Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 210 of 214
Found at i:61922023 original size:24 final size:24
Alignment explanation
Indices: 61921991--61922038 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61921981 CCGCATTTAA
61921991 ATCCATGAGAATTCTGACTAGCAT
1 ATCCATGAGAATTCTGACTAGCAT
61922015 ATCCATGAGAATTCTGACTAGCAT
1 ATCCATGAGAATTCTGACTAGCAT
61922039 GGAAATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
ATCCATGAGAATTCTGACTAGCAT
Found at i:61935198 original size:22 final size:20
Alignment explanation
Indices: 61935159--61935212 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
61935149 ATTAGTTATT
*
61935159 ATAAAAAAATTATTAGCATG
1 ATAAAAAAATTATAAGCATG
*
61935179 ATAAAAATAATTTATAAGCAAG
1 ATAAAAA-AA-TTATAAGCATG
61935201 -TAATAAAAATTA
1 ATAA-AAAAATTA
61935213 AAATCAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 10 0.34
21 7 0.24
22 12 0.41
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAAAAAAATTATAAGCATG
Found at i:61936671 original size:31 final size:30
Alignment explanation
Indices: 61936607--61936672 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
61936597 ATTTTTTTAG
* *
61936607 TCAAATTAGATACCTGAACTTGACTTTTGGT
1 TCAAATTAGATA-CTGAACTTGACTTATAGT
61936638 TCAAATTAGTATA-TGAACTTGACTTCATAGT
1 TCAAATTAG-ATACTGAACTTGACTT-ATAGT
61936669 TCAA
1 TCAA
61936673 TTAAGTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 12 0.39
31 16 0.52
32 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (30 bp):
TCAAATTAGATACTGAACTTGACTTATAGT
Found at i:61942408 original size:21 final size:21
Alignment explanation
Indices: 61942382--61942422 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61942372 AGACGAGCAA
* *
61942382 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61942403 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61942423 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61951090 original size:12 final size:12
Alignment explanation
Indices: 61951069--61951105 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
61951059 CTTAGGAAAA
61951069 CTGA-ATACCTT
1 CTGAGATACCTT
61951080 CTGAGATACCTT
1 CTGAGATACCTT
61951092 CTGAGATACCTT
1 CTGAGATACCTT
61951104 CT
1 CT
61951106 TAGGTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (12 bp):
CTGAGATACCTT
Found at i:61956931 original size:31 final size:31
Alignment explanation
Indices: 61956878--61956936 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
61956868 ATGATTATTC
**
61956878 AACTATTTGAAAGCTTTCATTTAAGTCACTA
1 AACTATTCAAAAGCTTTCATTTAAGTCACTA
* *
61956909 AACTATTCAAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGCTTTCATTTAAGTCA
61956937 TTAGGTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGCTTTCATTTAAGTCACTA
Found at i:61960191 original size:5 final size:6
Alignment explanation
Indices: 61960176--61960200 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61960166 AAATTAGGTT
61960176 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
61960201 CTTGTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:61976118 original size:86 final size:85
Alignment explanation
Indices: 61976011--61976181 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 85
61976001 AATCCATGCA
61976011 ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
1 ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
61976076 TAGCTAGATCAAGGAAAAGT
66 TAGCTAGATCAAGGAAAAGT
61976096 ACCTGCGAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCA
1 ACCTGC-AAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCA
61976161 GTAGCTAGATCAAGGAAAAGT
65 GTAGCTAGATCAAGGAAAAGT
61976182 GAAGTAAAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 6 0.07
86 79 0.93
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (85 bp):
ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
TAGCTAGATCAAGGAAAAGT
Found at i:61977762 original size:17 final size:17
Alignment explanation
Indices: 61977740--61977773 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61977730 GTTTTAGCAT
*
61977740 ATTTTTTGTATTTTTAA
1 ATTTTTTATATTTTTAA
*
61977757 ATTTTTTATGTTTTTAA
1 ATTTTTTATATTTTTAA
61977774 TTATTATTGG
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:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTATATTTTTAA
Found at i:61986294 original size:6 final size:6
Alignment explanation
Indices: 61986283--61986311 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
61986273 TAAAAGCTAA
61986283 ATCGCC ATCGCC ATCGCC ATCGCC ATCGC
1 ATCGCC ATCGCC ATCGCC ATCGCC ATCGC
61986312 ATACGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCGCC
Found at i:61987022 original size:30 final size:30
Alignment explanation
Indices: 61986958--61987025 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
61986948 ATTAATAATT
*
61986958 TATA-AAAATTAGATCAAATTAAAATTTCA
1 TATATAAAATTAGATCAAAATAAAATTTCA
*
61986987 T-TATAAAATTATA-CAAAATAAAATTT-A
1 TATATAAAATTAGATCAAAATAAAATTTCA
*
61987014 TATATATAATTA
1 TATATAAAATTA
61987026 CGCATTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 2 0.06
28 23 0.68
29 9 0.26
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (30 bp):
TATATAAAATTAGATCAAAATAAAATTTCA
Found at i:61989768 original size:25 final size:25
Alignment explanation
Indices: 61989734--61989783 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61989724 CATATTCCAC
61989734 CACCTACTTAAAAATAACAAATTAA
1 CACCTACTTAAAAATAACAAATTAA
61989759 CACCTACTTAAAAATAACAAATTAA
1 CACCTACTTAAAAATAACAAATTAA
61989784 TCTTGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (25 bp):
CACCTACTTAAAAATAACAAATTAA
Found at i:61999762 original size:16 final size:17
Alignment explanation
Indices: 61999743--61999785 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
61999733 TTTTTATGAT
*
61999743 TTATATATTTAT-TACC
1 TTATATATTTATGTACA
*
61999759 TTATATATATATGTACA
1 TTATATATTTATGTACA
61999776 TATATATATT
1 T-TATATATT
61999786 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACA
Found at i:61999770 original size:48 final size:48
Alignment explanation
Indices: 61999716--61999981 Score: 151
Period size: 48 Copynumber: 5.2 Consensus size: 48
61999706 TTTTTAAGTT
61999716 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
* * ** *
61999764 TATATATGTACA-TA-TATATATTAT-ACTTTCTATACATATTTTATAATTTCTCTA
1 TATATATGTA-ATTATTAT-TTTTATGA--TT-TAT--ATA-TTTATTACCT-TATA
* * * *
61999818 TATATATATAATCATTATCTTTATGATCTATATATTTATTACCTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
** * ** * * *
61999866 TATATATGTACGTATATATATTATACTTTCTTTACATATTTTATAATTTCTATATATA
1 TATATATGTAATTAT-TAT-TTTTA--TGATTT--ATATATT-T-ATTAC-CT-TATA
* * * *
61999924 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
61999972 TATATATGTA
1 TATATATGTA
61999982 CGTATATATA
Statistics
Matches: 158, Mismatches: 38, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
47 4 0.03
48 45 0.28
49 14 0.09
50 12 0.08
51 1 0.01
52 15 0.09
53 9 0.06
54 26 0.16
55 5 0.03
56 7 0.04
57 4 0.03
58 16 0.10
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.53
Consensus pattern (48 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATA
Found at i:61999802 original size:20 final size:20
Alignment explanation
Indices: 61999779--61999829 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
61999769 ATGTACATAT
*
61999779 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* * *
61999799 ATATTTTATAATTTCTCTAT
1 ATATATTATAATTTCTATAC
61999819 ATATA-TATAAT
1 ATATATTATAAT
61999830 CATTATCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:61999867 original size:16 final size:18
Alignment explanation
Indices: 61999846--61999887 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
61999836 CTTTATGATC
61999846 TATATATTTAT-TACCT-
1 TATATATTTATGTACCTA
* *
61999862 TATATATATATGTACGTA
1 TATATATTTATGTACCTA
61999880 TATATATT
1 TATATATT
61999888 ATACTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (18 bp):
TATATATTTATGTACCTA
Found at i:61999904 original size:20 final size:20
Alignment explanation
Indices: 61999881--61999926 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
61999871 ATGTACGTAT
* *
61999881 ATATATTATACTTTCTTTAC
1 ATATATTATAATTTCTATAC
* *
61999901 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
61999921 ATATAT
1 ATATAT
61999927 ATATGTAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:61999951 original size:106 final size:106
Alignment explanation
Indices: 61999716--62000034 Score: 511
Period size: 102 Copynumber: 3.0 Consensus size: 106
61999706 TTTTTAAGTT
* * * *
61999716 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATGTACATATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATATGTACGTATAT
*
61999781 ATATTATACTTTCTATACATATTTTATAATTTC--TCTATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATATATA
61999820 TATATA--TAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATATGTACGTATAT
*
61999883 ATATTATACTTTCTTTACATATTTTATAATTTCTATATATA
66 ATATTATACTTTCTATACATATTTTATAATTTCTATATATA
*
61999924 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATATGTACG--TAT
* *
61999989 ATATATTATACTTTCTATCCATATTTTATAATTTCTATATGTA
64 ATATATTATACTTTCTATACATATTTTATAATTTCTATATATA
62000032 TAT
1 TAT
62000035 TTTTCTTAAT
Statistics
Matches: 199, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
102 85 0.43
104 17 0.09
106 51 0.26
108 46 0.23
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (106 bp):
TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATATGTACGTATAT
ATATTATACTTTCTATACATATTTTATAATTTCTATATATA
Found at i:61999973 original size:16 final size:16
Alignment explanation
Indices: 61999952--62000001 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
61999942 CTTTATGATC
*
61999952 TATATATTTATTAACT
1 TATATATATATTAACT
*
61999968 TATATATATATGT-ACG
1 TATATATATAT-TAACT
61999984 TATATATATATTATACT
1 TATATATATATTA-ACT
62000001 T
1 T
62000002 TCTATCCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.82
17 4 0.14
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATATATATTAACT
Found at i:62000012 original size:20 final size:20
Alignment explanation
Indices: 61999989--62000026 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61999979 GTACGTATAT
*
61999989 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
62000009 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
62000027 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:62000028 original size:54 final size:53
Alignment explanation
Indices: 61999762--62000028 Score: 232
Period size: 52 Copynumber: 5.1 Consensus size: 53
61999752 TATTACCTTA
*
61999762 TATATATATGTAC-ATATATATATTATACTTTCTATACATATTTTATAATTTC
1 TATATATATGTACTATATATATATTATACTTTCTATCCATATTTTATAATTTC
* * * * ** *
61999814 TCTATATA--TA-TATA-AT-CATTAT-CTTTATGATCTATATATTTATTACCTTA
1 TATATATATGTACTATATATATATTATACTTTCT-ATCCATAT-TTTA-TAATTTC
* * *
61999864 TATATATATGTAC-GTATATATATTATACTTTCTTTACATATTTTATAATTTC
1 TATATATATGTACTATATATATATTATACTTTCTATCCATATTTTATAATTTC
* * * * * *
61999916 TATATATATATA-TATGTA-ATCATTAT-CTTTATGATCTATATATTTATTAACTTA
1 TATATATATGTACTATATATAT-ATTATACTTTCT-ATCCATAT-TTTA-TAATTTC
61999970 TATATATATGTACGTATATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATGTAC-TATATATATATTATACTTTCTATCCATATTTTATAATTTC
62000024 TATAT
1 TATAT
62000029 GTATATTTTT
Statistics
Matches: 163, Mismatches: 33, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
47 5 0.03
48 11 0.07
49 6 0.04
50 16 0.10
51 7 0.04
52 39 0.24
53 10 0.06
54 36 0.22
55 9 0.06
56 17 0.10
57 7 0.04
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (53 bp):
TATATATATGTACTATATATATATTATACTTTCTATCCATATTTTATAATTTC
Found at i:62000085 original size:19 final size:19
Alignment explanation
Indices: 62000061--62000100 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
62000051 GAATGTATTA
62000061 TATATATAAA-TATATTTTT
1 TATATA-AAATTATATTTTT
62000080 TATATAAAATTTATATTTTT
1 TATATAAAA-TTATATTTTT
62000100 T
1 T
62000101 CCATAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 6 0.32
20 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATAAAATTATATTTTT
Found at i:62009542 original size:19 final size:20
Alignment explanation
Indices: 62009500--62009544 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62009490 AAAAATAATT
62009500 TAAAATTATTAAAATATTCA
1 TAAAATTATTAAAATATTCA
62009520 -AAAATTA-TAAAA-ATGTCA
1 TAAAATTATTAAAATAT-TCA
62009538 TAAAATT
1 TAAAATT
62009545 CAAAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATTATTAAAATATTCA
Found at i:62009690 original size:31 final size:31
Alignment explanation
Indices: 62009625--62009690 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
62009615 TGAAAACAAC
* *
62009625 AATTCTACTTTTTTTAAAAGGTTGATGGTTA
1 AATTCGACTTTTTTTAAAAGGTTGATGGTCA
62009656 AATTCGACTATTTTTTAAAA-GTTGA-GGATCA
1 AATTCGACT-TTTTTTAAAAGGTTGATGG-TCA
62009687 AATT
1 AATT
62009691 TAGCTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 19 0.61
32 10 0.32
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (31 bp):
AATTCGACTTTTTTTAAAAGGTTGATGGTCA
Found at i:62010973 original size:25 final size:25
Alignment explanation
Indices: 62010926--62010973 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
62010916 TAACTGGAAC
*
62010926 AAAAATTCAAGTATCAAATTGAAAA
1 AAAAATTCAAGTATCAAAGTGAAAA
*
62010951 AAAAATTC-AGATATTAAAGTGAA
1 AAAAATTCAAG-TATCAAAGTGAA
62010974 CATTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (25 bp):
AAAAATTCAAGTATCAAAGTGAAAA
Found at i:62015206 original size:132 final size:132
Alignment explanation
Indices: 62014969--62015636 Score: 1158
Period size: 132 Copynumber: 5.1 Consensus size: 132
62014959 CCATCGTCGG
* * *
62014969 TCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
* * *
62015034 CCTACCAATATAGGAAGACAGGA-CTTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGATA
66 CCTACCAATATAGGAAGATAGGATC-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
62015098 AGA
130 AGA
62015101 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
*
62015166 CCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
66 CCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
62015231 GA
131 GA
62015233 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
* *
62015298 CTTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
66 CCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
62015363 GA
131 GA
* *
62015365 TCTGTTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
* * *
62015430 CCTACCAATATAGGAAAATAGGATCTGCTACCTTCGATCTATTTCACGCCAATACATGAAGACAA
66 CCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
62015495 GA
131 GA
*
62015497 TCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
* * *
62015562 CCTACCAATATAGGAAAATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAAACAA
66 CCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
62015627 GA
131 GA
62015629 TCTGCTTT
1 TCTGCTTT
62015637 AATGACTTCA
Statistics
Matches: 517, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
132 516 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
CCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
GA
Found at i:62015634 original size:44 final size:44
Alignment explanation
Indices: 62014969--62015634 Score: 632
Period size: 44 Copynumber: 15.1 Consensus size: 44
62014959 CCATCGTCGG
* * *
62014969 TCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAAGA
* * *
62015014 TCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAGGA
1 TCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGA
* * * * *
62015057 -CTTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGATAAGA
1 TC-TGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
* * *
62015101 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGA
* * *
62015146 TCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGA
1 TCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGA
* * * *
62015189 TCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
* * *
62015233 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGA
* ** * *
62015278 TCTGC-ATCTTCGATCCACTTCTTACCAATATAGGAAGATAGGA
1 TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
* * * *
62015321 TCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
* * * * *
62015365 TCTGTTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGA
* * * *
62015410 TCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAATAGGA
1 TCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGA
* * * * *
62015453 TCTGCTACCTTCGATCTATTTCACGCCAATACATGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
* * * *
62015497 TCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 TCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGA
* * * *
62015542 TCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAATAGGA
1 TCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGA
* * * * *
62015585 TCTGCTACCTTCGATCTACTTCACGCCAATACATGAAAACAAGA
1 TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
62015629 TCTGCT
1 TCTGCT
62015635 TTAATGACTT
Statistics
Matches: 498, Mismatches: 104, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
42 5 0.01
43 104 0.21
44 293 0.59
45 96 0.19
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
TCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGA
Found at i:62030502 original size:50 final size:50
Alignment explanation
Indices: 62030444--62030548 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
62030434 TTTTAATGTG
62030444 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
62030493 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
62030543 AGTATT
1 AGTATT
62030549 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:62049979 original size:19 final size:20
Alignment explanation
Indices: 62049936--62049981 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62049926 AAAAATAATT
62049936 TAAAATTATTAAAATATTCA
1 TAAAATTATTAAAATATTCA
*
62049956 AAAAATTA-TAAAA-ATGTCA
1 TAAAATTATTAAAATAT-TCA
62049975 TAAAATT
1 TAAAATT
62049982 CAAAACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 7 0.30
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAATTATTAAAATATTCA
Found at i:62050127 original size:31 final size:31
Alignment explanation
Indices: 62050062--62050127 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
62050052 TGAAAACAAC
* *
62050062 AATTCTACTTTTTTTAAAAGGTTGATGGTTA
1 AATTCGACTTTTTTTAAAAGGTTGATGGTCA
62050093 AATTCGACTATTTTTTAAAA-GTTGA-GGATCA
1 AATTCGACT-TTTTTTAAAAGGTTGATGG-TCA
62050124 AATT
1 AATT
62050128 TAGCTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 19 0.61
32 10 0.32
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (31 bp):
AATTCGACTTTTTTTAAAAGGTTGATGGTCA
Found at i:62051376 original size:25 final size:25
Alignment explanation
Indices: 62051329--62051376 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
62051319 TAACTGGAAC
*
62051329 AAAAATTCAAGTATCAAATTGAAAA
1 AAAAATTCAAGTATCAAAGTGAAAA
*
62051354 AAAAATTC-AGATATTAAAGTGAA
1 AAAAATTCAAG-TATCAAAGTGAA
62051377 CATTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (25 bp):
AAAAATTCAAGTATCAAAGTGAAAA
Found at i:62064414 original size:20 final size:20
Alignment explanation
Indices: 62064386--62064424 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62064376 AATGGATTGA
62064386 TTTTAAAAAATTTATTTTAT
1 TTTTAAAAAATTTATTTTAT
*
62064406 TTTTTAAAAATTTATTTTA
1 TTTTAAAAAATTTATTTTA
62064425 AATGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAAAAATTTATTTTAT
Found at i:62067372 original size:18 final size:18
Alignment explanation
Indices: 62067351--62067385 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62067341 TAAAACATTA
62067351 TAAAATAAAAAAATTAAT
1 TAAAATAAAAAAATTAAT
* *
62067369 TAAAATGATAAAATTAA
1 TAAAATAAAAAAATTAA
62067386 AGTTTTGAAA
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:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAATAAAAAAATTAAT
Found at i:62069787 original size:12 final size:12
Alignment explanation
Indices: 62069772--62069799 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62069762 AATTGAGCTG
62069772 TAAATATTTTTA
1 TAAATATTTTTA
62069784 TAAATATTTTTA
1 TAAATATTTTTA
62069796 TAAA
1 TAAA
62069800 CGTCCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:62073965 original size:23 final size:23
Alignment explanation
Indices: 62073939--62073984 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
62073929 AATTCATTGC
62073939 TTCTTAATTGAATTTGATTCTAA
1 TTCTTAATTGAATTTGATTCTAA
62073962 TTCTTAATTGAATTTGATTCTAA
1 TTCTTAATTGAATTTGATTCTAA
62073985 CTTTGTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (23 bp):
TTCTTAATTGAATTTGATTCTAA
Found at i:62076574 original size:39 final size:39
Alignment explanation
Indices: 62076520--62076600 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
62076510 GTTAACAAGT
62076520 TAAGAACAATATACAATCTTATTTTTGAAATATAAAATA
1 TAAGAACAATATACAATCTTATTTTTGAAATATAAAATA
62076559 TAAGAACAATATACAATCTTATTTTTGAAATATAAAATA
1 TAAGAACAATATACAATCTTATTTTTGAAATATAAAATA
62076598 TAA
1 TAA
62076601 TCAGCTCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (39 bp):
TAAGAACAATATACAATCTTATTTTTGAAATATAAAATA
Found at i:62085531 original size:29 final size:30
Alignment explanation
Indices: 62085486--62085542 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
62085476 AAATTGAATC
62085486 AAATCGAAATTTCATGTATAAAAATACACA
1 AAATCGAAATTTCATGTATAAAAATACACA
*
62085516 AAATC-AAAGTTT-ATGTATAAAATTACA
1 AAATCGAAA-TTTCATGTATAAAAATACA
62085543 TATTTGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATCGAAATTTCATGTATAAAAATACACA
Found at i:62086756 original size:30 final size:30
Alignment explanation
Indices: 62086716--62086783 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
62086706 AACCAAAAAA
*
62086716 GGCCGGTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGATTTTTTT-AATAATTTACCGAAATG
* *
62086746 GGCCGA-TTTTTTAATTATTTACCGGAATG
1 GGCCGATTTTTTTAATAATTTACCGAAATG
62086775 GGCC-ATTTT
1 GGCCGATTTT
62086784 CTGCGAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 25 0.76
30 5 0.15
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (30 bp):
GGCCGATTTTTTTAATAATTTACCGAAATG
Found at i:62089354 original size:26 final size:26
Alignment explanation
Indices: 62089325--62089377 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
62089315 ATTAACACTC
* *
62089325 ATCAAATTTACCCTATAACTCGAATT
1 ATCAAATCTACCCTATAACTCAAATT
62089351 ATCAAATCTACCCTATAACTCAAATT
1 ATCAAATCTACCCTATAACTCAAATT
62089377 A
1 A
62089378 AATCATGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.32
Consensus pattern (26 bp):
ATCAAATCTACCCTATAACTCAAATT
Found at i:62090766 original size:21 final size:22
Alignment explanation
Indices: 62090740--62090781 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62090730 CTTGAGGGTC
* *
62090740 AAAGTGATA-AAAATTAAAATT
1 AAAGTGACAGAAAATAAAAATT
62090761 AAAGTGACAGAAAATAAAAAT
1 AAAGTGACAGAAAATAAAAAT
62090782 AAACATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (22 bp):
AAAGTGACAGAAAATAAAAATT
Found at i:62090784 original size:21 final size:21
Alignment explanation
Indices: 62090740--62090784 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
62090730 CTTGAGGGTC
* *
62090740 AAAGTGATAAAAATTAAAATT
1 AAAGTGACAAAAATTAAAAAT
62090761 AAAGTGACAGAAAA-TAAAAAT
1 AAAGTGACA-AAAATTAAAAAT
62090782 AAA
1 AAA
62090785 CATTAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAGTGACAAAAATTAAAAAT
Found at i:62090867 original size:23 final size:23
Alignment explanation
Indices: 62090837--62090883 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62090827 CAAGTTCATA
62090837 TTTTTATTTGACAACTGATACGT
1 TTTTTATTTGACAACTGATACGT
62090860 TTTTTATTTGACAACTGATACGT
1 TTTTTATTTGACAACTGATACGT
62090883 T
1 T
62090884 ATCAGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (23 bp):
TTTTTATTTGACAACTGATACGT
Found at i:62091263 original size:33 final size:35
Alignment explanation
Indices: 62091200--62091272 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 35
62091190 ATCATGTTTT
*
62091200 ATATTAAAAATATTTTCTTGTAATATTTATT-AA-
1 ATATTAAAAATATTTTATTGTAATATTTATTGAAC
* *
62091233 ATATTAAAAGTATTTGTATTTTAATA-TTATTGAAC
1 ATATTAAAAATATTT-TATTGTAATATTTATTGAAC
62091268 ATATT
1 ATATT
62091273 GAACTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 19 0.56
34 10 0.29
35 5 0.15
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (35 bp):
ATATTAAAAATATTTTATTGTAATATTTATTGAAC
Found at i:62099939 original size:12 final size:12
Alignment explanation
Indices: 62099919--62100041 Score: 149
Period size: 12 Copynumber: 10.2 Consensus size: 12
62099909 AGGACCTGCT
62099919 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
62099931 AAGGAAGAAAA-
1 AAAGAAGAAAAG
62099942 AAAGGAAGAAAAG
1 AAA-GAAGAAAAG
*
62099955 AAAGAGGAAAAG
1 AAAGAAGAAAAG
* *
62099967 AAAGAGGAGAAG
1 AAAGAAGAAAAG
*
62099979 AAAGAAGAGAAG
1 AAAGAAGAAAAG
* *
62099991 AAGGAAGAGAAG
1 AAAGAAGAAAAG
*
62100003 AAAGAGGAAAAG
1 AAAGAAGAAAAG
62100015 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
62100027 AAGGAAGAAAAG
1 AAAGAAGAAAAG
62100039 AAA
1 AAA
62100042 TAAATTAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
11 2 0.02
12 92 0.95
13 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:62100717 original size:14 final size:14
Alignment explanation
Indices: 62100700--62100726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62100690 TAAAATTTCT
62100700 TATTGAAAAGAAAC
1 TATTGAAAAGAAAC
62100714 TATTGAAAAGAAA
1 TATTGAAAAGAAA
62100727 GGAAAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (14 bp):
TATTGAAAAGAAAC
Found at i:62101218 original size:29 final size:28
Alignment explanation
Indices: 62101185--62101246 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
62101175 TATACTTTAT
62101185 TTAAACAAA-TCATTATATTATTTTTATAA
1 TTAAACAAATTC-TTA-ATTATTTTTATAA
* *
62101214 TTAAATAAATTCTTAATTATTTTTGTAA
1 TTAAACAAATTCTTAATTATTTTTATAA
62101242 TTAAA
1 TTAAA
62101247 TAAACCCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 17 0.57
29 11 0.37
30 2 0.07
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAAACAAATTCTTAATTATTTTTATAA
Found at i:62101258 original size:28 final size:28
Alignment explanation
Indices: 62101201--62101259 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
62101191 AAATCATTAT
** *
62101201 ATTATTTTTATAATTAAATAAATTCTTA
1 ATTATTTTTATAATTAAATAAACCCCTA
*
62101229 ATTATTTTTGTAATTAAATAAACCCCTA
1 ATTATTTTTATAATTAAATAAACCCCTA
62101257 ATT
1 ATT
62101260 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTATTTTTATAATTAAATAAACCCCTA
Found at i:62106245 original size:7 final size:7
Alignment explanation
Indices: 62106226--62106291 Score: 55
Period size: 7 Copynumber: 9.1 Consensus size: 7
62106216 AAGCAACCGT
62106226 AAATGGG
1 AAATGGG
62106233 -AATGGG
1 AAATGGG
62106239 AAATGGG
1 AAATGGG
*
62106246 AGAAGGGG
1 A-AATGGG
*
62106254 AATTGATGG
1 AAATG--GG
*
62106263 AAGAGGGG
1 AA-ATGGG
62106271 AAATGGG
1 AAATGGG
62106278 -AATGGG
1 AAATGGG
62106284 AAATGGG
1 AAATGGG
62106291 A
1 A
62106292 GGAGGGCACG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
6 12 0.26
7 20 0.43
8 10 0.21
9 4 0.09
10 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (7 bp):
AAATGGG
Found at i:62106493 original size:29 final size:30
Alignment explanation
Indices: 62106361--62106604 Score: 422
Period size: 30 Copynumber: 8.2 Consensus size: 30
62106351 CATTGTATTT
62106361 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
62106391 ATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
62106421 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
62106451 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
62106481 GTGTATTTTAAAAAT-AAAAAATATATTTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
62106510 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
62106539 CTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
62106568 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
62106598 CTGTATT
1 GTGTATT
62106605 CGGTTTATTC
Statistics
Matches: 204, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
29 83 0.41
30 121 0.59
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:62107444 original size:16 final size:16
Alignment explanation
Indices: 62107409--62107465 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
62107399 TTTAAATAAC
*
62107409 TTCTATTATATATCAA
1 TTCTAATATATATCAA
62107425 TTCTAATATGA-AT-AA
1 TTCTAATAT-ATATCAA
*
62107440 CTTCTATTATATATCAA
1 -TTCTAATATATATCAA
62107457 TTCTAATAT
1 TTCTAATAT
62107466 GATGTCCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (16 bp):
TTCTAATATATATCAA
Found at i:62107444 original size:32 final size:32
Alignment explanation
Indices: 62107403--62107467 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
62107393 AAATAATTTA
62107403 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
62107435 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
62107467 A
1 A
62107468 TGTCCTTAAT
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:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAACTTCTATTATATATCAATTCTAATATG
Found at i:62116156 original size:156 final size:154
Alignment explanation
Indices: 62115704--62116170 Score: 612
Period size: 156 Copynumber: 3.0 Consensus size: 154
62115694 TCAAGACTAT
* *
62115704 GTCACAATTCAATGATCTTGCTTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAAATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAG-AAATGCTG
* * * * *
62115769 GACCTGAGGCCATGTCTTCCAATCCAAAGGCTGAGTTACCGAATGTTTCATCTGGTCGTTCAGTT
65 GACCTGCGGCCATGTCTT-CAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
* *
62115834 GAAGCATGTGAATCCGCTGGTCTACA
129 GAAGCATGTGCATCCACTGGTCTACA
* ** *
62115860 GTCACAAGTCAATGGTCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGTGCTAGAGAAGATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAA-ATGCTG
* * * * * *
62115925 CACCTGCGGCCAGGTCTTTTAGCCGAAAGGCTGAATCACCCAATGGTTT-ATCTGGTCATTCAGT
65 GACCTGCGGCCATGTC-TTCAACCCAAAGGCTGAATTACCCAAT-GTTTCATCTGGTCATTCAGT
* * *
62115989 TGAAGCATGTGCTTACACTGGTCTACC
128 TGAAGCATGTGCATCCACTGGTCTACA
* *
62116016 GTTACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCACTAGAGATAATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGA-AATGCTG
* *
62116081 GATCTGCGGCCATGTCATTCAACCCAAGGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
65 GACCTGCGGCCATGTC-TTCAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
* *
62116146 GAAGCATGTGCGTCCACGGGTCTAC
129 GAAGCATGTGCATCCACTGGTCTAC
62116171 TATTGCAGCA
Statistics
Matches: 266, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
155 6 0.02
156 253 0.95
157 7 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (154 bp):
GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAATGCTGG
ACCTGCGGCCATGTCTTCAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTTGA
AGCATGTGCATCCACTGGTCTACA
Found at i:62138102 original size:38 final size:38
Alignment explanation
Indices: 62138018--62138112 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
62138008 TATACGTACT
*
62138018 TATACATACTTAAATATATTTTTCATATTTCTTAATTC
1 TATACATACTTAAATATATTTTGCATATTTCTTAATTC
* *
62138056 T-TATATACTTACATATATTTATGCATA-TT-TT-ATATC
1 TATACATACTTAAATATATTT-TGCATATTTCTTAAT-TC
*
62138092 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
62138113 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 2 0.04
36 4 0.08
37 20 0.42
38 22 0.46
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.52
Consensus pattern (38 bp):
TATACATACTTAAATATATTTTGCATATTTCTTAATTC
Found at i:62140653 original size:4 final size:4
Alignment explanation
Indices: 62140644--62140673 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
62140634 TCATTAGTTC
62140644 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
62140674 GTGTTGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:62165997 original size:122 final size:124
Alignment explanation
Indices: 62165832--62166058 Score: 307
Period size: 122 Copynumber: 1.8 Consensus size: 124
62165822 TTAGTTTTTC
* * * *
62165832 TCTTTAAGCTTCTTTGTGTTTTTTTGAGTTTGATAGTTTATTAAAATTTGGTGTATAATGTCA-A
1 TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATT-AAACTTGCTGTATAATGTCAGA
* *
62165896 AAGGCAATCAACTAGCATAGTTTTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
65 AAGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
* * *
62165956 TCTTTGAGCTTCTTTGTG-CTTCTT-AGTTTGGTAGTTTATTAAACTTGCTTTATAATGTCAGAA
1 TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATTAAACTTGCTGTATAATGTCAGAA
* * * *
62166019 CGGTAATCAACCAGCGTAGTTCTAGAGTAATTTGCATTGT
66 AGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGT
62166059 AAGTGGCTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 17 0.19
122 51 0.57
123 4 0.04
124 17 0.19
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (124 bp):
TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATTAAACTTGCTGTATAATGTCAGAA
AGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
Found at i:62168285 original size:10 final size:9
Alignment explanation
Indices: 62168256--62168281 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
62168246 ATTTTATATT
62168256 AATATTTTA
1 AATATTTTA
62168265 AATATTTTA
1 AATATTTTA
62168274 AATATTTT
1 AATATTTT
62168282 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:62168364 original size:25 final size:25
Alignment explanation
Indices: 62168336--62168385 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
62168326 TTGATTTAAG
*
62168336 TTAATTTTTATATAAAAGTAAAATT
1 TTAATTTTTAAATAAAAGTAAAATT
62168361 TTAATTTTTAAATAAAAGTAAAATT
1 TTAATTTTTAAATAAAAGTAAAATT
62168386 ATCTATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAATTTTTAAATAAAAGTAAAATT
Found at i:62168644 original size:25 final size:25
Alignment explanation
Indices: 62168616--62168663 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
62168606 CAAAGGATAT
62168616 TGAGTTGTTGTATAAGCATTGTGGG
1 TGAGTTGTTGTATAAGCATTGTGGG
62168641 TGAGTTGTTGTATAAGCATTGTG
1 TGAGTTGTTGTATAAGCATTGTG
62168664 AGAGTGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.04, G:0.33, T:0.42
Consensus pattern (25 bp):
TGAGTTGTTGTATAAGCATTGTGGG
Found at i:62176989 original size:33 final size:35
Alignment explanation
Indices: 62176951--62177048 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
62176941 ATGGTTATAT
62176951 TTAAATATTTAAAATATAATTCATATATT-C-TAA
1 TTAAATATTTAAAATATAATTCATATATTACTTAA
* *
62176984 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATTCATA--TATTACTTAA
*
62177019 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAA--TATAATTCATATATTA
62177049 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 9 0.17
32 6 0.12
33 14 0.27
34 7 0.13
35 8 0.15
37 8 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTCATATATTACTTAA
Found at i:62177038 original size:30 final size:30
Alignment explanation
Indices: 62176999--62177055 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
62176989 TTTTATAAAT
62176999 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
62177029 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
62177056 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:62183748 original size:29 final size:28
Alignment explanation
Indices: 62183679--62183748 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
62183669 AAGCTGTAAG
*
62183679 TAAAAAA-AATAATTATTTTATAATTTT
1 TAAAAAAGGATAATTATTTTATAATTTT
* ** *
62183706 TATAATTGGATAATTATTTATCTAATTTT
1 TAAAAAAGGATAATTATTT-TATAATTTT
*
62183735 TAAAAAAGGTTAAT
1 TAAAAAAGGATAAT
62183749 GAGTAAAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
27 4 0.12
28 10 0.31
29 18 0.56
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (28 bp):
TAAAAAAGGATAATTATTTTATAATTTT
Found at i:62195283 original size:22 final size:22
Alignment explanation
Indices: 62195255--62195309 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
62195245 TTGCCCATCG
62195255 ACCTTTAAAAATGTGACCTTCA
1 ACCTTTAAAAATGTGACCTTCA
*
62195277 ACCTTTAAAAATGTGACCTTTA
1 ACCTTTAAAAATGTGACCTTCA
62195299 ACCTTTAAAAA
1 ACCTTTAAAAA
62195310 ATATGCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (22 bp):
ACCTTTAAAAATGTGACCTTCA
Found at i:62201338 original size:50 final size:50
Alignment explanation
Indices: 62201223--62201465 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
62201213 GATAATAACA
* ** * *
62201223 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
62201274 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
62201324 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
62201374 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
62201424 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
62201466 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 145 0.81
51 33 0.19
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:62201581 original size:13 final size:13
Alignment explanation
Indices: 62201560--62201590 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
62201550 GCTTAGATCA
*
62201560 TCATCAAATAAAT
1 TCATAAAATAAAT
62201573 TCATAAAATAAAT
1 TCATAAAATAAAT
62201586 TCATA
1 TCATA
62201591 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:62201838 original size:30 final size:30
Alignment explanation
Indices: 62201803--62201860 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
62201793 CCTCCACTCT
*
62201803 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* **
62201833 AACTTTTACATAATTACTTTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
62201861 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:62205454 original size:15 final size:15
Alignment explanation
Indices: 62205434--62205467 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
62205424 TAATTCTGTA
*
62205434 GGAGCCATACGATAT
1 GGAGCCATACGATAC
62205449 GGAGCCATACGATAC
1 GGAGCCATACGATAC
62205464 GGAG
1 GGAG
62205468 TTATGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.15
Consensus pattern (15 bp):
GGAGCCATACGATAC
Found at i:62208939 original size:50 final size:49
Alignment explanation
Indices: 62208814--62209052 Score: 338
Period size: 50 Copynumber: 4.8 Consensus size: 49
62208804 GATAATAACA
* * ** * *
62208814 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGA-CCTCTCATCTCGG
*
62208864 TGCC-ATGCCATGT-CCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATCTCGG
* *
62208912 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATCTCGG
*
62208962 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCATCTCGG
62209011 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCT
62209053 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
48 29 0.17
49 66 0.39
50 75 0.44
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCATCTCGG
Found at i:62209024 original size:99 final size:97
Alignment explanation
Indices: 62208814--62209052 Score: 354
Period size: 99 Copynumber: 2.4 Consensus size: 97
62208804 GATAATAACA
** * *
62208814 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGATGTTCTCATGTTGGTGCCATGCCATGTCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGA-CCTCTCATCTCGGTGCCATGCCATGTCC
*
62208879 AGACATGGTCTTATAGGGGACCTCTCATCTCGG
65 AGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
62208912 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATG-GACCTCTCATCTCGGTGCC-ATGCCATGT-
*
62208977 CCAGACATGGTCTTACA-TGGACCTCTCATCTCGG
63 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
62209011 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGACCTCT
62209053 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
98 46 0.36
99 66 0.51
100 17 0.13
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (97 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCATGCCATGTCCA
GACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:62209168 original size:13 final size:13
Alignment explanation
Indices: 62209147--62209177 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
62209137 GCTTAGATCA
*
62209147 TCATCAAATAAAT
1 TCATAAAATAAAT
62209160 TCATAAAATAAAT
1 TCATAAAATAAAT
62209173 TCATA
1 TCATA
62209178 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:62209422 original size:29 final size:30
Alignment explanation
Indices: 62209390--62209446 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
62209380 CATCGACTCT
62209390 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
62209419 AACTTTTACATAATTACATTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
62209447 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:62227956 original size:16 final size:17
Alignment explanation
Indices: 62227932--62227973 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
62227922 TTCATATATA
* *
62227932 TATAGACAATCCT-CTT
1 TATAAACAATCATCCTT
62227948 TATAAACAATCATCCTT
1 TATAAACAATCATCCTT
62227965 TAT-AACAAT
1 TATAAACAAT
62227974 ATTTCATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.36
Consensus pattern (17 bp):
TATAAACAATCATCCTT
Found at i:62233206 original size:41 final size:41
Alignment explanation
Indices: 62233144--62233285 Score: 151
Period size: 41 Copynumber: 3.4 Consensus size: 41
62233134 CTTTGAATGT
*
62233144 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
* * *
62233185 AAGGGGTTGCTAAGTGCAGATTCCCC-AGATTATTGATTATA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA-ATCATTGATCAAA
* * * ***
62233226 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAA
62233270 AAGGGGTTGCTAAGTG
1 AAGGGGTTGCTAAGTG
62233286 TTGACTCCAC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 39 0.46
42 19 0.22
43 20 0.24
44 6 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
Found at i:62233323 original size:44 final size:44
Alignment explanation
Indices: 62233227--62233429 Score: 277
Period size: 44 Copynumber: 4.6 Consensus size: 44
62233217 TTGATTATAA
* ***
62233227 AGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGATTGTG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* * *
62233269 AAAGG-GGTTGCTAAGTGTTGACTCCACCGAGATCCTTTGAACATG
1 --AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
*
62233314 AGGTGGTTGCTAAGTGCTGATTCCATCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* *
62233358 AGGTGGTTGCTAAATGCTAATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
62233402 AGGTGGTTGCTAAGTGCTGATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
62233430 TGTAACGATT
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 24 0.17
44 110 0.79
45 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (44 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
Found at i:62239754 original size:56 final size:57
Alignment explanation
Indices: 62239664--62239783 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 57
62239654 ATATACAAAT
*
62239664 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGATTAA
1 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
* * *
62239721 TTATA-AAAATTATAATAGTTTTAGCTCAGTTTTTATCTAATCGCCTATTTGACTAA
1 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
62239777 TTA-ACAA
1 TTATACAA
62239784 TTGTAGTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 1 0.02
56 52 0.90
57 5 0.09
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
Found at i:62246305 original size:24 final size:24
Alignment explanation
Indices: 62246277--62246345 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
62246267 AATGGATATT
* * *
62246277 AAAAATAAATTTCTAATTTTTTATC
1 AAAAATAAATTCCTAA-TTTTCACC
62246302 AAAAATAAATTCCTAATTTTCACC
1 AAAAATAAATTCCTAATTTTCACC
62246326 AAAATAAATAAATTCCTAAT
1 --AA-AAATAAATTCCTAAT
62246346 GACTTATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 6 0.16
25 15 0.39
26 2 0.05
27 15 0.39
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATAAATTCCTAATTTTCACC
Found at i:62246519 original size:7 final size:8
Alignment explanation
Indices: 62246491--62246516 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
62246481 CTAAACTTAG
62246491 TTTATAAT
1 TTTATAAT
62246499 TTTATAAT
1 TTTATAAT
62246507 TTTATAAT
1 TTTATAAT
62246515 TT
1 TT
62246517 ATATTTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATAAT
Found at i:62248382 original size:21 final size:20
Alignment explanation
Indices: 62248344--62248385 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
62248334 TTGTTTTTAT
62248344 ATTATAAAAAATTAAAAATA
1 ATTATAAAAAATTAAAAATA
62248364 ATTATAAATTAAA-TAAAAATA
1 ATTATAAA--AAATTAAAAATA
62248385 A
1 A
62248386 AACCCGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 9 0.45
22 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTATAAAAAATTAAAAATA
Found at i:62249421 original size:16 final size:17
Alignment explanation
Indices: 62249382--62249422 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
62249372 ATAATAAAAA
62249382 TATAATTTTATTATTTT
1 TATAATTTTATTATTTT
*
62249399 AAT-ATTTTA-TATTTT
1 TATAATTTTATTATTTT
62249414 TATAATTTT
1 TATAATTTT
62249423 TAAATGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:62250915 original size:31 final size:32
Alignment explanation
Indices: 62250866--62250925 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
62250856 AGTTATAACG
*
62250866 TTTTAGGTAATTTCTATTTTAG-TCACTCATA
1 TTTTAGATAATTTCTATTTTAGATCACTCATA
* * *
62250897 TTTTAGATTATTTTTATTTTTGATCACTC
1 TTTTAGATAATTTCTATTTTAGATCACTC
62250926 TCTATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTTAGATAATTTCTATTTTAGATCACTCATA
Found at i:62251135 original size:20 final size:20
Alignment explanation
Indices: 62251073--62251133 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
62251063 AAATTGATCC
62251073 TTAAACACATATAATTAAA-
1 TTAAACACATATAATTAAAT
* * *
62251092 -TATA-A-TTATAATTATAT
1 TTAAACACATATAATTAAAT
62251109 TTAAACACATATAATTAAAT
1 TTAAACACATATAATTAAAT
62251129 CTTAA
1 -TTAA
62251134 CAAACTTGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 9 0.29
17 1 0.03
18 6 0.19
19 1 0.03
20 10 0.32
21 4 0.13
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAACACATATAATTAAAT
Found at i:62251286 original size:31 final size:29
Alignment explanation
Indices: 62251248--62251317 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
62251238 ATCCCAAAAT
*
62251248 TATACATGAACTATGGTTTAATATGCAATTG
1 TATACATGAACTATGATTT--TATGCAATTG
* *
62251279 TATACATGAACTTTGATTTTATGCAATTT
1 TATACATGAACTATGATTTTATGCAATTG
62251308 TATACATGAA
1 TATACATGAA
62251318 AATTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTATGCAATTG
Found at i:62251485 original size:33 final size:31
Alignment explanation
Indices: 62251448--62251515 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
62251438 TATTTATTTC
* *
62251448 TTTAAATATGTATGATTAAATCAAAATTAAAGT
1 TTTAAATATATAT--TTAAACCAAAATTAAAGT
* * *
62251481 TTTAAGTATATATTTAAACCACAATTAGAGT
1 TTTAAATATATATTTAAACCAAAATTAAAGT
62251512 TTTA
1 TTTA
62251516 CGTGTTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 19 0.63
33 11 0.37
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTAAATATATATTTAAACCAAAATTAAAGT
Found at i:62253499 original size:41 final size:41
Alignment explanation
Indices: 62253442--62253523 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
62253432 TTTTCAGATG
62253442 TATGCCATCGTAGCATGATTGGAGAATGGCTGAACATTTTC
1 TATGCCATCGTAGCATGATTGGAGAATGGCTGAACATTTTC
62253483 TATGCCATCGTAGCATGATTGGAGAATGGCTGAACATTTTC
1 TATGCCATCGTAGCATGATTGGAGAATGGCTGAACATTTTC
62253524 GGTTTCTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
TATGCCATCGTAGCATGATTGGAGAATGGCTGAACATTTTC
Found at i:62257600 original size:24 final size:24
Alignment explanation
Indices: 62257568--62257614 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
62257558 TGCAGAGGGA
62257568 TTTTCTTTTCTATTTGTTTGTTTC
1 TTTTCTTTTCTATTTGTTTGTTTC
*
62257592 TTTTCTTTTCTTTTTGTTTGTTT
1 TTTTCTTTTCTATTTGTTTGTTT
62257615 ATTTCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTCTTTTCTATTTGTTTGTTTC
Found at i:62258798 original size:23 final size:23
Alignment explanation
Indices: 62258753--62258799 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
62258743 CTTTAGGGTG
* *
62258753 AAAATTAATTATATCTTATTATT
1 AAAATTAATTATATCATAATATT
62258776 AAAATTAATTATAAT-ATAATATT
1 AAAATTAATTAT-ATCATAATATT
62258799 A
1 A
62258800 GTATATTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATTAATTATATCATAATATT
Found at i:62264043 original size:16 final size:17
Alignment explanation
Indices: 62264022--62264065 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
62264012 TCTTTTTCTC
62264022 CTGTTTTGTTTCTA-TT
1 CTGTTTTGTTTCTATTT
*
62264038 CTG-TTTCTTTCTATTT
1 CTGTTTTGTTTCTATTT
62264054 CT-TTTTGTTTCT
1 CTGTTTTGTTTCT
62264066 TTTATTCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
CTGTTTTGTTTCTATTT
Found at i:62264100 original size:7 final size:7
Alignment explanation
Indices: 62264088--62264153 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
62264078 ATTTACTTAT
62264088 TATAATA
1 TATAATA
62264095 TATAATA
1 TATAATA
62264102 TAATATATA
1 T-ATA-ATA
62264111 TACTTAATA
1 TA--TAATA
*
62264120 -ATTAAGA
1 TA-TAATA
62264127 TATAATA
1 TATAATA
62264134 TTATAATA
1 -TATAATA
62264142 TTATAATA
1 -TATAATA
62264150 TATA
1 TATA
62264154 TTTTAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:62264115 original size:30 final size:31
Alignment explanation
Indices: 62264075--62264153 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
62264065 TTTTATTCAG
*
62264075 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
62264105 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
62264132 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
62264154 TTTTAACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:62264140 original size:8 final size:8
Alignment explanation
Indices: 62264085--62264150 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
62264075 TATATTTACT
62264085 TATTATAA
1 TATTATAA
62264093 TA-TATAA
1 TATTATAA
*
62264100 TATAAT-A
1 TATTATAA
62264107 TATATACTTAA
1 TAT-TA--TAA
*
62264118 TAAT-TAA
1 TATTATAA
*
62264125 GA-TATAA
1 TATTATAA
62264132 TATTATAA
1 TATTATAA
62264140 TATTATAA
1 TATTATAA
62264148 TAT
1 TAT
62264151 ATATTTTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:62266875 original size:19 final size:20
Alignment explanation
Indices: 62266835--62266880 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62266825 ATTAATTATT
*
62266835 TATAAAATTTAATTAGAATA
1 TATAAAATATAATTAGAATA
*
62266855 TATAAAATATATTTA-AATA
1 TATAAAATATAATTAGAATA
62266874 TA-AAAAT
1 TATAAAAT
62266881 TAAATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATAAAATATAATTAGAATA
Found at i:62267214 original size:22 final size:21
Alignment explanation
Indices: 62267189--62267232 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
62267179 AAGCATATGA
*
62267189 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
62267211 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
62267232 A
1 A
62267233 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:62268188 original size:8 final size:9
Alignment explanation
Indices: 62268171--62268232 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 9
62268161 TTTTATTCAT
62268171 TTATTCATTA
1 TTATT-ATTA
62268181 TTA-TATTA
1 TTATTATTA
62268189 TTA-TATTA
1 TTATTATTA
*
62268197 -TACTATTA
1 TTATTATTA
*
62268205 GTTCTGTATTA
1 -TTAT-TATTA
62268216 TTATTATTA
1 TTATTATTA
62268225 TTATTATT
1 TTATTATT
62268233 TACTCATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.04
8 17 0.38
9 14 0.31
10 7 0.16
11 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (9 bp):
TTATTATTA
Found at i:62268190 original size:3 final size:3
Alignment explanation
Indices: 62268171--62268232 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
62268161 TTTTATTCAT
* *
62268171 TTA TTCA TTA TTA -TA TTA TTA -TA TTA -TA CTA TTA GTTC TGTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA
62268216 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
62268233 TACTCATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
2 6 0.12
3 37 0.74
4 7 0.14
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:62268968 original size:72 final size:70
Alignment explanation
Indices: 62268851--62268993 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 70
62268841 TCTTTTCAAA
*
62268851 CTCAAGTATTAAACGATCTCAGAAATCAAGAAGAGATCATGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTATTAAACGATCTCAGAAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGAT--C
62268916 CTTTTTT
64 CTTTTTT
* * * *
62268923 CTCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTATTAAACGATCTCAGAAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCT
62268988 TTTTT
66 TTTTT
62268993 C
1 C
62268994 AAACCCGAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 9 0.14
72 57 0.86
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (70 bp):
CTCAAGTATTAAACGATCTCAGAAATCAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCCT
TTTTT
Found at i:62272859 original size:33 final size:33
Alignment explanation
Indices: 62272817--62272884 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
62272807 CTTCTTGAGT
62272817 AAATGAGGTAAAATGCAATCCAACTCTTAATAC
1 AAATGAGGTAAAATGCAATCCAACTCTTAATAC
62272850 AAATGAGGTAAAATGCAATCCAACTCTTAATAC
1 AAATGAGGTAAAATGCAATCCAACTCTTAATAC
62272883 AA
1 AA
62272885 GGGCTTCCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (33 bp):
AAATGAGGTAAAATGCAATCCAACTCTTAATAC
Found at i:62274738 original size:16 final size:16
Alignment explanation
Indices: 62274714--62274744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62274704 GCAAGCAAAA
62274714 ATACATACATACATAT
1 ATACATACATACATAT
*
62274730 ATACCTACATACATA
1 ATACATACATACATA
62274745 CAATCCCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACATACATACATAT
Found at i:62277980 original size:18 final size:18
Alignment explanation
Indices: 62277957--62278049 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
62277947 TACGACCGTT
62277957 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
62277975 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
62277993 TACAGTACTATTCAAGTA
1 TACGGCACTATTCACGTA
62278011 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
62278029 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
62278047 TAC
1 TAC
62278050 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:62278012 original size:36 final size:36
Alignment explanation
Indices: 62277963--62278049 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
62277953 CGTTTACGGC
62277963 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
62277999 ACTATTCAAGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
62278035 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
62278050 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:62283892 original size:38 final size:39
Alignment explanation
Indices: 62283792--62283919 Score: 204
Period size: 38 Copynumber: 3.3 Consensus size: 39
62283782 TTAAAAATAT
*
62283792 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACGA--ATAAATATAATAAATATTTTA
62283833 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
*
62283872 TTATATT-AAAAACACGAATAAATATAATAAATATTTTT
1 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
*
62283910 TTAAATTAAA
1 TTATATTAAA
62283920 TATTCTTTTA
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
38 36 0.43
39 30 0.36
41 17 0.20
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (39 bp):
TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
Found at i:62283921 original size:17 final size:17
Alignment explanation
Indices: 62283899--62283931 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62283889 ATAAATATAA
*
62283899 TAAATATTTTTTTAAAT
1 TAAATATTCTTTTAAAT
62283916 TAAATATTCTTTTAAA
1 TAAATATTCTTTTAAA
62283932 AATTTTATAT
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:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATATTCTTTTAAAT
Found at i:62287161 original size:9 final size:9
Alignment explanation
Indices: 62287142--62287194 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
62287132 TTAATTAAAT
62287142 AAATTATTAA
1 AAATTA-TAA
62287152 AAATTATAA
1 AAATTATAA
62287161 AAA-T-TAA
1 AAATTATAA
* *
62287168 AAACTAAAA
1 AAATTATAA
62287177 AAATTA-AA
1 AAATTATAA
62287185 AAA-TATAA
1 AAATTATAA
62287193 AA
1 AA
62287195 TCCCGATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.21
8 11 0.29
9 13 0.34
10 6 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATTATAA
Found at i:62287166 original size:16 final size:16
Alignment explanation
Indices: 62287147--62287194 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
62287137 TAAATAAATT
*
62287147 ATTAAAAATTATAAAA
1 ATTAAAAAATATAAAA
* *
62287163 ATTAAAAACTAAAAAA
1 ATTAAAAAATATAAAA
62287179 ATTAAAAAATATAAAA
1 ATTAAAAAATATAAAA
62287195 TCCCGATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAAAAAATATAAAA
Found at i:62287978 original size:15 final size:15
Alignment explanation
Indices: 62287958--62288035 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
62287948 TTTATGGAAA
62287958 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
62287973 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
62287987 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
62288003 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
62288017 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
62288033 ATC
1 ATC
62288036 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:62287995 original size:30 final size:30
Alignment explanation
Indices: 62287954--62288035 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
62287944 CATATTTATG
*
62287954 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
62287984 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
62288014 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
62288036 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:62292640 original size:15 final size:15
Alignment explanation
Indices: 62292620--62292727 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
62292610 TTTATGGAAA
62292620 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
62292635 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
62292649 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
62292665 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
62292679 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
62292695 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
62292709 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
62292725 ATC
1 ATC
62292728 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:62292657 original size:30 final size:30
Alignment explanation
Indices: 62292614--62292737 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
62292604 TCCATATTTA
* *
62292614 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
62292644 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
62292674 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
62292704 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
62292735 TGG
1 TGG
62292738 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:62294554 original size:390 final size:390
Alignment explanation
Indices: 62293835--62294621 Score: 1556
Period size: 390 Copynumber: 2.0 Consensus size: 390
62293825 CTTAATCGTT
*
62293835 TTAAATTCTATATTTTCAGGTATGGTTCATTGCTTTAAAACGAGTTTGGTTGGTCGACAGATTGT
1 TTAAATTCTATATTTTCAGGTATGGTTCATTGCTTTAAAACGAGTTTGGTTGGTCGACAGATTGC
62293900 TGTTTCCACTGATCCTGATGTCAACCATTTCATTTTCCAACAAGAAGGGAAACTGGTGCAAAGCT
66 TGTTTCCACTGATCCTGATGTCAACCATTTCATTTTCCAACAAGAAGGGAAACTGGTGCAAAGCT
62293965 GGTACATGGACAAATTTGATGATATCATTGGCAAGGATAATGTTTTATCCAGCCATGGATTTCTC
131 GGTACATGGACAAATTTGATGATATCATTGGCAAGGATAATGTTTTATCCAGCCATGGATTTCTC
62294030 CACAAGTATCTCAGGAATTTGATTTTGAACCTGTTTGGCTCCGAATACTTGAAAACAAAACATGT
196 CACAAGTATCTCAGGAATTTGATTTTGAACCTGTTTGGCTCCGAATACTTGAAAACAAAACATGT
62294095 TTCCGAAATAGAGGAATTAACAAGCAAACATCTACAGTTATGGTCTTGTCAACAACCTTCAGTGG
261 TTCCGAAATAGAGGAATTAACAAGCAAACATCTACAGTTATGGTCTTGTCAACAACCTTCAGTGG
62294160 AATTGAAACAGGCTATATCAACTGTATTATAACTTTGGTTCCAAGTTCCAACACACTTTATTTGA
326 AATTGAAACAGGCTATATCAACTGTATTATAACTTTGGTTCCAAGTTCCAACACACTTTATTTGA
62294225 TTAAATTCTATATTTTCAGGTATGGTTCATTGCTTTAAAACGAGTTTGGTTGGTCGACAGATTGC
1 TTAAATTCTATATTTTCAGGTATGGTTCATTGCTTTAAAACGAGTTTGGTTGGTCGACAGATTGC
62294290 TGTTTCCACTGATCCTGATGTCAACCATTTCATTTTCCAACAAGAAGGGAAACTGGTGCAAAGCT
66 TGTTTCCACTGATCCTGATGTCAACCATTTCATTTTCCAACAAGAAGGGAAACTGGTGCAAAGCT
62294355 GGTACATGGACAAATTTGATGATATCATTGGCAAGGATAATGTTTTATCCAGCCATGGATTTCTC
131 GGTACATGGACAAATTTGATGATATCATTGGCAAGGATAATGTTTTATCCAGCCATGGATTTCTC
*
62294420 CACAAGTATCTCAGGAATTTGATTTTGAACCTGTTTGGCTCCGAATCCTTGAAAACAAAACATGT
196 CACAAGTATCTCAGGAATTTGATTTTGAACCTGTTTGGCTCCGAATACTTGAAAACAAAACATGT
62294485 TTCCGAAATAGAGGAATTAACAAGCAAACATCTACAGTTATGGTCTTGTCAACAACCTTCAGTGG
261 TTCCGAAATAGAGGAATTAACAAGCAAACATCTACAGTTATGGTCTTGTCAACAACCTTCAGTGG
62294550 AATTGAAACAGGCTATATCAACTGTATTATAACTTTGGTTCCAAGTTCCAACACACTTTATTTGA
326 AATTGAAACAGGCTATATCAACTGTATTATAACTTTGGTTCCAAGTTCCAACACACTTTATTTGA
62294615 TTAAATT
1 TTAAATT
62294622 TAGCTAAAAA
Statistics
Matches: 395, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
390 395 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (390 bp):
TTAAATTCTATATTTTCAGGTATGGTTCATTGCTTTAAAACGAGTTTGGTTGGTCGACAGATTGC
TGTTTCCACTGATCCTGATGTCAACCATTTCATTTTCCAACAAGAAGGGAAACTGGTGCAAAGCT
GGTACATGGACAAATTTGATGATATCATTGGCAAGGATAATGTTTTATCCAGCCATGGATTTCTC
CACAAGTATCTCAGGAATTTGATTTTGAACCTGTTTGGCTCCGAATACTTGAAAACAAAACATGT
TTCCGAAATAGAGGAATTAACAAGCAAACATCTACAGTTATGGTCTTGTCAACAACCTTCAGTGG
AATTGAAACAGGCTATATCAACTGTATTATAACTTTGGTTCCAAGTTCCAACACACTTTATTTGA
Found at i:62294718 original size:20 final size:20
Alignment explanation
Indices: 62294693--62294733 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
62294683 CTGTGAGGAA
62294693 GCTATTCAGCTTTCTTGGAT
1 GCTATTCAGCTTTCTTGGAT
62294713 GCTATTCAGCTTTCTTGGAT
1 GCTATTCAGCTTTCTTGGAT
62294733 G
1 G
62294734 GTTTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (20 bp):
GCTATTCAGCTTTCTTGGAT
Found at i:62297955 original size:16 final size:16
Alignment explanation
Indices: 62297924--62297953 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62297914 TGTATCTCTT
62297924 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
62297940 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
62297954 TACTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:62310071 original size:21 final size:21
Alignment explanation
Indices: 62310046--62310087 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
62310036 CCTTTTATCA
62310046 AAAGTAAAGAGATTAATTTGC
1 AAAGTAAAGAGATTAATTTGC
62310067 AAAGTAAAGAGATTAATTTGC
1 AAAGTAAAGAGATTAATTTGC
62310088 TCATTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
AAAGTAAAGAGATTAATTTGC
Found at i:62310966 original size:3 final size:3
Alignment explanation
Indices: 62310947--62310980 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
62310937 TTACCACTAA
* *
62310947 GCT GTT GCT GTT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT G
62310981 TGGTGTTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.35, T:0.38
Consensus pattern (3 bp):
GCT
Found at i:62319550 original size:34 final size:35
Alignment explanation
Indices: 62319495--62319561 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
62319485 CAAACACCAG
*
62319495 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
62319530 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
62319562 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:62322928 original size:18 final size:17
Alignment explanation
Indices: 62322890--62322922 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62322880 ATAAAAGTGA
*
62322890 AAAAATGATTTTATAAT
1 AAAAATGATATTATAAT
62322907 AAAAAT-ATATTATAAT
1 AAAAATGATATTATAAT
62322923 TGAAAACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAAATGATATTATAAT
Found at i:62323948 original size:31 final size:30
Alignment explanation
Indices: 62323869--62323951 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
62323859 CTTACTTATT
*
62323869 TTAAA-AAATAAATTTAACA-A-TTCAGTAAC
1 TTAAATAAA-AAATTTAA-ATAGTTCAATAAC
62323898 TTAAATAAAAAATTTAAATAGTTCAATAAC
1 TTAAATAAAAAATTTAAATAGTTCAATAAC
*
62323928 TTAAATATAAAATTTTAAATAGTT
1 TTAAATA-AAAAATTTAAATAGTT
62323952 TAGTGACCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
28 1 0.02
29 14 0.29
30 18 0.38
31 15 0.31
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (30 bp):
TTAAATAAAAAATTTAAATAGTTCAATAAC
Found at i:62341075 original size:21 final size:20
Alignment explanation
Indices: 62341035--62341071 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
62341025 CCTTTTATCA
62341035 AAAGTAAAGAGATTAATTGC
1 AAAGTAAAGAGATTAATTGC
62341055 AAAGT-AAGAGATTAATT
1 AAAGTAAAGAGATTAATT
62341072 TTGCTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (20 bp):
AAAGTAAAGAGATTAATTGC
Found at i:62341948 original size:3 final size:3
Alignment explanation
Indices: 62341929--62341962 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
62341919 TTACCACTAA
* *
62341929 GCT GTT GCT GTT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT G
62341963 TGGTGTTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.35, T:0.38
Consensus pattern (3 bp):
GCT
Found at i:62350489 original size:34 final size:35
Alignment explanation
Indices: 62350434--62350500 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
62350424 CAAACACCAG
*
62350434 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
62350469 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
62350501 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:62353944 original size:18 final size:17
Alignment explanation
Indices: 62353906--62353938 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62353896 ATAAAAGTGA
*
62353906 AAAAATGATTTTATAAT
1 AAAAATGATATTATAAT
62353923 AAAAAT-ATATTATAAT
1 AAAAATGATATTATAAT
62353939 TGAAAACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAAAATGATATTATAAT
Found at i:62354980 original size:31 final size:30
Alignment explanation
Indices: 62354901--62354983 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
62354891 TTACTTATTT
*
62354901 TTAAA-AAATAAATTTAACA-A-TTCAGTAAC
1 TTAAATAAA-AAATTTAA-ATAGTTCAATAAC
62354930 TTAAATAAAAAATTTAAATAGTTCAATAAC
1 TTAAATAAAAAATTTAAATAGTTCAATAAC
*
62354960 TTAAATATAAAATTTTAAATAGTT
1 TTAAATA-AAAAATTTAAATAGTT
62354984 TAGTGACCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
28 1 0.02
29 14 0.29
30 18 0.38
31 15 0.31
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (30 bp):
TTAAATAAAAAATTTAAATAGTTCAATAAC
Found at i:62358180 original size:16 final size:16
Alignment explanation
Indices: 62358142--62358176 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62358132 TATTTTGGTT
62358142 TTATAATTATTTTATA
1 TTATAATTATTTTATA
62358158 TTATAATT-TTTTAT-
1 TTATAATTATTTTATA
62358172 TTATA
1 TTATA
62358177 TAATAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 6 0.32
16 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATAATTATTTTATA
Done.