Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 88 of 93
Found at i:14409431 original size:41 final size:42
Alignment explanation
Indices: 14409342--14409425 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
14409332 AATTTATTTC
*** **
14409342 AAGGAAAATTGATACTTTCAACTTTTTTTGAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
14409384 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
14409426 TGGAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (42 bp):
AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
Found at i:14409611 original size:60 final size:60
Alignment explanation
Indices: 14409364--14409611 Score: 362
Period size: 60 Copynumber: 4.2 Consensus size: 60
14409354 TACTTTCAAC
*
14409364 TTTTTTTG-AAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATA--
1 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
* * * *
14409421 -TTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATA
1 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
* * * * *
14409480 TTTTTTTGAAACTTTGA-TCTTAAGGAAAATTGATACTTTCAACTTTTCCTCGAAAATCTT
1 TTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
14409540 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
1 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
14409600 TTTTTTTGAAAA
1 TTTTTTTGAAAA
14409612 AATTTGATTT
Statistics
Matches: 170, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
56 7 0.04
57 46 0.27
59 1 0.01
60 115 0.68
61 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (60 bp):
TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT
Found at i:14409691 original size:17 final size:18
Alignment explanation
Indices: 14409662--14409705 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
14409652 ATAAATGAAT
14409662 AATAAAAAGTAAAACAAA
1 AATAAAAAGTAAAACAAA
*
14409680 AATAAAAA-TAAAACTAA
1 AATAAAAAGTAAAACAAA
*
14409697 GATAAAAAG
1 AATAAAAAG
14409706 AATATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (18 bp):
AATAAAAAGTAAAACAAA
Found at i:14409740 original size:8 final size:8
Alignment explanation
Indices: 14409727--14409756 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14409717 AACCTAATAT
*
14409727 AATAAATA
1 AATAAACA
14409735 AATAAACA
1 AATAAACA
14409743 AATAAACA
1 AATAAACA
14409751 AATAAA
1 AATAAA
14409757 AAACATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (8 bp):
AATAAACA
Found at i:14410689 original size:17 final size:18
Alignment explanation
Indices: 14410667--14410700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14410657 TAGATAAGTA
*
14410667 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
14410684 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
14410701 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:14410745 original size:16 final size:16
Alignment explanation
Indices: 14410726--14410830 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
14410716 TATTAGTAAT
14410726 AATACATAAATAATAA
1 AATACATAAATAATAA
*
14410742 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
14410760 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
14410777 AATATATACAT-ATATT
1 AATACATAAATAATA-A
14410793 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
14410806 AATA-ATAAATAATAC
1 AATACATAAATAATAA
14410821 AATACATAAA
1 AATACATAAA
14410831 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:14410804 original size:35 final size:34
Alignment explanation
Indices: 14410696--14410821 Score: 100
Period size: 35 Copynumber: 3.6 Consensus size: 34
14410686 AATAAAAAAG
* *
14410696 ATAAA-AAATATATATATACATATTAGTAATAATA
1 ATAAATAAATAAATATATACATA-TATTAATAATA
* * *
14410730 CATAAAT-AATAAA-ATACACATAAATATTAACAAAAA
1 -ATAAATAAATAAATATATACAT--ATATTAA-TAATA
14410766 ATAAATAAATAAATATATACATATATTAATACATA
1 ATAAATAAATAAATATATACATATATTAATA-ATA
14410801 AT-AATAATAATAAATA-ATACA
1 ATAAAT-A-AATAAATATATACA
14410822 ATACATAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
34 11 0.15
35 38 0.51
36 18 0.24
37 7 0.09
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAAATAAATAAATATATACATATATTAATAATA
Found at i:14415098 original size:23 final size:24
Alignment explanation
Indices: 14415050--14415100 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
14415040 TTATATTGAA
*
14415050 TAAAAAGATTATTTATATGTACTT
1 TAAAAAGATTACTTATATGTACTT
14415074 TAAAAGAGATTACTTATAT-TA-TT
1 TAAAA-AGATTACTTATATGTACTT
14415097 TAAA
1 TAAA
14415101 TAATTGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 7 0.28
25 12 0.48
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (24 bp):
TAAAAAGATTACTTATATGTACTT
Found at i:14418198 original size:19 final size:19
Alignment explanation
Indices: 14418174--14418210 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14418164 AAAGTTAAGT
* *
14418174 TTTTTTATTTTTTGTTTTA
1 TTTTTTATATTTTATTTTA
14418193 TTTTTTATATTTTATTTT
1 TTTTTTATATTTTATTTT
14418211 TCAGACCAAA
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:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTTATATTTTATTTTA
Found at i:14418258 original size:35 final size:33
Alignment explanation
Indices: 14418196--14418263 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 33
14418186 TGTTTTATTT
*
14418196 TTTATATTTTATTTTTCAGACCAAAATTTATAA
1 TTTATATTTTATTTTTCAAACCAAAATTTATAA
*
14418229 TTTATAATTTTATTATTTCAAACCTAAATTTATAA
1 TTTAT-ATTTTATT-TTTCAAACCAAAATTTATAA
14418264 GTATTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 5 0.16
34 8 0.26
35 18 0.58
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (33 bp):
TTTATATTTTATTTTTCAAACCAAAATTTATAA
Found at i:14419606 original size:23 final size:25
Alignment explanation
Indices: 14419578--14419626 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
14419568 GAGTGATTAA
14419578 AATAATTTCAA-TAAAAT-ATTTTT
1 AATAATTTCAATTAAAATGATTTTT
* *
14419601 AATAATTTTAATTTAAATGATTTTT
1 AATAATTTCAATTAAAATGATTTTT
14419626 A
1 A
14419627 TTATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 5 0.23
25 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
AATAATTTCAATTAAAATGATTTTT
Found at i:14419706 original size:18 final size:18
Alignment explanation
Indices: 14419663--14419712 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
14419653 TTAATAAATT
14419663 TTAAT-TTAAA-TATTTTA
1 TTAATATTAAAGT-TTTTA
*
14419680 -TATTATTAAAGTTTTTA
1 TTAATATTAAAGTTTTTA
14419697 TTAATATTAAACGTTT
1 TTAATATTAAA-GTTT
14419713 GTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
17 10 0.37
18 10 0.37
19 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (18 bp):
TTAATATTAAAGTTTTTA
Found at i:14421028 original size:30 final size:30
Alignment explanation
Indices: 14420941--14421043 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
14420931 TATAATTTTA
* *
14420941 TTGTACCTAAATAAATTCATAACTTTTAAT
1 TTGTATCTAAATAAACTCATAACTTTTAAT
* * *
14420971 TTGCA-CTTAAATAAACCCATAAGTTTTAAT
1 TTGTATC-TAAATAAACTCATAACTTTTAAT
* * *
14421001 TTGTATCTAAACAAACTCTTAATTTTTAAAT
1 TTGTATCTAAATAAACTCATAACTTTT-AAT
14421032 TTGTATCTAAAT
1 TTGTATCTAAAT
14421044 CAGTCCTTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.73
31 15 0.25
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (30 bp):
TTGTATCTAAATAAACTCATAACTTTTAAT
Found at i:14421274 original size:2 final size:2
Alignment explanation
Indices: 14421267--14421298 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14421257 TCAAATTAAG
*
14421267 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14421299 GAATATGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14421355 original size:20 final size:20
Alignment explanation
Indices: 14421327--14421382 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
14421317 TAAAAGGATT
* * *
14421327 ATTAATAAAATTCACTCTTA
1 ATTATTAAAATTAAATCTTA
*
14421347 ATTATTAAAAATTAAATTTTA
1 ATTATT-AAAATTAAATCTTA
*
14421368 ATAATTAAAATTAAA
1 ATTATTAAAATTAAA
14421383 AATTAAACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTATTAAAATTAAATCTTA
Found at i:14421388 original size:20 final size:21
Alignment explanation
Indices: 14421344--14421388 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
14421334 AAATTCACTC
* **
14421344 TTAATTATTAAAAATTAAATT
1 TTAATAATTAAAAATTAAAAA
14421365 TTAATAATT-AAAATTAAAAA
1 TTAATAATTAAAAATTAAAAA
14421385 TTAA
1 TTAA
14421389 ACATTTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAATAATTAAAAATTAAAAA
Found at i:14421854 original size:25 final size:24
Alignment explanation
Indices: 14421776--14421874 Score: 74
Period size: 25 Copynumber: 4.0 Consensus size: 24
14421766 TCTTCTATAT
** *
14421776 TTTATTTTTAAATTTAACTTTAATA
1 TTTATTTTTATTTTTAA-TATAATA
*
14421801 TTTATTTTTGATTTTTTATA-AATTAA
1 TTTATTTTT-ATTTTTAATATAA-T-A
*
14421827 TTTATTTTTATTTATAATCATAATA
1 TTTATTTTTATTTTTAAT-ATAATA
* * *
14421852 TTTCTTTTTTTTTTTAATTTAAT
1 TTTATTTTTATTTTTAATATAAT
14421875 TCAATCTCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.10
25 34 0.58
26 17 0.29
27 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTATTTTTATTTTTAATATAATA
Found at i:14425861 original size:16 final size:16
Alignment explanation
Indices: 14425840--14425871 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14425830 GTTCTGTTTA
14425840 TTTTTTTTTTGGTTGG
1 TTTTTTTTTTGGTTGG
*
14425856 TTTTTTTTTTGTTTGG
1 TTTTTTTTTTGGTTGG
14425872 GTATTTTGGG
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:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTTGGTTGG
Found at i:14426457 original size:13 final size:14
Alignment explanation
Indices: 14426439--14426468 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
14426429 CAACAACTTT
14426439 AAAATCTCATCT-A
1 AAAATCTCATCTGA
14426452 AAAATCTCATCTGA
1 AAAATCTCATCTGA
14426466 AAA
1 AAA
14426469 GGTTCCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATCTCATCTGA
Found at i:14426518 original size:13 final size:13
Alignment explanation
Indices: 14426500--14426529 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14426490 AACAACTTTA
14426500 AAAATCTTATCTG
1 AAAATCTTATCTG
14426513 AAAATCTTATCTG
1 AAAATCTTATCTG
14426526 AAAA
1 AAAA
14426530 AGCTCCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (13 bp):
AAAATCTTATCTG
Found at i:14426519 original size:61 final size:60
Alignment explanation
Indices: 14426410--14426588 Score: 259
Period size: 61 Copynumber: 3.0 Consensus size: 60
14426400 TTTTAAAAGG
* * * *
14426410 GCTCCTCTCAGCAGAGGTTCAACAACTTTAAAATCTCATCTAAAAATCTCATCTGAAAAG
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTGAAAATCTCATCTGAAAAA
* * *
14426470 GTTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTTATCTGAAAATCTTATCTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCATCTGAAAATCTCATCTGAAAAA
* *
14426531 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTAGAAAAGCTCCTCTGAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCT-GAAAATCTCATCTGAA
14426589 CAACTTTAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
60 37 0.35
61 68 0.65
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (60 bp):
GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTGAAAATCTCATCTGAAAAA
Found at i:14426598 original size:36 final size:37
Alignment explanation
Indices: 14426548--14426627 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
14426538 TCAACAGAGG
14426548 CTCAACAACTTTAAAATCTCATCTAG-AAAAGCTCCT
1 CTCAACAACTTTAAAATCTCATCTAGAAAAAGCTCCT
* * * *
14426584 CTGAACAACTTTAAAATTTCTTCTTGAAAAAGCTCCT
1 CTCAACAACTTTAAAATCTCATCTAGAAAAAGCTCCT
14426621 CTCAACA
1 CTCAACA
14426628 GAGGCTCCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 22 0.58
37 16 0.42
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (37 bp):
CTCAACAACTTTAAAATCTCATCTAGAAAAAGCTCCT
Found at i:14426657 original size:48 final size:48
Alignment explanation
Indices: 14426588--14426737 Score: 196
Period size: 48 Copynumber: 3.1 Consensus size: 48
14426578 GCTCCTCTGA
*
14426588 ACAACTTTAAAA-TTTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCC
1 ACAACTTTAAAATTTTC-TCTTGAAAAAGCTCATCTCAACAGAGGCTCC
* ** **
14426636 ACAACTTTAAAATTTTCTCTTGAAAAAGCTCATCTTAGTAGAGGCTTA
1 ACAACTTTAAAATTTTCTCTTGAAAAAGCTCATCTCAACAGAGGCTCC
* * *
14426684 ACAACTTTAAAATTTT-TCTTGAAAAAACTCTTCTCAACAGAAGCTCC
1 ACAACTTTAAAATTTTCTCTTGAAAAAGCTCATCTCAACAGAGGCTCC
14426731 ACAACTT
1 ACAACTT
14426738 AATCTTTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 30 0.34
48 53 0.61
49 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (48 bp):
ACAACTTTAAAATTTTCTCTTGAAAAAGCTCATCTCAACAGAGGCTCC
Found at i:14426893 original size:49 final size:48
Alignment explanation
Indices: 14426770--14427371 Score: 548
Period size: 49 Copynumber: 12.1 Consensus size: 48
14426760 CTCAACTTAA
* * *
14426770 ATCTTGAAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTT
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* *
14426818 TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATT-TC
* * * *
14426867 ATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATTTTT
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TTTC
*
14426916 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTATC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATT-TC
* *
14426965 ATCTTGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TTC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* * *
14427012 TTACTTCTGAAAAAGCTCTTCTCAACAGAGGCTCTACAACTTTAAAATTTC
1 AT-C-T-TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* * * * * * ** * *
14427063 ATTTTG-AAAATCTCATCTGAA-AAAGCTCCTTTCAACAGAGGCTCCACAACTTTAAA
1 ATCTTGAAAAAGCTCCTCTCAACAGAG--GC--TCAACA-A--CTTTA-AAATTT--C
* ** * *
14427119 ATTTTTCTTGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTC
1 A--TCT-TGAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATT-TC
* * **
14427172 ATTTTGAAAAAGCTCCTCTCAACAGAGGCTCCATTACTTTAAAATTCTC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATT-TC
* *
14427221 ATATTGGAAAAA-CTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TTC
1 ATCTT-GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* * *
14427268 TTACTTCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAATTTC
1 AT-C-T-TGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* * *
14427319 ATTTTGAAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATT-TC
14427368 ATCT
1 ATCT
14427372 GTTTCAAATT
Statistics
Matches: 462, Mismatches: 61, Indels: 61
0.79 0.10 0.10
Matches are distributed among these distances:
46 3 0.01
47 18 0.04
48 89 0.19
49 209 0.45
50 86 0.19
51 12 0.03
53 4 0.01
54 9 0.02
55 4 0.01
56 1 0.00
57 1 0.00
58 8 0.02
59 1 0.00
60 5 0.01
61 9 0.02
62 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (48 bp):
ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
Found at i:14426960 original size:98 final size:98
Alignment explanation
Indices: 14426770--14427371 Score: 691
Period size: 98 Copynumber: 6.0 Consensus size: 98
14426760 CTCAACTTAA
* * *
14426770 ATCTTGAAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTT-TCTTGAAAAAGCTCC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATCTTGAAAAAGCTCC
*
14426834 TCTCAACAGAGGCTCTACAACTTTAAAATTCTC
66 TCTCAACAGAGGCTCCACAACTTTAAAATTCTC
* * * *
14426867 ATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATTTTTATCTTGAAAAAGCTCC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATCTTGAAAAAGCTCC
*
14426932 TCTCAACAGAGGCTCCACAACTTTAAAATTATC
66 TCTCAACAGAGGCTCCACAACTTTAAAATTCTC
* *
14426965 ATCTTGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTA-CTTCTGAAAAAGCT
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATC-T-TGAAAAAGCT
* *
14427029 CTTCTCAACAGAGGCTCTACAACTTTAAAATT-TC
64 CCTCTCAACAGAGGCTCCACAACTTTAAAATTCTC
* * ** *
14427063 ATTTTG-AAAATCTCATCTGAAAAAGCTCCTTTCAACAGAGGCTCCACAACTTTAAAA-TTTT-T
1 ATCTTGAAAAAGCTC--CT-------CT-C-AAC-AG--AGGCTCCACAACTTTAAAATTTTTAT
*
14427125 CTTGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTC
52 CTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTC
* ** * * *
14427172 ATTTTGAAAAAGCTCCTCTCAACAGAGGCTCCATTACTTTAAAATTCTCATATTGGAAAAA-CTC
1 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATCTT-GAAAAAGCTC
*
14427236 CTCTCAACAGAGGCTCCACAACTTTAAAATTCTT
65 CTCTCAACAGAGGCTCCACAACTTTAAAATTCTC
* * * *
14427270 A-CTTCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAA-TTTCATTTTGAAAAAGCT
1 ATC-T-TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATCTTGAAAAAGCT
*
14427333 CCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTC
64 CCTCTCAACAGAGGCTCCACAACTTTAAAATTCTC
14427368 ATCT
1 ATCT
14427372 GTTTCAAATT
Statistics
Matches: 437, Mismatches: 41, Indels: 53
0.82 0.08 0.10
Matches are distributed among these distances:
96 17 0.04
97 62 0.14
98 183 0.42
99 86 0.20
100 1 0.00
101 2 0.00
106 2 0.00
107 1 0.00
108 43 0.10
109 10 0.02
110 11 0.03
111 19 0.04
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (98 bp):
ATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTTTATCTTGAAAAAGCTCC
TCTCAACAGAGGCTCCACAACTTTAAAATTCTC
Found at i:14427139 original size:61 final size:60
Alignment explanation
Indices: 14427017--14427141 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 60
14427007 AATTCTTACT
* *
14427017 TCTGAAAAAGCTCTTCTCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAATCTCA
1 TCTGAAAAAGCTCTTCTCAACAGAGGCTCCACAACTTTAAAATTT-ATTTTGAAAAGCTCA
14427078 TCTGAAAAAGCTCCTT-TCAACAGAGGCTCCACAACTTTAAAATTT-TTCTTGAAAAAGCTCA
1 TCTGAAAAAGCT-CTTCTCAACAGAGGCTCCACAACTTTAAAATTTATT-TTG-AAAAGCTCA
14427139 TCT
1 TCT
14427142 CAACAGAGGC
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
59 2 0.03
60 3 0.05
61 51 0.86
62 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (60 bp):
TCTGAAAAAGCTCTTCTCAACAGAGGCTCCACAACTTTAAAATTTATTTTGAAAAGCTCA
Found at i:14427181 original size:256 final size:258
Alignment explanation
Indices: 14426822--14427328 Score: 856
Period size: 256 Copynumber: 2.0 Consensus size: 258
14426812 AATTTTTTCT
*
14426822 TGAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTCATCTTGAAAAAGCTCATCTC
1 TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTCATCTC
* * * *
14426887 AGCAGAGGCTCAACAATTTTAAAATTTTTATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAA
66 AACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAA
* *
14426952 CTTTAAAATTATCATCTTGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTACT
131 CTTTAAAATTATCATATTGGAAAAACTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTACT
* *
14427017 TCTGAAAAAGCTCTTCTCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAATCTCATC
196 TCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAATCTCATC
* *
14427080 TGAAAAAGCTCCTTTCAACAGAGGCTCCACAACTTTAAAATT-T-TTCTTGAAAAAGCTCATCTC
1 TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTCATCTC
* * **
14427143 AACAGAGGCTCCACAACTTTAAAATTCTCATTTTGAAAAAGCTCCTCTCAACAGAGGCTCCATTA
66 AACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAA
*
14427208 CTTTAAAATTCTCATATTGGAAAAACTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTACT
131 CTTTAAAATTATCATATTGGAAAAACTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTACT
14427273 TCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAA
196 TCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAA
14427329 AGCTCCTCTC
Statistics
Matches: 233, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
256 192 0.82
257 1 0.00
258 40 0.17
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.30
Consensus pattern (258 bp):
TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGAAAAAGCTCATCTC
AACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAA
CTTTAAAATTATCATATTGGAAAAACTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTTACT
TCTGAAAAAGCTCCTCCCAACAGAGGCTCTACAACTTTAAAATTTCATTTTGAAAATCTCATC
Found at i:14438412 original size:23 final size:22
Alignment explanation
Indices: 14438375--14438418 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14438365 AATATGTGTG
14438375 AATTTTTTTGCTTTTTATTTTTT
1 AATTTTTTTGCTTTTT-TTTTTT
14438398 AATTTGTTTTG-TTTTTTTTTT
1 AATTT-TTTTGCTTTTTTTTTT
14438419 ACTAAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (22 bp):
AATTTTTTTGCTTTTTTTTTTT
Found at i:14439558 original size:18 final size:19
Alignment explanation
Indices: 14439518--14439567 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
14439508 TCTTCCTATT
*
14439518 TTTATTACTTATATTTTTAA
1 TTTATTAATTA-ATTTTTAA
14439538 TTTATTAATTAATTTTT-A
1 TTTATTAATTAATTTTTAA
*
14439556 TTTATTATTTAA
1 TTTATTAATTAA
14439568 AAAAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 6 0.21
20 10 0.36
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTAATTAATTTTTAA
Found at i:14439838 original size:203 final size:205
Alignment explanation
Indices: 14439380--14439938 Score: 779
Period size: 203 Copynumber: 2.7 Consensus size: 205
14439370 AATTTAATCA
* * * * * * *
14439380 TATTGAAGATTTTCTATAAATATTCCAATACGCTGGTAATATTTTAAAAAATCTTTTCACTTAGA
1 TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTA-CTTAAAAAATCTTCTCACCTAGA
* * * * * * * *
14439445 GATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCCCATCATTGAAT-TAAATTTCTTTT
65 GATTTCAT-AGGCATCACTACTCGGAATACCTTT-GAATCTCATCATCGGATAAAAATTTCTTTT
* * *
14439509 CTTCCTA-TTTTTATTACTTATATTTTTAATTTATTAATTAATTTTTATTTATTATTTAAAAAAA
128 C-TCTTATTTTTTATTAGTTATATTTTTAATTTATTAATCAATTTTTATTTATTATTT--AAAAA
*
14439573 AAGAAAATCTTTACTG
190 AAGAAAATATTTACTG
14439589 TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTACTTAAAAAAATCTTCTCACCTAGA
1 TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTACTT-AAAAAATCTTCTCACCTAGA
* *
14439654 AATTTCGTAGGCATCACTACTCGGAATACCTTT-AATCTCATCATCGGATAAAAATTTCATTTTC
65 GATTTCATAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTC-TTTTC
*
14439718 TCTTATTTTTTATTAGTTATA-TTTTAATTTATTAATCAATTTTTATTTATTATTT-TAAAAA-A
129 TCTTATTTTTTATTAGTTATATTTTTAATTTATTAATCAATTTTTATTTATTATTTAAAAAAAGA
*
14439780 ATATATTTACTG
194 AAATATTTACTG
*
14439792 TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTACTTAAAAAATTTTCTCACCTAGAG
1 TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTACTTAAAAAATCTTCTCACCTAGAG
14439857 ATTTCATAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCCTTTTCT
66 ATTTCATAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTT-CTTTTCT
14439922 CTTATTTTTTATTAGTT
130 CTTATTTTTTATTAGTT
14439939 TAGTATTATT
Statistics
Matches: 319, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
202 50 0.16
203 102 0.32
204 6 0.02
206 13 0.04
207 44 0.14
208 43 0.13
209 61 0.19
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (205 bp):
TATTGAAAATTTTTTATAAATACTCCAATACGCTGGTAGTACTTAAAAAATCTTCTCACCTAGAG
ATTTCATAGGCATCACTACTCGGAATACCTTTGAATCTCATCATCGGATAAAAATTTCTTTTCTC
TTATTTTTTATTAGTTATATTTTTAATTTATTAATCAATTTTTATTTATTATTTAAAAAAAGAAA
ATATTTACTG
Found at i:14443097 original size:4 final size:4
Alignment explanation
Indices: 14443088--14443115 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14443078 TGGAAAATGG
14443088 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
14443116 AAACAGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14446725 original size:17 final size:18
Alignment explanation
Indices: 14446703--14446741 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14446693 AAAAAAATTT
*
14446703 ATAAAAGAA-GAATTTTA
1 ATAAAAAAATGAATTTTA
*
14446720 ATAAAAAAATGATTTTTA
1 ATAAAAAAATGAATTTTA
14446738 ATAA
1 ATAA
14446742 GTAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATAAAAAAATGAATTTTA
Found at i:14447309 original size:25 final size:25
Alignment explanation
Indices: 14447275--14447336 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
14447265 AAATTAAAGA
*
14447275 TTCGAAACATGAGAAGAGCTGAAGG
1 TTCGAGACATGAGAAGAGCTGAAGG
*
14447300 TTCGAGACATGTGAAGAGCTGAAGG
1 TTCGAGACATGAGAAGAGCTGAAGG
*
14447325 TTCGAGCCATGA
1 TTCGAGACATGA
14447337 AAATAGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (25 bp):
TTCGAGACATGAGAAGAGCTGAAGG
Found at i:14456469 original size:31 final size:30
Alignment explanation
Indices: 14456376--14456470 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
14456366 TATTGTACCC
* *
14456376 AAATAAACCCTTAACTTTTAATTTGCACAT
1 AAATAAACTCTTAACTTTTAATTTGCACCT
* * *
14456406 AAATAAACTCTTAAGTTTTAATTTACATCT
1 AAATAAACTCTTAACTTTTAATTTGCACCT
* * *
14456436 AAACAAACTCTTAATTTTTTAATTTGTACCT
1 AAATAAACTCTTAA-CTTTTAATTTGCACCT
14456467 AAAT
1 AAAT
14456471 CAGTCATTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
30 38 0.72
31 15 0.28
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATAAACTCTTAACTTTTAATTTGCACCT
Found at i:14460775 original size:2 final size:2
Alignment explanation
Indices: 14460768--14460805 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
14460758 TCTTTTCTTG
*
14460768 TA TA TA TA TA TA TA TA T- TA TA T- TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14460806 AAATTGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:14472350 original size:29 final size:30
Alignment explanation
Indices: 14472302--14472359 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
14472292 TTAATTGAGA
*
14472302 GTTTAATTAAAATAAAAATAAATGTTTAAG
1 GTTTAATTAAAATAAAAATAAATATTTAAG
14472332 GTTTAATT-AAATAAAAATAAATATTTAA
1 GTTTAATTAAAATAAAAATAAATATTTAA
14472360 AAACTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (30 bp):
GTTTAATTAAAATAAAAATAAATATTTAAG
Found at i:14472368 original size:30 final size:31
Alignment explanation
Indices: 14472304--14472392 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 31
14472294 AATTGAGAGT
* ***
14472304 TTAATTAAAATAAAAATAAATGTTT-AAGGT
1 TTAATTAAAATAAAAATAAATATTTAAAAAC
14472334 TTAATT-AAATAAAAATAAATATTTAAAAAC
1 TTAATTAAAATAAAAATAAATATTTAAAAAC
* *
14472364 TTAATTGATATAAAATATAAA-ATTTAAAA
1 TTAATTAAAATAAAA-ATAAATATTTAAAA
14472393 TTTAATTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 17 0.33
30 14 0.27
31 15 0.29
32 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (31 bp):
TTAATTAAAATAAAAATAAATATTTAAAAAC
Found at i:14472398 original size:30 final size:31
Alignment explanation
Indices: 14472303--14472407 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 31
14472293 TAATTGAGAG
* * * **
14472303 TTTAATTAAAATAAAAATAAATGTTT-AAGG
1 TTTAATTGATATAAAAATAAATATTTAAAAA
*
14472333 TTTAATT-AAATAAAAATAAATATTTAAAAA
1 TTTAATTGATATAAAAATAAATATTTAAAAA
*
14472363 CTTAATTGATATAAAATATAAA-ATTT-AAAA
1 TTTAATTGATATAAAA-ATAAATATTTAAAAA
14472393 TTTAATTGATTATAA
1 TTTAATTGA-TATAA
14472408 TAAAATATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
29 17 0.26
30 27 0.42
31 16 0.25
32 5 0.08
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (31 bp):
TTTAATTGATATAAAAATAAATATTTAAAAA
Found at i:14480138 original size:21 final size:21
Alignment explanation
Indices: 14480087--14480142 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
14480077 TATACAGAAA
14480087 TTTGATTCAAATTTACATTTC
1 TTTGATTCAAATTTACATTTC
* *
14480108 TTTCAATCAAATTCT-C-TTTC
1 TTTGATTCAAATT-TACATTTC
14480128 TTTTGATTCAAATTT
1 -TTTGATTCAAATTT
14480143 CTCATTGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.17
21 23 0.79
22 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTGATTCAAATTTACATTTC
Found at i:14490504 original size:72 final size:70
Alignment explanation
Indices: 14490383--14490784 Score: 300
Period size: 72 Copynumber: 5.6 Consensus size: 70
14490373 AAAATTTTTT
* * * * * *
14490383 TTTTTCATATTTTCAACAAGAA-TCATATTTTTATCATAAAAACATTGTTTTCGTTGAATTTTAA
1 TTTTT-ATATTTTCAACAA-AATTTAT-TTTTTATCTTAAAAATACTGTTTTTGTTAAATTTTAA
14490447 AAAATAAA
63 AAAATAAA
* * * *
14490455 TTTTTATATTTTCAAGAAATATTGTATTTTTTATTTTAAAAATACTGTTTTTATTAAATTCTAAA
1 TTTTTATATTTTCAACAAA-ATT-TATTTTTTATCTTAAAAATACTGTTTTTGTTAAATTTTAAA
*
14490520 AAGTAAA
64 AAATAAA
*
14490527 TGTTTTTCATATTTTTAACAAAATTTACATTTTTTATCTTAAAATATA-T-TTTTTGTTAAATTC
1 --TTTTT-ATATTTTCAACAAAATTT--ATTTTTTATCTTAAAA-ATACTGTTTTTGTTAAATT-
*
14490590 TT-AAAAATAAT
59 TTAAAAAATAAA
* * * * *
14490601 TTTTTATAATTTTCAACAAAAATTATGTTTTTATC-TAAGAAATATTGTATTTATTGAATTTTAA
1 TTTTTAT-ATTTTCAACAAAATTTAT-TTTTTATCTTAA-AAATACTGTTTTTGTTAAATTTTAA
*
14490665 AATAT-AA
63 AAAATAAA
* ** * *
14490672 TTTTTTTATTTTCAA-AAAAAATA-TTTTTATCTTAAAAATATCT-TTTTTGTTAAATTATGAAA
1 TTTTTATATTTTCAACAAAATTTATTTTTTATCTTAAAAATA-CTGTTTTTGTTAAATTTTAAAA
*
14490734 AATAAT
65 AATAAA
* * * *
14490740 TTTTTACATATTTTAAATAAAAATTGCATTTTTAATCTTAAAAAT
1 TTTTT--ATATTTTCAA-CAAAATT-TATTTTTTATCTTAAAAAT
14490785 TTCATCATTG
Statistics
Matches: 264, Mismatches: 41, Indels: 48
0.75 0.12 0.14
Matches are distributed among these distances:
67 29 0.11
68 10 0.04
69 7 0.03
70 25 0.09
71 35 0.13
72 80 0.30
73 4 0.02
74 42 0.16
75 29 0.11
76 3 0.01
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (70 bp):
TTTTTATATTTTCAACAAAATTTATTTTTTATCTTAAAAATACTGTTTTTGTTAAATTTTAAAAA
ATAAA
Found at i:14490521 original size:146 final size:146
Alignment explanation
Indices: 14490370--14490685 Score: 315
Period size: 146 Copynumber: 2.1 Consensus size: 146
14490360 AAAAAATTTC
14490370 AAAAAAATTTTTTTTTTTCATATTTTCAACAAGAA-T-CATATTTTTATCATAAAA-ACATTGTT
1 AAAAAAATTTTTTTTTTTCATATTTTCAACAA-AATTACAT-TTTTTATCATAAAATACATT-TT
* * * *
14490432 TTCGTTGAATT-TTAAAAAATAAATTTTTAT-ATTTTCAAGAAATATTGTAT-TTTTTATTTTAA
63 TT-GTTAAATTCTT-AAAAATAAATTTTTATAATTTTCAACAAA-AAT-TATGTTTTTA-TCTAA
*
14490494 -AAATACTGTTTTTATTAAATTCT
123 GAAATACTGTATTTATTAAATTCT
* *** * * * *
14490517 -AAAAAGTAAATGTTTTTCATATTTTTAACAAAATTTACATTTTTTATCTTAAAATATATTTTTT
1 AAAAAAATTTTTTTTTTTCATATTTTCAACAAAA-TTACATTTTTTATCATAAAATACATTTTTT
* *
14490581 GTTAAATTCTTAAAAATAATTTTTTATAATTTTCAACAAAAATTATGTTTTTATCTAAGAAATAT
65 GTTAAATTCTTAAAAATAAATTTTTATAATTTTCAACAAAAATTATGTTTTTATCTAAGAAATAC
* *
14490646 TGTATTTATTGAATTTT
130 TGTATTTATTAAATTCT
14490663 AAAATATAATTTTTTTATTTTCA
1 AAAA-A-AATTTTTTT-TTTTCA
14490686 AAAAAAATAT
Statistics
Matches: 135, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
145 9 0.07
146 74 0.55
147 34 0.25
148 8 0.06
149 4 0.03
150 6 0.04
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (146 bp):
AAAAAAATTTTTTTTTTTCATATTTTCAACAAAATTACATTTTTTATCATAAAATACATTTTTTG
TTAAATTCTTAAAAATAAATTTTTATAATTTTCAACAAAAATTATGTTTTTATCTAAGAAATACT
GTATTTATTAAATTCT
Found at i:14492891 original size:17 final size:17
Alignment explanation
Indices: 14492834--14492896 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
14492824 ATATTAAAAA
*
14492834 ATAATTTTAAAATATA-
1 ATAATATTAAAATATAT
* *
14492850 A-AAAAATAAAA-ATAT
1 ATAATATTAAAATATAT
*
14492865 AGAATATTAAAATATAT
1 ATAATATTAAAATATAT
*
14492882 ATAATTTTAAAATAT
1 ATAATATTAAAATAT
14492897 CCTAAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 3 0.08
15 8 0.22
16 9 0.24
17 17 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAATATTAAAATATAT
Found at i:14493426 original size:13 final size:13
Alignment explanation
Indices: 14493408--14493432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14493398 AACTTACATT
14493408 AAGTTTTTGAATA
1 AAGTTTTTGAATA
14493421 AAGTTTTTGAAT
1 AAGTTTTTGAAT
14493433 TTTTTTATTA
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
AAGTTTTTGAATA
Found at i:14493728 original size:23 final size:23
Alignment explanation
Indices: 14493683--14493729 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14493673 TCGAATTCAA
* *
14493683 TAAAAAATTTTACGAATTTTATT
1 TAAAAAATTTTACGAAATATATT
14493706 TAAAAAATTTTATC-AAATATATT
1 TAAAAAATTTTA-CGAAATATATT
14493729 T
1 T
14493730 TTATATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAAAATTTTACGAAATATATT
Found at i:14494056 original size:2 final size:2
Alignment explanation
Indices: 14494049--14494079 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14494039 TGGAATGTTT
14494049 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14494080 TCAGATTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14494338 original size:17 final size:16
Alignment explanation
Indices: 14494307--14494342 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
14494297 GAAAAATTAT
14494307 ATTTAATAAAATTTAA
1 ATTTAATAAAATTTAA
*
14494323 ATTTAAGTATAATTTAA
1 ATTTAA-TAAAATTTAA
14494340 ATT
1 ATT
14494343 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTAATAAAATTTAA
Found at i:14496509 original size:11 final size:11
Alignment explanation
Indices: 14496490--14496519 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14496480 TTGATGATAT
*
14496490 TATTATAATAA
1 TATTTTAATAA
14496501 TATTTTAATAA
1 TATTTTAATAA
14496512 TATTTTAA
1 TATTTTAA
14496520 ATTGATTCGA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:14496599 original size:21 final size:22
Alignment explanation
Indices: 14496575--14496616 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14496565 GATTATAGAA
14496575 ATTGATT-TAGTTATTATTTTT
1 ATTGATTATAGTTATTATTTTT
* *
14496596 ATTGATTATATTTTTTATTTT
1 ATTGATTATAGTTATTATTTT
14496617 ATAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
ATTGATTATAGTTATTATTTTT
Found at i:14500660 original size:19 final size:19
Alignment explanation
Indices: 14500638--14500711 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
14500628 AGTAATATTT
14500638 TGATAATATTCTAGATTGA
1 TGATAATATTCTAGATTGA
* *
14500657 TGATATTATTCTAGTAATATTA
1 TGATAATATTCTAG--AT-TGA
*
14500679 T-AGTAATATTCTAAATTGA
1 TGA-TAATATTCTAGATTGA
*
14500698 TGGTAATATTCTAG
1 TGATAATATTCTAG
14500712 TAATATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
19 26 0.60
20 2 0.05
21 3 0.07
22 12 0.28
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (19 bp):
TGATAATATTCTAGATTGA
Found at i:14500675 original size:41 final size:41
Alignment explanation
Indices: 14500621--14500722 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
14500611 AGTGTCAATG
* *
14500621 ATATTTTAGTAATATTTT-GATAATATTCTAGATTGATGATA
1 ATATTCTAGTAATATTTTAG-TAATATTCTAAATTGATGATA
* * *
14500662 TTATTCTAGTAATATTATAGTAATATTCTAAATTGATGGTA
1 ATATTCTAGTAATATTTTAGTAATATTCTAAATTGATGATA
14500703 ATATTCTAGTAATATTTTAG
1 ATATTCTAGTAATATTTTAG
14500723 ATTGATTTGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (41 bp):
ATATTCTAGTAATATTTTAGTAATATTCTAAATTGATGATA
Found at i:14500682 original size:11 final size:11
Alignment explanation
Indices: 14500663--14500718 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
14500653 TTGATGATAT
14500663 TATTCTAGTAA
1 TATTCTAGTAA
*
14500674 TATTATAGTAA
1 TATTCTAGTAA
14500685 TATTCTA--AA
1 TATTCTAGTAA
** *
14500694 T-TGATGGTAA
1 TATTCTAGTAA
14500704 TATTCTAGTAA
1 TATTCTAGTAA
14500715 TATT
1 TATT
14500719 TTAGATTGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
8 2 0.06
9 3 0.09
10 3 0.09
11 26 0.76
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (11 bp):
TATTCTAGTAA
Found at i:14500704 original size:30 final size:30
Alignment explanation
Indices: 14500670--14500728 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
14500660 TATTATTCTA
14500670 GTAATATTATAGTAATATTCTAAATTGATG
1 GTAATATTATAGTAATATTCTAAATTGATG
* * *
14500700 GTAATATTCTAGTAATATTTTAGATTGAT
1 GTAATATTATAGTAATATTCTAAATTGAT
14500729 TTGATATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (30 bp):
GTAATATTATAGTAATATTCTAAATTGATG
Found at i:14500910 original size:18 final size:18
Alignment explanation
Indices: 14500887--14500936 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
14500877 TACAATAAAG
* *
14500887 TTTTCATCATTTTTTTCT
1 TTTTCATCATTTTCTCCT
14500905 TTTTCAATCATTTTCTCCT
1 TTTTC-ATCATTTTCTCCT
*
14500924 TTTTCATGATTTT
1 TTTTCATCATTTT
14500937 AACATTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTCATCATTTTCTCCT
Found at i:14503750 original size:15 final size:16
Alignment explanation
Indices: 14503730--14503762 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14503720 TCAGATCTGA
14503730 TTTGTAGATTTT-TTT
1 TTTGTAGATTTTATTT
*
14503745 TTTGTATATTTTATTT
1 TTTGTAGATTTTATTT
14503761 TT
1 TT
14503763 ATTTTTATTT
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:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (16 bp):
TTTGTAGATTTTATTT
Found at i:14503767 original size:21 final size:20
Alignment explanation
Indices: 14503737--14503777 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
14503727 TGATTTGTAG
*
14503737 ATTTTTTTTTTGTATATTTT
1 ATTTTTTTTTTATATATTTT
*
14503757 ATTTTTATTTTTATTTATTTT
1 ATTTTT-TTTTTATATATTTT
14503778 GATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTTTATATATTTT
Found at i:14504287 original size:1 final size:1
Alignment explanation
Indices: 14504283--14504308 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
14504273 CCCCCCCCCC
14504283 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
14504309 CAATCGTCAT
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:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14512774 original size:4 final size:4
Alignment explanation
Indices: 14512765--14512789 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14512755 TTTATTGTTC
14512765 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
14512790 TTCTTGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:14513269 original size:27 final size:26
Alignment explanation
Indices: 14513237--14513288 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
14513227 AATTGATATG
*
14513237 ATAATTGGTATATTTATATCAATATTA
1 ATAATTGATATATTTATAT-AATATTA
*
14513264 ATAATTTATATATTTATATAATATT
1 ATAATTGATATATTTATATAATATT
14513289 TTATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
ATAATTGATATATTTATATAATATTA
Found at i:14513397 original size:30 final size:30
Alignment explanation
Indices: 14513337--14513397 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
14513327 AAAAATATGA
** *
14513337 AAATTTTTTATTATTATTTTAAAATTTTTT
1 AAATTTTTTATTAAAATTTTAAAATGTTTT
*
14513367 AAATTTTTTATTAAAAGTTTT-AACTGTTTT
1 AAATTTTTTATTAAAA-TTTTAAAATGTTTT
14513397 A
1 A
14513398 TCTTTGTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
AAATTTTTTATTAAAATTTTAAAATGTTTT
Found at i:14514654 original size:21 final size:22
Alignment explanation
Indices: 14514616--14514657 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14514606 TTATTATTAT
*
14514616 TTTATTTTTTAATCTTTAATAG
1 TTTATTTTTTAATATTTAATAG
14514638 TTTATTTTTTAA-ATTTAATA
1 TTTATTTTTTAATATTTAATA
14514658 CTAAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTTTTAATATTTAATAG
Found at i:14514922 original size:29 final size:28
Alignment explanation
Indices: 14514826--14514925 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 28
14514816 TAATCATATT
*
14514826 TTTATATATATTCATATTAGTTGTAT-TTA
1 TTTATATATATTTATATTA-TT-TATGTTA
* * * *
14514855 TTCAT-TATATTAATATCATTTGTGTTTA
1 TTTATATATATTTATATTATTTATG-TTA
* *
14514883 TTTGTGTATATTTATATTATTTATGTTA
1 TTTATATATATTTATATTATTTATGTTA
14514911 TTTATATCATATTTA
1 TTTATAT-ATATTTA
14514926 AACAAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 25 0.45
29 27 0.48
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTATATATATTTATATTATTTATGTTA
Found at i:14514925 original size:20 final size:19
Alignment explanation
Indices: 14514880--14514917 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14514870 TCATTTGTGT
*
14514880 TTATTTGTGTATATTTATA
1 TTATTTATGTATATTTATA
14514899 TTATTTATGT-TATTTATA
1 TTATTTATGTATATTTATA
14514917 T
1 T
14514918 CATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (19 bp):
TTATTTATGTATATTTATA
Found at i:14514997 original size:6 final size:6
Alignment explanation
Indices: 14514988--14515044 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
14514978 AATAAACTTA
* * * *
14514988 TTATAT TTATAT TTAAAGT TTAAAT ATATTT TTATAAT TTATA- TTATAT
1 TTATAT TTATAT TTATA-T TTATAT TTATAT TTAT-AT TTATAT TTATAT
14515037 TTATAT TT
1 TTATAT TT
14515045 TAATAATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.12
6 26 0.62
7 11 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (6 bp):
TTATAT
Found at i:14519612 original size:14 final size:14
Alignment explanation
Indices: 14519575--14519614 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
14519565 TTTTTAGTAT
*
14519575 AAAATTTTACCTAA
1 AAAATTTTATCTAA
*
14519589 AAAATTTTATCTCA
1 AAAATTTTATCTAA
14519603 AAAATTTTATCT
1 AAAATTTTATCT
14519615 GAATTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTTATCTAA
Found at i:14521004 original size:2 final size:2
Alignment explanation
Indices: 14520997--14521022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14520987 GTACTCACGC
14520997 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14521023 TTAACCCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14521091 original size:19 final size:19
Alignment explanation
Indices: 14521067--14521103 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14521057 GTCAGAAATA
14521067 TATTTTAAAATTTTAACAC
1 TATTTTAAAATTTTAACAC
*
14521086 TATTTTAAGATTTTAACA
1 TATTTTAAAATTTTAACA
14521104 ATAATCAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTTTAAAATTTTAACAC
Found at i:14522641 original size:19 final size:19
Alignment explanation
Indices: 14522613--14522649 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14522603 CCACGTGAAT
*
14522613 CGTGATTCACTCACTCACA
1 CGTGAATCACTCACTCACA
14522632 CGTGAATCACTCACTCAC
1 CGTGAATCACTCACTCAC
14522650 TCACTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.38, G:0.11, T:0.24
Consensus pattern (19 bp):
CGTGAATCACTCACTCACA
Found at i:14523336 original size:3 final size:3
Alignment explanation
Indices: 14523266--14523318 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
14523256 TTTTAAATCT
*
14523266 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14523314 TTA TT
1 TTA TT
14523319 TATTTCAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14525921 original size:23 final size:23
Alignment explanation
Indices: 14525895--14525941 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
14525885 ATAAGTTTAT
*
14525895 ATGTGATATCAAAATTGATATGG
1 ATGTGATACCAAAATTGATATGG
14525918 ATGTGATACCAAAATTGATATGG
1 ATGTGATACCAAAATTGATATGG
14525941 A
1 A
14525942 GAAACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.32
Consensus pattern (23 bp):
ATGTGATACCAAAATTGATATGG
Found at i:14530118 original size:25 final size:24
Alignment explanation
Indices: 14530072--14530118 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
14530062 AAAATTTTGC
* * *
14530072 TAAAAAATTTTTATTTAGAAATAT
1 TAAAAAATTTTAAGTTAAAAATAT
14530096 TAAAAAATCTTTAAGTTAAAAAT
1 TAAAAAAT-TTTAAGTTAAAAAT
14530119 TATCTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAAAAATTTTAAGTTAAAAATAT
Found at i:14530452 original size:17 final size:16
Alignment explanation
Indices: 14530426--14530460 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
14530416 TATGTATGCT
14530426 AATGAATGTAATGTAA
1 AATGAATGTAATGTAA
*
14530442 AATGAAATGTAATTTAA
1 AATG-AATGTAATGTAA
14530459 AA
1 AA
14530461 GTCGGGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (16 bp):
AATGAATGTAATGTAA
Found at i:14530875 original size:16 final size:16
Alignment explanation
Indices: 14530854--14530972 Score: 98
Period size: 16 Copynumber: 7.5 Consensus size: 16
14530844 CGGATTTTGG
14530854 GGGGTTTTGGATTTTA
1 GGGGTTTTGGATTTTA
* *
14530870 GGGGTTTCGAATTTTA
1 GGGGTTTTGGATTTTA
* *
14530886 GGGG-TTTCGATTTAA
1 GGGGTTTTGGATTTTA
*
14530901 GGGATTTTGGATTTTA
1 GGGGTTTTGGATTTTA
*** * *
14530917 GAAATTTCGAATTTTA
1 GGGGTTTTGGATTTTA
* *
14530933 -GGATTTTGGATTTAA
1 GGGGTTTTGGATTTTA
*
14530948 GGGGATTTTGAATTTTA
1 GGGG-TTTTGGATTTTA
14530965 GGGGTTTT
1 GGGGTTTT
14530973 AGAAACCGAA
Statistics
Matches: 79, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
15 20 0.25
16 45 0.57
17 14 0.18
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (16 bp):
GGGGTTTTGGATTTTA
Found at i:14530912 original size:47 final size:48
Alignment explanation
Indices: 14530853--14530971 Score: 159
Period size: 47 Copynumber: 2.5 Consensus size: 48
14530843 TCGGATTTTG
* *
14530853 GGGGGTTTTGGATTTTAGGGGTTTCGAATTTTAGGGGTTTCGATTTAA
1 GGGGATTTTGGATTTTAGGGGTTTCGAATTTTAGGAGTTTCGATTTAA
*** * *
14530901 -GGGATTTTGGATTTTAGAAATTTCGAATTTTAGGATTTTGGATTTAA
1 GGGGATTTTGGATTTTAGGGGTTTCGAATTTTAGGAGTTTCGATTTAA
*
14530948 GGGGATTTTGAATTTTAGGGGTTT
1 GGGGATTTTGGATTTTAGGGGTTT
14530972 TAGAAACCGA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 40 0.68
48 19 0.32
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (48 bp):
GGGGATTTTGGATTTTAGGGGTTTCGAATTTTAGGAGTTTCGATTTAA
Found at i:14530915 original size:31 final size:31
Alignment explanation
Indices: 14530837--14530967 Score: 102
Period size: 31 Copynumber: 4.1 Consensus size: 31
14530827 TTAAAGGTTT
* *
14530837 GGGATTTCGGATTTTGGGGGGTTTTGGATTTTA
1 GGGATTTCGGATTTT-AGGGG-TTTCGATTTTA
* * *
14530870 GGGGTTTCGAATTTTAGGGGTTTCGATTTAA
1 GGGATTTCGGATTTTAGGGGTTTCGATTTTA
* ***
14530901 GGGATTTTGGATTTTAGAAATTTCGAATTTTA
1 GGGATTTCGGATTTTAGGGGTTTCG-ATTTTA
* * *
14530933 -GGATTTTGGATTTAAGGGGATTTTGAATTTTA
1 GGGATTTCGGATTTTAGGGG-TTTCG-ATTTTA
14530965 GGG
1 GGG
14530968 GTTTTAGAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
31 43 0.55
32 20 0.26
33 15 0.19
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (31 bp):
GGGATTTCGGATTTTAGGGGTTTCGATTTTA
Found at i:14532976 original size:36 final size:37
Alignment explanation
Indices: 14532896--14532988 Score: 125
Period size: 36 Copynumber: 2.5 Consensus size: 37
14532886 GGATTAAATT
* * *
14532896 GTAAGTCAAGAAGTAAAAAATCGATTGAGACAACACC
1 GTAAGTCGAGAAGTAAAAAATCGATCGAGAAAACACC
* *
14532933 GTGAGTCGAGAAGTAAAGAATCGATCG-GAAAACACC
1 GTAAGTCGAGAAGTAAAAAATCGATCGAGAAAACACC
*
14532969 GTAAGTCGAGAAATAAAAAA
1 GTAAGTCGAGAAGTAAAAAA
14532989 AATCAATCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 25 0.52
37 23 0.48
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.15
Consensus pattern (37 bp):
GTAAGTCGAGAAGTAAAAAATCGATCGAGAAAACACC
Found at i:14533078 original size:24 final size:24
Alignment explanation
Indices: 14533027--14533083 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
14533017 AATTATATCT
14533027 AAAGGTCTT--AGAAATCATGTCC
1 AAAGGTCTTACAGAAATCATGTCC
**
14533049 GGAGGTCTTACAGAAATCATG-CTC
1 AAAGGTCTTACAGAAATCATGTC-C
14533073 AAAGGTCTTAC
1 AAAGGTCTTAC
14533084 GGAATCGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.25
23 1 0.04
24 20 0.71
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAGGTCTTACAGAAATCATGTCC
Found at i:14533395 original size:34 final size:34
Alignment explanation
Indices: 14533349--14533430 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
14533339 AAATACTAAG
*
14533349 GATCAAGATTAAACTGCGAATCAGAGAATAAAGA
1 GATCGAGATTAAACTGCGAATCAGAGAATAAAGA
* *
14533383 GATCGAGATTAAATTGTGAATCAGAGAATAAAGA
1 GATCGAGATTAAACTGCGAATCAGAGAATAAAGA
* *
14533417 GACCGGGATTAAAC
1 GATCGAGATTAAAC
14533431 CCGAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (34 bp):
GATCGAGATTAAACTGCGAATCAGAGAATAAAGA
Found at i:14533414 original size:19 final size:17
Alignment explanation
Indices: 14533366--14533418 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
14533356 ATTAAACTGC
14533366 GAATCAGAGAATAAAGA
1 GAATCAGAGAATAAAGA
* *
14533383 G-ATC-GAGATTAAATTGT
1 GAATCAGAGAATAAA--GA
14533400 GAATCAGAGAATAAAGA
1 GAATCAGAGAATAAAGA
14533417 GA
1 GA
14533419 CCGGGATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 8 0.29
16 3 0.11
17 6 0.21
18 3 0.11
19 8 0.29
ACGTcount: A:0.51, C:0.06, G:0.25, T:0.19
Consensus pattern (17 bp):
GAATCAGAGAATAAAGA
Found at i:14533670 original size:102 final size:102
Alignment explanation
Indices: 14533517--14533706 Score: 247
Period size: 102 Copynumber: 1.9 Consensus size: 102
14533507 AAAGGTTAAC
* ** * * *
14533517 AACAACAATCAAGACTAAATTACGATTTTAAATTAAAGCGATCGGGATTGAACCGCGAATCAAAG
1 AACAACAATCAAGACTAAACTACGATTTTAAATTAAAAAGATCAGAATTGAACCACGAATCAAAG
14533582 AATAAAAAGATCGAAATTAAACCGCAAGTTAAAAGTT
66 AATAAAAAGATCGAAATTAAACCGCAAGTTAAAAGTT
* * **
14533619 AACAACAAT-AGAGATTAAACTATGATTTTAAATTAAAAAGATCAGAATTGAACCACGAATTGAA
1 AACAACAATCA-AGACTAAACTACGATTTTAAATTAAAAAGATCAGAATTGAACCACGAATCAAA
* **
14533683 GAATAAAGAGATCGGGATTAAACC
65 GAATAAAAAGATCGAAATTAAACC
14533707 ACGAATCAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 1 0.01
102 73 0.99
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (102 bp):
AACAACAATCAAGACTAAACTACGATTTTAAATTAAAAAGATCAGAATTGAACCACGAATCAAAG
AATAAAAAGATCGAAATTAAACCGCAAGTTAAAAGTT
Found at i:14533852 original size:171 final size:169
Alignment explanation
Indices: 14533618--14534232 Score: 712
Period size: 171 Copynumber: 3.6 Consensus size: 169
14533608 AGTTAAAAGT
* ** * * **
14533618 TAACAACAATAGAGATTAAACTATGATTTTAAATTAAAAAGATCAGAATTGAACCACGAATTGAA
1 TAACAACAATCGAGATTAAACTACAATTTTAAATTAAAGAGAT-AGGATTGAACCGTGAATTGAA
*
14533683 GAATAAAGAGATCGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
65 GAATAAAGAGATCGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
* * * * ** * *
14533748 CAGAAAATAAAAAGACTGAGAATAAATTACGAGTCAGAGGT
130 C-GAAAATAAAGAGACTGGGATTAGACCACGAGTCAAAGGA
*
14533789 TAACAACAATCGAGGTTAAACTACAATTTTAAATTAAAGAGATTAGGATTGAACCGTGAATTGAA
1 TAACAACAATCGAGATTAAACTACAATTTTAAATTAAAGAGA-TAGGATTGAACCGTGAATTGAA
** * *
14533854 -AGATAAAGAGATCGGGATTAAACCGTGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAG
65 GA-ATAAAGAGATCGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAG
*
14533918 TCCGAAAATAAAGAGACCGGGATTAGACCACGAGTCAAAGGA
129 T-CGAAAATAAAGAGACTGGGATTAGACCACGAGTCAAAGGA
* ** * * * * **
14533960 TAACAACAACCGAGATTAAACTGTAATTTTAAATTAAAGAGATCGAGATTGAACTGTAAATCGGG
1 TAACAACAATCGAGATTAAACTACAATTTTAAATTAAAGAGATAG-GATTGAACCGTGAATTGAA
* *** * * *
14534025 GGATAAAGAGATCAAAATTAAATCACGAGTTAGAAAATGACGTTAACTTGGATTGAATCACAAGT
65 GAATAAAGAGATCGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAG-
14534090 TCGAAAATAAAGAGACTGGGATTAGACCACGAGTCAAAGGA
129 TCGAAAATAAAGAGACTGGGATTAGACCACGAGTCAAAGGA
* * * * * **
14534131 TAACAACAA-CTGAGATTAAACTACGATTTTGAATTAAAGAGATCGGATTGAGCCGTGATTTCTA
1 TAACAACAATC-GAGATTAAACTACAATTTTAAATTAAAGAGATAGGATTGAACCGTGAATTGAA
* **
14534195 GGATAAAGAGATCGGGATTAAACCGTGAGTCAAAAAAT
65 GAATAAAGAGATCGGGATTAAACCACGAGTCAAAAAAT
14534233 AACATGATCG
Statistics
Matches: 377, Mismatches: 60, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
170 45 0.12
171 329 0.87
172 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (169 bp):
TAACAACAATCGAGATTAAACTACAATTTTAAATTAAAGAGATAGGATTGAACCGTGAATTGAAG
AATAAAGAGATCGGGATTAAACCACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTC
GAAAATAAAGAGACTGGGATTAGACCACGAGTCAAAGGA
Found at i:14535465 original size:24 final size:22
Alignment explanation
Indices: 14535438--14535489 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
14535428 AATCACTTTC
14535438 TTTTTTT-TCTTTTTTTTGTCCAT
1 TTTTTTTATCTTTTTTTTGT--AT
*
14535461 TTTTTCTATCTTTTTTTTGTAT
1 TTTTTTTATCTTTTTTTTGTAT
14535483 TTTTTTT
1 TTTTTTT
14535490 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 12 0.46
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTTTTATCTTTTTTTTGTAT
Found at i:14535490 original size:24 final size:23
Alignment explanation
Indices: 14535438--14535495 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
14535428 AATCACTTTC
*
14535438 TTTTTT-TTCTTTTTTTTGTCCA
1 TTTTTTCTTCTTTTTTTTGTACA
14535460 TTTTTTCTATCTTTTTTTTGT--A
1 TTTTTTCT-TCTTTTTTTTGTACA
14535482 TTTTTT-TTCTTTTT
1 TTTTTTCTTCTTTTT
14535496 CTTTTAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.21
21 1 0.03
22 13 0.38
23 1 0.03
24 12 0.35
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.81
Consensus pattern (23 bp):
TTTTTTCTTCTTTTTTTTGTACA
Found at i:14546780 original size:15 final size:15
Alignment explanation
Indices: 14546762--14546980 Score: 65
Period size: 16 Copynumber: 14.3 Consensus size: 15
14546752 GGGGTTTTGA
14546762 TTTAAGGGTTTGAAT
1 TTTAAGGGTTTGAAT
* *
14546777 TTTAGGGGTTTGGA-
1 TTTAAGGGTTTGAAT
* *
14546791 TTTAAGAGTTTAAAGGT
1 TTTAAGGGTTTGAA--T
* * *
14546808 TTGAA--ATTTCGGAT
1 TTTAAGGGTTT-GAAT
* *
14546822 TTTTA-GGTTTTAGAT
1 TTTAAGGGTTTGA-AT
*
14546837 TTTAAGGGTTTCAGAT
1 TTTAAGGGTTTGA-AT
* *
14546853 TTTAAGGTTTTGGAT
1 TTTAAGGGTTTGAAT
*
14546868 TTT-AGAAGTTTCGAAT
1 TTTAAG-GGTTT-GAAT
* *
14546884 TTTAGGGGTTTCGGAT
1 TTTAAGGGTTT-GAAT
* *
14546900 TTTAGGGGTTTCAAAT
1 TTTAAGGGTTT-GAAT
* *
14546916 TTTAGGGGTTTGGAT
1 TTTAAGGGTTTGAAT
*
14546931 TTT-AGGAGTTTCGGAT
1 TTTAAGG-GTTT-GAAT
* *
14546947 TTT-AGGATTTTGGAT
1 TTTAAGG-GTTTGAAT
**
14546962 TTTAAGATTTTGAAT
1 TTTAAGGGTTTGAAT
14546977 TTTA
1 TTTA
14546981 GGGGATTTTG
Statistics
Matches: 157, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
14 18 0.11
15 59 0.38
16 75 0.48
17 5 0.03
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.47
Consensus pattern (15 bp):
TTTAAGGGTTTGAAT
Found at i:14546808 original size:58 final size:58
Alignment explanation
Indices: 14546695--14546810 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
14546685 AATAGATTTA
* *
14546695 GGGTTTTGATTTTAGAGTTTGAAGATTTTGGGGTTTCGATTTTAAAATTTGAGGTTTG
1 GGGTTTTGATTTAAGAGTTTGAAGATTTTGGGGTTTCGATTTTAAAATTTAAGGTTTG
* * *
14546753 GGGTTTTGATTTAAGGGTTTG-A-ATTTTAGGGGTTTGGA-TTTAAGAGTTTAAAGGTTTG
1 GGGTTTTGATTTAAGAGTTTGAAGATTTT-GGGGTTTCGATTTTAA-AATTT-AAGGTTTG
14546811 AAATTTCGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
56 10 0.20
57 14 0.28
58 26 0.52
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (58 bp):
GGGTTTTGATTTAAGAGTTTGAAGATTTTGGGGTTTCGATTTTAAAATTTAAGGTTTG
Found at i:14546852 original size:16 final size:16
Alignment explanation
Indices: 14546814--14546967 Score: 122
Period size: 16 Copynumber: 9.9 Consensus size: 16
14546804 AGGTTTGAAA
*
14546814 TTTCGGATTTTTA-GG
1 TTTCGGATTTTAAGGG
**
14546829 TTTTAGATTTTAAGGG
1 TTTCGGATTTTAAGGG
*
14546845 TTTCAGATTTTAA-GG
1 TTTCGGATTTTAAGGG
* *
14546860 TTTTGGATTTT-AGAAG
1 TTTCGGATTTTAAG-GG
* *
14546876 TTTCGAATTTTAGGGG
1 TTTCGGATTTTAAGGG
*
14546892 TTTCGGATTTTAGGGG
1 TTTCGGATTTTAAGGG
** *
14546908 TTTCAAATTTTAGGGG
1 TTTCGGATTTTAAGGG
14546924 TTT-GGATTTT-AGGAG
1 TTTCGGATTTTAAGG-G
*
14546939 TTTCGGATTTT-AGGA
1 TTTCGGATTTTAAGGG
*
14546954 TTTTGGATTTTAAG
1 TTTCGGATTTTAAG
14546968 ATTTTGAATT
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
14 3 0.03
15 40 0.35
16 69 0.61
17 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (16 bp):
TTTCGGATTTTAAGGG
Found at i:14546900 original size:32 final size:32
Alignment explanation
Indices: 14546827--14547004 Score: 197
Period size: 31 Copynumber: 5.7 Consensus size: 32
14546817 CGGATTTTTA
* *
14546827 GGTTTTAGATTTTAAGG-GTTTC-AGATTTTA-A
1 GGTTTTGGATTTT-AGGAGTTTCGA-ATTTTAGG
*
14546858 GGTTTTGGATTTTAGAAGTTTCGAATTTTAGG
1 GGTTTTGGATTTTAGGAGTTTCGAATTTTAGG
* * *
14546890 GGTTTCGGATTTTAGGGGTTTCAAATTTTAGG
1 GGTTTTGGATTTTAGGAGTTTCGAATTTTAGG
*
14546922 GG-TTTGGATTTTAGGAGTTTCGGATTTTA-G
1 GGTTTTGGATTTTAGGAGTTTCGAATTTTAGG
* * *
14546952 GATTTTGGATTTTAAGA-TTTTGAATTTTAGG
1 GGTTTTGGATTTTAGGAGTTTCGAATTTTAGG
14546983 GGATTTTGGATTTTAGGAGTTT
1 GG-TTTTGGATTTTAGGAGTTT
14547005 TAGAAACCTA
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
30 14 0.11
31 61 0.50
32 45 0.37
33 3 0.02
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (32 bp):
GGTTTTGGATTTTAGGAGTTTCGAATTTTAGG
Found at i:14546909 original size:63 final size:62
Alignment explanation
Indices: 14546834--14547004 Score: 191
Period size: 63 Copynumber: 2.7 Consensus size: 62
14546824 TTAGGTTTTA
* * *
14546834 GATTTTAAGGGTTTCAGATTTTAAGGTTTTGGATTTTAGAAGTTTCGAATTTTAGGGGTTTCG
1 GATTTTAAGGGTTTCAAATTTTAAGGGTTTGGATTTTAGAAGTTTCGAATTTTA-GGATTTCG
* * * * *
14546897 GATTTTAGGGGTTTCAAATTTTAGGGGTTTGGATTTTAGGAGTTTCGGATTTTAGGATTTTG
1 GATTTTAAGGGTTTCAAATTTTAAGGGTTTGGATTTTAGAAGTTTCGAATTTTAGGATTTCG
* ** * *
14546959 GATTTTAA-GATTTTGAATTTTAGGGGATTTTGGATTTTAGGAGTTT
1 GATTTTAAGGGTTTCAAATTTTAAGGG--TTTGGATTTTAGAAGTTT
14547005 TAGAAACCTA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 15 0.16
62 13 0.14
63 66 0.70
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (62 bp):
GATTTTAAGGGTTTCAAATTTTAAGGGTTTGGATTTTAGAAGTTTCGAATTTTAGGATTTCG
Found at i:14548552 original size:3 final size:3
Alignment explanation
Indices: 14548537--14548583 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
14548527 ATTAAATCAA
* * *
14548537 TAT TAT TAG TAT TAT TAT TATT TAT T-T TAA AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
14548582 TA
1 TA
14548584 AAAAATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:14548571 original size:18 final size:18
Alignment explanation
Indices: 14548550--14548586 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14548540 TATTAGTATT
14548550 ATTATTATTTATT-TTAAA
1 ATTATTA-TTATTATTAAA
14548568 ATTATTATTATTATTAAA
1 ATTATTATTATTATTAAA
14548586 A
1 A
14548587 AATATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTATTATTATTAAA
Found at i:14549365 original size:21 final size:22
Alignment explanation
Indices: 14549341--14549382 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
14549331 ATATAACACA
*
14549341 AAAAAATTATA-TTTGTATTTT
1 AAAAAAGTATATTTTGTATTTT
14549362 AAAAAAGTATATTTTGTATTT
1 AAAAAAGTATATTTTGTATTT
14549383 ATTTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
AAAAAAGTATATTTTGTATTTT
Found at i:14549490 original size:18 final size:18
Alignment explanation
Indices: 14549463--14549498 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14549453 TCATATGATT
*
14549463 ATATGCTTAACATGTTTA
1 ATATGCTTAACATATTTA
*
14549481 ATATGTTTAACATATTTA
1 ATATGCTTAACATATTTA
14549499 TTATATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATATGCTTAACATATTTA
Found at i:14549507 original size:18 final size:18
Alignment explanation
Indices: 14549469--14549507 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14549459 GATTATATGC
* *
14549469 TTAACATGTTTAATATGT
1 TTAACATATTTAATATAT
*
14549487 TTAACATATTTATTATAT
1 TTAACATATTTAATATAT
14549505 TTA
1 TTA
14549508 TTTTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TTAACATATTTAATATAT
Found at i:14549674 original size:11 final size:11
Alignment explanation
Indices: 14549660--14549689 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
14549650 TTTTATATTA
14549660 ATAATATAAAT
1 ATAATATAAAT
14549671 ATAATATAAAT
1 ATAATATAAAT
14549682 ATTAATAT
1 A-TAATAT
14549690 TAATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:14552091 original size:22 final size:20
Alignment explanation
Indices: 14552066--14552107 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14552056 ATATAACGAG
14552066 ATTTTTTAATTTATAAATTTTA
1 ATTTTTT-ATTT-TAAATTTTA
*
14552088 ATTTTTTATTTTAATTTTTA
1 ATTTTTTATTTTAAATTTTA
14552108 TTTAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTTATTTTAAATTTTA
Found at i:14552163 original size:14 final size:14
Alignment explanation
Indices: 14552126--14552165 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
14552116 TTTTTAGTAT
*
14552126 AAAATTTTACCTAA
1 AAAATTTTATCTAA
14552140 AAAATTTTATCTAA
1 AAAATTTTATCTAA
14552154 AAAATTTTATCT
1 AAAATTTTATCT
14552166 GAATTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTTATCTAA
Found at i:14552636 original size:2 final size:2
Alignment explanation
Indices: 14552629--14552654 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14552619 CAGATAATAC
14552629 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14552655 TTATGGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14553818 original size:19 final size:19
Alignment explanation
Indices: 14553790--14553826 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14553780 CTACGTGAAT
*
14553790 CGTGATTCACTCACTCACA
1 CGTGAATCACTCACTCACA
14553809 CGTGAATCACTCACTCAC
1 CGTGAATCACTCACTCAC
14553827 TCACAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.38, G:0.11, T:0.24
Consensus pattern (19 bp):
CGTGAATCACTCACTCACA
Found at i:14554783 original size:10 final size:10
Alignment explanation
Indices: 14554751--14554785 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
14554741 AACATATATA
*
14554751 AATTTGATTT
1 AATTTTATTT
14554761 AATTTTATGTT
1 AATTTTAT-TT
14554772 AATTTTATTT
1 AATTTTATTT
14554782 AATT
1 AATT
14554786 GATTTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (10 bp):
AATTTTATTT
Found at i:14555726 original size:22 final size:23
Alignment explanation
Indices: 14555698--14555741 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14555688 ACAATTAGAT
* *
14555698 ATTTATCCTA-ATAAATCTAAAC
1 ATTTATCATACATAAATATAAAC
14555720 ATTTATCATACATAAATATAAA
1 ATTTATCATACATAAATATAAA
14555742 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTTATCATACATAAATATAAAC
Found at i:14555753 original size:17 final size:17
Alignment explanation
Indices: 14555733--14555787 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
14555723 TATCATACAT
14555733 AAATATAAAAAT-AAAA
1 AAATATAAAAATAAAAA
*
14555749 AAA-ATAATAATATAAAA
1 AAATATAAAAATA-AAAA
* *
14555766 AAATTTAGAAAAAAAAAA
1 AAATATA-AAAATAAAAA
14555784 AAAT
1 AAAT
14555788 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 7 0.23
16 3 0.10
17 7 0.23
18 10 0.32
19 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAATATAAAAATAAAAA
Found at i:14555760 original size:15 final size:16
Alignment explanation
Indices: 14555737--14555769 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14555727 ATACATAAAT
14555737 ATAAAAATA-AAAAAA
1 ATAAAAATATAAAAAA
*
14555752 ATAATAATATAAAAAA
1 ATAAAAATATAAAAAA
14555768 AT
1 AT
14555770 TTAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAAAATATAAAAAA
Found at i:14556773 original size:9 final size:9
Alignment explanation
Indices: 14556755--14556807 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
14556745 TGTCTTATTC
*
14556755 TGTTTCTTT
1 TGTTTTTTT
14556764 TGTTTTTTT
1 TGTTTTTTT
14556773 T-TCTTTTTT
1 TGT-TTTTTT
* *
14556782 TATTTTGTT
1 TGTTTTTTT
14556791 TGTTTTTTT
1 TGTTTTTTT
*
14556800 TATTTTTT
1 TGTTTTTT
14556808 ATTTGTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.85
Consensus pattern (9 bp):
TGTTTTTTT
Found at i:14556785 original size:32 final size:33
Alignment explanation
Indices: 14556749--14556818 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
14556739 GATTTCTGTC
* *
14556749 TTATTCTGTTTCTTTTGTTT-TTTTTTCTTTTT
1 TTATTCTGTTTCTTTTGTTTATTTTTTATTTGT
* * *
14556781 TTATTTTGTTTGTTTTTTTTATTTTTTATTTGT
1 TTATTCTGTTTCTTTTGTTTATTTTTTATTTGT
14556814 TTATT
1 TTATT
14556819 AATAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.81
Consensus pattern (33 bp):
TTATTCTGTTTCTTTTGTTTATTTTTTATTTGT
Found at i:14556787 original size:18 final size:17
Alignment explanation
Indices: 14556755--14556807 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
14556745 TGTCTTATTC
* *
14556755 TGTTTCTTTTGTTTTTT
1 TGTTTTTTTTATTTTTT
*
14556772 TTTCTTTTTTTATTTTGTT
1 TGT-TTTTTTTATTTT-TT
14556791 TGTTTTTTTTATTTTTT
1 TGTTTTTTTTATTTTTT
14556808 ATTTGTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.13
18 22 0.73
19 4 0.13
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.85
Consensus pattern (17 bp):
TGTTTTTTTTATTTTTT
Found at i:14556792 original size:27 final size:24
Alignment explanation
Indices: 14556762--14556815 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14556752 TTCTGTTTCT
*
14556762 TTTGTTT-TTTTTTCT-TTTTTTA
1 TTTGTTTGTTTTTTTTATTTTTTA
14556784 TTTTGTTTGTTTTTTTTATTTTTTA
1 -TTTGTTTGTTTTTTTTATTTTTTA
14556809 TTTGTTT
1 TTTGTTT
14556816 ATTAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 7 0.25
24 14 0.50
25 7 0.25
ACGTcount: A:0.06, C:0.02, G:0.07, T:0.85
Consensus pattern (24 bp):
TTTGTTTGTTTTTTTTATTTTTTA
Found at i:14556805 original size:8 final size:8
Alignment explanation
Indices: 14556768--14556818 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
14556758 TTCTTTTGTT
*
14556768 TTTTTTTC
1 TTTTTTTA
14556776 TTTTTTTA
1 TTTTTTTA
*
14556784 TTTTGTTTG
1 TTTT-TTTA
14556793 TTTTTTT-
1 TTTTTTTA
14556800 TATTTTTTA
1 T-TTTTTTA
*
14556809 TTTGTTTA
1 TTTTTTTA
14556817 TT
1 TT
14556819 AATAATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 1 0.03
8 28 0.76
9 8 0.22
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14557354 original size:21 final size:22
Alignment explanation
Indices: 14557330--14557371 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
14557320 ATATAACACA
*
14557330 AAAAAATTATA-TTTGTATTTT
1 AAAAAAGTATATTTTGTATTTT
14557351 AAAAAAGTATATTTTGTATTT
1 AAAAAAGTATATTTTGTATTT
14557372 ATTTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
AAAAAAGTATATTTTGTATTTT
Found at i:14557479 original size:18 final size:18
Alignment explanation
Indices: 14557452--14557487 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14557442 TCATATGATT
*
14557452 ATATGCTTAACATGTTTA
1 ATATGCTTAACATATTTA
*
14557470 ATATGTTTAACATATTTA
1 ATATGCTTAACATATTTA
14557488 TTATATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATATGCTTAACATATTTA
Found at i:14557496 original size:18 final size:18
Alignment explanation
Indices: 14557458--14557496 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14557448 GATTATATGC
* *
14557458 TTAACATGTTTAATATGT
1 TTAACATATTTAATATAT
*
14557476 TTAACATATTTATTATAT
1 TTAACATATTTAATATAT
14557494 TTA
1 TTA
14557497 TTTTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TTAACATATTTAATATAT
Found at i:14557663 original size:11 final size:11
Alignment explanation
Indices: 14557649--14557678 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
14557639 TTTTATATTA
14557649 ATAATATAAAT
1 ATAATATAAAT
14557660 ATAATATAAAT
1 ATAATATAAAT
14557671 ATTAATAT
1 A-TAATAT
14557679 TAATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:14561337 original size:12 final size:12
Alignment explanation
Indices: 14561320--14561348 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14561310 AACAGGATTT
14561320 TTTAATTTTTTA
1 TTTAATTTTTTA
14561332 TTTAA-TTTTTA
1 TTTAATTTTTTA
14561343 TTTAAT
1 TTTAAT
14561349 CATTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:14563043 original size:1 final size:1
Alignment explanation
Indices: 14563037--14563061 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14563027 AAAAGAAGGG
14563037 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
14563062 AAATTTTCAA
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:14567452 original size:88 final size:88
Alignment explanation
Indices: 14567303--14567472 Score: 297
Period size: 88 Copynumber: 1.9 Consensus size: 88
14567293 AAAATTACTT
* * *
14567303 ATCCAAAGCAATTTCAAGACAAAACAATCATCGCACCAAGAGGATATGAAATTCCCTATTTAAAT
1 ATCCAAAGCAATTTCAAGACAAAACAATCATAGCACCAAGAGGACATGAAATTCCATATTTAAAT
14567368 GGCTT-CACTCACTCTAAACACTC
66 GG-TTCCACTCACTCTAAACACTC
14567391 ATCCAAAGCAATTTCAAGACAAAACAATCATAGCACCAAGAGGACATGAAATTCCATATTTAAAT
1 ATCCAAAGCAATTTCAAGACAAAACAATCATAGCACCAAGAGGACATGAAATTCCATATTTAAAT
14567456 GGTTCCACTCACTCTAA
66 GGTTCCACTCACTCTAA
14567473 CACAGCAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 2 0.03
88 76 0.97
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24
Consensus pattern (88 bp):
ATCCAAAGCAATTTCAAGACAAAACAATCATAGCACCAAGAGGACATGAAATTCCATATTTAAAT
GGTTCCACTCACTCTAAACACTC
Found at i:14571732 original size:16 final size:16
Alignment explanation
Indices: 14571711--14571746 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14571701 CATAATACTT
14571711 CTCTGCTTCAGGGGTG
1 CTCTGCTTCAGGGGTG
14571727 CTCTGCTTCAGGGGTG
1 CTCTGCTTCAGGGGTG
14571743 CTCT
1 CTCT
14571747 TGATCTTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.28, G:0.33, T:0.33
Consensus pattern (16 bp):
CTCTGCTTCAGGGGTG
Found at i:14572431 original size:26 final size:26
Alignment explanation
Indices: 14572402--14572453 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14572392 AAAGTTTCCA
14572402 ATGCAAAATCATTTTCCTTTCATTAT
1 ATGCAAAATCATTTTCCTTTCATTAT
14572428 ATGCAAAATCATTTTCCTTTCATTAT
1 ATGCAAAATCATTTTCCTTTCATTAT
14572454 TCTAGCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
ATGCAAAATCATTTTCCTTTCATTAT
Found at i:14573770 original size:25 final size:25
Alignment explanation
Indices: 14573742--14573791 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14573732 TCAAAGGAGG
14573742 AGCTTTGCGAGGAAGTGTCTGAAAA
1 AGCTTTGCGAGGAAGTGTCTGAAAA
14573767 AGCTTTGCGAGGAAGTGTCTGAAAA
1 AGCTTTGCGAGGAAGTGTCTGAAAA
14573792 GCTGGTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (25 bp):
AGCTTTGCGAGGAAGTGTCTGAAAA
Found at i:14574590 original size:24 final size:24
Alignment explanation
Indices: 14574558--14574604 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14574548 GAGAACAGGA
14574558 AGCCATGTTGTTCGAAGATTTGGG
1 AGCCATGTTGTTCGAAGATTTGGG
*
14574582 AGCCATGTTGTTCGAAGCTTTGG
1 AGCCATGTTGTTCGAAGATTTGG
14574605 AAGTTGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.34
Consensus pattern (24 bp):
AGCCATGTTGTTCGAAGATTTGGG
Found at i:14578735 original size:28 final size:27
Alignment explanation
Indices: 14578703--14578760 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
14578693 AATAAAACTA
14578703 TTATTTAACATAAAAATAATTTAATAAT
1 TTATTTAACATAAAAAT-ATTTAATAAT
*** *
14578731 TTATTTATTTTATAAATATTTAATAAT
1 TTATTTAACATAAAAATATTTAATAAT
14578758 TTA
1 TTA
14578761 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTATTTAACATAAAAATATTTAATAAT
Found at i:14578770 original size:27 final size:28
Alignment explanation
Indices: 14578716--14578767 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
14578706 TTTAACATAA
**
14578716 AAATAATTTAATAATTTATTTATTTTAT
1 AAATAATTTAATAATTTAAATATTTTAT
14578744 AAAT-ATTTAATAATTTAAA-ATTTT
1 AAATAATTTAATAATTTAAATATTTT
14578768 TATTACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 13 0.59
28 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATAATTTAATAATTTAAATATTTTAT
Found at i:14587472 original size:13 final size:13
Alignment explanation
Indices: 14587454--14587478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14587444 AGGACAAAAA
14587454 AATTTTTATCCAC
1 AATTTTTATCCAC
14587467 AATTTTTATCCA
1 AATTTTTATCCA
14587479 TAGTTATCTC
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:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTTTATCCAC
Done.