Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 54 of 131
Found at i:11088320 original size:10 final size:10
Alignment explanation
Indices: 11088307--11088358 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
11088297 AAGAAAAAAG
11088307 AAAAAAATGAA
1 AAAAAAATG-A
11088318 AAAAAAATG-
1 AAAAAAATGA
11088327 AAAAAAATG-
1 AAAAAAATGA
11088336 -AAAAAATGA
1 AAAAAAATGA
*
11088345 GAAAAAATGA
1 AAAAAAATGA
11088355 AAAA
1 AAAA
11088359 TGAAAGATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
8 8 0.21
9 9 0.24
10 12 0.32
11 9 0.24
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:11088323 original size:11 final size:11
Alignment explanation
Indices: 11088307--11088341 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
11088297 AAGAAAAAAG
11088307 AAAAAAATGAA
1 AAAAAAATGAA
11088318 AAAAAAATG--
1 AAAAAAATGAA
11088327 AAAAAAATGAA
1 AAAAAAATGAA
11088338 AAAA
1 AAAA
11088342 TGAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.41
11 13 0.59
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:11088379 original size:38 final size:35
Alignment explanation
Indices: 11088299--11088386 Score: 106
Period size: 38 Copynumber: 2.4 Consensus size: 35
11088289 AAATCTTAAA
*
11088299 GAAAAAAGAAAAAAATGAAAAAAAAATGAAAAAAAT
1 GAAAAATGAAAAAAATGAAAAAAAAATG-AAAAAAT
11088335 GAAAAAATGAGAAAAAATGAAAAATGAAAGATG-AAAAAT
1 G-AAAAATGA-AAAAAATGAAAAA--AAA-ATGAAAAAAT
11088374 GAAAAATGAAAAA
1 GAAAAATGAAAAA
11088387 TGTGGAAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
36 1 0.02
37 11 0.24
38 21 0.46
39 7 0.15
40 3 0.07
41 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (35 bp):
GAAAAATGAAAAAAATGAAAAAAAAATGAAAAAAT
Found at i:11088402 original size:7 final size:7
Alignment explanation
Indices: 11088309--11088388 Score: 76
Period size: 7 Copynumber: 11.0 Consensus size: 7
11088299 GAAAAAAGAA
11088309 AAAAATG
1 AAAAATG
11088316 -AAAA--
1 AAAAATG
11088320 AAAAATG
1 AAAAATG
11088327 AAAAAAATG
1 --AAAAATG
11088336 AAAAAATGAG
1 -AAAAAT--G
11088346 AAAAAATG
1 -AAAAATG
11088354 AAAAATG
1 AAAAATG
*
11088361 AAAGATG
1 AAAAATG
11088368 AAAAATG
1 AAAAATG
11088375 AAAAATG
1 AAAAATG
11088382 AAAAATG
1 AAAAATG
11088389 TGGAAAGGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
5 4 0.06
6 4 0.06
7 33 0.52
8 8 0.12
9 7 0.11
10 8 0.12
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:11090110 original size:13 final size:13
Alignment explanation
Indices: 11090092--11090119 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11090082 TCTAAGATCT
11090092 TTGAATGTGAATC
1 TTGAATGTGAATC
11090105 TTGAATGTGAATC
1 TTGAATGTGAATC
11090118 TT
1 TT
11090120 TAAGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (13 bp):
TTGAATGTGAATC
Found at i:11090117 original size:36 final size:36
Alignment explanation
Indices: 11090056--11090182 Score: 127
Period size: 36 Copynumber: 3.5 Consensus size: 36
11090046 CTTTGGACTT
* **
11090056 TTTGACTGTG-ATCTTGAATACGAATCTCTAAGATC
1 TTTGAATGTGAATCTTGAATGTGAATCTCTAAGATC
* *
11090091 TTTGAATGTGAATCTTGAATGTGAATCTTTAAGATT
1 TTTGAATGTGAATCTTGAATGTGAATCTCTAAGATC
* *
11090127 TTTGAATATGAATCTTGAA-GATGAA-CTTCTATGAATC
1 TTTGAATGTGAATCTTGAATG-TGAATC-TCTAAG-ATC
11090164 TTT-AGATGTGAATCTTGAA
1 TTTGA-ATGTGAATCTTGAA
11090183 AAATTTTTGA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
35 11 0.14
36 48 0.62
37 18 0.23
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (36 bp):
TTTGAATGTGAATCTTGAATGTGAATCTCTAAGATC
Found at i:11090138 original size:23 final size:23
Alignment explanation
Indices: 11090105--11090148 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11090095 AATGTGAATC
* *
11090105 TTGAATGTGAATCTTTAAGATTT
1 TTGAATATGAATCTTGAAGATTT
11090128 TTGAATATGAATCTTGAAGAT
1 TTGAATATGAATCTTGAAGAT
11090149 GAACTTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (23 bp):
TTGAATATGAATCTTGAAGATTT
Found at i:11090251 original size:18 final size:19
Alignment explanation
Indices: 11090219--11090259 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11090209 ATGGGTTTTA
* *
11090219 GAATTATTGAGACCTTTGC
1 GAATTATTGAAACCTTGGC
11090238 GAATT-TTGAAACCTTGGC
1 GAATTATTGAAACCTTGGC
11090256 GAAT
1 GAAT
11090260 CTTAGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (19 bp):
GAATTATTGAAACCTTGGC
Found at i:11090370 original size:22 final size:22
Alignment explanation
Indices: 11090344--11090388 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11090334 TTCATTGCCT
11090344 TGCATTACATTCACTACATTCA
1 TGCATTACATTCACTACATTCA
* * *
11090366 TGCATTGCATTCATTGCATTCA
1 TGCATTACATTCACTACATTCA
11090388 T
1 T
11090389 TTTACGTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (22 bp):
TGCATTACATTCACTACATTCA
Found at i:11091115 original size:32 final size:32
Alignment explanation
Indices: 11091054--11091115 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
11091044 AAATTTAACA
* *
11091054 TAATGGAGATTACTCAAAGGAACTGTTAGTAC
1 TAATGGAGATTACTCAAAAGAACGGTTAGTAC
11091086 TAATGGAGATTACTCAAAAGAA-GGCTTAGT
1 TAATGGAGATTACTCAAAAGAACGG-TTAGT
11091116 TATTGTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (32 bp):
TAATGGAGATTACTCAAAAGAACGGTTAGTAC
Found at i:11092018 original size:43 final size:44
Alignment explanation
Indices: 11091953--11092044 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
11091943 AATATTCAAT
* * *
11091953 ACCTCCGAGCATGATTTATAAGATCTTTTAGCATAATCTCCAA-
1 ACCTCCGAGCATAATTTATAAGACCTTTGAGCATAATCTCCAAG
* * *
11091996 ACCTCCTAGCATAATTTGTAAGACCTTTGGGCATAATCTCCAAG
1 ACCTCCGAGCATAATTTATAAGACCTTTGAGCATAATCTCCAAG
11092040 ACCTC
1 ACCTC
11092045 AAGGTGTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 37 0.88
44 5 0.12
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (44 bp):
ACCTCCGAGCATAATTTATAAGACCTTTGAGCATAATCTCCAAG
Found at i:11092138 original size:43 final size:43
Alignment explanation
Indices: 11092075--11092255 Score: 206
Period size: 43 Copynumber: 4.2 Consensus size: 43
11092065 TCTGGTACCT
* *
11092075 TTTTATTTTTCAAAATTTTCAAAGCCTCAATTATAGGAGAGCA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTAGGAGAGCA
* * *
11092118 TTTTAATTTTT-AAAAGTTTCAAAGCCTTAGTTGTAGCG-GAGGA
1 TTTT-ATTTTTCAAAAGTTTCAAAGCCTCAATTGTAG-GAGAGCA
* * *
11092161 TTTTATTTTCCAAAAGTTTCAAATCCTCGATTGT-GGAGAAGCA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTAGGAG-AGCA
* * * *
11092204 TTTTATTTTTCAAAAGTTTCAATGCCTCAGTTGTAGGGGAGGA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTAGGAGAGCA
11092247 TTTTATTTT
1 TTTTATTTT
11092256 GAAACTTATG
Statistics
Matches: 114, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 7 0.06
43 96 0.84
44 10 0.09
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (43 bp):
TTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTAGGAGAGCA
Found at i:11092204 original size:86 final size:86
Alignment explanation
Indices: 11092075--11092255 Score: 258
Period size: 86 Copynumber: 2.1 Consensus size: 86
11092065 TCTGGTACCT
* *
11092075 TTTTATTTTTCAAAATTTTCAAAGCCTCAATTATAGGAGAGCATTTTAATTTTT-AAAAGTTTCA
1 TTTTATTTTCCAAAAGTTTCAAAGCCTCAATTATAGGAGAGCATTTT-ATTTTTCAAAAGTTTCA
*
11092139 AAGCCTTAGTTGTAGCGGAGGA
65 AAGCCTCAGTTGTAGCGGAGGA
* * *
11092161 TTTTATTTTCCAAAAGTTTCAAATCCTCGATTGT-GGAGAAGCATTTTATTTTTCAAAAGTTTCA
1 TTTTATTTTCCAAAAGTTTCAAAGCCTCAATTATAGGAG-AGCATTTTATTTTTCAAAAGTTTCA
* *
11092225 ATGCCTCAGTTGTAGGGGAGGA
65 AAGCCTCAGTTGTAGCGGAGGA
11092247 TTTTATTTT
1 TTTTATTTT
11092256 GAAACTTATG
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
85 10 0.12
86 75 0.88
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (86 bp):
TTTTATTTTCCAAAAGTTTCAAAGCCTCAATTATAGGAGAGCATTTTATTTTTCAAAAGTTTCAA
AGCCTCAGTTGTAGCGGAGGA
Found at i:11092329 original size:37 final size:37
Alignment explanation
Indices: 11092285--11092406 Score: 140
Period size: 37 Copynumber: 3.3 Consensus size: 37
11092275 CGGGGGGAGC
* *
11092285 ACTTTATTTTTCAAAGTTGCAGCTTCAGTAA-ATGAGT
1 ACTTTATTTTTCAAAGTTGAAGCCTCAG-AAGATGAGT
*
11092322 ACTTTATTTTTCAAAGTTAAAGCCTCAGAAGATGAGT
1 ACTTTATTTTTCAAAGTTGAAGCCTCAGAAGATGAGT
* * * * *
11092359 ACTCTATTTTTCAAAGTTGAAGTCTTA-ATAGAGGAAT
1 ACTTTATTTTTCAAAGTTGAAGCCTCAGA-AGATGAGT
11092396 ACTTTATTTTT
1 ACTTTATTTTT
11092407 TAAAAAAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.04
37 70 0.96
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (37 bp):
ACTTTATTTTTCAAAGTTGAAGCCTCAGAAGATGAGT
Found at i:11092708 original size:6 final size:6
Alignment explanation
Indices: 11092697--11092721 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11092687 CCCAAAAATC
11092697 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
11092722 GATTTTACTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:11093358 original size:20 final size:20
Alignment explanation
Indices: 11093333--11093380 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
11093323 TGTTGCATGA
11093333 ATTTGCATGACTAATATTAT
1 ATTTGCATGACTAATATTAT
*
11093353 ATTTGCATGATTAATATTAT
1 ATTTGCATGACTAATATTAT
11093373 ATTTGCAT
1 ATTTGCAT
11093381 AATAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.48
Consensus pattern (20 bp):
ATTTGCATGACTAATATTAT
Found at i:11093405 original size:19 final size:19
Alignment explanation
Indices: 11093383--11093457 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
11093373 ATTTGCATAA
* *
11093383 TAATTTATTTGCACGATTT
1 TAATTTAATTGCATGATTT
**
11093402 TAATTTGCTTGCATGA-TT
1 TAATTTAATTGCATGATTT
11093420 T-ATTTAATTGCATGATTTAT
1 TAATTTAATTGCATGA-TT-T
*
11093440 TAATTTGATTGCATGATT
1 TAATTTAATTGCATGATT
11093458 ATTGATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 12 0.26
18 3 0.07
19 14 0.30
20 4 0.09
21 13 0.28
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (19 bp):
TAATTTAATTGCATGATTT
Found at i:11093444 original size:16 final size:17
Alignment explanation
Indices: 11093410--11093444 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11093400 TTTAATTTGC
11093410 TTGCATGATTTATTTAA
1 TTGCATGATTTATTTAA
11093427 TTGCATGATTTA-TTAA
1 TTGCATGATTTATTTAA
11093443 TT
1 TT
11093445 TGATTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (17 bp):
TTGCATGATTTATTTAA
Found at i:11093458 original size:17 final size:17
Alignment explanation
Indices: 11093401--11093458 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
11093391 TTGCACGATT
*
11093401 TTAATTTGCTTGCATGA
1 TTAATTTGATTGCATGA
* *
11093418 TTTATTTAATTGCATGATTTA
1 TTAATTTGATTGCATG----A
11093439 TTAATTTGATTGCATGA
1 TTAATTTGATTGCATGA
11093456 TTA
1 TTA
11093459 TTGATATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (17 bp):
TTAATTTGATTGCATGA
Found at i:11093495 original size:25 final size:24
Alignment explanation
Indices: 11093455--11093734 Score: 138
Period size: 24 Copynumber: 11.8 Consensus size: 24
11093445 TGATTGCATG
*
11093455 ATTATTGATATATTTATTTGTATC
1 ATTATTAATATATTTATTTGTATC
* *
11093479 ATTACCTAATATATTTATGTGTGATTAC
1 ATTA-TTAATATATTTATTTGT-A-T-C
11093507 ATGTTATTAATATATTTA-TT-TA-C
1 A--TTATTAATATATTTATTTGTATC
* * *
11093530 ATGATTAATATATTTATTTGTGTG
1 ATTATTAATATATTTATTTGTATC
* * *
11093554 ATTTATTAATATATTTAATTGCATG
1 A-TTATTAATATATTTATTTGTATC
* *
11093579 GTTATTAATATATTTATTTGTATG
1 ATTATTAATATATTTATTTGTATC
* * *
11093603 ATTA-T-ATTTAATTTGA-TTGCATG
1 ATTATTAATAT-ATTT-ATTTGTATC
* ** *
11093626 ACTATTAATATATTTAATTACT-TG
1 ATTATTAATATATTT-ATTTGTATC
11093650 ATTATTAATATATTTATTT-T-T-
1 ATTATTAATATATTTATTTGTATC
* * *
11093671 ATGATT-ATAT-TTTA-TTGCATG
1 ATTATTAATATATTTATTTGTATC
* * *
11093692 TTTATTAATATATTTAGTTGCA-C
1 ATTATTAATATATTTATTTGTATC
*
11093715 AATTATTAATACATTTATTT
1 -ATTATTAATATATTTATTT
11093735 ATGTGATTAT
Statistics
Matches: 200, Mismatches: 34, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.01
19 4 0.02
20 5 0.03
21 23 0.12
22 11 0.05
23 24 0.12
24 73 0.37
25 37 0.19
26 2 0.01
27 2 0.01
28 3 0.01
29 11 0.05
30 3 0.01
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTATTAATATATTTATTTGTATC
Found at i:11093548 original size:54 final size:53
Alignment explanation
Indices: 11093445--11093556 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 53
11093435 TTTATTAATT
* * ** *
11093445 TGATTGCATGATTATTGATATATTTATTTGTATCATTACCTAATATATTTATGTG
1 TGATTACATGATTATTAATATATTTATTTACATCATTACATAATATA-TT-TGTG
* *
11093500 TGATTACATG-TTATTAATATATTTATTTACATGATTA-ATATATTTATTTGTG
1 TGATTACATGATTATTAATATATTTATTTACATCATTACATA-ATATATTTGTG
11093552 TGATT
1 TGATT
11093557 TATTAATATA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
52 9 0.18
53 4 0.08
54 27 0.55
55 9 0.18
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (53 bp):
TGATTACATGATTATTAATATATTTATTTACATCATTACATAATATATTTGTG
Found at i:11093640 original size:47 final size:48
Alignment explanation
Indices: 11093533--11093641 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 48
11093523 TATTTACATG
* **
11093533 ATTAATATATTTATTTGTGTGATTTATTAATATATTTAATTGCATGGTT
1 ATTAATATATTTATTTGTATGATTTATT-ATATATTTAATTGCATGACT
*
11093582 ATTAATATATTTATTTGTATGATTATATT-TA-ATTTGATTGCATGACT
1 ATTAATATATTTATTTGTATGATT-TATTATATATTTAATTGCATGACT
11093629 ATTAATATATTTA
1 ATTAATATATTTA
11093642 ATTACTTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
47 26 0.47
48 2 0.04
49 23 0.42
50 4 0.07
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (48 bp):
ATTAATATATTTATTTGTATGATTTATTATATATTTAATTGCATGACT
Found at i:11093724 original size:66 final size:67
Alignment explanation
Indices: 11093506--11093756 Score: 274
Period size: 66 Copynumber: 3.7 Consensus size: 67
11093496 TGTGTGATTA
* **
11093506 CATG-TTATTAATATATTTATTTACATGATTAATATATTTATTTGTGTGATTTATTAATATATTT
1 CATGATTATTAATATATTTATTTATATGATT-ATATATTTA-TTGCATG-TTTATTAATATATTT
11093570 AATTG
63 AATTG
* * **
11093575 CATGGTTATTAATATATTTATTTGTATGATTATATTTAATTTGATTGCATGACTATTAATATATT
1 CATGATTATTAATATATTTATTTATATGATTATA--T-ATTT-ATTGCATGTTTATTAATATATT
*
11093640 TAATTA
62 TAATTG
* * *
11093646 CTTGATTATTAATATATTTATTTTTATGATTATAT-TTTATTGCATGTTTATTAATATATTTAGT
1 CATGATTATTAATATATTTATTTATATGATTATATATTTATTGCATGTTTATTAATATATTTAAT
11093710 TG
66 TG
** * * *
11093712 CACAATTATTAATACATTTATTTATGTGATTATAT-TTGATTGCAT
1 CATGATTATTAATATATTTATTTATATGATTATATATTTATTGCAT
11093757 AAATATATAT
Statistics
Matches: 156, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
66 62 0.40
67 3 0.02
69 8 0.05
70 24 0.15
71 49 0.31
72 9 0.06
73 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.54
Consensus pattern (67 bp):
CATGATTATTAATATATTTATTTATATGATTATATATTTATTGCATGTTTATTAATATATTTAAT
TG
Found at i:11093875 original size:22 final size:23
Alignment explanation
Indices: 11093850--11093899 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
11093840 CAATTTATTA
*
11093850 CATGACATGATTTTAT-TTACTG
1 CATGACATAATTTTATATTACTG
* *
11093872 CATGATATAATTTTATATTATTG
1 CATGACATAATTTTATATTACTG
11093895 CATGA
1 CATGA
11093900 TTTATTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (23 bp):
CATGACATAATTTTATATTACTG
Found at i:11093903 original size:35 final size:36
Alignment explanation
Indices: 11093864--11093937 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
11093854 ACATGATTTT
*
11093864 ATTTACTGCAT-GATATAATTTTATA-TTATTGCATG
1 ATTTACTGCATAG-TATAATTTAATATTTATTGCATG
* * *
11093899 ATTTATTGCATAGTATGATTTAATATTTATTGTATG
1 ATTTACTGCATAGTATAATTTAATATTTATTGCATG
11093935 ATT
1 ATT
11093938 ACTTGGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 20 0.61
36 13 0.39
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.51
Consensus pattern (36 bp):
ATTTACTGCATAGTATAATTTAATATTTATTGCATG
Found at i:11095626 original size:21 final size:21
Alignment explanation
Indices: 11095584--11095628 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11095574 ACAGGACAAG
* *
11095584 ATCGATCCCTTGCTTGATAGA
1 ATCGATCCCTTGCTTCAGAGA
11095605 ATCGATCCCTT-CTTACAGAGA
1 ATCGATCCCTTGCTT-CAGAGA
11095626 ATC
1 ATC
11095629 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (21 bp):
ATCGATCCCTTGCTTCAGAGA
Found at i:11096332 original size:16 final size:16
Alignment explanation
Indices: 11096311--11096341 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11096301 TAACCTTGAT
11096311 AAGATAAAGATTGTAC
1 AAGATAAAGATTGTAC
*
11096327 AAGATAAGGATTGTA
1 AAGATAAAGATTGTA
11096342 TATTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.23, T:0.26
Consensus pattern (16 bp):
AAGATAAAGATTGTAC
Found at i:11106056 original size:81 final size:81
Alignment explanation
Indices: 11105889--11106042 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
11105879 TTTGTCTTAT
* *
11105889 CTAAACCCCCAATTTTAAACCCTAAATTAATTACCTTAAAACAAAACCCCCCAATTGATTGCACT
1 CTAAACCCCCAATTTTAAACCCTAAATAAATTACCTTAAAACAAAACCCCCCAATTGATTACACT
11105954 TTCTGAATTGAAAATC
66 TTCTGAATTGAAAATC
* * *
11105970 CTAAACCCCTAATTTTAAACCCTAAATAAATTACCTTAAATACAAAA-CCCCCTATTGATTACGC
1 CTAAACCCCCAATTTTAAACCCTAAATAAATTACCTTAAA-ACAAAACCCCCCAATTGATTACAC
*
11106034 TTTTTGAAT
65 TTTCTGAAT
11106043 CAATTGCCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 60 0.91
82 6 0.09
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (81 bp):
CTAAACCCCCAATTTTAAACCCTAAATAAATTACCTTAAAACAAAACCCCCCAATTGATTACACT
TTCTGAATTGAAAATC
Found at i:11107062 original size:17 final size:16
Alignment explanation
Indices: 11107018--11107066 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
11107008 ATTACTTTGA
* *
11107018 TAAGATTAATAGTTTT
1 TAAGATGAATATTTTT
11107034 TAATGCATGAATATTTATT
1 TAA-G-ATGAATATTT-TT
11107053 TAAGATGAATATTT
1 TAAGATGAATATTT
11107067 GAACATGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 9 0.32
19 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (16 bp):
TAAGATGAATATTTTT
Found at i:11115589 original size:26 final size:28
Alignment explanation
Indices: 11115536--11115589 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
11115526 TTAGTAAACA
11115536 AAGTTAGAATTAAAACTTTGATAAAGTT
1 AAGTTAGAATTAAAACTTTGATAAAGTT
11115564 AAGTTAGAATT-AAAC-TTGATAAAGTT
1 AAGTTAGAATTAAAACTTTGATAAAGTT
11115590 TTGTAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 11 0.42
27 4 0.15
28 11 0.42
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (28 bp):
AAGTTAGAATTAAAACTTTGATAAAGTT
Found at i:11116370 original size:13 final size:13
Alignment explanation
Indices: 11116352--11116376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11116342 CTACTAAATC
11116352 TTTAGAAATTTAT
1 TTTAGAAATTTAT
11116365 TTTAGAAATTTA
1 TTTAGAAATTTA
11116377 GTCATTTTGA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTTAGAAATTTAT
Found at i:11124259 original size:1 final size:1
Alignment explanation
Indices: 11124255--11124279 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11124245 AGAGAGCATG
11124255 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11124280 GAAAGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11127171 original size:39 final size:39
Alignment explanation
Indices: 11127117--11127193 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
11127107 TTTGGGCTTT
* **
11127117 GAGGATCTGGTTGGATTTTTTGGATTTGAAAAGGAGTTG
1 GAGGATCTGGTTGGATGTTTTGGACATGAAAAGGAGTTG
*
11127156 GAGGATTTGGTTGGATGTTTTGGACATGAAAAGGAGTT
1 GAGGATCTGGTTGGATGTTTTGGACATGAAAAGGAGTT
11127194 TGAGAAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.03, G:0.36, T:0.36
Consensus pattern (39 bp):
GAGGATCTGGTTGGATGTTTTGGACATGAAAAGGAGTTG
Found at i:11129959 original size:3 final size:3
Alignment explanation
Indices: 11129951--11129993 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
11129941 ACAATTAATT
11129951 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11129994 CAATGCAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11131433 original size:71 final size:69
Alignment explanation
Indices: 11131306--11131450 Score: 236
Period size: 71 Copynumber: 2.1 Consensus size: 69
11131296 CGTGGGGCAG
* *
11131306 CACATGACTAATGACTTCATTTGGATTGCCATGGATGTCATGTCTACATCCAGTGCATTTGTTTC
1 CACATGACTAACGACTCCATTTGGATTGCCATGGATGTCATGTCTACATCCAGTGCATTTGTTTC
11131371 ATTC
66 ATTC
* *
11131375 CACATGACTAACGGCTCCATTTGGATTGCCACGTGGATGTCCTGTCTACATCCAGTGCATTTGTT
1 CACATGACTAACGACTCCATTTGGATTGCCA--TGGATGTCATGTCTACATCCAGTGCATTTGTT
11131440 TCATTC
64 TCATTC
11131446 CACAT
1 CACAT
11131451 TACAAGTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 28 0.40
71 42 0.60
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (69 bp):
CACATGACTAACGACTCCATTTGGATTGCCATGGATGTCATGTCTACATCCAGTGCATTTGTTTC
ATTC
Found at i:11137723 original size:17 final size:18
Alignment explanation
Indices: 11137696--11137729 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11137686 TAAAAATTCA
11137696 ATAATTTTTTATTTTTTT
1 ATAATTTTTTATTTTTTT
11137714 ATAA-TTTTTATTTTTT
1 ATAATTTTTTATTTTTT
11137730 CAATACCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATAATTTTTTATTTTTTT
Found at i:11137808 original size:20 final size:20
Alignment explanation
Indices: 11137771--11137810 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11137761 AAAGAAAGTT
*
11137771 AAAAAATATTTATTTTTATA
1 AAAAAATATTTATATTTATA
11137791 AAAAAAT-TATTATATTTATA
1 AAAAAATAT-TTATATTTATA
11137811 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATATTTATATTTATA
Found at i:11139627 original size:63 final size:63
Alignment explanation
Indices: 11139560--11139704 Score: 188
Period size: 63 Copynumber: 2.3 Consensus size: 63
11139550 AGACGACTTC
* * *
11139560 AATAATTTTTTTATATTTTTATAGA-AGTATTATTTAAGATA-TTTTTTGTATA-AAAACATCTT
1 AATAATTTTTTTATATTTTTATAAATAG-ATTATTTAA-A-ACGTTTTTGTACAGAAAACATCTT
11139622 A
63 A
*
11139623 AATAATTTTTTTATATTTTTATAAATAGATTATTTAAAACGTTTTTGTACAGAAAATATCTTA
1 AATAATTTTTTTATATTTTTATAAATAGATTATTTAAAACGTTTTTGTACAGAAAACATCTTA
* *
11139686 AATAATATTTTCATATTTT
1 AATAATTTTTTTATATTTT
11139705 AGGGTTTAGG
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
61 1 0.01
62 10 0.14
63 60 0.82
64 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (63 bp):
AATAATTTTTTTATATTTTTATAAATAGATTATTTAAAACGTTTTTGTACAGAAAACATCTTA
Found at i:11140364 original size:14 final size:14
Alignment explanation
Indices: 11140357--11140391 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11140347 AATTAAAATT
11140357 TTTAAATTAATAAA
1 TTTAAATTAATAAA
*
11140371 TTTAAATTAATTAA
1 TTTAAATTAATAAA
*
11140385 TTAAAAT
1 TTTAAAT
11140392 AAAATAATAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAATTAATAAA
Found at i:11140367 original size:18 final size:16
Alignment explanation
Indices: 11140344--11140384 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
11140334 GTTAAATTTG
11140344 ATTAATTAAAATTTTTAA
1 ATTAATTAAAA--TTTAA
11140362 ATTAA-T-AAATTTAA
1 ATTAATTAAAATTTAA
11140376 ATTAATTAA
1 ATTAATTAA
11140385 TTAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 4 0.19
17 1 0.05
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAATTAAAATTTAA
Found at i:11144947 original size:83 final size:84
Alignment explanation
Indices: 11144848--11145004 Score: 244
Period size: 83 Copynumber: 1.9 Consensus size: 84
11144838 TTTAAAAATA
** *
11144848 ATTATTTAAGATGTTTTGGTACAAAAAACGTCTTAAATAA-TCTTTTATAAAAATATTAACCTTA
1 ATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAATTCTCTTATAAAAATATTAACCTTA
11144912 AACCCTAAAATATAAAAAG
66 AACCCTAAAATATAAAAAG
* * * *
11144931 ATTATTTAAGATGTTTTTGTATAAAAAATACCTTAAATAATTCTCTTATAAAAATATTGACCTTA
1 ATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAATTCTCTTATAAAAATATTAACCTTA
11144996 AACCCTAAA
66 AACCCTAAA
11145005 TCTTAAAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
83 35 0.53
84 31 0.47
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.37
Consensus pattern (84 bp):
ATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAATTCTCTTATAAAAATATTAACCTTA
AACCCTAAAATATAAAAAG
Found at i:11145012 original size:84 final size:84
Alignment explanation
Indices: 11144838--11145012 Score: 237
Period size: 84 Copynumber: 2.1 Consensus size: 84
11144828 ATCTTTTAAT
** *
11144838 TTTAAAAATAATTATTTAAGATGTTTTGGTACAAAAAACGTCTTAAATAATCTTTTATAAAAATA
1 TTTAAAAATAATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAATCTCTTATAAAAATA
11144903 TTAACCTTAAACCCTAAAA
66 TTAACCTTAAACCCTAAAA
* * * * *
11144922 TATAAAAA-GATTATTTAAGATGTTTTTGTATAAAAAATACCTTAAATAATTCTCTTATAAAAAT
1 TTTAAAAATAATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAA-TCTCTTATAAAAAT
*
11144986 ATTGACCTTAAACCCT-AAA
65 ATTAACCTTAAACCCTAAAA
11145005 TCTTAAAA
1 T-TTAAAA
11145013 TACAAACGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 39 0.49
84 40 0.51
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (84 bp):
TTTAAAAATAATTATTTAAGATGTTTTGGTACAAAAAACACCTTAAATAATCTCTTATAAAAATA
TTAACCTTAAACCCTAAAA
Found at i:11145089 original size:34 final size:35
Alignment explanation
Indices: 11145022--11145091 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
11145012 ATACAAACGG
11145022 ATTATTTAAGGTATTTTTATACAGAAAATACCTTA
1 ATTATTTAAGGTATTTTTATACAGAAAATACCTTA
* **
11145057 ATTATTTAAGGTATTTTTGTGTA-AAAATACCTTA
1 ATTATTTAAGGTATTTTTATACAGAAAATACCTTA
11145091 A
1 A
11145092 ATAATCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (35 bp):
ATTATTTAAGGTATTTTTATACAGAAAATACCTTA
Found at i:11145698 original size:28 final size:28
Alignment explanation
Indices: 11145667--11145757 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 28
11145657 AAAAAATGCA
*
11145667 TTAAATAATCCTTTTATAAAAAGATTA-C
1 TTAAATAATCATTTTATAAAAA-ATTACC
* * * *
11145695 TTAATTTAT-TTTTTGTATAAAAA-TACC
1 TTAAATAATCATTTTATA-AAAAATTACC
11145722 TTAAATAATCATTTTATAAAAATATTAACC
1 TTAAATAATCATTTTATAAAAA-ATT-ACC
*
11145752 CTAAAT
1 TTAAAT
11145758 CCTAAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.04
27 19 0.40
28 18 0.38
29 1 0.02
30 8 0.17
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAAATAATCATTTTATAAAAAATTACC
Found at i:11145743 original size:27 final size:27
Alignment explanation
Indices: 11145657--11145743 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
11145647 ATTTTTGTGC
* * *
11145657 AAAAAATGCATTAAATAATCCTTTTAT
1 AAAAAATACCTTAAATAATCATTTTAT
* * * *
11145684 AAAAAGATTA-CTTAATTTAT-TTTTTGT
1 AAAAA-A-TACCTTAAATAATCATTTTAT
11145711 ATAAAAATACCTTAAATAATCATTTTAT
1 A-AAAAATACCTTAAATAATCATTTTAT
11145739 AAAAA
1 AAAAA
11145744 TATTAACCCT
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
26 2 0.04
27 24 0.53
28 18 0.40
29 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (27 bp):
AAAAAATACCTTAAATAATCATTTTAT
Found at i:11145798 original size:17 final size:18
Alignment explanation
Indices: 11145776--11145811 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11145766 ATAAAAGGAT
11145776 TATTTAAGG-GGTTTCTA
1 TATTTAAGGTGGTTTCTA
*
11145793 TATTTAAGGTGTTTTCTA
1 TATTTAAGGTGGTTTCTA
11145811 T
1 T
11145812 GTAGAAACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (18 bp):
TATTTAAGGTGGTTTCTA
Found at i:11148923 original size:22 final size:22
Alignment explanation
Indices: 11148891--11148940 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
11148881 AAATTTACAT
*
11148891 AAACTTTAAAAGTTTCTTGAAG
1 AAACTTAAAAAGTTTCTTGAAG
11148913 AAACTTAAAAAGTTTCTTGAAG
1 AAACTTAAAAAGTTTCTTGAAG
11148935 AAACTT
1 AAACTT
11148941 TTAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (22 bp):
AAACTTAAAAAGTTTCTTGAAG
Found at i:11149309 original size:10 final size:9
Alignment explanation
Indices: 11149297--11149334 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
11149287 ATGATTATTC
11149297 ATATTTTTT
1 ATATTTTTT
11149306 CATATTTTTT
1 -ATATTTTTT
*
11149316 TTATTTTTT
1 ATATTTTTT
11149325 -TATTTTTT
1 ATATTTTTT
11149333 AT
1 AT
11149335 TTATTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
ATATTTTTT
Found at i:11149322 original size:19 final size:19
Alignment explanation
Indices: 11149298--11149349 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
11149288 TGATTATTCA
11149298 TATTTTTTCATATTTTT-TT
1 TATTTTTTCAT-TTTTTATT
*
11149317 TATTTTTTTATTTTTTATT
1 TATTTTTTCATTTTTTATT
*
11149336 TATTTTTTCCTTTT
1 TATTTTTTCATTTT
11149350 GCAAGATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (19 bp):
TATTTTTTCATTTTTTATT
Found at i:11149332 original size:15 final size:16
Alignment explanation
Indices: 11149312--11149341 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11149302 TTTTCATATT
11149312 TTTTTTATTT-TTTTA
1 TTTTTTATTTATTTTA
11149327 TTTTTTATTTATTTT
1 TTTTTTATTTATTTT
11149342 TTCCTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATTTATTTTA
Found at i:11153477 original size:18 final size:17
Alignment explanation
Indices: 11153447--11153482 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
11153437 CATGTTAACA
11153447 TAAAAAAAAAAAAAATT
1 TAAAAAAAAAAAAAATT
*
11153464 TAAAAAATATAAAAAATT
1 TAAAAAA-AAAAAAAATT
11153482 T
1 T
11153483 GTACCTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAAAAAAAAAAAATT
Found at i:11154456 original size:17 final size:17
Alignment explanation
Indices: 11154421--11154454 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11154411 TTTAAAATTA
11154421 TAAATAATATATATTTT
1 TAAATAATATATATTTT
*
11154438 TAAATAAT-TGTATTTT
1 TAAATAATATATATTTT
11154454 T
1 T
11154455 TATTTGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TAAATAATATATATTTT
Found at i:11164700 original size:25 final size:25
Alignment explanation
Indices: 11164663--11164719 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
11164653 AACCTATATA
11164663 TATATATATATAAACACAAGTATAAG
1 TATA-ATATATAAACACAAGTATAAG
11164689 TATAATATATAAACACAAGTATAAG
1 TATAATATATAAACACAAGTATAAG
11164714 TATAAT
1 TATAAT
11164720 TGTACTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (25 bp):
TATAATATATAAACACAAGTATAAG
Found at i:11165275 original size:101 final size:102
Alignment explanation
Indices: 11165094--11165297 Score: 329
Period size: 101 Copynumber: 2.0 Consensus size: 102
11165084 CCACTTTATC
* *
11165094 TCTCTTTAGTGCAATTATCAAGAACTAGATCTAGTGCTCAAAGTAAAATATCTTGCAATCACAAG
1 TCTCTTTAATGCAATTATCAAGAACTAGATCTAGTGCTCAAAGGAAAATATCTTGCAATCACAAG
*
11165159 ACTTCATTTAAAATA-TTTTTAAATACCTACTTATAG
66 ACTTCATTCAAAATATTTTTTAAATACCTACTTATAG
* * *
11165195 TCTCTTTAATGCAATTATCGAGAACTGGATCTAGTGCTCAAAGGAAAATATCTTGTAATCACAAG
1 TCTCTTTAATGCAATTATCAAGAACTAGATCTAGTGCTCAAAGGAAAATATCTTGCAATCACAAG
* *
11165260 ACTTCATTCACAATATTTTTTAAATACCTATTTATAG
66 ACTTCATTCAAAATATTTTTTAAATACCTACTTATAG
11165297 T
1 T
11165298 TTCACATGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 73 0.78
102 21 0.22
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (102 bp):
TCTCTTTAATGCAATTATCAAGAACTAGATCTAGTGCTCAAAGGAAAATATCTTGCAATCACAAG
ACTTCATTCAAAATATTTTTTAAATACCTACTTATAG
Found at i:11171089 original size:4 final size:4
Alignment explanation
Indices: 11171074--11171155 Score: 60
Period size: 4 Copynumber: 20.0 Consensus size: 4
11171064 TATACATATA
* * * *
11171074 TATT TATCT TATT TATT TATG AATT TATT TATT TCTT TACTT TATC TATT
1 TATT TAT-T TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT
* *
11171124 T-TAG TATT TTTT TA-T TATT TATTT TATT TATT
1 TAT-T TATT TATT TATT TATT TA-TT TATT TATT
11171156 ATCTTTATTG
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
3 4 0.07
4 43 0.72
5 13 0.22
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:11171142 original size:11 final size:12
Alignment explanation
Indices: 11171115--11171164 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11171105 TTTCTTTACT
*
11171115 TTATCTATTTTA
1 TTATTTATTTTA
*
11171127 GTATTT-TTTTA
1 TTATTTATTTTA
11171138 TTATTTATTTTA
1 TTATTTATTTTA
11171150 TT-TATTATCTTTA
1 TTAT-TTAT-TTTA
11171163 TT
1 TT
11171165 GTTGATTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 11 0.34
12 15 0.47
13 6 0.19
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:11171162 original size:13 final size:13
Alignment explanation
Indices: 11171097--11171198 Score: 56
Period size: 13 Copynumber: 7.8 Consensus size: 13
11171087 TATTTATGAA
11171097 TTTATTTATT-TC
1 TTTATTTATTATC
11171109 TTTACTTTATCTAT-
1 TTTA-TTTAT-TATC
* *
11171123 TTTA-GTATT-TT
1 TTTATTTATTATC
11171134 TTTA-TTATTTAT-
1 TTTATTTA-TTATC
11171146 TTTATTTATTATC
1 TTTATTTATTATC
11171159 TTTATTGTTGATTATC
1 TTTA-T-TT-ATTATC
*
11171175 TTTGTTTTATTA-C
1 TTT-ATTTATTATC
11171188 TATTATTTATT
1 T-TTATTTATT
11171199 GGTCAAAATT
Statistics
Matches: 73, Mismatches: 4, Indels: 25
0.72 0.04 0.25
Matches are distributed among these distances:
10 1 0.01
11 7 0.10
12 17 0.23
13 21 0.29
14 12 0.16
15 5 0.07
16 10 0.14
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.70
Consensus pattern (13 bp):
TTTATTTATTATC
Found at i:11171695 original size:30 final size:31
Alignment explanation
Indices: 11171630--11171696 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
11171620 ATGAACTTTG
* * * *
11171630 AATTTTTTGATGACTTTTTGGCTAATTTCCT
1 AATTTTTAGATGACTTTCTGGCAAATCTCCT
11171661 AATTTTTAG-TGACTTTCTGGCAACATCTCC-
1 AATTTTTAGATGACTTTCTGGCAA-ATCTCCT
11171691 AATTTT
1 AATTTT
11171697 CGACAAGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.49
Consensus pattern (31 bp):
AATTTTTAGATGACTTTCTGGCAAATCTCCT
Found at i:11188404 original size:22 final size:20
Alignment explanation
Indices: 11188360--11188400 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11188350 TAATTGCTTA
11188360 TATGTATAGGCCATTTGTTT
1 TATGTATAGGCCATTTGTTT
* *
11188380 TATGTGTAGGCCATTTATTT
1 TATGTATAGGCCATTTGTTT
11188400 T
1 T
11188401 TTATTATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (20 bp):
TATGTATAGGCCATTTGTTT
Found at i:11192294 original size:25 final size:24
Alignment explanation
Indices: 11192240--11192294 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
11192230 CTCAGTTCAA
*
11192240 CCAAAATGCTCAAACCTAGATCAG
1 CCAAAAAGCTCAAACCTAGATCAG
* *
11192264 CCAAAAAGCTCAAACTTAGCTCAG
1 CCAAAAAGCTCAAACCTAGATCAG
11192288 CCAAAAA
1 CCAAAAA
11192295 AGCTTGGACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.29, G:0.11, T:0.15
Consensus pattern (24 bp):
CCAAAAAGCTCAAACCTAGATCAG
Found at i:11192656 original size:170 final size:169
Alignment explanation
Indices: 11192375--11192790 Score: 439
Period size: 170 Copynumber: 2.5 Consensus size: 169
11192365 CAGCTTGACC
* * * * * ** *
11192375 AAAAAAGCTCAGATCTACAAAATTCCTTTATAAAAGCCCAACTCAATAAAATAACTCAGCCAAAA
1 AAAAAAGCTCAAATTTACAAAATGCCTTTATAAAAGCCCAACTCAACAAAATAGCTTGGCCAAAG
* *
11192440 AGCTTGGACTCAACTTAACTAAAAAAGTTCAAATCTACAAAATGCCTTTATAAAGGCCTAAC-CT
66 AGCTTGGACTC-ACTTAACTAAAAAAGCTCAAATCTACAAAATGCCTTTATAAAAGCCTAACTC-
* * *
11192504 GATGAAATAGCTTGGCC-AAATAAC-TGTGACTTAAC-TCAGCA
129 AATGAAATAGCTT-ACCGAAA-AACTTG-GACTTAACTTCACCA
** *
11192545 AAAAAAGCTCAAATTTACAAAATGCCTTTATAAAAATCCAACTCAACAAAATAGCTTGGCTAAAG
1 AAAAAAGCTCAAATTTACAAAATGCCTTTATAAAAGCCCAACTCAACAAAATAGCTTGGCCAAAG
* * * * * * *
11192610 AGCTTGGACTCAGTTCGA-TCAAAAGAGCTCGAATTTACAGAATGCCTTTATAAAAGCCTAATTC
66 AGCTTGGACTCACTT-AACT-AAAAAAGCTCAAATCTACAAAATGCCTTTATAAAAGCCTAACTC
* *
11192674 AATGAAATAGCTTACCGAAAGACTTGGACTTAACTTGACCA
129 AATGAAATAGCTTACCGAAAAACTTGGACTTAACTTCACCA
* * * * * *
11192715 AAAGAA-CTCAAATTTACAAAATGCCTTCATAGAGGCCTAACTCGACAAAATAGCTTGGCCAAAG
1 AAAAAAGCTCAAATTTACAAAATGCCTTTATAAAAGCCCAACTCAACAAAATAGCTTGGCCAAAG
*
11192779 AGCTTGAACTCA
66 AGCTTGGACTCA
11192791 ACTTGGATCT
Statistics
Matches: 205, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
169 77 0.38
170 127 0.62
171 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (169 bp):
AAAAAAGCTCAAATTTACAAAATGCCTTTATAAAAGCCCAACTCAACAAAATAGCTTGGCCAAAG
AGCTTGGACTCACTTAACTAAAAAAGCTCAAATCTACAAAATGCCTTTATAAAAGCCTAACTCAA
TGAAATAGCTTACCGAAAAACTTGGACTTAACTTCACCA
Found at i:11192739 original size:84 final size:84
Alignment explanation
Indices: 11192305--11192795 Score: 334
Period size: 85 Copynumber: 5.8 Consensus size: 84
11192295 AGCTTGGACC
** * * * * * * * * *
11192305 TACAAAATTTCTTCATAAAGGCCCAACTCGACAAAATAACTTAGCCAAAGAGCTT-GAATTCAGC
1 TACAAAATGCCTTTATAAAAGCCTAACTCAATAAAATAGCTTA-CCAAAAAGCTTGGACTT-AAC
* *
11192369 TTGACCAAAAAAGCTCAGATC
64 TTGACCAAAAAAGCTCAAATT
* * * * *
11192390 TACAAAATTCCTTTATAAAAGCCCAACTCAATAAAATAACTCAGCCAAAAAGCTTGGACTCAACT
1 TACAAAATGCCTTTATAAAAGCCTAACTCAATAAAATAGCTTA-CCAAAAAGCTTGGACTTAACT
* * * *
11192455 TAACTAAAAAAGTTCAAATC
65 TGACCAAAAAAGCTCAAATT
* * * *
11192475 TACAAAATGCCTTTATAAAGGCCTAAC-CTGATGAAATAGCTTGGCCAAATAA-C-TGTGACTTA
1 TACAAAATGCCTTTATAAAAGCCTAACTC-AATAAAATAGCTT-ACCAAA-AAGCTTG-GACTTA
* *
11192537 AC-TCAGCAAAAAAAGCTCAAATT
62 ACTTGA-CCAAAAAAGCTCAAATT
* * * * * * *
11192560 TACAAAATGCCTTTATAAAAATCC-AACTCAACAAAATAGCTTGGCTAAAGAGCTTGGAC-TCAG
1 TACAAAATGCCTTTAT-AAAAGCCTAACTCAATAAAATAGCTT-ACCAAAAAGCTTGGACTTAAC
* * *
11192623 TTCGATCAAAAGAGCTCGAATT
64 TT-GACCAAAAAAGCTCAAATT
* * * *
11192645 TACAGAATGCCTTTATAAAAGCCTAATTCAATGAAATAGCTTACC-GAAAGACTTGGACTTAACT
1 TACAAAATGCCTTTATAAAAGCCTAACTCAATAAAATAGCTTACCAAAAAG-CTTGGACTTAACT
11192709 TGACCAAAAGAA-CTCAAATT
65 TGACCAAAA-AAGCTCAAATT
* * * * * * * * *
11192729 TACAAAATGCCTTCATAGAGGCCTAACTCGACAAAATAGCTTGGCCAAAGAGCTTGAACTCAACT
1 TACAAAATGCCTTTATAAAAGCCTAACTCAATAAAATAGCTT-ACCAAAAAGCTTGGACTTAACT
11192794 TG
65 TG
11192796 GATCTACAAA
Statistics
Matches: 320, Mismatches: 68, Indels: 36
0.75 0.16 0.08
Matches are distributed among these distances:
83 3 0.01
84 70 0.22
85 230 0.72
86 17 0.05
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (84 bp):
TACAAAATGCCTTTATAAAAGCCTAACTCAATAAAATAGCTTACCAAAAAGCTTGGACTTAACTT
GACCAAAAAAGCTCAAATT
Found at i:11192867 original size:56 final size:56
Alignment explanation
Indices: 11192803--11193057 Score: 188
Period size: 56 Copynumber: 4.5 Consensus size: 56
11192793 TTGGATCTAC
* * **
11192803 AAAATGCCTTCATAAAGGCTTAGCTTGGTCACCTTGGACAAAGAGCTCATTTTGAT
1 AAAATGCCTTCATAAAGGCTTAGCTTGGCCACCTTGGACAAAGAGCTCATCTCAAT
* * * * *
11192859 AAAATGCCTTTATAAAGGCTTAGCTAGTTAGGCCACCTCGGCCAAAAAACTCATCTCAAT
1 AAAATGCCTTCATAAAGGCTTAGC---TT-GGCCACCTTGGACAAAGAGCTCATCTCAAT
* * ** ** *
11192919 AAAATGTCTTCATAAAGGCTTAGCTTGACCACCTTGCTCAAAGAGCTTGTCTCGAT
1 AAAATGCCTTCATAAAGGCTTAGCTTGGCCACCTTGGACAAAGAGCTCATCTCAAT
* * * * *** * * * *
11192975 AAAATACC-TCACAAAGACTTATCTCAACCACCTTAGCCAAAGAGCTCATCTTAGT
1 AAAATGCCTTCATAAAGGCTTAGCTTGGCCACCTTGGACAAAGAGCTCATCTCAAT
* ** *
11193030 AAATTATCTTCGTAAAGGCTTAGCTTGG
1 AAAATGCCTTCATAAAGGCTTAGCTTGG
11193058 ACAGTTCAGC
Statistics
Matches: 150, Mismatches: 44, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
55 40 0.27
56 62 0.41
57 2 0.01
59 2 0.01
60 44 0.29
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
AAAATGCCTTCATAAAGGCTTAGCTTGGCCACCTTGGACAAAGAGCTCATCTCAAT
Found at i:11193296 original size:19 final size:19
Alignment explanation
Indices: 11193268--11193314 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
11193258 AGAGGTATAG
*
11193268 CTTGAT-AAAAGAGCTTAA
1 CTTGATCAAAAGAACTTAA
11193286 CTTGATCAAAAGAACTTAA
1 CTTGATCAAAAGAACTTAA
11193305 CTTGATCAAA
1 CTTGATCAAA
11193315 TTCTTTTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
CTTGATCAAAAGAACTTAA
Found at i:11195769 original size:40 final size:40
Alignment explanation
Indices: 11195719--11195810 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
11195709 TCAAATGTTG
* *
11195719 TCTTGATTTTTAAA-TTTTGCATGCCTTCATGTTGAAGGAGC
1 TCTTGATTTTTAAAGTTATG--TGCCTTCATGTTGAAAGAGC
* *
11195760 -CTTTATTTTTAAAGTTATGTGCCTTCGTGTTGAAAGAGC
1 TCTTGATTTTTAAAGTTATGTGCCTTCATGTTGAAAGAGC
11195799 TCTTGATTTTTA
1 TCTTGATTTTTA
11195811 GTAGTAGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 18 0.41
40 22 0.50
41 4 0.09
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (40 bp):
TCTTGATTTTTAAAGTTATGTGCCTTCATGTTGAAAGAGC
Found at i:11196025 original size:9 final size:9
Alignment explanation
Indices: 11196007--11196041 Score: 56
Period size: 8 Copynumber: 4.1 Consensus size: 9
11195997 AATCATCGAA
11196007 TTTTTT-TT
1 TTTTTTATT
11196015 TTTTTTA-T
1 TTTTTTATT
11196023 TTTTTTATT
1 TTTTTTATT
11196032 TTTTTTATT
1 TTTTTTATT
11196041 T
1 T
11196042 GATGTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.56
9 11 0.44
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTATT
Found at i:11196033 original size:17 final size:16
Alignment explanation
Indices: 11196007--11196041 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
11195997 AATCATCGAA
11196007 TTTTTTTTTTTTTTAT
1 TTTTTTTTTTTTTTAT
11196023 TTTTTTATTTTTTTTAT
1 TTTTTT-TTTTTTTTAT
11196040 TT
1 TT
11196042 GATGTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTTTTTTAT
Found at i:11196097 original size:4 final size:4
Alignment explanation
Indices: 11196082--11196161 Score: 56
Period size: 4 Copynumber: 19.0 Consensus size: 4
11196072 TATATATATA
* * *
11196082 TATT TATCT TATT TATT TATT TATT TA-T TCTT TACTT TATC TATTT TAGTA
1 TATT TAT-T TATT TATT TATT TATT TATT TATT TA-TT TATT TA-TT TA-TT
*
11196133 TATT TTTCT TA-T TATT TATTT TATT TATT
1 TATT TAT-T TATT TATT TA-TT TATT TATT
11196162 ATCTTCATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
3 5 0.08
4 35 0.58
5 20 0.33
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:11196651 original size:17 final size:16
Alignment explanation
Indices: 11196604--11196660 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
11196594 ATTATTATTA
11196604 TTTTT-TTCTTTTTTAT
1 TTTTTCTTCTTTTTT-T
* * *
11196620 TTATTCTTCAATTTTCT
1 TTTTTCTTC-TTTTTTT
11196637 TTTTTCTTCTTTTTTT
1 TTTTTCTTCTTTTTTT
11196653 TCTTTTCT
1 T-TTTTCT
11196661 GGTTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 10 0.31
17 18 0.56
18 4 0.12
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCTTCTTTTTTT
Found at i:11198209 original size:21 final size:22
Alignment explanation
Indices: 11198164--11198226 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
11198154 AAAACATTAA
11198164 TAATAAAAAAAACAATAATTCAAT
1 TAATAAAAAAAACAATAA-T-AAT
*
11198188 TAATAAAAAAATCAATAA-AAT
1 TAATAAAAAAAACAATAATAAT
*
11198209 TTATAAAAAAGAA-AATAA
1 TAATAAAAAA-AACAATAA
11198227 AATACATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 17 0.49
22 1 0.03
24 17 0.49
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TAATAAAAAAAACAATAATAAT
Found at i:11207700 original size:18 final size:20
Alignment explanation
Indices: 11207663--11207700 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11207653 GTGTGCACTC
*
11207663 AATTCAAGATCCATTATCGT
1 AATTCAACATCCATTATCGT
11207683 AATTCAACA-CCA-TATCGT
1 AATTCAACATCCATTATCGT
11207701 CCAAAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (20 bp):
AATTCAACATCCATTATCGT
Found at i:11209146 original size:50 final size:50
Alignment explanation
Indices: 11209083--11209303 Score: 258
Period size: 50 Copynumber: 4.4 Consensus size: 50
11209073 TTTCGAGAAT
11209083 ATATGAGATTTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTC-AAG
1 ATATGA-A-TTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTCTAAG
** * *
11209134 ATGATGAATTTTAAAGTTGTTGAGTCTCTACTTAGAGGAG-TTTTTCTAAG
1 AT-ATGAATTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTCTAAG
* * *
11209184 ATAAGATTTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTC--A-
1 ATATGAATTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTCTAAG
* *
11209231 ATATGAATTTTTAAAGTTGTT-AAGCCTCTGCTTAAATGAGC-TTTTCTAGG
1 ATATGAA-TTTTAAAGTTGTTGAA-CCTCTACTTAAATGAGCTTTTTCTAAG
11209281 ATGATGAATTTTAAAGTTGTTGA
1 AT-ATGAATTTTAAAGTTGTTGA
11209304 GTTTTTGCTT
Statistics
Matches: 146, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
47 11 0.08
48 30 0.21
49 38 0.26
50 54 0.37
51 9 0.06
52 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (50 bp):
ATATGAATTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTCTAAG
Found at i:11209222 original size:99 final size:98
Alignment explanation
Indices: 11209088--11209304 Score: 303
Period size: 99 Copynumber: 2.2 Consensus size: 98
11209078 AGAATATATG
*
11209088 AGATTTTTAAAGTTGTTGAACCTCTACTTAAATGAGCTTTTTCAAGATGATGAA-TTTTAAAGTT
1 AGATTTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTC-A-AT-ATGAATTTTTAAAGTT
* * * *
11209152 GTTGAGTCTCTACTTAGAGGAGTTTTTCTAAGAT-A
63 GTTAAGCCTCTACTTAAAGGAGCTTTTCTAAGATGA
11209187 AGATTTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTCAATATGAATTTTTAAAGTTGTT
1 AGATTTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTCAATATGAATTTTTAAAGTTGTT
* * *
11209252 AAGCCTCTGCTTAAATGAGCTTTTCTAGGATGA
66 AAGCCTCTACTTAAAGGAGCTTTTCTAAGATGA
* *
11209285 TGAATTTTAAAGTTGTTGAG
1 AGATTTTTAAAGTTGTTGAG
11209305 TTTTTGCTTA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
96 5 0.05
97 39 0.37
98 20 0.19
99 42 0.40
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (98 bp):
AGATTTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTCAATATGAATTTTTAAAGTTGTT
AAGCCTCTACTTAAAGGAGCTTTTCTAAGATGA
Found at i:11209392 original size:44 final size:44
Alignment explanation
Indices: 11209318--11209471 Score: 211
Period size: 44 Copynumber: 3.5 Consensus size: 44
11209308 TTGCTTAGAG
*
11209318 GAGCCTTTTTAAAATTTTCAAAAGTTGTTGAGCCTCTGCTCAAAA
1 GAGCCTCTTT-AAATTTTCAAAAGTTGTTGAGCCTCTGCTCAAAA
* ** * *
11209363 GAGCCTCTTTAAATTTTTAAAAGTTGTTGAGTTTCTGCTTAAAG
1 GAGCCTCTTTAAATTTTCAAAAGTTGTTGAGCCTCTGCTCAAAA
* *
11209407 GAGCCTCTTTAAATTTTTAAAAGTTGTTGAGCCTCTGCTCAGAA
1 GAGCCTCTTTAAATTTTCAAAAGTTGTTGAGCCTCTGCTCAAAA
*
11209451 GAG-CTTTTTAAATTTTCAAAA
1 GAGCCTCTTTAAATTTTCAAAA
11209472 ATGTTATTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 16 0.17
44 71 0.74
45 9 0.09
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (44 bp):
GAGCCTCTTTAAATTTTCAAAAGTTGTTGAGCCTCTGCTCAAAA
Found at i:11209443 original size:88 final size:88
Alignment explanation
Indices: 11209289--11209471 Score: 280
Period size: 88 Copynumber: 2.1 Consensus size: 88
11209279 GGATGATGAA
* * *
11209289 TTTT-AAAGTTGTTGAGTTTTTGCTTAGAGGAGCCTTTTTAAAATTTTCAAAAGTTGTTGAGCCT
1 TTTTAAAAGTTGTTGAGTTTCTGCTTAAAGGAGCCTCTTTAAAATTTTCAAAAGTTGTTGAGCCT
11209353 CTGCTCAAAAGAGCCTCTTTAAAT
66 CTGCTCAAAAGAG-CTCTTTAAAT
*
11209377 TTTTAAAAGTTGTTGAGTTTCTGCTTAAAGGAGCCTCTTT-AAATTTTTAAAAGTTGTTGAGCCT
1 TTTTAAAAGTTGTTGAGTTTCTGCTTAAAGGAGCCTCTTTAAAATTTTCAAAAGTTGTTGAGCCT
* *
11209441 CTGCTCAGAAGAGCTTTTTAAAT
66 CTGCTCAAAAGAGCTCTTTAAAT
*
11209464 TTTCAAAA
1 TTTTAAAA
11209472 ATGTTATTGA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 16 0.18
88 39 0.45
89 32 0.37
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (88 bp):
TTTTAAAAGTTGTTGAGTTTCTGCTTAAAGGAGCCTCTTTAAAATTTTCAAAAGTTGTTGAGCCT
CTGCTCAAAAGAGCTCTTTAAAT
Found at i:11209631 original size:3 final size:3
Alignment explanation
Indices: 11209623--11209658 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11209613 CACCATTTTG
11209623 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11209659 ATTGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11210063 original size:21 final size:21
Alignment explanation
Indices: 11210039--11210091 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
11210029 ACAACGCCAA
11210039 ACAAAAAAAAATAACACAGAC
1 ACAAAAAAAAATAACACAGAC
*
11210060 ACAAAAAAAAATAACATAGAC
1 ACAAAAAAAAATAACACAGAC
11210081 ACAAAAAAAAA
1 ACAAAAAAAAA
11210092 ATTGATCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.75, C:0.15, G:0.04, T:0.06
Consensus pattern (21 bp):
ACAAAAAAAAATAACACAGAC
Found at i:11211251 original size:21 final size:20
Alignment explanation
Indices: 11211216--11211256 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11211206 TATTTTCTTC
* *
11211216 AATAAAACAATAATTCAATT
1 AATAAAAAAATAATTAAATT
11211236 AATAAAAAAATCAATTAAATT
1 AATAAAAAAAT-AATTAAATT
11211257 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAAAATAATTAAATT
Found at i:11223798 original size:2 final size:2
Alignment explanation
Indices: 11223743--11223779 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11223733 CGTTTTCTTT
11223743 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 T
11223780 GCACACACAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11228283 original size:91 final size:91
Alignment explanation
Indices: 11228128--11228294 Score: 289
Period size: 91 Copynumber: 1.8 Consensus size: 91
11228118 TGTGAATTTG
*
11228128 ATGAACATGACTACTATAACTACATAAGATTAACAAAAGAGTATCATATGTGAAATTAAGTTTTT
1 ATGAACATGACTACTATAACTACATAAGATTAACAAAAGAATATCATATGTGAAATTAAGTTTTT
*
11228193 TTTTTTTTTTCCAAGTACACCAAATT
66 TGTTTTTTTTCCAAGTACACCAAATT
* * *
11228219 ATGAACATGACTACTATAACTACATAATATTAGCAAAAGAATATTATATGTGAAATTAAGTTTTT
1 ATGAACATGACTACTATAACTACATAAGATTAACAAAAGAATATCATATGTGAAATTAAGTTTTT
11228284 TGTTTTTTTTC
66 TGTTTTTTTTC
11228295 AAGCATAACA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (91 bp):
ATGAACATGACTACTATAACTACATAAGATTAACAAAAGAATATCATATGTGAAATTAAGTTTTT
TGTTTTTTTTCCAAGTACACCAAATT
Found at i:11230396 original size:15 final size:15
Alignment explanation
Indices: 11230378--11230408 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11230368 TAATATTATA
11230378 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
11230393 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
11230408 A
1 A
11230409 TTTTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:11233495 original size:17 final size:16
Alignment explanation
Indices: 11233475--11233508 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11233465 TATCATGTGC
11233475 TTTTAAATCTGAAAATA
1 TTTTAAAT-TGAAAATA
*
11233492 TTTTAGATTGAAAATA
1 TTTTAAATTGAAAATA
11233508 T
1 T
11233509 CATGTTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTTAAATTGAAAATA
Found at i:11234541 original size:129 final size:129
Alignment explanation
Indices: 11234297--11234542 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 129
11234287 CGTTCGTTAA
* * * *
11234297 TTATAAAATCAATCATAATTATATGAATGTGCTCTGTCTTTTTTAATATTAGTTTTATATGGACT
1 TTATAAAATCAATCACAATTATATGAATGTACTCTGTCTTTTTTAATATGAATTTTATATGGACT
* * * *
11234362 GATTTTATCATATTAACTAAAATTTATGAAGTACCTATGAGTTTTAAACCACATGTTCCTTGAC
66 GATTTTATCATATTAACTAAAATTTATGAAATACCTATAAATTTCAAACCACATGTTCCTTGAC
* *
11234426 TTATAAAATCAATCACAATTAT-TAGAGTGTACTTTGT-TTTTTTGAATATGAATTTTATATGGA
1 TTATAAAATCAATCACAATTATAT-GAATGTACTCTGTCTTTTTT-AATATGAATTTTATATGGA
* *
11234489 CTGATTTTATCATATTAACTAAAATTTATGAAATAGCTATAAATTTCGAACCAC
64 CTGATTTTATCATATTAACTAAAATTTATGAAATACCTATAAATTTCAAACCAC
11234543 TTAATGGCAG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 7 0.07
129 96 0.93
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (129 bp):
TTATAAAATCAATCACAATTATATGAATGTACTCTGTCTTTTTTAATATGAATTTTATATGGACT
GATTTTATCATATTAACTAAAATTTATGAAATACCTATAAATTTCAAACCACATGTTCCTTGAC
Found at i:11236584 original size:42 final size:42
Alignment explanation
Indices: 11236521--11236604 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
11236511 AAGCTAGGAA
11236521 TTTTTCTAGGGACATTAATGAAAATTTGGTTTTCTATTTTAG
1 TTTTTCTAGGGACATTAATGAAAATTTGGTTTTCTATTTTAG
*
11236563 TTTTTCTAGGGACATTGATGAAAATTTGGTTTTCTATTTTAG
1 TTTTTCTAGGGACATTAATGAAAATTTGGTTTTCTATTTTAG
11236605 GTTGATTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (42 bp):
TTTTTCTAGGGACATTAATGAAAATTTGGTTTTCTATTTTAG
Found at i:11239737 original size:16 final size:15
Alignment explanation
Indices: 11239710--11239752 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
11239700 TTTATTTGAA
11239710 TTAATTTTTTATAAT
1 TTAATTTTTTATAAT
11239725 TTAATTCTTTTATAAT
1 TTAATT-TTTTATAAT
*
11239741 ATTAGTTTTTTA
1 -TTAATTTTTTA
11239753 GAAGTGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 14 0.56
17 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAATTTTTTATAAT
Found at i:11244175 original size:17 final size:17
Alignment explanation
Indices: 11244142--11244173 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11244132 TATCCCCTTC
11244142 CTTTTCTCTTTTCTTTT
1 CTTTTCTCTTTTCTTTT
11244159 CTTTTCT-TTTT-TTTT
1 CTTTTCTCTTTTCTTTT
11244174 TTTGCTCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTCTCTTTTCTTTT
Found at i:11253309 original size:160 final size:161
Alignment explanation
Indices: 11252989--11254031 Score: 978
Period size: 161 Copynumber: 6.5 Consensus size: 161
11252979 TAGTAAGTTT
* * * ** * * ** *
11252989 ATGATATTAAACTTATCCGAATAAATGAACTTGGTTTCCATTGTTAATATATGTGAAAAAGTTGC
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAATGT
** * * * * * ** * * *
11253054 AATTTATGTTTGTTTAGGACTCTCTGTGTTGTTAAAAGGTAAAAATGTAAATTT-ATAGTTATTG
66 TGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTA-TTATTA
*
11253118 TTCTATTTTAACAAATTT-GATAGTTTCAATAC
130 TTCTATTTTAAC-AATTTAGATAGCTTCAATAC
* * ** *
11253150 ATGATATTAAACTTGTCTGAATAATTAAACTTAGTTTTTATAGTTGATATGTGTGAAAAAAATGT
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAATGT
* * * *
11253215 TGTTTATGTCTATTTAGGACTTTTT-TGCCGTTAAAAGGTAAAAATGGAAATTTGTTGTAATTAT
66 TGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATTAT
*
11253279 TCTATTTTAACAATTTGGATAGCTTCAATAC
131 TCTATTTTAACAATTTAGATAGCTTCAATAC
* * * * * ** **
11253310 ATGATATTAAATTTGTCCGAATAATTGAACTTGGTTTTCACAGTCGATATGTATGAAAAAGCTAA
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAATGT
* * ** * *
11253375 TGTTTATGTTTGTTTAGGACTTTTTATGCTATTAAAAGGCAAAAATGCAAAATTGCTATTATTAT
66 TGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATTAT
* * *
11253440 TCTGTTTTAACAATTTTGATAGCTTCAATGC
131 TCTATTTTAACAATTTAGATAGCTTCAATAC
* * * * * * ** *
11253471 ATGATAATAAACTTATCTGAATGACTGAACTTGGTTTCTA-TGTTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAATGT
** * * *
11253535 TGTTTACATCTATTTAGGACTTTTTTTTGTCGTTAAAAAGTAAAAATGCAAATTTGCTATTATTA
66 TGTTTATGTCTATTTAGGAC-TTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATTA
* *
11253600 TTCTATTTTAACAATTTGGATAGCTTCAGTAC
130 TTCTATTTTAACAATTTAGATAGCTTCAATAC
* * * ** * **
11253632 ATAATA-TATAACTTAT-TCGAATGATCAAACTTGGTTTCCACAATTGATATGTGTG-AAAAGTT
1 ATGATATTA-AACTTGTCT-GAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAAT
* * * * * * *
11253694 GTTGATTATCTCTGTTTAGGACTTTTTATGTCGTGAAAAGG-CAAATTGCAAATTTGCTATTATT
64 GTTGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATT
* * *
11253758 GTTCTGTTTTAACAGTTTAGATAGCTTCAATAC
129 ATTCTATTTTAACAATTTAGATAGCTTCAATAC
* * * *
11253791 ATGATATTAAACTTGTTTGAATAATTGAACCTAGTTTTCACAGTTGATATGTGT-AAAAAAACT-
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAA-TG
* * * * * *
11253854 TACGTTTATGTCTGTTTAGGACTTTTTATGCCATTAAAAGGCAAAAATGCAAAATTGTTATTATT
65 T-TGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATT
* *
11253919 ATTCTATTTTAACAGTTTAGATAGTTTCAATAC
129 ATTCTATTTTAACAATTTAGATAGCTTCAATAC
* * * * *
11253952 ATGATAATAAACTTGTATGAATGATTGAACTTGGTTTCTA-TGATTGATA--TGTGAAAAAAAGT
1 ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAG-TTGATATGTGTGAAAAAAA--
*
11254014 TGTTATTTATGTCTATTT
63 TGTTGTTTATGTCTATTT
11254032 TTTTTGCTGT
Statistics
Matches: 727, Mismatches: 138, Indels: 34
0.81 0.15 0.04
Matches are distributed among these distances:
159 102 0.14
160 229 0.31
161 383 0.53
162 13 0.02
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (161 bp):
ATGATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAGTTGATATGTGTGAAAAAAATGT
TGTTTATGTCTATTTAGGACTTTTTATGCCGTTAAAAGGTAAAAATGCAAATTTGCTATTATTAT
TCTATTTTAACAATTTAGATAGCTTCAATAC
Found at i:11253796 original size:320 final size:319
Alignment explanation
Indices: 11253112--11254004 Score: 1057
Period size: 320 Copynumber: 2.8 Consensus size: 319
11253102 AAATTTATAG
* * *
11253112 TTATTGTTCTATTTTAACAAATTTGATAGTTTCAATACATGATATTAAACTTGTCTGAATAATTA
1 TTATTGTTCTGTTTTAAC-AATTTGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTG
* *
11253177 AACTTAGTTTTTATAGTTGATATGTGTGAAAAAAATGTTGTTTATGTCTATTTAGGAC-TTTTTT
65 AACTTAG-TTTTAT-GTTGATATGTGTGAAAAAATTATTGTTTATGTCTATTTAGGACTTTTTTT
* * *
11253241 GCCGTTAAAAGGTAAAAATGGAAATTTGTTGTAATTATTCTATTTTAACAATTTGGATAGCTTCA
128 GCCGTTAAAAGGTAAAAATGCAAATTTGTTATTATTATTCTATTTTAACAATTTGGATAGCTTCA
* * * * * * *
11253306 ATACATGATAT-TAAATTTGTCCGAATAATTGAACTTGGTTTTCACAGTCGATATGTATGAAAAA
193 ATACATGATATATAACTTTAT-CGAATGATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAA
* * * *
11253370 GCTAATGTTTATGTTTGTTTAGGACTTTTTATGCTATTAAAAGGCAAAAATGCAAAATTGCTA
257 GCTAATGATTATCTCTGTTTAGGACTTTTTATGCTATGAAAAGGCAAAAATGCAAAATTGCTA
* * * * * *
11253433 TTATTATTCTGTTTTAACAATTTTGATAGCTTCAATGCATGATAATAAACTTATCTGAATGACTG
1 TTATTGTTCTGTTTTAACAA-TTTGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTG
* * **
11253498 AACTTGGTTTCTATGTTGATATGTGTGAAAAAGTTATTGTTTACATCTATTTAGGACTTTTTTTT
65 AACTTAGTTT-TATGTTGATATGTGTGAAAAAATTATTGTTTATGTCTATTTAGGAC-TTTTTTT
* * *
11253563 GTCGTTAAAAAGTAAAAATGCAAATTTGCTATTATTATTCTATTTTAACAATTTGGATAGCTTCA
128 GCCGTTAAAAGGTAAAAATGCAAATTTGTTATTATTATTCTATTTTAACAATTTGGATAGCTTCA
* * **
11253628 GTACATAATATATAAC-TTATTCGAATGATCAAACTTGGTTTCCACAATTGATATGTGTG-AAAA
193 ATACATGATATATAACTTTA-TCGAATGATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAA
* ** * * *
11253691 GTTGTTGATTATCTCTGTTTAGGACTTTTTATG-TCGTGAAAAGGC-AAATTGCAAATTTGCTA
257 GCTAATGATTATCTCTGTTTAGGACTTTTTATGCT-ATGAAAAGGCAAAAATGCAAAATTGCTA
* *
11253753 TTATTGTTCTGTTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTTGAATAATTG
1 TTATTGTTCTGTTTTAACAATTT-GATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTG
* * * * * *
11253818 AACCTAGTTTTCACAGTTGATATGTGTAAAAAAACTTA-CGTTTATGTCTGTTTAGGACTTTTTA
65 AACTTAGTTTT-A-TGTTGATATGTGTGAAAAAA-TTATTGTTTATGTCTATTTAGGACTTTTTT
* * * * * *
11253882 TGCCATTAAAAGGCAAAAATGCAAAATTGTTATTATTATTCTATTTTAACAGTTTAGATAGTTTC
127 TGCCGTTAAAAGGTAAAAATGCAAATTTGTTATTATTATTCTATTTTAACAATTTGGATAGCTTC
* **
11253947 AATACATGATA-ATAAACTTGTAT-GAATGATTGAACTTGGTTTCTATGATTGATATGTG
192 AATACATGATATAT-AACTT-TATCGAATGATTGAACTTGGTTTCCACAATTGATATGTG
11254005 AAAAAAAGTT
Statistics
Matches: 482, Mismatches: 76, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
319 6 0.01
320 224 0.46
321 136 0.28
322 112 0.23
323 4 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (319 bp):
TTATTGTTCTGTTTTAACAATTTGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTGA
ACTTAGTTTTATGTTGATATGTGTGAAAAAATTATTGTTTATGTCTATTTAGGACTTTTTTTGCC
GTTAAAAGGTAAAAATGCAAATTTGTTATTATTATTCTATTTTAACAATTTGGATAGCTTCAATA
CATGATATATAACTTTATCGAATGATTGAACTTGGTTTCCACAATTGATATGTGTGAAAAAGCTA
ATGATTATCTCTGTTTAGGACTTTTTATGCTATGAAAAGGCAAAAATGCAAAATTGCTA
Found at i:11253899 original size:481 final size:481
Alignment explanation
Indices: 11252989--11254014 Score: 1263
Period size: 481 Copynumber: 2.1 Consensus size: 481
11252979 TAGTAAGTTT
* * * * * * *
11252989 ATGATATTAAACTTATCCGAATAAATGAACTTGGTTTCCATTGTTAATATATGTGAAAAAGTTGC
1 ATGATAATAAACTTATCTGAATGAATGAACTTGGTTTCTA-TGTTGATATGTGTGAAAAAGTTAC
** * * * * * *
11253054 AATTTATGTTTGTTTAGGACTCTCTGTGTTGTTAAAAGGTAAAAATGTAAATTTATAGTTATTGT
65 AATTTACATCTATTTAGGACTCTCTGTGTCGTTAAAAAGTAAAAATGCAAATTTATAGTTATTAT
* * *
11253119 TCTATTTTAACAAATTTGATAGTTTCAATACATGATATTAAACTTGTCTGAATAATTAAACTTAG
130 TCTATTTTAACAAATTTGATAGCTTCAATACATAATATTAAACTTGTCTGAATAATCAAACTTAG
** * * * * *
11253184 TTTTTATAGTTGATATGTGTGAAAAAAATGTTGTTTATGTCTATTTAGGACTTTTTTGCCGTTAA
195 TTTCCACAATTGATATGTGTGAAAAAAATGTTGATTATCTCTATTTAGGACTTTTTTGCCGTGAA
* * * *
11253249 AAGGTAAAAATGGAAATTTGTTGTAATTATTCTATTTTAACAATTTGGATAGCTTCAATACATGA
260 AAGGTAAAAATGCAAATTTGCTATAATTATTCTATTTTAACAATTTAGATAGCTTCAATACATGA
* * * * * *
11253314 TATTAAATTTGTCCGAATAATTGAACTTGGTTTTCACAGTCGATATGTATGAAAAAGCTAATGTT
325 TATTAAACTTGTCCGAATAATTGAACCTAGTTTTCACAGTCGATATGTATAAAAAAACTAACGTT
* * *
11253379 TATGTTTGTTTAGGACTTTTTATGCTATTAAAAGGCAAAAATGCAAAATTGCTATTATTATTCTG
390 TATGTCTGTTTAGGACTTTTTATGCCATTAAAAGGCAAAAATGCAAAATTGCTATTATTATTCTA
* *
11253444 TTTTAACAATTTTGATAGCTTCAATGC
455 TTTTAACAATTTAGATAGCTTCAATAC
* **
11253471 ATGATAATAAACTTATCTGAATGACTGAACTTGGTTTCTATGTTGATATGTGTGAAAAAGTTATT
1 ATGATAATAAACTTATCTGAATGAATGAACTTGGTTTCTATGTTGATATGTGTGAAAAAGTTACA
* * * * *
11253536 GTTTACATCTATTTAGGACTTTTTTTTGTCGTTAAAAAGTAAAAATGCAAATTTGCTA-TTATTA
66 ATTTACATCTATTTAGGAC-TCTCTGTGTCGTTAAAAAGTAAAAATGCAAATTT-ATAGTTATTA
* * *
11253600 TTCTATTTTAAC-AATTTGGATAGCTTCAGTACATAATA-TATAACTTAT-TCGAATGATCAAAC
129 TTCTATTTTAACAAATTT-GATAGCTTCAATACATAATATTA-AACTTGTCT-GAATAATCAAAC
* ** * *
11253662 TTGGTTTCCACAATTGATATGTGTG-AAAAGTTGTTGATTATCTCTGTTTAGGACTTTTTATGTC
191 TTAGTTTCCACAATTGATATGTGTGAAAAAAATGTTGATTATCTCTATTTAGGACTTTTT-TGCC
* * * * * *
11253726 GTGAAAAGG-CAAATTGCAAATTTGCTATTATTGTTCTGTTTTAACAGTTTAGATAGCTTCAATA
255 GTGAAAAGGTAAAAATGCAAATTTGCTATAATTATTCTATTTTAACAATTTAGATAGCTTCAATA
** * * *
11253790 CATGATATTAAACTTGTTTGAATAATTGAACCTAGTTTTCACAGTTGATATGTGTAAAAAAACTT
320 CATGATATTAAACTTGTCCGAATAATTGAACCTAGTTTTCACAGTCGATATGTATAAAAAAACTA
*
11253855 ACGTTTATGTCTGTTTAGGACTTTTTATGCCATTAAAAGGCAAAAATGCAAAATTGTTATTATTA
385 ACGTTTATGTCTGTTTAGGACTTTTTATGCCATTAAAAGGCAAAAATGCAAAATTGCTATTATTA
* *
11253920 TTCTATTTTAACAGTTTAGATAGTTTCAATAC
450 TTCTATTTTAACAATTTAGATAGCTTCAATAC
* * * **
11253952 ATGATAATAAACTTGTATGAATGATTGAACTTGGTTTCTATGATTGATATGTGAAAAAAAGTT
1 ATGATAATAAACTTATCTGAATGAATGAACTTGGTTTCTATG-TTGATATGTGTGAAAAAGTT
11254015 GTTATTTATG
Statistics
Matches: 462, Mismatches: 75, Indels: 14
0.84 0.14 0.03
Matches are distributed among these distances:
481 298 0.65
482 162 0.35
483 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (481 bp):
ATGATAATAAACTTATCTGAATGAATGAACTTGGTTTCTATGTTGATATGTGTGAAAAAGTTACA
ATTTACATCTATTTAGGACTCTCTGTGTCGTTAAAAAGTAAAAATGCAAATTTATAGTTATTATT
CTATTTTAACAAATTTGATAGCTTCAATACATAATATTAAACTTGTCTGAATAATCAAACTTAGT
TTCCACAATTGATATGTGTGAAAAAAATGTTGATTATCTCTATTTAGGACTTTTTTGCCGTGAAA
AGGTAAAAATGCAAATTTGCTATAATTATTCTATTTTAACAATTTAGATAGCTTCAATACATGAT
ATTAAACTTGTCCGAATAATTGAACCTAGTTTTCACAGTCGATATGTATAAAAAAACTAACGTTT
ATGTCTGTTTAGGACTTTTTATGCCATTAAAAGGCAAAAATGCAAAATTGCTATTATTATTCTAT
TTTAACAATTTAGATAGCTTCAATAC
Found at i:11254554 original size:160 final size:159
Alignment explanation
Indices: 11254067--11254744 Score: 709
Period size: 160 Copynumber: 4.2 Consensus size: 159
11254057 AAAAATTTGC
* * * * *
11254067 TGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCAATAGTTGATATGTGTGAAAAAGTTGTT
1 TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATT
* * * *
11254132 GTTTACCTTTATTTAGGATTTTTTATGCCGTTAAAAGGCAAAATGCAAAATTGCTATTATTGTTC
66 GTTTA-CTCTATTTAGGACTTTTTATGCCGTTAAAAGGAAAAATGCAAAATTGCTATTATTATTC
* *
11254197 TATTTTAATAGTTTAGATAGCTTTAATACA
130 TATTTTAACAGTTTAGATAGCTTCAATACA
* * * * * * * **
11254227 TGATATTAAACTTATCCAAATAATTAAATTTGATTTCCACAGTTGATATGTGTGAAAAAGCTAAC
1 TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATT
* * * * *
11254292 GTTTACGTCTGTTTAGGACTTTTCATGTCGTTAAAAGGAAAAAATGCAAAAATGCTATTATTGTT
66 GTTTAC-TCTATTTAGGACTTTTTATGCCGTTAAAAGG-AAAAATGCAAAATTGCTATTATTATT
* * * * *
11254357 CTATTTTAACAGCTTGGATAGCTTTAAGACG
129 CTATTTTAACAGTTTAGATAGCTTCAATACA
* * * * *
11254388 TGATAATAAACTTGTCCAAATGATTGAACTTGGTTTCTATGGTTGATATATGTGAAAAAGTTGTT
1 TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATT
* * * * *
11254453 ATTTACATCTATTTATGG-CTTTTT-TGCCATTAAAAGGTAAAAATGCAAATTTACTGTTATTAT
66 GTTTAC-TCTATTTA-GGACTTTTTATGCCGTTAAAAGG-AAAAATGCAAAATTGCTATTATTAT
* *
11254516 TCTATTTTAACATTTTAGATAGCTTCAATTCA
128 TCTATTTTAACAGTTTAGATAGCTTCAATACA
* * *** * *
11254548 TGATAATAAACTTTTTTGAATGATTGAACTTGGTTTCCATAATTGATATGTGTGAAAAAGTTACT
1 TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATT
* * * * * *
11254613 GTTTATCTCTATTTAAGACTTTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCCATTATTATT
66 GTTTA-CTCTATTTAGGACTTTTTATGCCGTTAAAAGG-AAAAATGCAAAATTGCTATTATTATT
* *
11254678 -T-TGTTTAATAGTTT-GAATAGTTTCAATACA
129 CTAT-TTTAACAGTTTAG-ATAGCTTCAATACA
*
11254708 TGATATTAAACTTGTCCAAATGATTGAATTTGGTTTC
1 TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTC
11254745 TGTGATTGAT
Statistics
Matches: 423, Mismatches: 87, Indels: 16
0.80 0.17 0.03
Matches are distributed among these distances:
159 4 0.01
160 265 0.63
161 152 0.36
162 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (159 bp):
TGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTATT
GTTTACTCTATTTAGGACTTTTTATGCCGTTAAAAGGAAAAATGCAAAATTGCTATTATTATTCT
ATTTTAACAGTTTAGATAGCTTCAATACA
Found at i:11258172 original size:16 final size:16
Alignment explanation
Indices: 11258151--11258181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11258141 TAATATTAAT
*
11258151 AATAATAGTAAATAAC
1 AATAATAATAAATAAC
11258167 AATAATAATAAATAA
1 AATAATAATAAATAA
11258182 AATCTAAATT
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:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AATAATAATAAATAAC
Found at i:11258320 original size:18 final size:16
Alignment explanation
Indices: 11258297--11258344 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
11258287 TTTTTTTAAT
11258297 AATAATAAAGTAAATTA
1 AATAATAAA-TAAATTA
11258314 CAATAATAAAATAAATTA
1 -AATAAT-AAATAAATTA
*
11258332 AAAAATAAATAAA
1 AATAATAAATAAA
11258345 AGAGAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.25
17 5 0.18
18 13 0.46
19 3 0.11
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AATAATAAATAAATTA
Found at i:11258809 original size:31 final size:30
Alignment explanation
Indices: 11258753--11258825 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
11258743 TAAAAACTTC
*
11258753 TAAACCCTTAAAACTCTAAAATTTGAAACCT
1 TAAA-CCTTAAAACACTAAAATTTGAAACCT
* *
11258784 TAAATCCTTCAAACACTGAAATTTGAAACCT
1 TAAA-CCTTAAAACACTAAAATTTGAAACCT
11258815 TAAACCTTAAA
1 TAAACCTTAAA
11258826 TTTCAAAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (30 bp):
TAAACCTTAAAACACTAAAATTTGAAACCT
Found at i:11258847 original size:16 final size:16
Alignment explanation
Indices: 11258823--11258856 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11258813 CTTAAACCTT
* *
11258823 AAATTTCAAAGCCCTA
1 AAATATCAAAACCCTA
11258839 AAATATCAAAACCCTA
1 AAATATCAAAACCCTA
11258855 AA
1 AA
11258857 CATCGAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (16 bp):
AAATATCAAAACCCTA
Found at i:11258879 original size:15 final size:15
Alignment explanation
Indices: 11258847--11258916 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
11258837 TAAAATATCA
* *
11258847 AAACCCTAAACATCG
1 AAACCCTAAACCTTG
*
11258862 AAATCCTAAACCTTG
1 AAACCCTAAACCTTG
*
11258877 AAACCCT-AACCTTA
1 AAACCCTAAACCTTG
* * *
11258891 AAACCATAGACCTTT
1 AAACCCTAAACCTTG
11258906 AAAGCCCTAAA
1 AAA-CCCTAAA
11258917 ATGCAAAACC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
14 12 0.28
15 26 0.60
16 5 0.12
ACGTcount: A:0.44, C:0.30, G:0.06, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTTG
Found at i:11259030 original size:16 final size:16
Alignment explanation
Indices: 11259011--11259051 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
11259001 AAAAACCTGG
11259011 ACCTTAAAACCCCAAA
1 ACCTTAAAACCCCAAA
*
11259027 ACCTTAAAACCTCAAA
1 ACCTTAAAACCCCAAA
*
11259043 ACCCTAAAA
1 ACCTTAAAA
11259052 ATCCATCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (16 bp):
ACCTTAAAACCCCAAA
Found at i:11260215 original size:23 final size:23
Alignment explanation
Indices: 11260170--11260215 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11260160 ATAGTTGTTT
* *
11260170 GATTTTGCTATTTAATTTTAATA
1 GATTTTGCTATTTAAGTTAAATA
**
11260193 GATTTTGCTATTTTGGTTAAATA
1 GATTTTGCTATTTAAGTTAAATA
11260216 TATTATCGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (23 bp):
GATTTTGCTATTTAAGTTAAATA
Found at i:11262808 original size:21 final size:24
Alignment explanation
Indices: 11262768--11262810 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
11262758 TTAAAAAAGT
11262768 AAAATAGAAACAACAAATATATAA
1 AAAATAGAAACAACAAATATATAA
11262792 AAAAT-GAAA-AA-AAATATAT
1 AAAATAGAAACAACAAATATAT
11262811 GAGTCGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 4 0.21
24 5 0.26
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (24 bp):
AAAATAGAAACAACAAATATATAA
Found at i:11266339 original size:22 final size:22
Alignment explanation
Indices: 11266311--11266370 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
11266301 AATTTGTAAT
* *
11266311 TTGAAATTCAAGGATTCCCAAC
1 TTGAAATTCAAGAATTCACAAC
* **
11266333 TTGAAATTCAAAAATTCACATT
1 TTGAAATTCAAGAATTCACAAC
11266355 TTGAAATTCAAGAATT
1 TTGAAATTCAAGAATT
11266371 TGCAATTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (22 bp):
TTGAAATTCAAGAATTCACAAC
Found at i:11266348 original size:44 final size:41
Alignment explanation
Indices: 11266282--11266366 Score: 98
Period size: 44 Copynumber: 2.0 Consensus size: 41
11266272 GAAACTTAAA
* ***
11266282 GATTCTCAATTGAAATAAAAATTTGTAATTTGAAATTCAAG
1 GATTCCCAATTGAAATAAAAATTCACAATTTGAAATTCAAG
*
11266323 GATTCCCAACTTGAAATTCAAAAATTCACATTTTGAAATTCAAG
1 GATTCCCAA-TTGAAA-T-AAAAATTCACAATTTGAAATTCAAG
11266367 AATTTGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 8 0.22
42 6 0.17
43 1 0.03
44 21 0.58
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (41 bp):
GATTCCCAATTGAAATAAAAATTCACAATTTGAAATTCAAG
Found at i:11266393 original size:42 final size:45
Alignment explanation
Indices: 11266310--11266407 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 45
11266300 AAATTTGTAA
*
11266310 TTTGAAATTCAAGGATTCCCAACTTGAAATTCAAAAATTCACA-T
1 TTTGAAATTCAAGAATTCCCAACTTGAAATTCAAAAATTCACACT
** **
11266354 TTTGAAATTCAAGAATTTGCAA-TT-AAATTCAAAGGTTCACACT
1 TTTGAAATTCAAGAATTCCCAACTTGAAATTCAAAAATTCACACT
11266397 TTT-AAATTCAA
1 TTTGAAATTCAA
11266408 AGGTTCACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 23 0.48
43 6 0.12
44 19 0.40
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (45 bp):
TTTGAAATTCAAGAATTCCCAACTTGAAATTCAAAAATTCACACT
Found at i:11266476 original size:18 final size:18
Alignment explanation
Indices: 11266457--11266641 Score: 158
Period size: 18 Copynumber: 10.3 Consensus size: 18
11266447 CATAAAATTC
* *
11266457 ACAAAAATTCAAAGATTC
1 ACAAGAATTCAAAGATTT
* *
11266475 ACAATAATTCAAAGGTTT
1 ACAAGAATTCAAAGATTT
11266493 ACAAGAATTCAAAGATTT
1 ACAAGAATTCAAAGATTT
* *
11266511 GCAAGAATTCAAAGATTC
1 ACAAGAATTCAAAGATTT
* * *
11266529 ATAAGAGTT-AATGA-TT
1 ACAAGAATTCAAAGATTT
* * *
11266545 AGTAAGAGTTTAAAGATTT
1 A-CAAGAATTCAAAGATTT
* * *
11266564 GCAAAAATTTAAAGATTT
1 ACAAGAATTCAAAGATTT
*
11266582 GCAAGAATTCAAAGATTT
1 ACAAGAATTCAAAGATTT
* *
11266600 GCAAGAATTCAAAGATTC
1 ACAAGAATTCAAAGATTT
* *
11266618 GCAAGAATTTAAAGATTT
1 ACAAGAATTCAAAGATTT
*
11266636 GCAAGA
1 ACAAGA
11266642 TTGAAGTTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
16 2 0.01
17 12 0.08
18 126 0.89
19 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (18 bp):
ACAAGAATTCAAAGATTT
Found at i:11266509 original size:36 final size:36
Alignment explanation
Indices: 11266457--11266641 Score: 183
Period size: 36 Copynumber: 5.2 Consensus size: 36
11266447 CATAAAATTC
* * * *
11266457 ACAAAAATTCAAAGATTCACAATAATTCAAAGGTTT
1 ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
* *
11266493 ACAAGAATTCAAAGATTTGCAAGAATTCAAAGATTC
1 ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
* * * * * * *
11266529 ATAAGAGTT-AATGATTAGTAAGAGTTTAAAGATTT
1 ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
* * * *
11266564 GCAAAAATTTAAAGATTTGCAAGAATTCAAAGATTT
1 ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
* *
11266600 GCAAGAATTCAAAGATTCGCAAGAATTTAAAGATTT
1 ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
*
11266636 GCAAGA
1 ACAAGA
11266642 TTGAAGTTTC
Statistics
Matches: 121, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
35 25 0.21
36 96 0.79
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (36 bp):
ACAAGAATTCAAAGATTCGCAAGAATTCAAAGATTT
Found at i:11266641 original size:9 final size:9
Alignment explanation
Indices: 11266557--11266643 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
11266547 TAAGAGTTTA
11266557 AAGATTTGC
1 AAGATTTGC
* *
11266566 AAAAATTT-A
1 -AAGATTTGC
11266575 AAGATTTGC
1 AAGATTTGC
*
11266584 AAGAATT-C
1 AAGATTTGC
11266592 AAAGATTTGC
1 -AAGATTTGC
*
11266602 AAGAATT-C
1 AAGATTTGC
*
11266610 AAAGATTCGC
1 -AAGATTTGC
*
11266620 AAGAATTT-A
1 AAG-ATTTGC
11266629 AAGATTTGC
1 AAGATTTGC
11266638 AAGATT
1 AAGATT
11266644 GAAGTTTCAT
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
8 12 0.21
9 35 0.60
10 11 0.19
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (9 bp):
AAGATTTGC
Found at i:11266702 original size:17 final size:19
Alignment explanation
Indices: 11266553--11266711 Score: 74
Period size: 18 Copynumber: 9.1 Consensus size: 19
11266543 TTAGTAAGAG
* * *
11266553 TTTAAAGATTTGCAA-AAA
1 TTTAAAGATTCGTAAGAAT
* *
11266571 TTTAAAGATTTGCAAGAA-
1 TTTAAAGATTCGTAAGAAT
* * *
11266589 TTCAAAGATTTGCAAGAA-
1 TTTAAAGATTCGTAAGAAT
* *
11266607 TTCAAAGATTCGCAAGAA-
1 TTTAAAGATTCGTAAGAAT
* *
11266625 TTTAAAGATTTGCAAG-A-
1 TTTAAAGATTCGTAAGAAT
* * *
11266642 -TTGAAGTTTCATAAG-A-
1 TTTAAAGATTCGTAAGAAT
* *
11266658 TTTATAGATTCGCAAGAA-
1 TTTAAAGATTCGTAAGAAT
11266676 -TTAAAGATTCGTAA-AAT
1 TTTAAAGATTCGTAAGAAT
11266693 TTTAAA-ATTCGTAAGAAT
1 TTTAAAGATTCGTAAGAAT
11266711 T
1 T
11266712 GAAGGCTCAT
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
16 13 0.11
17 31 0.26
18 73 0.61
19 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (19 bp):
TTTAAAGATTCGTAAGAAT
Found at i:11266708 original size:51 final size:51
Alignment explanation
Indices: 11266547--11266708 Score: 119
Period size: 54 Copynumber: 3.1 Consensus size: 51
11266537 TAATGATTAG
* * * * * **
11266547 TAAGAGTTTAAAGATTTGCAAAAATTTAAAGATTTGCAAGAATTCAAAGATTTG
1 TAAGA-TTTATAGATTCGCAAGAATTTAAAGATTCGCAA-AATTGAAA-ATTCA
* * * * * **
11266601 CAAGAATTCAAAGATTCGCAAGAATTTAAAGATTTGCAAGATTGAAGTTTCA
1 TAAG-ATTTATAGATTCGCAAGAATTTAAAGATTCGCAAAATTGAAAATTCA
* * *
11266653 TAAGATTTATAGATTCGCAAGAA-TTAAAGATTCGTAAAATTTTAAAATTCG
1 TAAGATTTATAGATTCGCAAGAATTTAAAGATTCGCAAAA-TTGAAAATTCA
11266704 TAAGA
1 TAAGA
11266709 ATTGAAGGCT
Statistics
Matches: 86, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
50 13 0.15
51 29 0.34
52 5 0.06
53 5 0.06
54 33 0.38
55 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (51 bp):
TAAGATTTATAGATTCGCAAGAATTTAAAGATTCGCAAAATTGAAAATTCA
Found at i:11266902 original size:45 final size:46
Alignment explanation
Indices: 11266839--11266932 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 46
11266829 AAATTTTTTG
*
11266839 TTAGTGATTCACAACCAAAA-TCCAAAGATTCACATTCAAAAAATT
1 TTAGAGATTCACAACCAAAATTCCAAAGATTCACATTCAAAAAATT
** * *** *
11266884 TTAGAGATTCACGCCCAAAATTTCAAAGATTTTTATTCCAAAAATT
1 TTAGAGATTCACAACCAAAATTCCAAAGATTCACATTCAAAAAATT
11266930 TTA
1 TTA
11266933 AAAATTTACA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 17 0.43
46 23 0.57
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (46 bp):
TTAGAGATTCACAACCAAAATTCCAAAGATTCACATTCAAAAAATT
Found at i:11266991 original size:45 final size:44
Alignment explanation
Indices: 11266877--11267085 Score: 127
Period size: 45 Copynumber: 4.7 Consensus size: 44
11266867 TTCACATTCA
* *** * * **
11266877 AAAAATTTTAGAGATTCACGCCCAAAATTTCAAAGATTTTTATTCC
1 AAAAACTTTAGAGATTCACATTCAAGATTTCAAAGATTTTCA--AG
* * * * *
11266923 AAAAATTTTAAAAATTTACATTCAAGATTTCAAAGATTTTCGGAG
1 AAAAACTTTAGAGATTCACATTCAAGATTTCAAAGATTTTC-AAG
** *
11266968 AAAAACTTTAGAGATTCACATTCAA-ATTTCAAAAGATTCACAAC
1 AAAAACTTTAGAGATTCACATTCAAGATTTC-AAAGATTTTCAAG
* * * * * *
11267012 TAAAAGTCT-GAAATTCACATTCAAGA-TTCAAAAATTTTCATTTG
1 AAAAACTTTAGAGATTCACATTCAAGATTTCAAAGATTTTCA--AG
* *
11267056 AAAAACTTTAGAGATTTACATTTAAGATTT
1 AAAAACTTTAGAGATTCACATTCAAGATTT
11267086 TGATGTCTCA
Statistics
Matches: 122, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
42 8 0.07
43 17 0.14
44 19 0.16
45 43 0.35
46 35 0.29
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (44 bp):
AAAAACTTTAGAGATTCACATTCAAGATTTCAAAGATTTTCAAG
Found at i:11268173 original size:21 final size:22
Alignment explanation
Indices: 11268149--11268199 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11268139 TTCTTTTCCT
11268149 TTTTCACTTTT-TTCTCATTTC
1 TTTTCACTTTTCTTCTCATTTC
** *
11268170 TTTT-TTTTTTCTTTTCATTTC
1 TTTTCACTTTTCTTCTCATTTC
11268191 TTTTCACTT
1 TTTTCACTT
11268200 CATCCATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCACTTTTCTTCTCATTTC
Found at i:11273096 original size:11 final size:11
Alignment explanation
Indices: 11273080--11273109 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11273070 CATCACTAAG
*
11273080 AAAACAATTTA
1 AAAACAACTTA
11273091 AAAACAACTTA
1 AAAACAACTTA
11273102 AAAACAAC
1 AAAACAAC
11273110 AAAAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAACAACTTA
Found at i:11274704 original size:20 final size:20
Alignment explanation
Indices: 11274671--11274713 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11274661 AATTAACATT
*
11274671 TAAAATAATAAAAATACAAA
1 TAAAATAATAAAAATAAAAA
11274691 TAAAA-AATAGAAAATAAAAA
1 TAAAATAATA-AAAATAAAAA
11274711 TAA
1 TAA
11274714 TCAAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
TAAAATAATAAAAATAAAAA
Found at i:11276429 original size:17 final size:17
Alignment explanation
Indices: 11276407--11276466 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
11276397 TTTGCCAGAT
11276407 GATTCAAGTTTTACAAA
1 GATTCAAGTTTTACAAA
*
11276424 GATTCAAAAATTTGTA-AAA
1 GATTC--AAGTTT-TACAAA
* * *
11276443 GGTTTAAGTTTCACAAA
1 GATTCAAGTTTTACAAA
11276460 GATTCAA
1 GATTCAA
11276467 AATTTGCAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 1 0.03
17 18 0.56
19 11 0.34
20 2 0.06
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (17 bp):
GATTCAAGTTTTACAAA
Found at i:11276459 original size:36 final size:35
Alignment explanation
Indices: 11276393--11276528 Score: 139
Period size: 35 Copynumber: 3.8 Consensus size: 35
11276383 CAGAGATTTA
* * * *
11276393 AAAATTTGCCAGATGATTCAAGTTTTACAAAGATTC
1 AAAATTTG-CAAAAGATTTAAGTTTCACAAAGATTC
* *
11276429 AAAAATTTGTAAAAGGTTTAAGTTTCACAAAGATTC
1 -AAAATTTGCAAAAGATTTAAGTTTCACAAAGATTC
*
11276465 AAAATTTGCAAAAGATTTAAGTTTCACAGATGA-TC
1 AAAATTTGCAAAAGATTTAAGTTTCACA-AAGATTC
** * *
11276500 AAAATTCACAGAAGATTAAAGTTTCACAA
1 AAAATTTGCAAAAGATTTAAGTTTCACAA
11276529 TGGTTTCAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
34 1 0.01
35 52 0.61
36 24 0.28
37 8 0.09
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (35 bp):
AAAATTTGCAAAAGATTTAAGTTTCACAAAGATTC
Found at i:11276478 original size:35 final size:35
Alignment explanation
Indices: 11276407--11276558 Score: 137
Period size: 35 Copynumber: 4.3 Consensus size: 35
11276397 TTTGCCAGAT
* * * *
11276407 GATTCAAGTTTTACAAAGATTCAAAAATTTGTAAAA
1 GATTAAAGTTTCACAAAGATTC-AAAATTCGCAAAA
* * *
11276443 GGTTTAAGTTTCACAAAGATTCAAAATTTGCAAAA
1 GATTAAAGTTTCACAAAGATTCAAAATTCGCAAAA
* * * *
11276478 GATTTAAGTTTCACAGATGA-TCAAAATTCACAGAA
1 GATTAAAGTTTCACA-AAGATTCAAAATTCGCAAAA
* *
11276513 GATTAAAGTTTCACAATGGTTTC-AAATTCGCAAAA
1 GATTAAAGTTTCACAA-AGATTCAAAATTCGCAAAA
*
11276548 GGTTAAAGTTT
1 GATTAAAGTTT
11276559 TGGGAAGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.01
35 73 0.74
36 24 0.24
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (35 bp):
GATTAAAGTTTCACAAAGATTCAAAATTCGCAAAA
Found at i:11276480 original size:18 final size:18
Alignment explanation
Indices: 11276421--11276481 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
11276411 CAAGTTTTAC
*
11276421 AAAGATTCAAAAATTTGTA
1 AAAGATTC-AAAATTTGCA
* * *
11276440 AAAGGTT-TAAGTTT-CA
1 AAAGATTCAAAATTTGCA
11276456 CAAAGATTCAAAATTTGCA
1 -AAAGATTCAAAATTTGCA
11276475 AAAGATT
1 AAAGATT
11276482 TAAGTTTCAC
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 12 0.38
19 8 0.25
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (18 bp):
AAAGATTCAAAATTTGCA
Found at i:11276527 original size:18 final size:17
Alignment explanation
Indices: 11276448--11276528 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
11276438 TAAAAGGTTT
11276448 AAGTTTCACAAAGATTCA
1 AAGTTTCACAAAGATT-A
* *
11276466 AAATTTGCA-AAAGATTT
1 AAGTTT-CACAAAGATTA
* *
11276483 AAGTTTCACAGATGATCA
1 AAGTTTCACA-AAGATTA
*
11276501 AA-ATTCACAGAAGATTA
1 AAGTTTCACA-AAGATTA
11276518 AAGTTTCACAA
1 AAGTTTCACAA
11276529 TGGTTTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.04
17 21 0.43
18 24 0.49
19 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (17 bp):
AAGTTTCACAAAGATTA
Found at i:11276656 original size:18 final size:18
Alignment explanation
Indices: 11276598--11276675 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
11276588 AAGATTTATA
* *
11276598 AAGATTTGTAAAGATTCC
1 AAGATTTGCAAAGATTTC
* * *
11276616 AGGATTTGCAAAGAGTCC
1 AAGATTTGCAAAGATTTC
* *
11276634 CAGATTTGCAAAGATTTT
1 AAGATTTGCAAAGATTTC
* *
11276652 AAGATTTGTAAAGGTTTC
1 AAGATTTGCAAAGATTTC
11276670 AAGATT
1 AAGATT
11276676 CATAAAGACT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (18 bp):
AAGATTTGCAAAGATTTC
Found at i:11276675 original size:36 final size:36
Alignment explanation
Indices: 11276618--11276729 Score: 93
Period size: 36 Copynumber: 3.1 Consensus size: 36
11276608 AAGATTCCAG
* * * * *
11276618 GATTTGCAAAGAG-TCCCAGATTTGCAAAGATTTTAA
1 GATTTGCTAAG-GTTCCAAGATTTACAAAGACTCTAA
* * *
11276654 GATTTG-TAAAGGTTTCAAGATTCATAAAGACTCTAA
1 GATTTGCT-AAGGTTCCAAGATTTACAAAGACTCTAA
** *
11276690 GATTTGCTAAGGTTCCAAGATTTATTAAGACTCAAA
1 GATTTGCTAAGGTTCCAAGATTTACAAAGACTCTAA
11276726 GATT
1 GATT
11276730 CACAAAGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
35 1 0.02
36 59 0.97
37 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
GATTTGCTAAGGTTCCAAGATTTACAAAGACTCTAA
Found at i:11276803 original size:16 final size:17
Alignment explanation
Indices: 11276767--11276824 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
11276757 TTCAGGTTAG
11276767 CAAGAATTTCAAATTCA
1 CAAGAATTTCAAATTCA
* *
11276784 CAAGAATTT-AGATGCA
1 CAAGAATTTCAAATTCA
*
11276800 CAAGAATTTCATATTCA
1 CAAGAATTTCAAATTCA
11276817 CAAGAATT
1 CAAGAATT
11276825 GTAGTTTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
16 14 0.39
17 22 0.61
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (17 bp):
CAAGAATTTCAAATTCA
Found at i:11279896 original size:13 final size:13
Alignment explanation
Indices: 11279878--11279903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11279868 AATTGAAACT
11279878 AAGAAATAAAAAG
1 AAGAAATAAAAAG
11279891 AAGAAATAAAAAG
1 AAGAAATAAAAAG
11279904 GTGAATTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAGAAATAAAAAG
Done.