Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 112 of 129
Found at i:20103065 original size:16 final size:15
Alignment explanation
Indices: 20103044--20103073 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20103034 AAACGATAAA
20103044 TAAAAAATGATTTTTT
1 TAAAAAAT-ATTTTTT
20103060 TAAAAAATATTTTT
1 TAAAAAATATTTTT
20103074 GCAATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAAAAAATATTTTTT
Found at i:20105486 original size:70 final size:70
Alignment explanation
Indices: 20105373--20105515 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
20105363 TTTCATGGCC
20105373 TTTTATGTTTTAATGGCTGATGATATGATACCAGTTTCTTCATCTCATGATACCTTTTTCTTCCC
1 TTTTATGTTTTAATGGCTGATGATATGATACCAGTTTCTTCATCTCATGATACCTTTTTCTTCCC
20105438 AAGCT
66 AAGCT
*
20105443 TTTTATGTTTTAATGGCTGATGATATGATACCAGTTTCTTCATCTCATGATGCCTTTTTCTTCCC
1 TTTTATGTTTTAATGGCTGATGATATGATACCAGTTTCTTCATCTCATGATACCTTTTTCTTCCC
20105508 AAGCT
66 AAGCT
20105513 TTT
1 TTT
20105516 CAGCTGCCCT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (70 bp):
TTTTATGTTTTAATGGCTGATGATATGATACCAGTTTCTTCATCTCATGATACCTTTTTCTTCCC
AAGCT
Found at i:20114108 original size:29 final size:29
Alignment explanation
Indices: 20114051--20114109 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
20114041 ATGTATTATA
*
20114051 TTAATAAAAATATTATTTAATATCTTAAT
1 TTAATAAAAATATTATTTAATATCATAAT
*
20114080 TTAATAAAAATATTATATTTATAT-ATAAT
1 TTAATAAAAATATTAT-TTAATATCATAAT
20114109 T
1 T
20114110 AAAATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATAAAAATATTATTTAATATCATAAT
Found at i:20114408 original size:23 final size:21
Alignment explanation
Indices: 20114382--20114436 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
20114372 TAAAAAATTT
*
20114382 TTATTTTTATTTTTCTCTTTTTG
1 TTATTTTT-TGTTTCT-TTTTTG
*
20114405 TTATTTTCTTGTTTCTTTTTTT
1 TTATTTT-TTGTTTCTTTTTTG
20114427 TTATTTTTTG
1 TTATTTTTTG
20114437 GTCTATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 12 0.41
23 13 0.45
24 1 0.03
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (21 bp):
TTATTTTTTGTTTCTTTTTTG
Found at i:20114411 original size:22 final size:22
Alignment explanation
Indices: 20114386--20114433 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
20114376 AAATTTTTAT
20114386 TTTTATT-TTTCTCTTTTTGTTA
1 TTTTATTGTTTCT-TTTTTGTTA
* *
20114408 TTTTCTTGTTTCTTTTTTTTTA
1 TTTTATTGTTTCTTTTTTGTTA
20114430 TTTT
1 TTTT
20114434 TTGGTCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.06, C:0.08, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTATTGTTTCTTTTTTGTTA
Found at i:20121630 original size:34 final size:34
Alignment explanation
Indices: 20121548--20121631 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 34
20121538 CAAGGAAGTG
* ** *
20121548 AATTTTCTAAAAATTTTATAACTTTTCAAAAATT
1 AATTTTCAAAAAATTAAATAACTTTTCAAAAATA
* ** *
20121582 TATTTTTGATAAATTAAATAA-TATTTCAAAAATA
1 AATTTTCAAAAAATTAAATAACT-TTTCAAAAATA
20121616 AATTTTCAAAAAATTA
1 AATTTTCAAAAAATTA
20121632 TAAAATTTAT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (34 bp):
AATTTTCAAAAAATTAAATAACTTTTCAAAAATA
Found at i:20127375 original size:16 final size:17
Alignment explanation
Indices: 20127354--20127386 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
20127344 TATATTTTTG
20127354 TTATATTT-AAATAAAA
1 TTATATTTCAAATAAAA
20127370 TTATATTTCAAATAAAA
1 TTATATTTCAAATAAAA
20127387 GATTGATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATATTTCAAATAAAA
Found at i:20127461 original size:23 final size:23
Alignment explanation
Indices: 20127428--20127479 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
20127418 TAAATTAAAG
* *
20127428 ATTAAATATTTATTTGAATACAA
1 ATTAAAAATTTATTTAAATACAA
*
20127451 ATTAAAAATTTATTTAAATATAA
1 ATTAAAAATTTATTTAAATACAA
20127474 ATTAAA
1 ATTAAA
20127480 CATTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTAAAAATTTATTTAAATACAA
Found at i:20128211 original size:14 final size:15
Alignment explanation
Indices: 20128188--20128236 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
20128178 ACATAATATT
*
20128188 TATA-TTTAAATTTA
1 TATATTTTAAAATTA
20128202 TA-ATTTTAAAATTA
1 TATATTTTAAAATTA
20128216 TATATTTATATAAA-TA
1 TATATTT-TA-AAATTA
20128232 TATAT
1 TATAT
20128237 GAAATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTTTAAAATTA
Found at i:20130051 original size:2 final size:2
Alignment explanation
Indices: 20130044--20130077 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20130034 CTCTTCTCAA
*
20130044 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20130078 GCAAAGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20133515 original size:45 final size:42
Alignment explanation
Indices: 20133430--20133719 Score: 121
Period size: 45 Copynumber: 6.8 Consensus size: 42
20133420 GACATTCTTG
* * ** * *
20133430 ACAGTGAATAGTTCAGATGAGAAGATGAAGGAAGAGATGGCC
1 ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGAAATGGCC
*
20133472 ATGACGGTAAATAGCTCAGCCGAGAAGATG-AGAAAAGAAATGGCC
1 ---ACAGTAAATAGCTCAGCCGAGAAGATGAAG-AAAGAAATGGCC
* * ** *
20133517 ACAGTAAATAGCTCAGCGGAGAATATGAAG---G-CCTTG--
1 ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGAAATGGCC
* * * * *
20133553 ACAATAAATAACTCAACTGAGAAGATGAAGAAAGAGAA-GGCTATA
1 ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGA-AATGGC---C
* * * *
20133598 ACAGTAAATAGCTCAGCTGAGAAGATG-AGACAAGAGACGGCT
1 ACAGTAAATAGCTCAGCCGAGAAGATGAAGA-AAGAAATGGCC
* * * * ***
20133640 ATATTAAATAGCTCAACTGAGAAGATGAAGAAAGATGCGGCC
1 ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGAAATGGCC
* ** *
20133682 TTGACTGTAAATAAATCAGCTGAGAAGATGAAGAAAGA
1 ---ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGA
20133720 GATCGCTGTA
Statistics
Matches: 189, Mismatches: 38, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
36 25 0.13
38 2 0.01
39 2 0.01
40 1 0.01
42 56 0.30
43 5 0.03
44 6 0.03
45 92 0.49
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (42 bp):
ACAGTAAATAGCTCAGCCGAGAAGATGAAGAAAGAAATGGCC
Found at i:20133661 original size:42 final size:42
Alignment explanation
Indices: 20133557--20133674 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 42
20133547 GCCTTGACAA
*
20133557 TAAATAACTCAACTGAGAAGATGAAGAAAGAGAAGGCTATAACAG
1 TAAATAGCTCAACTGAGAAGATG-AGAAAGAGAAGGCTAT-A-AG
* * *
20133602 TAAATAGCTCAGCTGAGAAGATGAGACAAGAGACGGCTAT-AT
1 TAAATAGCTCAACTGAGAAGATGAGA-AAGAGAAGGCTATAAG
20133644 TAAATAGCTCAACTGAGAAGATGAAGAAAGA
1 TAAATAGCTCAACTGAGAAGATG-AGAAAGA
20133675 TGCGGCCTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
42 27 0.41
43 3 0.05
44 3 0.05
45 33 0.50
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.17
Consensus pattern (42 bp):
TAAATAGCTCAACTGAGAAGATGAGAAAGAGAAGGCTATAAG
Found at i:20133671 original size:87 final size:87
Alignment explanation
Indices: 20133557--20133721 Score: 228
Period size: 87 Copynumber: 1.9 Consensus size: 87
20133547 GCCTTGACAA
**
20133557 TAAATAACTCAACTGAGAAGATGAAGAAAGA-GAAGG-CTATAACAGTAAATAGCTCAGCTGAGA
1 TAAATAACTCAACTGAGAAGATGAAGAAAGATG-AGGCCT-TAACAGTAAATAAATCAGCTGAGA
20133620 AGATG-AGACAAGAGACGGCTATAT
64 AGATGAAGA-AAGAGACGGCTATAT
* * * *
20133644 TAAATAGCTCAACTGAGAAGATGAAGAAAGATGCGGCCTTGACTGTAAATAAATCAGCTGAGAAG
1 TAAATAACTCAACTGAGAAGATGAAGAAAGATGAGGCCTTAACAGTAAATAAATCAGCTGAGAAG
20133709 ATGAAGAAAGAGA
66 ATGAAGAAAGAGA
20133722 TCGCTGTAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
87 63 0.91
88 6 0.09
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (87 bp):
TAAATAACTCAACTGAGAAGATGAAGAAAGATGAGGCCTTAACAGTAAATAAATCAGCTGAGAAG
ATGAAGAAAGAGACGGCTATAT
Found at i:20133902 original size:117 final size:117
Alignment explanation
Indices: 20133688--20133920 Score: 394
Period size: 117 Copynumber: 2.0 Consensus size: 117
20133678 GGCCTTGACT
20133688 GTAAATAAATCAGCTGAGAAGATGAAGAAAGAGATCGCTGTAACATTGAATGGCACAGCTGAGAA
1 GTAAATAAATCAGCTGAGAAGATGAAGAAAGAGATCGCTGTAACATTGAATGGCACAGCTGAGAA
* *
20133753 GATGAGAAAAGAGATGACCGTGGCAGTGTCAAAATCACCTGACATTGAAACA
66 GATGAGAAAAGAGATGACCGTGACAGTGTCAAAATCACCGGACATTGAAACA
* * *
20133805 GTAAATAAATCAGCTGAGAAGATGAAGAAAGAGATTGCTGTGACATTGAATGGCTCAGCTGAGAA
1 GTAAATAAATCAGCTGAGAAGATGAAGAAAGAGATCGCTGTAACATTGAATGGCACAGCTGAGAA
* * *
20133870 GATGAGAAAAGAGATGACTGTGACAGTTTCAAAATCACGGGACATTGAAAC
66 GATGAGAAAAGAGATGACCGTGACAGTGTCAAAATCACCGGACATTGAAAC
20133921 TACGATGGGG
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (117 bp):
GTAAATAAATCAGCTGAGAAGATGAAGAAAGAGATCGCTGTAACATTGAATGGCACAGCTGAGAA
GATGAGAAAAGAGATGACCGTGACAGTGTCAAAATCACCGGACATTGAAACA
Found at i:20136066 original size:16 final size:16
Alignment explanation
Indices: 20136042--20136073 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20136032 GCAAGCACAA
*
20136042 TAAACAAAAAAAAAAG
1 TAAAAAAAAAAAAAAG
20136058 TAAAAAAAAAAAAAAG
1 TAAAAAAAAAAAAAAG
20136074 ACCGAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAG
Found at i:20136474 original size:10 final size:11
Alignment explanation
Indices: 20136456--20136509 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
20136446 GGGAGGAGAG
20136456 AGAAAAAAAAA
1 AGAAAAAAAAA
20136467 AGAAAAAAGGAAA
1 AGAAAAAA--AAA
*
20136480 AGAAAGAAAAA
1 AGAAAAAAAAA
*
20136491 GGAAAAAAAAA
1 AGAAAAAAAAA
20136502 AGAAAAAA
1 AGAAAAAA
20136510 TCGAAGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 27 0.73
13 10 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:20136489 original size:16 final size:17
Alignment explanation
Indices: 20136460--20136500 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
20136450 GGAGAGAGAA
20136460 AAAAAAAAGAAAAAAGG
1 AAAAAAAAGAAAAAAGG
*
20136477 AAAAGAAAG-AAAAAGG
1 AAAAAAAAGAAAAAAGG
20136493 AAAAAAAA
1 AAAAAAAA
20136501 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAGG
Found at i:20136610 original size:29 final size:28
Alignment explanation
Indices: 20136560--20136616 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
20136550 AATTCTATTG
20136560 GATTAATTTTATTTTTAATAATTAATTAT
1 GATTAATTTTATTTTTAATAATT-ATTAT
* *
20136589 GATTAATTTT-CTTTTATTTAATTATTAT
1 GATTAATTTTATTTTTA-ATAATTATTAT
20136617 TAATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (28 bp):
GATTAATTTTATTTTTAATAATTATTAT
Found at i:20136704 original size:27 final size:30
Alignment explanation
Indices: 20136649--20136713 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 30
20136639 ATAATTGAGT
20136649 TAATTAATAATTACTTTTATTAAATAATTA
1 TAATTAATAATTACTTTTATTAAATAATTA
*
20136679 TGATTAAT-ATTA-TTTTA-T-AATAAATTA
1 TAATTAATAATTACTTTTATTAAAT-AATTA
20136706 TAATTAAT
1 TAATTAAT
20136714 TTAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 5 0.16
29 4 0.12
30 7 0.22
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
TAATTAATAATTACTTTTATTAAATAATTA
Found at i:20136932 original size:4 final size:4
Alignment explanation
Indices: 20136923--20136999 Score: 56
Period size: 4 Copynumber: 19.8 Consensus size: 4
20136913 TAATTTTGTT
* *
20136923 TTAA TTAA TT-A TT-A TTAA TTAA -TAA TTAA -TAA TGAGA GATAA TTGAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA-A -TTAA TT-AA
* *
20136970 TTAA TTAA -TAA TTAC TTTA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
20137000 TGATTACTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
3 15 0.26
4 36 0.62
5 6 0.10
6 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:20136994 original size:23 final size:23
Alignment explanation
Indices: 20136968--20137013 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
20136958 GAGATAATTG
20136968 AATTAATTAATAATTACT-TTATT
1 AATTAATT-ATAATTACTATTATT
*
20136991 AATTAATTATGATTACTATTATT
1 AATTAATTATAATTACTATTATT
20137014 TTATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTAATTATAATTACTATTATT
Found at i:20137020 original size:27 final size:28
Alignment explanation
Indices: 20136971--20137032 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
20136961 ATAATTGAAT
* *
20136971 TAATTAATAATTACTTTATTAATTAATTA
1 TAATTACT-ATTACTTTATTAATAAATTA
* *
20137000 TGATTACTATTATTTTA-TAATAAATTA
1 TAATTACTATTACTTTATTAATAAATTA
20137027 TAATTA
1 TAATTA
20137033 ATTTAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 14 0.50
28 8 0.29
29 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (28 bp):
TAATTACTATTACTTTATTAATAAATTA
Found at i:20137144 original size:321 final size:321
Alignment explanation
Indices: 20136575--20137205 Score: 1030
Period size: 321 Copynumber: 2.0 Consensus size: 321
20136565 ATTTTATTTT
*
20136575 TAATAATTAATTATGATTAATTTTCTTTTATTTAATTATTATTAATTAATATTAATAATGAGAGA
1 TAATAATTAATTATGATTAATTTTCTTTTAATTAATTATTATTAATTAATATTAATAATGAGAGA
*
20136640 TAATTGAGTTAATTAATAATTACTTTTATTAAATAATTATGATTAATATTATTTTATAATAAATT
66 TAATTGAATTAATTAATAATTACTTTTATTAAATAATTATGATTAATATTATTTTATAATAAATT
* **
20136705 ATAATTAATTTAATAAAAAAGTAAAATAATATTTTAAACTTATTTTAATAATATTCTTTGAACTA
131 ATAATTAATTTAATAAAAAAATAAAATAATATTTTAAACTTATACTAATAATATTCTTTGAACTA
* *
20136770 ACCAATCATATTAATACTAATTCCTACTATATTCTATTCCAACAAACTACATATCATAAAAATTA
196 ACCAAACATATTAATACTAATTCCTACTATATTCTATTCCAACAAAATACATATCATAAAAATTA
20136835 TTCTATTCTATTCCTCCTTTTTACCATTCTCACATAATATCAATTCCATTAATTAATATCA
261 TTCTATTCTATTCCTCCTTTTTACCATTCTCACATAATATCAATTCCATTAATTAATATCA
*
20136896 TAATAATTAATTATGATTAATTTTGTTTTAATTAATTATTATTAATTAATAATTAATAATGAGAG
1 TAATAATTAATTATGATTAATTTTCTTTTAATTAATTATTATTAATTAAT-ATTAATAATGAGAG
* *
20136961 ATAATTGAATTAATTAATAATTAC-TTTATTAATTAATTATGATTACTATTATTTTATAATAAAT
65 ATAATTGAATTAATTAATAATTACTTTTATTAAATAATTATGATTAATATTATTTTATAATAAAT
*
20137025 TATAATTAATTTAATAAAAAAATAAAATAATTTTTTAAACTTATACTAATAATATTCTTTGAACT
130 TATAATTAATTTAATAAAAAAATAAAATAATATTTTAAACTTATACTAATAATATTCTTTGAACT
** * * * * *
20137090 AACCAAACATATTAATACTAATTTTTTCTATATTTTATTCCAATAAAATACATATCGTAATAATT
195 AACCAAACATATTAATACTAATTCCTACTATATTCTATTCCAACAAAATACATATCATAAAAATT
* * ** * *
20137155 ATTTTATTTTATTTTTCTTTTTTACTATTCTCACATAATATCAATTCCATT
260 ATTCTATTCTATTCCTCCTTTTTACCATTCTCACATAATATCAATTCCATT
20137206 CCTTTTTTTT
Statistics
Matches: 285, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
321 248 0.87
322 37 0.13
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (321 bp):
TAATAATTAATTATGATTAATTTTCTTTTAATTAATTATTATTAATTAATATTAATAATGAGAGA
TAATTGAATTAATTAATAATTACTTTTATTAAATAATTATGATTAATATTATTTTATAATAAATT
ATAATTAATTTAATAAAAAAATAAAATAATATTTTAAACTTATACTAATAATATTCTTTGAACTA
ACCAAACATATTAATACTAATTCCTACTATATTCTATTCCAACAAAATACATATCATAAAAATTA
TTCTATTCTATTCCTCCTTTTTACCATTCTCACATAATATCAATTCCATTAATTAATATCA
Found at i:20137288 original size:15 final size:14
Alignment explanation
Indices: 20137268--20137297 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
20137258 TGAATCATTT
20137268 AAAAAAAGATAATAA
1 AAAAAAAGA-AATAA
20137283 AAAAAAAGAAATAA
1 AAAAAAAGAAATAA
20137297 A
1 A
20137298 TGGAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAAAAGAAATAA
Found at i:20138769 original size:27 final size:27
Alignment explanation
Indices: 20138739--20138791 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
20138729 TCTCTGATAG
20138739 TATGACTTTTGCTATTGTTAATCTTAC
1 TATGACTTTTGCTATTGTTAATCTTAC
*
20138766 TATGACTTTTGCTATTGTTATTCTTA
1 TATGACTTTTGCTATTGTTAATCTTA
20138792 TTAAAGGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (27 bp):
TATGACTTTTGCTATTGTTAATCTTAC
Found at i:20141221 original size:14 final size:14
Alignment explanation
Indices: 20141188--20141230 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
20141178 GAAGAAAGGG
*
20141188 GAAAAAAGCAAAAAA
1 GAAAAAAG-AAGAAA
*
20141203 AAAAAAAGAAGAAA
1 GAAAAAAGAAGAAA
*
20141217 GAAAAAAAAAGAAA
1 GAAAAAAGAAGAAA
20141231 AAAGTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAGAAA
Found at i:20141289 original size:17 final size:17
Alignment explanation
Indices: 20141267--20141312 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
20141257 GAAAGGGAAG
20141267 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
* *
20141284 AAAAAAAAGAGAATGAA
1 AAAAAAAAGAAAAAGAA
*
20141301 AGAAAAAAGAAA
1 AAAAAAAAGAAA
20141313 GAAAAGAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:20141289 original size:19 final size:20
Alignment explanation
Indices: 20141267--20141308 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
20141257 GAAAGGGAAG
20141267 AAAAAAAAGAA-AAAGAAAA
1 AAAAAAAAGAAGAAAGAAAA
*
20141286 AAAAAAGAGAATGAAAGAAAA
1 AAAAAAAAGAA-GAAAGAAAA
20141307 AA
1 AA
20141309 GAAAGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGAAGAAAGAAAA
Found at i:20141302 original size:21 final size:19
Alignment explanation
Indices: 20141267--20141314 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
20141257 GAAAGGGAAG
20141267 AAAAAAA-AGAAAAAGAAA
1 AAAAAAAGAGAAAAAGAAA
20141285 AAAAAAAGAGAATGAAAGAAA
1 AAAAAAAGAGAA--AAAGAAA
*
20141306 AAAGAAAGA
1 AAAAAAAGA
20141315 AAAGAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 4 0.15
21 15 0.58
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAGAAA
Found at i:20141328 original size:26 final size:26
Alignment explanation
Indices: 20141270--20141330 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
20141260 AGGGAAGAAA
20141270 AAAAAG-AAAAAGAAAAAAAAAAGAG
1 AAAAAGAAAAAAGAAAAAAAAAAGAG
* *
20141295 AATGAAAGAAAAAAGAAAGAAAAGAGAG
1 AA--AAAGAAAAAAGAAAAAAAAAAGAG
*
20141323 GAAAAGAA
1 AAAAAGAA
20141331 GCTGTTGGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
27 4 0.13
28 18 0.60
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAAAGAAAAAAAAAAGAG
Found at i:20141378 original size:20 final size:20
Alignment explanation
Indices: 20141353--20141392 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20141343 TGAAAGAGAG
*
20141353 AGAAAACAAACAAAAAAAAA
1 AGAAAAAAAACAAAAAAAAA
*
20141373 AGAAAAAAAATAAAAAAAAA
1 AGAAAAAAAACAAAAAAAAA
20141393 CCAAGAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.03
Consensus pattern (20 bp):
AGAAAAAAAACAAAAAAAAA
Found at i:20141390 original size:23 final size:25
Alignment explanation
Indices: 20141345--20141408 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
20141335 TTGGCATCTG
* *
20141345 AAAGAGAGAGAAAACAAACAAAAAAA
1 AAAGAAAGA-AAAATAAACAAAAAAA
*
20141371 AAAGAAA-AAAAATAAA-AAAAAAC
1 AAAGAAAGAAAAATAAACAAAAAAA
*
20141394 CAAGAAAGAAAAATA
1 AAAGAAAGAAAAATA
20141409 TAGAGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 12 0.36
24 14 0.42
25 1 0.03
26 6 0.18
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.03
Consensus pattern (25 bp):
AAAGAAAGAAAAATAAACAAAAAAA
Found at i:20141407 original size:24 final size:21
Alignment explanation
Indices: 20141364--20141408 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
20141354 GAAAACAAAC
20141364 AAAAAAAAAAGAAAAAAAATA
1 AAAAAAAAAAGAAAAAAAATA
20141385 AAAAAAAACCAAGAAAGAAAAATA
1 AAAAAAAA--AAGAAA-AAAAATA
20141409 TAGAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
23 6 0.29
24 7 0.33
ACGTcount: A:0.84, C:0.04, G:0.07, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAAATA
Found at i:20144731 original size:13 final size:13
Alignment explanation
Indices: 20144713--20144747 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
20144703 TTATTTGTAT
20144713 TTTAATTTTTTAG
1 TTTAATTTTTTAG
20144726 TTTAA-TTTTTAG
1 TTTAATTTTTTAG
*
20144738 TCTAATTTTT
1 TTTAATTTTT
20144748 GTTTTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (13 bp):
TTTAATTTTTTAG
Found at i:20144734 original size:12 final size:12
Alignment explanation
Indices: 20144713--20144751 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20144703 TTATTTGTAT
20144713 TTTAATTTTTTAG
1 TTTAA-TTTTTAG
20144726 TTTAATTTTTAG
1 TTTAATTTTTAG
*
20144738 TCTAATTTTT-G
1 TTTAATTTTTAG
20144749 TTT
1 TTT
20144752 TTTTAGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 16 0.67
13 5 0.21
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:20145362 original size:22 final size:23
Alignment explanation
Indices: 20145321--20145365 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20145311 TTTTGCATGT
20145321 TTATTTGCATGATTTATATATTA
1 TTATTTGCATGATTTATATATTA
20145344 TTATTTGCATGA-TTATATATTA
1 TTATTTGCATGATTTATATATTA
20145366 AATTGCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (23 bp):
TTATTTGCATGATTTATATATTA
Found at i:20145371 original size:20 final size:20
Alignment explanation
Indices: 20145325--20145434 Score: 74
Period size: 22 Copynumber: 5.6 Consensus size: 20
20145315 GCATGTTTAT
*
20145325 TTGCATGATTTATATATTATTAT
1 TTGCATGA-TTATATATTA--AA
20145348 TTGCATGATTATATATTAAA
1 TTGCATGATTATATATTAAA
20145368 TTGCAT-A-T-T-TA-T---
1 TTGCATGATTATATATTAAA
* *
20145380 TTGCATAATTTATATATTATTAT
1 TTGCATGA-TTATATATTA--AA
20145403 TTGCATGATTATATATTAAA
1 TTGCATGATTATATATTAAA
*
20145423 TTGCATGTTTAT
1 TTGCATGATTAT
20145435 TACATGTTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
12 6 0.08
13 1 0.01
15 2 0.03
16 3 0.04
17 3 0.04
18 2 0.03
19 1 0.01
20 19 0.26
22 20 0.28
23 15 0.21
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (20 bp):
TTGCATGATTATATATTAAA
Found at i:20145379 original size:55 final size:55
Alignment explanation
Indices: 20145313--20145465 Score: 242
Period size: 55 Copynumber: 2.9 Consensus size: 55
20145303 GTATTTATTT
20145313 TTGCATGTTTATTTGCATGATTTATATATTATTATTTGCATGATTATATATTAAA
1 TTGCATGTTTATTTGCATGATTTATATATTATTATTTGCATGATTATATATTAAA
* *
20145368 TTGCATATTTATTTGCATAATTTATATATTATTATTTGCATGATTATATATTAAA
1 TTGCATGTTTATTTGCATGATTTATATATTATTATTTGCATGATTATATATTAAA
* *
20145423 TTGCATGTTTA-TTACATG-TTTATATA-T-TTAATTGCATGATTAT
1 TTGCATGTTTATTTGCATGATTTATATATTATTATTTGCATGATTAT
20145466 TAATTTATTT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 15 0.16
52 1 0.01
53 8 0.09
54 5 0.05
55 63 0.68
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (55 bp):
TTGCATGTTTATTTGCATGATTTATATATTATTATTTGCATGATTATATATTAAA
Found at i:20145417 original size:22 final size:23
Alignment explanation
Indices: 20145376--20145420 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20145366 AATTGCATAT
20145376 TTATTTGCATAATTTATATATTA
1 TTATTTGCATAATTTATATATTA
*
20145399 TTATTTGCATGA-TTATATATTA
1 TTATTTGCATAATTTATATATTA
20145421 AATTGCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (23 bp):
TTATTTGCATAATTTATATATTA
Found at i:20145447 original size:31 final size:31
Alignment explanation
Indices: 20145406--20145467 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
20145396 TTATTATTTG
*
20145406 CATGATTATATATTAAATTGCATGTTTATTA
1 CATGATTATATATTAAATTGCATGATTATTA
* *
20145437 CATGTTTATATATTTAATTGCATGATTATTA
1 CATGATTATATATTAAATTGCATGATTATTA
20145468 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (31 bp):
CATGATTATATATTAAATTGCATGATTATTA
Found at i:20145578 original size:19 final size:20
Alignment explanation
Indices: 20145531--20145578 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
20145521 TTTATTTATT
*
20145531 TATTATTATTGCATGATTTTA
1 TATTA-TATTGCATGATTTAA
20145552 TATT-TATTGCATGA-TTAA
1 TATTATATTGCATGATTTAA
20145570 TATTATATT
1 TATTATATT
20145579 TGAATGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
21 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.56
Consensus pattern (20 bp):
TATTATATTGCATGATTTAA
Found at i:20145766 original size:20 final size:19
Alignment explanation
Indices: 20145677--20145768 Score: 77
Period size: 18 Copynumber: 5.0 Consensus size: 19
20145667 TATGAATGGT
** *
20145677 TATTAATATATTTGTGTGG
1 TATTAATATATTTGCATGA
*
20145696 TATT-TTATATTTGCATGA
1 TATTAATATATTTGCATGA
*
20145714 TA-TAATATATTTACATGA
1 TATTAATATATTTGCATGA
*
20145732 T-TGTTAT-TA-TTGCATGA
1 TAT-TAATATATTTGCATGA
20145749 TAATTAATATATTTGCATGA
1 T-ATTAATATATTTGCATGA
20145769 CATTCTTGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
17 9 0.16
18 30 0.53
19 10 0.18
20 8 0.14
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (19 bp):
TATTAATATATTTGCATGA
Found at i:20147301 original size:139 final size:139
Alignment explanation
Indices: 20147137--20147501 Score: 595
Period size: 139 Copynumber: 2.6 Consensus size: 139
20147127 TCATTTACCG
* * * * *
20147137 TTTCAATTTTGTACATAATTGTGGATAAAAATTCTTATTTTTCACTATGTATTTCATACATGTAT
1 TTTCAATTTTGTACATAGTTATGGATATAAATTCTTGTTTTTCACTATGTATTGCATACATGTAT
* *
20147202 TTGCATATACATTTTTATCCATGTAAATATTTTTGTATGTACATTAATTCATTTGTTTGGAAAAT
66 TTGCATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTAATTCATTTGTTTGAAAAAT
20147267 TCTTTGCCT
131 TCTTTGCCT
* *
20147276 TTTCAATTTTGTACATTGTTATGGATATAAATTCTTGTTTTTCACTATATATTGCATACATGTAT
1 TTTCAATTTTGTACATAGTTATGGATATAAATTCTTGTTTTTCACTATGTATTGCATACATGTAT
20147341 TTGCATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTAATTCATTTGTTTGAAAAAT
66 TTGCATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTAATTCATTTGTTTGAAAAAT
20147406 TCTTTGCCT
131 TCTTTGCCT
* * * *
20147415 TTTCAATTTTGTAAATAGTTTTGGATATGAATTCTTGTTTTTCATTATGTATTGCATACATGTAT
1 TTTCAATTTTGTACATAGTTATGGATATAAATTCTTGTTTTTCACTATGTATTGCATACATGTAT
* *
20147480 TTACATATAAATTTTTATCCAT
66 TTGCATATACATTTTTATCCAT
20147502 TTTTGTATGT
Statistics
Matches: 209, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 209 1.00
ACGTcount: A:0.28, C:0.11, G:0.10, T:0.50
Consensus pattern (139 bp):
TTTCAATTTTGTACATAGTTATGGATATAAATTCTTGTTTTTCACTATGTATTGCATACATGTAT
TTGCATATACATTTTTATCCATGTAAACATTTTTGTATGTACATTAATTCATTTGTTTGAAAAAT
TCTTTGCCT
Found at i:20148507 original size:10 final size:10
Alignment explanation
Indices: 20148492--20148530 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
20148482 GTGAATTGCC
*
20148492 AAAAAAAGAG
1 AAAAAAAGAA
20148502 AAAAAAAGAA
1 AAAAAAAGAA
20148512 AAAAAAAGCAA
1 AAAAAAAG-AA
20148523 AAGAAAAA
1 AA-AAAAA
20148531 TAGAAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.65
11 4 0.15
12 5 0.19
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:20148920 original size:21 final size:21
Alignment explanation
Indices: 20148896--20148935 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20148886 AAAGGGAAAT
20148896 AAAAGAAAAATGAAAAATAAA
1 AAAAGAAAAATGAAAAATAAA
* *
20148917 AAAAGAAAGATGGAAAATA
1 AAAAGAAAAATGAAAAATA
20148936 TGGAACGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAAGAAAAATGAAAAATAAA
Found at i:20150541 original size:37 final size:36
Alignment explanation
Indices: 20150471--20150542 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
20150461 ATCTTAGATG
* **
20150471 TGAATCTCTAAGATTTTTTAATGTAAATGTTGAATA
1 TGAATCTCTAAGATTTTTGAATGTAAACCTTGAATA
* *
20150507 TGAATCTTTAAGATATTTTGAATGTGAACCTTGAAT
1 TGAATCTCTAAGAT-TTTTGAATGTAAACCTTGAAT
20150543 GTTAGCTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (36 bp):
TGAATCTCTAAGATTTTTGAATGTAAACCTTGAATA
Found at i:20150568 original size:36 final size:35
Alignment explanation
Indices: 20150521--20150606 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
20150511 TCTTTAAGAT
* * * *
20150521 ATTTTGAATGTGAACCTTGAATGTTAGCTTCTAAG
1 ATTTTGAATGTGAACCTTAAAGGTAAACTTCTAAG
*
20150556 AGTTTTGAATGTGAATCTTAAAGGTAAACTTCTAAG
1 A-TTTTGAATGTGAACCTTAAAGGTAAACTTCTAAG
*
20150592 ATTTTCAAATGTGAA
1 ATTTT-GAATGTGAA
20150607 TCTTTGGATG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 5 0.12
36 38 0.88
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (35 bp):
ATTTTGAATGTGAACCTTAAAGGTAAACTTCTAAG
Found at i:20150759 original size:18 final size:17
Alignment explanation
Indices: 20150697--20150762 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 17
20150687 TTTTGGGACC
* *
20150697 TTTGTAAATCTTGGGATT
1 TTTGTGAATCTT-GGAAT
* * *
20150715 TTTATGAATTTTGGAAC
1 TTTGTGAATCTTGGAAT
*
20150732 TTTGACGAATCTTGGAAAT
1 TTTG-TGAATCTTGG-AAT
20150751 TTTGTGAATCTT
1 TTTGTGAATCTT
20150763 AAATCTTTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
17 6 0.17
18 24 0.67
19 6 0.17
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.47
Consensus pattern (17 bp):
TTTGTGAATCTTGGAAT
Found at i:20150771 original size:18 final size:18
Alignment explanation
Indices: 20150757--20150792 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20150747 AAATTTTGTG
20150757 AATCTTAAATCTTTTGCA
1 AATCTTAAATCTTTTGCA
20150775 AATCTTAAATCTTTTGCA
1 AATCTTAAATCTTTTGCA
20150793 TTGCATTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (18 bp):
AATCTTAAATCTTTTGCA
Found at i:20150806 original size:23 final size:23
Alignment explanation
Indices: 20150780--20150827 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
20150770 TTGCAAATCT
20150780 TAAATCTT-TTGCATTGCATTCAC
1 TAAAT-TTATTGCATTGCATTCAC
20150803 TAAATTTATTGCATTGCATTCAC
1 TAAATTTATTGCATTGCATTCAC
20150826 TA
1 TA
20150828 TATCCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (23 bp):
TAAATTTATTGCATTGCATTCAC
Found at i:20150835 original size:18 final size:17
Alignment explanation
Indices: 20150814--20150863 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
20150804 AAATTTATTG
20150814 CATTGCATTCACTATAT
1 CATTGCATTCACTATAT
*
20150831 CCATTGTATTCACTATAT
1 -CATTGCATTCACTATAT
*
20150849 CATTTGGATTCACTA
1 CA-TTGCATTCACTA
20150864 CATGTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (17 bp):
CATTGCATTCACTATAT
Found at i:20150836 original size:23 final size:23
Alignment explanation
Indices: 20150788--20150836 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
20150778 CTTAAATCTT
**
20150788 TTGCATTGCATTCACTAAATTTA
1 TTGCATTGCATTCACTAAATCCA
*
20150811 TTGCATTGCATTCACTATATCCA
1 TTGCATTGCATTCACTAAATCCA
20150834 TTG
1 TTG
20150837 TATTCACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (23 bp):
TTGCATTGCATTCACTAAATCCA
Found at i:20151221 original size:22 final size:22
Alignment explanation
Indices: 20151176--20151235 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
20151166 TCCTTCGAGT
*
20151176 ATAATTTATAAGACCTCTGAGC
1 ATAATTTATAAGACCTCAGAGC
* *
20151198 ATGATTTGTAAGACCTACAG-GC
1 ATAATTTATAAGACCT-CAGAGC
*
20151220 ATAATTTATAATACCT
1 ATAATTTATAAGACCT
20151236 TTGGGTATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (22 bp):
ATAATTTATAAGACCTCAGAGC
Found at i:20151357 original size:43 final size:43
Alignment explanation
Indices: 20151310--20151633 Score: 341
Period size: 43 Copynumber: 7.6 Consensus size: 43
20151300 GTAAGGAAAA
*
20151310 ATTTTATTTTTTAAAAGTTTCAATGCCTCAGTTGTGGGGGAGC
1 ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
* * * *
20151353 ATTTTATTTTTCAAAAAGTTTCAAAGCCTCGGTTGT--GAGAAC
1 ATTTTATTTTT-TAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
** * * * *
20151395 ATTTTATTTTTCCAAAGTTTCAAATG-TTCAATTGTAGAGGAGC
1 ATTTTATTTTTTAAAAGTTTCAAA-GCCTCAGTTGTGGGGGAGC
* * *
20151438 ATTTTATTTTTTCAAAGTTTCAAAGCCTAAGTTGTGGGAGAGC
1 ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
* * * * *
20151481 ATTTTA-TTTTTCAAAGTTCCAAAGTCTCAGTTATGGAGGAGC
1 ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
* * * *
20151523 ATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTATGGGGGAAC
1 ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
* * *
20151566 ATTTTATTTTTCAAAATTTTCAAAGCCTCAGTTGTGGGGGTGC
1 ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
* *
20151609 ATTTTGTTTTTTGGAAAGTTTCAAA
1 ATTTTATTTTTT-AAAAGTTTCAAA
20151634 CCGTTGTCAA
Statistics
Matches: 232, Mismatches: 42, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
41 17 0.07
42 53 0.23
43 131 0.56
44 31 0.13
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (43 bp):
ATTTTATTTTTTAAAAGTTTCAAAGCCTCAGTTGTGGGGGAGC
Found at i:20151437 original size:85 final size:84
Alignment explanation
Indices: 20151267--20151633 Score: 330
Period size: 85 Copynumber: 4.3 Consensus size: 84
20151257 TTTATTACCT
* * ** * * *
20151267 TTTTAGTTTTCAAAAGTTTCAAAAGTCTTAGTTGTAAGGAAAAATTTTATTTTTTAAAAGTTTC-
1 TTTTATTTTTCAAAAGTTTC-AAAGCCTCGGTTGTGA-G-AACATTTTATTTTTCAAAAGTTTCA
* *
20151331 AATGCCTCAGTTGTGGGGGAGCA
63 AATG-TTCAGTTGTGGAGGAGCA
*
20151354 TTTTATTTTTCAAAAAGTTTCAAAGCCTCGGTTGTGAGAACATTTTATTTTTCCAAAGTTTCAAA
1 TTTTATTTTTC-AAAAGTTTCAAAGCCTCGGTTGTGAGAACATTTTATTTTTCAAAAGTTTCAAA
* *
20151419 TGTTCAATTGTAGAGGAGCA
65 TGTTCAGTTGTGGAGGAGCA
** * *
20151439 TTTTATTTTTTC-AAAGTTTCAAAGCCTAAGTTGTGGGAGAGCATTTTATTTTTC-AAAGTTCCA
1 TTTTA-TTTTTCAAAAGTTTCAAAGCCTCGGTTGT--GAGAACATTTTATTTTTCAAAAGTTTCA
*
20151502 AA-GTCTCAGTTATGGAGGAGCA
63 AATGT-TCAGTTGTGGAGGAGCA
* * * * *
20151524 TTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTATGGGGGAACATTTTATTTTTCAAAATTTTCAA
1 TTTTATTTTTCAAAAGTTTCAAAGCCTC-GGT-TGTGAGAACATTTTATTTTTCAAAAGTTTCAA
* * *
20151589 A-GCCTCAGTTGTGGGGGTGCA
64 ATG-TTCAGTTGTGGAGGAGCA
* **
20151610 TTTTGTTTTTTGGAAAGTTTCAAA
1 TTTT-ATTTTTCAAAAGTTTCAAA
20151634 CCGTTGTCAA
Statistics
Matches: 233, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
84 28 0.12
85 99 0.42
86 57 0.24
87 40 0.17
88 9 0.04
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (84 bp):
TTTTATTTTTCAAAAGTTTCAAAGCCTCGGTTGTGAGAACATTTTATTTTTCAAAAGTTTCAAAT
GTTCAGTTGTGGAGGAGCA
Found at i:20151485 original size:128 final size:128
Alignment explanation
Indices: 20151267--20151633 Score: 404
Period size: 128 Copynumber: 2.8 Consensus size: 128
20151257 TTTATTACCT
* * * * *
20151267 TTTTAGTTTTCAAAAGTTTCAAAAGTCTT-AGTTGTA-AGGAAAAATTTTATTTTTTAAAAGTTT
1 TTTTATTTTTCAAAAGTTTC-AAAG-CTTCAATTATAGAGG-AACATTTTATTTTTTCAAAGTTT
* * *
20151330 CAATGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAAAGTTTCAAAGCCTCGGTTGT-GA-GA
63 CAAAGCCTCAGTTGTGGGGGAGCATTTTATTTTTC--AAAGTTTCAAAGCCTCAGTTATGGAGGA
20151393 ACA
126 ACA
* * *
20151396 TTTTATTTTTCCAAAGTTTCAAATG-TTCAATTGTAGAGGAGCATTTTATTTTTTCAAAGTTTCA
1 TTTTATTTTTCAAAAGTTTCAAA-GCTTCAATTATAGAGGAACATTTTATTTTTTCAAAGTTTCA
* * * * *
20151460 AAGCCTAAGTTGTGGGAGAGCATTTTATTTTTCAAAGTTCCAAAGTCTCAGTTATGGAGGAGCA
65 AAGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTATGGAGGAACA
* * * *
20151524 TTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTATGGGGGAACATTTTA-TTTTTCAAAATTTTCA
1 TTTTATTTTTCAAAAGTTTCAAAGCTTCAATTATAGAGGAACATTTTATTTTTTC-AAAGTTTCA
* * *
20151588 AAGCCTCAGTTGTGGGGGTGCATTTTGTTTTTTGGAAAGTTTCAAA
65 AAGCCTCAGTTGTGGGGGAGCATTTT-ATTTTT-CAAAGTTTCAAA
20151634 CCGTTGTCAA
Statistics
Matches: 202, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
126 18 0.09
127 11 0.05
128 136 0.67
129 27 0.13
130 10 0.05
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (128 bp):
TTTTATTTTTCAAAAGTTTCAAAGCTTCAATTATAGAGGAACATTTTATTTTTTCAAAGTTTCAA
AGCCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTATGGAGGAACA
Found at i:20151902 original size:14 final size:14
Alignment explanation
Indices: 20151883--20151913 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20151873 CTAAATTTTA
*
20151883 TTTTTATTTTAATT
1 TTTTTAGTTTAATT
20151897 TTTTTAGTTTAATT
1 TTTTTAGTTTAATT
20151911 TTT
1 TTT
20151914 GTTTTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTAGTTTAATT
Found at i:20151911 original size:20 final size:20
Alignment explanation
Indices: 20151878--20151924 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
20151868 AAGCCCTAAA
* *
20151878 TTTTATTTTTATTTTAATTT
1 TTTTAGTTTAATTTTAATTT
**
20151898 TTTTAGTTTAATTTTTGTTT
1 TTTTAGTTTAATTTTAATTT
20151918 TTTTAGT
1 TTTTAGT
20151925 AAAAAAAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTTAGTTTAATTTTAATTT
Found at i:20152567 original size:20 final size:19
Alignment explanation
Indices: 20152528--20152586 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 19
20152518 TTTTGCATGT
20152528 TTATTTGCATGATTTATATATTA
1 TTATTTGCATGA--T-TATA-TA
20152551 TTATTTGCATGATTATATA
1 TTATTTGCATGATTATATA
* *
20152570 TTAAATTGCATGTTTAT
1 TT-ATTTGCATGATTAT
20152587 TACATGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 4 0.12
20 16 0.48
21 1 0.03
23 12 0.36
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTTGCATGATTATATA
Found at i:20152569 original size:22 final size:23
Alignment explanation
Indices: 20152528--20152572 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20152518 TTTTGCATGT
20152528 TTATTTGCATGATTTATATATTA
1 TTATTTGCATGATTTATATATTA
20152551 TTATTTGCATGA-TTATATATTA
1 TTATTTGCATGATTTATATATTA
20152573 AATTGCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (23 bp):
TTATTTGCATGATTTATATATTA
Found at i:20152599 original size:31 final size:31
Alignment explanation
Indices: 20152558--20152618 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
20152548 TTATTATTTG
*
20152558 CATGATTATATATTAAATTGCATGTTTATTA
1 CATGATTATATATTAAATTGCATGTCTATTA
* *
20152589 CATGTTTATATATTTAATTGCATGTCTATT
1 CATGATTATATATTAAATTGCATGTCTATT
20152619 TGCATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (31 bp):
CATGATTATATATTAAATTGCATGTCTATTA
Found at i:20152727 original size:19 final size:18
Alignment explanation
Indices: 20152703--20152798 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 18
20152693 TTATTTATTA
20152703 TTATTGCATGATTGTATAT
1 TTATTGCATGATT-TATAT
20152722 TTATTGCATGA--TATAT
1 TTATTGCATGATTTATAT
* *
20152738 GTTATTGTATGATTAATAT
1 -TTATTGCATGATTTATAT
*
20152757 TATATTTGAATGA--TAT-T
1 T-TA-TTGCATGATTTATAT
* *
20152774 TGATTGCATGTTTCTATAT
1 TTATTGCATGATT-TATAT
20152793 TTATTG
1 TTATTG
20152799 TGTGCATAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.10
16 6 0.10
17 12 0.20
18 6 0.10
19 23 0.38
20 7 0.12
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.53
Consensus pattern (18 bp):
TTATTGCATGATTTATAT
Found at i:20152920 original size:18 final size:18
Alignment explanation
Indices: 20152885--20152968 Score: 77
Period size: 18 Copynumber: 4.7 Consensus size: 18
20152875 TGTGGTATTT
20152885 TATATTTGCATG--ATAA
1 TATATTTGCATGATATAA
20152901 TATATTTGCATGATATAA
1 TATATTTGCATGATATAA
* **
20152919 TATATTTACATGAT-TGT
1 TATATTTGCATGATATAA
*
20152936 TAT-TATTGTATGATAATTAA
1 TATAT-TTGCATGAT-A-TAA
20152956 TATATTTGCATGA
1 TATATTTGCATGA
20152969 CATTTTTGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.25
17 11 0.21
18 17 0.32
20 11 0.21
21 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (18 bp):
TATATTTGCATGATATAA
Found at i:20153020 original size:24 final size:24
Alignment explanation
Indices: 20152972--20153025 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
20152962 TGCATGACAT
*
20152972 TTTTGCATGAATATTTTAGCGTGA
1 TTTTGCATGAATATTTTAGCATGA
20152996 TTTTGACATG-ATATTATTA-CATGA
1 TTTTG-CATGAATATT-TTAGCATGA
20153020 TATTTG
1 T-TTTG
20153026 GTATGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (24 bp):
TTTTGCATGAATATTTTAGCATGA
Found at i:20164335 original size:8 final size:8
Alignment explanation
Indices: 20164324--20164411 Score: 69
Period size: 8 Copynumber: 11.5 Consensus size: 8
20164314 TTAGAGTCTC
20164324 GTTTTAGG
1 GTTTTAGG
*
20164332 GTTTTAAG
1 GTTTTAGG
* *
20164340 ATTTTAAG
1 GTTTTAGG
20164348 GTTTT-GG
1 GTTTTAGG
20164355 GTTTTAGG
1 GTTTTAGG
20164363 GTTTT--G
1 GTTTTAGG
20164369 GTTTT-GAG
1 GTTTTAG-G
* *
20164377 ATTTTAAG
1 GTTTTAGG
*
20164385 GTTTCAGG
1 GTTTTAGG
*
20164393 G-TTTATG
1 GTTTTAGG
20164400 GTTTTAGG
1 GTTTTAGG
20164408 GTTT
1 GTTT
20164412 CAAATTTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
6 6 0.10
7 11 0.17
8 46 0.73
ACGTcount: A:0.16, C:0.01, G:0.31, T:0.52
Consensus pattern (8 bp):
GTTTTAGG
Found at i:20164365 original size:15 final size:14
Alignment explanation
Indices: 20164324--20164411 Score: 70
Period size: 15 Copynumber: 5.9 Consensus size: 14
20164314 TTAGAGTCTC
20164324 GTTTTAGGGTTTTAAG
1 GTTTTAGGGTTTT--G
* *
20164340 ATTTTAAGGTTTTGG
1 GTTTTAGGGTTTT-G
20164355 GTTTTAGGGTTTTG
1 GTTTTAGGGTTTTG
*
20164369 GTTTT-GAGATTTTAAG
1 GTTTTAG-GGTTTT--G
*
20164385 GTTTCAGGGTTTATG
1 GTTTTAGGGTTT-TG
20164400 GTTTTAGGGTTT
1 GTTTTAGGGTTT
20164412 CAAATTTTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 1 0.02
14 11 0.19
15 24 0.41
16 20 0.34
17 2 0.03
ACGTcount: A:0.16, C:0.01, G:0.31, T:0.52
Consensus pattern (14 bp):
GTTTTAGGGTTTTG
Found at i:20164372 original size:37 final size:38
Alignment explanation
Indices: 20164324--20164434 Score: 138
Period size: 37 Copynumber: 2.9 Consensus size: 38
20164314 TTAGAGTCTC
*
20164324 GTTTTAGGGTTTTAAGATTTTAAGGTTTTGGGTTTTAGG
1 GTTTTA-GGTTTTAAGATTTTAAGGTTTAGGGTTTTAGG
* *
20164363 GTTTT-GGTTTTGAGATTTTAAGGTTTCAGGG-TTTATG
1 GTTTTAGGTTTTAAGATTTTAAGGTTT-AGGGTTTTAGG
*
20164400 GTTTTAGGGTTTCAA-ATTTTAAGGTTTAGGGTTTT
1 GTTTTA-GGTTTTAAGATTTTAAGGTTTAGGGTTTT
20164435 GGATCTTAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
37 34 0.54
38 18 0.29
39 11 0.17
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.51
Consensus pattern (38 bp):
GTTTTAGGTTTTAAGATTTTAAGGTTTAGGGTTTTAGG
Found at i:20164412 original size:23 final size:22
Alignment explanation
Indices: 20164347--20164413 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
20164337 AAGATTTTAA
*
20164347 GGTTTTGGGTTTTAGGGTTT--T
1 GGTTTT-GGTTTTAGGGTTTCAG
*
20164368 GGTTTTGAGATTTTAAGGTTTCAG
1 GGTTTTG-G-TTTTAGGGTTTCAG
20164392 GGTTTATGGTTTTAGGGTTTCA
1 GGTTT-TGGTTTTAGGGTTTCA
20164414 AATTTTAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 1 0.03
21 7 0.18
22 10 0.26
23 12 0.32
24 6 0.16
25 2 0.05
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (22 bp):
GGTTTTGGTTTTAGGGTTTCAG
Found at i:20164462 original size:15 final size:15
Alignment explanation
Indices: 20164424--20164471 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
20164414 AATTTTAAGG
*
20164424 TTTAGGGTTTTG-GA
1 TTTAGGGTTTTGAAA
*
20164438 TCTTAAGGTTTTGAAA
1 T-TTAGGGTTTTGAAA
20164454 TTTAGGGTTTTGAAA
1 TTTAGGGTTTTGAAA
20164469 TTT
1 TTT
20164472 TAAGGTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTTGAAA
Found at i:20164478 original size:16 final size:15
Alignment explanation
Indices: 20164440--20164479 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
20164430 GTTTTGGATC
20164440 TTAAGGTTTTGAAAT
1 TTAAGGTTTTGAAAT
*
20164455 TTAGGGTTTTGAAATT
1 TTAAGGTTTTGAAA-T
20164471 TTAAGGTTT
1 TTAAGGTTT
20164480 CAAAGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (15 bp):
TTAAGGTTTTGAAAT
Found at i:20164860 original size:23 final size:23
Alignment explanation
Indices: 20164834--20164888 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
20164824 AATTTTAGGG
20164834 TTTAAGGTTGAAAGAG-TTTGGAT
1 TTTAAGGTTG-AAGAGTTTTGGAT
* * *
20164857 TTTAGGGTTGTAGGGTTTTGGAT
1 TTTAAGGTTGAAGAGTTTTGGAT
*
20164880 TTCAAGGTT
1 TTTAAGGTT
20164889 TTGAAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.44
Consensus pattern (23 bp):
TTTAAGGTTGAAGAGTTTTGGAT
Found at i:20165034 original size:16 final size:15
Alignment explanation
Indices: 20165012--20165057 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
20165002 TTTTCATAAA
20165012 TTTTATTATTATTGT
1 TTTTATTATTATTGT
20165027 TGTTTATTACTTATTTGT
1 T-TTTATTA-TTA-TTGT
*
20165045 TTTTATTCTTATT
1 TTTTATTATTATT
20165058 ATTTAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.11
16 10 0.37
17 9 0.33
18 5 0.19
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTATTATTATTGT
Found at i:20166179 original size:20 final size:21
Alignment explanation
Indices: 20166144--20166184 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
20166134 TTTTGTTGCT
20166144 TTTTTGGTGGAGTTTTTTTTTG
1 TTTTTGGT-GAGTTTTTTTTTG
20166166 TTTTTGGT-AGTTTTTTTTT
1 TTTTTGGTGAGTTTTTTTTT
20166185 ATGTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.05, C:0.00, G:0.22, T:0.73
Consensus pattern (21 bp):
TTTTTGGTGAGTTTTTTTTTG
Found at i:20166415 original size:3 final size:3
Alignment explanation
Indices: 20166407--20166485 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
20166397 ATTTTTTGTG
* * *
20166407 TAT TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TGT TGT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
20166452 TAC TAT TAT TTT TGT TAT TAG TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20166486 TTTCTTTCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 6 0.10
3 56 0.90
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:20166425 original size:10 final size:11
Alignment explanation
Indices: 20166407--20166436 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
20166397 ATTTTTTGTG
20166407 TATTATTATAT
1 TATTATTATAT
20166418 TA-TATTATAT
1 TATTATTATAT
20166428 TATTATTAT
1 TATTATTAT
20166437 TGTTGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTATAT
Found at i:20166482 original size:24 final size:23
Alignment explanation
Indices: 20166420--20166488 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
20166410 TATTATATTA
*
20166420 TATTATATTATTATTATTGTTGT
1 TATTATATTATTATTATTTTTGT
* *
20166443 TATTATTACTACTATTATTTTTGT
1 TATTA-TATTATTATTATTTTTGT
*
20166467 TATTAGTATTGTTATTATTTTT
1 TATTA-TATTATTATTATTTTT
20166489 CTTTCTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 5 0.13
24 33 0.87
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (23 bp):
TATTATATTATTATTATTTTTGT
Found at i:20167303 original size:23 final size:23
Alignment explanation
Indices: 20167270--20167313 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
20167260 TGATTGTAGG
20167270 TTTTTTTCCATTTT-ATTTTTAT
1 TTTTTTTCCATTTTCATTTTTAT
20167292 TTTTTTTGCCATTTTCATTTTT
1 TTTTTTT-CCATTTTCATTTTT
20167314 TAAGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTTCCATTTTCATTTTTAT
Found at i:20172040 original size:16 final size:15
Alignment explanation
Indices: 20172021--20172068 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
20172011 AAGAAAGAGG
20172021 AAAAAAGAGAAAAAAA
1 AAAAAAGA-AAAAAAA
* *
20172037 AAAAAAGATAAAAGA
1 AAAAAAGAAAAAAAA
*
20172052 ATAAAAGATAAAAAAA
1 AAAAAAGA-AAAAAAA
20172068 A
1 A
20172069 TGAAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAGAAAAAAAA
Found at i:20172041 original size:15 final size:15
Alignment explanation
Indices: 20172021--20172068 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20172011 AAGAAAGAGG
20172021 AAAAAAGAGAAAAAA
1 AAAAAAGAGAAAAAA
20172036 AAAAAA-AGATAAAAGA
1 AAAAAAGAGA-AAAA-A
* *
20172052 ATAAAAGATAAAAAA
1 AAAAAAGAGAAAAAA
20172067 AA
1 AA
20172069 TGAAGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.11
15 12 0.44
16 10 0.37
17 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAGAGAAAAAA
Found at i:20174446 original size:3 final size:3
Alignment explanation
Indices: 20174438--20174506 Score: 74
Period size: 3 Copynumber: 24.3 Consensus size: 3
20174428 TTTTTATGTG
* **
20174438 TAT TAT TA- TAT TA- TAT TAT TAT TGT TAT TAT TAT TGC TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
20174483 T-T TAT TAG TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
20174507 TTTCTTTCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 8 0.15
3 47 0.85
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20174487 original size:28 final size:28
Alignment explanation
Indices: 20174438--20174502 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
20174428 TTTTTATGTG
20174438 TATTATTATATTATATTATTATT-GTTAT
1 TATTATTATATTATATTATTATTAG-TAT
* *
20174466 TATTATTGCTATTAT-TTTTTATTAGTAT
1 TATTATT-ATATTATATTATTATTAGTAT
20174494 TATTATTAT
1 TATTATTAT
20174503 TATTTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TATTATTATATTATATTATTATTAGTAT
Found at i:20174489 original size:34 final size:34
Alignment explanation
Indices: 20174441--20174506 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
20174431 TTATGTGTAT
* *
20174441 TATTATATTATATTATTATTGTTATTATTATTGC
1 TATTATATTATATTAGTATTATTATTATTATTGC
* *
20174475 TATTATTTTTTATTAGTATTATTATTATTATT
1 TATTATATTATATTAGTATTATTATTATTATT
20174507 TTTCTTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (34 bp):
TATTATATTATATTAGTATTATTATTATTATTGC
Found at i:20174507 original size:25 final size:24
Alignment explanation
Indices: 20174426--20174509 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 24
20174416 ATTGATGTCG
20174426 ATTTTTTATGTGTATTATTA-TATT
1 ATTTTTTAT-TGTATTATTATTATT
*
20174450 ATATTATTATTGTTATTATTATTGCTATT
1 AT-TTTTTATTG-TATTATTA-T--TATT
20174479 ATTTTTTATTAGTATTATTATTATT
1 ATTTTTTATT-GTATTATTATTATT
20174504 ATTTTT
1 ATTTTT
20174510 CTTTCCTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
24 4 0.08
25 24 0.47
27 1 0.02
28 15 0.29
29 7 0.14
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTTTTATTGTATTATTATTATT
Found at i:20174961 original size:10 final size:10
Alignment explanation
Indices: 20174946--20174986 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
20174936 TGAGTTTTTG
20174946 GAAAAATCTA
1 GAAAAATCTA
20174956 GAAAAATCTA
1 GAAAAATCTA
*
20174966 GGAAAATCTA
1 GAAAAATCTA
*
20174976 -AAAAAACTA
1 GAAAAATCTA
20174985 GA
1 GA
20174987 TTTTTTGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (10 bp):
GAAAAATCTA
Found at i:20174985 original size:19 final size:20
Alignment explanation
Indices: 20174948--20174985 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20174938 AGTTTTTGGA
*
20174948 AAAATCTAGAAAAATCTAGG
1 AAAATCTAGAAAAAACTAGG
20174968 AAAATCTA-AAAAAACTAG
1 AAAATCTAGAAAAAACTAG
20174986 ATTTTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATCTAGAAAAAACTAGG
Found at i:20175311 original size:17 final size:16
Alignment explanation
Indices: 20175283--20175321 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
20175273 CAATCGCAGG
20175283 TTTTTTTTA-TTTTAT
1 TTTTTTTTATTTTTAT
20175298 TTTTTTTGTCATTTTTAT
1 TTTTTTT-T-ATTTTTAT
20175316 TTTTTT
1 TTTTTT
20175322 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 1 0.05
18 12 0.57
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTTTTTATTTTTAT
Found at i:20176578 original size:30 final size:30
Alignment explanation
Indices: 20176536--20176644 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
20176526 TTATTTAGAT
20176536 AAATTTGAAGAATTTATTTAAATATAAATTA
1 AAATTT-AAGAATTTATTTAAATATAAATTA
** *
20176567 AAATTTAAGAATTTATTTTTATGTAAATTA
1 AAATTTAAGAATTTATTTAAATATAAATTA
* ** *
20176597 AAATTTAAGAGTTTATTTGGATAT-AATAA
1 AAATTTAAGAATTTATTTAAATATAAATTA
*
20176626 AAATATAA-AGATTTATTTA
1 AAATTTAAGA-ATTTATTTA
20176645 GGTAAAATGA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.02
29 18 0.27
30 41 0.62
31 6 0.09
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (30 bp):
AAATTTAAGAATTTATTTAAATATAAATTA
Found at i:20179360 original size:43 final size:44
Alignment explanation
Indices: 20179291--20179373 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
20179281 CAAGGTATGA
* * *
20179291 TTTTATTTTATTTTTGTTTTTTTATTAATACAAAGGCTTGGAAT
1 TTTTATTTCATTTTTGATTTCTTATTAATACAAAGGCTTGGAAT
20179335 TTTTATTTCATTTTT-ATTTCTTATTAATACAAAGGCTTG
1 TTTTATTTCATTTTTGATTTCTTATTAATACAAAGGCTTG
20179374 TAGATTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 22 0.61
44 14 0.39
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.58
Consensus pattern (44 bp):
TTTTATTTCATTTTTGATTTCTTATTAATACAAAGGCTTGGAAT
Found at i:20181645 original size:15 final size:16
Alignment explanation
Indices: 20181615--20181647 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20181605 GGCTTTTTTA
20181615 TGTTTGTTAGTACTTT
1 TGTTTGTTAGTACTTT
*
20181631 TGTTT-TTAGTTCTTT
1 TGTTTGTTAGTACTTT
20181646 TG
1 TG
20181648 GTGTTCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.67
Consensus pattern (16 bp):
TGTTTGTTAGTACTTT
Found at i:20185045 original size:19 final size:19
Alignment explanation
Indices: 20185023--20185059 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20185013 AATTAAGTGT
20185023 ATAAATAAATTTTAAATTA
1 ATAAATAAATTTTAAATTA
* *
20185042 ATAAATATATTTTGAATT
1 ATAAATAAATTTTAAATT
20185060 TTGAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATAAATAAATTTTAAATTA
Found at i:20185146 original size:17 final size:17
Alignment explanation
Indices: 20185110--20185148 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
20185100 AACGTTTGAA
*
20185110 AAAAAATAAATGAATAT
1 AAAAAATAAATGAAGAT
* *
20185127 AAAAAATATATGAAGGT
1 AAAAAATAAATGAAGAT
20185144 AAAAA
1 AAAAA
20185149 TATCAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAAAATAAATGAAGAT
Found at i:20187020 original size:26 final size:24
Alignment explanation
Indices: 20186975--20187023 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
20186965 TAAAACTTTG
**
20186975 TTTTTTTTATTATCTTTTTTATTT
1 TTTTTTTTATTATCCGTTTTATTT
20186999 TTTTCTTTTATTATTCCGTTTTATT
1 TTTT-TTTTATTA-TCCGTTTTATT
20187024 GAAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 9 0.43
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTATTATCCGTTTTATTT
Found at i:20187613 original size:3 final size:3
Alignment explanation
Indices: 20187605--20187641 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
20187595 CTCATTTTTA
*
20187605 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20187642 GGTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20187797 original size:21 final size:21
Alignment explanation
Indices: 20187772--20187834 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
20187762 TAATATGTAT
20187772 AAATATTAATAATAAAATTTA
1 AAATATTAATAATAAAATTTA
** * *
20187793 AAATAACAAAAATAATA-TTA
1 AAATATTAATAATAAAATTTA
*
20187813 AAAAATT--TAA-AAAATTTA
1 AAATATTAATAATAAAATTTA
20187831 AAAT
1 AAAT
20187835 TTTTTAACCT
Statistics
Matches: 31, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
17 3 0.10
18 8 0.26
20 7 0.23
21 13 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATTAATAATAAAATTTA
Found at i:20193954 original size:18 final size:18
Alignment explanation
Indices: 20193933--20193970 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20193923 CCTTTAGAAA
20193933 TTTTATTGATTTTATTATT
1 TTTTATT-ATTTTATTATT
20193952 TTTTATTATTTTATTATT
1 TTTTATTATTTTATTATT
20193970 T
1 T
20193971 ATTTTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTATTATT
Found at i:20193963 original size:8 final size:8
Alignment explanation
Indices: 20193932--20193970 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
20193922 TCCTTTAGAA
20193932 ATTTTATT
1 ATTTTATT
20193940 GATTTTATT
1 -ATTTTATT
20193949 ATTTTTTATT
1 A--TTTTATT
20193959 ATTTTATT
1 ATTTTATT
20193967 ATTT
1 ATTT
20193971 ATTTTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 12 0.43
9 8 0.29
10 8 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:20194819 original size:21 final size:21
Alignment explanation
Indices: 20194790--20194834 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
20194780 CGTTGCATTG
20194790 GTCGCCGATCACCATTCATCA
1 GTCGCCGATCACCATTCATCA
*
20194811 GTCGTCGATCACCATTCATCA
1 GTCGCCGATCACCATTCATCA
20194832 GTC
1 GTC
20194835 ACCATTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.27
Consensus pattern (21 bp):
GTCGCCGATCACCATTCATCA
Found at i:20196094 original size:21 final size:21
Alignment explanation
Indices: 20196047--20196097 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
20196037 ACTATGCTTG
*
20196047 GAGGTCTTAAAGATTATGTCC
1 GAGGTCTTAAAGATTATGCCC
20196068 GAAGGTCTT-AAGATTATGCCC
1 G-AGGTCTTAAAGATTATGCCC
20196089 AGAGGTCTT
1 -GAGGTCTT
20196098 GCAAATCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
GAGGTCTTAAAGATTATGCCC
Found at i:20196207 original size:104 final size:103
Alignment explanation
Indices: 20196069--20196285 Score: 238
Period size: 104 Copynumber: 2.1 Consensus size: 103
20196059 ATTATGTCCG
* * * * ** *** * *
20196069 AAGGTCTTAAGATTATGCCCAGAGGTCTTGCAAATCTCAACATCTTTGAGTGTTCCTTGTATTAG
1 AAGGTCTTAAGATTATGCCCAGAGGACTTACAAATCTAAACATATTTGAGTACTCCCCATATCAA
* * *
20196134 AGGTATTGACACTTTGAAAATGTAAAATATTTTGCTCA
66 AGGCATTGAAACTTTGAAAATGTAAAATATTTTACTCA
* *
20196172 AAGGTCTTACGAATTATGCCC-GAAGGACTTACAAATCTAAATATATTTGAGTACTCCCCATATC
1 AAGGTCTTAAG-ATTATGCCCAG-AGGACTTACAAATCTAAACATATTTGAGTACTCCCCATATC
* * *
20196236 AAAGGCATTGAAACTTTGAAAATTTAAAATGTTTTACTCG
64 AAAGGCATTGAAACTTTGAAAATGTAAAATATTTTACTCA
20196276 AAGGTCTTAA
1 AAGGTCTTAA
20196286 AGATCGTGCC
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
103 11 0.12
104 81 0.88
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (103 bp):
AAGGTCTTAAGATTATGCCCAGAGGACTTACAAATCTAAACATATTTGAGTACTCCCCATATCAA
AGGCATTGAAACTTTGAAAATGTAAAATATTTTACTCA
Found at i:20196325 original size:104 final size:104
Alignment explanation
Indices: 20196144--20196506 Score: 315
Period size: 106 Copynumber: 3.5 Consensus size: 104
20196134 AGGTATTGAC
* * * * * *
20196144 ACTTTGAAAATGTAAAATATTTTGCTCAAAGGTCTT-ACGAATTATGCCCGAAGGACTTACA-AA
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAG-ATTGTGCCCGAAGGTCTTA-AGGA
* * * * * **
20196207 TCT-AAATATATTTGAGTACTCCCCATATCAAAGGCATTGAA
64 TTTCAAA-ATCTTTGAATACTTCACATATCAAAGGCATCAAA
* * *
20196248 ACTTTGAAAATTTAAAATGTTTTACTC-GAAGGTCTTAAAGATCGTGCCCGAAGGTCTTAAGGAT
1 ACTTTGAAAATTTAAAATATTTTGCTCAG-AGGTCTTAAAGATTGTGCCCGAAGGTCTTAAGGAT
* ** **
20196312 TTCAAAATCTTTGAATGCTTTTCATA-CATTAGAGGTGTCAAA
65 TTCAAAATCTTTGAATACTTCACATATCA--A-AGGCATCAAA
* * * *
20196354 ACTTTAAAAATTTAAAATATTTTGCCCAGAGGTCTTAAAGATTGTGCCC-AGAGTTTTTAAGGAT
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTGTGCCCGA-AGGTCTTAAGGAT
* * * *
20196418 TTCAAAATCTTTAAATATGCTTCATATATTAGAGGCATCAAA
65 TTCAAAATCTTTGAATA--CTTCACATATCAAAGGCATCAAA
* *
20196460 ACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAAATTGTGC
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTGTGC
20196507 TCAGAGGTCT
Statistics
Matches: 207, Mismatches: 40, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
103 3 0.01
104 64 0.31
105 7 0.03
106 125 0.60
107 1 0.00
108 6 0.03
109 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (104 bp):
ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTGTGCCCGAAGGTCTTAAGGATT
TCAAAATCTTTGAATACTTCACATATCAAAGGCATCAAA
Found at i:20196387 original size:106 final size:106
Alignment explanation
Indices: 20196246--20196518 Score: 356
Period size: 106 Copynumber: 2.6 Consensus size: 106
20196236 AAAGGCATTG
*
20196246 AAACTTTGAAAATTTAAAATGTTTTACTC-GAAGGTCTTAAAGATCGTGCCC-GAAGGTCTTAAG
1 AAACTTTGAAAATTTAAAATGTTTTGCTCAG-AGGTCTTAAAGATCGTGCCCAG-AGGTCTTAAG
* **
20196309 GATTTCAAAATCTTT-GA-ATGCTTTTCATACATTAGAGGTGTCA
64 GATTTCAAAATCTTTAAATATGC--TTCATACATTAGAGGCATCA
* * * * * *
20196352 AAACTTTAAAAATTTAAAATATTTTGCCCAGAGGTCTTAAAGATTGTGCCCAGAGTTTTTAAGGA
1 AAACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAGATCGTGCCCAGAGGTCTTAAGGA
*
20196417 TTTCAAAATCTTTAAATATGCTTCATATATTAGAGGCATCA
66 TTTCAAAATCTTTAAATATGCTTCATACATTAGAGGCATCA
* * *
20196458 AAACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAAATTGTGCTCAGAGGTCTTA
1 AAACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAGATCGTGCCCAGAGGTCTTA
20196519 GAAATATGCC
Statistics
Matches: 145, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
106 138 0.95
107 3 0.02
108 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (106 bp):
AAACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAGATCGTGCCCAGAGGTCTTAAGGA
TTTCAAAATCTTTAAATATGCTTCATACATTAGAGGCATCA
Found at i:20196509 original size:22 final size:22
Alignment explanation
Indices: 20196482--20196523 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20196472 TAAAATGTTT
20196482 TGCTCAGAGGTCTTAAAAATTG
1 TGCTCAGAGGTCTTAAAAATTG
*
20196504 TGCTCAGAGGTCTTAGAAAT
1 TGCTCAGAGGTCTTAAAAAT
20196524 ATGCCTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (22 bp):
TGCTCAGAGGTCTTAAAAATTG
Found at i:20196959 original size:104 final size:101
Alignment explanation
Indices: 20196778--20197132 Score: 316
Period size: 96 Copynumber: 3.5 Consensus size: 101
20196768 TTCATTTGAC
* * * * *
20196778 ACTTTGAAAATGTAAAATATTTTGCTCAAAGGTCTT-ACGAATTATGCCCGAAGGTCTTACA-AA
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAG-ATTATGCTCGAAGGTCTTA-AGGA
* * * * **
20196841 TCTT-AATATATTTGAGTGCTCCCCATATCAAAGGCATTGAA
64 T-TTCAAAATCTTTGAATGCT--CCATAT-AGAGGCATCAAA
*
20196882 ACTTTGAAAATTTAAAATATTTTGCTC-GAAGGTCTTAAAGATCATGCTCGAAGGTCTTAAGGAT
1 ACTTTGAAAATTTAAAATATTTTGCTCAG-AGGTCTTAAAGATTATGCTCGAAGGTCTTAAGGAT
**
20196946 TTCAAAATCTTTGAATG---C-T-TAGAGGTGTCAAA
65 TTCAAAATCTTTGAATGCTCCATATAGAGGCATCAAA
* * * * * *
20196978 ACTTTAAAAATTTAAAATATTTTGCCCAGAGGTCTTAAAGATTGTGC-CCAGAGTTTTTAAGGAT
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTATGCTCGA-AGGTCTTAAGGAT
*
20197042 TTCAAAATCTTTGAATACGCTTCATATATTAGAGGCATCAAA
65 TTCAAAATCTTTGAAT--GC-TC-CATA-TAGAGGCATCAAA
* *
20197084 ACTTTGAAAATTTAAAATGTTTTGCTCAGAGGTCTTAAAAATTATGCTC
1 ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTATGCTC
20197133 AGACATCTTA
Statistics
Matches: 205, Mismatches: 29, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
95 2 0.01
96 75 0.37
97 2 0.01
98 2 0.01
99 1 0.00
103 3 0.01
104 64 0.31
105 2 0.01
106 53 0.26
107 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (101 bp):
ACTTTGAAAATTTAAAATATTTTGCTCAGAGGTCTTAAAGATTATGCTCGAAGGTCTTAAGGATT
TCAAAATCTTTGAATGCTCCATATAGAGGCATCAAA
Found at i:20197141 original size:22 final size:21
Alignment explanation
Indices: 20197106--20197151 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
20197096 TAAAATGTTT
**
20197106 TGCTCAGAGGTCTTAAAAATTA
1 TGCTCAGACATCTTAAAAA-TA
*
20197128 TGCTCAGACATCTTAGAAATA
1 TGCTCAGACATCTTAAAAATA
20197149 TGC
1 TGC
20197152 CTGGATGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCTCAGACATCTTAAAAATA
Found at i:20197486 original size:26 final size:26
Alignment explanation
Indices: 20197443--20197533 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 26
20197433 TGCAAATGCC
*
20197443 ATGATGCAAATGCAAATGTCTTTCTT
1 ATGATGCAAATGCGAATGTCTTTCTT
* * * **
20197469 ATGGTGCAAATGTGAATGCCTTGGTT
1 ATGATGCAAATGCGAATGTCTTTCTT
* * *
20197495 ATGATGTAAATGCGAATATCTTTCTC
1 ATGATGCAAATGCGAATGTCTTTCTT
* *
20197521 ATGTTGCACATGC
1 ATGATGCAAATGC
20197534 AAGTACAAAT
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (26 bp):
ATGATGCAAATGCGAATGTCTTTCTT
Found at i:20203919 original size:18 final size:17
Alignment explanation
Indices: 20203893--20203950 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 17
20203883 AAATGTGAAA
* *
20203893 TTTTCTTTTTCTTTTGT
1 TTTTTTTTTTCGTTTGT
*
20203910 TTTTTATTTTTGGTTTGT
1 TTTTT-TTTTTCGTTTGT
*
20203928 TTTTTTTTTT--TTTAT
1 TTTTTTTTTTCGTTTGT
20203943 TTTTTTTT
1 TTTTTTTT
20203951 GTTGTAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.33
17 9 0.25
18 15 0.42
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTCGTTTGT
Found at i:20203961 original size:25 final size:26
Alignment explanation
Indices: 20203909--20203966 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
20203899 TTTTCTTTTG
* **
20203909 TTTTTTATTTTTGGTTTGTTTTTTTT
1 TTTTTTATTTTTGGTTTGTTGTAGTT
*
20203935 TTTTTTATTTTT-TTTTGTTGTAGTT
1 TTTTTTATTTTTGGTTTGTTGTAGTT
20203960 TTTTTTA
1 TTTTTTA
20203967 AAGAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (26 bp):
TTTTTTATTTTTGGTTTGTTGTAGTT
Found at i:20206706 original size:13 final size:15
Alignment explanation
Indices: 20206688--20206719 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
20206678 TTTTTAAAAA
20206688 TTTTATTG-A-TATT
1 TTTTATTGAATTATT
20206701 TTTTATTGAATTATT
1 TTTTATTGAATTATT
20206716 TTTT
1 TTTT
20206720 TTTATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTTATTGAATTATT
Found at i:20207081 original size:10 final size:10
Alignment explanation
Indices: 20207066--20207092 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20207056 GATAAAAATT
20207066 TTTTTATATA
1 TTTTTATATA
20207076 TTTTTATATA
1 TTTTTATATA
20207086 TTTTTAT
1 TTTTTAT
20207093 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTATATA
Found at i:20207103 original size:11 final size:11
Alignment explanation
Indices: 20207089--20207127 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
20207079 TTATATATTT
20207089 TTATTTTTTAA
1 TTATTTTTTAA
20207100 TTATTTTTTAA
1 TTATTTTTTAA
*
20207111 TTATTATTGTAA
1 TTATT-TTTTAA
20207123 TTATT
1 TTATT
20207128 AGGTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:20209240 original size:29 final size:29
Alignment explanation
Indices: 20209147--20209249 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 29
20209137 ATTTTAAAGG
* *
20209147 TTTATTAG-ATATAAAGTAAAAGTTAAGAA
1 TTTATTTGAATATAAA-TTAAAGTTAAGAA
* * *
20209176 CTTATTTAAATATAAATTAAAGGTTAAGAG
1 TTTATTTGAATATAAATTAAA-GTTAAGAA
*
20209206 TTTATTTGCAT-TCAAATTAAAGTTAAGAA
1 TTTATTTGAATAT-AAATTAAAGTTAAGAA
*
20209235 TTTATTTGGATATAA
1 TTTATTTGAATATAA
20209250 TAACTTATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 29 0.48
30 31 0.52
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.40
Consensus pattern (29 bp):
TTTATTTGAATATAAATTAAAGTTAAGAA
Found at i:20210298 original size:8 final size:9
Alignment explanation
Indices: 20210277--20210308 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
20210267 CAATAATGAA
20210277 AAAAAATGG
1 AAAAAATGG
20210286 AAAAAATGG
1 AAAAAATGG
20210295 AAAAAA--G
1 AAAAAATGG
20210302 AAAAAAT
1 AAAAAAT
20210309 CTCAAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (9 bp):
AAAAAATGG
Found at i:20212773 original size:1 final size:1
Alignment explanation
Indices: 20212767--20212792 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
20212757 GACAATGTAA
20212767 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
20212793 GCACTGGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20213633 original size:44 final size:44
Alignment explanation
Indices: 20213579--20213662 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
20213569 CCACTTGATG
*
20213579 ATTCATTATCAAATG-ACAATATTAAGTATATTATTTGATACAAT
1 ATTCAATATCAAATGTACAATA-TAAGTATATTATTTGATACAAT
**
20213623 ATTCAATATCAAATGTTGAATATAAGTATATTATTTGATA
1 ATTCAATATCAAATGTACAATATAAGTATATTATTTGATA
20213663 ACTTGAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 32 0.89
45 4 0.11
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (44 bp):
ATTCAATATCAAATGTACAATATAAGTATATTATTTGATACAAT
Found at i:20214736 original size:86 final size:86
Alignment explanation
Indices: 20214641--20214810 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
20214631 ATTATGTAAC
*
20214641 AGGAAATATTAAAAATAATGCTACCGGTGAAGTTTCCATTGATCAATATAATCATTACAAGGTAT
1 AGGAAATATTAAAAATAATGCTACCGGTGAAGTTTCCATTGATCAATATAATCATTACAAAGTAT
20214706 GATTTTATTTTATTTTATTAT
66 GATTTTATTTTATTTTATTAT
* *
20214727 AGGAAATATTAAAAATAATGCTACTGGTGAAGTTTCCATTGATCAATATAATCATTATAAAGTAT
1 AGGAAATATTAAAAATAATGCTACCGGTGAAGTTTCCATTGATCAATATAATCATTACAAAGTAT
20214792 GATTTTATTTTATTTTATT
66 GATTTTATTTTATTTTATT
20214811 TCTTATTAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (86 bp):
AGGAAATATTAAAAATAATGCTACCGGTGAAGTTTCCATTGATCAATATAATCATTACAAAGTAT
GATTTTATTTTATTTTATTAT
Found at i:20217806 original size:24 final size:24
Alignment explanation
Indices: 20217779--20217835 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
20217769 TCTGATTCCG
20217779 TTTTTAACAGTTAAAAATTGTTTA
1 TTTTTAACAGTTAAAAATTGTTTA
20217803 TTTTTAACAGTTAAAAATTGTTTA
1 TTTTTAACAGTTAAAAATTGTTTA
20217827 TTTTTAACA
1 TTTTTAACA
20217836 AACTTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (24 bp):
TTTTTAACAGTTAAAAATTGTTTA
Found at i:20221770 original size:3 final size:3
Alignment explanation
Indices: 20221762--20221787 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20221752 GACAAAAAAT
20221762 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
20221788 GCATAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20222185 original size:21 final size:23
Alignment explanation
Indices: 20222141--20222190 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
20222131 TTGGAAGCTC
20222141 TTTCCTCTCTCTTTTATTTGTTT
1 TTTCCTCTCTCTTTTATTTGTTT
* *
20222164 TTTCCT-TCT-TTTTTTTTTTTT
1 TTTCCTCTCTCTTTTATTTGTTT
20222185 TTTCCT
1 TTTCCT
20222191 AAACAGAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 6 0.24
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTCCTCTCTCTTTTATTTGTTT
Found at i:20230798 original size:145 final size:143
Alignment explanation
Indices: 20230472--20230868 Score: 467
Period size: 145 Copynumber: 2.7 Consensus size: 143
20230462 TTTAAAATAT
* * * * *
20230472 CAAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATAAAAATTCGAG-TTAAGGAA
1 CAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTAA-GAA
*
20230536 GGTCAAATTACGAAAATACCTTATAAGGGTATTTTAGTAATTTAACACTTCATGGGTACCACTAT
65 GGTCAAATTACGAAAATACCTTATAAGGGTATTTTAGTAATTTAACACTTCATGGATACCACTAT
20230601 GATTTCAAATGCAC
130 GATTTCAAATGCAC
*
20230615 CAAAAATCATTG-AATATTATGAAATTGAGATCTAAAAATTTTCATGAAAATCCAAGCTTAAGAA
1 CAAAAATCA-TGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTAAGAA
* * * * * * * ***
20230679 GGTTAAATTATGAAAATACCTTTATATGGTTATTTTTGTAATTTCACACTT-TTCGAGATATTGC
65 GGTCAAATTACGAAAATACC-TTATAAGGGTATTTTAGTAATTTAACACTTCAT-G-GATACCAC
20230743 TATGATTTCAAATGCAC
127 TATGATTTCAAATGCAC
* * * * * ***
20230760 TAAATATCATGAAATATTATGAAATTAACATCTGAAAATTTTCATGAAAATCCAAACTCGGGAAG
1 CAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTAAGAAG
* *
20230825 GTCAAATTACAAAAATATCCCTTATAAGGGTATTTTGGTAATTT
66 GTCAAATTACGAAAATA--CCTTATAAGGGTATTTTAGTAATTT
20230869 TATACTTCCC
Statistics
Matches: 214, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
143 69 0.32
144 35 0.16
145 88 0.41
146 20 0.09
147 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (143 bp):
CAAAAATCATGAAATATTATGAAATTAAGATCTAAAAATTTTCATGAAAATCCAAGCTTAAGAAG
GTCAAATTACGAAAATACCTTATAAGGGTATTTTAGTAATTTAACACTTCATGGATACCACTATG
ATTTCAAATGCAC
Found at i:20231391 original size:8 final size:8
Alignment explanation
Indices: 20231345--20231392 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
20231335 CTTTTAAGAG
20231345 TTTTTTGT
1 TTTTTTGT
20231353 TGTTTTTGT
1 T-TTTTTGT
* *
20231362 GTTTATGTT
1 TTTTTTG-T
*
20231371 TTTTTTTT
1 TTTTTTGT
20231379 TTTTTTGT
1 TTTTTTGT
20231387 TTTTTT
1 TTTTTT
20231393 TTAATTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 20 0.62
9 12 0.38
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (8 bp):
TTTTTTGT
Done.