Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 236 of 320
Found at i:77913717 original size:20 final size:20
Alignment explanation
Indices: 77913692--77913732 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
77913682 ATATGAGAAA
77913692 ACCATAAGGCTCATAGCTTT
1 ACCATAAGGCTCATAGCTTT
77913712 ACCATAAGGCTCATAGCTTT
1 ACCATAAGGCTCATAGCTTT
77913732 A
1 A
77913733 TTTTTTTACA
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:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
ACCATAAGGCTCATAGCTTT
Found at i:77914000 original size:45 final size:46
Alignment explanation
Indices: 77913912--77914004 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
77913902 GAAATCTTTG
77913912 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
1 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
* *
77913958 ATCTTCCCAATTTAAAAGAT-GGAAATAGAGCTTGGAGGAGTCTCA
1 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
77914003 AT
1 AT
77914005 GCTTGCCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 25 0.56
46 20 0.44
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (46 bp):
ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
Found at i:77921502 original size:18 final size:18
Alignment explanation
Indices: 77921469--77921504 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77921459 TATTTGATTT
* *
77921469 TTTTAAAATTAGTTTTTA
1 TTTTAAAATAAATTTTTA
77921487 TTTTAAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
77921505 GAAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAATAAATTTTTA
Found at i:77925983 original size:48 final size:48
Alignment explanation
Indices: 77925883--77926008 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 48
77925873 TTAAATTTTT
* * * * *
77925883 AATACTATTCGATTTTTTTTTAATTTATGCAAATTTAATTGAATTTAT
1 AATACTATTTGATTTTTTTTTCATTTATGCAAATTTAATTCAATGTAC
* *
77925931 AATACTATTTGATATTTTATTCATTTATGC-AATTATAATTACAATGT-C
1 AATACTATTTGATTTTTTTTTCATTTATGCAAATT-TAATT-CAATGTAC
*
77925979 AATACTACTTGATTTTTTTTTTCATTTATG
1 AATACTATTTGA-TTTTTTTTTCATTTATG
77926009 ATGTTTGCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
47 4 0.06
48 42 0.65
49 19 0.29
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (48 bp):
AATACTATTTGATTTTTTTTTCATTTATGCAAATTTAATTCAATGTAC
Found at i:77927016 original size:7 final size:7
Alignment explanation
Indices: 77927004--77927043 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
77926994 TAGTCGTTTC
77927004 GTATTTA
1 GTATTTA
77927011 GTATTTA
1 GTATTTA
77927018 GTATTTA
1 GTATTTA
77927025 GTATTTA
1 GTATTTA
77927032 GTATTTA
1 GTATTTA
77927039 GTATT
1 GTATT
77927044 ATGTATTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:77927461 original size:24 final size:24
Alignment explanation
Indices: 77927429--77927475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
77927419 GAATACATGC
77927429 CATGGTTTA-AGATCCATGACAAGT
1 CATGGTTTATA-ATCCATGACAAGT
*
77927453 CATGGTTTATAATCCATGGCAAG
1 CATGGTTTATAATCCATGACAAG
77927476 CCATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (24 bp):
CATGGTTTATAATCCATGACAAGT
Found at i:77927684 original size:18 final size:18
Alignment explanation
Indices: 77927661--77927703 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
77927651 TGCCAAGTGC
*
77927661 GTATCCTAGCCCTTAGAT
1 GTATCCTAACCCTTAGAT
*
77927679 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTAGAT
*
77927697 GTTTCCT
1 GTATCCT
77927704 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCTTAGAT
Found at i:77931344 original size:126 final size:126
Alignment explanation
Indices: 77931119--77931500 Score: 595
Period size: 126 Copynumber: 3.0 Consensus size: 126
77931109 TTATAGCCTC
*
77931119 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * *
77931184 ACACTGCATCCTGCTTGAAACGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACGTCTACTCAAAATT
*
77931245 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
77931310 ACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACGTCTACTCATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACGTCTACTCAAAATT
* *
77931371 GTTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTCTAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC-AGAAATTTTGCT
* * * * * * * *
77931435 AACAGTGCATCCTGCTTGAAGCTTTTTTCGACACTATTTGTCCAAAAACGTTTGCTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTT-AACACTATTTGTTCAGAAACGTCTACTCAAAATT
77931498 ATT
1 ATT
77931501 CTTGCAGAAA
Statistics
Matches: 236, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
125 6 0.03
126 200 0.85
127 30 0.13
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:77932189 original size:38 final size:36
Alignment explanation
Indices: 77932127--77932243 Score: 135
Period size: 38 Copynumber: 3.1 Consensus size: 36
77932117 TTTTTTTCCT
* *
77932127 AAAACCCTTAAACCATAAAACCTAAAAAACCTTTAACTTA
1 AAAACCC-T-AACCCTAAACCCT-AAAAACC-TTAACTTA
*
77932167 AAGACCCTAACCCTAAACCCTAAAAACCCTTAACTTAA
1 AAAACCCTAACCCTAAACCCTAAAAA-CCTTAACTT-A
*
77932205 AAAACTCTAACCCTAAACCCTAAAAACCTTAACTCTA
1 AAAACCCTAACCCTAAACCCTAAAAACCTTAACT-TA
77932242 AA
1 AA
77932244 TAATTTAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
37 23 0.33
38 39 0.57
39 1 0.01
40 6 0.09
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.21
Consensus pattern (36 bp):
AAAACCCTAACCCTAAACCCTAAAAACCTTAACTTA
Found at i:77932195 original size:22 final size:22
Alignment explanation
Indices: 77932165--77932243 Score: 55
Period size: 22 Copynumber: 3.9 Consensus size: 22
77932155 ACCTTTAACT
*
77932165 TAAAGACCCTAACCCTAAACCC
1 TAAAAACCCTAACCCTAAACCC
*
77932187 TAAAAACCCTTAA--CT-TA---
1 TAAAAACCC-TAACCCTAAACCC
*
77932204 -AAAAACTCTAACCCTAAACCC
1 TAAAAACCCTAACCCTAAACCC
* *
77932225 TAAAAACCTTAACTCTAAA
1 TAAAAACCCTAACCCTAAA
77932244 TAATTTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
15 3 0.07
16 7 0.17
17 2 0.05
18 1 0.02
20 1 0.02
21 2 0.05
22 23 0.55
23 3 0.07
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAAAACCCTAACCCTAAACCC
Found at i:77932716 original size:31 final size:32
Alignment explanation
Indices: 77932645--77932735 Score: 130
Period size: 31 Copynumber: 2.8 Consensus size: 32
77932635 ATATTCTATG
* *
77932645 TATCATTATATTAAATTATCTAAATCTTTTATA
1 TATCATTATATTAAATTAT-TAAATCTATCATA
*
77932678 TATCATTATATTAAATTATTAAAT-TATCATT
1 TATCATTATATTAAATTATTAAATCTATCATA
77932709 TATCATTATATTAAATTATTTAAATCT
1 TATCATTATATTAAATTA-TTAAATCT
77932736 TATTTATTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 22 0.42
32 11 0.21
33 20 0.38
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.52
Consensus pattern (32 bp):
TATCATTATATTAAATTATTAAATCTATCATA
Found at i:77934608 original size:25 final size:26
Alignment explanation
Indices: 77934525--77934793 Score: 108
Period size: 24 Copynumber: 10.8 Consensus size: 26
77934515 CTAGCCCTCT
* **
77934525 TGAGCTTCCC-ATTATATGG-TTTTTA
1 TGAGCTTCCCGA-TATATGGCTCTTCG
* *
77934550 TGAGCTTCCCGTTA-ATAGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
*
77934575 -GAG-TATTCCGATATATGGCTCTTCG
1 TGAGCT-TCCCGATATATGGCTCTTCG
* *
77934600 TGAGCTTCCCGAT-TAAAGGCTCTTTCA
1 TGAGCTTCCCGATAT-ATGGCTC-TTCG
* * *
77934627 TGAACTTCCTGAT-TAATGGCTCTTAG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* *
77934653 -GAGCTTCCCG--ATATGGCTC-GCT
1 TGAGCTTCCCGATATATGGCTCTTCG
* * *
77934675 TGAACTTCCCGATATATGACTTTTC-
1 TGAGCTTCCCGATATATGGCTCTTCG
*
77934700 -GAGCTTCCTGAT-TAATGGCTCTTC-
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * * * *
77934724 AGAGCTACCCGTTAT-TGGCTCGT-A
1 TGAGCTTCCCGATATATGGCTCTTCG
** *
77934748 TGAGCTTCCTTAT-TATGGCTCTT-A
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
77934772 TGAGCTTCCCGTTACATGGCTC
1 TGAGCTTCCCGATATATGGCTC
77934794 ACATGAGATT
Statistics
Matches: 182, Mismatches: 43, Indels: 38
0.69 0.16 0.14
Matches are distributed among these distances:
23 19 0.10
24 64 0.35
25 57 0.31
26 19 0.10
27 23 0.13
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:77934640 original size:27 final size:27
Alignment explanation
Indices: 77934591--77934650 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
77934581 TCCGATATAT
* *
77934591 GGCTC-TTCGTGAGCTTCCCGATTAAA
1 GGCTCTTTCATGAACTTCCCGATTAAA
* *
77934617 GGCTCTTTCATGAACTTCCTGATTAAT
1 GGCTCTTTCATGAACTTCCCGATTAAA
77934644 GGCTCTT
1 GGCTCTT
77934651 AGGAGCTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
GGCTCTTTCATGAACTTCCCGATTAAA
Found at i:77934792 original size:49 final size:49
Alignment explanation
Indices: 77934700--77934793 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 49
77934690 ATGACTTTTC
*
77934700 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCGTAT
* *
77934749 GAGCTTCCTTATT-ATGGCTCTT-ATGAGCTTCCCGTTACATGGCTC
1 GAGCTTCCTGATTAATGGCTCTTCA-GAGCTACCCGTTA-ATGGCTC
77934794 ACATGAGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 1 0.03
48 21 0.52
49 18 0.45
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (49 bp):
GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCGTAT
Found at i:77934800 original size:49 final size:49
Alignment explanation
Indices: 77934700--77934800 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
77934690 ATGACTTTTC
* **
77934700 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCACAT
* *
77934749 GAGCTTCCTTATT-ATGGCTCTT-ATGAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCTGATTAATGGCTCTTCA-GAGCTACCCGTTA-ATGGCTCACAT
77934798 GAG
1 GAG
77934801 ATTTTCATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 21 0.47
49 23 0.51
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (49 bp):
GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCACAT
Found at i:77936696 original size:18 final size:19
Alignment explanation
Indices: 77936660--77936697 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
77936650 TAGTAAAATA
*
77936660 TTAAAAAATAAACATATAT
1 TTAAAAAATAAACACATAT
*
77936679 TTAAAAAA-AAAGACATAT
1 TTAAAAAATAAACACATAT
77936697 T
1 T
77936698 ACAATGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (19 bp):
TTAAAAAATAAACACATAT
Found at i:77938243 original size:13 final size:13
Alignment explanation
Indices: 77938196--77938256 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
77938186 TCAATTTTAA
*
77938196 AATATAGTTAAAG
1 AATATATTTAAAG
* *
77938209 AATATGATTCAAAAAA
1 AATAT-ATT--TAAAG
77938225 AATATATTTAAAG
1 AATATATTTAAAG
*
77938238 AATATATATAAAG
1 AATATATTTAAAG
77938251 AGATAT
1 A-ATAT
77938257 TTGATAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 21 0.55
14 6 0.16
15 3 0.08
16 8 0.21
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (13 bp):
AATATATTTAAAG
Found at i:77943882 original size:14 final size:16
Alignment explanation
Indices: 77943857--77943888 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77943847 CATTTCACTA
77943857 TTATGTCGTTTT-TAT
1 TTATGTCGTTTTATAT
77943872 TTATGTC-TTTTATAT
1 TTATGTCGTTTTATAT
77943887 TT
1 TT
77943889 TGCATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATGTCGTTTTATAT
Found at i:77946296 original size:40 final size:40
Alignment explanation
Indices: 77946251--77946338 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
77946241 TCTCGTACAT
* * * *
77946251 TAAGTGTCACATAGAGCCAAAATTATTTCGAATCGCACAC
1 TAAGTGCCACATAGAGCCAAAACTATCTCGAATCACACAC
* * * *
77946291 TAAGTGCCATATATAGCCGAAGCTATCTCGAATCACACAC
1 TAAGTGCCACATAGAGCCAAAACTATCTCGAATCACACAC
77946331 TAAGTGCC
1 TAAGTGCC
77946339 TTATATATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TAAGTGCCACATAGAGCCAAAACTATCTCGAATCACACAC
Found at i:77956174 original size:11 final size:10
Alignment explanation
Indices: 77956156--77956208 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
77956146 TTCTCTGTTC
77956156 TTTTTCTTTA
1 TTTTTCTTTA
77956166 TTGTTTCTTTA
1 TT-TTTCTTTA
*
77956177 TTCTT-TTTA
1 TTTTTCTTTA
77956186 TTATTTCTTTTA
1 TT-TTTC-TTTA
*
77956198 TTTTACTTTA
1 TTTTTCTTTA
77956208 T
1 T
77956209 ATTATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.17
10 11 0.31
11 13 0.36
12 6 0.17
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:77956250 original size:20 final size:18
Alignment explanation
Indices: 77956212--77956250 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
77956202 ACTTTATATT
*
77956212 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
77956230 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
77956250 A
1 A
77956251 ATAATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:77958602 original size:40 final size:40
Alignment explanation
Indices: 77958509--77958607 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
77958499 ACGGTCTTGT
* * ** *
77958509 ACACTAAGTGCCACATAGAGTCGAAGCTATTTCGAATCGC
1 ACACTAAGTGCCATATATAACCGAAGCTATCTCGAATCGC
77958549 ACACTAAGTGCCATATATAACCGAAGCTATCTCGAATCGC
1 ACACTAAGTGCCATATATAACCGAAGCTATCTCGAATCGC
77958589 ACACTAAGTGCCATATATA
1 ACACTAAGTGCCATATATA
77958608 TATCGAAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAACCGAAGCTATCTCGAATCGC
Found at i:77960704 original size:68 final size:69
Alignment explanation
Indices: 77960624--77960757 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 69
77960614 TTTAATAGTT
* * * *
77960624 TAATATTGAATTTAATTTAATACTTAACTTAAT-AGTATTTTATTAATTTAATATTAAAGTAATT
1 TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
77960688 ATCA
66 ATCA
* * * * *
77960692 TAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTCATATTAAAGTGATT
1 TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
77960757 A
66 A
77960758 AGTTTAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
68 28 0.50
69 28 0.50
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (69 bp):
TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
ATCA
Found at i:77962009 original size:60 final size:60
Alignment explanation
Indices: 77961936--77962057 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
77961926 ATAATATACC
77961936 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
1 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
*
77961996 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAATTTG
1 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
77962056 AT
1 AT
77962058 CCATTCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (60 bp):
ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
Found at i:77963336 original size:21 final size:22
Alignment explanation
Indices: 77963289--77963336 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77963279 ATAAAATAAA
*
77963289 AAAATTTATATTAAAATATTTT
1 AAAATTAATATTAAAATATTTT
*
77963311 AAAATTAATTTTAAAA-ATTTT
1 AAAATTAATATTAAAATATTTT
*
77963332 TAAAT
1 AAAAT
77963337 GACTAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATTAATATTAAAATATTTT
Found at i:77970054 original size:19 final size:21
Alignment explanation
Indices: 77970018--77970060 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
77970008 AACAATATTG
77970018 AAAAATCAAAATAATAATATAA
1 AAAAATCAAAAT-ATAATATAA
*
77970040 AAAAAT-AAAAT-TAATTTAA
1 AAAAATCAAAATATAATATAA
77970059 AA
1 AA
77970061 TTTTATACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATCAAAATATAATATAA
Found at i:77976570 original size:67 final size:67
Alignment explanation
Indices: 77976458--77976592 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
77976448 GAACAACCTT
* *
77976458 AATAAAGAGAATGCCAAAGTAGGACCATTCGGTATGCACACGGCAACAAACCTAACCGACCATAC
1 AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
77976523 GA
66 GA
* * * *
77976525 AATAAAGAGAATATCAAAGTAGGACCATTCGATATGCATATGGCAACAAACCTGACCGACCATAC
1 AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
77976590 GA
66 GA
77976592 A
1 A
77976593 CAGATTTACC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.16
Consensus pattern (67 bp):
AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
GA
Found at i:77976993 original size:3 final size:3
Alignment explanation
Indices: 77976985--77977011 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
77976975 TCTGCAAACT
77976985 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
77977012 ATACCTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:77978006 original size:29 final size:29
Alignment explanation
Indices: 77977973--77978032 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
77977963 AAATTTTAGA
77977973 TTCAGTTTTTAACTTATTCGTCACTTAAG
1 TTCAGTTTTTAACTTATTCGTCACTTAAG
77978002 TTCAGTTTTTAACTTATTCGTCACTTAAG
1 TTCAGTTTTTAACTTATTCGTCACTTAAG
77978031 TT
1 TT
77978033 TATTAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (29 bp):
TTCAGTTTTTAACTTATTCGTCACTTAAG
Found at i:77978201 original size:16 final size:16
Alignment explanation
Indices: 77978180--77978213 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
77978170 GTCTCGATTA
77978180 AATTTAAAGTATAATC
1 AATTTAAAGTATAATC
*
77978196 AATTTAAAGTATAGTC
1 AATTTAAAGTATAATC
77978212 AA
1 AA
77978214 GTTAGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTTAAAGTATAATC
Found at i:77978562 original size:25 final size:23
Alignment explanation
Indices: 77978546--77978593 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
77978536 TTTAATTCTT
77978546 ATAAAAATAATAAAATTATAAATTA
1 ATAAAAATAA-AAAATT-TAAATTA
*
77978571 ATACAAATAAAAAATTTATAATT
1 ATAAAAATAAAAAATTTA-AATT
77978594 TAACTTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.48
25 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAAATAAAAAATTTAAATTA
Found at i:77978581 original size:31 final size:31
Alignment explanation
Indices: 77978516--77978583 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
77978506 TTTAACTCTC
* * **
77978516 TAAAAATAATAAAATTATAATTTAATTCTTA
1 TAAAAATAATAAAATTATAAATTAATACAAA
77978547 TAAAAATAATAAAATTATAAATTAATACAAA
1 TAAAAATAATAAAATTATAAATTAATACAAA
77978578 TAAAAA
1 TAAAAA
77978584 ATTTATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
TAAAAATAATAAAATTATAAATTAATACAAA
Found at i:77981920 original size:22 final size:22
Alignment explanation
Indices: 77981892--77981939 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
77981882 CTCTCTTTCC
77981892 ACTCCGACCACATTATTTGGTA
1 ACTCCGACCACATTATTTGGTA
77981914 ACTCCGACCACATTATTTGGTA
1 ACTCCGACCACATTATTTGGTA
77981936 ACTC
1 ACTC
77981940 TCTGCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (22 bp):
ACTCCGACCACATTATTTGGTA
Found at i:77982109 original size:8 final size:9
Alignment explanation
Indices: 77982086--77982112 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
77982076 TTTTACTAAT
77982086 TATTTTTAA
1 TATTTTTAA
77982095 TATTTTTAA
1 TATTTTTAA
77982104 TATTTTTAA
1 TATTTTTAA
77982113 AGACATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:77983123 original size:24 final size:24
Alignment explanation
Indices: 77983096--77983147 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
77983086 TTAGTAAGTC
*
77983096 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
77983120 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
77983144 AAAT
1 AAAT
77983148 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:77985093 original size:24 final size:24
Alignment explanation
Indices: 77985066--77985117 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
77985056 TTAGTAAGTC
*
77985066 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
77985090 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
77985114 AAAT
1 AAAT
77985118 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:77985819 original size:18 final size:18
Alignment explanation
Indices: 77985796--77985832 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
77985786 ACATTTCCTA
77985796 CCTTTTTTAGTTCAAAAC
1 CCTTTTTTAGTTCAAAAC
77985814 CCTTTTTTAGTTCAAAAC
1 CCTTTTTTAGTTCAAAAC
77985832 C
1 C
77985833 ATAGTCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (18 bp):
CCTTTTTTAGTTCAAAAC
Found at i:77989251 original size:6 final size:7
Alignment explanation
Indices: 77989226--77989264 Score: 53
Period size: 8 Copynumber: 5.4 Consensus size: 7
77989216 TTTCTTTATT
77989226 AATATAA
1 AATATAA
77989233 AACTATAA
1 AA-TATAA
77989241 AATAT-A
1 AATATAA
77989247 AATATAAA
1 AATAT-AA
77989255 AATATAA
1 AATATAA
77989262 AAT
1 AAT
77989265 TTGTTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.21
7 10 0.34
8 13 0.45
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:77989264 original size:15 final size:14
Alignment explanation
Indices: 77989226--77989264 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
77989216 TTTCTTTATT
77989226 AATATAAAACTATAA
1 AATATAAAA-TATAA
77989241 AATAT-AAATATAAA
1 AATATAAAATAT-AA
77989255 AATATAAAAT
1 AATATAAAAT
77989265 TTGTTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AATATAAAATATAA
Found at i:77991721 original size:21 final size:21
Alignment explanation
Indices: 77991695--77991737 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
77991685 TTTGTTACAT
*
77991695 AGTCCACAAAGCGAATTTGAA
1 AGTCCACAAAGCCAATTTGAA
77991716 AGTCCACAAAGCCAATTTGAA
1 AGTCCACAAAGCCAATTTGAA
77991737 A
1 A
77991738 CCTATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (21 bp):
AGTCCACAAAGCCAATTTGAA
Found at i:77993090 original size:3 final size:3
Alignment explanation
Indices: 77993084--77993247 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
77993074 TTTTTTTACA
* *
77993084 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
77993128 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
77993173 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
77993219 T-T CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
77993248 GTGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:77993112 original size:23 final size:23
Alignment explanation
Indices: 77993086--77993131 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
77993076 TTTTTACATA
77993086 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
77993109 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
77993132 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:77993271 original size:17 final size:16
Alignment explanation
Indices: 77993249--77993280 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
77993239 TTAATATTAG
77993249 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
77993266 TGTATGTATATATAT
1 TGTATGTATATATAT
77993281 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:77993515 original size:23 final size:22
Alignment explanation
Indices: 77993484--77993604 Score: 99
Period size: 21 Copynumber: 5.5 Consensus size: 22
77993474 TATGTTTTCA
77993484 ATAT-TATATTTTTTATATATT
1 ATATATATATTTTTTATATATT
*
77993505 AT-TATATATATTTTA-ATATT
1 ATATATATATTTTTTATATATT
77993525 ATTAGTTATATATTTTTTATACTATT
1 A-TA--TATATATTTTTTATA-TATT
* *
77993551 ATATGTATA-TTTCTA-ATATT
1 ATATATATATTTTTTATATATT
* * *
77993571 ATATTGTATATTTCTAATACTATT
1 ATA-TATATATTTTTTATA-TATT
77993595 ATATATATAT
1 ATATATATAT
77993605 GTATGTGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
20 14 0.17
21 20 0.25
22 8 0.10
23 12 0.15
24 19 0.23
25 3 0.04
26 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (22 bp):
ATATATATATTTTTTATATATT
Found at i:77993599 original size:19 final size:20
Alignment explanation
Indices: 77993484--77993600 Score: 69
Period size: 23 Copynumber: 5.5 Consensus size: 20
77993474 TATGTTTTCA
*
77993484 ATATTATAT-TTT-TTATAT
1 ATATTATATATTTCTAATAT
*
77993502 ATTATTATATATATTTTAATATT
1 A-TATTATATAT-TTCTAATA-T
* *
77993525 ATTAGTTATATATTTTTTATACT
1 A-TA-TTATATATTTCTAATA-T
*
77993548 ATTATATGTATATTTCTAATATT
1 A-TAT-TATATATTTCTAATA-T
*
77993571 ATATTGTATATTTCTAATA-
1 ATATTATATATTTCTAATAT
*
77993590 CTATTATATAT
1 ATATTATATAT
77993601 ATATGTATGT
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.01
19 17 0.20
20 1 0.01
21 17 0.20
22 8 0.10
23 31 0.37
24 8 0.10
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATATTATATATTTCTAATAT
Found at i:77993780 original size:24 final size:23
Alignment explanation
Indices: 77993731--77993791 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 23
77993721 TTACTAATTA
77993731 TATATATTTCTTATACATTTCCATG
1 TATATATTT-TTATACATTT-CATG
77993756 TATATATTTTTATACCATCTT-ATG
1 TATATATTTTTATA-CAT-TTCATG
77993780 TATATATTTTTA
1 TATATATTTTTA
77993792 AATACTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 20 0.59
25 12 0.35
26 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (23 bp):
TATATATTTTTATACATTTCATG
Found at i:77993805 original size:24 final size:25
Alignment explanation
Indices: 77993704--77993810 Score: 75
Period size: 24 Copynumber: 4.4 Consensus size: 25
77993694 ATATATGTTA
*
77993704 TGTATATATTTTTAATATTACTA-AT
1 TGTATATATTTTTAACA-TACTATAT
* * **
77993729 TATATATATTTCTTATACAT-TTCCA-
1 TGTATATATTT-TTA-ACATACTATAT
77993754 TGTATATATTTTTATACCAT-CT-TA-
1 TGTATATATTTTTA-A-CATACTATAT
77993778 TGTATATATTTTTAA-ATACTATAT
1 TGTATATATTTTTAACATACTATAT
77993802 TGTATATAT
1 TGTATATAT
77993811 ATATATTCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
21 2 0.03
22 2 0.03
23 3 0.04
24 29 0.43
25 25 0.37
26 5 0.07
27 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
TGTATATATTTTTAACATACTATAT
Found at i:77993840 original size:31 final size:30
Alignment explanation
Indices: 77993780--77993841 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
77993770 CCATCTTATG
* *
77993780 TATATATTTTTAAATACTATATTGTATATA
1 TATATATTCTTAAATACCATATTGTATATA
*
77993810 TATATATTCTT-AATACCATATTGTGTATA
1 TATATATTCTTAAATACCATATTGTATATA
77993839 TAT
1 TAT
77993842 CATTATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (30 bp):
TATATATTCTTAAATACCATATTGTATATA
Found at i:77993975 original size:34 final size:36
Alignment explanation
Indices: 77993932--77993998 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
77993922 TATATGTAGT
*
77993932 ATTATTTTCA-TAT-ATCA-TTATAATTATTATACCC
1 ATTAATTTCACTATCATCACTTATAATT-TTATACCC
*
77993966 ATTAATTTCACTATCATCACTTATTATTTTATA
1 ATTAATTTCACTATCATCACTTATAATTTTATA
77993999 TTACTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
35 3 0.11
36 9 0.32
37 7 0.25
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (36 bp):
ATTAATTTCACTATCATCACTTATAATTTTATACCC
Found at i:77996164 original size:31 final size:31
Alignment explanation
Indices: 77996126--77996189 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
77996116 TTACATAATG
77996126 GTCACTGAACAATTCGAAAGTTTTCATTTAA
1 GTCACTGAACAATTCGAAAGTTTTCATTTAA
*** *
77996157 GTCACTGAATTTTTCGAAAGTTTTTATTTAA
1 GTCACTGAACAATTCGAAAGTTTTCATTTAA
77996188 GT
1 GT
77996190 GGGCTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
GTCACTGAACAATTCGAAAGTTTTCATTTAA
Found at i:78001441 original size:14 final size:15
Alignment explanation
Indices: 78001415--78001444 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78001405 ATATCGTATT
78001415 TATATTATCATTTTG
1 TATATTATCATTTTG
78001430 TATATTAT-ATTTTG
1 TATATTATCATTTTG
78001444 T
1 T
78001445 TAAATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATTATCATTTTG
Found at i:78019666 original size:21 final size:21
Alignment explanation
Indices: 78019634--78019674 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
78019624 AGGCTCGAGG
78019634 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
78019655 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
78019675 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:78029288 original size:22 final size:21
Alignment explanation
Indices: 78029263--78029303 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
78029253 TATTAAATGT
78029263 GTTAAATAAATAAAAATTTGAA
1 GTTAAA-AAATAAAAATTTGAA
*
78029285 GTTAGAAAATAAAAATTTG
1 GTTAAAAAATAAAAATTTG
78029304 TCTACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (21 bp):
GTTAAAAAATAAAAATTTGAA
Found at i:78031511 original size:14 final size:14
Alignment explanation
Indices: 78031492--78031522 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78031482 AAATGTTATC
*
78031492 TATATGTATGTATA
1 TATATGTATATATA
78031506 TATATGTATATATA
1 TATATGTATATATA
78031520 TAT
1 TAT
78031523 GAACTTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:78034354 original size:31 final size:31
Alignment explanation
Indices: 78034319--78034378 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
78034309 TCTTTAAATA
*
78034319 TATATAATTAAATCAAAATTAAAATTTTAAG
1 TATATAATTAAATCAAAATCAAAATTTTAAG
* *
78034350 TATATATTTAAATCACAATCAAAATTTTA
1 TATATAATTAAATCAAAATCAAAATTTTA
78034379 CGAGTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (31 bp):
TATATAATTAAATCAAAATCAAAATTTTAAG
Found at i:78035439 original size:31 final size:32
Alignment explanation
Indices: 78035366--78035442 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
78035356 CACATTGAAT
*
78035366 CTTAATTTTTTTTAAAAAGAAGCAATTAGACC
1 CTTAATTTTTTTTAAAAAGAAGCAATTAAACC
78035398 CTTAATTTTTTTTAAAAAGAAGCAATTAAACC
1 CTTAATTTTTTTTAAAAAGAAGCAATTAAACC
78035430 CTTAATTTTTTTT
1 CTTAATTTTTTTT
78035443 GCACTTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (32 bp):
CTTAATTTTTTTTAAAAAGAAGCAATTAAACC
Found at i:78035668 original size:19 final size:19
Alignment explanation
Indices: 78035644--78035687 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
78035634 TAAATTTTAT
78035644 TAAAAATTAGAAAAAAATA
1 TAAAAATTAGAAAAAAATA
* *
78035663 TAAAAA-TCGTAAAAAATA
1 TAAAAATTAGAAAAAAATA
78035681 -AAAAATT
1 TAAAAATT
78035688 GTAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (19 bp):
TAAAAATTAGAAAAAAATA
Found at i:78035676 original size:18 final size:17
Alignment explanation
Indices: 78035655--78035716 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
78035645 AAAAATTAGA
78035655 AAAAAATATAAAAATCGT
1 AAAAAATA-AAAAATCGT
*
78035673 AAAAAATAAAAAATTGT
1 AAAAAATAAAAAATCGT
** *
78035690 AAAATTTTAAAAAAGTCAT
1 AAAA-AATAAAAAA-TCGT
78035709 AAAAAATA
1 AAAAAATA
78035717 TTATAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 12 0.34
18 17 0.49
19 6 0.17
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAAATAAAAAATCGT
Found at i:78035693 original size:16 final size:18
Alignment explanation
Indices: 78035655--78035693 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
78035645 AAAAATTAGA
78035655 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAATCGT
*
78035673 AAAAAATA-AAAAATTGT
1 AAAAAATATAAAAATCGT
78035690 AAAA
1 AAAA
78035694 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:78035949 original size:10 final size:9
Alignment explanation
Indices: 78035916--78036054 Score: 50
Period size: 9 Copynumber: 14.8 Consensus size: 9
78035906 AGTACGATAG
78035916 TTTTTATAT
1 TTTTTATAT
*
78035925 TTTTTACGA-
1 TTTTTA-TAT
*
78035934 ATTTTATAT
1 TTTTTATAT
*
78035943 TTCTTTACAT
1 TT-TTTATAT
78035953 TTTTTATAAT
1 TTTTTAT-AT
* *
78035963 TTTCTTACAAC
1 TTT-TTA-TAT
* *
78035974 TTTATAAATT
1 TTTTTATA-T
*
78035984 TTTTTCTAT
1 TTTTTATAT
*
78035993 ATTTCTAT-T
1 -TTTTTATAT
78036002 TATTTTATAAT
1 T-TTTTAT-AT
* *
78036013 TTTTAATAA
1 TTTTTATAT
*
78036022 TTTTTATAA
1 TTTTTATAT
78036031 TTTTTA-AT
1 TTTTTATAT
* *
78036039 ATTTTATAG
1 TTTTTATAT
78036048 TTTTTAT
1 TTTTTAT
78036055 TAAAAATTAA
Statistics
Matches: 95, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
8 8 0.08
9 47 0.49
10 31 0.33
11 9 0.09
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAT
Found at i:78035957 original size:19 final size:18
Alignment explanation
Indices: 78035916--78035970 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
78035906 AGTACGATAG
78035916 TTTTTATATTTTTTACGA
1 TTTTTATATTTTTTACGA
*
78035934 ATTTTATATTTCTTTAC-A
1 TTTTTATATTT-TTTACGA
78035952 TTTTTTATAATTTTCTTAC
1 -TTTTTAT-ATTTT-TTAC
78035971 AACTTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 11 0.35
19 12 0.39
20 8 0.26
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATATTTTTTACGA
Found at i:78036026 original size:19 final size:17
Alignment explanation
Indices: 78036002--78036053 Score: 77
Period size: 19 Copynumber: 2.9 Consensus size: 17
78035992 TATTTCTATT
78036002 TATTTTATAATTTTTAA
1 TATTTTATAATTTTTAA
78036019 TAATTTTTATAATTTTTAA
1 T-A-TTTTATAATTTTTAA
*
78036038 TATTTTATAGTTTTTA
1 TATTTTATAATTTTTA
78036054 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.44
18 2 0.06
19 16 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTTTATAATTTTTAA
Found at i:78038739 original size:10 final size:10
Alignment explanation
Indices: 78038700--78038745 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
78038690 TAACTTTTAG
78038700 AAAAATTATT
1 AAAAATTATT
** *
78038710 AAACTTTAAT
1 AAAAATTATT
78038720 AAAAA-T-TT
1 AAAAATTATT
78038728 AAAAATTATT
1 AAAAATTATT
78038738 AAAAATTA
1 AAAAATTA
78038746 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 20 0.71
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:78039036 original size:24 final size:26
Alignment explanation
Indices: 78038990--78039053 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
78038980 TTACATTTTG
78038990 TATAATTTTCTTATGACTTTATAAAATT
1 TATAATTTT-TTATGAC-TTATAAAATT
* *
78039018 TATAATTTTTTAT-A-TTATATATTT
1 TATAATTTTTTATGACTTATAAAATT
78039042 TATAATTTTTTA
1 TATAATTTTTTA
78039054 CGATTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 20 0.59
26 1 0.03
27 4 0.12
28 9 0.26
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
TATAATTTTTTATGACTTATAAAATT
Found at i:78039063 original size:19 final size:20
Alignment explanation
Indices: 78039039--78039136 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
78039029 ATATTATATA
*
78039039 TTTTAT-AATTTTTTACGAT
1 TTTTATAAATTTTTTACAAT
**
78039058 TTTTATAAAAATTTT-CAAT
1 TTTTATAAATTTTTTACAAT
*
78039077 TTTTTTAATATTTTTTACAAT
1 TTTTATAA-ATTTTTTACAAT
** *
78039098 TTTTATATTTTTTTTTTCTAAT
1 TTTTATA-AATTTTTTAC-AAT
*
78039120 TTTTATTAAAATTTTTA
1 TTTTA-TAAATTTTTTA
78039137 TTATTTGAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
19 16 0.27
20 11 0.19
21 17 0.29
22 13 0.22
23 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (20 bp):
TTTTATAAATTTTTTACAAT
Found at i:78039132 original size:12 final size:12
Alignment explanation
Indices: 78039117--78039160 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
78039107 TTTTTTTTCT
78039117 AATTTTTATTAA
1 AATTTTTATTAA
*
78039129 AATTTTTATTATTTG
1 AATTTTTATTA---A
78039144 AATTTTTATTAA
1 AATTTTTATTAA
78039156 AATTT
1 AATTT
78039161 AATACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 16 0.59
15 11 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:78039133 original size:34 final size:34
Alignment explanation
Indices: 78039076--78039142 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
78039066 AAATTTTCAA
*
78039076 TTTTTTTAATATTTTTTACAATTTTTA-TATTTT
1 TTTTTTTAATATTTTTTAAAATTTTTATTATTTT
78039109 TTTTTTCTAAT-TTTTATTAAAATTTTTATTATTT
1 TTTTTT-TAATATTTT-TTAAAATTTTTATTATTT
78039143 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 10 0.33
34 15 0.50
35 5 0.17
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (34 bp):
TTTTTTTAATATTTTTTAAAATTTTTATTATTTT
Found at i:78039358 original size:90 final size:90
Alignment explanation
Indices: 78039257--78039454 Score: 303
Period size: 90 Copynumber: 2.2 Consensus size: 90
78039247 TTTTCTTTCT
* * *
78039257 AAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTT-CAGGTACCCAATTGAGTGTAAAAAAAAG
1 AAAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCCA-GTAACCAATTGAGTG-AAAAAAAAG
*
78039321 TAGGGGCTTAATTGCTTTTTTTT-GAA
64 TAGAGGCTTAATTGCTTTTTTTTGGAA
*
78039347 AAAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCCAGTAACCAATTGAGTGCAAAAAAAGTA
1 AAAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCCAGTAACCAATTGAGTGAAAAAAAAGTA
78039412 GAGGCTTAATTGCTTTTTTTTGGAA
66 GAGGCTTAATTGCTTTTTTTTGGAA
*
78039437 AAATTTTGAGGGT-TTTTT
1 AAAGTTTGAGGGTCTTTTT
78039455 ACACCTTTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
89 35 0.35
90 63 0.63
91 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (90 bp):
AAAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCCAGTAACCAATTGAGTGAAAAAAAAGTA
GAGGCTTAATTGCTTTTTTTTGGAA
Found at i:78039617 original size:24 final size:24
Alignment explanation
Indices: 78039585--78039633 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
78039575 CAAATTGACA
78039585 AGGAAAAGACGGATCGGTGAAAAT
1 AGGAAAAGACGGATCGGTGAAAAT
* *
78039609 AGGAAAAGACGTATTGGTGAAAAT
1 AGGAAAAGACGGATCGGTGAAAAT
78039633 A
1 A
78039634 ATGCAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (24 bp):
AGGAAAAGACGGATCGGTGAAAAT
Found at i:78044497 original size:14 final size:14
Alignment explanation
Indices: 78044478--78044505 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78044468 AAACATAGTC
78044478 TATTCCTCTTGTAA
1 TATTCCTCTTGTAA
78044492 TATTCCTCTTGTAA
1 TATTCCTCTTGTAA
78044506 CAATTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
TATTCCTCTTGTAA
Found at i:78053164 original size:19 final size:20
Alignment explanation
Indices: 78053127--78053164 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
78053117 TATTTTTCAG
*
78053127 ATTTTATTGTTTTGCTCAAA
1 ATTTTATTGATTTGCTCAAA
*
78053147 ATTTTA-TGATTTGGTCAA
1 ATTTTATTGATTTGCTCAA
78053165 GGTAGTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (20 bp):
ATTTTATTGATTTGCTCAAA
Found at i:78053769 original size:47 final size:46
Alignment explanation
Indices: 78053698--78053862 Score: 181
Period size: 47 Copynumber: 3.5 Consensus size: 46
78053688 ACTCTACCGA
*
78053698 TGGTTTATCCATAACGTATTTTAGTCGACATTCACCTGTTCGACCAG
1 TGGTTTATCCACAACGTATTTTAGTCGACATTCACCTGTT-GACCAG
* * * * * *
78053745 TGGTTTGTCCACAACATATCTTAGTCGACAGTCATCTGCTTGACTAG
1 TGGTTTATCCACAACGTATTTTAGTCGACATTCACCTG-TTGACCAG
* *
78053792 TGGTTTATCCATAACGTATTTTAGTC-ATCAATT-ACCTGCTGGACCAG
1 TGGTTTATCCACAACGTATTTTAGTCGA-C-ATTCACCTG-TTGACCAG
*
78053839 TGGTATATCCACAACGTATTTTAG
1 TGGTTTATCCACAACGTATTTTAG
78053863 CAGCTTTTAT
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 93 0.95
48 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (46 bp):
TGGTTTATCCACAACGTATTTTAGTCGACATTCACCTGTTGACCAG
Found at i:78056476 original size:5 final size:5
Alignment explanation
Indices: 78056466--78056497 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
78056456 GTTATCTATA
78056466 CACAT CACAT CACAT CACAT CACAT CACAT CA
1 CACAT CACAT CACAT CACAT CACAT CACAT CA
78056498 TGTTCACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (5 bp):
CACAT
Found at i:78057115 original size:14 final size:14
Alignment explanation
Indices: 78057073--78057108 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78057063 CATCAACAGG
*
78057073 CCTCCTCACACAAA
1 CCTCCTTACACAAA
78057087 CCTCCTTACACAAA
1 CCTCCTTACACAAA
78057101 CCTCCTTA
1 CCTCCTTA
78057109 TGGAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTCCTTACACAAA
Found at i:78058804 original size:40 final size:40
Alignment explanation
Indices: 78058745--78058837 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
78058735 TTAATATCAT
* *
78058745 ACACTTAGTGCC-TCATGTAGCCGAAGCTA-TTCCAACTCGC
1 ACACTTAGTGCCAT-TTGTAGCCGAAGCTATTTCAAAC-CGC
*
78058785 ACACTTGGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
1 ACACTTAGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
78058825 ACACTTAGTGCCA
1 ACACTTAGTGCCA
78058838 AACTTAATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 40 0.85
41 7 0.15
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (40 bp):
ACACTTAGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
Found at i:78059865 original size:12 final size:12
Alignment explanation
Indices: 78059848--78059872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78059838 ATGATTAAAT
78059848 TTTCACACATAC
1 TTTCACACATAC
78059860 TTTCACACATAC
1 TTTCACACATAC
78059872 T
1 T
78059873 GTAAACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCACACATAC
Found at i:78066244 original size:40 final size:40
Alignment explanation
Indices: 78066192--78066284 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
78066182 AACAATCTCT
* *
78066192 CACACTTAGTGCC-TCATGTAGCCGAAGCTA-TTCCAACTCG
1 CACACTTGGTGCCAT-ATGTAGCCGAAGCTATTTCAAAC-CG
*
78066232 CACACTTGGTGCCATTTGTAGCCGAAGCTATTTCAAACCG
1 CACACTTGGTGCCATATGTAGCCGAAGCTATTTCAAACCG
78066272 CACACTTGGTGCC
1 CACACTTGGTGCC
78066285 GAACTTAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (40 bp):
CACACTTGGTGCCATATGTAGCCGAAGCTATTTCAAACCG
Found at i:78066584 original size:8 final size:8
Alignment explanation
Indices: 78066571--78066595 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
78066561 AAATTATCCC
78066571 TCACATTT
1 TCACATTT
78066579 TCACATTT
1 TCACATTT
78066587 TCACATTT
1 TCACATTT
78066595 T
1 T
78066596 AACACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:78071023 original size:22 final size:22
Alignment explanation
Indices: 78070998--78071043 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
78070988 TTGTAAGGAT
78070998 ATTAGTTTGAATTAGAGTGTTG
1 ATTAGTTTGAATTAGAGTGTTG
78071020 ATTAGTTTGAATTAGAGTGTTG
1 ATTAGTTTGAATTAGAGTGTTG
78071042 AT
1 AT
78071044 GGGTCGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
ATTAGTTTGAATTAGAGTGTTG
Found at i:78074604 original size:28 final size:29
Alignment explanation
Indices: 78074573--78074632 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
78074563 GGTTACATTT
78074573 TAATCATCA-ACTTTAAAAGATTTTAAAA
1 TAATCATCAGACTTTAAAAGATTTTAAAA
* * *
78074601 TAATTATTAGATTTTAAAAGATTTTAAAA
1 TAATCATCAGACTTTAAAAGATTTTAAAA
78074630 TAA
1 TAA
78074633 CTTTACTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
TAATCATCAGACTTTAAAAGATTTTAAAA
Found at i:78077597 original size:327 final size:331
Alignment explanation
Indices: 78076925--78077720 Score: 933
Period size: 327 Copynumber: 2.4 Consensus size: 331
78076915 TTCGAAATTG
* * * * * *
78076925 TTGTGTCAAATCTTTTGAATTTT-CAATCTTCGTGCAGTTTAATCTGATCTAAATCTGGGAAGCG
1 TTGTGTCAAATATTTTGAATTTTGCAATGTACGT--AGTCT-ACCTGATCTAAATCTCGGAA-CG
* * *
78076989 TCTGAGTTCGTTCGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTATAGATTGG
62 -CTGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGG
78077054 ATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTG
126 ATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTG
* * ** *
78077119 AATTTTTCGCGTAGTGGTATCTGATCTGAATCTCTGATCTTGAGTTCATTGGTTTGCTTAGATTT
191 AATTATTCGCGTAGTGGTATCTGATCTGAATCTCAGATCGCGAGTTCATTGGTTTGCTCAGATTT
*
78077184 TTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTC
256 GTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTC
78077249 TGCTCAGAAATT
321 TGCTCAGAAA-T
*
78077261 GTTGTGTCAAATCATTTTGAATTATT-CGA-GTA-GT-GTC-ACCTGATCTAAATCTCGGAA-G-
1 -TTGTGTCAAAT-ATTTTGAATT-TTGCAATGTACGTAGTCTACCTGATCTAAATCTCGGAACGC
*
78077319 TGAGCTCGTTGGTTTGCTCAGATTTGTATTTTTCGAATTGAATTTATGTTTGTTACAGATTGGAT
63 TGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGAT
* * *
78077384 TTAGATTATCTTCTTT-TG-GTTGATCTGCTCAGAAATT-GTCGTGTCAAATCTTTTGAATTTTG
128 TTAGATT-TCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGT-GTGTCAAATCTTTTGAATTCTG
*
78077446 AATTATTCGCGTAGT-GTCATCTGATCT-AATTCTCAGAAGCGTCGCGAGTTCCTTGGTTTGCTC
191 AATTATTCGCGTAGTGGT-ATCTGATCTGAA-TCTCAG-A---TCGCGAGTTCATTGGTTTGCTC
* * * * * * * **
78077509 GGATTTGTATTTCTCTATTTGAATTTATGTTTGTTACGGATTGGATTTAGCTTCTTTT-TATGTG
250 AGATTTGTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATG
78077573 TTGA-TCTGCTCAGAAA-
315 TT-ACTCTGCTCAGAAAT
* * *
78077589 TTGTGTCAAATATTTTGAATTTTGGACAATTTACGTAGTCTTATCTGATC-AGAATCTCAGAAGC
1 TTGTGTCAAATATTTTGAATTTT-G-CAATGTACGTAGTC-TACCTGATCTA-AATCTCGGAA-C
* *
78077653 GACTTGAGCTCGTTGGTTTGCTCAGATTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATT
61 G-C-TGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
78077718 GGA
124 GGA
78077721 CTTGGGTTTT
Statistics
Matches: 397, Mismatches: 37, Indels: 49
0.82 0.08 0.10
Matches are distributed among these distances:
325 2 0.01
326 16 0.04
327 79 0.20
328 72 0.18
329 9 0.02
330 21 0.05
331 72 0.18
332 19 0.05
333 16 0.04
334 2 0.01
335 1 0.00
337 13 0.03
338 71 0.18
339 4 0.01
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (331 bp):
TTGTGTCAAATATTTTGAATTTTGCAATGTACGTAGTCTACCTGATCTAAATCTCGGAACGCTGA
GCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTA
GATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTGAATTA
TTCGCGTAGTGGTATCTGATCTGAATCTCAGATCGCGAGTTCATTGGTTTGCTCAGATTTGTAAT
TCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTCTGCTC
AGAAAT
Found at i:78077683 original size:167 final size:165
Alignment explanation
Indices: 78076925--78077746 Score: 774
Period size: 167 Copynumber: 4.9 Consensus size: 165
78076915 TTCGAAATTG
**
78076925 TTGTGTCAAATCTTTTGAATTTT-CAATCTT-CGTGCAGT-TTAATCTGATCTAAATCTGGGAAG
1 TTGTGTCAAATCTTTTGAATTTTACAAT-TTACGT--AGTCTT-ATCTGATCTAAATCTCAGAAG
* *
78076987 CGTCTGAGTTCGTTCGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTATAGATT
62 CGTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* *
78077052 GGATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAAT
127 GGATTTAG-TTTCT-TTTTATGTGTTGATCTGCTCAGAAAT
* * * ** * *
78077093 TGGTGTGTCAAATCTTTTGAATTCTGA-ATTTTTCGCGTAGTGGTATCTGATCTGAATCTCTG-A
1 T--TGTGTCAAATCTTTTGAATT-TTACA-ATTT-ACGTAGTCTTATCTGATCTAAATCTCAGAA
* * * * *
78077156 TC-T-TGAGTTCATTGGTTTGCTTAGATTTTTAATTCTCGAATTGAATTTATGTTTGTTACAGAT
61 GCGTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGAT
* * **
78077219 TGGATTTAGATTATTTTCTACATGTT-ACTCTGCTCAGAAATT
126 TGGATTTAGTTTCTTTT-TATGTGTTGA-TCTGCTCAGAAA-T
* * * *
78077261 GTTGTGTCAAATCATTTTGAATTATT-CGA-GTA-GT-GTC--ACCTGATCTAAATCTCGGAA--
1 -TTGTGTCAAATC-TTTTGAATT-TTACAATTTACGTAGTCTTATCTGATCTAAATCTCAGAAGC
* *
78077318 G--TGAGCTCGTTGGTTTGCTCAGATTTGTATTTTTCGAATTGAATTTATGTTTGTTACAGATTG
63 GTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTG
78077381 GATTTAGATTATCTTCTTT-TG-GTTGATCTGCTCAGAAAT
128 GATTTAG-TT-TCTT-TTTATGTGTTGATCTGCTCAGAAAT
** * * *
78077420 TGTCGTGTCAAATCTTTTGAATTTTGA-ATTATTCGCGTAGTGTCATCTGATCTAATTCTCAGAA
1 T-T-GTGTCAAATCTTTTGAATTTT-ACA--ATTTACGTAGTCTTATCTGATCTAAATCTCAGAA
* * * * * *
78077484 GCGTCGCGAGTTCCTTGGTTTGCTCGGATTTGTATTTCTCTATTTGAATTTATGTTTGTTACGGA
61 GCGTC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGA
*
78077549 TTGGATTTAGCTTCTTTTTATGTGTTGATCTGCTCAGAAA-
125 TTGGATTTAGTTTCTTTTTATGTGTTGATCTGCTCAGAAAT
*
78077589 TTGTGTCAAATATTTTGAATTTTGGACAATTTACGTAGTCTTATCTGATC-AGAATCTCAGAAGC
1 TTGTGTCAAATCTTTTGAATTTT--ACAATTTACGTAGTCTTATCTGATCTA-AATCTCAGAAGC
* * * *
78077653 GACTTGAGCTCGTTGGTTTGCTCAGATTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATT
63 GTC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* * *
78077718 GGACTTGGGTT-TTTTTATGTGTTGATCTG
127 GGATTTAGTTTCTTTTTATGTGTTGATCTG
78077747 GTCAATTCTG
Statistics
Matches: 538, Mismatches: 75, Indels: 84
0.77 0.11 0.12
Matches are distributed among these distances:
158 3 0.01
159 11 0.02
160 88 0.16
161 18 0.03
162 5 0.01
163 6 0.01
164 4 0.01
166 40 0.07
167 143 0.27
168 82 0.15
169 10 0.02
170 40 0.07
171 83 0.15
172 2 0.00
173 3 0.01
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (165 bp):
TTGTGTCAAATCTTTTGAATTTTACAATTTACGTAGTCTTATCTGATCTAAATCTCAGAAGCGTC
TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGAT
TTAGTTTCTTTTTATGTGTTGATCTGCTCAGAAAT
Found at i:78079534 original size:12 final size:12
Alignment explanation
Indices: 78079517--78079541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78079507 AGGTTTTGTG
78079517 GCTTTGGAGAAT
1 GCTTTGGAGAAT
78079529 GCTTTGGAGAAT
1 GCTTTGGAGAAT
78079541 G
1 G
78079542 GATTTGATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTGGAGAAT
Found at i:78080049 original size:11 final size:11
Alignment explanation
Indices: 78080030--78080074 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
78080020 AAATTTTAAA
*
78080030 ATTTAAATAAT
1 ATTTTAATAAT
*
78080041 ATTTTAATACT
1 ATTTTAATAAT
* *
78080052 TTTTTAAAAAT
1 ATTTTAATAAT
78080063 ATTTTAATAAT
1 ATTTTAATAAT
78080074 A
1 A
78080075 AATATTTAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:78080465 original size:11 final size:11
Alignment explanation
Indices: 78080446--78080489 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
78080436 AAATTTTAAA
*
78080446 ATTTAAATAAT
1 ATTTTAATAAT
*
78080457 ATTTTAATACT
1 ATTTTAATAAT
*
78080468 -TTTTAAAAAT
1 ATTTTAATAAT
78080478 ATTTTAATAAT
1 ATTTTAATAAT
78080489 A
1 A
78080490 AATATTTAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:78080575 original size:415 final size:415
Alignment explanation
Indices: 78079805--78080643 Score: 1662
Period size: 415 Copynumber: 2.0 Consensus size: 415
78079795 CTTGGTATTA
78079805 ATAAAATATTATTATATCAAATCGTGCCAAATATTATTATATTTATAATAATTTTTTAATTTTAA
1 ATAAAATATTATTATATCAAATCGTGCCAAATATTATTATATTTATAATAATTTTTTAATTTTAA
78079870 TTTCTAAAATATTAAAATATTTATCTCAAATATTATAATTTTAATATTATACAACATACATATTT
66 TTTCTAAAATATTAAAATATTTATCTCAAATATTATAATTTTAATATTATACAACATACATATTT
78079935 ATTAATAATATATAATAAATATTAATATAATTAATTATTTTAGTAAAATCATTTAATATTATAAT
131 ATTAATAATATATAATAAATATTAATATAATTAATTATTTTAGTAAAATCATTTAATATTATAAT
78080000 TTTATTTTTATAATAAATTTAAATTTTAAAATTTAAATAATATTTTAATACTTTTTTAAAAATAT
196 TTTATTTTTATAATAAATTTAAATTTTAAAATTTAAATAATATTTTAATACTTTTTTAAAAATAT
78080065 TTTAATAATAAATATTTAGCTTATAATTTATAAATATTTAGTAATAAATGTTTAATAATATAAAG
261 TTTAATAATAAATATTTAGCTTATAATTTATAAATATTTAGTAATAAATGTTTAATAATATAAAG
78080130 TATGAATATATTTACTAATATTAATCCTAAAGCCACGAGTCAAATCATGCATCAACTTAATTGAG
326 TATGAATATATTTACTAATATTAATCCTAAAGCCACGAGTCAAATCATGCATCAACTTAATTGAG
78080195 AAATAATAAAAATATCTTCATTTTT
391 AAATAATAAAAATATCTTCATTTTT
78080220 ATAAAATATTATTATATCAAATCGTGCCAAATATTATTATATTTATAATAATTTTTTAATTTTAA
1 ATAAAATATTATTATATCAAATCGTGCCAAATATTATTATATTTATAATAATTTTTTAATTTTAA
78080285 TTTCTAAAATATTAAAATATTTATCTCAAATATTATAATTTTTAATATTATACAACATACATATT
66 TTTCTAAAATATTAAAATATTTATCTCAAATATTATAA-TTTTAATATTATACAACATACATATT
78080350 TATTAATAATATATAATAAATATTAATATAATTAATTATTTTAGTAAAATCATTTAATATTATAA
130 TATTAATAATATATAATAAATATTAATATAATTAATTATTTTAGTAAAATCATTTAATATTATAA
78080415 TTTTATTTTTATAATAAATTTAAATTTTAAAATTTAAATAATATTTTAATAC-TTTTTAAAAATA
195 TTTTATTTTTATAATAAATTTAAATTTTAAAATTTAAATAATATTTTAATACTTTTTTAAAAATA
78080479 TTTTAATAATAAATATTTAGCTTATAATTTATAAATATTTAGTAATAAATGTTTAATAATATAAA
260 TTTTAATAATAAATATTTAGCTTATAATTTATAAATATTTAGTAATAAATGTTTAATAATATAAA
78080544 GTATGAATATATTTACTAATATTAATCCTAAAGCCACGAGTCAAATCATGCATCAACTTAATTGA
325 GTATGAATATATTTACTAATATTAATCCTAAAGCCACGAGTCAAATCATGCATCAACTTAATTGA
78080609 GAAATAATAAAAATATCTTCATTTTT
390 GAAATAATAAAAATATCTTCATTTTT
78080635 ATAAAATAT
1 ATAAAATAT
78080644 AATTTTGTCA
Statistics
Matches: 423, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
415 280 0.66
416 143 0.34
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (415 bp):
ATAAAATATTATTATATCAAATCGTGCCAAATATTATTATATTTATAATAATTTTTTAATTTTAA
TTTCTAAAATATTAAAATATTTATCTCAAATATTATAATTTTAATATTATACAACATACATATTT
ATTAATAATATATAATAAATATTAATATAATTAATTATTTTAGTAAAATCATTTAATATTATAAT
TTTATTTTTATAATAAATTTAAATTTTAAAATTTAAATAATATTTTAATACTTTTTTAAAAATAT
TTTAATAATAAATATTTAGCTTATAATTTATAAATATTTAGTAATAAATGTTTAATAATATAAAG
TATGAATATATTTACTAATATTAATCCTAAAGCCACGAGTCAAATCATGCATCAACTTAATTGAG
AAATAATAAAAATATCTTCATTTTT
Found at i:78087056 original size:28 final size:28
Alignment explanation
Indices: 78086999--78087056 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
78086989 ATCATTATTT
* *
78086999 TTATATATTATTAATATATTTTCTTGTA
1 TTATATATTATTAATATATTTTCATATA
78087027 TTATATATTTATTAAT-TATTTAT-ATATA
1 TTATATA-TTATTAATATATTT-TCATATA
78087055 TT
1 TT
78087057 GTCCTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATATTATTAATATATTTTCATATA
Found at i:78087157 original size:23 final size:23
Alignment explanation
Indices: 78087125--78087186 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
78087115 ATATATTCAA
* *
78087125 ATTATATTTATTATATAAAATTT
1 ATTATTTTTATTATATAAAACTT
* **
78087148 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAAAACTT
*
78087171 ATTATTATT-TTATATA
1 ATTATTTTTATTATATA
78087187 TGTTATGTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTATTTTTATTATATAAAACTT
Found at i:78087240 original size:19 final size:19
Alignment explanation
Indices: 78087194--78087242 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
78087184 ATATGTTATG
*
78087194 TATATTATATATTATCCAT
1 TATATTATTTATTATCCAT
*
78087213 TATATTATTTATTATTCAT
1 TATATTATTTATTATCCAT
78087232 TATATTATTTA
1 TATATTATTTA
78087243 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTATTTATTATCCAT
Found at i:78087333 original size:19 final size:19
Alignment explanation
Indices: 78087307--78087370 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
78087297 TAAATTATCA
78087307 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
78087325 ATTATTTTATTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
78087344 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
78087361 GTTATTTTAT
1 ATTATTTTAT
78087371 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:78095668 original size:124 final size:124
Alignment explanation
Indices: 78095448--78095698 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 124
78095438 TGCCGTTTGG
* *
78095448 ATTAAAGAACGCAGGGGCAATGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
1 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
78095513 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
66 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
78095572 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
1 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
*
78095637 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTATAGAAAAAGAACAT
66 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
78095696 ATT
1 ATT
78095699 GAGGTTTTGA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (124 bp):
ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
Found at i:78099498 original size:210 final size:210
Alignment explanation
Indices: 78099136--78099902 Score: 1003
Period size: 210 Copynumber: 3.7 Consensus size: 210
78099126 TCATTGAGGC
78099136 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
* * *
78099201 TTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATTATTTGTCGCCTCTGTATTGTCAGAGA
66 TTGACTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
78099266 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
*
78099331 TGTTTACACTGAAGT
196 TGTTTACACTGAAGA
* * * * *
78099346 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATGGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
* * *
78099411 TTGACCTTCACGTGTTTACAATAAAGTAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGACTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
*
78099476 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACGTAGCAGATCTCACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
* *
78099541 TGTTTGCGCTGAAGA
196 TGTTTACACTGAAGA
* *
78099556 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTAAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
* *
78099621 TT-AGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTTTCGTCTCTGTATTGTCAGAG
66 TTGA-CTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* ** * * *
78099685 AACAAATCAAAGTCTGGCATTTCCACTTCAATGG-AGAGCAGATACACAGCAGATCTGACCTTCA
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTCACCTTCA
* * *
78099749 GACGATTAGACTGAAGCA
194 GATGTTTACACTGAAG-A
* ** * * * ** * * *
78099767 AGAACCAAGATGATTTG-GC--ATC-CT-TGTGCTT--ACAAGGAACAAATCGAAGACATAGCTG
1 AGATCCAAGATGA-CAGATCTTATCTCTCTGT-ATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* ** * * * *
78099825 ATTTGACTTTCACATACTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
64 ATTTGACTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
78099890 GAACGAATCGAAG
129 GAACAAATCGAAG
78099903 AAGCAGATTT
Statistics
Matches: 490, Mismatches: 61, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
206 87 0.18
207 4 0.01
208 4 0.01
209 6 0.01
210 375 0.77
211 13 0.03
212 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (210 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
TTGACTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
TGTTTACACTGAAGA
Found at i:78101580 original size:17 final size:17
Alignment explanation
Indices: 78101553--78101664 Score: 63
Period size: 17 Copynumber: 6.5 Consensus size: 17
78101543 GTACTATAAG
78101553 ATTATTTTATCATATATT
1 ATTA-TTTATCATATATT
*
78101571 ATTATTTATCGTATATT
1 ATTATTTATCATATATT
* * * *
78101588 ATTTTTTTTCACAAATT
1 ATTATTTATCATATATT
78101605 ATTA-TTAT--TATCATT
1 ATTATTTATCATAT-ATT
78101620 ATT-TTTAT-ATATTATT
1 ATTATTTATCATA-TATT
* * *
78101636 AATATATTTTTCTTGTATT
1 -AT-TATTTATCATATATT
78101655 ATATATTTAT
1 AT-TATTTAT
78101665 TAATTATTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
14 1 0.01
15 10 0.14
16 8 0.11
17 30 0.42
18 14 0.19
19 8 0.11
20 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTATTTATCATATATT
Found at i:78101783 original size:23 final size:23
Alignment explanation
Indices: 78101751--78101814 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
78101741 ATATATTCAA
*
78101751 ATTATATTTTATTATATAAAATTT
1 ATTAT-TTTTATTATATAAAACTT
* **
78101775 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAAAACTT
78101798 ATTATTATTT-TTATATA
1 ATTATT-TTTATTATATA
78101815 TGTTATGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 26 0.76
24 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTATTTTTATTATATAAAACTT
Found at i:78101868 original size:19 final size:19
Alignment explanation
Indices: 78101774--78101870 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
78101764 ATATAAAATT
78101774 TATTATTT-TTATTC--TA
1 TATTATTTATTATTCATTA
*
78101790 TATTACTTATTATT-ATT-
1 TATTATTTATTATTCATTA
* *
78101807 T-TTATATA-TGTT-ATGTA
1 TATTATTTATTATTCAT-TA
* *
78101824 TATTATATATTATCCATTA
1 TATTATTTATTATTCATTA
78101843 TATTATTTATTATTCATTA
1 TATTATTTATTATTCATTA
78101862 TATTATTTA
1 TATTATTTA
78101871 AAATTTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.08
16 13 0.20
17 7 0.11
18 8 0.12
19 30 0.46
20 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTATTATTCATTA
Found at i:78101962 original size:19 final size:19
Alignment explanation
Indices: 78101936--78101999 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
78101926 TAAATTATCA
78101936 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
78101954 ATTATTTTATTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
78101973 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
78101990 GTTATTTTAT
1 ATTATTTTAT
78102000 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:78109044 original size:40 final size:40
Alignment explanation
Indices: 78108968--78109044 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
78108958 AATTATTTTT
* **
78108968 AAAAAATTTAAAATTAATGAGAATTTCCAATCATTTTTAA
1 AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTTTAA
*
78109008 AAAAAAATTAAAATTAATGAGAATTTCTAAAAATTTT
1 AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTT
78109045 ATAAGAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (40 bp):
AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTTTAA
Found at i:78121960 original size:16 final size:15
Alignment explanation
Indices: 78121939--78121968 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
78121929 TAACAAAAAC
78121939 AAAATAAATAAAATAA
1 AAAATAAA-AAAATAA
78121955 AAAATAAAAAAATA
1 AAAATAAAAAAATA
78121969 GCCTATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:78131902 original size:35 final size:35
Alignment explanation
Indices: 78131856--78131925 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
78131846 GTGGAGAGAA
*
78131856 CTTTGACACTGTGTTAGCCGACCACGTGCCCCCAT
1 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
78131891 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
1 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
78131926 AAGACTTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.26
Consensus pattern (35 bp):
CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
Found at i:78132906 original size:30 final size:29
Alignment explanation
Indices: 78132872--78132935 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
78132862 TTAATAAAGG
*
78132872 TAAAATTGTACTTTGAA-CCTCTAAAAATTA
1 TAAAATT-TAATTT-AATCCTCTAAAAATTA
*
78132902 TAAAAATTTAATTTAATCCTTTAAAAATTA
1 T-AAAATTTAATTTAATCCTCTAAAAATTA
78132932 TAAA
1 TAAA
78132936 TATATAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 5 0.17
30 19 0.63
31 6 0.20
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAATTTAATTTAATCCTCTAAAAATTA
Found at i:78135546 original size:89 final size:89
Alignment explanation
Indices: 78135395--78135568 Score: 312
Period size: 89 Copynumber: 2.0 Consensus size: 89
78135385 GAAAGTTTAC
*
78135395 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAT
1 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAC
78135460 GATTTCAATATCAACACAAATTAT
66 GATTTCAATATCAACACAAATTAT
* * *
78135484 TAATGGAAAGTAAATGAATCTAGGATTAACTAGTCTTATAGGCAACGATGTATCATTAATATAAC
1 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAC
78135549 GATTTCAATATCAACACAAA
66 GATTTCAATATCAACACAAA
78135569 CTTTAGTTGA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (89 bp):
TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAC
GATTTCAATATCAACACAAATTAT
Found at i:78138675 original size:47 final size:45
Alignment explanation
Indices: 78138612--78138773 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 45
78138602 GCCGATGCCT
* * * *
78138612 TGTCCTAGACACGGTCTTAAACTGGCTCACATCTCAAGTCAATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCT-ACATCTCAAGCCAATG-CA
* *
78138659 TGTCCCAGACATGGTCTTACATTGACTATCATCTCATAGCCAATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTA-CATCTCA-AGCCAATGCA
* * * * *
78138706 TGTGCTAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGC-TACATCTC-AAGCCAATGCA
*
78138752 TGTCCCAGACAT-GCCTTACACT
1 TGTCCCAGACATGGTCTTACACT
78138774 AGCCCATACA
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
46 44 0.46
47 44 0.46
48 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACACTGGCTACATCTCAAGCCAATGCA
Found at i:78146461 original size:3 final size:3
Alignment explanation
Indices: 78146455--78146543 Score: 65
Period size: 3 Copynumber: 28.7 Consensus size: 3
78146445 TACATTGTTG
* * *
78146455 TTA TTA TTA TTA TTA TTCC TGA TT- TTA TTA TTA TTCA CGTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
* **
78146502 TCA TCC TTCA TT- TTCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
78146544 TTAAACATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 4 0.06
3 57 0.83
4 7 0.10
5 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:78150127 original size:25 final size:25
Alignment explanation
Indices: 78150069--78150118 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
78150059 GTAATTACAC
78150069 CAATTCATAGTCCCATCTTTACCCG
1 CAATTCATAGTCCCATCTTTACCCG
78150094 CAATTCATAGTCCCATCTTTACCCG
1 CAATTCATAGTCCCATCTTTACCCG
78150119 TATTCCATAT
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:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (25 bp):
CAATTCATAGTCCCATCTTTACCCG
Found at i:78156433 original size:79 final size:79
Alignment explanation
Indices: 78156298--78156445 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 79
78156288 ATGTATTAAG
* *
78156298 ATATGCAATCCATGAATATATAAGCTGACTTTATGCTCTTTTGTAACCTTACATTAAGGATAATT
1 ATATGCAATCCATGAAGATATAAGCTGACTTTAAGCTCTTTTGTAACCTTACATTAAGGATAATT
78156363 GATTATATATTGAT
66 GATTATATATTGAT
* * * ** *
78156377 ATATGCAATCCATGAAGATATGAGTTGATTTTACAG-TCTTTTGTATTCTTATATTAAGGATAAT
1 ATATGCAATCCATGAAGATATAAGCTGACTTTA-AGCTCTTTTGTAACCTTACATTAAGGATAAT
78156441 TGATT
65 TGATT
78156446 TGATTAGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 59 0.98
80 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (79 bp):
ATATGCAATCCATGAAGATATAAGCTGACTTTAAGCTCTTTTGTAACCTTACATTAAGGATAATT
GATTATATATTGAT
Found at i:78159808 original size:12 final size:13
Alignment explanation
Indices: 78159770--78159812 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
78159760 CTGAAATTGC
78159770 AATAATAAATAAAT
1 AATAATAAAT-AAT
78159784 AAATAAGTAAATAAT
1 -AATAA-TAAATAAT
78159799 AATAAT-AATAAT
1 AATAATAAATAAT
78159811 AA
1 AA
78159813 ATTTCATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 5 0.19
15 8 0.30
16 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:78159839 original size:65 final size:65
Alignment explanation
Indices: 78159716--78159839 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
78159706 GTAAGACAAT
* *
78159716 AATAAATAAGTAAATAATAGTAAAATAAAAAAATGCATGAAAGGCTGAAATTGCAATAATAAATA
1 AATAAATAAGTAAATAATAATAAAATAAAAAAATGCATGAAAGGCTGAAATTGAAATAATAAATA
* * *
78159781 AATAAATAAGTAAATAATAATAATAATAATAAATTTCATGAAAGGCT-AAGATT-AAATAA
1 AATAAATAAGTAAATAATAATAA-AATAAAAAAATGCATGAAAGGCTGAA-ATTGAAATAA
78159840 ATAAGGGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
65 29 0.56
66 23 0.44
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (65 bp):
AATAAATAAGTAAATAATAATAAAATAAAAAAATGCATGAAAGGCTGAAATTGAAATAATAAATA
Found at i:78162714 original size:44 final size:45
Alignment explanation
Indices: 78162666--78163312 Score: 316
Period size: 45 Copynumber: 13.8 Consensus size: 45
78162656 TCGTATATTC
* * *
78162666 AATCTGCTCCATTGCAACTTTAGAGAGATAAGGTTTG-TGGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* ** * * **
78162710 AATCTACTTTACTGCAACTTCAGAGAGATAAAAGTTGCT-ATTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
*
78162754 CAATCTGCTCAACTGCAACTTCA-AGAAGATAAGATTTGC-GGCTTT
1 -AATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGCTGGCTTT
* * * * ** *
78162799 AATCTGCTCTACTGCAGCTTCAAAAAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * * *
78162844 AATCTTCTCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT--T---GC-TGGCTTT
* * * * * *
78162895 AATTTGTTCCACTACAACCTCAAAGAGATAAGATTTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-T-GC-TG--GCTTT
* * * * ** ** *
78162946 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* *
78162991 AATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG---C-TG--GCTTT
** * * ** * *
78163042 AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * *
78163087 AATCTGCTCTACTGCAACTTCA-AGGAGATAAGATTTATAACTTGTAGCTCT
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGA-TT-T-GC-TG--GCTTT
* * * * * * ** *
78163138 AATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * * * *
78163183 AATCTACTTCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TT-T-GC-TG--GCTTT
* * * * * *
78163234 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTAC-AGCTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
*
78163278 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
78163313 GGTCATGATG
Statistics
Matches: 453, Mismatches: 115, Indels: 70
0.71 0.18 0.11
Matches are distributed among these distances:
44 103 0.23
45 159 0.35
46 4 0.01
47 5 0.01
48 9 0.02
49 6 0.01
50 7 0.02
51 158 0.35
52 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
Found at i:78162814 original size:89 final size:89
Alignment explanation
Indices: 78162663--78162878 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 89
78162653 GACTCGTATA
* * * * *
78162663 TTCAATCTGCTCCATTGCAACTT-TAGAGAGATAAGGTTTGTGGCTTTAATCTACTTTACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAAGA-AGATAAGATTTGCGGCTTTAATCTACTCTACTGCAA
* * *
78162727 CTTCAGAGAGATAAAAGTTGCTATT
65 CTTCAAAAAGATAAAAGTTGCTATC
* * *
78162752 TTCAATCTGCTCAACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTGCTCTACTGCAGC
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTACTCTACTGCAAC
* *
78162817 TTCAAAAAGATAAGATTTGCTATC
66 TTCAAAAAGATAAAAGTTGCTATC
* * *
78162841 TTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATT
78162879 CATAACTCAT
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 106 0.97
90 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (89 bp):
TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTACTCTACTGCAAC
TTCAAAAAGATAAAAGTTGCTATC
Found at i:78162977 original size:51 final size:49
Alignment explanation
Indices: 78162851--78163312 Score: 377
Period size: 51 Copynumber: 9.6 Consensus size: 49
78162841 TTCAATCTTC
* * *
78162851 TCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATT-TTAACT-GTAGCTTTAATCTGT
* * **
78162902 TCCACTACAACCTCAAAGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTT-TAAC-TGTAGCTTTAATCTGT
* * * * * *
78162953 TCCACTGCAACTTTAGGGAAATAAGA--TTCAC--TATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTTAACTGTAGCTTTAATCTGT
* *
78162998 TCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATTT-TAAC-TGTAGCTTTAATCTGT
* * * * * *
78163049 TCCACTGCAACTTCAGGGAAATAAGA-TTT-GC--TATCCTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTTAACTGTAGCTTTAATCTGT
* * *
78163094 TCTACTGCAACTTCAAGGAGATAAGATTTATAACTTGTAGCTCTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTT-TAAC-TGTAGCTTTAATCTGT
* * * * * *
78163145 TCCACTGTAACTTTAGGGAAATAAGA--TT--C-GCTATCTTCAATCTACT
1 TCCACTGCAACTTCAGGGAGATAAGATTTTAACTG-TAGCTTTAATCT-GT
*
78163191 T-CACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAACTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTT-TAAC-TGTAGCTTTAATCTGT
* * *
78163241 TCCACTGCAACTTTAGGGAAATAAGA-TTT-AC---AGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTTAACTGTAGCTTTAATCTGT
78163285 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
78163313 GGTCATGATG
Statistics
Matches: 323, Mismatches: 63, Indels: 56
0.73 0.14 0.13
Matches are distributed among these distances:
44 36 0.11
45 97 0.30
46 5 0.02
47 3 0.01
48 12 0.04
49 4 0.01
50 7 0.02
51 157 0.49
52 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (49 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTTAACTGTAGCTTTAATCTGT
Found at i:78163046 original size:96 final size:96
Alignment explanation
Indices: 78162851--78163312 Score: 620
Period size: 96 Copynumber: 4.8 Consensus size: 96
78162841 TTCAATCTTC
* * * * * * *
78162851 TCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTTAATTTGTTCCACTACAACCTC
1 TCCACTGCAACTTTAGGGAAATAAGATTC---ACT-AT--CTTCAATCTGCTCCACTGCAACTTC
**
78162916 AAAGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
60 AGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
78162953 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *
78163018 ATAAGGTTTGTAACTTGTAGCTTTAATCTAT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* ** * * *
78163049 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCTCAATCTGCTCTACTGCAACTTCAAGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
*
78163114 ATAAGATTTATAACTTGTAGCTCTAATCTGT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * *
78163145 TCCACTGTAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTACTTCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
*
78163210 ATAAGATTTATAACTTGTAACTTTAATCTGT
66 ATAAGATTTATAACTTGTAGCTTTAATCTGT
* * *
78163241 TCCACTGCAACTTTAGGGAAATAAGATTTAC-AGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
78163305 ATAAGATT
66 ATAAGATT
78163313 GGTCATGATG
Statistics
Matches: 321, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
95 37 0.12
96 252 0.79
98 2 0.01
99 3 0.01
102 27 0.08
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (96 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTATAACTTGTAGCTTTAATCTGT
Found at i:78166267 original size:13 final size:13
Alignment explanation
Indices: 78166249--78166283 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
78166239 TTGACATGTT
78166249 TGAAAATTTCGTG
1 TGAAAATTTCGTG
78166262 TGAAAATTTCGTG
1 TGAAAATTTCGTG
78166275 TGAAAATTT
1 TGAAAATTT
78166284 TATCATTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (13 bp):
TGAAAATTTCGTG
Found at i:78167730 original size:43 final size:42
Alignment explanation
Indices: 78167618--78167735 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
78167608 TGTGTTATCG
* *
78167618 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
* * *
78167660 TGTAAGACCTTGCCTGGGACAG-AGGCATCGGTATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATC-GTATTTGATTACA
* *
78167703 TGTAAGACCATGTCTAGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTAT
78167736 GAACTTTCCA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:78167932 original size:20 final size:20
Alignment explanation
Indices: 78167907--78167947 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
78167897 GGTATAAGTA
78167907 TGAGAATGAGTTATTATATG
1 TGAGAATGAGTTATTATATG
78167927 TGAGAATGAGTTATTATATG
1 TGAGAATGAGTTATTATATG
78167947 T
1 T
78167948 ATATGTGAAT
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:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (20 bp):
TGAGAATGAGTTATTATATG
Found at i:78170482 original size:46 final size:45
Alignment explanation
Indices: 78170415--78170587 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 45
78170405 TAACCCGCCG
*
78170415 ATAAGTGAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGTATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTATCC
* * * *
78170461 ATAAGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGT-TAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTATCC
*** * * *
78170507 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTATCC
*
78170554 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
78170588 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 34 0.33
48 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTATCC
Found at i:78170534 original size:93 final size:93
Alignment explanation
Indices: 78170421--78170591 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
78170411 GCCGATAAGT
* * * * *
78170421 GAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78170486 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
78170514 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
78170579 CGAGTTCGGATGC
66 CGAGCTCGGATGC
78170592 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:78170607 original size:46 final size:45
Alignment explanation
Indices: 78170464--78170607 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
78170454 CGTATCCATA
* *
78170464 AGTGAACTCGGACTCAACTTAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
78170513 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
78170556 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
78170603 AGTGA
1 AGTGA
78170608 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 28 0.35
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:78175406 original size:46 final size:46
Alignment explanation
Indices: 78175341--78175606 Score: 280
Period size: 46 Copynumber: 6.0 Consensus size: 46
78175331 TTATTTTCGA
* * * * * *
78175341 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATGT
* * ** **
78175387 CATGTTGTCATGGTATCTTTCAACCATAGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
78175433 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
** * *
78175479 CACCTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
78175525 CAGGTTGCCATGGTATCTTTCAACCA------T--ACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
78175563 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
78175607 TTCAGAGAGC
Statistics
Matches: 189, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
38 37 0.20
40 1 0.01
44 1 0.01
45 4 0.02
46 146 0.77
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:78175565 original size:38 final size:38
Alignment explanation
Indices: 78175514--78175589 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
78175504 ATGGTCTTAC
78175514 ACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 ACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
78175552 ACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 ACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
78175590 GGTCTTACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (38 bp):
ACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
Found at i:78179310 original size:17 final size:17
Alignment explanation
Indices: 78179284--78179335 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
78179274 TTAATAACGA
*
78179284 ATGTAAATATAAATAAT
1 ATGTATATATAAATAAT
*
78179301 ATGTATATATGTAAAAAAT
1 ATGTATATA--TAAATAAT
* *
78179320 ATATATAAATAAATAA
1 ATGTATATATAAATAA
78179336 CAAGCGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATGTATATATAAATAAT
Done.