
*
62824210 AAAATTTCATTCA
1 AAAATTTCGTTCA
62824223 AAAATTTCGTTCA
1 AAAATTTCGTTCA
62824236 AAAATTTCG
1 AAAATTTCG
62824245 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (13 bp):
AAAATTTCGTTCA
Found at i:62825195 original size:50 final size:50
Alignment explanation
Indices: 62825131--62825433 Score: 269
Period size: 50 Copynumber: 6.0 Consensus size: 50
62825121 CAAATTTTGT
* *
62825131 ACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* * *
62825181 ACCGAGATAGGAGGTCCCATGTAAGACCATATTTGGGACATGGCGTTGGC
1 ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* *
62825231 ACCGAGATAATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
1 ACCGAG---ATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* * * * *
62825284 ACCGAGATGGGAGGTCCTC-CGTAAGATCATGTCTGGGACAT-AGCATGGGC
1 ACCGAGATAGGAGGTCC-CATGTAAGACCATGTCTGGGACATGA-CGTTGGC
* * * * * *
62825334 ACC-A-ATAGGAGAACTCCCATGTAAGACCATATTTGGGATATGTCATTGGC
1 ACCGAGATAGGAG--GTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
* ** * *
62825384 ACTACAAGA-A--ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 AC--CGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
62825433 A
1 A
62825434 TGTTATTATC
Statistics
Matches: 209, Mismatches: 31, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.03
49 34 0.16
50 116 0.56
51 2 0.01
52 1 0.00
53 49 0.23
54 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ACCGAGATAGGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGC
Found at i:62825321 original size:103 final size:103
Alignment explanation
Indices: 62825137--62825324 Score: 297
Period size: 103 Copynumber: 1.8 Consensus size: 103
62825127 TTGTACCGAG
* *
62825137 ATAAGAGGTCCCATGTAAGACCATGTCTGGGTCATGACGTTGGCACCGAGATAGGAGGTCCCATG
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCCCACG
*
62825202 TAAGACCATATTTGGGACATGGCGTTGGCACCGAGATA
66 TAAGACCATATCTGGGACATGGCGTTGGCACCGAGATA
* *
62825240 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGGGAGGTCCTC-C
1 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCC-CAC
* *
62825304 GTAAGATCATGTCTGGGACAT
65 GTAAGACCATATCTGGGACAT
62825325 AGCATGGGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 76 0.99
104 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (103 bp):
ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATAGGAGGTCCCACG
TAAGACCATATCTGGGACATGGCGTTGGCACCGAGATA
Found at i:62829253 original size:24 final size:24
Alignment explanation
Indices: 62829226--62829280 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
62829216 AATTCAATCG
62829226 CTACTTTTCTACTCAATGCATCAA
1 CTACTTTTCTACTCAATGCATCAA
*
62829250 CTACTTTTCTACTCAATGCATCAG
1 CTACTTTTCTACTCAATGCATCAA
62829274 CTACTTT
1 CTACTTT
62829281 CAGAAGTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.05, T:0.40
Consensus pattern (24 bp):
CTACTTTTCTACTCAATGCATCAA
Found at i:62835687 original size:18 final size:17
Alignment explanation
Indices: 62835661--62835708 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
62835651 ATAAAAAAAA
62835661 AACATTTTGAAATTGAAT
1 AACATTTTGAAA-TGAAT
*
62835679 AACAATTTGTAAATGAAT
1 AACATTTTG-AAATGAAT
*
62835697 AATATTTTGAAA
1 AACATTTTGAAA
62835709 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (17 bp):
AACATTTTGAAATGAAT
Found at i:62843640 original size:40 final size:40
Alignment explanation
Indices: 62843588--62843780 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
62843578 ATTACCACAA
* * ** *
62843588 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
62843628 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
62843668 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
62843710 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
62843750 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
62843781 AAATTCAAAT
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 101 0.73
42 37 0.27
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:62843739 original size:82 final size:82
Alignment explanation
Indices: 62843588--62843780 Score: 300
Period size: 82 Copynumber: 2.4 Consensus size: 82
62843578 ATTACCACAA
* * * *
62843588 GCACAATTGCCTTCGGGTCTTAACCCGG--GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
*
62843651 CCCGGATATATCAACTT
66 CCCGGATATATCAACTC
* *
62843668 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
62843733 CCCGGATATATCAACTC
66 CCCGGATATATCAACTC
*
62843750 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
62843781 AAATTCAAAT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 27 0.26
82 76 0.74
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (82 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTAG
CCCGGATATATCAACTC
Found at i:62857192 original size:142 final size:142
Alignment explanation
Indices: 62856967--62857273 Score: 492
Period size: 142 Copynumber: 2.2 Consensus size: 142
62856957 CACCGCTTGG
*
62856967 GGAG-TAAGATTCCTGGCTTCAATCTAATACGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
1 GGAGATAAGATTTCTGGCTTCAATCTAATACGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
* **
62857031 CATTTATTTTAATCTGCTCCACTGTAACCTTTGGGAGATAGGATTACTAGCTTAAATCTGCTCCG
66 CATTTATTTTAATCTGCTCCACAGTAACCTCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCG
* *
62857096 TTGTAATCTCA-
131 CTATAATCTCAT
* *
62857107 GAGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 G-GAGATAAGATTTCTGGCTTCAATCTAATACGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* * *
62857172 TCCTTTATTTTAATCTGCTCCACAGTAACCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTC
65 TCATTTATTTTAATCTGCTCCACAGTAACCTCAGGGAGATAGGATTACTAGCTTAAATCTGCTCC
62857237 GCTATAATCTCAT
130 GCTATAATCTCAT
62857250 GGAGATAAGATTTCTGGCTTCAAT
1 GGAGATAAGATTTCTGGCTTCAAT
62857274 TTGCTCCACT
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
140 1 0.01
141 3 0.02
142 148 0.97
143 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (142 bp):
GGAGATAAGATTTCTGGCTTCAATCTAATACGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
CATTTATTTTAATCTGCTCCACAGTAACCTCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCG
CTATAATCTCAT
Found at i:62857231 original size:44 final size:44
Alignment explanation
Indices: 62857183--62857305 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
62857173 CCTTTATTTT
*
62857183 AATCTGCTCCACAGTAACCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACAGTAACCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
62857227 AATCTGCTTCGCTA-TAATCTCATGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCAC-AGTAACCTCAGGGAGATAAGATTACTAGCTTC
* * *
62857271 AATTTGCTCCACTGTAACATCAGGGAGATAAGATT
1 AATCTGCTCCACAGTAACCTCAGGGAGATAAGATT
62857306 CACCATTTCC
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 62 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACAGTAACCTCAGGGAGATAAGATTACTAGCTTC
Found at i:62858393 original size:13 final size:13
Alignment explanation
Indices: 62858375--62858399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62858365 GTTATCACAA
62858375 ATAGTAAAGAAAG
1 ATAGTAAAGAAAG
62858388 ATAGTAAAGAAA
1 ATAGTAAAGAAA
62858400 TTGATTGGGA
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:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (13 bp):
ATAGTAAAGAAAG
Found at i:62873715 original size:16 final size:18
Alignment explanation
Indices: 62873682--62873715 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62873672 TTAGGTTGTA
62873682 TCAGAACAAGAGCTTGAG
1 TCAGAACAAGAGCTTGAG
62873700 TCAGAAC-AGA-CTTGAG
1 TCAGAACAAGAGCTTGAG
62873716 CTTCTCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (18 bp):
TCAGAACAAGAGCTTGAG
Found at i:62889714 original size:7 final size:7
Alignment explanation
Indices: 62889702--62889737 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
62889692 ATTCTTGAAA
62889702 GTAAAAG
1 GTAAAAG
62889709 GTAAAAG
1 GTAAAAG
62889716 GTAAAAG
1 GTAAAAG
62889723 GTAAAAG
1 GTAAAAG
62889730 GTAAAAG
1 GTAAAAG
62889737 G
1 G
62889738 ACCGACAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (7 bp):
GTAAAAG
Found at i:62891124 original size:8 final size:9
Alignment explanation
Indices: 62891056--62891122 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
62891046 TGTATATTTC
62891056 AAAATATAA
1 AAAATATAA
*
62891065 AAAATAGTTA
1 AAAATA-TAA
* *
62891075 AAATTTTAA
1 AAAATATAA
62891084 AAAA-ATTACA
1 AAAATA-TA-A
62891094 AAAA-A-AA
1 AAAATATAA
62891101 AGAAATATAA
1 A-AAATATAA
62891111 AAAATATAA
1 AAAATATAA
62891120 AAA
1 AAA
62891123 TAGTCTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
7 2 0.04
8 4 0.09
9 25 0.54
10 15 0.33
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAATATAA
Found at i:62892237 original size:16 final size:16
Alignment explanation
Indices: 62892152--62892237 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
62892142 CCGATATAAT
*
62892152 AAATATATTTATTTTTA
1 AAATAT-TTTAATTTTA
*
62892169 AAATTTTTTTAATTTTA
1 AAA-TATTTTAATTTTA
62892186 AAATA---T--TTTTA
1 AAATATTTTAATTTTA
* *
62892197 AAATACTTTATTTTTA
1 AAATATTTTAATTTTA
** *
62892213 TTATTTTTTAATTTTA
1 AAATATTTTAATTTTA
62892229 AAATATTTT
1 AAATATTTT
62892238 TCAAATACTT
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
11 10 0.19
13 1 0.02
14 1 0.02
16 23 0.44
17 15 0.29
18 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
AAATATTTTAATTTTA
Found at i:62892255 original size:12 final size:11
Alignment explanation
Indices: 62892224--62892281 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
62892214 TATTTTTTAA
62892224 TTTTAAAATAT
1 TTTTAAAATAT
*
62892235 TTTTCAAATACT
1 TTTTAAAATA-T
62892247 TTTTAAAAT-T
1 TTTTAAAATAT
*
62892257 TTTT----TAA
1 TTTTAAAATAT
62892264 TTTTAAAATAT
1 TTTTAAAATAT
62892275 TTTTAAA
1 TTTTAAA
62892282 GTCCTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
6 1 0.03
7 4 0.11
10 5 0.14
11 18 0.49
12 9 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62898663 original size:13 final size:13
Alignment explanation
Indices: 62898639--62898684 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
62898629 AAAGAATTTT
62898639 AAGAACAAATAATA
1 AAGAA-AAATAATA
62898653 AAGAAAAATAATA
1 AAGAAAAATAATA
* *
62898666 AAGAAATA-AAGA
1 AAGAAAAATAATA
62898678 AAGAAAA
1 AAGAAAA
62898685 TTTTGTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 9 0.31
13 15 0.52
14 5 0.17
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (13 bp):
AAGAAAAATAATA
Found at i:62900719 original size:19 final size:19
Alignment explanation
Indices: 62900688--62900727 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
62900678 TAAAAATTTC
62900688 ATTGTAATTAAATATTTTT
1 ATTGTAATTAAATATTTTT
62900707 ATTG-AATTAAAATATTTTT
1 ATTGTAATT-AAATATTTTT
62900726 AT
1 AT
62900728 AAATGACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTGTAATTAAATATTTTT
Found at i:62900724 original size:18 final size:19
Alignment explanation
Indices: 62900678--62900724 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
62900668 AAAAAAATAA
*
62900678 TAAAA-ATTTCATTGTAAT
1 TAAAATATTTTATTGTAAT
62900696 T-AAATATTTTTATTG-AAT
1 TAAAATA-TTTTATTGTAAT
62900714 TAAAATATTTT
1 TAAAATATTTT
62900725 TATAAATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 12 0.48
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (19 bp):
TAAAATATTTTATTGTAAT
Found at i:62901680 original size:29 final size:30
Alignment explanation
Indices: 62901648--62901713 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
62901638 TATTACGTCT
*
62901648 ATCAAGTAATAA-TTATTTATATTAATACA
1 ATCAAGTAATAATTTACTTATATTAATACA
** *
62901677 ATCAACAAATAATTTACTTATATTAATGCA
1 ATCAAGTAATAATTTACTTATATTAATACA
62901707 ATCAAGT
1 ATCAAGT
62901714 GGAGTTTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (30 bp):
ATCAAGTAATAATTTACTTATATTAATACA
Found at i:62906518 original size:19 final size:19
Alignment explanation
Indices: 62906490--62906526 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62906480 TTTTTTAATA
62906490 ATTTTAATTTTCTAAAATG
1 ATTTTAATTTTCTAAAATG
* *
62906509 ATTTTTATTTTTTAAAAT
1 ATTTTAATTTTCTAAAAT
62906527 TTTTAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTAATTTTCTAAAATG
Found at i:62910963 original size:50 final size:50
Alignment explanation
Indices: 62910840--62911120 Score: 269
Period size: 50 Copynumber: 5.5 Consensus size: 50
62910830 TAAAGAGATT
* *
62910840 CCATGTAAGACCATGTCTGGGACATGGCATTGGTATCCTTGAGATCATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCA-CC--GAG---ATGAGAGGTC
* * * * *
62910896 TCATGTAAAACCATGTCTGGGACATGACGTTGGCATCGAGACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTC
* *
62910946 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTC
** * * * **
62910996 CCCCGTAAGACCATGTTTGGGACATGACATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTC
* * * * * ** *
62911046 CCATGTAAGACTATATCTGGGATATGACATTGGCA--GTACATGAAACATT
1 CCATGTAAGACCATGTCTGGGACATGACATTGGCACCG-AGATGAGAGGTC
62911095 CCATGTAAGACCATGTCTGGGACATG
1 CCATGTAAGACCATGTCTGGGACATG
62911121 GATTTGGCAT
Statistics
Matches: 186, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 30 0.16
50 121 0.65
53 3 0.02
55 1 0.01
56 30 0.16
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTC
Found at i:62912669 original size:22 final size:21
Alignment explanation
Indices: 62912652--62912702 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
62912642 ATTTTGATGG
62912652 TTTTAATTCAAATGTTTGACTCA
1 TTTTAA-TCAAATGTTTGA-TCA
* *
62912675 TTTTAATGAAATGTTTGATATA
1 TTTTAATCAAATGTTTGAT-CA
62912697 TTTTAA
1 TTTTAA
62912703 AATATACGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTTAATCAAATGTTTGATCA
Found at i:62916929 original size:17 final size:17
Alignment explanation
Indices: 62916857--62916923 Score: 107
Period size: 17 Copynumber: 3.9 Consensus size: 17
62916847 AAATTTTTCA
* *
62916857 TTTGGTGAACTCTAAGG
1 TTTGATGAACTCTAGGG
*
62916874 TTTGGTGAACTCTAGGG
1 TTTGATGAACTCTAGGG
62916891 TTTGATGAACTCTAGGG
1 TTTGATGAACTCTAGGG
62916908 TTTGATGAACTCTAGG
1 TTTGATGAACTCTAGG
62916924 AATTGAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (17 bp):
TTTGATGAACTCTAGGG
Found at i:62917714 original size:16 final size:16
Alignment explanation
Indices: 62917693--62917744 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
62917683 TTTGGTTCGC
62917693 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62917709 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
62917725 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62917741 TGTA
1 TGTA
62917745 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62918128 original size:14 final size:15
Alignment explanation
Indices: 62918079--62918130 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62918069 ATAAAATATA
62918079 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
62918094 TATTAAATATATTAT
1 AATTAAATATATTAT
62918109 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
62918122 AATTTAATA
1 AATTAAATA
62918131 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:62918178 original size:120 final size:121
Alignment explanation
Indices: 62917963--62918255 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 121
62917953 ATCATATTTA
* *
62917963 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
62918028 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATAGGATACTATAAAAGATAAATTG
*
62918083 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
62918148 TATTCTTATATGAATTTACTCAAATCATAATATAGGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATAGGATACTATAAAAGATAAATTG
* * *
62918204 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
62918256 TAAAATAATT
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 160 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATAGGATACTATAAAAGATAAATTG
Found at i:62921111 original size:8 final size:8
Alignment explanation
Indices: 62921098--62921132 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
62921088 TAAAGATTCT
62921098 AAAAAAGA
1 AAAAAAGA
62921106 AAAAAAGA
1 AAAAAAGA
*
62921114 AACAAAG-
1 AAAAAAGA
62921121 AAAAAAGA
1 AAAAAAGA
62921129 AAAA
1 AAAA
62921133 GTAGAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:62921126 original size:15 final size:16
Alignment explanation
Indices: 62921101--62921130 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62921091 AGATTCTAAA
62921101 AAAGAAAAAAAGAAAC
1 AAAGAAAAAAAGAAAC
62921117 AAAG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
62921131 AAGTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAC
Found at i:62928328 original size:26 final size:26
Alignment explanation
Indices: 62928294--62928343 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
62928284 GACTCTAAAA
*
62928294 GGGTTGCTAAGTGCTGATTCCCCGAG
1 GGGTTGCTAAATGCTGATTCCCCGAG
*
62928320 GGGTTGCTAAATGTTGATTCCCCG
1 GGGTTGCTAAATGCTGATTCCCCG
62928344 GATTATTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGTTGCTAAATGCTGATTCCCCGAG
Found at i:62928338 original size:67 final size:67
Alignment explanation
Indices: 62928222--62928379 Score: 244
Period size: 67 Copynumber: 2.3 Consensus size: 67
62928212 ATACTGAATA
* * * *
62928222 TAAAAGGGTTGCTAAGTGCTGATTTCCTGAGGGGTTGCTAAGTGCTGATTCCGCGAATTATTGAC
1 TAAAAGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAAATGCTGATTCCCCGAATTATTGAC
62928287 TC
66 TC
* *
62928289 TAAAAGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAAATGTTGATTCCCCGGATTATTGAC
1 TAAAAGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAAATGCTGATTCCCCGAATTATTGAC
62928354 TC
66 TC
*
62928356 TAAAGGTGGTTGCTAAGTGCTGAT
1 TAAAAG-GGTTGCTAAGTGCTGAT
62928380 CCCACCGTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 66 0.80
68 17 0.20
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (67 bp):
TAAAAGGGTTGCTAAGTGCTGATTCCCCGAGGGGTTGCTAAATGCTGATTCCCCGAATTATTGAC
TC
Found at i:62928523 original size:42 final size:41
Alignment explanation
Indices: 62928456--62928611 Score: 147
Period size: 41 Copynumber: 3.7 Consensus size: 41
62928446 GCCGGAATAT
* **
62928456 ACTGAATATAAAAGGGTTGCTAAGTGCCGATTCCCTGTATC
1 ACTGAATATAAAGGGGTTGCTAAGTGTTGATTCCCTGTATC
* *
62928497 ACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGAATC
1 ACTGAATATAAAGG-GGTTGCTAAGTGTTGATTCC-CTGTATC
* * *
62928540 -CTTAATTGTGAAAGGGGTTGCTATGTGTTGATT-CCTCGTATC
1 ACTGAA-TAT-AAAGGGGTTGCTAAGTGTTGATTCCCT-GTATC
* *
62928582 ACTGAAT-TTATGGTGGTTGCTAAGTGTTGA
1 ACTGAATATAAAGG-GGTTGCTAAGTGTTGA
62928612 ATCCACCGAG
Statistics
Matches: 94, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
40 3 0.03
41 30 0.32
42 28 0.30
43 28 0.30
44 5 0.05
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
ACTGAATATAAAGGGGTTGCTAAGTGTTGATTCCCTGTATC
Found at i:62929622 original size:14 final size:13
Alignment explanation
Indices: 62929600--62929676 Score: 54
Period size: 13 Copynumber: 6.1 Consensus size: 13
62929590 TATGAGATTT
62929600 TTATGTTATGTATA
1 TTATGTTAT-TATA
*
62929614 TTATTTTATTATA
1 TTATGTTATTATA
* * *
62929627 TAAT-ATAATATA
1 TTATGTTATTATA
*
62929639 TTATATTAATTATA
1 TTATGTT-ATTATA
62929653 TTA---TATTATA
1 TTATGTTATTATA
*
62929663 TTATATTATTATA
1 TTATGTTATTATA
62929676 T
1 T
62929677 ATATTAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 9 0.18
11 1 0.02
12 9 0.18
13 16 0.31
14 16 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TTATGTTATTATA
Found at i:62929644 original size:5 final size:5
Alignment explanation
Indices: 62929610--62929682 Score: 80
Period size: 5 Copynumber: 14.4 Consensus size: 5
62929600 TTATGTTATG
*
62929610 TATAT TAT-T T-TAT TATAT AATATAA TATAT TATAT TA-AT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
62929659 TATAT TATAT TATTAT ATATAT TA
1 TATAT TATAT TA-TAT -TATAT TA
62929683 AATAAAGTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 38 0.64
6 6 0.10
7 6 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:62929663 original size:36 final size:36
Alignment explanation
Indices: 62929615--62929683 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
62929605 TTATGTATAT
*
62929615 TATTTTATTATATAATATAA-TATATTATATTAATTA
1 TATTATATTATATAATATAATTATA-TATATTAATTA
* *
62929651 TATTATATTATATTATATTATTATATATATTAA
1 TATTATATTATATAATATAATTATATATATTAA
62929684 ATAAAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
TATTATATTATATAATATAATTATATATATTAATTA
Found at i:62932954 original size:4 final size:4
Alignment explanation
Indices: 62932945--62932978 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
62932935 TTCTACAAAT
*
62932945 TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
62932979 ACTCCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:62933076 original size:17 final size:17
Alignment explanation
Indices: 62933056--62933088 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62933046 TATTATATTA
*
62933056 TTATTTTTTATTTCTTG
1 TTATTTTTTATGTCTTG
62933073 TTATTTTTTATGTCTT
1 TTATTTTTTATGTCTT
62933089 TATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATGTCTTG
Found at i:62934144 original size:6 final size:6
Alignment explanation
Indices: 62934133--62934169 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
62934123 AAATCAAAGT
62934133 TGCATC TGCATC TGCATC TGCATC TGCATC TGCATC T
1 TGCATC TGCATC TGCATC TGCATC TGCATC TGCATC T
62934170 TGAATTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
TGCATC
Found at i:62935798 original size:20 final size:20
Alignment explanation
Indices: 62935770--62935811 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
62935760 AAATAAACAC
* *
62935770 ATAATTATTCAATTAATATT
1 ATAACTATTCAAGTAATATT
62935790 ATAACTATTCAAGTAATATT
1 ATAACTATTCAAGTAATATT
62935810 AT
1 AT
62935812 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAGTAATATT
Found at i:62936140 original size:21 final size:21
Alignment explanation
Indices: 62936114--62936171 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
62936104 AAAAACAGCG
*
62936114 GTGGCGGTGAGATTAGTTACT
1 GTGGCGGTGAGATTAGGTACT
*
62936135 GTGGCGGTGAGATTGGGTACT
1 GTGGCGGTGAGATTAGGTACT
*
62936156 GTAGCGGTGAGATTAG
1 GTGGCGGTGAGATTAG
62936172 AAACAATGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.09, G:0.43, T:0.29
Consensus pattern (21 bp):
GTGGCGGTGAGATTAGGTACT
Found at i:62936287 original size:32 final size:32
Alignment explanation
Indices: 62936251--62936315 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
62936241 ATTAAGGACA
62936251 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
62936283 TCATATTAGAATTGATATATAATAGAAGTTAT
1 TCATATTAGAATTGATATATAATAGAAGTTAT
62936315 T
1 T
62936316 TAAATTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
TCATATTAGAATTGATATATAATAGAAGTTAT
Found at i:62936292 original size:16 final size:16
Alignment explanation
Indices: 62936257--62936309 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
62936247 GACATCATAT
62936257 TAGAATTGATATATAA
1 TAGAATTGATATATAA
*
62936273 TAGAAGTT-AT-TCATAT
1 TAGAA-TTGATAT-ATAA
62936289 TAGAATTGATATATAA
1 TAGAATTGATATATAA
62936305 TAGAA
1 TAGAA
62936310 GTTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (16 bp):
TAGAATTGATATATAA
Done.