Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 44 of 52
Found at i:7128786 original size:21 final size:21
Alignment explanation
Indices: 7128746--7128815 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 21
7128736 GATAATCATA
7128746 TATATATATATATGAAAATTTATT
1 TATAT-TAT-TAT-AAAATTTATT
* *
7128770 TATATTATTATAAAATTAAAT
1 TATATTATTATAAAATTTATT
*
7128791 TAT-TT-TTATATAATTGT-TT
1 TATATTATTATAAAATT-TATT
7128810 TATATT
1 TATATT
7128816 TATTTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 13 0.33
20 4 0.10
21 11 0.28
22 3 0.08
23 3 0.08
24 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TATATTATTATAAAATTTATT
Found at i:7129706 original size:2 final size:2
Alignment explanation
Indices: 7129699--7129723 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7129689 CAGGAGAAGG
7129699 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7129724 GCAGTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7130119 original size:31 final size:32
Alignment explanation
Indices: 7130083--7130151 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
7130073 TATTTTTTAA
* *
7130083 AAATATTTATATTTAAAACATATT-TAAATAT
1 AAATATATATATTTAAAACATATTAAAAATAT
* * *
7130114 AAATATATATTTTTTAAATATATTAAAAAATAT
1 AAATATATATATTTAAAACATATT-AAAAATAT
7130147 AAATA
1 AAATA
7130152 AATAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 20 0.65
33 11 0.35
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATATATATATTTAAAACATATTAAAAATAT
Found at i:7131643 original size:21 final size:18
Alignment explanation
Indices: 7131617--7131657 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
7131607 TAAATATTAT
7131617 ATTTACATATATTTAATTAAA
1 ATTTACAT-TATTT--TTAAA
7131638 ATTTACATTATTTTTAAA
1 ATTTACATTATTTTTAAA
7131656 AT
1 AT
7131658 CTAATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTACATTATTTTTAAA
Found at i:7138742 original size:2 final size:2
Alignment explanation
Indices: 7138735--7138763 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7138725 TAGTTTCTCA
7138735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7138764 ACGGAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7139186 original size:15 final size:16
Alignment explanation
Indices: 7139157--7139187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7139147 ATTTTTTATT
7139157 AAAAAAAACCAAAAAG
1 AAAAAAAACCAAAAAG
*
7139173 AAAAAAAATCAAAAA
1 AAAAAAAACCAAAAA
7139188 TCAAAGGGAC
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:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAAAACCAAAAAG
Found at i:7143380 original size:25 final size:24
Alignment explanation
Indices: 7143343--7143394 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
7143333 ATATATTATT
7143343 TTTATTAAATTTTAAAAAATAATTA
1 TTTATTAAATTTTAAAAAA-AATTA
* * * *
7143368 TTTATTTATTTTTTATAAAAATTA
1 TTTATTAAATTTTAAAAAAAATTA
7143392 TTT
1 TTT
7143395 TAATCAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTATTAAATTTTAAAAAAAATTA
Found at i:7143415 original size:18 final size:18
Alignment explanation
Indices: 7143388--7143422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7143378 TTTTATAAAA
*
7143388 ATTATTTTAATCAATATC
1 ATTATATTAATCAATATC
*
7143406 ATTATATTAATTAATAT
1 ATTATATTAATCAATAT
7143423 TTTTTTAATA
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:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTATATTAATCAATATC
Found at i:7146265 original size:3 final size:3
Alignment explanation
Indices: 7146257--7146281 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7146247 CTGGTAACCT
7146257 CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA C
7146282 TCATAGTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:7147886 original size:36 final size:34
Alignment explanation
Indices: 7147846--7147930 Score: 82
Period size: 36 Copynumber: 2.4 Consensus size: 34
7147836 TAATTAATAA
*
7147846 TATTTATATTTTATT-ATTGTATATTTAAAATATATT
1 TATTTATATTTTATTAAAT-T-TATTTAAAAT-TATT
* *
7147882 TATTTATCTGTTTGTTTAAATTTATTTAAAATTATT
1 TATTTATAT-TTT-ATTAAATTTATTTAAAATTATT
*
7147918 TATTTATAGTTTA
1 TATTTATATTTTA
7147931 AAAACATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
35 3 0.08
36 19 0.47
37 13 0.32
38 3 0.08
39 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (34 bp):
TATTTATATTTTATTAAATTTATTTAAAATTATT
Found at i:7148097 original size:10 final size:10
Alignment explanation
Indices: 7148082--7148127 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
7148072 TAAAATTTTT
7148082 AATAAATATA
1 AATAAATATA
*
7148092 AATAAATTTA
1 AATAAATATA
*
7148102 AA-AATAAATA
1 AATAA-ATATA
7148112 AATAAATATA
1 AATAAATATA
7148122 AATAAA
1 AATAAA
7148128 AATTTACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.87
11 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAAATATA
Found at i:7148763 original size:17 final size:15
Alignment explanation
Indices: 7148707--7148767 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 15
7148697 AATTTTATAA
* *
7148707 ATATATAAAATAATT
1 ATATTTAAAAAAATT
7148722 A-A-TTAACAAAAATT
1 ATATTTAA-AAAAATT
7148736 ATATTTAAAAAAATT
1 ATATTTAAAAAAATT
7148751 AATATTATAAAAAAATT
1 -ATATT-TAAAAAAATT
7148768 TAAAAACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 3 0.08
14 8 0.21
15 9 0.23
16 9 0.23
17 10 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATTTAAAAAAATT
Found at i:7150065 original size:149 final size:148
Alignment explanation
Indices: 7149789--7150061 Score: 351
Period size: 146 Copynumber: 1.9 Consensus size: 148
7149779 TGTTTAGATT
* * *
7149789 TAATTTAATTCAAAATAAAAGTAAATAATTTATCCAAAATTTAATCCGATCATGTAAAAATACTA
1 TAATTCAATTCAAAATAAAAGTAAATAATTTATCCAAAATTTAATCCGATCATATAAAAATACAA
* * * * *
7149854 CTCATATCCAACATAAGGCTTGCCAAATTTGTAAACAAAAAGATCTGTGTCTCAAAAAAAAATAT
66 CACATATCCAACATAAGACTCGCCAAATTTCTAAACAAAAAGATCTGTCTCTCAAAAAAAAATAT
7149919 GTCTTCAATATCGATATA
131 GTCTTCAATATCGATATA
* *
7149937 TAATTCAATTCAAAATAAAAAGTAAA-AATTTTATTCAAAATTTAATCTGATCATAT-AAAA-AC
1 TAATTCAATTCAAAAT-AAAAGTAAATAA-TTTATCCAAAATTTAATCCGATCATATAAAAATAC
* * *
7149999 AACACAT-TCCCTACA-AAGAC-CGACCAAATTTCTAAACAAAAAGATTTTTCTCTCAAAAAAAA
64 AACACATAT-CCAACATAAGACTCG-CCAAATTTCTAAACAAAAAGATCTGTCTCTCAAAAAAAA
7150061 A
127 A
7150062 AAATCTATCC
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
145 1 0.01
146 41 0.38
147 12 0.11
148 21 0.19
149 33 0.31
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (148 bp):
TAATTCAATTCAAAATAAAAGTAAATAATTTATCCAAAATTTAATCCGATCATATAAAAATACAA
CACATATCCAACATAAGACTCGCCAAATTTCTAAACAAAAAGATCTGTCTCTCAAAAAAAAATAT
GTCTTCAATATCGATATA
Found at i:7156197 original size:17 final size:16
Alignment explanation
Indices: 7156175--7156218 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
7156165 AAATTTGATA
7156175 AAAAAATATACAAAATT
1 AAAAAATATA-AAAATT
* *
7156192 AAAAAAAATAACAATT
1 AAAAAATATAAAAATT
7156208 AAAAAACTATA
1 AAAAAA-TATA
7156219 TTTAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAATATAAAAATT
Found at i:7156207 original size:16 final size:18
Alignment explanation
Indices: 7156173--7156218 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
7156163 ATAAATTTGA
7156173 TAAAAAAATATACAAAAT
1 TAAAAAAATATACAAAAT
*
7156191 TAAAAAAA-ATA-ACAAT
1 TAAAAAAATATACAAAAT
*
7156207 TAAAAAACTATA
1 TAAAAAAATATA
7156219 TTTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.44
17 6 0.24
18 8 0.32
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAAAATATACAAAAT
Found at i:7156836 original size:20 final size:21
Alignment explanation
Indices: 7156813--7156851 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7156803 TCATGCCATA
* *
7156813 AAATTTAAATGCTA-TTTTTT
1 AAATTAAAAAGCTAGTTTTTT
7156833 AAATTAAAAAGCTAGTTTT
1 AAATTAAAAAGCTAGTTTT
7156852 GATATTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (21 bp):
AAATTAAAAAGCTAGTTTTTT
Found at i:7157798 original size:11 final size:11
Alignment explanation
Indices: 7157778--7157808 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7157768 TTAATATTAA
*
7157778 TAATTAAATTT
1 TAATTTAATTT
7157789 TAATTTAATTT
1 TAATTTAATTT
7157800 TAATTTAAT
1 TAATTTAAT
7157809 ATGATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TAATTTAATTT
Found at i:7157806 original size:16 final size:16
Alignment explanation
Indices: 7157787--7157822 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7157777 ATAATTAAAT
*
7157787 TTTAATTTAATTTTAA
1 TTTAATATAATTTTAA
*
7157803 TTTAATATGATTTTAA
1 TTTAATATAATTTTAA
7157819 TTTA
1 TTTA
7157823 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTAATATAATTTTAA
Found at i:7160109 original size:2 final size:2
Alignment explanation
Indices: 7160102--7160142 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7160092 TATGTCACAA
7160102 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7160143 ACTATCAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7161070 original size:2 final size:2
Alignment explanation
Indices: 7161063--7161087 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7161053 TTTATTTATT
7161063 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7161088 GTAGTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7164407 original size:16 final size:16
Alignment explanation
Indices: 7164382--7164413 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7164372 AGTGGAAAAA
*
7164382 GAAGAGAAAGAGAGAG
1 GAAGAAAAAGAGAGAG
7164398 GAAGAAAAAGAGAGAG
1 GAAGAAAAAGAGAGAG
7164414 AGAGAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAGAGAG
Found at i:7164408 original size:22 final size:22
Alignment explanation
Indices: 7164375--7164420 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7164365 AAGAGGAAGT
7164375 GGAAAAAGAAGAGAAAGAGAGA
1 GGAAAAAGAAGAGAAAGAGAGA
*
7164397 GGAAGAAA-AAGAGAGAGAGAGA
1 GGAA-AAAGAAGAGAAAGAGAGA
7164419 GG
1 GG
7164421 GGTTTCAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (22 bp):
GGAAAAAGAAGAGAAAGAGAGA
Found at i:7164701 original size:44 final size:44
Alignment explanation
Indices: 7164651--7164793 Score: 148
Period size: 44 Copynumber: 3.2 Consensus size: 44
7164641 GATCAAATTT
*
7164651 TTATTTTTAATTTAATTAATTAAATTAATTAATTTTAATATATA
1 TTATTTTTAATTTAATTAATTAAATTAATCAATTTTAATATATA
* * * *
7164695 TTATTTTTAATGTTAA--AATTTAAATTAGTCAATTCGATCAA-ATTTT
1 TTATTTTTAAT-TTAATTAA-TTAAATTAATCAATT---TTAATATATA
* * *
7164741 TTATTTTTAATTTAATCAATTGAATCAATCAATTTTAATATATA
1 TTATTTTTAATTTAATTAATTAAATTAATCAATTTTAATATATA
7164785 TTATTTTTA
1 TTATTTTTA
7164794 TTTTTAAATA
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
43 5 0.06
44 36 0.45
45 8 0.10
46 26 0.32
47 5 0.06
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (44 bp):
TTATTTTTAATTTAATTAATTAAATTAATCAATTTTAATATATA
Found at i:7164848 original size:25 final size:23
Alignment explanation
Indices: 7164798--7164864 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 23
7164788 TTTTTATTTT
*
7164798 TAAATATT-AATATTAAT-TTAA
1 TAAAAATTAAATATTAATATTAA
7164819 TAAAAATTAAATATTAATAATTAA
1 TAAAAATTAAATATTAAT-ATTAA
7164843 TAAAAAATTAAATATTAATATT
1 T-AAAAATTAAATATTAATATT
7164865 TAAATCTCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 7 0.17
22 9 0.22
24 8 0.20
25 17 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAAATTAAATATTAATATTAA
Found at i:7165436 original size:2 final size:2
Alignment explanation
Indices: 7165429--7165453 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7165419 ATCCAATTAC
7165429 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7165454 AAATTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7166473 original size:22 final size:22
Alignment explanation
Indices: 7166445--7166498 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
7166435 ATAGCCTGAG
*
7166445 CCATAATCTATACTACATTGAA
1 CCATAATCAATACTACATTGAA
7166467 CCATAATCAATACTACATTGAA
1 CCATAATCAATACTACATTGAA
7166489 CCATAATCAA
1 CCATAATCAA
7166499 ACACACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (22 bp):
CCATAATCAATACTACATTGAA
Found at i:7166506 original size:22 final size:22
Alignment explanation
Indices: 7166445--7166506 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
7166435 ATAGCCTGAG
* *
7166445 CCATAATCTATACTACATTGAA
1 CCATAATCAATACCACATTGAA
*
7166467 CCATAATCAATACTACATTGAA
1 CCATAATCAATACCACATTGAA
7166489 CCATAATCAA-ACACACAT
1 CCATAATCAATAC-CACAT
7166507 AAATTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (22 bp):
CCATAATCAATACCACATTGAA
Found at i:7169620 original size:15 final size:15
Alignment explanation
Indices: 7169592--7169637 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
7169582 ATAAAAATAT
**
7169592 ATTAAATTAATAAAA
1 ATTAAATTTTTAAAA
7169607 ATTAAATTTTTAAAA
1 ATTAAATTTTTAAAA
* *
7169622 AATATATTTTTAAAA
1 ATTAAATTTTTAAAA
7169637 A
1 A
7169638 ATATAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAATTTTTAAAA
Found at i:7169638 original size:15 final size:15
Alignment explanation
Indices: 7169602--7169642 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7169592 ATTAAATTAA
* *
7169602 TAAAAATTAAATTTT
1 TAAAAAATATATTTT
7169617 TAAAAAATATATTTT
1 TAAAAAATATATTTT
7169632 TAAAAAATATA
1 TAAAAAATATA
7169643 ATATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAAAAATATATTTT
Found at i:7177372 original size:24 final size:24
Alignment explanation
Indices: 7177334--7177386 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7177324 ATAATAAATA
**
7177334 TAATATAATTTATTTAGATATAAT
1 TAATATAATAAATTTAGATATAAT
** *
7177358 TAATATAATAAATTTTTATATATT
1 TAATATAATAAATTTAGATATAAT
7177382 TAATA
1 TAATA
7177387 ATTTTATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATAATAAATTTAGATATAAT
Found at i:7177387 original size:19 final size:19
Alignment explanation
Indices: 7177363--7177402 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
7177353 ATAATTAATA
7177363 TAATAAATTTT-TATATATT
1 TAAT-AATTTTATATATATT
7177382 TAATAATTTTATATATATT
1 TAATAATTTTATATATATT
7177401 TA
1 TA
7177403 CATGATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATAATTTTATATATATT
Found at i:7178049 original size:23 final size:21
Alignment explanation
Indices: 7178010--7178069 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
7178000 TTTAAGAGTT
*
7178010 TATATTTAATATATATTTATA
1 TATATATAATATATATTTATA
7178031 TATATATAATATAATTATTTA-A
1 TATATATAATAT-A-TATTTATA
*
7178053 TTTATCAATAATATATA
1 TATAT--ATAATATATA
7178070 AATTTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 11 0.33
22 8 0.24
23 7 0.21
24 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATATAATATATATTTATA
Found at i:7178603 original size:17 final size:18
Alignment explanation
Indices: 7178572--7178607 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7178562 ATTCGTTTAA
*
7178572 ATTTAAAAATTATTTGAT
1 ATTTAAAAATGATTTGAT
7178590 ATTTAAAAA-GATTTGAT
1 ATTTAAAAATGATTTGAT
7178607 A
1 A
7178608 AAAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTAAAAATGATTTGAT
Found at i:7178752 original size:18 final size:16
Alignment explanation
Indices: 7178719--7178766 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
7178709 ACTCATTTTT
*
7178719 TAATTTA-ATAATATA
1 TAATTTATATTATATA
7178734 TAATTTTTATATTATATA
1 TAA--TTTATATTATATA
7178752 TAATTTATATTATAT
1 TAATTTATATTATAT
7178767 CAATAATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
17 4 0.14
18 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTTATATTATATA
Found at i:7180761 original size:2 final size:2
Alignment explanation
Indices: 7180754--7180788 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7180744 TCTTTAAAGC
*
7180754 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7180789 GTTGATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7182135 original size:9 final size:9
Alignment explanation
Indices: 7182101--7182150 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
7182091 AAATATTTTA
7182101 TAAATATA-
1 TAAATATAT
7182109 TAAA-ATAT
1 TAAATATAT
*
7182117 TAAAAATAT
1 TAAATATAT
7182126 TAAATATAT
1 TAAATATAT
7182135 T---TATAT
1 TAAATATAT
7182141 TAAATATAT
1 TAAATATAT
7182150 T
1 T
7182151 TCATATATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.17
7 3 0.08
8 8 0.22
9 19 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAAATATAT
Found at i:7182142 original size:15 final size:16
Alignment explanation
Indices: 7182122--7182156 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
7182112 AATATTAAAA
7182122 ATATTAAATATATTT-
1 ATATTAAATATATTTC
7182137 ATATTAAATATATTTC
1 ATATTAAATATATTTC
7182153 ATAT
1 ATAT
7182157 ATAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTAAATATATTTC
Found at i:7182625 original size:17 final size:17
Alignment explanation
Indices: 7182598--7182638 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
7182588 ATTTTAAAAA
7182598 ATTAAATATAT-TT-AT
1 ATTAAATATATATTAAT
7182613 ATTAAATATATATTAAT
1 ATTAAATATATATTAAT
*
7182630 ATTCAATAT
1 ATTAAATAT
7182639 TAATATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 10 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAAATATATATTAAT
Found at i:7184502 original size:11 final size:11
Alignment explanation
Indices: 7184486--7184512 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7184476 AGGTGTTGAA
7184486 AAAAAAAGCTT
1 AAAAAAAGCTT
7184497 AAAAAAAGCTT
1 AAAAAAAGCTT
7184508 AAAAA
1 AAAAA
7184513 GGCTCAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAAAAGCTT
Found at i:7185674 original size:21 final size:21
Alignment explanation
Indices: 7185648--7185691 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7185638 AACTCTTAAA
7185648 TATTACAAGTTTAAAAGAGTT
1 TATTACAAGTTTAAAAGAGTT
7185669 TATTACAAGTTTAAAAGAGTT
1 TATTACAAGTTTAAAAGAGTT
7185690 TA
1 TA
7185692 GATACGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (21 bp):
TATTACAAGTTTAAAAGAGTT
Found at i:7185934 original size:21 final size:21
Alignment explanation
Indices: 7185899--7185961 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
7185889 TTTAATTACT
*
7185899 ATTTAATAAATAAAAAATTTAA
1 ATTTAAT-TATAAAAAATTTAA
*
7185921 ATTTAATTATAAAAAATATAA
1 ATTTAATTATAAAAAATTTAA
7185942 ATATTAA-TATAAAAATATTT
1 AT-TTAATTATAAAAA-ATTT
7185962 TAATATTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 22 0.61
22 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTAATTATAAAAAATTTAA
Found at i:7185956 original size:22 final size:22
Alignment explanation
Indices: 7185899--7185956 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7185889 TTTAATTACT
* *
7185899 ATTTAATAAATAAAAAATTTAA
1 ATTTAATATATAAAAAATATAA
7185921 ATTTAAT-TATAAAAAATATAA
1 ATTTAATATATAAAAAATATAA
7185942 ATATTAATATA-AAAA
1 AT-TTAATATATAAAA
7185957 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 14 0.44
22 16 0.50
23 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTTAATATATAAAAAATATAA
Found at i:7185966 original size:22 final size:22
Alignment explanation
Indices: 7185908--7185968 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
7185898 TATTTAATAA
7185908 ATAAAAAATTTAAAT-TTAATT
1 ATAAAAAATTTAAATATTAATT
*
7185929 ATAAAAAATATAAATATTAA-T
1 ATAAAAAATTTAAATATTAATT
*
7185950 ATAAAAATATTTTAATATT
1 ATAAAAA-ATTTAAATATT
7185969 TGTTAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAAAAATTTAAATATTAATT
Found at i:7186789 original size:26 final size:28
Alignment explanation
Indices: 7186760--7186815 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
7186750 TAAATTCATT
7186760 ATTATTTAATATAAATATA-AT-TTTTA
1 ATTATTTAATATAAATATATATATTTTA
* *
7186786 ATTATTTATTATATATATATATATTTTA
1 ATTATTTAATATAAATATATATATTTTA
7186814 AT
1 AT
7186816 GTAATATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 17 0.65
27 2 0.08
28 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTATTTAATATAAATATATATATTTTA
Found at i:7188298 original size:18 final size:17
Alignment explanation
Indices: 7188277--7188311 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7188267 TTATTTAATT
7188277 ATTTTGGAAATTTAAATA
1 ATTTT-GAAATTTAAATA
*
7188295 ATTTTTAAATTTAAATA
1 ATTTTGAAATTTAAATA
7188312 TTAAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTTGAAATTTAAATA
Found at i:7188486 original size:17 final size:16
Alignment explanation
Indices: 7188466--7188521 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
7188456 TTTAAAAAAT
*
7188466 ATATTCAATGAATTTAA
1 ATATTAAAT-AATTTAA
* *
7188483 ATATTTAATATATTCAA
1 ATATTAAATA-ATTTAA
7188500 ATATTAAATAAATTTAA
1 ATATTAAAT-AATTTAA
7188517 ATATT
1 ATATT
7188522 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATTAAATAATTTAA
Found at i:7188490 original size:8 final size:8
Alignment explanation
Indices: 7188477--7188542 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 8
7188467 TATTCAATGA
7188477 ATTTAAAT
1 ATTTAAAT
7188485 ATTTAATAT
1 ATTTAA-AT
*
7188494 ATTCAAAT
1 ATTTAAAT
7188502 A-TTAAAT
1 ATTTAAAT
7188509 AAATTTAAAT
1 --ATTTAAAT
7188519 ATTTTAAA-
1 A-TTTAAAT
7188527 ATTTATAAAT
1 A-TT-TAAAT
7188537 ATTTAA
1 ATTTAA
7188543 CCTACCATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
7 5 0.10
8 17 0.35
9 20 0.41
10 7 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:7188596 original size:2 final size:2
Alignment explanation
Indices: 7188591--7188625 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7188581 CATATGTGTG
* *
7188591 TA TA TA CA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7188626 GTACATACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7189035 original size:21 final size:21
Alignment explanation
Indices: 7188993--7189035 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7188983 AAATTTTAAA
* *
7188993 AAAATTATTTTAATATATTTT
1 AAAATTATTTTAATAAAATTT
7189014 AAAATT-TTTTAAATAAAATTT
1 AAAATTATTTT-AATAAAATTT
7189035 A
1 A
7189036 TAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATTATTTTAATAAAATTT
Found at i:7189103 original size:17 final size:17
Alignment explanation
Indices: 7189064--7189103 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7189054 TTTTTTAATC
*
7189064 AATTGTTTAAAAAATAA
1 AATTTTTTAAAAAATAA
**
7189081 TTTTTTTTAAAAAATAA
1 AATTTTTTAAAAAATAA
7189098 AATTTT
1 AATTTT
7189104 AAATATATGA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTTTTAAAAAATAA
Found at i:7189565 original size:32 final size:32
Alignment explanation
Indices: 7189497--7189588 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 32
7189487 GTTTTAGTTG
7189497 TATATTTAT--ATATTTTAT-TTTATTATAAT
1 TATATTTATAAATATTTTATATTTATTATAAT
7189526 TATATTTA-AAATATTTTATATTT-TTATAAAAT
1 TATATTTATAAATATTTTATATTTATTAT--AAT
* *
7189558 T-TAATTTATTAATAATTTATA-TTA-TATAAT
1 TAT-ATTTATAAATATTTTATATTTATTATAAT
7189588 T
1 T
7189589 TTAAAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
29 8 0.15
30 17 0.32
31 4 0.08
32 14 0.26
33 10 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TATATTTATAAATATTTTATATTTATTATAAT
Found at i:7189602 original size:22 final size:23
Alignment explanation
Indices: 7189566--7189629 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
7189556 ATTTAATTTA
7189566 TTAATAATTTATATTATATAATT
1 TTAATAATTTATATTATATAATT
* *
7189589 TTAA-AATTTTTATTATATTATT
1 TTAATAATTTATATTATATAATT
7189611 TT--T-ATTTAT-TTATATAATT
1 TTAATAATTTATATTATATAATT
7189630 ATATTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.25
20 5 0.14
22 18 0.50
23 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAATAATTTATATTATATAATT
Found at i:7189630 original size:22 final size:24
Alignment explanation
Indices: 7189597--7189645 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
7189587 TTTTAAAATT
7189597 TTTATTATATTAT-TTT-TATTTA
1 TTTATTATATTATATTTATATTTA
7189619 TTTA-TATAATTATATTTAATATTTA
1 TTTATTAT-ATTATATTT-ATATTTA
7189644 TT
1 TT
7189646 AAAGTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.13
22 9 0.39
23 3 0.13
25 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTATTATATTATATTTATATTTA
Found at i:7191323 original size:14 final size:14
Alignment explanation
Indices: 7191306--7191357 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
7191296 AAATCAACTA
7191306 TTATATAATATTAT
1 TTATATAATATTAT
* *
7191320 TTATATACT-TTTT
1 TTATATAATATTAT
7191333 ATTATATAATATTAT
1 -TTATATAATATTAT
7191348 TTATATAATA
1 TTATATAATA
7191358 AAAAAGTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.09
14 26 0.81
15 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATAATATTAT
Found at i:7192539 original size:15 final size:14
Alignment explanation
Indices: 7192503--7192561 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
7192493 AATTGTGAAA
*
7192503 AATTAAAATTATTTT
1 AATTTAAATTA-TTT
7192518 ATATTTAAATTATTT
1 A-ATTTAAATTATTT
* *
7192533 AAGTTTAAATTGAATC
1 AA-TTTAAATT-ATTT
7192549 AATTTAAATTATT
1 AATTTAAATTATT
7192562 ATTTTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.08
15 21 0.57
16 13 0.35
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (14 bp):
AATTTAAATTATTT
Found at i:7193450 original size:13 final size:13
Alignment explanation
Indices: 7193432--7193456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7193422 AAAAATATCA
7193432 TAAATTTAAATAG
1 TAAATTTAAATAG
7193445 TAAATTTAAATA
1 TAAATTTAAATA
7193457 TATAAATCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TAAATTTAAATAG
Found at i:7195354 original size:9 final size:10
Alignment explanation
Indices: 7195340--7195380 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
7195330 GATTTTTATA
7195340 TTATTAT-TT
1 TTATTATATT
7195349 TTATTATATT
1 TTATTATATT
7195359 TTAATTAT-TT
1 TT-ATTATATT
*
7195369 TAATTATATT
1 TTATTATATT
7195379 TT
1 TT
7195381 TATGGTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 12 0.44
10 10 0.37
11 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATATT
Found at i:7195367 original size:20 final size:20
Alignment explanation
Indices: 7195342--7195380 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7195332 TTTTTATATT
*
7195342 ATTATTTTTATTATATTTTA
1 ATTATTTTAATTATATTTTA
7195362 ATTATTTTAATTATATTTT
1 ATTATTTTAATTATATTTT
7195381 TATGGTTTAC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTATTTTAATTATATTTTA
Found at i:7196169 original size:18 final size:18
Alignment explanation
Indices: 7196148--7196225 Score: 54
Period size: 18 Copynumber: 4.1 Consensus size: 18
7196138 CACATAACAT
7196148 AAATATATAAATATTTTA
1 AAATATATAAATATTTTA
*
7196166 AAATTATATAAAATAAATTATTT
1 AAA-TATAT-AAAT--ATT-TTA
*
7196189 ATATAT-TAAA-ATTTATA
1 AAATATATAAATATTT-TA
7196206 TAAATATAT-AATATTTTA
1 -AAATATATAAATATTTTA
7196224 AA
1 AA
7196226 TATTATTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
16 1 0.02
17 6 0.13
18 12 0.26
19 10 0.21
20 7 0.15
21 1 0.02
22 6 0.13
23 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATATAAATATTTTA
Found at i:7196359 original size:35 final size:35
Alignment explanation
Indices: 7196319--7196388 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
7196309 TATTTTTTAA
*
7196319 TATTTAA-AAAATTATAGTAAATAAAATAAAATAAT
1 TATTTAATAAAAATATA-TAAATAAAATAAAATAAT
* *
7196354 TATTTAATAAAAATATATAATTCAAATAAAATAAT
1 TATTTAATAAAAATATATAAATAAAATAAAATAAT
7196389 ATAATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (35 bp):
TATTTAATAAAAATATATAAATAAAATAAAATAAT
Found at i:7196362 original size:21 final size:22
Alignment explanation
Indices: 7196338--7196417 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 22
7196328 AATTATAGTA
7196338 AATAAAATAAAATAATT-ATTT
1 AATAAAATAAAATAATTAATTT
* *
7196359 AATAAAA-ATATATAATTCAA-AT
1 AATAAAATA-AAATAATT-AATTT
*
7196381 AA-AATAATATAATAATTTAATTT
1 AATAA-AATAAAATAA-TTAATTT
7196404 AATAAAATAAAATA
1 AATAAAATAAAATA
7196418 TTATAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 11 0.24
23 15 0.33
24 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAAATAAAATAATTAATTT
Found at i:7196458 original size:17 final size:19
Alignment explanation
Indices: 7196438--7196473 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7196428 AAATTTTTAA
7196438 TAAAA-AATTTTA-ATTTT
1 TAAAATAATTTTATATTTT
7196455 TAAAATAATTTTATATTTT
1 TAAAATAATTTTATATTTT
7196474 ATCTGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAATAATTTTATATTTT
Found at i:7196577 original size:17 final size:18
Alignment explanation
Indices: 7196555--7196594 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7196545 TATTAATAAA
7196555 TTAAA-TAATT-ATATTAT
1 TTAAATTAATTCATATT-T
7196572 TTAAATTAATTCATATTT
1 TTAAATTAATTCATATTT
7196590 TTAAA
1 TTAAA
7196595 AATATATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTAATTCATATTT
Found at i:7196874 original size:41 final size:40
Alignment explanation
Indices: 7196829--7196911 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 40
7196819 TAAATTGATT
* **
7196829 AAATTAAATATAAATTAT-TTTTATTTTAATTTAATTTTAAA
1 AAATTAAA-ATAAATTATATTTAATCATAATTT-ATTTTAAA
**
7196870 AAATTAAAATATTTTATATTTAATCATAATTTATTTTAAA
1 AAATTAAAATAAATTATATTTAATCATAATTTATTTTAAA
7196910 AA
1 AA
7196912 TAGAATGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 17 0.47
41 19 0.53
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (40 bp):
AAATTAAAATAAATTATATTTAATCATAATTTATTTTAAA
Found at i:7197012 original size:18 final size:17
Alignment explanation
Indices: 7196976--7197031 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
7196966 AGTTTTAACT
7196976 ATTTTATTTTTAAAAATTA
1 ATTTTATTTTT--AAATTA
7196995 ATTTTTATTTTTAAATTA
1 A-TTTTATTTTTAAATTA
* *
7197013 AATATATTTTTTAAATTA
1 ATTTTA-TTTTTAAATTA
7197031 A
1 A
7197032 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.09
18 19 0.58
19 1 0.03
20 10 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTTTTAAATTA
Found at i:7199464 original size:25 final size:26
Alignment explanation
Indices: 7199425--7199479 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
7199415 GTGTTAAACA
7199425 CAAATACTTCAAAAAAAAATAAAAAT
1 CAAATACTTCAAAAAAAAATAAAAAT
7199451 CAAATACTTCAAAAAAAAATAAAAAT
1 CAAATACTTCAAAAAAAAATAAAAAT
7199477 CAA
1 CAA
7199480 GACAACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (26 bp):
CAAATACTTCAAAAAAAAATAAAAAT
Found at i:7202775 original size:22 final size:22
Alignment explanation
Indices: 7202744--7202794 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7202734 TTATTTTAAG
7202744 ATTTAAATTTT-TAATTATTTAT
1 ATTTAAATTTTATAATTA-TTAT
*
7202766 ATTTATATTTTATAATTATTAT
1 ATTTAAATTTTATAATTATTAT
7202788 A-TTAAAT
1 ATTTAAAT
7202795 CATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 15 0.58
23 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTAAATTTTATAATTATTAT
Found at i:7210125 original size:17 final size:16
Alignment explanation
Indices: 7210083--7210127 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
7210073 TATTATATTC
7210083 ATTTATTTTTTATTAA
1 ATTTATTTTTTATTAA
*
7210099 ATTTTGATTTTTTATTCAT
1 A-TTT-ATTTTTTATT-AA
7210118 ATTTATTTTT
1 ATTTATTTTT
7210128 ACATCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 13 0.52
19 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
ATTTATTTTTTATTAA
Found at i:7214710 original size:16 final size:15
Alignment explanation
Indices: 7214678--7214708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7214668 TCAATTTTAA
7214678 TATTTATAATTTTTT
1 TATTTATAATTTTTT
*
7214693 TATTTTTAATTTTTT
1 TATTTATAATTTTTT
7214708 T
1 T
7214709 TAAGAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTATAATTTTTT
Found at i:7214873 original size:25 final size:26
Alignment explanation
Indices: 7214829--7214886 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
7214819 TATTATATAA
*
7214829 TAATAA-AAATATTATTTTTAAAAAT
1 TAATAATAAATATTATATTTAAAAAT
*
7214854 TAATAATAAATA-TATATTTAAATAT
1 TAATAATAAATATTATATTTAAAAAT
*
7214879 AAATAATA
1 TAATAATA
7214887 TTTTAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAATAAATATTATATTTAAAAAT
Found at i:7214885 original size:28 final size:27
Alignment explanation
Indices: 7214822--7214886 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
7214812 TTTGAATTAT
7214822 TATATAATAATAAAAATATTATTTTTAAA
1 TATA-AATAATAAAAATATTA-TTTTAAA
* * *
7214851 AATTAATAATAAATATA-TA-TTTAAA
1 TATAAATAATAAAAATATTATTTTAAA
7214876 TATAAATAATA
1 TATAAATAATA
7214887 TTTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 15 0.48
27 2 0.06
28 12 0.39
29 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATAAATAATAAAAATATTATTTTAAA
Found at i:7214889 original size:17 final size:18
Alignment explanation
Indices: 7214859--7214894 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7214849 AAAATTAATA
7214859 ATAAATATATATTTAAAT
1 ATAAATATATATTTAAAT
*
7214877 ATAAATA-ATATTTTAAT
1 ATAAATATATATTTAAAT
7214894 A
1 A
7214895 ATATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATATATATTTAAAT
Found at i:7214917 original size:36 final size:37
Alignment explanation
Indices: 7214853--7214927 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
7214843 TTTTTAAAAA
* * * *
7214853 TTAATAATAAATATATATTTAAATATAAA-TAATATT
1 TTAATAATAAATAAATATATAAAAATAAATTAAAATT
7214889 TTAATAATATAATAAATA-ATAAAAATAAATTAAAATT
1 TTAATAATA-AATAAATATATAAAAATAAATTAAAATT
7214926 TT
1 TT
7214928 TAAATCACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (37 bp):
TTAATAATAAATAAATATATAAAAATAAATTAAAATT
Found at i:7221573 original size:11 final size:11
Alignment explanation
Indices: 7221544--7221576 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7221534 CATAATTATG
*
7221544 ATATAAAAATA
1 ATATAAATATA
7221555 ATATAAATATA
1 ATATAAATATA
7221566 ATATAAATATA
1 ATATAAATATA
7221577 TAAAATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAAATATA
Found at i:7222365 original size:22 final size:23
Alignment explanation
Indices: 7222340--7222384 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7222330 ATATATAAAT
*
7222340 ATTT-TAAGATTTA-TATAATTTA
1 ATTTATAA-ATTTATTAAAATTTA
7222362 ATTTATAAATTTATTAAAATTTA
1 ATTTATAAATTTATTAAAATTTA
7222385 TATAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTATAAATTTATTAAAATTTA
Found at i:7222386 original size:18 final size:17
Alignment explanation
Indices: 7222310--7222383 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 17
7222300 AGATATTGAA
7222310 AAATTTATTTAAAATTTT
1 AAATTTA-TTAAAATTTT
*
7222328 AAATATA-TAAATATTTT
1 AAATTTATTAAA-ATTTT
7222345 AAGATTTATATAATTTAATTTAT
1 AA-ATTTAT-TAA---AATTT-T
7222368 AAATTTATTAAAATTT
1 AAATTTATTAAAATTT
7222384 ATATAAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
16 4 0.09
17 7 0.15
18 15 0.33
20 3 0.07
21 3 0.07
22 10 0.22
23 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
AAATTTATTAAAATTTT
Found at i:7222411 original size:18 final size:17
Alignment explanation
Indices: 7222312--7222411 Score: 51
Period size: 18 Copynumber: 5.5 Consensus size: 17
7222302 ATATTGAAAA
*
7222312 ATTTATTTAAAATTT-T
1 ATTTATATAAAATTTAT
** *
7222328 AAATATATAAATATTTTAAG
1 ATTTATATAAA-A-TTT-AT
7222348 ATTTATATAATTTAATTTAT
1 ATTTATATAA---AATTTAT
7222368 AAATTTAT-TAAAATTTAT
1 --ATTTATATAAAATTTAT
**
7222386 ATAAATATAAAATATTAT
1 ATTTATATAAAAT-TTAT
7222404 ATTTATAT
1 ATTTATAT
7222412 TTATAATGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 20
0.67 0.12 0.22
Matches are distributed among these distances:
16 12 0.19
17 7 0.11
18 20 0.32
20 9 0.15
21 6 0.10
22 7 0.11
23 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
ATTTATATAAAATTTAT
Found at i:7222450 original size:47 final size:46
Alignment explanation
Indices: 7222357--7222450 Score: 102
Period size: 47 Copynumber: 2.0 Consensus size: 46
7222347 GATTTATATA
* * * *
7222357 ATTTAATTTATAAATTTATTAAAATTTATATAAATATAAAATATTAT
1 ATTTAATTTATAAATGTAATAAAA-TTATAAAAATATAAAAAATTAT
7222404 ATTTATATTTAT-AATGTAATAAAA-TATAAAAATATAATATAAATTAT
1 ATTTA-ATTTATAAATGTAATAAAATTATAAAAATATAA-A-AAATTAT
7222451 TAAATTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
45 12 0.30
46 1 0.03
47 21 0.52
48 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (46 bp):
ATTTAATTTATAAATGTAATAAAATTATAAAAATATAAAAAATTAT
Found at i:7232305 original size:18 final size:17
Alignment explanation
Indices: 7232284--7232331 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
7232274 AAAATATAAA
7232284 TATTTTTAATTTTATATT
1 TATTTTTAATTTT-TATT
*
7232302 TATTTTAAAATTTTTATT
1 TATTTT-TAATTTTTATT
7232320 TAAATTTTTAAT
1 T--ATTTTTAAT
7232332 ATATTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 11 0.44
19 9 0.36
20 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTAATTTTTATT
Found at i:7234620 original size:267 final size:265
Alignment explanation
Indices: 7234145--7234628 Score: 679
Period size: 267 Copynumber: 1.8 Consensus size: 265
7234135 GTGGTTAATT
* * * *
7234145 GTGGTGGATCAATGGTTAACGGATCAGAAATTGGAAAAAACAACAATAGGGTTAATTCAAGAGGG
1 GTGGTGGATCAATGGTTAACGGATCAGAAATCGAAAAAAACAACAACAAGGTTAATTCAAGAGGG
* * *
7234210 AGTTCCATGGTAAATTACACGTTTGAAAAACTGCCTAAGAAGGGAAAACCAAGTTCGATTGTTAA
66 AGTTCCATGGTAAACTACACGTTTGAAAAACTGACTAAAAAGGGAAAACCAAGTTCGATTGTTAA
* * *
7234275 TGGGTCAGTGGATCAAGGAAAAAAGGGTCCTGAAATCGTGGAAAAGGGCACCAATGCTCCAAAAT
131 T--GTCAGTGGATCAAGGAAAAAAGAGACCTGAAATCGTGGAAAAGAGCACCAATGCTCCAAAAT
*
7234340 CTGGGTTGAAAACACCACCTGGTAGGGCACGAAAAAACGGGTTGGAGTATGGAGCCTATGGTGGT
194 CGGGGTTGAAAACACCACCTGGTAGGGCACGAAAAAACGGGTTGGAGTATGGAGCCTATGGTGGT
7234405 GGTGGTG
259 GGTGGTG
*
7234412 GTGGTGGATCAATGGTTAACGGGTCAGAAATCGAAAAAAACAACAACCACAAGGTTAATTCAAGA
1 GTGGTGGATCAATGGTTAACGGATCAGAAATCGAAAAAAACAAC-A--ACAAGGTTAATTCAAGA
*** *
7234477 GGGAGTTCCATGGTAAACTACGTTTTTGAGAAAA-TTACTAAAAAGGGAAAACCAAGTTCGATTG
63 GGGAGTTCCATGGTAAACTACACGTTTGA-AAAACTGACTAAAAAGGGAAAACCAAGTTCGATTG
* * * * *
7234541 TTAAT-TCGGTGGATCAAGGAAAAAA-AGACCATGAAATCGTGGAAAAGAGCAGCAGTGGTGCAA
127 TTAATGTCAGTGGATCAAGGAAAAAAGAGACC-TGAAATCGTGGAAAAGAGCACCAATGCTCCAA
7234604 AAGT-GGGGTTGAAAACACCACCTGG
191 AA-TCGGGGTTGAAAACACCACCTGG
7234629 CAAGTCACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
266 3 0.02
267 109 0.57
268 2 0.01
270 72 0.38
271 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (265 bp):
GTGGTGGATCAATGGTTAACGGATCAGAAATCGAAAAAAACAACAACAAGGTTAATTCAAGAGGG
AGTTCCATGGTAAACTACACGTTTGAAAAACTGACTAAAAAGGGAAAACCAAGTTCGATTGTTAA
TGTCAGTGGATCAAGGAAAAAAGAGACCTGAAATCGTGGAAAAGAGCACCAATGCTCCAAAATCG
GGGTTGAAAACACCACCTGGTAGGGCACGAAAAAACGGGTTGGAGTATGGAGCCTATGGTGGTGG
TGGTG
Found at i:7235621 original size:17 final size:17
Alignment explanation
Indices: 7235581--7235623 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
7235571 TATTTAAATT
* *
7235581 TAAATAAATATTAAACA
1 TAAATATATATCAAACA
7235598 TAAATATATATCAAACA
1 TAAATATATATCAAACA
7235615 TAAATATAT
1 TAAATATAT
7235624 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATCAAACA
Found at i:7237707 original size:17 final size:17
Alignment explanation
Indices: 7237685--7237777 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 17
7237675 ATTTAAAATA
7237685 TTATATATTTATATAAT
1 TTATATATTTATATAAT
*
7237702 TTATATA-TTA-CTAAT
1 TTATATATTTATATAAT
7237717 TT-T-TA-TTATATAAATT
1 TTATATATTTATAT-AA-T
7237733 TTAATATATTTATAT-AT
1 TT-ATATATTTATATAAT
7237750 TCATATTATATTTATATTAAT
1 T--TA-TATATTTATA-TAAT
7237771 TT-TATAT
1 TTATATAT
7237778 CGTATCATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 5 0.08
14 2 0.03
15 8 0.13
16 6 0.10
17 14 0.23
18 3 0.05
19 14 0.23
20 7 0.11
21 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATATTTATATAAT
Found at i:7238000 original size:4 final size:4
Alignment explanation
Indices: 7237980--7238117 Score: 107
Period size: 4 Copynumber: 34.8 Consensus size: 4
7237970 CTTACTGCAA
* * * * *
7237980 ATAT -TAT ATAT ACAT ATAT ATAT ATAC ATAT GTAC ATAC ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * * * * * *
7238027 ACAT ACAT ATAT ACAT GTAT ACAT ACAC ATGT ATAC ATAC ATAC ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
7238075 ATAC ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
7238118 ACTCCAGCAT
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
3 3 0.03
4 108 0.97
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:7238003 original size:14 final size:14
Alignment explanation
Indices: 7237980--7238117 Score: 120
Period size: 14 Copynumber: 9.8 Consensus size: 14
7237970 CTTACTGCAA
7237980 ATAT-TATATATAC
1 ATATATATATATAC
7237993 ATATATATATATAC
1 ATATATATATATAC
* *
7238007 --ATATGTACATAC
1 ATATATATATATAC
*
7238019 ATATATATACATAC
1 ATATATATATATAC
*
7238033 ATATATACATGTATAC
1 ATATAT--ATATATAC
* * *
7238049 ATACACATGTATAC
1 ATATATATATATAC
* *
7238063 ATACATACATACATAC
1 AT--ATATATATATAC
*
7238079 ATATATATATATAT
1 ATATATATATATAC
*
7238093 ATATATATATATAT
1 ATATATATATATAC
7238107 ATATATATATA
1 ATATATATATA
7238118 ACTCCAGCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.10
13 4 0.04
14 70 0.67
16 21 0.20
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:7238555 original size:16 final size:15
Alignment explanation
Indices: 7238530--7238565 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
7238520 CTCGAGTAAG
7238530 TATTTAATATAAATA
1 TATTTAATATAAATA
*
7238545 TATTATAATATAATTA
1 TATT-TAATATAAATA
7238561 TATTT
1 TATTT
7238566 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTTAATATAAATA
Found at i:7239169 original size:20 final size:20
Alignment explanation
Indices: 7239146--7239194 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7239136 TCTTTTTACA
*
7239146 TTTTAAAAAATATTTTATGC
1 TTTTAAAAAATATTTTATAC
* *
7239166 TTTTTAAAAATATTTTATAT
1 TTTTAAAAAATATTTTATAC
7239186 TTTTAAAAA
1 TTTTAAAAA
7239195 TAATTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTAAAAAATATTTTATAC
Found at i:7239174 original size:19 final size:19
Alignment explanation
Indices: 7239139--7239196 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
7239129 CTCAAATTCT
* *
7239139 TTTTACATTTTAAAAAATA
1 TTTTATATTTTTAAAAATA
*
7239158 TTTTATGCTTTTTAAAAATA
1 TTTTAT-ATTTTTAAAAATA
7239178 TTTTATATTTTTAAAAATA
1 TTTTATATTTTTAAAAATA
7239197 ATTAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTATATTTTTAAAAATA
Found at i:7239207 original size:19 final size:19
Alignment explanation
Indices: 7239166--7239208 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7239156 TATTTTATGC
* *
7239166 TTTTTAAAAATATTTTATA
1 TTTTTAAAAATAATTAATA
7239185 TTTTTAAAAATAATTAAT-
1 TTTTTAAAAATAATTAATA
7239203 TTTTTA
1 TTTTTA
7239209 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAATAATTAATA
Found at i:7240109 original size:9 final size:9
Alignment explanation
Indices: 7240095--7240144 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
7240085 TCATACAAAT
7240095 TTTATTATA
1 TTTATTATA
7240104 TTTATTAT-
1 TTTATTATA
7240112 TTATATTATA
1 TT-TATTATA
*
7240122 TATATT-TA
1 TTTATTATA
7240130 TATTATTATA
1 T-TTATTATA
7240140 TTTAT
1 TTTAT
7240145 GTTATGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 5 0.14
9 26 0.74
10 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTATTATA
Found at i:7240614 original size:2 final size:2
Alignment explanation
Indices: 7240607--7240642 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7240597 TTCCTGCCAC
*
7240607 TA TA TA TA TA TA TG TA TA TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7240643 GTAATAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7245490 original size:13 final size:13
Alignment explanation
Indices: 7245459--7245519 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
7245449 TTTTTTTTTA
*
7245459 TATATTTTAAAAAT
1 TATATTTT-AAATT
*
7245473 TATATTTTATATT
1 TATATTTTAAATT
*
7245486 TATA-TTTAAATA
1 TATATTTTAAATT
* *
7245498 TATATATTAAATA
1 TATATTTTAAATT
*
7245511 TAAATTTTA
1 TATATTTTA
7245520 TATTAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.26
13 21 0.54
14 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATTTTAAATT
Found at i:7245511 original size:27 final size:27
Alignment explanation
Indices: 7245459--7245511 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7245449 TTTTTTTTTA
**
7245459 TATATTTTAAAAATTATATTTTATATT
1 TATATTTTAAAAATTATATTAAATATT
*
7245486 TATA-TTTAAATATATATATTAAATAT
1 TATATTTTAAAAAT-TATATTAAATAT
7245512 AAATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATATTTTAAAAATTATATTAAATATT
Found at i:7245546 original size:32 final size:32
Alignment explanation
Indices: 7245484--7245546 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
7245474 ATATTTTATA
* * *
7245484 TTTATATTTAAATATATATATTAAATATAAAT
1 TTTATATTAAAATATATATATAAAAAATAAAT
*
7245516 TTTATATTAAAATATTTCA-ATAAAAAATAAA
1 TTTATATTAAAATATAT-ATATAAAAAATAAA
7245547 AATTTTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (32 bp):
TTTATATTAAAATATATATATAAAAAATAAAT
Found at i:7245854 original size:17 final size:17
Alignment explanation
Indices: 7245844--7245878 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7245834 TATATGTTTT
7245844 ATATAAATATATATTAA
1 ATATAAATATATATTAA
*
7245861 ATATAAATATATTTTAA
1 ATATAAATATATATTAA
7245878 A
1 A
7245879 ATATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAATATATATTAA
Found at i:7245882 original size:25 final size:25
Alignment explanation
Indices: 7245854--7245909 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
7245844 ATATAAATAT
7245854 ATATTAAATATAAATATAT-TTTAAA
1 ATATTAAAT-TAAATATATATTTAAA
* ***
7245879 ATATTTAATTTTTTATATATTTAAA
1 ATATTAAATTAAATATATATTTAAA
7245904 ATATTA
1 ATATTA
7245910 TATTTTAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATTAAATTAAATATATATTTAAA
Found at i:7246122 original size:24 final size:24
Alignment explanation
Indices: 7246070--7246122 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7246060 TTAATCAAAT
*
7246070 TTTAATTATTTTAAATAATTTTAA
1 TTTAATTATTTGAAATAATTTTAA
* * * *
7246094 ATTAATTATTTGAATTATTTTTTA
1 TTTAATTATTTGAAATAATTTTAA
7246118 TTTAA
1 TTTAA
7246123 GTTAACTAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTAATTATTTGAAATAATTTTAA
Found at i:7246580 original size:20 final size:22
Alignment explanation
Indices: 7246535--7246581 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7246525 TTAAATTAAT
* *
7246535 TATAATAAATATTAATTATAAA
1 TATAAAAAATATTAATAATAAA
7246557 TATAAAAAAT-TTAATAAT-AA
1 TATAAAAAATATTAATAATAAA
7246577 TATAA
1 TATAA
7246582 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATAAAAAATATTAATAATAAA
Found at i:7247297 original size:5 final size:6
Alignment explanation
Indices: 7247280--7247304 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7247270 AGTTTAATAG
7247280 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
7247305 ACCAAAGAAA
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:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:7247598 original size:2 final size:2
Alignment explanation
Indices: 7247591--7247620 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7247581 TTTTCCCCAC
7247591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7247621 GCCCTCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7247712 original size:14 final size:13
Alignment explanation
Indices: 7247674--7247727 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
7247664 TATCTAATAT
*
7247674 ATTATTATTTCATA
1 ATTAATATTT-ATA
* *
7247688 ATTTAAAATTTTTA
1 A-TTAATATTTATA
7247702 ATTATATATTTATA
1 ATTA-ATATTTATA
7247716 ATTAATATTTAT
1 ATTAATATTTAT
7247728 CATATTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 11 0.33
14 15 0.45
15 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTAATATTTATA
Found at i:7247895 original size:12 final size:12
Alignment explanation
Indices: 7247878--7247902 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7247868 GATCTATGTC
7247878 ACTTACTTAGCA
1 ACTTACTTAGCA
7247890 ACTTACTTAGCA
1 ACTTACTTAGCA
7247902 A
1 A
7247903 GGACAAAGAA
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:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTTACTTAGCA
Found at i:7248056 original size:17 final size:18
Alignment explanation
Indices: 7248018--7248056 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7248008 AATATTTTAA
*
7248018 AATTTTTTATTTAAATTT
1 AATTTTTGATTTAAATTT
7248036 -ATTTTTGATTT-AATTT
1 AATTTTTGATTTAAATTT
7248052 AATTT
1 AATTT
7248057 ATAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
AATTTTTGATTTAAATTT
Found at i:7248105 original size:21 final size:22
Alignment explanation
Indices: 7248081--7248136 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
7248071 TTACTTAAAA
*
7248081 AATATTAAAATAAATTAT-ATT
1 AATATTTAAATAAATTATAATT
**
7248102 AATATTTAAATATTTTATAATT
1 AATATTTAAATAAATTATAATT
7248124 AA-ATTTAAATAAA
1 AATATTTAAATAAA
7248137 AATATTTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATTTAAATAAATTATAATT
Found at i:7248980 original size:183 final size:179
Alignment explanation
Indices: 7248676--7249039 Score: 656
Period size: 183 Copynumber: 2.0 Consensus size: 179
7248666 CATCTCCGAT
*
7248676 TAATTAATATGCTGAGATTGATGGGTTTTAGCTGGGGAATTTTTTGTTTTGTTTTTTTTATAGTT
1 TAATTAATATGCTGAGATTGATGCGTTTTAGCTGGGGAATTTTTTGTTTTGTTTTTTTTATAGTT
*
7248741 TGTAGGTTGTTCTCAATTTTGTAGAATAAAACTAGATTTTTCCGGCAATTCCATGTCAAAAAGAG
66 TGCAGGTTGTTCTCAATTTTGTAGAATAAAACTAGATTTTTCCGGCAATTCCATGTCAAAAAGAG
7248806 AATTTCATTGATGATTGTTTATCTGGGGTCTGCCGCTAAATCTAAATCA
131 AATTTCATTGATGATTGTTTATCTGGGGTCTGCCGCTAAATCTAAATCA
*
7248855 TAATTAATATGCTGAGATTGATGCGTTTTAGCTGGGGAATTTTTTTTTTGTTTTTTTTTTTTTAT
1 TAATTAATATGCTGAGATTGATGCGTTTTAGCTGGGGAA----TTTTTTGTTTTGTTTTTTTTAT
*
7248920 AGTTTGCAGGTTGTTCTCAATTTTGTAGAATAAAACTAGATTTTTTCGGCAATTCCATGTCAAAA
62 AGTTTGCAGGTTGTTCTCAATTTTGTAGAATAAAACTAGATTTTTCCGGCAATTCCATGTCAAAA
7248985 AGAGAATTTCATTGATGATTGTTTATCTGGGGTCTGCCGCTAAATCTAAATCA
127 AGAGAATTTCATTGATGATTGTTTATCTGGGGTCTGCCGCTAAATCTAAATCA
7249038 TA
1 TA
7249040 GTCTCGAATT
Statistics
Matches: 177, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
179 38 0.21
183 139 0.79
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (179 bp):
TAATTAATATGCTGAGATTGATGCGTTTTAGCTGGGGAATTTTTTGTTTTGTTTTTTTTATAGTT
TGCAGGTTGTTCTCAATTTTGTAGAATAAAACTAGATTTTTCCGGCAATTCCATGTCAAAAAGAG
AATTTCATTGATGATTGTTTATCTGGGGTCTGCCGCTAAATCTAAATCA
Found at i:7253608 original size:23 final size:23
Alignment explanation
Indices: 7253582--7253642 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
7253572 TGATAAATAT
* * *
7253582 ATAATTTTTAAAATTTTTAAAAA
1 ATAATATTTATAATTTTAAAAAA
* *
7253605 ATAAAATTTATCATTTTAAAAAA
1 ATAATATTTATAATTTTAAAAAA
7253628 ATAATATTTATAATT
1 ATAATATTTATAATT
7253643 AAATTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATATTTATAATTTTAAAAAA
Found at i:7253681 original size:10 final size:10
Alignment explanation
Indices: 7253641--7253683 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
7253631 ATATTTATAA
7253641 TTAAATT-AT
1 TTAAATTAAT
*
7253650 TTAAATTAAA
1 TTAAATTAAT
7253660 TTAAATTAAT
1 TTAAATTAAT
*
7253670 TTAAATTGAT
1 TTAAATTAAT
7253680 TTAA
1 TTAA
7253684 TTTATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
TTAAATTAAT
Found at i:7253683 original size:15 final size:14
Alignment explanation
Indices: 7253641--7253687 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
7253631 ATATTTATAA
*
7253641 TTAAATTATTTAAA
1 TTAAATTATTTAAT
*
7253655 TTAAATTAAATTAAT
1 TTAAATT-ATTTAAT
7253670 TTAAATTGATTTAAT
1 TTAAATT-ATTTAAT
7253685 TTA
1 TTA
7253688 TTAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TTAAATTATTTAAT
Found at i:7253687 original size:5 final size:5
Alignment explanation
Indices: 7253639--7253676 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
7253629 TAATATTTAT
* *
7253639 AATTA AATT- ATTTA AATTA AATTA AATTA ATTTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AATT
7253677 GATTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
AATTA
Found at i:7257256 original size:42 final size:43
Alignment explanation
Indices: 7257205--7257302 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 43
7257195 ATAATATAAA
*
7257205 AATAAATAAAAA-TATATCAAA-ATTTATA-T-AATATAAATTATT
1 AATATATAAAAATTAT-TCAAATATTTATATTAAATAT-AATTA-T
*
7257247 AATATATAAAAATTATTTAAATATTTATATTTAAATATAATTAT
1 AATATATAAAAATTATTCAAATATTTATA-TTAAATATAATTAT
7257291 AATATAATAAAA
1 AATAT-ATAAAA
7257303 TAATAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
42 15 0.31
43 10 0.21
44 6 0.12
45 12 0.25
46 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (43 bp):
AATATATAAAAATTATTCAAATATTTATATTAAATATAATTAT
Found at i:7257266 original size:18 final size:18
Alignment explanation
Indices: 7257226--7257270 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
7257216 ATATATCAAA
*
7257226 ATTT-ATATAATATAAATT
1 ATTTAATAT-ATAAAAATT
7257244 A-TTAATATATAAAAATT
1 ATTTAATATATAAAAATT
7257261 ATTTAA-ATAT
1 ATTTAATATAT
7257271 TTATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAATATATAAAAATT
Found at i:7257670 original size:19 final size:19
Alignment explanation
Indices: 7257646--7257682 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7257636 ATAATTATTA
7257646 AATAATT-TATATTTAATTT
1 AATAATTAT-TATTTAATTT
7257665 AATAATTATTATTTAATT
1 AATAATTATTATTTAATT
7257683 AAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATAATTATTATTTAATTT
Found at i:7258523 original size:23 final size:23
Alignment explanation
Indices: 7258497--7258565 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
7258487 AAATGTTATG
7258497 TTAATTAA-TTTAAAAATATAAAA
1 TTAA-TAATTTTAAAAATATAAAA
* *
7258520 TTAATAATTTTTAAAATTTAAAA
1 TTAATAATTTTAAAAATATAAAA
*
7258543 TTTATAATTATTAAATAATATAA
1 TTAATAATT-TTAAA-AATATAA
7258566 TTATATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 3 0.08
23 25 0.66
24 4 0.11
25 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATAATTTTAAAAATATAAAA
Found at i:7261874 original size:3 final size:3
Alignment explanation
Indices: 7261866--7261890 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7261856 AATGGTTCCT
7261866 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
7261891 CGTACCAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7263873 original size:38 final size:38
Alignment explanation
Indices: 7263822--7263899 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
7263812 TTTGCGGTTT
7263822 GAGTTATATTTTAAATTTTGCAGCACTCGAAGAATGGC
1 GAGTTATATTTTAAATTTTGCAGCACTCGAAGAATGGC
7263860 GAGTTATATTTTAAATTTTGCAGCACTCGAAGAATGGC
1 GAGTTATATTTTAAATTTTGCAGCACTCGAAGAATGGC
7263898 GA
1 GA
7263900 AAACGGAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
GAGTTATATTTTAAATTTTGCAGCACTCGAAGAATGGC
Found at i:7264052 original size:2 final size:2
Alignment explanation
Indices: 7264045--7264083 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7264035 AGAAAACTAC
7264045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7264084 GTAACCTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7265844 original size:13 final size:13
Alignment explanation
Indices: 7265826--7265850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7265816 GTGACCTTGT
7265826 AACATCAGAACCG
1 AACATCAGAACCG
7265839 AACATCAGAACC
1 AACATCAGAACC
7265851 AAATAAACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.12, T:0.08
Consensus pattern (13 bp):
AACATCAGAACCG
Found at i:7268944 original size:12 final size:11
Alignment explanation
Indices: 7268907--7269007 Score: 68
Period size: 11 Copynumber: 9.3 Consensus size: 11
7268897 TAAAATTCAT
*
7268907 ATTTATAAAAA
1 ATTTATATAAA
*
7268918 AATTA-ATAAA
1 ATTTATATAAA
*
7268928 ATATA-ATAAA
1 ATTTATATAAA
7268938 ATTTATATAAA
1 ATTTATATAAA
*
7268949 ATCTTATATAAT
1 AT-TTATATAAA
**
7268961 ATGAAT-TATAA
1 ATTTATATA-AA
7268972 ATATT-T-TAAA
1 AT-TTATATAAA
7268982 ATTTATATAAA
1 ATTTATATAAA
*
7268993 TATTTAAATAAA
1 -ATTTATATAAA
7269005 ATT
1 ATT
7269008 ATAATATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
9 2 0.03
10 23 0.32
11 26 0.37
12 20 0.28
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
ATTTATATAAA
Found at i:7269010 original size:20 final size:19
Alignment explanation
Indices: 7268964--7269033 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
7268954 ATATAATATG
*
7268964 AATTATAAATATTTTAAAA
1 AATTATAAATATTTAAAAA
**
7268983 TTTATATAAATATTTAAATAA
1 AAT-TATAAATATTTAAA-AA
7269004 AATTAT-AATA--TAATAAA
1 AATTATAAATATTTAA-AAA
7269021 AATATATAAATAT
1 AAT-TATAAATAT
7269034 AATATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 8 0.20
18 4 0.10
19 9 0.22
20 16 0.40
21 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTATAAATATTTAAAAA
Found at i:7269020 original size:16 final size:18
Alignment explanation
Indices: 7268917--7269037 Score: 58
Period size: 19 Copynumber: 6.6 Consensus size: 18
7268907 ATTTATAAAA
7268917 AAAT-TAATAAAATATAAT
1 AAATATAATAAAATAT-AT
* *
7268935 AAAATTTATATAAAATCT-T
1 -AAATATA-ATAAAATATAT
*
7268954 --ATATAATATGAAT-TAT
1 AAATATAATA-AAATATAT
**
7268970 AAATATTTTAAAATTTATAT
1 AAATATAATAAAA--TATAT
7268990 AAATATTTAAATAAAAT-TAT
1 AAATA--T-AATAAAATATAT
7269010 -AATATAATAAAAATATAT
1 AAATATAAT-AAAATATAT
7269028 AAATATAATA
1 AAATATAATA
7269038 TTTATATATA
Statistics
Matches: 79, Mismatches: 8, Indels: 31
0.67 0.07 0.26
Matches are distributed among these distances:
15 4 0.05
16 11 0.14
17 8 0.10
18 10 0.13
19 18 0.23
20 13 0.16
21 9 0.11
22 1 0.01
23 5 0.06
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
AAATATAATAAAATATAT
Found at i:7269044 original size:19 final size:20
Alignment explanation
Indices: 7269022--7269061 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7269012 TATAATAAAA
7269022 ATATATAAA-TATAATATTT
1 ATATATAAATTATAATATTT
*
7269041 ATATATAAATTATTATATTT
1 ATATATAAATTATAATATTT
7269061 A
1 A
7269062 CTTTCCTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATAAATTATAATATTT
Done.