Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 73 of 84
Found at i:15761689 original size:31 final size:31
Alignment explanation
Indices: 15761654--15761716 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
15761644 TACGCACAAG
** * *
15761654 ATTTAACTAAAATTTTACAAAATTAAAGATA
1 ATTTAACTAAAATTAAAAAAAATCAAAGATA
*
15761685 ATTTAAGTAAAATTAAAAAAAATCAAAGATA
1 ATTTAACTAAAATTAAAAAAAATCAAAGATA
15761716 A
1 A
15761717 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (31 bp):
ATTTAACTAAAATTAAAAAAAATCAAAGATA
Found at i:15762375 original size:16 final size:15
Alignment explanation
Indices: 15762334--15762377 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
15762324 ATAATATTCT
*
15762334 AAAAATTTTTTTATA
1 AAAAAATTTTTTATA
*
15762349 AAAACATTTTTTATA
1 AAAAAATTTTTTATA
15762364 AAAAAATATTTTTA
1 AAAAAAT-TTTTTA
15762378 GAATATCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAAAATTTTTTATA
Found at i:15773433 original size:624 final size:624
Alignment explanation
Indices: 15772245--15773485 Score: 2223
Period size: 624 Copynumber: 2.0 Consensus size: 624
15772235 AGAATTTTTT
*
15772245 AGGATAGGTAACAAGCTCAATAATTTAGTCACGCATGATTGAACCTTAACTTAATGTGTAATTGC
1 AGGATAGGTAACAAGCTCAATAATTTAGTCACGCATGATTGAACCTCAACTTAATGTGTAATTGC
* *
15772310 ACTTTAAATCTTGAGTTTTAATGAGTCAAAGTACATCATTTGGATGTGACTGCAAGTATTTAAAA
66 ACTTTAAATCTTAAGTTTTAATGAGTCAAAGTACATCATTTGGATGTGACTACAAGTATTTAAAA
* *
15772375 TAATGTAATCCCCATATAGATAAGTACTTGAACTATATGTTATAAAGGAATGTTGAAATTAAACT
131 TAATATAATCCCCATATAGATAAGTACTTGAACTATATGTTATAAAGGAAGGTTGAAATTAAACT
* *
15772440 CTTAATGGATTCATAACATGTCAATATAGTGTTGAAATGCTTATATGGTTGCATTCTTGATGGAG
196 CTTAATGGATCCATAACATGTCAATATAGTGTTGAAATGCTTATATGGTTGCATTCTTCATGGAG
*
15772505 TCCACCTATATGAGAAGTAGTGGTATCACTTATAGGAACAAAGAACTTGGCTCTGAAGCACTCAT
261 TCCACCTATATGAGAAGTAGTGGTATCACTTATAAGAACAAAGAACTTGGCTCTGAAGCACTCAT
*
15772570 GAATATACATGATATATAACCATTGAAATTATGTTAAAGTATTGCTAAATGATAGTTTAATGGGA
326 GAATATACATGATATATAACCATTGAAATTATGTTAAAGCATTGCTAAATGATAGTTTAATGGGA
*
15772635 CATTGAAGTCTTGTATGTGATTCAGTATATGACTATTCATACAATTGGTTATTCAAAGATCTAAG
391 CATTGAAGTCTTGTATGTGATTCAGTATATGACTACTCATACAATTGGTTATTCAAAGATCTAAG
*
15772700 TTCTATCATTCAATTTGATTAACTCAACAACACTTTATCACTAAAGTAAAGATTTTGAAATCATA
456 TTCTATCATTCAATTTAATTAACTCAACAACACTTTATCACTAAAGTAAAGATTTTGAAATCATA
*
15772765 TTATATGATATCTTCACTTATGCATAAGATTTTCAAAAATACTGAAGTTTGCCCTATTTTAAAAA
521 TTATATGATATCTTCACTTATGCATAAGATTTTCAAAAATACTGAAGTTTACCCTATTTTAAAAA
*
15772830 TGGATAGGGAATGTTAGAAATATTTTCAAAATTTCTTGA
586 TAGATAGGGAATGTTAGAAATATTTTCAAAATTTCTTGA
*
15772869 AGGATAGGTAACAAGCTTAATAATTTAGTCACGCATGATTGAACCTCAACTTAATGTGTAATTGC
1 AGGATAGGTAACAAGCTCAATAATTTAGTCACGCATGATTGAACCTCAACTTAATGTGTAATTGC
*
15772934 ACTTTAAATCTTAAGTTTTAATGAGTCAAAGTTCATCATTTGGATGTGACTACAAGTATTTAAAA
66 ACTTTAAATCTTAAGTTTTAATGAGTCAAAGTACATCATTTGGATGTGACTACAAGTATTTAAAA
* * *
15772999 TAATATAATTCCCATATAGATAAGTAGTTGAACTATATGTTATGAAGGAAGGTTGAAATTAAACT
131 TAATATAATCCCCATATAGATAAGTACTTGAACTATATGTTATAAAGGAAGGTTGAAATTAAACT
15773064 CTTAATGGATCCATAACATGTCAATATAGTGTTGAAATGCTTATATGGTTGCATTCTTCATGGAG
196 CTTAATGGATCCATAACATGTCAATATAGTGTTGAAATGCTTATATGGTTGCATTCTTCATGGAG
* ** *
15773129 TCCACCTATATGAGAGGTAGTGGTATGGCTTATAAGAACAAAGAGCTTGGCTCTGAAGCACTCAT
261 TCCACCTATATGAGAAGTAGTGGTATCACTTATAAGAACAAAGAACTTGGCTCTGAAGCACTCAT
*
15773194 GAATATACATGATATATAACCATTGAAATTATGTTAAAGCATTGCTAAATGATAGTTTGATGGGA
326 GAATATACATGATATATAACCATTGAAATTATGTTAAAGCATTGCTAAATGATAGTTTAATGGGA
* * *
15773259 CATTGAAGTCTTGTGTGTGATTTAGTATATGACTACTCATACAATTGGTTGATTCAAAGATTTAA
391 CATTGAAGTCTTGTATGTGATTCAGTATATGACTACTCATACAATTGGTT-ATTCAAAGATCTAA
*
15773324 GTTCTATCATTCAATTTAATTAACTCAACAATACTTTATCACTAAAGTAAA-ATTTTGAAATCAT
455 GTTCTATCATTCAATTTAATTAACTCAACAACACTTTATCACTAAAGTAAAGATTTTGAAATCAT
15773388 ATTATATGATATCTTCACTTATGCATAAGATTTTCAAAAATACTGAAGTTTACCCTATTTTAAAA
520 ATTATATGATATCTTCACTTATGCATAAGATTTTCAAAAATACTGAAGTTTACCCTATTTTAAAA
15773453 ATAGATAGGGAATGTTAGAAATATTTTCAAAAT
585 ATAGATAGGGAATGTTAGAAATATTTTCAAAAT
15773486 ATAAAAATAA
Statistics
Matches: 589, Mismatches: 27, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
624 527 0.89
625 62 0.11
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (624 bp):
AGGATAGGTAACAAGCTCAATAATTTAGTCACGCATGATTGAACCTCAACTTAATGTGTAATTGC
ACTTTAAATCTTAAGTTTTAATGAGTCAAAGTACATCATTTGGATGTGACTACAAGTATTTAAAA
TAATATAATCCCCATATAGATAAGTACTTGAACTATATGTTATAAAGGAAGGTTGAAATTAAACT
CTTAATGGATCCATAACATGTCAATATAGTGTTGAAATGCTTATATGGTTGCATTCTTCATGGAG
TCCACCTATATGAGAAGTAGTGGTATCACTTATAAGAACAAAGAACTTGGCTCTGAAGCACTCAT
GAATATACATGATATATAACCATTGAAATTATGTTAAAGCATTGCTAAATGATAGTTTAATGGGA
CATTGAAGTCTTGTATGTGATTCAGTATATGACTACTCATACAATTGGTTATTCAAAGATCTAAG
TTCTATCATTCAATTTAATTAACTCAACAACACTTTATCACTAAAGTAAAGATTTTGAAATCATA
TTATATGATATCTTCACTTATGCATAAGATTTTCAAAAATACTGAAGTTTACCCTATTTTAAAAA
TAGATAGGGAATGTTAGAAATATTTTCAAAATTTCTTGA
Found at i:15779578 original size:17 final size:18
Alignment explanation
Indices: 15779545--15779579 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15779535 TTGTTATAAG
*
15779545 AAATATATTTCAAATATT
1 AAATATATTTAAAATATT
15779563 AAATAT-TTTAAAATATT
1 AAATATATTTAAAATATT
15779580 TTTATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATATTTAAAATATT
Found at i:15780043 original size:3 final size:3
Alignment explanation
Indices: 15780035--15780061 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15780025 TAGTTTAGAG
15780035 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
15780062 AAAAAAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15784674 original size:16 final size:16
Alignment explanation
Indices: 15784606--15784674 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
15784596 TGGATGAACT
15784606 AAAAAAAAT-AAAAAG
1 AAAAAAAATGAAAAAG
*
15784621 TAAAAAAAATGAAAAAC
1 -AAAAAAAATGAAAAAG
**
15784638 AAAAAATGTGAAAAA-
1 AAAAAAAATGAAAAAG
*
15784653 ATAAAAAAT-AAAAAG
1 AAAAAAAATGAAAAAG
*
15784668 AGAAAAA
1 AAAAAAA
15784675 GAAGACTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.11
15 12 0.27
16 22 0.50
17 5 0.11
ACGTcount: A:0.80, C:0.01, G:0.09, T:0.10
Consensus pattern (16 bp):
AAAAAAAATGAAAAAG
Found at i:15785919 original size:22 final size:22
Alignment explanation
Indices: 15785860--15785920 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
15785850 TTTTGGACAT
15785860 AATCTCTAAAAATTTTTAAATGAG
1 AATCTCTAAAAA--TTTAAATGAG
* * *
15785884 AATTTTTAAAAATTTAAATGTG
1 AATCTCTAAAAATTTAAATGAG
*
15785906 AATCTCTAAGAATTT
1 AATCTCTAAAAATTT
15785921 TAGCCTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 21 0.68
24 10 0.32
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (22 bp):
AATCTCTAAAAATTTAAATGAG
Found at i:15786094 original size:17 final size:17
Alignment explanation
Indices: 15786074--15786184 Score: 102
Period size: 17 Copynumber: 6.6 Consensus size: 17
15786064 TGCAAACCTT
*
15786074 AAATTCTTACGAACTTG
1 AAATTCTTACGAATTTG
15786091 AAATTCTTACGAATTTG
1 AAATTCTTACGAATTTG
*
15786108 -AATTTTTACGAATTTG
1 AAATTCTTACGAATTTG
*
15786124 -AATTCTTACGAATTTT
1 AAATTCTTACGAATTTG
** * *
15786140 TCATTCTTATGAATATG
1 AAATTCTTACGAATTTG
* *
15786157 AAACTT-TTGCGAAACTTG
1 AAA-TTCTTACG-AATTTG
15786175 AAATTCTTAC
1 AAATTCTTAC
15786185 AAACCTTTAC
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
16 29 0.39
17 34 0.45
18 12 0.16
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (17 bp):
AAATTCTTACGAATTTG
Found at i:15786116 original size:16 final size:16
Alignment explanation
Indices: 15786075--15786138 Score: 101
Period size: 16 Copynumber: 3.9 Consensus size: 16
15786065 GCAAACCTTA
*
15786075 AATTCTTACGAACTTG
1 AATTCTTACGAATTTG
15786091 AAATTCTTACGAATTTG
1 -AATTCTTACGAATTTG
*
15786108 AATTTTTACGAATTTG
1 AATTCTTACGAATTTG
15786124 AATTCTTACGAATTT
1 AATTCTTACGAATTT
15786139 TTCATTCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
16 29 0.66
17 15 0.34
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (16 bp):
AATTCTTACGAATTTG
Found at i:15786396 original size:57 final size:57
Alignment explanation
Indices: 15786285--15786399 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
15786275 TGAAACTTTG
* *** *
15786285 TGAATCTTGAATCTTTTTCGAACATTTGAATCATTATCTTAAATCTCTTGTGAATCT
1 TGAATCTTGAATCTTTTACGAACATTTGAATCATTATCTTAAATCAAATATGAATCT
* *
15786342 TGAATCTTGAAAT-TTTTACGAACCTTTGAATCATTATCTTGAATCAAATATGAATCT
1 TGAATCTTG-AATCTTTTACGAACATTTGAATCATTATCTTAAATCAAATATGAATCT
15786399 T
1 T
15786400 TGAAATCTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 47 0.94
58 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (57 bp):
TGAATCTTGAATCTTTTACGAACATTTGAATCATTATCTTAAATCAAATATGAATCT
Found at i:15786519 original size:18 final size:18
Alignment explanation
Indices: 15786480--15786539 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
15786470 ATATTTGATT
* *
15786480 TTTTACTAATTTTTGAAA
1 TTTTACAAATCTTTGAAA
15786498 TTTTACAAATCTTT-AAA
1 TTTTACAAATCTTTGAAA
* *
15786515 CTTTTAAAAAAACTTTGAATA
1 -TTTT-ACAAATCTTTGAA-A
15786536 TTTT
1 TTTT
15786540 GCTAGGCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.09
18 16 0.47
19 8 0.24
20 6 0.18
21 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTACAAATCTTTGAAA
Found at i:15786623 original size:22 final size:21
Alignment explanation
Indices: 15786546--15786640 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 21
15786536 TTTTGCTAGG
* *
15786546 CTTTAAATTCAAATTGAAAAT
1 CTTTGAATTTAAATTGAAAAT
**
15786567 CTTTGAATTT-AATTGTGAAT
1 CTTTGAATTTAAATTGAAAAT
* * *
15786587 TTTTTAACTTTAAATTAAAAAT
1 CTTTGAA-TTTAAATTGAAAAT
*
15786609 CTTTGAATTTCAAATCGAAAAT
1 CTTTGAATTT-AAATTGAAAAT
* *
15786631 ATTTAAATTT
1 CTTTGAATTT
15786641 TTAATTATAA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
20 13 0.23
21 14 0.25
22 29 0.52
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.45
Consensus pattern (21 bp):
CTTTGAATTTAAATTGAAAAT
Found at i:15790001 original size:31 final size:31
Alignment explanation
Indices: 15789956--15790030 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
15789946 TTAATTATTA
* * *
15789956 TATTTTGATCAAATTTGCTCTAAAATTAAAAT
1 TATTGTGAT-AAATTTACTCTAAAATTAAAAG
15789988 TATTGTGATAAATTTACTCTAAAATTAAAAG
1 TATTGTGATAAATTTACTCTAAAATTAAAAG
15790019 TA-TGATGATAAA
1 TATTG-TGATAAA
15790031 ATTATACCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 29 0.74
32 8 0.21
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (31 bp):
TATTGTGATAAATTTACTCTAAAATTAAAAG
Found at i:15791486 original size:13 final size:12
Alignment explanation
Indices: 15791463--15791492 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
15791453 AAAAACAAAG
15791463 AAAATAATATAT
1 AAAATAATATAT
15791475 AAAATAA-ATAT
1 AAAATAATATAT
15791486 AAAATAA
1 AAAATAA
15791493 AAGCATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATAATATAT
Found at i:15792471 original size:19 final size:19
Alignment explanation
Indices: 15792444--15792503 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
15792434 ACATTCATAG
*
15792444 AAAAAATTTAAAAATTCGC
1 AAAAGATTTAAAAATTCGC
* *
15792463 AAAAGATTTAAAAGTTCGT
1 AAAAGATTTAAAAATTCGC
* *
15792482 AAAAG-TTCAAAGATTCGC
1 AAAAGATTTAAAAATTCGC
15792500 AAAA
1 AAAA
15792504 AGCACAAAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (19 bp):
AAAAGATTTAAAAATTCGC
Found at i:15792545 original size:18 final size:18
Alignment explanation
Indices: 15792524--15792662 Score: 129
Period size: 18 Copynumber: 7.8 Consensus size: 18
15792514 CTCTCAAAAG
*
15792524 TTTAAAAATTCAAAAGAA
1 TTTAAAAATTCACAAGAA
* **
15792542 TTTAAAGATTTTCAAG-A
1 TTTAAAAATTCACAAGAA
* **
15792559 TTCAAGGATTCACAA-AA
1 TTTAAAAATTCACAAGAA
*
15792576 TTTAAAGATTCACAAGAA
1 TTTAAAAATTCACAAGAA
* * *
15792594 TTCAAAGATTCTCAAGAA
1 TTTAAAAATTCACAAGAA
*
15792612 TTTAAAAATTTACAAGAA
1 TTTAAAAATTCACAAGAA
*
15792630 TTTAAAAATTCGCAAGAA
1 TTTAAAAATTCACAAGAA
* *
15792648 TTCAAAATTTCACAA
1 TTTAAAAATTCACAA
15792663 TTGTTAAAAT
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
17 26 0.27
18 72 0.73
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.30
Consensus pattern (18 bp):
TTTAAAAATTCACAAGAA
Found at i:15792721 original size:57 final size:58
Alignment explanation
Indices: 15792648--15792764 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 58
15792638 TTCGCAAGAA
* * * * *
15792648 TTCAAAATTTCACAATTGTTAAAATTTCCAAATAA-TTCAATGATTTACAAATGAAAT
1 TTCAAAATTTCACAATTGTAAAAATTTACAAATAATTTCAAAGACTCACAAATGAAAT
* * *
15792705 TTCAAAGTTTCTCAATTGTAAAAATTTACAAATAATTTCAAAGACTCACAATTGAAAT
1 TTCAAAATTTCACAATTGTAAAAATTTACAAATAATTTCAAAGACTCACAAATGAAAT
15792763 TT
1 TT
15792765 TAGAGGTTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 31 0.61
58 20 0.39
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (58 bp):
TTCAAAATTTCACAATTGTAAAAATTTACAAATAATTTCAAAGACTCACAAATGAAAT
Found at i:15792914 original size:45 final size:44
Alignment explanation
Indices: 15792846--15792933 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
15792836 AAAGATTTAC
15792846 ATCCAAGATTAAACAATTAACATTCAAAAAATCTTAAAAATTCAA
1 ATCCAAGATTAAACAATTAACATT-AAAAAATCTTAAAAATTCAA
* * ** *
15792891 ATCCAAGATTTAAA-AGTTCACATTTGAAAATCTTAGAAATTCA
1 ATCCAAGA-TTAAACAATTAACATTAAAAAATCTTAAAAATTCA
15792934 CATCAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 16 0.43
45 16 0.43
46 5 0.14
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (44 bp):
ATCCAAGATTAAACAATTAACATTAAAAAATCTTAAAAATTCAA
Found at i:15792977 original size:21 final size:21
Alignment explanation
Indices: 15792947--15793010 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
15792937 CAAATAAGTC
*
15792947 TTAAAGATTCACA-TACAAGAT
1 TTAAATATTCACATTA-AAGAT
*
15792968 TTAAATATTCATATTAAAGAT
1 TTAAATATTCACATTAAAGAT
* * *
15792989 TCAAATATTCATATTAGAGAT
1 TTAAATATTCACATTAAAGAT
15793010 T
1 T
15793011 CGTATCCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (21 bp):
TTAAATATTCACATTAAAGAT
Found at i:15793011 original size:21 final size:21
Alignment explanation
Indices: 15792963--15793011 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15792953 ATTCACATAC
*
15792963 AAGATTTAAATATTCATATTA
1 AAGATTCAAATATTCATATTA
15792984 AAGATTCAAATATTCATATTA
1 AAGATTCAAATATTCATATTA
*
15793005 GAGATTC
1 AAGATTC
15793012 GTATCCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (21 bp):
AAGATTCAAATATTCATATTA
Found at i:15793030 original size:21 final size:21
Alignment explanation
Indices: 15793006--15793078 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
15792996 TTCATATTAG
*
15793006 AGATTCGTATCCAAAATTCAA
1 AGATTCATATCCAAAATTCAA
* * * *
15793027 AGATTCACATTTGACAAAATTTAG
1 AGATT--CATAT-CCAAAATTCAA
15793051 AGATTCATATCCAAAATTCAA
1 AGATTCATATCCAAAATTCAA
15793072 AGATTCA
1 AGATTCA
15793079 CATTGGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
21 20 0.50
22 4 0.10
23 3 0.08
24 13 0.32
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (21 bp):
AGATTCATATCCAAAATTCAA
Found at i:15793055 original size:45 final size:45
Alignment explanation
Indices: 15793002--15793271 Score: 265
Period size: 46 Copynumber: 5.9 Consensus size: 45
15792992 AATATTCATA
** *
15793002 TTAGAGATTCGTATCCAAAATTCAAAGATTCACATTTGACAAAAT
1 TTAGAGATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAAT
* *
15793047 TTAGAGATTCATATCCAAAATTCAAAGATTCACATTGGAAAAAAAT
1 TTAGAGATTCACATCCAAAATTCAAAGATTCACATTTG-AAAAAAT
*** * *
15793093 TTCAGAGATTCACATATGAAATTCAAAGTTTCACATTTAAAAAAATT
1 TT-AGAGATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAA-T
* * * * * *
15793140 TTAGGGATTCACATCTAAAATTCAAATATTCTCATTTGACAAATT
1 TTAGAGATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAAT
* * *
15793185 CTTAGAGGTTCACATCCAAAATTTAAAGATTCACATTTG-AAAATT
1 -TTAGAGATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAAT
* * * * *
15793230 TTAAAGATTCACAT-AAAAATCCCAAAAATTCACACTTGAAAA
1 TTAGAGATTCACATCCAAAAT-TCAAAGATTCACATTTGAAAA
15793272 TTTTTTTTAA
Statistics
Matches: 186, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
43 5 0.03
44 25 0.13
45 45 0.24
46 79 0.42
47 32 0.17
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.31
Consensus pattern (45 bp):
TTAGAGATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAAT
Found at i:15793218 original size:21 final size:22
Alignment explanation
Indices: 15793193--15793243 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
15793183 TTCTTAGAGG
15793193 TTCACATCCAAAA-TTTAAAGA
1 TTCACATCCAAAATTTTAAAGA
**
15793214 TTCACATTTGAAAATTTTAAAGA
1 TTCACA-TCCAAAATTTTAAAGA
15793237 TTCACAT
1 TTCACAT
15793244 AAAAATCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 14 0.54
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (22 bp):
TTCACATCCAAAATTTTAAAGA
Found at i:15793887 original size:26 final size:28
Alignment explanation
Indices: 15793858--15793923 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 28
15793848 TCATATATTC
*
15793858 ACTAAATGATTCAAATGC-A-TATCCAA
1 ACTAAATGATTCAAATGCAATTATCAAA
15793884 ACTATAATG---CAAATGCAATTATCAAA
1 ACTA-AATGATTCAAATGCAATTATCAAA
15793910 AC-AAA-GATTCAAAT
1 ACTAAATGATTCAAAT
15793924 ATTCATCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
23 1 0.03
24 9 0.27
25 2 0.06
26 17 0.52
27 4 0.12
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.26
Consensus pattern (28 bp):
ACTAAATGATTCAAATGCAATTATCAAA
Found at i:15793920 original size:70 final size:71
Alignment explanation
Indices: 15793817--15794015 Score: 174
Period size: 71 Copynumber: 2.8 Consensus size: 71
15793807 CTTGTAAAAA
* * * * * * *
15793817 ATAATGCAGATGCAATACTCTAAACCATGATTCATATATTCA-CTAAATGATTCAAATGCAT-AT
1 ATAATGCAAATGCAATACTCAAAACAAAGATTCAAATATTCATC-AAATAATGCAAATGCATGAT
15793880 CCAAACT
65 CCAAACT
*
15793887 ATAATGCAAATGCAATTA-TCAAAACAAAGATTCAAATATTCATCAAATAATGCAAATGCATGGT
1 ATAATGCAAATGCAA-TACTCAAAACAAAGATTCAAATATTCATCAAATAATGCAAATGCATGAT
15793951 CCAAAC-
65 CCAAACT
* * * * * * * * *
15793957 ATTGATGCATATGCAACATTCAAAACAATGA-TCTATATACTCACCAAATAATACAAATG
1 A-TAATGCAAATGCAATACTCAAAACAAAGATTC-AAATATTCATCAAATAATGCAAATG
15794016 TATGGTTTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
70 53 0.50
71 54 0.50
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (71 bp):
ATAATGCAAATGCAATACTCAAAACAAAGATTCAAATATTCATCAAATAATGCAAATGCATGATC
CAAACT
Found at i:15793980 original size:71 final size:71
Alignment explanation
Indices: 15793931--15794206 Score: 338
Period size: 71 Copynumber: 3.9 Consensus size: 71
15793921 AATATTCATC
* * * *
15793931 AAATAATGCAAATGCATGGTCCAAACATTGATGCATATGCAACATTCAAAACAATGATCTATATA
1 AAATAATACAAATGCATGGTTCAAACAATGATGCAAATGCAACATTCAAAACAATGATCTATATA
*
15793996 CTCACC
66 CTCACA
* * * ** * *
15794002 AAATAATACAAATGTATGGTTTAAATAATGATGCAAATATAATATCCAAAACAATGATCTATATA
1 AAATAATACAAATGCATGGTTCAAACAATGATGCAAATGCAACATTCAAAACAATGATCTATATA
15794067 CTCACA
66 CTCACA
* * * * * *
15794073 AAATACTGCAAATGCATGGTTCAAACAACGATGCAAATACAACATCCAAAATAATGATCTATATA
1 AAATAATACAAATGCATGGTTCAAACAATGATGCAAATGCAACATTCAAAACAATGATCTATATA
15794138 CTCACA
66 CTCACA
* * *
15794144 AAATAATACAAATGCATGGTTTTAAACAATGATACAAATGCAATATTC-AAACAATGATTCTAT
1 AAATAATACAAATGCATGG-TTCAAACAATGATGCAAATGCAACATTCAAAACAATGA-TCTAT
15794207 TTGCCTTAGG
Statistics
Matches: 173, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
71 146 0.84
72 27 0.16
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (71 bp):
AAATAATACAAATGCATGGTTCAAACAATGATGCAAATGCAACATTCAAAACAATGATCTATATA
CTCACA
Found at i:15794084 original size:142 final size:143
Alignment explanation
Indices: 15793931--15794206 Score: 394
Period size: 142 Copynumber: 1.9 Consensus size: 143
15793921 AATATTCATC
** * * *
15793931 AAATAATGCAAATGCATGGTCCAAACATTGATGCATATGCAACATTCAAAACAATGATCTATATA
1 AAATAATGCAAATGCATGGTCCAAACAACGATGCAAATACAACATCCAAAACAATGATCTATATA
* * * * *
15793996 CTCACCAAATAATACAAATGTATGG-TTTAAATAATGATGCAAATATAATATCCAAAACAATGA-
66 CTCACAAAATAATACAAATGCATGGTTTTAAACAATGATACAAATACAATATCC-AAACAATGAT
15794059 TCTATATACTCACA
130 TCTATATACTCACA
* * *
15794073 AAATACTGCAAATGCATGGTTCAAACAACGATGCAAATACAACATCCAAAATAATGATCTATATA
1 AAATAATGCAAATGCATGGTCCAAACAACGATGCAAATACAACATCCAAAACAATGATCTATATA
* *
15794138 CTCACAAAATAATACAAATGCATGGTTTTAAACAATGATACAAATGCAATATTCAAACAATGATT
66 CTCACAAAATAATACAAATGCATGGTTTTAAACAATGATACAAATACAATATCCAAACAATGATT
15794203 CTAT
131 CTAT
15794207 TTGCCTTAGG
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
142 89 0.76
143 28 0.24
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (143 bp):
AAATAATGCAAATGCATGGTCCAAACAACGATGCAAATACAACATCCAAAACAATGATCTATATA
CTCACAAAATAATACAAATGCATGGTTTTAAACAATGATACAAATACAATATCCAAACAATGATT
CTATATACTCACA
Found at i:15795265 original size:18 final size:18
Alignment explanation
Indices: 15795235--15795281 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15795225 ACTTTCAAGC
*
15795235 ATGTTTTTCATTTTTTTTT
1 ATGTTTTT-ATTTCTTTTT
*
15795254 TTGTTTTTATTTCTTTTT
1 ATGTTTTTATTTCTTTTT
*
15795272 ATCTTTTTAT
1 ATGTTTTTAT
15795282 CTTTGCTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (18 bp):
ATGTTTTTATTTCTTTTT
Found at i:15795689 original size:17 final size:17
Alignment explanation
Indices: 15795664--15795711 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
15795654 TAATCAATTC
*
15795664 TTCTCTTTTCATCTTTT-
1 TTCTTTTTTCAT-TTTTA
15795681 TTCTTTTTTCATTTTTCA
1 TTCTTTTTTCATTTTT-A
15795699 TTCTTTTGTTCAT
1 TTCTTTT-TTCAT
15795712 GCTTAAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 7 0.26
19 5 0.19
ACGTcount: A:0.08, C:0.19, G:0.02, T:0.71
Consensus pattern (17 bp):
TTCTTTTTTCATTTTTA
Found at i:15805369 original size:2 final size:2
Alignment explanation
Indices: 15805362--15805390 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15805352 TCTGCAATTA
15805362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15805391 ATAAACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15805437 original size:22 final size:19
Alignment explanation
Indices: 15805397--15805439 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
15805387 TATAATAAAC
*
15805397 TTTTTTCTTTGTTTTCTTT
1 TTTTTTCTTTCTTTTCTTT
15805416 TTTTTTCTTCTCTATTTCCTTT
1 TTTTTTCTT-TCT-TTT-CTTT
15805438 TT
1 TT
15805440 CCCTCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 3 0.15
22 6 0.30
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTCTTTTCTTT
Found at i:15811001 original size:17 final size:17
Alignment explanation
Indices: 15810956--15811072 Score: 82
Period size: 18 Copynumber: 6.6 Consensus size: 17
15810946 TTTTTTCAAA
15810956 TAATATTAATATAATTATT
1 TAATATTAA-A-AATTATT
*
15810975 AAAATATTAAAAATTATT
1 -TAATATTAAAAATTATT
*
15810993 TATTATT-AAAATTA-T
1 TAATATTAAAAATTATT
*
15811008 TAATATTTAAAAA-TAAT
1 TAATA-TTAAAAATTATT
*
15811025 TATATTTTAATAATATT-TT
1 TA-ATATTAA-AA-ATTATT
15811044 TAATATTAAAATATTATGT
1 TAATATTAAAA-ATTAT-T
15811063 TAATA-TAAAA
1 TAATATTAAAA
15811073 TATAGTTAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.06
16 11 0.14
17 22 0.27
18 23 0.28
19 11 0.14
20 9 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
TAATATTAAAAATTATT
Found at i:15811006 original size:34 final size:35
Alignment explanation
Indices: 15810959--15811085 Score: 95
Period size: 34 Copynumber: 3.7 Consensus size: 35
15810949 TTTCAAATAA
* *
15810959 TATTAATATAATTA-TTAAAATATTAAAAATTATT
1 TATTATTAAAATTAGTTAAAATATTAAAAATTATT
* *
15810993 TATTATTAAAATTA-TTAATAT-TTAAAAATAATT
1 TATTATTAAAATTAGTTAAAATATTAAAAATTATT
* **
15811026 ATATT-TTAATAA-TATTTTTAATATTAAAATATTATGT
1 -TATTATTAA-AATTAGTTAAAATATTAAAA-ATTAT-T
*
15811063 TAATA-TAAAATATAGTTAAAATA
1 TATTATTAAAAT-TAGTTAAAATA
15811086 AAACTATTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
33 17 0.24
34 28 0.39
35 8 0.11
36 10 0.14
37 9 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (35 bp):
TATTATTAAAATTAGTTAAAATATTAAAAATTATT
Found at i:15811029 original size:16 final size:16
Alignment explanation
Indices: 15810981--15811031 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
15810971 TATTAAAATA
15810981 TTAAAAATTATT-TAT
1 TTAAAAATTATTATAT
*
15810996 TATTAAAATTATTAATAT
1 T-TAAAAATTATT-ATAT
*
15811014 TTAAAAATAATTATAT
1 TTAAAAATTATTATAT
15811030 TT
1 TT
15811032 TAATAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.03
16 16 0.53
17 9 0.30
18 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAAATTATTATAT
Found at i:15811067 original size:19 final size:17
Alignment explanation
Indices: 15810977--15811075 Score: 64
Period size: 17 Copynumber: 5.8 Consensus size: 17
15810967 TAATTATTAA
15810977 AATATTAAAA-ATTATTT
1 AATATTAAAATATT-TTT
* *
15810994 ATTATT-AAA-ATTATT
1 AATATTAAAATATTTTT
**
15811009 AATATTTAAAA-ATAATT
1 AATA-TTAAAATATTTTT
*
15811026 ATATTTTAATAATATTTTT
1 A-ATATTAA-AATATTTTT
15811045 AATATTAAAATATTATGTT
1 AATATTAAAATATT-T-TT
15811064 AATA-TAAAATAT
1 AATATTAAAATAT
15811076 AGTTAAAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.07
16 8 0.12
17 24 0.36
18 19 0.28
19 11 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
AATATTAAAATATTTTT
Found at i:15811086 original size:16 final size:18
Alignment explanation
Indices: 15811050--15811093 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
15811040 TTTTTAATAT
*
15811050 TAAAATATTATGTTAATA
1 TAAAATATTATGTTAAAA
15811068 TAAAATA-TA-GTTAAAA
1 TAAAATATTATGTTAAAA
15811084 TAAAACTATT
1 TAAAA-TATT
15811094 TATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
18 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (18 bp):
TAAAATATTATGTTAAAA
Found at i:15811111 original size:12 final size:12
Alignment explanation
Indices: 15811090--15811174 Score: 58
Period size: 12 Copynumber: 7.4 Consensus size: 12
15811080 AAAATAAAAC
15811090 TATT-TATTATT
1 TATTATATTATT
15811101 TATTATATTATT
1 TATTATATTATT
15811113 TATTA-A-TA--
1 TATTATATTATT
*
15811121 TATTATAATATT
1 TATTATATTATT
15811133 TATTA-ATTAAATT
1 TATTATATT--ATT
* * *
15811146 AATAATATT-TAA
1 TATTATATTAT-T
15811158 TATTATATTATT
1 TATTATATTATT
15811170 TATTA
1 TATTA
15811175 ATATATTATA
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 4 0.07
11 8 0.14
12 29 0.51
13 7 0.12
14 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATATTATT
Found at i:15811122 original size:15 final size:15
Alignment explanation
Indices: 15811104--15811183 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
15811094 TATTATTTAT
15811104 TATATTATTTATTAA
1 TATATTATTTATTAA
*
15811119 TATATTATAATATT--
1 TATATTAT-TTATTAA
* *
15811133 TAT-TAATTAAATTAA
1 TATATTATT-TATTAA
* *
15811148 TA-A-TATTTAATAT
1 TATATTATTTATTAA
15811161 TATATTATTTATTAA
1 TATATTATTTATTAA
15811176 TATATTAT
1 TATATTAT
15811184 AACATAATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
13 11 0.23
14 7 0.15
15 26 0.54
16 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:15811124 original size:24 final size:24
Alignment explanation
Indices: 15811108--15811156 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
15811098 ATTTATTATA
*
15811108 TTATTTATTAATATATTATAATAT
1 TTATTAATTAATATATTATAATAT
*
15811132 TTATTAATTAA-AT-TAATAATAT
1 TTATTAATTAATATATTATAATAT
15811154 TTA
1 TTA
15811157 ATATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 2 0.09
24 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAATTAATATATTATAATAT
Found at i:15811415 original size:15 final size:14
Alignment explanation
Indices: 15811388--15811414 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15811378 AAAAATATAC
15811388 AAAATTATTTTTTA
1 AAAATTATTTTTTA
15811402 AAAATTATTTTTT
1 AAAATTATTTTTT
15811415 TTGTGAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AAAATTATTTTTTA
Found at i:15811946 original size:17 final size:17
Alignment explanation
Indices: 15811924--15811958 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15811914 TTTATTGCAA
15811924 TTCATACAAATTTAATT
1 TTCATACAAATTTAATT
* *
15811941 TTCATACTATTTTAATT
1 TTCATACAAATTTAATT
15811958 T
1 T
15811959 GATAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
TTCATACAAATTTAATT
Found at i:15812717 original size:20 final size:19
Alignment explanation
Indices: 15812692--15812766 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
15812682 AAAATTTTTT
15812692 AATTTAAAATATTAAAAATA
1 AATTTAAAATATTAAAAA-A
* **
15812712 AATTTAATAT-TTTTAAAA
1 AATTTAAAATATTAAAAAA
* *
15812730 AATTTATAAATTTTCAAAAA
1 AATTTA-AAATATTAAAAAA
* *
15812750 AATTCAAAAAATTAAAA
1 AATTTAAAATATTAAAA
15812767 TTTTATATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 7 0.16
19 16 0.37
20 20 0.47
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTTAAAATATTAAAAAA
Found at i:15812748 original size:19 final size:18
Alignment explanation
Indices: 15812692--15812750 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
15812682 AAAATTTTTT
**
15812692 AATTTAAAATATTAAAAATA
1 AATTTAAAAT-TTTCAAA-A
* *
15812712 AATTTAATATTTTTAAAA
1 AATTTAAAATTTTCAAAA
15812730 AATTTATAAATTTTCAAAA
1 AATTTA-AAATTTTCAAAA
15812749 AA
1 AA
15812751 ATTCAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 7 0.21
19 17 0.52
20 9 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTTAAAATTTTCAAAA
Found at i:15813236 original size:26 final size:26
Alignment explanation
Indices: 15813207--15813258 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15813197 TTTTTTGCAT
15813207 TTTTAAATTTCATTACATCCATTTTA
1 TTTTAAATTTCATTACATCCATTTTA
15813233 TTTTAAATTTCATTACATCCATTTTA
1 TTTTAAATTTCATTACATCCATTTTA
15813259 ATGAAATTTT
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:0.15, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTAAATTTCATTACATCCATTTTA
Found at i:15817809 original size:14 final size:16
Alignment explanation
Indices: 15817775--15817825 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
15817765 TTTTATTTAT
15817775 TAAATAAAATAATTACA
1 TAAAT-AAATAATTACA
15817792 TAAATAAA-AATT-CA
1 TAAATAAATAATTACA
* *
15817806 TAAATAATTAATTATA
1 TAAATAAATAATTACA
15817822 TAAA
1 TAAA
15817826 GTTAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.30
15 8 0.27
16 8 0.27
17 5 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATAAATAATTACA
Found at i:15817818 original size:15 final size:15
Alignment explanation
Indices: 15817782--15817825 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15817772 TATTAAATAA
15817782 AATAATTACATAAAT
1 AATAATTACATAAAT
*
15817797 AAAAATT-CATAAAT
1 AATAATTACATAAAT
*
15817811 AATTAATTATATAAA
1 AA-TAATTACATAAA
15817826 GTTAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.38
15 10 0.42
16 5 0.21
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTACATAAAT
Found at i:15818095 original size:2 final size:2
Alignment explanation
Indices: 15818088--15818113 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15818078 TTGTATCTAA
15818088 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
15818114 CCTGCAATTA
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:15822856 original size:14 final size:14
Alignment explanation
Indices: 15822837--15822885 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
15822827 TTCAATGGAA
15822837 TAAAAATAAATATT
1 TAAAAATAAATATT
*
15822851 TAAAAATTTAAT-TGT
1 TAAAAA-TAAATAT-T
15822866 ATAAAAATAAATATT
1 -TAAAAATAAATATT
15822881 TAAAA
1 TAAAA
15822886 TCTAAATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.41
15 10 0.34
16 7 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAAATAAATATT
Found at i:15822909 original size:34 final size:30
Alignment explanation
Indices: 15822836--15822894 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15822826 GTTCAATGGA
*
15822836 ATAAAAATAAATATTTAAAAATTTAATTGT
1 ATAAAAATAAATATTTAAAAATTAAATTGT
15822866 ATAAAAATAAATATTT-AAAATCTAAATTG
1 ATAAAAATAAATATTTAAAAAT-TAAATTG
15822895 ATTATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (30 bp):
ATAAAAATAAATATTTAAAAATTAAATTGT
Found at i:15826201 original size:25 final size:25
Alignment explanation
Indices: 15826173--15826223 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
15826163 TATACTGTAC
*
15826173 AATGTATAA-GACATAAATGTAATTG
1 AATG-ATAACGACATAAATATAATTG
* *
15826198 AATGATAACTAGATAAATATAATTG
1 AATGATAACGACATAAATATAATTG
15826223 A
1 A
15826224 GGATGATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.31
Consensus pattern (25 bp):
AATGATAACGACATAAATATAATTG
Found at i:15831275 original size:34 final size:34
Alignment explanation
Indices: 15831237--15831303 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
15831227 TAATTATATA
* *
15831237 TTATTGGATATACATATTTAGTAACATAAAAAAT
1 TTATTAGATATACATATATAGTAACATAAAAAAT
* *
15831271 TTATTAGATATGCATATATGGTAACATAAAAAA
1 TTATTAGATATACATATATAGTAACATAAAAAA
15831304 ATTACCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (34 bp):
TTATTAGATATACATATATAGTAACATAAAAAAT
Found at i:15831316 original size:34 final size:34
Alignment explanation
Indices: 15831257--15831321 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
15831247 TACATATTTA
* ** *
15831257 GTAACATAAAAAATTTATTAGATATGCATATATG
1 GTAACATAAAAAAATTACCAAATATGCATATATG
*
15831291 GTAACATAAAAAAATTACCAAATATGTATAT
1 GTAACATAAAAAAATTACCAAATATGCATAT
15831322 TATGCATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (34 bp):
GTAACATAAAAAAATTACCAAATATGCATATATG
Found at i:15839165 original size:137 final size:136
Alignment explanation
Indices: 15838920--15839193 Score: 413
Period size: 137 Copynumber: 2.0 Consensus size: 136
15838910 TAAATTGAAA
* * * *
15838920 GTTTCAAGTTTAAACTTGGTAATGGGTGGGTAAGATTTAGAAAAGGAAAGAAATAAATTTTTTAA
1 GTTTCAAGTTTAAACTTGGTAATGGATAGATAAGATTTAGAAAAGGAAAGAAACAAATTTTTTAA
* * * * *
15838985 TTTTCATTTTGTAGATGCAATTGACACTGATGTTGACGAAGGAAGGGAGGTAGTCAAGGGAGAAA
66 TTTTCATTATGTAGATGCAATAGACACTAATGTTGACGAAGGAAGAGAGGTAGTCAAAGGAGAAA
15839050 ATAGAT
131 ATAGAT
* * *
15839056 GTTTCAAGTTTAAACTTGGTAATGTATAGATAAGATTTAGAAAAAGGAAGGAGACAAATTTTTTA
1 GTTTCAAGTTTAAACTTGGTAATGGATAGATAAGATTTAG-AAAAGGAAAGAAACAAATTTTTTA
* *
15839121 TTTTTCATTATGTAGATGCAATAGACACTAATGTTGAGGAAGGAAGAGAGGTAGTCAAAGGAGAA
65 ATTTTCATTATGTAGATGCAATAGACACTAATGTTGACGAAGGAAGAGAGGTAGTCAAAGGAGAA
15839186 AATAGAT
130 AATAGAT
15839193 G
1 G
15839194 ATTTAGCTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
136 36 0.29
137 87 0.71
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (136 bp):
GTTTCAAGTTTAAACTTGGTAATGGATAGATAAGATTTAGAAAAGGAAAGAAACAAATTTTTTAA
TTTTCATTATGTAGATGCAATAGACACTAATGTTGACGAAGGAAGAGAGGTAGTCAAAGGAGAAA
ATAGAT
Found at i:15839983 original size:2 final size:2
Alignment explanation
Indices: 15839976--15840018 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
15839966 TTTTCAAACC
*
15839976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15840018 T
1 T
15840019 GAGATTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15845893 original size:26 final size:26
Alignment explanation
Indices: 15845863--15845915 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
15845853 AATTTGTCAC
15845863 TTTATTTAAATAAATC-TTGATACTTT
1 TTTATTTAAATAAATCATT-ATACTTT
15845889 TTTATTTAAATAAATCATTATACTTT
1 TTTATTTAAATAAATCATTATACTTT
15845915 T
1 T
15845916 ATTACACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTATTTAAATAAATCATTATACTTT
Found at i:15845958 original size:30 final size:30
Alignment explanation
Indices: 15845924--15846007 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
15845914 TTATTACACT
15845924 AAATAAAATTTTAAACTTTAATTTGTACCC
1 AAATAAAATTTTAAACTTTAATTTGTACCC
* ** **
15845954 AAATAAACTTTTAATTTTTAATTTGTATTC
1 AAATAAAATTTTAAACTTTAATTTGTACCC
* *
15845984 AAA-CAAATTTTTAACTTCTAATTT
1 AAATAAAATTTTAAACTT-TAATTT
15846008 TTATTTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 9 0.21
30 34 0.79
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.46
Consensus pattern (30 bp):
AAATAAAATTTTAAACTTTAATTTGTACCC
Found at i:15846121 original size:29 final size:30
Alignment explanation
Indices: 15846049--15846127 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
15846039 TTTTTCATTT
15846049 AAAATA-AAAATTTATTTAAATATAAATAA
1 AAAATAGAAAATTTATTTAAATATAAATAA
* * * *
15846078 AAAATAGAGAGTTTATTTTAATA-CAAT-A
1 AAAATAGAAAATTTATTTAAATATAAATAA
15846106 AAAATAAGAAAATTTATTTAAA
1 AAAAT-AGAAAATTTATTTAAA
15846128 AATGAAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 6 0.15
29 22 0.54
30 13 0.32
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (30 bp):
AAAATAGAAAATTTATTTAAATATAAATAA
Found at i:15846425 original size:23 final size:22
Alignment explanation
Indices: 15846399--15846453 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
15846389 TTCTTGGTAA
15846399 TAAAATA-AAAAAAAAATTTAAAT
1 TAAAATATAAAAAAAAA-TT-AAT
* *
15846422 TAAAGTATAATAAAAAATTAAT
1 TAAAATATAAAAAAAAATTAAT
*
15846444 TAAATTATAA
1 TAAAATATAA
15846454 TGATAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.43
23 8 0.29
24 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATATAAAAAAAAATTAAT
Found at i:15846444 original size:22 final size:24
Alignment explanation
Indices: 15846409--15846463 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
15846399 TAAAATAAAA
15846409 AAAAAATTTAAATTAAAGTATAAT-
1 AAAAAA-TTAAATTAAAGTATAATG
*
15846433 AAAAAATT-AATTAAATTATAATG
1 AAAAAATTAAATTAAAGTATAATG
*
15846456 ATAAAATT
1 AAAAAATT
15846464 CAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 13 0.46
23 9 0.32
24 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AAAAAATTAAATTAAAGTATAATG
Found at i:15848623 original size:2 final size:2
Alignment explanation
Indices: 15848618--15848660 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15848608 AGAGGGCCAC
15848618 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15848660 A
1 A
15848661 ATTCACAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15850828 original size:296 final size:296
Alignment explanation
Indices: 15850294--15850883 Score: 1130
Period size: 296 Copynumber: 2.0 Consensus size: 296
15850284 CAAATAGTTT
15850294 TCCATATTTGACGACACTTTTACATCAAGTTTTCAAACGATATCTTAGCTTCTCTTTAGAACACT
1 TCCATATTTGACGACACTTTTACATCAAGTTTTCAAACGATATCTTAGCTTCTCTTTAGAACACT
15850359 TCTAGAACAACTCTACTTGAACAATACTCGTTACAGAAGCTACAACTAGGCCAAACAACCCCTAG
66 TCTAGAACAACTCTACTTGAACAATACTCGTTACAGAAGCTACAACTAGGCCAAACAACCCCTAG
15850424 GTTAGCTTTAATTTTATTTAAGATCATAATTGAACAATGATTACAAATAACTTGGGACCAAGTCT
131 GTTAGCTTTAATTTTATTTAAGATCATAATTGAACAATGATTACAAATAACTTGGGACCAAGTCT
* *
15850489 TTTCTGATAGAGGGTATACTGTTCAAATTTCAGATTACTGTGGGAAGCTCATATTTGAGTATGGT
196 TTTCTGAGAGAGGGTATACTGGTCAAATTTCAGATTACTGTGGGAAGCTCATATTTGAGTATGGT
15850554 TCTCAAACGAACCCTTACAAGTTTAAGGCTTTCTTC
261 TCTCAAACGAACCCTTACAAGTTTAAGGCTTTCTTC
15850590 TCCATATTTGACGACACTTTTACATCAAGTTTTCAAACGATATCTTAGCTTCTCTTTAGAACACT
1 TCCATATTTGACGACACTTTTACATCAAGTTTTCAAACGATATCTTAGCTTCTCTTTAGAACACT
15850655 TCTAGAACAACTCTACTTGAACAATACTTC-TTACAGAAGCTACAACTAGGCCAAACAACCCCTA
66 TCTAGAACAACTCTACTTGAACAATAC-TCGTTACAGAAGCTACAACTAGGCCAAACAACCCCTA
15850719 GGTTAGCTTTAATTTTATTTAAGATCATAATTGAACAATGATTACAAATAACTTGGGACCAAGTC
130 GGTTAGCTTTAATTTTATTTAAGATCATAATTGAACAATGATTACAAATAACTTGGGACCAAGTC
15850784 TTTTCTGAGAGAGCGG-ATACTGGTCAAATTTCAGATTACTGTGGGAAGCTCATATTTGAGTATG
195 TTTTCTGAGAGAG-GGTATACTGGTCAAATTTCAGATTACTGTGGGAAGCTCATATTTGAGTATG
15850848 GTTCTCAAACGAACCCTTACAAGTTTAAGGCTTTCT
259 GTTCTCAAACGAACCCTTACAAGTTTAAGGCTTTCT
15850884 CCTCTCTTCC
Statistics
Matches: 290, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
296 286 0.99
297 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (296 bp):
TCCATATTTGACGACACTTTTACATCAAGTTTTCAAACGATATCTTAGCTTCTCTTTAGAACACT
TCTAGAACAACTCTACTTGAACAATACTCGTTACAGAAGCTACAACTAGGCCAAACAACCCCTAG
GTTAGCTTTAATTTTATTTAAGATCATAATTGAACAATGATTACAAATAACTTGGGACCAAGTCT
TTTCTGAGAGAGGGTATACTGGTCAAATTTCAGATTACTGTGGGAAGCTCATATTTGAGTATGGT
TCTCAAACGAACCCTTACAAGTTTAAGGCTTTCTTC
Found at i:15852258 original size:25 final size:25
Alignment explanation
Indices: 15852230--15852280 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15852220 TCTGTAGAAA
15852230 TCTGATTCTCCTACATTAGTGCAGC
1 TCTGATTCTCCTACATTAGTGCAGC
* *
15852255 TCTGATTCTCCTACGTTAGTGTAGC
1 TCTGATTCTCCTACATTAGTGCAGC
15852280 T
1 T
15852281 TGGTTTCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (25 bp):
TCTGATTCTCCTACATTAGTGCAGC
Found at i:15852495 original size:31 final size:31
Alignment explanation
Indices: 15852457--15852517 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
15852447 AATTTCACTA
15852457 TTCCTATTTATTTGGATGTACTCCTTCATTG
1 TTCCTATTTATTTGGATGTACTCCTTCATTG
15852488 TTCCTATTTATTTGGATGTACTCCTTCATT
1 TTCCTATTTATTTGGATGTACTCCTTCATT
15852518 CTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.52
Consensus pattern (31 bp):
TTCCTATTTATTTGGATGTACTCCTTCATTG
Found at i:15853066 original size:60 final size:60
Alignment explanation
Indices: 15852973--15853094 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
15852963 CAGTCCTCCA
**
15852973 TGTCCCCAATTTAAGATGTAACCTACTTTCCATCAATAAGCTTATGAAAGATAGATGTTG
1 TGTCCCCAATTTAAGATGTAACCTACTTTCCATCAATAAGCTTACAAAAGATAGATGTTG
*
15853033 TGTCCCTAATTTAAGATGTAACCTACTTTCCATCAATAAGCTTACAAAAGATAGATGTTG
1 TGTCCCCAATTTAAGATGTAACCTACTTTCCATCAATAAGCTTACAAAAGATAGATGTTG
15853093 TG
1 TG
15853095 CCACTGAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (60 bp):
TGTCCCCAATTTAAGATGTAACCTACTTTCCATCAATAAGCTTACAAAAGATAGATGTTG
Found at i:15855614 original size:195 final size:195
Alignment explanation
Indices: 15855282--15855670 Score: 688
Period size: 195 Copynumber: 2.0 Consensus size: 195
15855272 CTTACAAAGG
*
15855282 AGTTTGAAATAAAGGACTTAGGGTTCCTTAAATATTTCCTTGCGATGGAAGTGGCTCAGTCTAAG
1 AGTTTGAAATAAAGGACTTAGGGTTCCTTAAATATTTCCTTGCGATGGAAGTAGCTCAGTCTAAG
* *
15855347 AATGGAATATCAATGTCTCAGCGTAAGTATGTACTTAATCTACTTAAAGAAACTGGCATGACTGG
66 AATGGAATATCAATGTCTCAGCATAAGTATGTACTTAATCTACTTAAAGAAACCGGCATGACTGG
* *
15855412 ATGCAAACATGCCGATACACCCATGGACTCAACTAATAAAATTTGTAGTGAAGATGGAAGCTCTA
131 ATGCAAACATACCGATACACCCATGGACTCAACTAATAAAATTGGTAGTGAAGATGGAAGCTCTA
* * *
15855477 AGTTTGAAATAAAGGACTTGGGGTTCCTTAAATATTTCCTTGGGATGGAAGTAGCTCGGTCTAAG
1 AGTTTGAAATAAAGGACTTAGGGTTCCTTAAATATTTCCTTGCGATGGAAGTAGCTCAGTCTAAG
*
15855542 AATGGAATTTCAATGTCTCAGCATAAGTATGTACTTAATCTACTTAAAGAAACCGGCATGACTGG
66 AATGGAATATCAATGTCTCAGCATAAGTATGTACTTAATCTACTTAAAGAAACCGGCATGACTGG
*
15855607 ATGCAAACCTACCGATACACCCATGGACTCAACTAATAAAATTGGTAGTGAAGATGGAAGCTCT
131 ATGCAAACATACCGATACACCCATGGACTCAACTAATAAAATTGGTAGTGAAGATGGAAGCTCT
15855671 CTCATGGACA
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 184 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (195 bp):
AGTTTGAAATAAAGGACTTAGGGTTCCTTAAATATTTCCTTGCGATGGAAGTAGCTCAGTCTAAG
AATGGAATATCAATGTCTCAGCATAAGTATGTACTTAATCTACTTAAAGAAACCGGCATGACTGG
ATGCAAACATACCGATACACCCATGGACTCAACTAATAAAATTGGTAGTGAAGATGGAAGCTCTA
Found at i:15860947 original size:1 final size:1
Alignment explanation
Indices: 15860941--15860965 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15860931 TTCCTTTGGA
15860941 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
15860966 CAAGTGGATG
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:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:15862914 original size:27 final size:27
Alignment explanation
Indices: 15862884--15862948 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
15862874 GCCAATTTCC
15862884 CAACCAACTCC-TTCAAAACCAGAATCT
1 CAACCAAC-CCATTCAAAACCAGAATCT
* *
15862911 CAACCAACCCATTCAAAACCCGATTCT
1 CAACCAACCCATTCAAAACCAGAATCT
*
15862938 CAACCTACCCA
1 CAACCAACCCA
15862949 ACCTATTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.38, C:0.42, G:0.03, T:0.17
Consensus pattern (27 bp):
CAACCAACCCATTCAAAACCAGAATCT
Found at i:15864368 original size:33 final size:33
Alignment explanation
Indices: 15864331--15864399 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
15864321 TCATTGCATC
*
15864331 CTACAGTACTTAAAAAAGAGTCCTAGTGAAGGT
1 CTACAGTACTTAAAAAAGAGTCCTAGTGAAGAT
* * *
15864364 CTACAGTACTTAAAGAAGAGTTCTGGTGAAGAT
1 CTACAGTACTTAAAAAAGAGTCCTAGTGAAGAT
15864397 CTA
1 CTA
15864400 TATTTTAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (33 bp):
CTACAGTACTTAAAAAAGAGTCCTAGTGAAGAT
Found at i:15869845 original size:20 final size:21
Alignment explanation
Indices: 15869806--15869845 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15869796 ATAAATTGTT
15869806 TAAAAACTTAAATTACACTTA
1 TAAAAACTTAAATTACACTTA
*
15869827 TAAAAATTTAAATTA-ACTT
1 TAAAAACTTAAATTACACTT
15869846 GAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAACTTAAATTACACTTA
Found at i:15885907 original size:17 final size:18
Alignment explanation
Indices: 15885887--15885925 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
15885877 CTAGTTTCTA
15885887 TTTTTTCCAAAAAT-ATT
1 TTTTTTCCAAAAATGATT
**
15885904 TTTTTTCTTAAAATGATT
1 TTTTTTCCAAAAATGATT
15885922 TTTT
1 TTTT
15885926 CTTTGAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTTCCAAAAATGATT
Found at i:15886430 original size:12 final size:11
Alignment explanation
Indices: 15886411--15886444 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
15886401 TCTTTTTCCT
15886411 TCAACTTAACC
1 TCAACTTAACC
15886422 TCTAACTTAGACC
1 TC-AACTTA-ACC
15886435 TCAACTTAAC
1 TCAACTTAAC
15886445 GATTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.19
12 12 0.57
13 5 0.24
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.29
Consensus pattern (11 bp):
TCAACTTAACC
Found at i:15896154 original size:12 final size:12
Alignment explanation
Indices: 15896122--15896156 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
15896112 CTTATAATTA
15896122 TTAATTTTATTT
1 TTAATTTTATTT
15896134 TT-ATATTTATTT
1 TTAAT-TTTATTT
15896146 TTAATTTTATT
1 TTAATTTTATT
15896157 AAAACTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTAATTTTATTT
Found at i:15898589 original size:11 final size:11
Alignment explanation
Indices: 15898573--15898597 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15898563 TTTTTCTCAC
15898573 TTTACTACATT
1 TTTACTACATT
15898584 TTTACTACATT
1 TTTACTACATT
15898595 TTT
1 TTT
15898598 GGTCATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTACTACATT
Found at i:15909973 original size:19 final size:20
Alignment explanation
Indices: 15909930--15909973 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
15909920 TTCAGTAATA
15909930 TAATAGTTGATTATGTGAATG
1 TAATAGTTGATTA-GTGAATG
* *
15909951 TAATATTTGATTA-TGAGTG
1 TAATAGTTGATTAGTGAATG
15909970 TAAT
1 TAAT
15909974 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TAATAGTTGATTAGTGAATG
Found at i:15911126 original size:14 final size:14
Alignment explanation
Indices: 15911107--15911136 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15911097 AAAGAAAAAG
15911107 AAAATCAAACTCCC
1 AAAATCAAACTCCC
*
15911121 AAAATCAAATTCCC
1 AAAATCAAACTCCC
15911135 AA
1 AA
15911137 CAAACGAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATCAAACTCCC
Found at i:15913398 original size:2 final size:2
Alignment explanation
Indices: 15913393--15913417 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15913383 TTTTTTCTGC
15913393 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15913418 TTCCTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15918963 original size:54 final size:54
Alignment explanation
Indices: 15918904--15919014 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
15918894 TCACAAGCTA
15918904 CTCAGATTCGATTCGAATAAAATTCGAATTCGGCTCAATTATTATCGAGTCGAG
1 CTCAGATTCGATTCGAATAAAATTCGAATTCGGCTCAATTATTATCGAGTCGAG
*
15918958 CTCAGATTCGATTCGAATAAAATTCGAATTCGGGTCAATTATTATCGAGTCGAG
1 CTCAGATTCGATTCGAATAAAATTCGAATTCGGCTCAATTATTATCGAGTCGAG
15919012 CTC
1 CTC
15919015 GAGCCGAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (54 bp):
CTCAGATTCGATTCGAATAAAATTCGAATTCGGCTCAATTATTATCGAGTCGAG
Found at i:15925187 original size:21 final size:21
Alignment explanation
Indices: 15925161--15925202 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15925151 CAACACTTCC
*
15925161 TTGTTTATGATAAAAAAATTA
1 TTGTTTATAATAAAAAAATTA
15925182 TTGTTTATAATAAAAAAATTA
1 TTGTTTATAATAAAAAAATTA
15925203 ATGTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
TTGTTTATAATAAAAAAATTA
Found at i:15929555 original size:18 final size:17
Alignment explanation
Indices: 15929523--15929556 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15929513 CAAGTTTATA
*
15929523 TTTCTTTTTTTAAAATT
1 TTTCTTTTTTAAAAATT
15929540 TTTCTTTTTTCAAAAAT
1 TTTCTTTTTT-AAAAAT
15929557 ATATTTAATA
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:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCTTTTTTAAAAATT
Found at i:15929685 original size:23 final size:22
Alignment explanation
Indices: 15929645--15929687 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
15929635 AATTGATTCT
* *
15929645 TTTTTTTGTTTTTCTTTTTTAA
1 TTTTTTTGTATTTATTTTTTAA
15929667 TTTTTTTGCTATTTATTTTTT
1 TTTTTTTG-TATTTATTTTTT
15929688 TAAAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.09, C:0.05, G:0.05, T:0.81
Consensus pattern (22 bp):
TTTTTTTGTATTTATTTTTTAA
Found at i:15938188 original size:30 final size:30
Alignment explanation
Indices: 15938152--15938211 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15938142 TCTAATGTTG
15938152 ACCTATGTACCATTAACTAATTTAAGCATT
1 ACCTATGTACCATTAACTAATTTAAGCATT
15938182 ACCTATGTACCATTAACTAATTTAAGCATT
1 ACCTATGTACCATTAACTAATTTAAGCATT
15938212 TAATTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (30 bp):
ACCTATGTACCATTAACTAATTTAAGCATT
Found at i:15946510 original size:20 final size:19
Alignment explanation
Indices: 15946473--15946511 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15946463 AAAATCCAAC
* *
15946473 ATTAAAATCTAAATACTAA
1 ATTAAAATATAAAAACTAA
15946492 ATTAATAATATAAAAACTAA
1 ATTAA-AATATAAAAACTAA
15946512 TTAGCATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAAAATATAAAAACTAA
Found at i:15951372 original size:3 final size:3
Alignment explanation
Indices: 15951364--15951394 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15951354 AAGACTTAGT
15951364 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
15951395 AGTTATCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:15953632 original size:9 final size:8
Alignment explanation
Indices: 15953615--15953643 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15953605 CATAAATAAA
15953615 TTATTTTT
1 TTATTTTT
15953623 TTATTTTT
1 TTATTTTT
15953631 TTATTTTT
1 TTATTTTT
15953639 TTATT
1 TTATT
15953644 GTATGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:15964203 original size:14 final size:14
Alignment explanation
Indices: 15964186--15964215 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15964176 TTGGATAATC
15964186 TATTAGAGATAGAT
1 TATTAGAGATAGAT
15964200 TATTAGAGATAGAT
1 TATTAGAGATAGAT
15964214 TA
1 TA
15964216 GTGTTACTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
TATTAGAGATAGAT
Found at i:15964678 original size:2 final size:2
Alignment explanation
Indices: 15964671--15964703 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15964661 GGCTTAATTG
15964671 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15964704 TAGTTAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15970644 original size:16 final size:16
Alignment explanation
Indices: 15970623--15970672 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
15970613 TTTTTAAAAC
15970623 TTTAAATTATATTATT
1 TTTAAATTATATTATT
*
15970639 TTTAAAATTTTAAATTATT
1 TTT-AAA--TTATATTATT
*
15970658 TTTATATTATATTAT
1 TTTAAATTATATTAT
15970673 CAGTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 2 0.07
19 12 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAATTATATTATT
Found at i:15970662 original size:25 final size:24
Alignment explanation
Indices: 15970608--15970659 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
15970598 TAATTTTTAA
15970608 ATTTT-TTTTTAAAACTTTAAATT
1 ATTTTATTTTTAAAACTTTAAATT
* *
15970631 ATATTATTTTTAAAATTTTAAATT
1 ATTTTATTTTTAAAACTTTAAATT
15970655 ATTTT
1 ATTTT
15970660 TATATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTATTTTTAAAACTTTAAATT
Found at i:15973367 original size:29 final size:29
Alignment explanation
Indices: 15973335--15973393 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
15973325 TTTACATTTG
* *
15973335 TTTAATATAATATGAGTACTATACAAATA
1 TTTAATATAACATGAATACTATACAAATA
15973364 TTTAATATAACATGAATACTATACAAATA
1 TTTAATATAACATGAATACTATACAAATA
15973393 T
1 T
15973394 ATGAATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTAATATAACATGAATACTATACAAATA
Found at i:15978431 original size:2 final size:2
Alignment explanation
Indices: 15978424--15978460 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15978414 GAGCATGAAA
15978424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15978461 CACTTTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15979100 original size:29 final size:28
Alignment explanation
Indices: 15979068--15979163 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 28
15979058 TAAAAAATAA
15979068 AAAATATATTTAAATACAAA-TAAAAAGTT
1 AAAAT-TATTTAAATACAAATTAAAAA-TT
** *
15979097 AAAACTTATTTTGATTCAAATTAAAAATT
1 AAAA-TTATTTAAATACAAATTAAAAATT
*
15979126 AAAGATTTATTTAAACT-CAAATTAAAGATT
1 AAA-A-TTATTTAAA-TACAAATTAAAAATT
15979156 AATAATTA
1 AA-AATTA
15979164 AATGAGTATA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
29 23 0.42
30 30 0.55
31 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAATTATTTAAATACAAATTAAAAATT
Found at i:15979122 original size:30 final size:30
Alignment explanation
Indices: 15979074--15979157 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
15979064 ATAAAAAATA
15979074 TATTTAAA-TACAAA-TAAAAAGTTAAA-ACT
1 TATTTAAACT-CAAATTAAAAA-TTAAAGACT
** * *
15979103 TATTTTGATTCAAATTAAAAATTAAAGATT
1 TATTTAAACTCAAATTAAAAATTAAAGACT
*
15979133 TATTTAAACTCAAATTAAAGATTAA
1 TATTTAAACTCAAATTAAAAATTAA
15979158 TAATTAAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 15 0.33
30 30 0.67
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (30 bp):
TATTTAAACTCAAATTAAAAATTAAAGACT
Found at i:15985302 original size:39 final size:39
Alignment explanation
Indices: 15985235--15985316 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
15985225 CTCAATTATG
* * *
15985235 CAAACAAATTAACAATTATATCTTGAACATACAATGATA
1 CAAACAAATTAAAAATTATAACTCGAACATACAATGATA
* *
15985274 CAAACAAATTAAAAATTGTAACTCGAACATAGAATGATA
1 CAAACAAATTAAAAATTATAACTCGAACATACAATGATA
15985313 CAAA
1 CAAA
15985317 TAAGTTAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (39 bp):
CAAACAAATTAAAAATTATAACTCGAACATACAATGATA
Found at i:15987461 original size:24 final size:22
Alignment explanation
Indices: 15987414--15987455 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15987404 GGAAATAGCA
15987414 AATAATAGCCATTTTTTAAATT
1 AATAATAGCCATTTTTTAAATT
*
15987436 AATAATAGCTATTTTTTAAA
1 AATAATAGCCATTTTTTAAA
15987456 ATTTAAAAAT
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:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
AATAATAGCCATTTTTTAAATT
Found at i:15987466 original size:24 final size:22
Alignment explanation
Indices: 15987417--15987466 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
15987407 AATAGCAAAT
*
15987417 AATAGCCATTTTTTAAATTAAT
1 AATAGCCATTTTTTAAATTAAA
*
15987439 AATAGCTATTTTTTAAAATTTAAA
1 AATAGCCATTTTTT-AAA-TTAAA
15987463 AATA
1 AATA
15987467 ATAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 3 0.12
24 8 0.33
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (22 bp):
AATAGCCATTTTTTAAATTAAA
Found at i:15988110 original size:30 final size:31
Alignment explanation
Indices: 15988053--15988126 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
15988043 ATTGATGATC
* * *
15988053 AATTAATTATTAAAAAAATATTTAAAAATTT
1 AATTAATTATTAAAAAAATAATAAAAAATTA
*
15988084 AATTAATTA-TAATAAAATAATAAAAAATTA
1 AATTAATTATTAAAAAAATAATAAAAAATTA
15988114 AATTAA-TATTAAA
1 AATTAATTATTAAA
15988127 TTTTTATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.05
30 26 0.70
31 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
AATTAATTATTAAAAAAATAATAAAAAATTA
Found at i:15988246 original size:17 final size:17
Alignment explanation
Indices: 15988226--15988269 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
15988216 TAAAAAAAAA
15988226 TATTTTATTTATAATTT
1 TATTTTATTTATAATTT
15988243 TA-TTTA-TTATAATTT
1 TATTTTATTTATAATTT
*
15988258 CATATTTATTTA
1 TAT-TTTATTTA
15988270 ATTATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 6 0.26
18 3 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATTTATAATTT
Found at i:15988374 original size:18 final size:19
Alignment explanation
Indices: 15988346--15988385 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
15988336 ACTTTAAATG
15988346 ATAATTGATTA-AAGATAAT
1 ATAATTGATTATAA-ATAAT
15988365 ATAA-TGATTATAAATAAT
1 ATAATTGATTATAAATAAT
15988383 ATA
1 ATA
15988386 TATGCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
ATAATTGATTATAAATAAT
Found at i:15991105 original size:39 final size:40
Alignment explanation
Indices: 15991061--15991145 Score: 138
Period size: 39 Copynumber: 2.1 Consensus size: 40
15991051 GATTGGGTGT
*
15991061 GGATTGGGTGTGGTAGGG-TGTTGGGA-GGAAGGTGGGGAG
1 GGATTGGGTGTGGT-GGGATGTTGGGAGGGAAGGTGGAGAG
15991100 GGATTGGGTGTGGTGGGATGTTGGGAGGGAAGGTGGAGAG
1 GGATTGGGTGTGGTGGGATGTTGGGAGGGAAGGTGGAGAG
15991140 GGATTG
1 GGATTG
15991146 ATGGGGTGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
38 3 0.07
39 22 0.51
40 18 0.42
ACGTcount: A:0.16, C:0.00, G:0.60, T:0.24
Consensus pattern (40 bp):
GGATTGGGTGTGGTGGGATGTTGGGAGGGAAGGTGGAGAG
Found at i:15991154 original size:39 final size:39
Alignment explanation
Indices: 15991061--15991155 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 39
15991051 GATTGGGTGT
* * *
15991061 GGATTGGGTGTGGTAGGG-TGTTGGGAGGAAGGTGGGGAG
1 GGATTGGATGGGGT-GGGATGTTGGGAGGAAGGTGGAGAG
* *
15991100 GGATTGGGTGTGGTGGGATGTTGGGAGGGAAGGTGGAGAG
1 GGATTGGATGGGGTGGGATGTTGGGA-GGAAGGTGGAGAG
15991140 GGATT-GATGGGGTGGG
1 GGATTGGATGGGGTGGG
15991156 GAGGGATTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 3 0.06
39 31 0.61
40 17 0.33
ACGTcount: A:0.16, C:0.00, G:0.61, T:0.23
Consensus pattern (39 bp):
GGATTGGATGGGGTGGGATGTTGGGAGGAAGGTGGAGAG
Found at i:15991416 original size:20 final size:20
Alignment explanation
Indices: 15991379--15991415 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15991369 ATTGTGTTAT
*
15991379 ATATTAATTTATAATTTTGC
1 ATATGAATTTATAATTTTGC
15991399 ATATGAATTT-TAATTTT
1 ATATGAATTTATAATTTT
15991416 TTTTGTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATGAATTTATAATTTTGC
Found at i:15991669 original size:26 final size:26
Alignment explanation
Indices: 15991641--15991689 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15991631 TAAAAAATAA
*
15991641 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
15991666 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
15991690 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:15992472 original size:25 final size:24
Alignment explanation
Indices: 15992431--15992477 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
15992421 TTATGTTTTT
*
15992431 TTAATTTCTTTAGAAAATATTATTG
1 TTAATTTCTTAAGAAAA-ATTATTG
*
15992456 TTAATTTCTTAATAAAAATTAT
1 TTAATTTCTTAAGAAAAATTAT
15992478 AAAATTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
TTAATTTCTTAAGAAAAATTATTG
Found at i:15995110 original size:6 final size:6
Alignment explanation
Indices: 15995101--15995137 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
15995091 TTTAAGTCCA
* *
15995101 GATGAT GATGGT GATGGA GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT G
15995138 CGAATTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:15995127 original size:18 final size:18
Alignment explanation
Indices: 15995100--15995135 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15995090 GTTTAAGTCC
15995100 AGATGATGATGGTGATGG
1 AGATGATGATGGTGATGG
*
15995118 AGATGGTGATGGTGATGG
1 AGATGATGATGGTGATGG
15995136 TGCGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (18 bp):
AGATGATGATGGTGATGG
Found at i:15995504 original size:18 final size:18
Alignment explanation
Indices: 15995481--15995605 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
15995471 ATGGTTATTA
15995481 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
15995499 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
15995520 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
15995539 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
15995556 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
* *
15995574 T---CCTCAAATATATCT
1 TCCACCTCAAATGTATCC
15995589 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
15995606 AAGAACAAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 54 0.64
19 1 0.01
21 17 0.20
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:15995511 original size:21 final size:21
Alignment explanation
Indices: 15995485--15995527 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15995475 TTATTATCCA
*
15995485 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
15995506 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
15995527 C
1 C
15995528 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:15995549 original size:36 final size:33
Alignment explanation
Indices: 15995509--15995606 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
15995499 TCCACCTCCT
15995509 CAAATATATCCTCCACCTCAAATGTATCAGTTACCA
1 CAAATATATCCTCCACCTCAAATGTATCA--T-CCA
* * * *
15995545 CAAATGTACCCTCCACCACAAATGTATCATCCT
1 CAAATATATCCTCCACCTCAAATGTATCATCCA
*
15995578 CAAATATATCTTCCACCTCAAATGTATCA
1 CAAATATATCCTCCACCTCAAATGTATCA
15995607 AGAACAAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.50
34 1 0.02
36 26 0.48
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.28
Consensus pattern (33 bp):
CAAATATATCCTCCACCTCAAATGTATCATCCA
Found at i:15997824 original size:13 final size:13
Alignment explanation
Indices: 15997805--15997843 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15997795 ATTTATTTAA
15997805 ATATATTAAAATT
1 ATATATTAAAATT
* *
15997818 TTATATTAAAATA
1 ATATATTAAAATT
15997831 ATATA-TAAAATT
1 ATATATTAAAATT
15997843 A
1 A
15997844 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:15997858 original size:16 final size:18
Alignment explanation
Indices: 15997822--15997860 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15997812 AAAATTTTAT
*
15997822 ATTAAAATAATATATAAA
1 ATTAAAAAAATATATAAA
15997840 ATTAAAAAAAT-TA-AAA
1 ATTAAAAAAATATATAAA
15997856 ATTAA
1 ATTAA
15997861 TAAATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAAAATATATAAA
Found at i:16000484 original size:14 final size:14
Alignment explanation
Indices: 16000465--16000492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16000455 AACCATCTAA
16000465 GGGGTTACGACAAG
1 GGGGTTACGACAAG
16000479 GGGGTTACGACAAG
1 GGGGTTACGACAAG
16000493 AGGACCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (14 bp):
GGGGTTACGACAAG
Found at i:16002482 original size:17 final size:17
Alignment explanation
Indices: 16002460--16002498 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
16002450 TTGGTATCGC
16002460 CTTATTACCAAAGTGAT
1 CTTATTACCAAAGTGAT
16002477 CTTATTACCAAAGTGAT
1 CTTATTACCAAAGTGAT
*
16002494 TTTAT
1 CTTAT
16002499 CACTAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (17 bp):
CTTATTACCAAAGTGAT
Found at i:16003564 original size:28 final size:29
Alignment explanation
Indices: 16003524--16003587 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
16003514 AAATTTTAAT
* *
16003524 TATTTTTATTTTTCTT-TTTTTAAATAAA
1 TATTTATATTTTTCTTGTATTTAAATAAA
16003552 TATTTATATTTTTCTTGTATTTAAATAAA
1 TATTTATATTTTTCTTGTATTTAAATAAA
*
16003581 TTTTTAT
1 TATTTAT
16003588 TCTTTGATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (29 bp):
TATTTATATTTTTCTTGTATTTAAATAAA
Found at i:16003694 original size:30 final size:30
Alignment explanation
Indices: 16003658--16003736 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
16003648 TTTATTTAAG
** *
16003658 TATAAATTAAAGGTTAAAGACATATTCAAA
1 TATAAATTAAAAATTAAAAACATATTCAAA
* *
16003688 TATAAATTAAAAATTAAAAATATATTTAAA
1 TATAAATTAAAAATTAAAAACATATTCAAA
16003718 TAT-AA-TAAAAATATAAAAA
1 TATAAATTAAAAAT-TAAAAA
16003737 TTTATTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.16
29 8 0.19
30 28 0.65
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (30 bp):
TATAAATTAAAAATTAAAAACATATTCAAA
Found at i:16003727 original size:28 final size:29
Alignment explanation
Indices: 16003679--16003754 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
16003669 GGTTAAAGAC
*
16003679 ATATTCAAATATAAATTAAAAAT-TAAAAAT
1 ATATTTAAATAT-AA-TAAAAATATAAAAAT
16003709 ATATTTAAATATAATAAAAATATAAAAAT
1 ATATTTAAATATAATAAAAATATAAAAAT
* * *
16003738 TTATTTAGATAAAATAA
1 ATATTTAAATATAATAA
16003755 CAAAGTTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 7 0.17
29 23 0.56
30 11 0.27
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
ATATTTAAATATAATAAAAATATAAAAAT
Found at i:16007120 original size:25 final size:28
Alignment explanation
Indices: 16007092--16007148 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
16007082 ATAATTTTGT
16007092 ATAAAAATA-AT-AAA-TAATAAAATAA
1 ATAAAAATATATAAAAGTAATAAAATAA
*
16007117 ATAAAAATATTATAAAAGTAATAAAATTA
1 ATAAAAATA-TATAAAAGTAATAAAATAA
16007146 ATA
1 ATA
16007149 TATGTGGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
27 2 0.07
28 3 0.11
29 13 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAAAATATATAAAAGTAATAAAATAA
Found at i:16007133 original size:20 final size:19
Alignment explanation
Indices: 16007096--16007148 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
16007086 TTTTGTATAA
16007096 AAATAATAAATAATAAAA-T
1 AAATAA-AAATAATAAAAGT
16007115 AAATAAAAATATTATAAAAGT
1 AAATAAAAATA--ATAAAAGT
*
16007136 -AATAAAATTAATA
1 AAATAAAAATAATA
16007149 TATGTGGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 15 0.50
21 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATAAAAATAATAAAAGT
Found at i:16007340 original size:6 final size:6
Alignment explanation
Indices: 16007329--16007367 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
16007319 TTTATGCCTT
16007329 TTTATA TTTATA TTTATCA TATTATA TTTATA TTT-TA TT
1 TTTATA TTTATA TTTAT-A T-TTATA TTTATA TTTATA TT
16007368 ATAGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 19 0.61
7 4 0.13
8 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:16007355 original size:20 final size:20
Alignment explanation
Indices: 16007330--16007385 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
16007320 TTATGCCTTT
16007330 TTATATTTATATTTATCATA
1 TTATATTTATATTTATCATA
*
16007350 TTATATTTATATTTTATTATA
1 TTATATTTATA-TTTATCATA
*
16007371 GTA-ATTTAATATTTA
1 TTATATTT-ATATTTA
16007386 GTTAAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATTTATATTTATCATA
Found at i:16009640 original size:6 final size:6
Alignment explanation
Indices: 16009622--16009655 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
16009612 GCTGATAGGA
*
16009622 TGGGGC TGCGGC TGGGGC TGGGGC TGGGGC TGGG
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC TGGG
16009656 AATGGAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.18, G:0.65, T:0.18
Consensus pattern (6 bp):
TGGGGC
Done.