Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 78 of 91
Found at i:13038685 original size:5 final size:5
Alignment explanation
Indices: 13038677--13038710 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13038667 TTATTTTTTA
* *
13038677 AATTG AATTA AATTG AATTA AATTG AATTG AATT
1 AATTG AATTG AATTG AATTG AATTG AATTG AATT
13038711 TTATTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (5 bp):
AATTG
Found at i:13038687 original size:10 final size:10
Alignment explanation
Indices: 13038674--13038710 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
13038664 AATTTATTTT
13038674 TTAAATTGAA
1 TTAAATTGAA
13038684 TTAAATTGAA
1 TTAAATTGAA
13038694 TTAAATTGAA
1 TTAAATTGAA
*
13038704 TTGAATT
1 TTAAATT
13038711 TTATTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (10 bp):
TTAAATTGAA
Found at i:13038716 original size:20 final size:20
Alignment explanation
Indices: 13038669--13038717 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13038659 ATTTTAATTT
13038669 ATTTT-TTAAATTGAATTAA
1 ATTTTATTAAATTGAATTAA
** *
13038688 ATTGAATTAAATTGAATTGA
1 ATTTTATTAAATTGAATTAA
13038708 ATTTTATTAA
1 ATTTTATTAA
13038718 TTAGATTTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
ATTTTATTAAATTGAATTAA
Found at i:13039074 original size:19 final size:17
Alignment explanation
Indices: 13039052--13039096 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
13039042 AATTTTTTTA
13039052 ATTTAATGAATCAAAAAT
1 ATTTAATGAAT-AAAAAT
13039070 CATTTAAATTGAATAAAAAT
1 -ATTT-AA-TGAATAAAAAT
13039090 ATTTAAT
1 ATTTAAT
13039097 ATTCGATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 8 0.33
20 8 0.33
21 5 0.21
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (17 bp):
ATTTAATGAATAAAAAT
Found at i:13039089 original size:20 final size:20
Alignment explanation
Indices: 13039058--13039095 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13039048 TTTAATTTAA
13039058 TGAATCAAAAATCATTTAAAT
1 TGAATCAAAAAT-ATTTAAAT
13039079 TGAAT-AAAAATATTTAA
1 TGAATCAAAAATATTTAA
13039096 TATTCGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
TGAATCAAAAATATTTAAAT
Found at i:13040706 original size:21 final size:20
Alignment explanation
Indices: 13040678--13040721 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13040668 CAGTATCCAG
* *
13040678 GAAAAGAACCTCAGCAATTT
1 GAAAAGAACCTCAACAATCT
13040698 GAAACAGAACCTCAACAATCT
1 GAAA-AGAACCTCAACAATCT
13040719 GAA
1 GAA
13040722 CAAGGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAAAGAACCTCAACAATCT
Found at i:13045018 original size:2 final size:2
Alignment explanation
Indices: 13045011--13045047 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13045001 CAATTAGTGC
13045011 AT AT AT AT 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 AT AT AT AT A
13045048 GCACACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13051769 original size:32 final size:32
Alignment explanation
Indices: 13051722--13051784 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
13051712 AATAGATACA
* *
13051722 TAAATTTTCAATTATTTGAAAATATTAGGATC
1 TAAATTTCCAATTATTTGAAAATAATAGGATC
*
13051754 TAAATTTCCATTTATTTGAAAATAATAGGAT
1 TAAATTTCCAATTATTTGAAAATAATAGGAT
13051785 GAAAGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (32 bp):
TAAATTTCCAATTATTTGAAAATAATAGGATC
Found at i:13057387 original size:3 final size:3
Alignment explanation
Indices: 13057379--13057439 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
13057369 GGTTTTTAAT
13057379 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13057427 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
13057440 GCTAATCAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13067302 original size:9 final size:9
Alignment explanation
Indices: 13067275--13067308 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
13067265 GTAAAAATCT
13067275 TTTTATATA
1 TTTTATATA
13067284 TTATTAATATA
1 TT-TT-ATATA
13067295 TTTTATATA
1 TTTTATATA
13067304 TTTTA
1 TTTTA
13067309 AGAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:13067554 original size:9 final size:9
Alignment explanation
Indices: 13067527--13067560 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
13067517 ACCTAAAATT
13067527 TTTTATATA
1 TTTTATATA
13067536 TTATTAATATA
1 TT-TT-ATATA
13067547 TTTTATATA
1 TTTTATATA
13067556 TTTTA
1 TTTTA
13067561 AGAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:13067712 original size:200 final size:206
Alignment explanation
Indices: 13067405--13067817 Score: 669
Period size: 202 Copynumber: 2.0 Consensus size: 206
13067395 AAAATTCACA
*
13067405 ATTATAAATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTCCTTGTTATA
1 ATTATAAATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTCCTTATTATA
* *
13067470 ACAATTTTTTTCTTATTATAATTTTGAATTTTATTTTTATATATTGCACCTAAAA-T-TTTT-TA
66 ACAATTTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAATTATTTTCTA
* * * *
13067532 TATATTATTAATATATTTTATATATTTTAAG-AAAAAATTATTATTATAAATAATTGTTTTATGT
131 TATATTATTAATAAATTAT-TATATTTTAAGAAAAAAATTATTATTAAAAATAATTATTTTATGT
13067596 GAGTATTTGCTT
195 GAGTATTTGCTT
* *
13067608 ATTATAAATAACATTTTTTTCAACCAAA-ATTTTTTTTTATTATATGTTACATGTTCTTATTATA
1 ATTATAAATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTCCTTATTATA
*
13067672 AC-A-TTTTTTCTTACTATAATTTTGAATTTTGTTCTTATATATTGCACCTAAAATTATTTTCTA
66 ACAATTTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAATTATTTTCTA
13067735 TATATTATTAATAAATTATTATATTTTAAGAAAAAAAATTATTATTAAAAATAATTATTTTATGT
131 TATATTATTAATAAATTATTATATTTTAAG-AAAAAAATTATTATTAAAAATAATTATTTTATGT
13067800 GAGTATTTGCTT
195 GAGTATTTGCTT
13067812 ATTATA
1 ATTATA
13067818 TGTTACAGTT
Statistics
Matches: 195, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
200 47 0.24
201 2 0.01
202 50 0.26
203 47 0.24
204 49 0.25
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (206 bp):
ATTATAAATAACATTTTTTTCAACCAAATATTTTTTCTTATTATATGTTACATGTCCTTATTATA
ACAATTTTTTTCTTACTATAATTTTGAATTTTATTCTTATATATTGCACCTAAAATTATTTTCTA
TATATTATTAATAAATTATTATATTTTAAGAAAAAAATTATTATTAAAAATAATTATTTTATGTG
AGTATTTGCTT
Found at i:13067822 original size:166 final size:172
Alignment explanation
Indices: 13067644--13067980 Score: 463
Period size: 166 Copynumber: 2.0 Consensus size: 172
13067634 AAATTTTTTT
* *
13067644 TTATTATATGTTACA-TGTTCTTATTATAACATTTTTTCTTACTATAATTTTGAATTTTGTTCTT
1 TTATTATATGTTACAGT-TTCTTATTATAACATTTTTTCTTACTATAATTGTGAAGTTTGTTCTT
* *
13067708 ATATATTGCACCTAAAATTATTT-TCTATATAT-TAT-TA-ATAAAT-TATTATAT-TTTAAGAA
65 ATATATTGCACCTAAAAATATTTATATATATATATATATATATAAATATATTATATATTTAAGAA
* *
13067767 AAAAAATTATTATTAAAAATAATTATTTTATGTGAGTATTTGC
130 AAAAAATTATTATTAAAAATAATTATTTTATATGAATATTTGC
* *
13067810 TTATTATATGTTACAGTTTCTTATTATAACATTTTTTCTTATTATAATTGTGAAGTTTGTTTTTA
1 TTATTATATGTTACAGTTTCTTATTATAACATTTTTTCTTACTATAATTGTGAAGTTTGTTCTTA
* * * ***
13067875 TATGTTGCACCTAAAAATCTTTATATATATATATATATATTATTAATATATTATATATTTTTTAA
66 TATATTGCACCTAAAAATATTTATATATATATATATATA-TATAAATATATTATATATTTAAGAA
* *
13067940 AAAAATTTATTATTATAAATAATTATTTTATATGAATATTT
130 AAAAAATTATTATTAAAAATAATTATTTTATATGAATATTT
13067981 AAGGATATTG
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
166 78 0.53
167 9 0.06
168 3 0.02
169 2 0.01
171 5 0.03
172 8 0.05
173 42 0.29
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (172 bp):
TTATTATATGTTACAGTTTCTTATTATAACATTTTTTCTTACTATAATTGTGAAGTTTGTTCTTA
TATATTGCACCTAAAAATATTTATATATATATATATATATATAAATATATTATATATTTAAGAAA
AAAAATTATTATTAAAAATAATTATTTTATATGAATATTTGC
Found at i:13070821 original size:31 final size:32
Alignment explanation
Indices: 13070773--13070838 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
13070763 TACTCCTTCG
*
13070773 TTCTTTAATCCCTTCAGTCGATTCATACCCAA
1 TTCTTCAATCCCTTCAGTCGATTCATACCCAA
* *
13070805 TTCTTCAAT-CCTTCAGTCGATTCCTATCCAA
1 TTCTTCAATCCCTTCAGTCGATTCATACCCAA
13070836 TTC
1 TTC
13070839 CAATTCTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (32 bp):
TTCTTCAATCCCTTCAGTCGATTCATACCCAA
Found at i:13071377 original size:21 final size:20
Alignment explanation
Indices: 13071349--13071391 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
13071339 CAGTATCCAG
*
13071349 GAAAAGAACCTCAGCAATCT
1 GAAAAGAACCTCAACAATCT
13071369 GAAACAGAACCTCAACAATCT
1 GAAA-AGAACCTCAACAATCT
13071390 GA
1 GA
13071392 GCAAGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.26, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAAAGAACCTCAACAATCT
Found at i:13082569 original size:32 final size:32
Alignment explanation
Indices: 13082533--13082596 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13082523 CAATAGATAC
13082533 CTAAATTTTCAATTATTTGAAAATAATAGGAT
1 CTAAATTTTCAATTATTTGAAAATAATAGGAT
*
13082565 CTAAATTTTCATTTATTTGAAAATAATAGGAT
1 CTAAATTTTCAATTATTTGAAAATAATAGGAT
13082597 GAAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (32 bp):
CTAAATTTTCAATTATTTGAAAATAATAGGAT
Found at i:13093376 original size:47 final size:47
Alignment explanation
Indices: 13093307--13093407 Score: 202
Period size: 47 Copynumber: 2.1 Consensus size: 47
13093297 TACTACTTGG
13093307 CAATAAAAATAAATGACATATGGGTAAAACAGAACAAAACCAACATA
1 CAATAAAAATAAATGACATATGGGTAAAACAGAACAAAACCAACATA
13093354 CAATAAAAATAAATGACATATGGGTAAAACAGAACAAAACCAACATA
1 CAATAAAAATAAATGACATATGGGTAAAACAGAACAAAACCAACATA
13093401 CAATAAA
1 CAATAAA
13093408 GCCCGAGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (47 bp):
CAATAAAAATAAATGACATATGGGTAAAACAGAACAAAACCAACATA
Found at i:13094508 original size:18 final size:17
Alignment explanation
Indices: 13094476--13094510 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13094466 TAAGATTAAA
13094476 TAAAATAACAATAAAAT
1 TAAAATAACAATAAAAT
*
13094493 TAAAATCAATAATAAAAT
1 TAAAAT-AACAATAAAAT
13094511 ATATATTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATAACAATAAAAT
Found at i:13098731 original size:7 final size:7
Alignment explanation
Indices: 13098719--13098778 Score: 59
Period size: 7 Copynumber: 8.1 Consensus size: 7
13098709 TTTTTTGTAG
13098719 TTTTTTA
1 TTTTTTA
13098726 TTTTTTA
1 TTTTTTA
13098733 -TTTTTA
1 TTTTTTA
13098739 TTATTTTA
1 TT-TTTTA
*
13098747 TTTATTA
1 TTTTTTA
*
13098754 TTTAGTTTT
1 TTT--TTTA
13098763 TTATTTTA
1 TT-TTTTA
13098771 TTTTTTA
1 TTTTTTA
13098778 T
1 T
13098779 GAAATAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.14
7 21 0.48
8 12 0.27
9 4 0.09
10 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:13098736 original size:12 final size:12
Alignment explanation
Indices: 13098721--13098778 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
13098711 TTTTGTAGTT
13098721 TTTTATTTTTTA
1 TTTTATTTTTTA
*
13098733 --TT-TTTATTA
1 TTTTATTTTTTA
*
13098742 TTTTATTTATTA
1 TTTTATTTTTTA
13098754 -TTTAGTTTTTTA
1 TTTTA-TTTTTTA
13098766 TTTTATTTTTTA
1 TTTTATTTTTTA
13098778 T
1 T
13098779 GAAATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 6 0.15
12 21 0.54
13 4 0.10
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:13099788 original size:20 final size:19
Alignment explanation
Indices: 13099733--13099788 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
13099723 ATTTAATACC
*
13099733 ATAATTTA-ATAAAAAACT
1 ATAATTTATATAAAAAATT
*
13099751 AT-ATTTATATAATTAAATT
1 ATAATTTATATAA-AAAATT
13099770 ATAATTTATATTAAAAAAT
1 ATAATTTATA-TAAAAAAT
13099789 AAATAACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 6 0.19
20 11 0.35
21 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATTTATATAAAAAATT
Found at i:13099790 original size:17 final size:18
Alignment explanation
Indices: 13099684--13099790 Score: 54
Period size: 17 Copynumber: 6.1 Consensus size: 18
13099674 TTATTTATTA
13099684 AATTTATATT--T-AAAT
1 AATTTATATTAATAAAAT
13099699 ATATATTATATTAATAAAAT
1 A-AT-TTATATTAATAAAAT
* **
13099719 TA-TTAT-TTAATACCAT
1 AATTTATATTAATAAAAT
13099735 AATTTA-A-TAA-AAAACT
1 AATTTATATTAATAAAA-T
13099751 ATATTTATA-TAATTAAATTAT
1 A-ATTTATATTAA-TAAA--AT
13099772 AATTTATATTAA-AAAAT
1 AATTTATATTAATAAAAT
13099789 AA
1 AA
13099791 ATAACTTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 28
0.68 0.06 0.27
Matches are distributed among these distances:
15 3 0.04
16 16 0.23
17 23 0.32
18 4 0.06
19 5 0.07
20 14 0.20
21 5 0.07
22 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTATATTAATAAAAT
Found at i:13099938 original size:2 final size:2
Alignment explanation
Indices: 13099927--13099972 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
13099917 AACGAAAGTA
13099927 AT AT -T AT AT AT 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 AT AT AT AT AT AT
*
13099968 TT AT A
1 AT AT A
13099973 AAAACACACA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13100870 original size:31 final size:30
Alignment explanation
Indices: 13100835--13100909 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
13100825 AATATTATGA
*
13100835 ATGATTTTTAAATTATAATAAAATATTTAAT
1 ATGATATTTAAATTATAA-AAAATATTTAAT
* *
13100866 ATGATAATTAAATT-TAAAAAATTTTTAAT
1 ATGATATTTAAATTATAAAAAATATTTAAT
*
13100895 ATGATATTTGAATTA
1 ATGATATTTAAATTA
13100910 ATCACATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 23 0.61
30 3 0.08
31 12 0.32
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
ATGATATTTAAATTATAAAAAATATTTAAT
Found at i:13101484 original size:31 final size:29
Alignment explanation
Indices: 13101449--13101514 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
13101439 TAGTATTATT
13101449 ATTTTTTTAAAGTT-AATCACAATTTGAATTG
1 ATTTTTTTAAA-TTGAAT--CAATTTGAATTG
*
13101480 ATTTTTTTAAATTGAATTAATTTGAATTG
1 ATTTTTTTAAATTGAATCAATTTGAATTG
*
13101509 AATTTT
1 ATTTTT
13101515 ATTGATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.50
30 2 0.06
31 14 0.44
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (29 bp):
ATTTTTTTAAATTGAATCAATTTGAATTG
Found at i:13101643 original size:16 final size:16
Alignment explanation
Indices: 13101609--13101655 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13101599 TCACTATAAT
*
13101609 TTTTTTTAATTTTATA
1 TTTTTTTAATTTTAGA
13101625 TTTTTTTAATTATT-GA
1 TTTTTTTAATT-TTAGA
*
13101641 TTTTAATTAATTTTA
1 TTTT-TTTAATTTTA
13101656 AAAATGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTTAATTTTAGA
Found at i:13104246 original size:27 final size:25
Alignment explanation
Indices: 13104189--13104260 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
13104179 ATATATGTAA
*
13104189 ACAGATTATAGATTCAAATAATTGAT
1 ACAGATTATAGA-TCAAATAATAGAT
13104215 ACAGATTATAGATCAGACATAAATAGAT
1 ACAGATTATAGATCA-A-AT-AATAGAT
* *
13104243 -CAGATAATATATCAAATA
1 ACAGATTATAGATCAAATA
13104261 TTCAATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 1 0.03
25 5 0.12
26 14 0.35
27 14 0.35
28 6 0.15
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (25 bp):
ACAGATTATAGATCAAATAATAGAT
Found at i:13112822 original size:21 final size:20
Alignment explanation
Indices: 13112798--13112841 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13112788 TTTTACCTTG
* *
13112798 TTCAGATTGTTGAGGTTCTGT
1 TTCAAATTGCTGAGGTTCT-T
13112819 TTCAAATTGCTGAGGTTCTT
1 TTCAAATTGCTGAGGTTCTT
13112839 TTC
1 TTC
13112842 CTGGATACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.48
Consensus pattern (20 bp):
TTCAAATTGCTGAGGTTCTT
Found at i:13115288 original size:16 final size:16
Alignment explanation
Indices: 13115267--13115298 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13115257 TACCCATAAA
13115267 AATATTATGAAAAATT
1 AATATTATGAAAAATT
*
13115283 AATATTATGAATAATT
1 AATATTATGAAAAATT
13115299 TTAAATTATA
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:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AATATTATGAAAAATT
Found at i:13115326 original size:20 final size:17
Alignment explanation
Indices: 13115281--13115328 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
13115271 TTATGAAAAA
13115281 TTAATATTATGAATAATT
1 TTAATATTAT-AATAATT
13115299 TTAA-ATTATAATAAAATAT
1 TTAATATTATAAT--AAT-T
13115318 TTAATATTATA
1 TTAATATTATA
13115329 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 7 0.27
19 5 0.19
20 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAATATTATAATAATT
Found at i:13115358 original size:29 final size:27
Alignment explanation
Indices: 13115317--13115387 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
13115307 TAATAAAATA
*
13115317 TTTAATATTATATTTAAATTTTAAAATTT
1 TTTAAT-TTATATTTAAATTAT-AAATTT
13115346 TTTAATTTGATATTTAAATTATAAATTT
1 TTTAATTT-ATATTTAAATTATAAATTT
*
13115374 ATTAA-TTA-ATTTAA
1 TTTAATTTATATTTAA
13115388 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 6 0.15
26 1 0.03
27 2 0.05
28 12 0.31
29 18 0.46
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
TTTAATTTATATTTAAATTATAAATTT
Found at i:13116065 original size:20 final size:20
Alignment explanation
Indices: 13116033--13116071 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13116023 CAATATATTA
13116033 TTTTAAAATTATATTTATAAT
1 TTTTAAAATTATA-TTATAAT
13116054 TTTTAAAA-TATATTATAA
1 TTTTAAAATTATATTATAA
13116072 GTAAACACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATTATATTATAAT
Found at i:13116543 original size:29 final size:28
Alignment explanation
Indices: 13116480--13116550 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
13116470 ATAACTTAAT
* * **
13116480 TATATAAATATAATTTTTTTATTAAATTA
1 TATATTAA-ATAATATTTTTATTAAACAA
13116509 TGATATTAAATAATATTTTTATTAATACAA
1 T-ATATTAAATAATATTTTTATTAA-ACAA
13116539 TATATATAAATA
1 TATAT-TAAATA
13116551 TAAATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 20 0.57
30 15 0.43
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TATATTAAATAATATTTTTATTAAACAA
Found at i:13116556 original size:21 final size:23
Alignment explanation
Indices: 13116532--13116575 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
13116522 TATTTTTATT
*
13116532 AATACAATATAT-AT-AAATATA
1 AATACAATAAATAATAAAATATA
*
13116553 AATATAATAAATAATAAAATATA
1 AATACAATAAATAATAAAATATA
13116576 TTCTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AATACAATAAATAATAAAATATA
Found at i:13116688 original size:2 final size:2
Alignment explanation
Indices: 13116681--13116710 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13116671 CTTTATTTAA
13116681 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
13116711 TGATTGGATT
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:13119550 original size:29 final size:30
Alignment explanation
Indices: 13119488--13119555 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
13119478 ACCAACCCAG
*
13119488 AAATCAAACCAAATCTCCAAAACTATCCAA
1 AAATCAAAACAAATCTCCAAAACTATCCAA
* *
13119518 AAATCAAAACAACTCTTCAAGAAC-A-CCAA
1 AAATCAAAACAAATCTCCAA-AACTATCCAA
13119547 AAATTCAAA
1 AAA-TCAAA
13119556 CTAAGAACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 23 0.70
31 3 0.09
ACGTcount: A:0.56, C:0.26, G:0.01, T:0.16
Consensus pattern (30 bp):
AAATCAAAACAAATCTCCAAAACTATCCAA
Found at i:13119635 original size:14 final size:14
Alignment explanation
Indices: 13119612--13119646 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13119602 TATTTACTTA
13119612 GTGC-TTGGTGCAT
1 GTGCATTGGTGCAT
13119625 GTGCATTGGTGCAT
1 GTGCATTGGTGCAT
13119639 GTGCATTG
1 GTGCATTG
13119647 ATTACAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.11, C:0.14, G:0.37, T:0.37
Consensus pattern (14 bp):
GTGCATTGGTGCAT
Found at i:13120214 original size:20 final size:20
Alignment explanation
Indices: 13120174--13120215 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
13120164 GTTGGGTTAA
* *
13120174 AAATAATCTAATGCCTGCTT
1 AAATAATCTAATGCATACTT
13120194 AAATAATCTAATGCATACTT
1 AAATAATCTAATGCATACTT
13120214 AA
1 AA
13120216 CTTCCTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATAATCTAATGCATACTT
Found at i:13120361 original size:21 final size:22
Alignment explanation
Indices: 13120337--13120409 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 22
13120327 ATATTTAATA
13120337 ATTGAT-TTTAATTTTATTATT
1 ATTGATATTTAATTTTATTATT
*
13120358 ATTG-TATTCAATTTTATTATT
1 ATTGATATTTAATTTTATTATT
* * *
13120379 A-TAATAATTAATTTTATTTTT
1 ATTGATATTTAATTTTATTATT
*
13120400 ATTGCTATTT
1 ATTGATATTT
13120410 TTAATTTCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.05
21 34 0.83
22 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (22 bp):
ATTGATATTTAATTTTATTATT
Found at i:13123670 original size:13 final size:13
Alignment explanation
Indices: 13123652--13123676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13123642 TTTTACAAAA
13123652 ATATTAAAAAATT
1 ATATTAAAAAATT
13123665 ATATTAAAAAAT
1 ATATTAAAAAAT
13123677 ATTAAGATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATTAAAAAATT
Found at i:13129122 original size:18 final size:18
Alignment explanation
Indices: 13129101--13129136 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13129091 AAAGTATAAC
13129101 AATAATAATTAATATACT
1 AATAATAATTAATATACT
13129119 AATAATAATTAATATACT
1 AATAATAATTAATATACT
13129137 TAAAATCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATAATTAATATACT
Found at i:13143332 original size:20 final size:21
Alignment explanation
Indices: 13143295--13143338 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13143285 TTTTACCTTG
* *
13143295 TTCAGATTGTTGAGGTTCTGT
1 TTCAAATTGCTGAGGTTCTGT
*
13143316 TTCAAATTGCTGA-GTTCTTT
1 TTCAAATTGCTGAGGTTCTGT
13143336 TTC
1 TTC
13143339 CTGGATACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (21 bp):
TTCAAATTGCTGAGGTTCTGT
Found at i:13145673 original size:19 final size:18
Alignment explanation
Indices: 13145629--13145673 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
13145619 CAGATCGAAT
13145629 ATTAAATATTTTTATTCA
1 ATTAAATATTTTTATTCA
13145647 ATTCAAATGATTTTTGATTC-
1 ATT-AAAT-ATTTTT-ATTCA
13145667 ATTAAAT
1 ATTAAAT
13145674 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 9 0.38
21 4 0.17
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (18 bp):
ATTAAATATTTTTATTCA
Found at i:13145738 original size:19 final size:20
Alignment explanation
Indices: 13145704--13145743 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
13145694 TAAATTATAT
13145704 TTTTATTAATTTTTATACAAA
1 TTTTATTAATTTTTATA-AAA
13145725 TTTTATT-A-TTTTATAAAA
1 TTTTATTAATTTTTATAAAA
13145743 T
1 T
13145744 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 1 0.05
21 7 0.37
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTATTAATTTTTATAAAA
Found at i:13146054 original size:29 final size:30
Alignment explanation
Indices: 13145988--13146062 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
13145978 AATAAATTTT
13145988 TAAAAATCAA-T-AAATTAAATCTAATTAA
1 TAAAAATCAATTCAAATTAAATCTAATTAA
* *
13146016 TAAAATTCAATTCAAATTAATTC-AATTTAA
1 TAAAAATCAATTCAAATTAAATCTAA-TTAA
13146046 -AAAAATCAATTCAAATT
1 TAAAAATCAATTCAAATT
13146063 TAGATTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.22
29 19 0.46
30 13 0.32
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAAATCAATTCAAATTAAATCTAATTAA
Found at i:13146532 original size:20 final size:17
Alignment explanation
Indices: 13146487--13146534 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
13146477 ATTACAAAAA
13146487 TTAATATTATGAATAATT
1 TTAATATTAT-AATAATT
13146505 TTAA-ATTATAATAAAATAT
1 TTAATATTATAAT--AAT-T
13146524 TTAATATTATA
1 TTAATATTATA
13146535 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.12
17 5 0.19
18 7 0.27
19 5 0.19
20 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAATATTATAATAATT
Found at i:13146564 original size:29 final size:27
Alignment explanation
Indices: 13146523--13146597 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 27
13146513 TAATAAAATA
*
13146523 TTTAATATTATATTTAAATTTTAAAATTT
1 TTTAAT-TTATATTTAAATTCT-AAATTT
13146552 TTTAATTTGATATTTAAATTCTAAATTT
1 TTTAATTT-ATATTTAAATTCTAAATTT
*
13146580 ATTAA-TTA-ATTT-AATTCT
1 TTTAATTTATATTTAAATTCT
13146598 TATTTTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 6 0.14
25 4 0.09
26 1 0.02
27 2 0.05
28 12 0.28
29 18 0.42
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTAATTTATATTTAAATTCTAAATTT
Found at i:13146586 original size:28 final size:28
Alignment explanation
Indices: 13146516--13146597 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
13146506 TAAATTATAA
* *
13146516 TAAAATAT-TTAATATTATATTTAAATTT
1 TAAAATTTATTAAT-TTATATTTAAATTC
*
13146544 TAAAATTTTTTAATTTGATATTTAAATTC
1 TAAAATTTATTAATTT-ATATTTAAATTC
13146573 T-AAATTTATTAA-TTA-ATTT-AATTC
1 TAAAATTTATTAATTTATATTTAAATTC
13146597 T
1 T
13146598 TATTTTTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.12
25 4 0.08
26 1 0.02
27 2 0.04
28 19 0.39
29 17 0.35
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (28 bp):
TAAAATTTATTAATTTATATTTAAATTC
Found at i:13147706 original size:21 final size:21
Alignment explanation
Indices: 13147694--13147737 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
13147684 TATTTTTATT
13147694 AATATAATAAATATAAATATA
1 AATATAATAAATATAAATATA
13147715 AATATAATAAATAATAAAATATA
1 AATATAATAAAT-AT-AAATATA
13147738 TTCTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.57
22 2 0.10
23 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AATATAATAAATATAAATATA
Found at i:13157324 original size:161 final size:167
Alignment explanation
Indices: 13156999--13157324 Score: 443
Period size: 167 Copynumber: 2.0 Consensus size: 167
13156989 CAATATCCTT
* *
13156999 AAATATTCATATAAAATAATTATTTATAATAATAAATTTTTAAAAAATATATAATATATTAATAA
1 AAATACTCACATAAAATAATTATTTATAATAATAAATTTTTAAAAAATATATAATATATTAATAA
* *
13157064 TATATATATAAAAAAAGATTTTTAGGTGCAACATATAAAAACAAACTTCACAATTATAATAAGAA
66 TATATATATAAAAAAAGATTTTTAGGTGCAACATATAAAAACAAAATTCAAAATTATAATAAGAA
13157129 AAAATGTTATAATAAGAAACTGTAACATATAATAAGC
131 AAAATGTTATAATAAGAAACTGTAACATATAATAAGC
* *** * *
13157166 AAATACTCACATAAAATAATTATTTTTAATAATTTTTTTCTTAAAATATA-ATAATTTATTAAT-
1 AAATACTCACATAAAATAATTATTTATAATAATAAATTT-TTAAAAAATATATAATATATTAATA
* * * * *
13157229 A-ATATATA-GAAAATA-A-TTTTAGGTGCAATATATAAGAACAAAATTCAAAATTATAGT-AGA
65 ATATATATATAAAAAAAGATTTTTAGGTGCAACATATAAAAACAAAATTCAAAATTATAATAAGA
13157289 AAAAATGTTATAATAAG-AACATGTAACATATAATAA
130 AAAAATGTTATAATAAGAAAC-TGTAACATATAATAA
13157325 AAAAAATTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
160 3 0.02
161 35 0.25
162 36 0.25
163 1 0.01
164 5 0.04
165 7 0.05
166 1 0.01
167 45 0.32
168 9 0.06
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (167 bp):
AAATACTCACATAAAATAATTATTTATAATAATAAATTTTTAAAAAATATATAATATATTAATAA
TATATATATAAAAAAAGATTTTTAGGTGCAACATATAAAAACAAAATTCAAAATTATAATAAGAA
AAAATGTTATAATAAGAAACTGTAACATATAATAAGC
Found at i:13159991 original size:16 final size:15
Alignment explanation
Indices: 13159970--13160013 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 15
13159960 GATTTCATTC
13159970 TTTTAAATATATTTTT
1 TTTTAAATAT-TTTTT
13159986 TTTTAAATA---TTT
1 TTTTAAATATTTTTT
13159998 TTTTAAATATTTTTT
1 TTTTAAATATTTTTT
13160013 T
1 T
13160014 AAGCACAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.48
15 4 0.16
16 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATATTTTTT
Found at i:13159998 original size:12 final size:12
Alignment explanation
Indices: 13159983--13160015 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
13159973 TAAATATATT
13159983 TTTTTTTAAATA
1 TTTTTTTAAATA
13159995 TTTTTTTAAATA
1 TTTTTTTAAATA
13160007 TTTTTTTAA
1 TTTTTTTAA
13160016 GCACAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTTAAATA
Found at i:13165439 original size:3 final size:3
Alignment explanation
Indices: 13165431--13165459 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13165421 TGATTAGCAA
13165431 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13165460 AATTAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13171082 original size:32 final size:32
Alignment explanation
Indices: 13171041--13171104 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13171031 TTTTTCTTTC
13171041 ATCCTATTATTTTCAAATAAATGAAAATTTAG
1 ATCCTATTATTTTCAAATAAATGAAAATTTAG
*
13171073 ATCCTATTATTTTCAAATAATTGAAAATTTAG
1 ATCCTATTATTTTCAAATAAATGAAAATTTAG
13171105 GTATCTATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (32 bp):
ATCCTATTATTTTCAAATAAATGAAAATTTAG
Found at i:13184553 original size:19 final size:19
Alignment explanation
Indices: 13184521--13184559 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13184511 TTAATAATAT
13184521 TTTTATTAATTTTATACAAA
1 TTTTATTAATTTTATA-AAA
13184541 TTTTATT-ATTTTATAAAA
1 TTTTATTAATTTTATAAAA
13184559 T
1 T
13184560 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTATTAATTTTATAAAA
Found at i:13184827 original size:14 final size:14
Alignment explanation
Indices: 13184808--13184853 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
13184798 TTTAAAAATC
13184808 AATAAATTAAATTT
1 AATAAATTAAATTT
*
13184822 AATAAATAAAATTT
1 AATAAATTAAATTT
13184836 AATTCAAATT-AATTT
1 AA-T-AAATTAAATTT
13184851 AAT
1 AAT
13184854 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 16 0.57
15 8 0.29
16 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
AATAAATTAAATTT
Found at i:13185213 original size:17 final size:17
Alignment explanation
Indices: 13185191--13185225 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13185181 AGCATTTTTC
*
13185191 TCTTCTCTATTTTCTTA
1 TCTTCTCAATTTTCTTA
13185208 TCTTCTCAATTTTCTTA
1 TCTTCTCAATTTTCTTA
13185225 T
1 T
13185226 TAATTTTGAA
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:0.14, C:0.23, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTTCTCAATTTTCTTA
Found at i:13185273 original size:60 final size:60
Alignment explanation
Indices: 13185173--13185294 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
13185163 AGAAAATGAA
* * * *
13185173 GAAGCTCTAGCATTTTTCTCTTCTCTATTTTCTTATCTTCTCAATTTTCTTATTAATTTT
1 GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
* *
13185233 GAAGCTCTAGTAATTTTCTCTTCTCTGTTTTCTCACCTTCTCAATTTTCTCATTAATTTT
1 GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
13185293 GA
1 GA
13185295 TAAAAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (60 bp):
GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
Found at i:13187984 original size:20 final size:21
Alignment explanation
Indices: 13187959--13187999 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13187949 CTCAAATCAA
*
13187959 TTTAATA-ATATTTTATTATT
1 TTTAATACAAATTTTATTATT
13187979 TTTAATACAAATTTTATTATT
1 TTTAATACAAATTTTATTATT
13188000 GTAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATACAAATTTTATTATT
Found at i:13187994 original size:21 final size:20
Alignment explanation
Indices: 13187959--13188008 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13187949 CTCAAATCAA
*
13187959 TTTAATAATATTTTATTATT
1 TTTAATAAAATTTTATTATT
13187979 TTTAATACAAATTTTATTA-T
1 TTTAATA-AAATTTTATTATT
*
13187999 TGTAATAAAA
1 TTTAATAAAA
13188009 AATAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTAATAAAATTTTATTATT
Found at i:13189595 original size:30 final size:30
Alignment explanation
Indices: 13189522--13189598 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 30
13189512 AATTACAACT
*
13189522 TAATTATATAAATATAGTTTTTTTATTAAA
1 TAATTATATAAATATAGTATTTTTATTAAA
*
13189552 TTATGGTAT-TAAATA-A-TATTTTTATTAATA
1 TAAT--TATATAAATATAGTATTTTTATTAA-A
13189582 TAATATATATAAATATA
1 TAAT-TATATAAATATA
13189599 TAAATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
29 14 0.37
30 14 0.37
31 7 0.18
32 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TAATTATATAAATATAGTATTTTTATTAAA
Found at i:13189599 original size:29 final size:28
Alignment explanation
Indices: 13189522--13189599 Score: 70
Period size: 31 Copynumber: 2.6 Consensus size: 28
13189512 AATTACAACT
*
13189522 TAAT-TATATAAATATAGTTTTTTTATTA
1 TAATATATATAAATATA-TTTTTTTAATA
*
13189550 -AATTATGGTATTAAATAATATTTTTATTAATA
1 TAA-TAT-ATA-TAAAT-ATATTTTT-TTAATA
13189582 TAATATATATAAATATAT
1 TAATATATATAAATATAT
13189600 AAATTTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
27 2 0.05
28 1 0.03
29 5 0.12
30 7 0.17
31 12 0.30
32 11 0.28
33 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TAATATATATAAATATATTTTTTTAATA
Found at i:13190518 original size:38 final size:38
Alignment explanation
Indices: 13190452--13190524 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
13190442 TTATTTCATA
* *
13190452 AAAAATAAAAATAAATAAAATAATAAAAAA-TTTTAAT
1 AAAAATAAAAATAAAAAAAACAATAAAAAAGTTTTAAT
13190489 AAAAATAAAAAATAAAAAACAACAA-AAAAAAGTTTT
1 AAAAAT-AAAAATAAAAAA-AACAATAAAAAAGTTTT
13190525 GGAGAATGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 6 0.19
38 17 0.55
39 8 0.26
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (38 bp):
AAAAATAAAAATAAAAAAAACAATAAAAAAGTTTTAAT
Found at i:13198123 original size:21 final size:21
Alignment explanation
Indices: 13198097--13198140 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
13198087 TCAATTTTTA
13198097 TTTATTACT-TTAAAAAAATTT
1 TTTATTA-TATTAAAAAAATTT
13198118 TTTATTATATTAAAAAAATTT
1 TTTATTATATTAAAAAAATTT
13198139 TT
1 TT
13198141 ATAAATACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATTATATTAAAAAAATTT
Found at i:13198309 original size:20 final size:21
Alignment explanation
Indices: 13198280--13198319 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13198270 TAGTTTAGTA
13198280 TTATTATTAAA-TTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
13198300 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
13198320 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:13199806 original size:16 final size:16
Alignment explanation
Indices: 13199782--13199814 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13199772 CAGCAGAAGC
*
13199782 TCAATAACTTTAAAAT
1 TCAACAACTTTAAAAT
13199798 TCAACAACTTTAAAAT
1 TCAACAACTTTAAAAT
13199814 T
1 T
13199815 TCATCTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
TCAACAACTTTAAAAT
Found at i:13199852 original size:47 final size:47
Alignment explanation
Indices: 13199798--13199997 Score: 278
Period size: 47 Copynumber: 4.2 Consensus size: 47
13199788 ACTTTAAAAT
*
13199798 TCAACAACTTTAAAATTTCATC-TGAAAAAGTTTCTCTCAGTAGAGGC
1 TCAACAACTTTAAAA-TTCATCTTGAAAAAGCTTCTCTCAGTAGAGGC
* *
13199845 TCAACAACTTTAAAATCCATCTTGAAAAAGCTTCTCTCAGTAGAGGT
1 TCAACAACTTTAAAATTCATCTTGAAAAAGCTTCTCTCAGTAGAGGC
* * * *
13199892 TTAATAACTTTAAAAATTTCAT-ATGAAAAAGCTCCTCTCAGTAGAGGC
1 TCAACAACTTT-AAAA-TTCATCTTGAAAAAGCTTCTCTCAGTAGAGGC
* *
13199940 TCAACAACTTTAAAATTCATCTTGAAAAAGCTTCTCTCAGCAGAGGT
1 TCAACAACTTTAAAATTCATCTTGAAAAAGCTTCTCTCAGTAGAGGC
13199987 TCAACAACTTT
1 TCAACAACTTT
13199998 CAGCAGAGGT
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 10 0.07
47 84 0.63
48 36 0.27
49 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (47 bp):
TCAACAACTTTAAAATTCATCTTGAAAAAGCTTCTCTCAGTAGAGGC
Found at i:13199854 original size:63 final size:66
Alignment explanation
Indices: 13199732--13199860 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 66
13199722 TAGCAGAGGC
* * *
13199732 TCAACAACTTTAAAAATCTCATCTTTAAAAGGGTTCCTCTCAGCAGAAGCTCAATAACTTTAAAA
1 TCAACAACTTTAAAAATCTCATCTTGAAAAGAGTTCCTCTCAGCAGAAGCTCAACAACTTTAAAA
13199797 T
66 T
* * * *
13199798 TCAACAACTTT-AAAATTTCATC-TGAAAA-AGTTTCTCTCAGTAGAGGCTCAACAACTTTAAAA
1 TCAACAACTTTAAAAATCTCATCTTGAAAAGAGTTCCTCTCAGCAGAAGCTCAACAACTTTAAAA
13199860 T
66 T
13199861 CCATCTTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
63 30 0.54
64 5 0.09
65 10 0.18
66 11 0.20
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (66 bp):
TCAACAACTTTAAAAATCTCATCTTGAAAAGAGTTCCTCTCAGCAGAAGCTCAACAACTTTAAAA
T
Found at i:13199920 original size:95 final size:95
Alignment explanation
Indices: 13199798--13200359 Score: 556
Period size: 95 Copynumber: 5.7 Consensus size: 95
13199788 ACTTTAAAAT
* * *
13199798 TCAACAACTTT-AAAATTTCATCTGAAAAAGTTTCTCTCAGTAGAGGCTCAACAACTTTAAAATC
1 TCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC
* *
13199862 CATCTTGAAAAAGCTTCTCTCAGTAGAGGT
66 CATCTTGAAAAAGCTTCTCTCAGCAGAGGC
* * * * *
13199892 TTAATAACTTTAAAAATTTCATATGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATT
1 TCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC
*
13199957 CATCTTGAAAAAGCTTCTCTCAGCAGAGGT
66 CATCTTGAAAAAGCTTCTCTCAGCAGAGGC
* * * *
13199987 TCAACAACTTTCAGCAGAGGTTCAACAACTTTAAAAATCATCTTGGAAAAGCTCCTCTCAGTAGA
1 TCAACAACTTT------A-----AA-AA-TTT-CAT-----C-TGAAAAAGCTCCTCTCAGCAGA
* * * *
13200052 GGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCCTTTCAACAGAGGC
46 GGCTCAACAACTTT-AAAATC-CATCTTGAAAA-AGCTTCTCTCAGCAGAGGC
* * * * *
13200105 TCAACAACTTT-CAAATTTCATCTGAAAAAGTTTCTCTCAACAGAGGTTCAACAACTTTAAAATC
1 TCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC
13200169 CATCTTGAAAAAGC-TCATCTCAGCAGAGGC
66 CATCTTGAAAAAGCTTC-TCTCAGCAGAGGC
*
13200199 TCAACAACTTTAAAAATCTCATCTTGAAAAAGAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
1 TCAACAACTTTAAAAATTTCATC-TG-AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
* * *
13200264 ATCCATCATGAAAAAGCTCCTCTCAACAGAGGC
63 ATCCATCTTGAAAAAGCTTCTCTCAGCAGAGGC
* * * *
13200297 TCAACAATTTTAAAAATTTCATCTGAAAAAGCT-TTCCTCAGCAAAGGTTCAACAACTTTAAAA
1 TCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCT-CTCAGCAGAGGCTCAACAACTTTAAAA
13200360 ATTCATCTGT
Statistics
Matches: 391, Mismatches: 46, Indels: 61
0.79 0.09 0.12
Matches are distributed among these distances:
93 1 0.00
94 34 0.09
95 136 0.35
96 12 0.03
97 36 0.09
98 79 0.20
99 1 0.00
101 1 0.00
103 1 0.00
104 3 0.01
105 2 0.01
106 3 0.01
107 2 0.01
108 3 0.01
109 1 0.00
115 35 0.09
116 5 0.01
117 11 0.03
118 25 0.06
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (95 bp):
TCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC
CATCTTGAAAAAGCTTCTCTCAGCAGAGGC
Found at i:13200002 original size:21 final size:21
Alignment explanation
Indices: 13199976--13200018 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13199966 AAAGCTTCTC
13199976 TCAGCAGAGGTTCAACAACTT
1 TCAGCAGAGGTTCAACAACTT
13199997 TCAGCAGAGGTTCAACAACTT
1 TCAGCAGAGGTTCAACAACTT
13200018 T
1 T
13200019 AAAAATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (21 bp):
TCAGCAGAGGTTCAACAACTT
Found at i:13200039 original size:163 final size:165
Alignment explanation
Indices: 13199834--13200303 Score: 470
Period size: 163 Copynumber: 3.0 Consensus size: 165
13199824 AAAGTTTCTC
* * * * *
13199834 TCAGTAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTTCTCTCAGTAGAGGTTTAATAA
1 TCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAA
* **
13199899 CTTTAAAAATTTCAT-ATGAAAA-AGCTCCTCTCAGTAGAGGCTCAACAACTTT-AAAATTCATC
66 CTTTAAAAATCTCATCATGAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTCAAAATTCATC
*
13199961 TTGAAAAAGCTTCTCTCAGCAGAGGTTCAACAACTT
131 -TGAAAAAGCTTCTCTCAACAGAGGTTCAACAACTT
* *
13199997 TCAGCAGAGGTTCAACAACTTTAAAAAT-CATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTT-AAAATCCATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACA
* * * *
13200061 ACTTTAAAAATCTCATCTTGAAAAGGGCTCCTTTCAACAGAGGCTCAACAACTTTCAAATTTCAT
65 ACTTTAAAAATCTCATCATGAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTCAAAATTCAT
*
13200126 CTGAAAAAGTTTCTCTCAACAGAGGTTCAACAACTT
130 CTGAAAAAGCTTCTCTCAACAGAGGTTCAACAACTT
* * * * * * *
13200162 T-A--A-A--ATC--CATCTTGAAAA---AGC-T----CATCT-C----AGCAGAGGCTCAACAA
1 TCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAA
* * *
13200206 CTTTAAAAATCTCATCTTGAAAAAGAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCCAT
66 CTTTAAAAATCTCATCATG-AAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTCAAAATTCAT
* *
13200270 CATGAAAAAGCTCCTCTCAACAGAGGCTCAACAA
130 C-TGAAAAAGCTTCTCTCAACAGAGGTTCAACAA
13200304 TTTTAAAAAT
Statistics
Matches: 270, Mismatches: 31, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
144 42 0.16
145 61 0.23
148 1 0.00
149 3 0.01
153 1 0.00
154 2 0.01
156 4 0.01
157 5 0.02
159 2 0.01
161 1 0.00
162 1 0.00
163 66 0.24
164 12 0.04
165 60 0.22
166 9 0.03
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (165 bp):
TCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAA
CTTTAAAAATCTCATCATGAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTCAAAATTCATC
TGAAAAAGCTTCTCTCAACAGAGGTTCAACAACTT
Found at i:13200045 original size:68 final size:68
Alignment explanation
Indices: 13199929--13200065 Score: 211
Period size: 68 Copynumber: 2.0 Consensus size: 68
13199919 AAAGCTCCTC
* * * *
13199929 TCAGTAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGCTTCTCTCAGCAGAGGTTCAACAA
1 TCAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
13199994 CTT
66 CTT
* * *
13199997 TCAGCAGAGGTTCAACAACTTTAAAAATCATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACAA
1 TCAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
13200062 CTT
66 CTT
13200065 T
1 T
13200066 AAAAATCTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (68 bp):
TCAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
CTT
Found at i:13200071 original size:47 final size:48
Alignment explanation
Indices: 13199997--13200367 Score: 448
Period size: 47 Copynumber: 7.7 Consensus size: 48
13199987 TCAACAACTT
* *
13199997 TCAGCAGAGGTTCAACAACTTTAAAAA-TCATCTTGGAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
* * *
13200044 TCAGTAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCCTT
1 TCAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAA-AGCTCCTC
* * * * *
13200094 TCAACAGAGGCTCAACAACTTTCAAATTTCATC-TGAAAAAGTTTCTC
1 TCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
* * * *
13200141 TCAACAGAGGTTCAACAACTTT-AAAATCCATCTTGAAAAAGCTCATC
1 TCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
13200188 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTG-AAAA-AGCTCCTC
* *
13200239 TCAGCAGAGGCTCAACAACTTT-AAAATCCATCATGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
* * *
13200286 TCAACAGAGGCTCAACAATTTTAAAAATTTCATC-TGAAAAAGCT-TTCC
1 TCAGCAGAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAAAGCTCCT-C
* *
13200334 TCAGCAAAGGTTCAACAACTTTAAAAATTCATCT
1 TCAGCAGAGGCTCAACAACTTTAAAAATTCATCT
13200368 GTTCTCAAAA
Statistics
Matches: 279, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
46 8 0.03
47 116 0.42
48 53 0.19
49 34 0.12
50 39 0.14
51 29 0.10
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (48 bp):
TCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
Found at i:13200190 original size:144 final size:145
Alignment explanation
Indices: 13200001--13200367 Score: 512
Period size: 144 Copynumber: 2.5 Consensus size: 145
13199991 CAACTTTCAG
* * *
13200001 CAGAGGTTCAACAACTTTAAAAATCATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTT
1 CAGAGGTTCAACAACTTTAAAAATCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT
* * * *
13200066 AAAAATCTCATCTTG-AAAAGGGCTCCTTTCAACAGAGGCTCAACAACTTTCAAATTTCATC-TG
66 AAAAATCTCATCTTGAAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCCATCATG
* *
13200129 AAAAAGTTTCTCTCAA
130 AAAAAGCTCCTCTCAA
13200145 CAGAGGTTCAACAACTTT-AAAATCCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTT
1 CAGAGGTTCAACAACTTTAAAAAT-CATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTT
*
13200209 TAAAAATCTCATCTTGAAAAAGAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCATCATG
65 TAAAAATCTCATCTTGAAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCCATCATG
13200274 AAAAAGCTCCTCTCAA
130 AAAAAGCTCCTCTCAA
* * * * *
13200290 CAGAGGCTCAACAATTTTAAAAATTTCATC-TGAAAAAGCT-TTCCTCAGCAAAGGTTCAACAAC
1 CAGAGGTTCAACAACTTTAAAAA--TCATCTTGAAAAAGCTCAT-CTCAGCAGAGGCTCAACAAC
13200353 TTTAAAAAT-TCATCT
63 TTTAAAAATCTCATCT
13200368 GTTCTCAAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
143 5 0.02
144 79 0.39
145 71 0.35
146 41 0.20
147 4 0.02
148 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (145 bp):
CAGAGGTTCAACAACTTTAAAAATCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT
AAAAATCTCATCTTGAAAAAGAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCCATCATGA
AAAAGCTCCTCTCAA
Found at i:13200256 original size:98 final size:95
Alignment explanation
Indices: 13200001--13200359 Score: 456
Period size: 98 Copynumber: 3.7 Consensus size: 95
13199991 CAACTTTCAG
* * *
13200001 CAGAGGTTCAACAACTTTAAAAA--TCATCTTGGAAAAGCTCCTCTCAGTAGAGGCTCAACAACT
1 CAGAGGCTCAACAACTTTAAAAATTTCATC-TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
* *
13200064 TTAAAAATCTCATCTTGAAAAGGGCTCCTTTCAA
65 TT-AAAATC-CATCTTGAAAA-AGCTCCTCTCAA
* * * * *
13200098 CAGAGGCTCAACAACTTT-CAAATTTCATCTGAAAAAGTTTCTCTCAACAGAGGTTCAACAACTT
1 CAGAGGCTCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT
* *
13200162 TAAAATCCATCTTGAAAAAGCTCATCTCAG
66 TAAAATCCATCTTGAAAAAGCTCCTCTCAA
*
13200192 CAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
1 CAGAGGCTCAACAACTTTAAAAATTTCATC-TG-AAAA-AGCTCCTCTCAGCAGAGGCTCAACAA
*
13200257 CTTTAAAATCCATCATGAAAAAGCTCCTCTCAA
63 CTTTAAAATCCATCTTGAAAAAGCTCCTCTCAA
* * * *
13200290 CAGAGGCTCAACAATTTTAAAAATTTCATCTGAAAAAGCT-TTCCTCAGCAAAGGTTCAACAACT
1 CAGAGGCTCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCT-CTCAGCAGAGGCTCAACAACT
13200354 TTAAAA
65 TTAAAA
13200360 ATTCATCTGT
Statistics
Matches: 229, Mismatches: 26, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
94 27 0.12
95 49 0.21
96 15 0.07
97 53 0.23
98 85 0.37
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (95 bp):
CAGAGGCTCAACAACTTTAAAAATTTCATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT
TAAAATCCATCTTGAAAAAGCTCCTCTCAA
Found at i:13203138 original size:16 final size:16
Alignment explanation
Indices: 13203117--13203147 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13203107 TTAGAATTTT
13203117 GATTTTAGAGTTTGAA
1 GATTTTAGAGTTTGAA
*
13203133 GATTTTAGGGTTTGA
1 GATTTTAGAGTTTGA
13203148 GTTTTGAGGT
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:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGAA
Found at i:13203601 original size:22 final size:21
Alignment explanation
Indices: 13203552--13203607 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13203542 TTATTATTAA
* * *
13203552 AACAATTAAAAAACTTATCCT
1 AACAAATATAAAACTTATCAT
*
13203573 AACAAATTTAAAACTTATCAT
1 AACAAATATAAAACTTATCAT
*
13203594 ACATAAATATAAAA
1 A-ACAAATATAAAA
13203608 AAAATACTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAATATAAAACTTATCAT
Found at i:13203628 original size:18 final size:19
Alignment explanation
Indices: 13203592--13203645 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
13203582 AAAACTTATC
13203592 ATACATAAATATAAAAAAA
1 ATACATAAATATAAAAAAA
* *
13203611 ATACTTAAA-ATAACAAAA
1 ATACATAAATATAAAAAAA
*
13203629 ATA-AT-GATATAAAAAAA
1 ATACATAAATATAAAAAAA
13203646 TTCAAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.03
17 9 0.31
18 11 0.38
19 8 0.28
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (19 bp):
ATACATAAATATAAAAAAA
Found at i:13213695 original size:21 final size:21
Alignment explanation
Indices: 13213671--13213724 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
13213661 AGAAAAAATA
*
13213671 TTTTTTGTTTTTTAG-TGTTTT
1 TTTTTTGTTTTTGAGAT-TTTT
13213692 TTTTTATG-TTTTGAGATTTTT
1 TTTTT-TGTTTTTGAGATTTTT
13213713 TTGTTTTGTTTT
1 TT-TTTTGTTTT
13213725 GTATTATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (21 bp):
TTTTTTGTTTTTGAGATTTTT
Found at i:13215363 original size:20 final size:21
Alignment explanation
Indices: 13215334--13215373 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13215324 TAGTTTAGTA
13215334 TTATTATTAAA-TTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
13215354 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
13215374 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:13216476 original size:7 final size:7
Alignment explanation
Indices: 13216466--13216522 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
13216456 TGTTTTTTTT
13216466 TTTTGTA
1 TTTTGTA
*
13216473 TTTTATA
1 TTTTGTA
13216480 TTTTTGGTA
1 -TTTT-GTA
13216489 TTTTGTA
1 TTTTGTA
*
13216496 TTTTATA
1 TTTTGTA
13216503 TTTTTTTGTA
1 ---TTTTGTA
13216513 TTTTGTA
1 TTTTGTA
13216520 TTT
1 TTT
13216523 AATAATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 25 0.61
8 8 0.20
9 2 0.05
10 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
TTTTGTA
Found at i:13216507 original size:24 final size:23
Alignment explanation
Indices: 13216466--13216522 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 23
13216456 TGTTTTTTTT
13216466 TTTTGTATTTTATATTTTTGGTA
1 TTTTGTATTTTATATTTTTGGTA
*
13216489 TTTTGTATTTTATATTTTTTTGTA
1 TTTTGTATTTTATA-TTTTTGGTA
13216513 TTTTGTATTT
1 TTTTGTATTT
13216523 AATAATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (23 bp):
TTTTGTATTTTATATTTTTGGTA
Found at i:13216508 original size:16 final size:16
Alignment explanation
Indices: 13216464--13216499 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13216454 TTTGTTTTTT
*
13216464 TTTTTTGTATTTTATA
1 TTTTTGGTATTTTATA
*
13216480 TTTTTGGTATTTTGTA
1 TTTTTGGTATTTTATA
13216496 TTTT
1 TTTT
13216500 ATATTTTTTT
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:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (16 bp):
TTTTTGGTATTTTATA
Found at i:13216552 original size:13 final size:13
Alignment explanation
Indices: 13216536--13216560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13216526 AATATTATTT
13216536 TTATTATTTTTTA
1 TTATTATTTTTTA
13216549 TTATTATTTTTT
1 TTATTATTTTTT
13216561 TTGCCGGACA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:13216828 original size:2 final size:2
Alignment explanation
Indices: 13216821--13216877 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
13216811 TGAATTCGAA
* * *
13216821 AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13216863 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
13216878 AAAAGAGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:13217516 original size:31 final size:32
Alignment explanation
Indices: 13217476--13217540 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
13217466 TTCAAATAAG
13217476 ATAAGAA-TTTTTAAAAAAAACTTGAGCAAGTA
1 ATAAGAATTTTTTAAAAAAAA-TTGAGCAAGTA
*
13217508 ATAA-AATTTTTTTAAAAAAATTGAGCAAGTA
1 ATAAGAATTTTTTAAAAAAAATTGAGCAAGTA
13217539 AT
1 AT
13217541 CATTAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (32 bp):
ATAAGAATTTTTTAAAAAAAATTGAGCAAGTA
Found at i:13219207 original size:21 final size:18
Alignment explanation
Indices: 13219181--13219220 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
13219171 TTAATTATAT
13219181 TTTTATTAATTTTTATATAAA
1 TTTTATT-A-TTTTATA-AAA
13219202 TTTTATTATTTTATAAAA
1 TTTTATTATTTTATAAAA
13219220 T
1 T
13219221 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 1 0.05
21 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATTATTTTATAAAA
Found at i:13219999 original size:19 final size:18
Alignment explanation
Indices: 13219976--13220022 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
13219966 TATGAATGAT
13219976 TTTTAAATTATAATAAAA
1 TTTTAAATTATAATAAAA
* *
13219994 TATTTAATATAATATTAAAA
1 T-TTTAA-ATTATAATAAAA
13220014 TTTTAAATT
1 TTTTAAATT
13220023 TTGATATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAATTATAATAAAA
Found at i:13220247 original size:29 final size:26
Alignment explanation
Indices: 13220187--13220239 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
13220177 TATATTTTTA
*
13220187 AAATATTTAATATAATATTAAAATTAT
1 AAAT-TTTAATATAAAATTAAAATTAT
13220214 AAATTTTAATATTAAAATTATAAATT
1 AAATTTTAATA-TAAAATTA-AAATT
13220240 TATTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 11 0.48
28 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTTAATATAAAATTAAAATTAT
Found at i:13220249 original size:21 final size:21
Alignment explanation
Indices: 13220199--13220240 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13220189 ATATTTAATA
13220199 TAATATTAAAATTATAAATTT
1 TAATATTAAAATTATAAATTT
13220220 TAATATTAAAATTATAAATTT
1 TAATATTAAAATTATAAATTT
13220241 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATTAAAATTATAAATTT
Found at i:13220313 original size:198 final size:196
Alignment explanation
Indices: 13219989--13220383 Score: 655
Period size: 198 Copynumber: 2.0 Consensus size: 196
13219979 TAAATTATAA
* * * *
13219989 TAAAATATTTAATATAATATTAAAATTTTAAATTTTGATATTTAAATTATGAATTATTAATTAAT
1 TAAAATATTTAATATAATATTAAAATTATAAATTTTAATATTAAAATTATAAATTATTAATTAAT
* *
13220054 TTGATACTTATTTTTAAATGATTAATTTAAATATCACATTAAAAATTTTTAAAATTTAAATATTA
66 TTGATACTTATATTTAAATGATTAATTCAAATATCACATTAAAAATTTTTAAAATTTAAATATTA
* * *
13220119 TATTAAATATTTTATTATAACTTAAAAATTATTTATGACATTAATCCTATTAAAAAGCTATATTT
131 TATTAAATATTTTACTATAACTTAAAAATTATTTATGACATTAATCCTATTAAAAAGCAACATTT
13220184 T
196 T
13220185 TAAAATATTTAATATAATATTAAAATTATAAATTTTAATATTAAAATTATAAATTTATTAATTAA
1 TAAAATATTTAATATAATATTAAAATTATAAATTTTAATATTAAAATTATAAA-TTATTAATTAA
* *
13220250 TTTGATACTTATATTTAGAGTGATTAATTCAAATATCACATTAAAATTTTTTAAAATTTAAATAT
65 TTTGATACTTATATTTA-AATGATTAATTCAAATATCACATTAAAAATTTTTAAAATTTAAATAT
* *
13220315 TATATTAAATATTTTACTATAATTTAAAAATTATTTATGATATTAATCCTATTAAAAAGCAACAT
129 TATATTAAATATTTTACTATAACTTAAAAATTATTTATGACATTAATCCTATTAAAAAGCAACAT
13220380 TTT
194 TTT
13220383 T
1 T
13220384 TGTGTAAGCC
Statistics
Matches: 184, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
196 49 0.27
197 27 0.15
198 108 0.59
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (196 bp):
TAAAATATTTAATATAATATTAAAATTATAAATTTTAATATTAAAATTATAAATTATTAATTAAT
TTGATACTTATATTTAAATGATTAATTCAAATATCACATTAAAAATTTTTAAAATTTAAATATTA
TATTAAATATTTTACTATAACTTAAAAATTATTTATGACATTAATCCTATTAAAAAGCAACATTT
T
Found at i:13220342 original size:31 final size:29
Alignment explanation
Indices: 13220274--13220348 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
13220264 TTAGAGTGAT
* * * *
13220274 TAATTCAAATATCACATTAAAATTTTTTA
1 TAATTTAAATATTATATTAAAATTTTCTA
*
13220303 AAATTTAAATATTATATTAAATATTTTACTA
1 TAATTTAAATATTATATTAAA-ATTTT-CTA
*
13220334 TAATTTAAAAATTAT
1 TAATTTAAATATTAT
13220349 TTATGATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 17 0.46
30 5 0.14
31 15 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATTTAAATATTATATTAAAATTTTCTA
Found at i:13220829 original size:15 final size:16
Alignment explanation
Indices: 13220809--13220838 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13220799 TAGTATTAAC
13220809 AATGATT-TTTAATTG
1 AATGATTGTTTAATTG
13220824 AATGATTGTTTAATT
1 AATGATTGTTTAATT
13220839 ATTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
AATGATTGTTTAATTG
Found at i:13221416 original size:16 final size:17
Alignment explanation
Indices: 13221395--13221426 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13221385 TAAATTATCA
13221395 TATTAA-ATAATATTTT
1 TATTAATATAATATTTT
13221411 TATTAATATAATATTT
1 TATTAATATAATATTT
13221427 ATAAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATATAATATTTT
Found at i:13221427 original size:15 final size:14
Alignment explanation
Indices: 13221395--13221451 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
13221385 TAAATTATCA
13221395 TATTAAATAATATTTT
1 TATTAAATAATA--TT
13221411 TATTAATATAATATT
1 TATTAA-ATAATATT
*
13221426 TA-TAAATATAAATT
1 TATTAAATA-ATATT
*
13221440 TAATAAATAATA
1 TATTAAATAATA
13221452 AAATATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 3 0.08
14 11 0.31
15 10 0.28
16 6 0.17
17 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTAAATAATATT
Found at i:13221432 original size:30 final size:31
Alignment explanation
Indices: 13221365--13221433 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
13221355 ACAACTTAAT
*
13221365 TATATAAAT-ATATTTTTTATTAAATTATCA
1 TATATAAATAATATTTTTTATTAAATAATCA
13221395 TAT-TAAATAATA-TTTTTATTAATATAAT-A
1 TATATAAATAATATTTTTTATTAA-ATAATCA
*
13221424 TTTATAAATA
1 TATATAAATA
13221434 TAAATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
TATATAAATAATATTTTTTATTAAATAATCA
Found at i:13230501 original size:2 final size:2
Alignment explanation
Indices: 13230489--13230522 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13230479 ATTCGAGGTT
* *
13230489 TA TA TA AA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13230523 AAAGGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13230504 original size:10 final size:10
Alignment explanation
Indices: 13230489--13230522 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
13230479 ATTCGAGGTT
13230489 TATATAAATA
1 TATATAAATA
*
13230499 TATATATATA
1 TATATAAATA
13230509 TATATAAATA
1 TATATAAATA
13230519 TATA
1 TATA
13230523 AAAGGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATAAATA
Found at i:13232667 original size:20 final size:19
Alignment explanation
Indices: 13232644--13232693 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
13232634 TTCTAATATG
13232644 TTTCTCAAATTTGTAACACA
1 TTTCTCAAATTT-TAACACA
* **
13232664 TTTCTCAAA-ATTAATGCA
1 TTTCTCAAATTTTAACACA
13232682 TTTCTCAAATTT
1 TTTCTCAAATTT
13232694 AAAAGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 9 0.36
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (19 bp):
TTTCTCAAATTTTAACACA
Found at i:13233666 original size:22 final size:22
Alignment explanation
Indices: 13233637--13233683 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13233627 AGGTAAGAGT
*
13233637 AATGAATATTTTAAA-AAAATA
1 AATGAATAATTTAAATAAAATA
*
13233658 AATGTAATAATTTAAATGAAATA
1 AATG-AATAATTTAAATAAAATA
13233681 AAT
1 AAT
13233684 TTACTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
AATGAATAATTTAAATAAAATA
Found at i:13238025 original size:14 final size:14
Alignment explanation
Indices: 13238008--13238042 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13237998 GTTATTAAAT
*
13238008 TTATTTTTATTTAA
1 TTATTTTTAATTAA
13238022 TTATTTTTAATTAA
1 TTATTTTTAATTAA
*
13238036 ATATTTT
1 TTATTTT
13238043 ATAAGCTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTTAATTAA
Found at i:13241372 original size:20 final size:20
Alignment explanation
Indices: 13241349--13241400 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
13241339 TTTCTAATGT
13241349 ATTTCTCAAATTTATAACAC
1 ATTTCTCAAATTTATAACAC
* **
13241369 ATTTCTCAAA-AT-TAATGC
1 ATTTCTCAAATTTATAACAC
13241387 ATTTCTCAAATTTA
1 ATTTCTCAAATTTA
13241401 AAAGAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 14 0.54
19 2 0.08
20 10 0.38
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTCTCAAATTTATAACAC
Found at i:13243439 original size:164 final size:163
Alignment explanation
Indices: 13243109--13243428 Score: 408
Period size: 166 Copynumber: 1.9 Consensus size: 163
13243099 AGTAAATTCC
* *
13243109 AATGATTTTGCTATATAGATTCAAAAGTAAATTTGATTAATTTAATATAAATCATAAAAGAAATT
1 AATGATTTTGCTATATAGATTCAAAAGGAAATTTGATTAATTTAACATAAATCATAAAAGAAATT
* * * ** ** *
13243174 ATATATAGTTTTAATTTAGGGTTTAATTCAGCTTGTTCATTTAACTATTATTAAGAAGTAACATT
66 ATATATAGTTTTAATTTAGGATTTAACTCAACCGGTTCATACAACCATTATTAAGAAGTAACATT
*
13243239 CAACAAGTTTATATTCAAATTTCAGACCATATAT
131 CAACAAGTTTAAATTCAAATTTCAGACCA-ATAT
* *
13243273 AATGATTTTGCTATATGGATTCAAAAGGAAATTTGATTAATTTAACATAAATCATAAAAATAAAT
1 AATGATTTTGCTATATAGATTCAAAAGGAAATTTGATTAATTTAACATAAATCAT-AAAAGAAAT
** * * *
13243338 TATATATTTTTTGTAATTTAGGATTTACCTCAACCGGTTTATACAACCATTATTAAGAGGTAACA
65 TATATATAGTTT-TAATTTAGGATTTAACTCAACCGGTTCATACAACCATTATTAAGAAGTAACA
** *
13243403 TTTGA-TAGATTTAAATTCAAATTTCA
129 TTCAACAAG-TTTAAATTCAAATTTCA
13243429 TAGCATATAA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
164 52 0.39
165 20 0.15
166 60 0.45
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (163 bp):
AATGATTTTGCTATATAGATTCAAAAGGAAATTTGATTAATTTAACATAAATCATAAAAGAAATT
ATATATAGTTTTAATTTAGGATTTAACTCAACCGGTTCATACAACCATTATTAAGAAGTAACATT
CAACAAGTTTAAATTCAAATTTCAGACCAATAT
Found at i:13243654 original size:76 final size:76
Alignment explanation
Indices: 13243502--13243657 Score: 170
Period size: 76 Copynumber: 2.1 Consensus size: 76
13243492 ACTGTAATTT
* * * * *
13243502 AAACTTAAAATTTTTTCATAAACCACGCCTAATCTTTATCATTAGAACTAAATACGAACAAGTAC
1 AAACTTAAAATTTTTACACAAACCACACCTAATCTTTATCACTAGAACTAAATACGAACAAGAAC
* * *
13243567 ATGATAGTAGG
66 ATAACAATAGG
* * * * *
13243578 AAACTTAAAATTTTTACACAAACCATATCTAATCTTTATCACTATAACTAAGA-GCGAGCAAGAA
1 AAACTTAAAATTTTTACACAAACCACACCTAATCTTTATCACTAGAACTAA-ATACGAACAAGAA
*
13243642 TATAACAATAGG
65 CATAACAATAGG
13243654 AAAC
1 AAAC
13243658 GAATGATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
76 64 0.98
77 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (76 bp):
AAACTTAAAATTTTTACACAAACCACACCTAATCTTTATCACTAGAACTAAATACGAACAAGAAC
ATAACAATAGG
Found at i:13244768 original size:35 final size:35
Alignment explanation
Indices: 13244721--13244788 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
13244711 AATTTAATAA
*
13244721 AAAATAACAAAAT-TTTTTATTAAATTTTTTAGTG
1 AAAATAAAAAAATATTTTTATTAAATTTTTTAGTG
13244755 AAAATGAAAAAAATATTTTTATTAAATTTTTTAG
1 AAAAT-AAAAAAATATTTTTATTAAATTTTTTAG
13244789 CAAATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 5 0.16
35 7 0.23
36 19 0.61
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (35 bp):
AAAATAAAAAAATATTTTTATTAAATTTTTTAGTG
Found at i:13246397 original size:14 final size:14
Alignment explanation
Indices: 13246380--13246414 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13246370 GTTATTAAAT
*
13246380 TTATTTTTATTTAA
1 TTATTTTTAATTAA
13246394 TTATTTTTAATTAA
1 TTATTTTTAATTAA
*
13246408 ATATTTT
1 TTATTTT
13246415 ATAAGCTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTTAATTAA
Found at i:13251946 original size:33 final size:33
Alignment explanation
Indices: 13251907--13251979 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
13251897 ATCAGATTCG
13251907 ATTGATCTTCATAATTCATAGAAGAGTCCAGGC
1 ATTGATCTTCATAATTCATAGAAGAGTCCAGGC
* *
13251940 ATTGATCTTCATCATTCATGGAAGAGTCCAGGC
1 ATTGATCTTCATAATTCATAGAAGAGTCCAGGC
*
13251973 ATGGATC
1 ATTGATC
13251980 CTCTTCTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (33 bp):
ATTGATCTTCATAATTCATAGAAGAGTCCAGGC
Found at i:13253768 original size:10 final size:10
Alignment explanation
Indices: 13253732--13253771 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
13253722 AATCAAAAGG
13253732 TAAAA-AAT-
1 TAAAATAATA
*
13253740 TAAAATAAAA
1 TAAAATAATA
13253750 TAAAATAATA
1 TAAAATAATA
13253760 TAAAATAATA
1 TAAAATAATA
13253770 TA
1 TA
13253772 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 5 0.18
9 2 0.07
10 21 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATAATA
Found at i:13254216 original size:18 final size:19
Alignment explanation
Indices: 13254197--13254231 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13254187 TATTAAAAAT
13254197 TTTAT-TAT-TTTATTAAA
1 TTTATATATATTTATTAAA
13254214 TTTATATATATTTATTAA
1 TTTATATATATTTATTAA
13254232 TAAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATATATATTTATTAAA
Found at i:13278217 original size:30 final size:31
Alignment explanation
Indices: 13278167--13278226 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
13278157 TAGATATAAG
13278167 ATATAAAAATTATATTATAATTTATATTAAT
1 ATATAAAAATTATATTATAATTTATATTAAT
* *
13278198 ATATCAAACTTAT-TTATAATTTATATTAA
1 ATATAAAAATTATATTATAATTTATATTAA
13278227 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATATAAAAATTATATTATAATTTATATTAAT
Found at i:13278245 original size:30 final size:30
Alignment explanation
Indices: 13278173--13278247 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
13278163 TAAGATATAA
* *
13278173 AAATTATATTATAATTTATATTAATATATC
1 AAATCATATTATAATTTATATTAAAATATC
* * *
13278203 AAA-CTTATTTATAATTTATATTAAAATTTT
1 AAATCATA-TTATAATTTATATTAAAATATC
13278233 AAATCATATTATAAT
1 AAATCATATTATAAT
13278248 CATATCATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 2 0.05
30 32 0.86
31 3 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AAATCATATTATAATTTATATTAAAATATC
Found at i:13280674 original size:27 final size:28
Alignment explanation
Indices: 13280643--13280707 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
13280633 CAACTAAAAC
13280643 TTACTTTTTTATATTTTAAAATTAT-TT
1 TTACTTTTTTATATTTTAAAATTATATT
*
13280670 TTACTTATTTATATTTTAAAATTATATT
1 TTACTTTTTTATATTTTAAAATTATATT
*
13280698 TTAATTTTTT
1 TTACTTTTTT
13280708 TACTTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.71
28 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
TTACTTTTTTATATTTTAAAATTATATT
Found at i:13280696 original size:13 final size:13
Alignment explanation
Indices: 13280651--13280701 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
13280641 ACTTACTTTT
13280651 TTATATTTTAAAA
1 TTATATTTTAAAA
* *
13280664 TTAT-TTTTACTTAT
1 TTATATTTTA--AAA
13280678 TTATATTTTAAAA
1 TTATATTTTAAAA
13280691 TTATATTTTAA
1 TTATATTTTAA
13280702 TTTTTTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 5 0.16
13 16 0.52
14 5 0.16
15 5 0.16
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATATTTTAAAA
Found at i:13289657 original size:21 final size:22
Alignment explanation
Indices: 13289618--13289661 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
13289608 TGGTCTTTTT
* *
13289618 AAATAATTTAATATTATATAAA
1 AAATAAATTAATATAATATAAA
13289640 AAATAAATT-ATATAATATAAA
1 AAATAAATTAATATAATATAAA
13289661 A
1 A
13289662 TATCCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAAATTAATATAATATAAA
Found at i:13292162 original size:216 final size:217
Alignment explanation
Indices: 13291796--13292187 Score: 705
Period size: 216 Copynumber: 1.8 Consensus size: 217
13291786 TAATTCTAAC
*
13291796 ATAAATGAACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTTCC
1 ATAAATGAACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACC
*
13291861 TGGTTTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATGTGGAA
66 TGG-TTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAA
*
13291926 AGCAAATCATAATTGATTGAAAATAAGCTGAAAGTTAAAATATAATTGTAACTGTGTATTGAAAA
130 AGCAAATCATAATCGATTGAAAATAAGCTGAAAGTTAAAATATAATTGTAACTGTGTATTGAAAA
13291991 TAAAATAAGCCGACAGTTAAAAT
195 TAAAATAAGCCGACAGTTAAAAT
* * *
13292014 ATAAATGCACAGGTATGTAGGCTATATTTTGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACT
1 ATAAATGAACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACC
13292079 TGG-TTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAA
66 TGGTTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAA
*
13292143 GCAAATCATAATCGATTGAAAATAAGCTGACAGTTAAAATATAAT
131 GCAAATCATAATCGATTGAAAATAAGCTGAAAGTTAAAATATAAT
13292188 ATTAATTCAA
Statistics
Matches: 167, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
216 103 0.62
218 64 0.38
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (217 bp):
ATAAATGAACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACC
TGGTTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAA
GCAAATCATAATCGATTGAAAATAAGCTGAAAGTTAAAATATAATTGTAACTGTGTATTGAAAAT
AAAATAAGCCGACAGTTAAAAT
Found at i:13292312 original size:186 final size:185
Alignment explanation
Indices: 13292014--13292393 Score: 609
Period size: 186 Copynumber: 2.0 Consensus size: 185
13292004 CAGTTAAAAT
*
13292014 ATAAATGCACAGGTATGTAGGCTATATTTTGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACT
1 ATAAATGCACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACT
13292079 TGGTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAAG
66 T-GTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAAG
*
13292144 CAAATCATAATCGATTGAAAATAAGCTGACAGTTAAAATATAATATTAATTCAAAC
130 CAAATCATAATCGATTGAAAATAAGCCGACAGTTAAAATATAATATTAATTCAAAC
**
13292200 ATAAATGCAACAGGTATGTAGGCTATATTTCGTGAAAGTCTTCTTTTTGTGTGTTGTATTTTTAA
1 ATAAATGC-ACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTT-A
* * * * *
13292265 CTT-TTTTTTGTTGTTCTTCACAAGTTGATATTGTAATTGTGTAAAGCAGAAGCAAATGTGGAAA
64 CTTGTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAA
* * *
13292329 TCAAATCATAATTGATTGAAAATAAGCCGACGGTTAAAATATAATATTAATTCAAAC
129 GCAAATCATAATCGATTGAAAATAAGCCGACAGTTAAAATATAATATTAATTCAAAC
*
13292386 GTAAATGC
1 ATAAATGC
13292394 TTCATGGAAA
Statistics
Matches: 179, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
186 124 0.69
187 51 0.28
188 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (185 bp):
ATAAATGCACAGGTATGTAGGCTATATTTCGCAAAAGTCTTCTTTTTGTGTGTTGTATTTTTACT
TGTTTTTTGTTATTCTTCAAAAGTTGATAGTGTAATTGTATAAAGCAGAAGCAAATCTGGAAAGC
AAATCATAATCGATTGAAAATAAGCCGACAGTTAAAATATAATATTAATTCAAAC
Found at i:13298069 original size:114 final size:116
Alignment explanation
Indices: 13297914--13298141 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 116
13297904 TCTTGTGTCG
13297914 GCTATCTGTTTGTGGACTCATTACTCATATTATACAGCACTAG-ATTATTTTTTCT-AACTTCTA
1 GCTATCTGTTTGTGGACTCATTACTCATATTATACAGCACTAGTATTATTTTTTCTAAACTTCTA
* * * *
13297977 TTAATGACTAATTGAGGGAATGTATGCAACGGTTGTGTTTACTTTTTGTAT
66 TAAATGACTAATTGAGGGAACGTATACAACGGATGTGTTTACTTTTTGTAT
* ** * * * * *
13298028 GCTATCTGTTTGTGGATTCATTACTTGTATTTTAGAGCACTAGTTTTTTTTTTTTTTTTTAAACT
1 GCTATCTGTTTGTGGACTCATTACTCATATTATACAGCACTAG----TATTATTTTTTCTAAACT
* *
13298093 TTTATAAATGACTAATTGAGGGAACGTATACAAGGGATGTGTTTACTTT
62 TCTATAAATGACTAATTGAGGGAACGTATACAACGGATGTGTTTACTTT
13298142 ATGCTTAACT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
114 38 0.40
119 9 0.10
120 47 0.50
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (116 bp):
GCTATCTGTTTGTGGACTCATTACTCATATTATACAGCACTAGTATTATTTTTTCTAAACTTCTA
TAAATGACTAATTGAGGGAACGTATACAACGGATGTGTTTACTTTTTGTAT
Found at i:13304191 original size:24 final size:24
Alignment explanation
Indices: 13304159--13304213 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13304149 TGCATAATAG
13304159 ACCATTCTAGGCTTGTATACTGGA
1 ACCATTCTAGGCTTGTATACTGGA
13304183 ACCATTCTAGGCTTGTATACTGGA
1 ACCATTCTAGGCTTGTATACTGGA
13304207 ACC-TTCT
1 ACCATTCT
13304214 TTCAGCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
ACCATTCTAGGCTTGTATACTGGA
Found at i:13305218 original size:13 final size:13
Alignment explanation
Indices: 13305200--13305241 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13305190 AATATTTTTA
13305200 TTAAATTAATATT
1 TTAAATTAATATT
* *
13305213 TTAAATTAAAATA
1 TTAAATTAATATT
13305226 TTAAA-TAATAATT
1 TTAAATTAAT-ATT
13305239 TTA
1 TTA
13305242 TTAATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTAATATT
Found at i:13305220 original size:18 final size:18
Alignment explanation
Indices: 13305184--13305222 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13305174 AATTATTTAC
*
13305184 AAATATAATATTTTTATT
1 AAATATAATATTTTAATT
13305202 AAAT-TAATATTTTAAATT
1 AAATATAATATTTT-AATT
13305220 AAA
1 AAA
13305223 ATATTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATAATATTTTAATT
Done.