Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 72 of 106
Found at i:13447147 original size:13 final size:12
Alignment explanation
Indices: 13447120--13447169 Score: 68
Period size: 11 Copynumber: 4.2 Consensus size: 12
13447110 ATATTTTAAA
13447120 TTATATTAT-TT
1 TTATATTATATT
13447131 TTATATTATATT
1 TTATATTATATT
*
13447143 CTTATAATAT-TT
1 -TTATATTATATT
13447155 TTATATTATATT
1 TTATATTATATT
13447167 TTA
1 TTA
13447170 AATTGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 17 0.50
12 9 0.26
13 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATTATATT
Found at i:13447147 original size:24 final size:24
Alignment explanation
Indices: 13447120--13447166 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13447110 ATATTTTAAA
*
13447120 TTATATTATTTTTATATTATATTC
1 TTATAATATTTTTATATTATATTC
13447144 TTATAATATTTTTATATTATATT
1 TTATAATATTTTTATATTATATT
13447167 TTAAATTGAT
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:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATAATATTTTTATATTATATTC
Found at i:13453487 original size:7 final size:8
Alignment explanation
Indices: 13453470--13453504 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
13453460 AAAAGCTATT
13453470 TTTTTATA
1 TTTTTATA
13453478 TTTTTA-A
1 TTTTTATA
13453485 TTTTTA-A
1 TTTTTATA
13453492 TTTTTATA
1 TTTTTATA
13453500 TTTTT
1 TTTTT
13453505 TTACGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:13456428 original size:19 final size:19
Alignment explanation
Indices: 13456404--13456445 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
13456394 TTAATCATAT
13456404 TTATTTATGTATATTTATA
1 TTATTTATGTATATTTATA
*
13456423 TTATTTATGTTTATTTATA
1 TTATTTATGTATATTTATA
13456442 TTAT
1 TTAT
13456446 ATATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTATGTATATTTATA
Found at i:13456435 original size:15 final size:14
Alignment explanation
Indices: 13456400--13456447 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
13456390 TTAATTAATC
*
13456400 ATATTTATTTATGT
1 ATATTTATTTATTT
13456414 ATATTTATATTATTT
1 ATATTTAT-TTATTT
*
13456429 ATGTTTATTTATATT
1 ATATTTATTTAT-TT
13456444 ATAT
1 ATAT
13456448 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
ATATTTATTTATTT
Found at i:13456560 original size:19 final size:19
Alignment explanation
Indices: 13456516--13456558 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
13456506 ATTTTTAAAG
13456516 TTTA-AATATAATTTATAA
1 TTTATAATATAATTTATAA
13456534 TTTATAATAT-ATTTAT-A
1 TTTATAATATAATTTATAA
13456551 TTT-TAATA
1 TTTATAATA
13456559 ATTCATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 10 0.42
19 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATAATATAATTTATAA
Found at i:13458738 original size:2 final size:2
Alignment explanation
Indices: 13458731--13458762 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
13458721 TCCATTACAC
13458731 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
13458763 GCATACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13462023 original size:16 final size:15
Alignment explanation
Indices: 13462000--13462031 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
13461990 TTAAATTAAC
13462000 AAATATAAAAATAAT
1 AAATATAAAAATAAT
13462015 AAATAATAAAAATAAT
1 AAAT-ATAAAAATAAT
13462031 A
1 A
13462032 GGATGTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATATAAAAATAAT
Found at i:13465449 original size:66 final size:66
Alignment explanation
Indices: 13465328--13465484 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 66
13465318 TCAAACTACG
* * * * * * ** *
13465328 AGTCAGAAAACTAAAATGATTTGAATCGAGCTAATATCAAAATTGAGTGATCGGGATCAAATCAC
1 AGTCAAAAAACTAAAATGATCTGAATCAAACTAAGATCAAAACTGAGCAACCGGGATCAAATCAC
13465393 A
66 A
* * * *
13465394 AGTCCAAAAACTAAAATGATCTGAATCAAACTGAGATCGAAACTGAGCAACCGGGATCGAATCAC
1 AGTCAAAAAACTAAAATGATCTGAATCAAACTAAGATCAAAACTGAGCAACCGGGATCAAATCAC
*
13465459 G
66 A
* *
13465460 AGTTAAAAAAATAAAATGATCTGAA
1 AGTCAAAAAACTAAAATGATCTGAA
13465485 CCTAACCAAG
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (66 bp):
AGTCAAAAAACTAAAATGATCTGAATCAAACTAAGATCAAAACTGAGCAACCGGGATCAAATCAC
A
Found at i:13465507 original size:132 final size:130
Alignment explanation
Indices: 13465366--13465944 Score: 371
Period size: 132 Copynumber: 4.3 Consensus size: 130
13465356 AGCTAATATC
* ** * * *
13465366 AAAATTGAGTGATCGGGATCAAATCACAAGTCCAAAAACTAAAATGATCTGAATCAAACTGAGAT
1 AAAAATGAGTGATCAAGATCAAATCACAAGTCAAAAAACTAAAATGATCTGAA-CAAGCCGAGAT
***
13465431 CGAAACTGAGCA-ACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGAACCTAACCAAG
65 CGAAACTGAG-AGACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGAACC-AATTGAG
13465495 ATA
128 ATA
* * * * * * * * * *
13465498 AAAAATGAGTGATTAGGATCAAACTAAGAA-TCGAAATATTAAAATGATTTGGACTGAGCCGAGA
1 AAAAATGAGTGATCAAGATCAAA-TCACAAGTCAAAAAACTAAAATGATCTGAAC-AAGCCGAGA
* * * * ** * * *
13465562 TCGAAACTGAGATATCGGAATTGAATCGTGAATTAAAAAAATAAAATGATCTGAATCGAGTTGAG
64 TCGAAACTGAGAGACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGAA-CCAATTGAG
13465627 ATAA
128 AT-A
* * ** * * * *
13465631 AAAAATGAGCGA-CTGAGATTGAATCACGAGTTAAAAAAATAAAATGATATGAATCAAGCCGAGA
1 AAAAATGAGTGATC-AAGATCAAATCACAAGTCAAAAAACTAAAATGATCTGAA-CAAGCCGAGA
** * * * * * * *
13465695 TTAAAATTAATGA-ACTGGGATCAAATCGCGAGTTAGAAAAATAAAATGAT-TTAGACCAAGTTG
64 TCGAAACTGA-GAGACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGA-ACCAA-TTG
13465758 AGATA
126 AGATA
* * ** **
13465763 AAGAATGAGTAATCAAGATCAAATCGTAAGTCAAAAAACTAAAATGATCT-AGACAGAGCTAAGA
1 AAAAATGAGTGATCAAGATCAAATCACAAGTCAAAAAACTAAAATGATCTGA-ACA-AGCCGAGA
* * * * * *
13465827 TCGAAACTAAAAGATCGGGATCGAACCACGAGTCAAAAAAATAAAATGATCTGAACTGAGCTGAG
64 TCGAAACTGAGAGACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGAAC----C--AA
*
13465892 CTGAGATA
123 TTGAGATA
* * *
13465900 AAAAATGAGTGACCAAGATTAAA-CAACAAGTCAAAAAAATAAAAT
1 AAAAATGAGTGATCAAGATCAAATC-ACAAGTCAAAAAACTAAAAT
13465945 TCAAAATTCT
Statistics
Matches: 334, Mismatches: 90, Indels: 41
0.72 0.19 0.09
Matches are distributed among these distances:
131 6 0.02
132 186 0.56
133 93 0.28
134 3 0.01
136 2 0.01
137 43 0.13
138 1 0.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.21
Consensus pattern (130 bp):
AAAAATGAGTGATCAAGATCAAATCACAAGTCAAAAAACTAAAATGATCTGAACAAGCCGAGATC
GAAACTGAGAGACCGGGATCGAATCACGAGTTAAAAAAATAAAATGATCTGAACCAATTGAGATA
Found at i:13465695 original size:67 final size:66
Alignment explanation
Indices: 13465594--13465744 Score: 171
Period size: 66 Copynumber: 2.3 Consensus size: 66
13465584 GAATCGTGAA
* * ** **
13465594 TTAAAAAAATAAAATGATCTGAATCGAGTTGAGA-TAAAA-AAATGAGCGACTGAGATTGAATCA
1 TTAAAAAAATAAAATGATATGAATCAAGCCGAGATTAAAATAAATGA---ACTGAGATCAAATCA
13465657 CGAG
63 CGAG
* * *
13465661 TTAAAAAAATAAAATGATATGAATCAAGCCGAGATTAAAATTAATGAACTGGGATCAAATCGCGA
1 TTAAAAAAATAAAATGATATGAATCAAGCCGAGATTAAAATAAATGAACTGAGATCAAATCACGA
13465726 G
66 G
*
13465727 TTAGAAAAATAAAATGAT
1 TTAAAAAAATAAAATGAT
13465745 TTAGACCAAG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
66 32 0.44
67 30 0.42
68 5 0.07
69 5 0.07
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.23
Consensus pattern (66 bp):
TTAAAAAAATAAAATGATATGAATCAAGCCGAGATTAAAATAAATGAACTGAGATCAAATCACGA
G
Found at i:13465699 original size:34 final size:32
Alignment explanation
Indices: 13465593--13465700 Score: 78
Period size: 34 Copynumber: 3.2 Consensus size: 32
13465583 TGAATCGTGA
* *
13465593 ATTAAAAAAATAAAATGATCTGAATCGAGTTGAG
1 ATTAAAAAAATAAAATGATATGAATC-AG-CGAG
* * *
13465627 A-TAAAAAAATGAGCGACTGAGATTGAATCA-CGAG
1 ATTAAAAAAAT-A--AAATGATA-TGAATCAGCGAG
13465661 -TTAAAAAAATAAAATGATATGAATCAAGCCGAG
1 ATTAAAAAAATAAAATGATATGAATC-AG-CGAG
13465694 ATTAAAA
1 ATTAAAA
13465701 TTAATGAACT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
30 6 0.11
31 6 0.11
33 14 0.25
34 20 0.35
36 5 0.09
37 6 0.11
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (32 bp):
ATTAAAAAAATAAAATGATATGAATCAGCGAG
Found at i:13467423 original size:16 final size:16
Alignment explanation
Indices: 13467387--13467424 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13467377 TTAAGTCTTC
13467387 TTTTTTTTTTCTTTAT
1 TTTTTTTTTTCTTTAT
*
13467403 GTTTTTTTTTCATTT-T
1 TTTTTTTTTTC-TTTAT
13467419 TTTTTT
1 TTTTTT
13467425 GCACACCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTCTTTAT
Found at i:13472883 original size:11 final size:12
Alignment explanation
Indices: 13472866--13472896 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
13472856 CATTTTATAA
13472866 ATATTTTTAATT
1 ATATTTTTAATT
13472878 AT-TTTTTAATT
1 ATATTTTTAATT
13472889 ATATTTTT
1 ATATTTTT
13472897 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTTTTAATT
Found at i:13472964 original size:3 final size:3
Alignment explanation
Indices: 13472956--13472981 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13472946 AAACAAGTAG
13472956 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13472982 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13473084 original size:48 final size:49
Alignment explanation
Indices: 13472977--13473087 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 49
13472967 TAATAATAAT
*
13472977 AATAAAAATGAAAATTA-AAAATCTAAAAAGAATAAAACAAATAAAATGTA
1 AATAAAAAT--AAATAAGAAAATCTAAAAAGAATAAAACAAATAAAATGTA
* *
13473027 AATAAAAATAAATAAGAAAATCTAGAAA-AATAAAATAAA-AAAATGTA
1 AATAAAAATAAATAAGAAAATCTAAAAAGAATAAAACAAATAAAATGTA
13473074 AATAAAAAATAAAT
1 AAT-AAAAATAAAT
13473088 GAAAAAAGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
47 11 0.20
48 25 0.45
49 11 0.20
50 9 0.16
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (49 bp):
AATAAAAATAAATAAGAAAATCTAAAAAGAATAAAACAAATAAAATGTA
Found at i:13473106 original size:26 final size:26
Alignment explanation
Indices: 13473002--13473099 Score: 75
Period size: 25 Copynumber: 4.0 Consensus size: 26
13472992 TAAAAATCTA
*
13473002 AAAAGAATAAAACAAATAAAATGTAAA-
1 AAAA-AATAAAATAAA-AAAATGTAAAG
* * *
13473029 TAAAAAT-AAATAAGAAAATCT--AG
1 AAAAAATAAAATAAAAAAATGTAAAG
*
13473052 -AAAAATAAAATAAAAAAATGTAAAT
1 AAAAAATAAAATAAAAAAATGTAAAG
*
13473077 AAAAAAT-AAATGAAAAAA-GTAAA
1 AAAAAATAAAATAAAAAAATGTAAA
13473100 AGGAAAATCT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
22 7 0.12
23 12 0.21
24 11 0.19
25 16 0.28
26 9 0.16
27 3 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (26 bp):
AAAAAATAAAATAAAAAAATGTAAAG
Found at i:13474692 original size:13 final size:13
Alignment explanation
Indices: 13474674--13474698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13474664 CCAATTAAGG
13474674 AAAAACAAAAAAC
1 AAAAACAAAAAAC
13474687 AAAAACAAAAAA
1 AAAAACAAAAAA
13474699 AATCTCTTAA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:13475281 original size:2 final size:2
Alignment explanation
Indices: 13475274--13475304 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13475264 ACCTCATTTA
13475274 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13475305 CGGGGGGGGG
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13475651 original size:29 final size:27
Alignment explanation
Indices: 13475593--13475668 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 27
13475583 ATTTAAATAT
* *
13475593 AATATTAATTAATATATTTATAATTTA
1 AATATTAATTAATATTTTTAAAATTTA
13475620 AATATTACATTAAGTATTTTTAAAATTTA
1 AATATTA-ATTAA-TATTTTTAAAATTTA
13475649 AATATTATATTAAATATTTT
1 AATATTA-ATT-AATATTTT
13475669 AATATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 7 0.16
28 5 0.12
29 29 0.67
30 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
AATATTAATTAATATTTTTAAAATTTA
Found at i:13475685 original size:11 final size:10
Alignment explanation
Indices: 13475643--13475693 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
13475633 GTATTTTTAA
13475643 AATTTAAATAT
1 AATTT-AATAT
*
13475654 TATATTAA-AT
1 AAT-TTAATAT
*
13475664 ATTTTAATAT
1 AATTTAATAT
13475674 AATTTAACTAT
1 AATTTAA-TAT
13475685 AATTTAATA
1 AATTTAATA
13475694 ACCTTTCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 4 0.12
10 13 0.39
11 14 0.42
12 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
AATTTAATAT
Found at i:13479959 original size:16 final size:16
Alignment explanation
Indices: 13479911--13479960 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
13479901 AGTTATTTGA
*
13479911 TTAA-TTTTTTTATTTT
1 TTAATTTTTTTTA-TAT
*
13479927 TTTATTTTTTTTA-AT
1 TTAATTTTTTTTATAT
13479942 TTAATTTTTTTTATAT
1 TTAATTTTTTTTATAT
13479958 TTA
1 TTA
13479961 TTAAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 13 0.45
16 8 0.28
17 8 0.28
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTAATTTTTTTTATAT
Found at i:13480316 original size:17 final size:18
Alignment explanation
Indices: 13480286--13480325 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
13480276 TCTTATTTCA
13480286 TTTTTTGGTCTTTTCATT
1 TTTTTTGGTCTTTTCATT
* *
13480304 TTTTTTTGT-TTTTTATT
1 TTTTTTGGTCTTTTCATT
13480321 TTTTT
1 TTTTT
13480326 AGTTAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.82
Consensus pattern (18 bp):
TTTTTTGGTCTTTTCATT
Found at i:13485331 original size:29 final size:28
Alignment explanation
Indices: 13485282--13485354 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
13485272 AATGATTGTT
* * *
13485282 TGAAAGCTTACAAGTGCAAAAGATTATT
1 TGAAATCTTATAAGTGCAAAAGATTATC
* *
13485310 TTAAATCTTATTAAGTGTAAAAGATTATC
1 TGAAATCTTA-TAAGTGCAAAAGATTATC
13485339 TGAAATCTTATAAGTG
1 TGAAATCTTATAAGTG
13485355 ATGATTCTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 14 0.37
29 24 0.63
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (28 bp):
TGAAATCTTATAAGTGCAAAAGATTATC
Found at i:13487740 original size:28 final size:28
Alignment explanation
Indices: 13487707--13487767 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
13487697 ACATATTAAA
13487707 GAGATCTTAATTCTAAGTTGGATATCTT
1 GAGATCTTAATTCTAAGTTGGATATCTT
13487735 GAGATCTTAATTCTAAGTTGGATATCTT
1 GAGATCTTAATTCTAAGTTGGATATCTT
13487763 GAGAT
1 GAGAT
13487768 ATGGTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (28 bp):
GAGATCTTAATTCTAAGTTGGATATCTT
Found at i:13489233 original size:13 final size:13
Alignment explanation
Indices: 13489215--13489245 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
13489205 TAAATATTGG
13489215 ATAAATTTTATAA
1 ATAAATTTTATAA
13489228 ATAAA-TTTATAA
1 ATAAATTTTATAA
13489240 ATAAAT
1 ATAAAT
13489246 ATAACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAAATTTTATAA
Found at i:13496602 original size:2 final size:2
Alignment explanation
Indices: 13496595--13496619 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13496585 CGGGTGCACG
13496595 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
13496620 CATAAACATC
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13498969 original size:5 final size:5
Alignment explanation
Indices: 13498947--13498990 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
13498937 ATTAATTTCG
*
13498947 AATTA AATT- ATTTAA AATTA AATT- AATTA AATTA AATTA AATTA
1 AATTA AATTA AATT-A AATTA AATTA AATTA AATTA AATTA AATTA
13498991 TTTTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 7 0.21
5 24 0.71
6 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATTA
Found at i:13498990 original size:15 final size:14
Alignment explanation
Indices: 13498947--13498986 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
13498937 ATTAATTTCG
*
13498947 AATTAAATTATTTAA
1 AATTAAATTAATT-A
13498962 AATTAAATTAATTA
1 AATTAAATTAATTA
13498976 AATTAAATTAA
1 AATTAAATTAA
13498987 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATTAATTA
Found at i:13499018 original size:28 final size:27
Alignment explanation
Indices: 13498981--13499033 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
13498971 AATTAAATTA
* *
13498981 AATTAAATTATTTTATTTTATTTTTATT
1 AATTAAATTAATTT-TTTTAATTTTATT
13499009 AATTAAATTAATTTTTTTAATTTTA
1 AATTAAATTAATTTTTTTAATTTTA
13499034 AAAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
AATTAAATTAATTTTTTTAATTTTATT
Found at i:13499343 original size:23 final size:22
Alignment explanation
Indices: 13499312--13499354 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
13499302 AAAAAAAGAT
*
13499312 TTAAAATTATTTTAGATAATAAA
1 TTAAAATTAATTTA-ATAATAAA
*
13499335 TTAATATTAATTTAATAATA
1 TTAAAATTAATTTAATAATA
13499355 TAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAAAATTAATTTAATAATAAA
Found at i:13500510 original size:16 final size:16
Alignment explanation
Indices: 13500491--13500534 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
13500481 TTTCTTTTCT
*
13500491 TTTTTTTTTTTACCTA
1 TTTTTTTTTTTACCAA
* *
13500507 TTTTATATTTTACCAA
1 TTTTTTTTTTTACCAA
13500523 TTTTCTTTTTTT
1 TTTT-TTTTTTT
13500535 TTTTGCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTTTTTACCAA
Found at i:13527143 original size:2 final size:2
Alignment explanation
Indices: 13527136--13527171 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13527126 AATGTGAAGC
13527136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13527172 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13532696 original size:20 final size:21
Alignment explanation
Indices: 13532660--13532711 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
13532650 TTCGAAATTA
13532660 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
13532682 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
13532703 AT-AAATATT
1 ATAAAATATT
13532712 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:13532702 original size:21 final size:22
Alignment explanation
Indices: 13532660--13532711 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
13532650 TTCGAAATTA
13532660 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
13532682 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
13532703 AT-AAATATT
1 ATAAAATATT
13532712 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:13532704 original size:14 final size:14
Alignment explanation
Indices: 13532696--13532735 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
13532686 AATATTATTT
13532696 TTTAAATATAAATA
1 TTTAAATATAAATA
13532710 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
13532726 TATAAATATA
1 TTTAAATATA
13532736 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:13532717 original size:8 final size:8
Alignment explanation
Indices: 13532701--13532737 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
13532691 TATTTTTTAA
13532701 ATATAAAT
1 ATATAAAT
*
13532709 ATTTAAAT
1 ATATAAAT
*
13532717 ATATAATT
1 ATATAAAT
13532725 ATATAAAT
1 ATATAAAT
13532733 ATATA
1 ATATA
13532738 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:13532744 original size:14 final size:14
Alignment explanation
Indices: 13532698--13532745 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
13532688 TATTATTTTT
* *
13532698 TAAATATAAATATT
1 TAAATATATATATA
13532712 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
13532728 TAAATATATATAAA
1 TAAATATATATATA
13532742 TAAA
1 TAAA
13532746 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:13532773 original size:16 final size:17
Alignment explanation
Indices: 13532734--13532774 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 17
13532724 TATATAAATA
13532734 TATATAAATAAAAATTT
1 TATATAAATAAAAATTT
*
13532751 TA-A-AAAT-TAAATTT
1 TATATAAATAAAAATTT
13532765 TATATAAATA
1 TATATAAATA
13532775 TCATATTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 6
0.74 0.04 0.22
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 5 0.25
17 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAATAAAAATTT
Found at i:13533294 original size:25 final size:25
Alignment explanation
Indices: 13533265--13533319 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13533255 AATATCTTAA
* *
13533265 AATATTTTTA-TTATATACTAAAAT
1 AATATTTTTACTAAAATACTAAAAT
13533289 ACATATTTTTACTAAAATACTAAAAT
1 A-ATATTTTTACTAAAATACTAAAAT
13533315 AATAT
1 AATAT
13533320 ATATACCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 13 0.48
26 13 0.48
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATTTTTACTAAAATACTAAAAT
Found at i:13535580 original size:2 final size:2
Alignment explanation
Indices: 13535541--13535572 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13535531 ATGTAATCTG
*
13535541 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13535573 CCCTCTCTAT
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:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:13536125 original size:19 final size:21
Alignment explanation
Indices: 13536103--13536151 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
13536093 ATTTTATCGA
13536103 TTTAATTTATTTAT-TATT-T
1 TTTAATTTATTTATATATTAT
13536122 TTTAA-TT-TTTATATATTAT
1 TTTAATTTATTTATATATTAT
*
13536141 TTTAATATATT
1 TTTAATTTATT
13536152 AAAATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 11 0.44
20 1 0.04
21 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTAATTTATTTATATATTAT
Found at i:13536283 original size:13 final size:13
Alignment explanation
Indices: 13536265--13536295 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13536255 AAATTCGAAC
13536265 TTAATATATAATT
1 TTAATATATAATT
*
13536278 TTAATATTTAATT
1 TTAATATATAATT
13536291 TTAAT
1 TTAAT
13536296 TCAAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAATATATAATT
Found at i:13536731 original size:29 final size:29
Alignment explanation
Indices: 13536692--13536764 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
13536682 TATTTCTTTT
* * *
13536692 ATAAATTTTTATTTTTTTAT-TGTATTTAA
1 ATAAATATTTATTTTTTAATCTATATTT-A
13536721 ATAAATATTTATTTTTTAATCTATATTTA
1 ATAAATATTTATTTTTTAATCTATATTTA
13536750 ATAAA-ATTTTATTTT
1 ATAAATA-TTTATTTT
13536765 AATAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 32 0.82
30 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
ATAAATATTTATTTTTTAATCTATATTTA
Found at i:13537629 original size:19 final size:17
Alignment explanation
Indices: 13537605--13537647 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
13537595 AAATTTTTTT
13537605 AATTATTAAAGTATATTAA
1 AATTATTAAA-T-TATTAA
*
13537624 AATTATT-TATTATTAA
1 AATTATTAAATTATTAA
13537640 AATTATTA
1 AATTATTA
13537648 CTATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 13 0.59
17 1 0.05
18 1 0.05
19 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTATTAAATTATTAA
Found at i:13537657 original size:16 final size:16
Alignment explanation
Indices: 13537618--13537656 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
13537608 TATTAAAGTA
*
13537618 TATTAAAATTATTTAT
1 TATTAAAATTATTTAC
13537634 TATTAAAATTA-TTAC
1 TATTAAAATTATTTAC
13537649 TATTAAAA
1 TATTAAAA
13537657 AGTAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAATTATTTAC
Found at i:13539140 original size:39 final size:42
Alignment explanation
Indices: 13539089--13539185 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
13539079 AAAATATTCA
*
13539089 TATTTAAA-AATAATATTATTAT-AT-TAT-TTAACATTTAT
1 TATTAAAATAATAATATTATTATAATGTATGTTAACATTTAT
* * * **
13539127 TATTAAAATAATAAAAATATTATAATGTGTGTTATTATTTAT
1 TATTAAAATAATAATATTATTATAATGTATGTTAACATTTAT
*
13539169 TGTTAAAATAATAATAT
1 TATTAAAATAATAATAT
13539186 AATACTATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 7 0.15
39 12 0.26
40 2 0.04
41 2 0.04
42 23 0.50
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (42 bp):
TATTAAAATAATAATATTATTATAATGTATGTTAACATTTAT
Found at i:13545040 original size:76 final size:75
Alignment explanation
Indices: 13544883--13545096 Score: 218
Period size: 76 Copynumber: 2.8 Consensus size: 75
13544873 AAATAGTTAA
* * * * * * *
13544883 TAAAATTAATTAAAGAGAGA-TAAGCAATTAAAAATAAATTTGATTAATTTAAGTAAAATCAAAT
1 TAAAATTAATT-GAGAGAGATTAATCTATT-AAAATAAATGTAATTAATTTAATTAGAATCAAAT
13544947 TAAATTAAGAAT
64 TAAATTAAGAAT
*
13544959 TAAAATTAATTGAGAGAGATTTAATCTATTAAAAGTAAATGTAATTAATTTTATTAGAATCAAAT
1 TAAAATTAATTGAGAGAGA-TTAATCTATTAAAA-TAAATGTAATTAATTTAATTAGAATCAAAT
13545024 T-AATTAAGAAT
64 TAAATTAAGAAT
* * **
13545035 TAAAATTTATTGAGAGAGAAGCTTAAGT-TATTAAATATAAATGCAATTAATTTGGTTAGAAT
1 TAAAATTAATTGAGAGAG-A--TTAA-TCTATTAAA-ATAAATGTAATTAATTTAATTAGAAT
13545097 TGAATCAAAT
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
75 7 0.06
76 42 0.36
77 34 0.29
78 33 0.28
79 2 0.02
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.36
Consensus pattern (75 bp):
TAAAATTAATTGAGAGAGATTAATCTATTAAAATAAATGTAATTAATTTAATTAGAATCAAATTA
AATTAAGAAT
Found at i:13545087 original size:78 final size:77
Alignment explanation
Indices: 13544925--13545096 Score: 215
Period size: 78 Copynumber: 2.2 Consensus size: 77
13544915 AATAAATTTG
* * *
13544925 ATTAATTTAAGTAAAATCAAATTAAATTAAGAATTAAAATTAATTGAGAGAGATTTAATCTATTA
1 ATTAATTTAATTAGAATCAAATTAAATTAAGAATTAAAATTAATTGAGAGAGACTTAATCTATTA
*
13544990 AAAGTAAATGTA
66 AAAGTAAATGCA
* *
13545002 ATTAATTTTATTAGAATCAAATT-AATTAAGAATTAAAATTTATTGAGAGAGAAGCTTAAGT-TA
1 ATTAATTTAATTAGAATCAAATTAAATTAAGAATTAAAATTAATTGAGAGAG-A-CTTAA-TCTA
13545065 TTAAATA-TAAATGCA
63 TTAAA-AGTAAATGCA
**
13545080 ATTAATTTGGTTAGAAT
1 ATTAATTTAATTAGAAT
13545097 TGAATCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
76 27 0.33
77 21 0.25
78 33 0.40
79 2 0.02
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (77 bp):
ATTAATTTAATTAGAATCAAATTAAATTAAGAATTAAAATTAATTGAGAGAGACTTAATCTATTA
AAAGTAAATGCA
Found at i:13552688 original size:3 final size:3
Alignment explanation
Indices: 13552680--13552712 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13552670 AGGAAAAATC
13552680 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13552713 TATCAAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13555437 original size:11 final size:11
Alignment explanation
Indices: 13555381--13555439 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
13555371 ATAAATTTAG
*
13555381 TAATATAATTA
1 TAATTTAATTA
*
13555392 TATTTTAATTTA
1 TAATTTAA-TTA
13555404 TTAA-TTAATTA
1 -TAATTTAATTA
**
13555415 TAAACT-ATTA
1 TAATTTAATTA
13555425 TAATTTAATTA
1 TAATTTAATTA
13555436 TAAT
1 TAAT
13555440 ATACTAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 11 0.29
11 18 0.47
12 7 0.18
13 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATTTAATTA
Found at i:13559158 original size:22 final size:23
Alignment explanation
Indices: 13559111--13559169 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
13559101 ATTAAATTTT
13559111 TTAATAATTT-AATTTGAATAATA
1 TTAA-AATTTAAATTTGAATAATA
* *
13559134 TTAAAATTTAAATTTTATTAA-A
1 TTAAAATTTAAATTTGAATAATA
13559156 TT-AAATTTATAATT
1 TTAAAATTTA-AATT
13559170 AAATAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 7 0.22
22 12 0.38
23 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAAATTTAAATTTGAATAATA
Found at i:13559161 original size:15 final size:17
Alignment explanation
Indices: 13559141--13559213 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
13559131 ATATTAAAAT
13559141 TTAAATTT-T-ATTAAA
1 TTAAATTTATAATTAAA
13559156 TTAAATTTATAATTAAA
1 TTAAATTTATAATTAAA
*
13559173 -TAATTATTTATAATAAAAA
1 TTAA--ATTTATAAT-TAAA
* *
13559192 TTTAATTATTTAATTAAA
1 TTAAATT-TATAATTAAA
13559210 TTAA
1 TTAA
13559214 TCGAACTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.17
16 4 0.09
17 6 0.13
18 18 0.39
19 8 0.17
20 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATTTATAATTAAA
Found at i:13561180 original size:19 final size:18
Alignment explanation
Indices: 13561145--13561180 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13561135 TTGGAATATT
*
13561145 AAAAAAATTAAATTTATA
1 AAAAAAATTAAAATTATA
13561163 AAAAAAATTAAAAATTAT
1 AAAAAAATT-AAAATTAT
13561181 TTGATTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAATTAAAATTATA
Found at i:13561754 original size:13 final size:13
Alignment explanation
Indices: 13561721--13561764 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
13561711 TGTAACAAAA
13561721 AATTTTAATTTATT
1 AATTTTAATTT-TT
*
13561735 GATTTTAATTTTT
1 AATTTTAATTTTT
13561748 AATTTTAA-TTTT
1 AATTTTAATTTTT
13561760 AATTT
1 AATTT
13561765 AATCATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 9 0.32
13 9 0.32
14 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
AATTTTAATTTTT
Found at i:13561767 original size:5 final size:6
Alignment explanation
Indices: 13561721--13561764 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
13561711 TGTAACAAAA
*
13561721 AATTTT AATTTATT GATTTT AATTTTT AATTTT AATTTT AATTT
1 AATTTT AA-TT-TT AATTTT AA-TTTT AATTTT AATTTT AATTT
13561765 AATCATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 20 0.61
7 10 0.30
8 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:13563766 original size:126 final size:126
Alignment explanation
Indices: 13563537--13563770 Score: 272
Period size: 126 Copynumber: 1.9 Consensus size: 126
13563527 TTGATTGGCC
* * *
13563537 TGAATCCCAAGTCTGCCACTCTCGTTCATCTTCAGAGATGACCTACCTTGGCTAAACTTACTTGA
1 TGAATCCCAACTCTGCCACTCTCATTCATCTTCAGAGATGACCTACCTTGACTAAACTTACTTGA
* * * * *
13563602 ATCAGCCACAGATGGCTTTGAAGCAAAAGGACTATTGACACCTAATGTGCTTTGAATACTT
66 ATCAACCACAGATGACTTTGAAACAAAAAGACGATTGACACCTAATGTGCTTTGAATACTT
* * ** * * * **
13563663 TGAATCCCAACTCTGCCACTTTCATTGATCTTTTGAGATGAGCTGCCTTGATTAAGTTTACTTGA
1 TGAATCCCAACTCTGCCACTCTCATTCATCTTCAGAGATGACCTACCTTGACTAAACTTACTTGA
* * *
13563728 TTCAACCATAGATGATTTTGAAACAAAAAGA-GAGTTGACACCT
66 ATCAACCACAGATGACTTTGAAACAAAAAGACGA-TTGACACCT
13563771 TTACATGCAA
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
125 1 0.01
126 86 0.99
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (126 bp):
TGAATCCCAACTCTGCCACTCTCATTCATCTTCAGAGATGACCTACCTTGACTAAACTTACTTGA
ATCAACCACAGATGACTTTGAAACAAAAAGACGATTGACACCTAATGTGCTTTGAATACTT
Found at i:13570682 original size:2 final size:2
Alignment explanation
Indices: 13570675--13570711 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13570665 CAATAAAATC
13570675 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
13570712 GAGAGAGAGA
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:13570716 original size:2 final size:2
Alignment explanation
Indices: 13570711--13570735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13570701 ATATATATAT
13570711 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
13570736 CATTTAACAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13576059 original size:36 final size:36
Alignment explanation
Indices: 13576019--13576107 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 36
13576009 GATAGAAGAT
* * * *
13576019 GACGATGAAGATGATGATGATGGTGATGAGGATGAG
1 GACGATGAAGAGGAAGAGGATGATGATGAGGATGAG
13576055 GACGATGAAGAGGAAGAGGATGATGATGAGGATGAG
1 GACGATGAAGAGGAAGAGGATGATGATGAGGATGAG
* * *
13576091 GATGAGGAAGAAGAAGA
1 GACGATGAAGAGGAAGA
13576108 AGAAGAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.39, C:0.02, G:0.43, T:0.16
Consensus pattern (36 bp):
GACGATGAAGAGGAAGAGGATGATGATGAGGATGAG
Found at i:13576093 original size:18 final size:18
Alignment explanation
Indices: 13576031--13576095 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
13576021 CGATGAAGAT
* *
13576031 GATGATGATGGTGATGAG
1 GATGAGGATGATGATGAG
* *
13576049 GATGAGGACGATGAAGAG
1 GATGAGGATGATGATGAG
*
13576067 GAAGAGGATGATGATGAG
1 GATGAGGATGATGATGAG
13576085 GATGAGGATGA
1 GATGAGGATGA
13576096 GGAAGAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.35, C:0.02, G:0.45, T:0.18
Consensus pattern (18 bp):
GATGAGGATGATGATGAG
Found at i:13576096 original size:6 final size:6
Alignment explanation
Indices: 13575998--13576098 Score: 69
Period size: 6 Copynumber: 16.3 Consensus size: 6
13575988 TATTCAGGGA
* * * * *
13575998 GATGAG GTTGA- GATAGAA GATGAC GATGAA GATGAT GATGATGG TGATGAG
1 GATGAG GATGAG GAT-GAG GATGAG GATGAG GATGAG GATGA--G -GATGAG
* * * * *
13576049 GATGAG GACGAT GAAGAG GAAGAG GATGAT GATGAG GATGAG GATGAG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG
13576097 GA
1 GA
13576099 AGAAGAAGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
5 2 0.03
6 66 0.86
7 4 0.05
9 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.43, T:0.19
Consensus pattern (6 bp):
GATGAG
Found at i:13576555 original size:41 final size:42
Alignment explanation
Indices: 13576498--13576581 Score: 143
Period size: 41 Copynumber: 2.0 Consensus size: 42
13576488 TTTGCAGTTT
13576498 TGGTGGTTATTTATTTTTAC-TTTTTCCATGTTATACCAGAA
1 TGGTGGTTATTTATTTTTACTTTTTTCCATGTTATACCAGAA
* *
13576539 TGGTGGTTATTTATTTTTACTTTTTTTCATGTTGTACCAGAA
1 TGGTGGTTATTTATTTTTACTTTTTTCCATGTTATACCAGAA
13576581 T
1 T
13576582 TATTGGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.20, C:0.11, G:0.15, T:0.54
Consensus pattern (42 bp):
TGGTGGTTATTTATTTTTACTTTTTTCCATGTTATACCAGAA
Found at i:13585333 original size:22 final size:21
Alignment explanation
Indices: 13585289--13585333 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13585279 AAAATAAAAA
*
13585289 TAAAATTTTATTTTTAATTTT
1 TAAAATTTTATTTTTAATATT
13585310 TAAAATTTTTATTTTGT-ATATT
1 TAAAA-TTTTATTTT-TAATATT
13585332 TA
1 TA
13585334 GGTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 15 0.71
23 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TAAAATTTTATTTTTAATATT
Found at i:13586223 original size:29 final size:29
Alignment explanation
Indices: 13586191--13586248 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
13586181 ACCGATCGAA
*
13586191 AATAAAAAATAAAAAATTTAATTAATTAT
1 AATAAAAAATAAAAAATTTAAATAATTAT
* *
13586220 AATAAAATATTAAAAATTTAAATAATTAT
1 AATAAAAAATAAAAAATTTAAATAATTAT
13586249 TAAATTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAAAAAATAAAAAATTTAAATAATTAT
Found at i:13590963 original size:16 final size:17
Alignment explanation
Indices: 13590932--13590964 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13590922 CATTTTAGAA
13590932 GAAAGAATGCGAATTATC
1 GAAAGAAT-CGAATTATC
13590950 GAAAGAAT-GAATTAT
1 GAAAGAATCGAATTAT
13590965 TTTGGCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
GAAAGAATCGAATTATC
Found at i:13593198 original size:16 final size:15
Alignment explanation
Indices: 13593165--13593220 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
13593155 GAAAAAAATT
* *
13593165 AAAAAAACAAAA-AT
1 AAAAAAAAAAAAGAG
* * *
13593179 AAAAAATAAAATGTG
1 AAAAAAAAAAAAGAG
13593194 AAAAAAGAAAAAAGAG
1 AAAAAA-AAAAAAGAG
13593210 AAAAAAAAAAA
1 AAAAAAAAAAA
13593221 CTCAAACTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 9 0.28
15 11 0.34
16 12 0.38
ACGTcount: A:0.82, C:0.02, G:0.09, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAAGAG
Found at i:13594446 original size:62 final size:63
Alignment explanation
Indices: 13594328--13594448 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 63
13594318 TTCAGGTACT
*
13594328 AATCTCTAAGAATTTTCAAATAAAAATATTTAAGTTTTAAATGAGAATCTTGAAAATTTTTGTG
1 AATCTCTAAGAATTTTCAAATAAAAATATTTAAG-TTTAAATGAGAAACTTGAAAATTTTTGTG
** * *
13594392 AATCTCTAA-AATTTTCAAATATGAATCTTTGAA-TTTAAATGTA-AAACTTTAAAATTT
1 AATCTCTAAGAATTTTCAAATAAAAATATTT-AAGTTTAAATG-AGAAACTTGAAAATTT
13594449 ATCAAATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 20 0.40
63 19 0.38
64 11 0.22
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.41
Consensus pattern (63 bp):
AATCTCTAAGAATTTTCAAATAAAAATATTTAAGTTTAAATGAGAAACTTGAAAATTTTTGTG
Found at i:13597293 original size:56 final size:58
Alignment explanation
Indices: 13597205--13597324 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 58
13597195 TTAATAAAAC
* ** * * *
13597205 AAAATATTTCAGAAAAATGTTTTATGGTAAAGTTGAAGTAT-TATTTTTTTTAAATAA
1 AAAATATTTCAGAAAAATATTTTATGAAAAAGTTGAAATATCAAATTTTTTTAAATAA
13597262 AAAATATTTCA-AAAAATATTTTGA-GAAAAAGTTGAAATATCAAATTTTTTTAAATAA
1 AAAATATTTCAGAAAAATATTTT-ATGAAAAAGTTGAAATATCAAATTTTTTTAAATAA
13597319 AAAATA
1 AAAATA
13597325 ATAATAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
56 23 0.42
57 32 0.58
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (58 bp):
AAAATATTTCAGAAAAATATTTTATGAAAAAGTTGAAATATCAAATTTTTTTAAATAA
Found at i:13603245 original size:29 final size:31
Alignment explanation
Indices: 13603186--13603259 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
13603176 TGAATGGTAC
* *
13603186 ATAAATTATAGTAAAATATTTAATGTAATAT-T
1 ATAAATTATA--AAAATATCTAATATAATATAT
* *
13603218 -TAAATTTTAAAAATATCTAATATGATATAT
1 ATAAATTATAAAAATATCTAATATAATATAT
13603248 ATAAATTATAAA
1 ATAAATTATAAA
13603260 TCTATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 18 0.51
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (31 bp):
ATAAATTATAAAAATATCTAATATAATATAT
Found at i:13603372 original size:15 final size:15
Alignment explanation
Indices: 13603352--13603381 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13603342 TTTATAATTT
*
13603352 AAATATTACATTAAA
1 AAATATAACATTAAA
13603367 AAATATAACATTAAA
1 AAATATAACATTAAA
13603382 TATATCGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATAACATTAAA
Found at i:13608054 original size:15 final size:15
Alignment explanation
Indices: 13608034--13608064 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13608024 TCACCATACA
*
13608034 ACAATTCCATATGAG
1 ACAATTCCACATGAG
13608049 ACAATTCCACATGAG
1 ACAATTCCACATGAG
13608064 A
1 A
13608065 TCATCCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
ACAATTCCACATGAG
Found at i:13613975 original size:28 final size:28
Alignment explanation
Indices: 13613936--13613989 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
13613926 GAATTGATTT
* *
13613936 CAAAAATTAAATA-ATTTAATTTAATTAA
1 CAAAAATAAAATATA-TAAATTTAATTAA
13613964 CAAAAATAAAATATATAAATTTAATT
1 CAAAAATAAAATATATAAATTTAATT
13613990 TTAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
CAAAAATAAAATATATAAATTTAATTAA
Found at i:13614013 original size:20 final size:20
Alignment explanation
Indices: 13613966--13614013 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13613956 TTAATTAACA
*
13613966 AAAATAAAATATATAAATTT
1 AAAATTAAATATATAAATTT
**
13613986 AATTTTAAATA-ATACAATTT
1 AAAATTAAATATATA-AATTT
13614006 AAAATTAA
1 AAAATTAA
13614014 TTGGAGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTAAATATATAAATTT
Found at i:13614660 original size:19 final size:18
Alignment explanation
Indices: 13614615--13614693 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 18
13614605 AAGATATTTT
13614615 ATTAATTAAAATAATAAAA
1 ATTAATTAAAAT-ATAAAA
* *
13614634 GTTTATTAAAATATAAAA
1 ATTAATTAAAATATAAAA
*
13614652 ATTCAATTAAATCTATAAATTA
1 ATT-AATTAAA-ATATAAA--A
*
13614674 TTTAAATT-AAATATAAAA
1 ATT-AATTAAAATATAAAA
13614692 AT
1 AT
13614694 ATTTAAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
18 10 0.21
19 16 0.34
20 12 0.26
21 2 0.04
22 7 0.15
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (18 bp):
ATTAATTAAAATATAAAA
Found at i:13614698 original size:21 final size:22
Alignment explanation
Indices: 13614638--13614702 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
13614628 ATAAAAGTTT
*
13614638 ATTAAA-ATATAAAA-A-TTCA
1 ATTAAATATATAAAATATTTAA
* *
13614657 ATTAAATCTATAAATTATTTAA
1 ATTAAATATATAAAATATTTAA
13614679 ATTAAATATA-AAAATATTTAA
1 ATTAAATATATAAAATATTTAA
13614700 ATT
1 ATT
13614703 TGATTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 6 0.16
20 6 0.16
21 14 0.37
22 12 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTAAATATATAAAATATTTAA
Found at i:13615902 original size:3 final size:3
Alignment explanation
Indices: 13615894--13615918 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13615884 CTTCTCTCCA
13615894 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
13615919 CGCCTTGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:13618840 original size:173 final size:170
Alignment explanation
Indices: 13618633--13618979 Score: 487
Period size: 173 Copynumber: 2.0 Consensus size: 170
13618623 AAGCTGAGCC
* *
13618633 TTTATATTAAGTTGGGAGAATTTTAATATAATTATATTGATAATTAAATTGATTATATTAATGAA
1 TTTATATTAAGTTGGGAGAAATTTAATATAATTATATTGATAATTAAATTAATTATATTAATGAA
* * * * *
13618698 TTTATGTGATGAAAATTAATTAATTTTTAAAAAAATATTAATTTTGTAAGCCTTATGAATGATGT
66 TTT-TGTGATGAAAAATAATTAA-TTTAAAAAAAATATTAATTTTGCAAGCCATAT-AATGATAT
13618763 GTCAAGATCTTCAATATTGAACTCAGAACACACCAAAATTGGA
128 GTCAAGATCTTCAATATTGAACTCAGAACACACCAAAATTGGA
* ** * *
13618806 TTTATATTAAGTTGGGATAAATTTAATATAATTATATTGATAATTGTATTAATTGTATTGATGAA
1 TTTATATTAAGTTGGGAGAAATTTAATATAATTATATTGATAATTAAATTAATTATATTAATGAA
* * *
13618871 TTTTGTGATGAAAAATAATTTATTTAAAAAAAATGTTAATTTTGCAGGCCATATAATGATATGTC
66 TTTTGTGATGAAAAATAATTAATTTAAAAAAAATATTAATTTTGCAAGCCATATAATGATATGTC
* * * * *
13618936 AAGATCTTTAATATTTAATTCAGAACCCACCAAATTTGGA
131 AAGATCTTCAATATTGAACTCAGAACACACCAAAATTGGA
13618976 TTTA
1 TTTA
13618980 ATAAATTGAA
Statistics
Matches: 154, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
170 49 0.32
171 27 0.18
172 17 0.11
173 61 0.40
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (170 bp):
TTTATATTAAGTTGGGAGAAATTTAATATAATTATATTGATAATTAAATTAATTATATTAATGAA
TTTTGTGATGAAAAATAATTAATTTAAAAAAAATATTAATTTTGCAAGCCATATAATGATATGTC
AAGATCTTCAATATTGAACTCAGAACACACCAAAATTGGA
Found at i:13619207 original size:16 final size:16
Alignment explanation
Indices: 13619186--13619216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13619176 AGATTATAAT
*
13619186 AATTTTTTAATAAATA
1 AATTTTTTAAAAAATA
13619202 AATTTTTTAAAAAAT
1 AATTTTTTAAAAAAT
13619217 TTAATTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTTTTAAAAAATA
Found at i:13619222 original size:17 final size:16
Alignment explanation
Indices: 13619185--13619223 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13619175 CAGATTATAA
*
13619185 TAATTTTTTAATAAAT
1 TAATTTTTTAAAAAAT
*
13619201 AAATTTTTTAAAAAATT
1 TAATTTTTTAAAAAA-T
13619218 TAATTT
1 TAATTT
13619224 GTGTATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTTTTTAAAAAAT
Found at i:13624784 original size:98 final size:99
Alignment explanation
Indices: 13624630--13624826 Score: 315
Period size: 98 Copynumber: 2.0 Consensus size: 99
13624620 ATATATGTTG
* *
13624630 ATAATGTTGCCTTCAAAATCCCCATATTCATTGGGTTATGTAATGCATATGTGTGGTGTCTGTCT
1 ATAATGTTGCCTTCAAAATCCCCATATTCATTGGGTTATGTAATGCATATATGTGGTGTCTGTCC
*
13624695 GTAAGGGATACTGAATATAGTTTCAATCCTAATC
66 ATAAGGGATACTGAATATAGTTTCAATCCTAATC
* * * *
13624729 ATAATGTTGCCTTCAAAATCCTCATATTTA-TGGGTTATGTGATGCATTTATGTGGTGTCTGTCC
1 ATAATGTTGCCTTCAAAATCCCCATATTCATTGGGTTATGTAATGCATATATGTGGTGTCTGTCC
*
13624793 ATGAGGGATACTGAATATAGTTTCAATCCTAATC
66 ATAAGGGATACTGAATATAGTTTCAATCCTAATC
13624827 CTCAAATTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
98 62 0.69
99 28 0.31
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (99 bp):
ATAATGTTGCCTTCAAAATCCCCATATTCATTGGGTTATGTAATGCATATATGTGGTGTCTGTCC
ATAAGGGATACTGAATATAGTTTCAATCCTAATC
Found at i:13628237 original size:15 final size:15
Alignment explanation
Indices: 13628217--13628265 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
13628207 ATCAATTATG
13628217 AAAATTAAATATATA
1 AAAATTAAATATATA
* *
13628232 AAAATTAATTATTTA
1 AAAATTAAATATATA
* *
13628247 TAAATTACATA-ATA
1 AAAATTAAATATATA
13628261 AAAAT
1 AAAAT
13628266 GCATTTGAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTAAATATATA
Found at i:13629241 original size:21 final size:20
Alignment explanation
Indices: 13629217--13629259 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13629207 ATGTTCTGCT
*
13629217 AATACATAAAAAGGCAAAAAA
1 AATA-ATAAAAAGACAAAAAA
* *
13629238 AATAATAACAATACAAAAAA
1 AATAATAAAAAGACAAAAAA
13629258 AA
1 AA
13629260 AAGTCCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (20 bp):
AATAATAAAAAGACAAAAAA
Found at i:13632834 original size:13 final size:13
Alignment explanation
Indices: 13632816--13632840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13632806 ACATGATAAG
13632816 ATAGGCTTACAAT
1 ATAGGCTTACAAT
13632829 ATAGGCTTACAA
1 ATAGGCTTACAA
13632841 AAGATAACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
ATAGGCTTACAAT
Found at i:13637426 original size:21 final size:20
Alignment explanation
Indices: 13637394--13637458 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
13637384 TCACACCATT
13637394 TTTCTCTTTCTTTCCATTTTTC
1 TTTCT-TTTCTTT-CATTTTTC
* *
13637416 TTTCTTTTCTTTTCATTCTAC
1 TTTCTTTTC-TTTCATTTTTC
* *
13637437 TTTGTTTT-TTTCATTTATC
1 TTTCTTTTCTTTCATTTTTC
13637456 TTT
1 TTT
13637459 GGAGTTTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 11 0.31
21 17 0.47
22 8 0.22
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTCTTTTCTTTCATTTTTC
Found at i:13660699 original size:19 final size:17
Alignment explanation
Indices: 13660649--13660711 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 17
13660639 AAAATAATCC
*
13660649 TAAATATATACTCTAAATA
1 TAAATATATAAT-TAAA-A
*
13660668 TAAATTTAAATAATTAATAA
1 TAAA--TATATAATTAA-AA
13660688 CTAAATATATAATTAAAA
1 -TAAATATATAATTAAAA
13660706 TAAATA
1 TAAATA
13660712 AAATACACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
17 6 0.16
18 2 0.05
19 14 0.38
20 4 0.11
21 11 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATATATAATTAAAA
Found at i:13660810 original size:28 final size:25
Alignment explanation
Indices: 13660775--13660856 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 25
13660765 TTCTATTTTT
13660775 TTATTCATTTTTTAGAATATCTTAAAA
1 TTATTCATTTTTTA-AATAT-TTAAAA
*
13660802 TTATATCATTTTTTAAAAACATTTAAAA
1 TTAT-TCATTTTTT--AAATATTTAAAA
* *
13660830 TT-TTTATTTTTTAAATATTAAAAA
1 TTATTCATTTTTTAAATATTTAAAA
13660854 TTA
1 TTA
13660857 AAAATTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
24 12 0.26
26 8 0.17
27 5 0.11
28 17 0.36
29 4 0.09
30 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.52
Consensus pattern (25 bp):
TTATTCATTTTTTAAATATTTAAAA
Found at i:13662366 original size:22 final size:23
Alignment explanation
Indices: 13662332--13662389 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
13662322 AAATTCCAAC
*
13662332 ATTTTTATTAAATACAAA-TAAAA
1 ATTTTTA-AAAATACAAATTAAAA
* *
13662355 TTTTTTAAAAATATAAATTTAAAA
1 ATTTTTAAAAATACAAA-TTAAAA
13662379 ATTTTTAAAAA
1 ATTTTTAAAAA
13662390 CTTAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
24 15 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTTAAAAATACAAATTAAAA
Found at i:13665991 original size:20 final size:20
Alignment explanation
Indices: 13665962--13666000 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13665952 ATGTTGGGGA
13665962 ACTCTGAAATTTTGACTTGT
1 ACTCTGAAATTTTGACTTGT
* *
13665982 ACTCTTAAATTTTGCCTTG
1 ACTCTGAAATTTTGACTTG
13666001 ATAGCGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
ACTCTGAAATTTTGACTTGT
Found at i:13667579 original size:2 final size:2
Alignment explanation
Indices: 13667572--13667610 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13667562 CCGGTTGTCC
13667572 AT 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 AT A
13667611 CTTGCTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13680736 original size:21 final size:21
Alignment explanation
Indices: 13680687--13680772 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 21
13680677 AATTTAATTT
*
13680687 TAATTTTGATATAA-TATAAGTA
1 TAATTTTGATA-AATTTTAA-TA
*
13680709 -AAATTTGATAAATTTTAATA
1 TAATTTTGATAAATTTTAATA
*
13680729 TAATTTTG----ATTTTGATA
1 TAATTTTGATAAATTTTAATA
* * *
13680746 AAATTTTGATAACTTTCAATA
1 TAATTTTGATAAATTTTAATA
13680767 TAATTT
1 TAATTT
13680773 CGGTAACCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
17 15 0.31
20 4 0.08
21 30 0.61
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TAATTTTGATAAATTTTAATA
Found at i:13680750 original size:17 final size:17
Alignment explanation
Indices: 13680720--13680755 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13680710 AATTTGATAA
*
13680720 ATTTTAATATAATTTTG
1 ATTTTAATAAAATTTTG
*
13680737 ATTTTGATAAAATTTTG
1 ATTTTAATAAAATTTTG
13680754 AT
1 AT
13680756 AACTTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (17 bp):
ATTTTAATAAAATTTTG
Found at i:13680814 original size:21 final size:21
Alignment explanation
Indices: 13680738--13680936 Score: 92
Period size: 21 Copynumber: 9.4 Consensus size: 21
13680728 ATAATTTTGA
* *
13680738 TTTTGATAAAATTTTGATAAC
1 TTTTGATATAATTTTGGTAAC
** *
13680759 TTTCAATATAATTTCGGTAAC
1 TTTTGATATAATTTTGGTAAC
** * *
13680780 CATTGATATGATTTTGGTAAT
1 TTTTGATATAATTTTGGTAAC
* **
13680801 TTTTGATAAAATTTTAATAAC
1 TTTTGATATAATTTTGGTAAC
* * **
13680822 CTTTGATACAATTTTAATAAC
1 TTTTGATATAATTTTGGTAAC
* **
13680843 TTATGATATAATTTTGACAAC
1 TTTTGATATAATTTTGGTAAC
** * ** *
13680864 CATTGATACAATTACGGTAAT
1 TTTTGATATAATTTTGGTAAC
* * *
13680885 TTTTTATAAAATTTTAGTAAC
1 TTTTGATATAATTTTGGTAAC
* * * *
13680906 TTTTTTATGTAATTTTAGTAATA
1 -TTTTGATATAATTTTGGTAA-C
13680929 TTTTGATA
1 TTTTGATA
13680937 GCTTATGATG
Statistics
Matches: 128, Mismatches: 48, Indels: 3
0.72 0.27 0.02
Matches are distributed among these distances:
21 104 0.81
22 24 0.19
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTTGATATAATTTTGGTAAC
Found at i:13680822 original size:42 final size:42
Alignment explanation
Indices: 13680776--13680905 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 42
13680766 ATAATTTCGG
**
13680776 TAACCATTGATATGATTTTGGTAATTTTTGATAAAATTTTAA
1 TAACCATTGATACAATTTTGGTAATTTTTGATAAAATTTTAA
* ** * * * *
13680818 TAACCTTTGATACAATTTTAATAACTTATGATATAATTTTGA
1 TAACCATTGATACAATTTTGGTAATTTTTGATAAAATTTTAA
* ** * *
13680860 CAACCATTGATACAATTACGGTAATTTTTTATAAAATTTTAG
1 TAACCATTGATACAATTTTGGTAATTTTTGATAAAATTTTAA
13680902 TAAC
1 TAAC
13680906 TTTTTTATGT
Statistics
Matches: 66, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (42 bp):
TAACCATTGATACAATTTTGGTAATTTTTGATAAAATTTTAA
Found at i:13680852 original size:84 final size:84
Alignment explanation
Indices: 13680739--13680905 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
13680729 TAATTTTGAT
* ** ** **
13680739 TTTGATAAAATTTTGATAACTTTCAATATAATTTCGGTAACCATTGATATGATTTTGGTAATTTT
1 TTTGATAAAATTTTAATAACTTTCAATATAATTTCGACAACCATTGATACAATTACGGTAATTTT
13680804 TGATAAAATTTTAATAACC
66 TGATAAAATTTTAATAACC
* * *
13680823 TTTGATACAATTTTAATAACTTAT-GATATAATTTTGACAACCATTGATACAATTACGGTAATTT
1 TTTGATAAAATTTTAATAACTT-TCAATATAATTTCGACAACCATTGATACAATTACGGTAATTT
* *
13680887 TTTATAAAATTTTAGTAAC
65 TTGATAAAATTTTAATAAC
13680906 TTTTTTATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
84 69 0.99
85 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (84 bp):
TTTGATAAAATTTTAATAACTTTCAATATAATTTCGACAACCATTGATACAATTACGGTAATTTT
TGATAAAATTTTAATAACC
Found at i:13680912 original size:22 final size:21
Alignment explanation
Indices: 13680880--13680932 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
13680870 TACAATTACG
13680880 GTAATTTTTTATAAAATTTTA
1 GTAATTTTTTATAAAATTTTA
**
13680901 GTAACTTTTTTATGTAATTTTA
1 GTAA-TTTTTTATAAAATTTTA
*
13680923 GTAATATTTT
1 GTAATTTTTT
13680933 GATAGCTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (21 bp):
GTAATTTTTTATAAAATTTTA
Found at i:13681356 original size:22 final size:22
Alignment explanation
Indices: 13681331--13681386 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
13681321 ATTAACATTT
*
13681331 ATTTACAACTAAATT-ATGACTA
1 ATTTACTACTAAATTGATGA-TA
*
13681353 ATTTACTACTAAATTGTTGATA
1 ATTTACTACTAAATTGATGATA
13681375 ATTTACTACTAA
1 ATTTACTACTAA
13681387 CTGATGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (22 bp):
ATTTACTACTAAATTGATGATA
Found at i:13681449 original size:39 final size:39
Alignment explanation
Indices: 13681378--13681452 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
13681368 GTTGATAATT
*
13681378 TACTACTAACTGATGAATCGTTACAAAGTTATAACTTGC
1 TACTACTAACTGATGAATCGTTACAAAATTATAACTTGC
* * *
13681417 TACTATTAACTGAT-AATTTGTTATAAAATTATAACT
1 TACTACTAACTGATGAA-TCGTTACAAAATTATAACT
13681453 GATTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (39 bp):
TACTACTAACTGATGAATCGTTACAAAATTATAACTTGC
Found at i:13681546 original size:22 final size:22
Alignment explanation
Indices: 13681521--13681614 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 22
13681511 ACTAATTAAC
*
13681521 ATTTACAACTAAATTATTAGTG
1 ATTTACAACTAAATTATTAATG
** * * *
13681543 ATTTATTACTAGATTATCAATA
1 ATTTACAACTAAATTATTAATG
*
13681565 ATTTATATA-TAAATTATTAATG
1 ATTTACA-ACTAAATTATTAATG
* * *
13681587 ATTTACTATTATATTATT-ATG
1 ATTTACAACTAAATTATTAATG
13681608 CATTTAC
1 -ATTTAC
13681615 TATTATGTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.07
22 51 0.91
23 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTACAACTAAATTATTAATG
Found at i:13681615 original size:22 final size:22
Alignment explanation
Indices: 13681533--13681625 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
13681523 TTACAACTAA
* * * *
13681533 ATTATTAGTGATTTATTACTAG
1 ATTATTAATGATTTACTATTAT
* * *
13681555 ATTATCAATAATTTA-TATATAA
1 ATTATTAATGATTTACTAT-TAT
13681577 ATTATTAATGATTTACTATTAT
1 ATTATTAATGATTTACTATTAT
13681599 ATTATT-ATGCATTTACTATTAT
1 ATTATTAATG-ATTTACTATTAT
*
13681621 GTTAT
1 ATTAT
13681626 CATTAATTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
21 5 0.08
22 51 0.86
23 3 0.05
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTATTAATGATTTACTATTAT
Found at i:13681634 original size:22 final size:22
Alignment explanation
Indices: 13681587--13681638 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13681577 ATTATTAATG
* *
13681587 ATTTACTATTATATTATTATGC
1 ATTTACTATTATATTATCATGA
* *
13681609 ATTTACTATTATGTTATCATTA
1 ATTTACTATTATATTATCATGA
13681631 ATTTACTA
1 ATTTACTA
13681639 CTAGTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTACTATTATATTATCATGA
Found at i:13681747 original size:43 final size:44
Alignment explanation
Indices: 13681700--13681785 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
13681690 ACCATGATTC
* *
13681700 ATTATCAAGTTATCATCGATTTA-TATTAAATTATTCATAATTT
1 ATTATCAAGTTATCATCGATTAACTATTAAATTATTAATAATTT
* *
13681743 ATTATCAAGTTATCATTGATTAACTATTAAGTTATTAATAATT
1 ATTATCAAGTTATCATCGATTAACTATTAAATTATTAATAATT
13681786 AACTACTGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 21 0.55
44 17 0.45
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (44 bp):
ATTATCAAGTTATCATCGATTAACTATTAAATTATTAATAATTT
Found at i:13681957 original size:22 final size:22
Alignment explanation
Indices: 13681709--13681980 Score: 117
Period size: 22 Copynumber: 12.3 Consensus size: 22
13681699 CATTATCAAG
**
13681709 TTATCATCGATTTA-TATTAAA
1 TTATCATTAATTTACTATTAAA
* * *
13681730 TTATTCA-TAATTTATTATCAAG
1 TTA-TCATTAATTTACTATTAAA
* * *
13681752 TTATCATTGATTAACTATTAAG
1 TTATCATTAATTTACTATTAAA
* * * *
13681774 TTATTAATAATTAACTACTGCTAAG
1 TTATCATTAATTTACTA-T--TAAA
* * *
13681799 TTAT-TTTAATTTACTTTTAAG
1 TTATCATTAATTTACTATTAAA
* * * * *
13681820 TTTTCAATGATTAACTACTAAA
1 TTATCATTAATTTACTATTAAA
* * * *
13681842 TTATTATTGATTTTCTATTAAG
1 TTATCATTAATTTACTATTAAA
* * *
13681864 TTAT--TTATGATTCAGTACTAAA
1 TTATCATTA--ATTTACTATTAAA
*
13681886 TTTATCAATTAATTT-TTATTAAA
1 -TTATC-ATTAATTTACTATTAAA
* *
13681909 TTGA-AACTAATTTACTATTAAA
1 TT-ATCATTAATTTACTATTAAA
13681931 TTATCATTAATTTACTATTAAA
1 TTATCATTAATTTACTATTAAA
* **
13681953 TTATCATTATTTTTTTATTAAA
1 TTATCATTAATTTACTATTAAA
13681975 TTATCA
1 TTATCA
13681981 ATTATTAAAA
Statistics
Matches: 188, Mismatches: 47, Indels: 31
0.71 0.18 0.12
Matches are distributed among these distances:
20 2 0.01
21 26 0.14
22 125 0.66
23 13 0.07
24 11 0.06
25 8 0.04
26 3 0.02
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATCATTAATTTACTATTAAA
Found at i:13681961 original size:11 final size:11
Alignment explanation
Indices: 13681925--13681980 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
13681915 CTAATTTACT
13681925 ATTAAATTATC
1 ATTAAATTATC
*
13681936 ATTAATTTA-C
1 ATTAAATTATC
13681946 TATTAAATTATC
1 -ATTAAATTATC
** * *
13681958 ATTATTTTTTT
1 ATTAAATTATC
13681969 ATTAAATTATC
1 ATTAAATTATC
13681980 A
1 A
13681981 ATTATTAAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAAATTATC
Found at i:13682589 original size:22 final size:23
Alignment explanation
Indices: 13682528--13682589 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
13682518 AATTATCATT
*
13682528 GATTTACAACTAAGTTATTAGTA
1 GATTTACTACTAAGTTATTAGTA
** *
13682551 -ATTTGTTATTACA-TTATTAG-A
1 GATTTACTACTA-AGTTATTAGTA
13682572 GATTTACTACTAAGTTAT
1 GATTTACTACTAAGTTAT
13682590 CAATTTATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 7
0.67 0.16 0.16
Matches are distributed among these distances:
21 2 0.07
22 26 0.90
23 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (23 bp):
GATTTACTACTAAGTTATTAGTA
Found at i:13682639 original size:22 final size:22
Alignment explanation
Indices: 13682614--13682684 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
13682604 ATTATCAATG
13682614 ATTTACTATTATATTTTTATTT
1 ATTTACTATTATATTTTTATTT
* * * *
13682636 ATTTGCTATTATATTATCATTG
1 ATTTACTATTATATTTTTATTT
* *
13682658 ATTTACTATT-TAACTTTTAATT
1 ATTTACTATTAT-ATTTTTATTT
13682680 ATTTA
1 ATTTA
13682685 TCATAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (22 bp):
ATTTACTATTATATTTTTATTT
Found at i:13682696 original size:44 final size:44
Alignment explanation
Indices: 13682602--13682706 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
13682592 ATTTATATCT
* * *
13682602 AAATTATCAATGATTTACTATTATATTTTTATTTATTTGCTATT
1 AAATTATCAATGATTTACTATTATACTTTTAATTATTTGCTATA
* * *
13682646 ATATTATCATTGATTTACTATT-TAACTTTTAATTATTT-ATCATA
1 AAATTATCAATGATTTACTATTAT-ACTTTTAATTATTTGCT-ATA
*
13682690 AAATTATCACTGATTTA
1 AAATTATCAATGATTTA
13682707 TCACTAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.04
44 49 0.96
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (44 bp):
AAATTATCAATGATTTACTATTATACTTTTAATTATTTGCTATA
Found at i:13682705 original size:22 final size:20
Alignment explanation
Indices: 13682680--13682771 Score: 60
Period size: 22 Copynumber: 4.2 Consensus size: 20
13682670 ACTTTTAATT
13682680 ATTTATCATAAAATTATCACTG
1 ATTTATCAT-AAATTATCA-TG
13682702 ATTTATCACTAAATTATCTATG
1 ATTTATCA-TAAATTATC-ATG
* * * *
13682724 ATTCATAACCAAATTATTACTG
1 ATTTATCA-TAAATTATCA-TG
*
13682746 TTTTAT-ATTAAATTATGCATG
1 ATTTATCA-TAAATTAT-CATG
13682767 ATTTA
1 ATTTA
13682772 CTATTAAGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
21 15 0.27
22 39 0.70
23 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTTATCATAAATTATCATG
Found at i:13682783 original size:22 final size:20
Alignment explanation
Indices: 13682747--13682837 Score: 69
Period size: 22 Copynumber: 4.2 Consensus size: 20
13682737 TTATTACTGT
*
13682747 TTTATATTAAATTATGCATGA
1 TTTATATTAAGTTAT-CATGA
13682768 TTTACTATTAAGTTATCATTGA
1 TTTA-TATTAAGTTATCA-TGA
* *
13682790 TTAACTATTATA-TTATCAATAA
1 TTTA-TATTA-AGTTATC-ATGA
13682812 TTTATGATTAAGTTAT-ACTGA
1 TTTAT-ATTAAGTTATCA-TGA
13682833 TTTAT
1 TTTAT
13682838 TTTTAAGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
20 1 0.02
21 15 0.26
22 40 0.69
23 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTATATTAAGTTATCATGA
Found at i:13682905 original size:22 final size:22
Alignment explanation
Indices: 13682877--13682931 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
13682867 AATTAATTAC
13682877 TATTAAATTGA-AACTAATTTAT
1 TATTAAATT-ATAACTAATTTAT
* *
13682899 TATTAAATTATTACTAATTTGT
1 TATTAAATTATAACTAATTTAT
*
13682921 TATTAAGTTAT
1 TATTAAATTAT
13682932 TATTGATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (22 bp):
TATTAAATTATAACTAATTTAT
Found at i:13682932 original size:22 final size:22
Alignment explanation
Indices: 13682889--13682953 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
13682879 TTAAATTGAA
*
13682889 ACTAATTTATTATTAAATTATT
1 ACTAATTTATTATTAAGTTATT
*
13682911 ACTAATTTGTTATTAAGTTATT
1 ACTAATTTATTATTAAGTTATT
* * *
13682933 ATTGATTTATTACTAAGTTAT
1 ACTAATTTATTATTAAGTTAT
13682954 CAATAGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (22 bp):
ACTAATTTATTATTAAGTTATT
Found at i:13682942 original size:11 final size:11
Alignment explanation
Indices: 13682891--13682944 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
13682881 AAATTGAAAC
13682891 TAATTTATTAT
1 TAATTTATTAT
* *
13682902 TAAATTATTAC
1 TAATTTATTAT
*
13682913 TAATTTGTTAT
1 TAATTTATTAT
*
13682924 TAAGTTATTAT
1 TAATTTATTAT
*
13682935 TGATTTATTA
1 TAATTTATTA
13682945 CTAAGTTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (11 bp):
TAATTTATTAT
Found at i:13682953 original size:11 final size:11
Alignment explanation
Indices: 13682889--13682953 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
13682879 TTAAATTGAA
13682889 ACTAATTTATT
1 ACTAATTTATT
* *
13682900 ATTAAATTATT
1 ACTAATTTATT
*
13682911 ACTAATTTGTT
1 ACTAATTTATT
* *
13682922 ATTAAGTTATT
1 ACTAATTTATT
* *
13682933 ATTGATTTATT
1 ACTAATTTATT
*
13682944 ACTAAGTTAT
1 ACTAATTTAT
13682954 CAATAGTTAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (11 bp):
ACTAATTTATT
Found at i:13683049 original size:44 final size:44
Alignment explanation
Indices: 13682994--13683082 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
13682984 TTTTGTTAAG
* * * *
13682994 TTATTATTGATTTAGTACTACACTGTTATGCATTTATAATTATA
1 TTATAATTGATTTACTACTAAACTATTATGCATTTATAATTATA
* * *
13683038 TTATAATTGATTTACTATTAAAGTATTATGCATTTATTATTATA
1 TTATAATTGATTTACTACTAAACTATTATGCATTTATAATTATA
13683082 T
1 T
13683083 AATTACTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.52
Consensus pattern (44 bp):
TTATAATTGATTTACTACTAAACTATTATGCATTTATAATTATA
Found at i:13683087 original size:22 final size:21
Alignment explanation
Indices: 13683019--13683083 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
13683009 TACTACACTG
*
13683019 TTATGCATTTATAATTATATTA
1 TTATGCATTTATTATTATA-TA
* * *
13683041 TAATTG-ATTTACTATTAAAGTA
1 TTA-TGCATTTATTATTATA-TA
13683063 TTATGCATTTATTATTATATA
1 TTATGCATTTATTATTATATA
13683084 ATTACTGATT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 4 0.12
22 27 0.82
23 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATGCATTTATTATTATATA
Found at i:13683170 original size:65 final size:66
Alignment explanation
Indices: 13683051--13683173 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 66
13683041 TAATTGATTT
* *
13683051 ACTATTAAAGTATTATGCATTTATTATTATATAATTACTGATTCACTAACAAGTTATCAACTATT
1 ACTATTAAAGTATTATGCATTTACTATTATATAATTACTAATTCACTAACAAGTTATCAACTATT
13683116 G
66 G
* * * *
13683117 ACTATTAAATTATTATTCA-TTACTATTA-AGTTATTACTAATTTACT-ACTAAGTTATC
1 ACTATTAAAGTATTATGCATTTACTATTATA-TAATTACTAATTCACTAAC-AAGTTATC
13683174 GATTATTACT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
64 3 0.06
65 29 0.59
66 17 0.35
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (66 bp):
ACTATTAAAGTATTATGCATTTACTATTATATAATTACTAATTCACTAACAAGTTATCAACTATT
G
Found at i:13687476 original size:21 final size:22
Alignment explanation
Indices: 13687442--13687483 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13687432 TTACGGAAAT
*
13687442 AAAATTTAATAAAAAAAAAGAG
1 AAAATTTAAGAAAAAAAAAGAG
*
13687464 AAAA-TTAAGAAAACAAAAGA
1 AAAATTTAAGAAAAAAAAAGA
13687484 AATAGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAATTTAAGAAAAAAAAAGAG
Found at i:13697009 original size:30 final size:30
Alignment explanation
Indices: 13696944--13697028 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 30
13696934 ATGTTAAAGA
* * *
13696944 CTTATTT-AAGTACAAATTAAAACTTAAAAAT
1 CTTATTTGAA-TATAAATTAAAAATT-ATAAT
13696975 -TTATTTGAATATAAATTAAAAATTATAAT
1 CTTATTTGAATATAAATTAAAAATTATAAT
*
13697004 CTTA-TTGAATGT-AA-TAAAAA-TATAA
1 CTTATTTGAATATAAATTAAAAATTATAA
13697029 AAATTTATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
26 5 0.10
27 6 0.12
28 2 0.04
29 11 0.23
30 22 0.46
31 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (30 bp):
CTTATTTGAATATAAATTAAAAATTATAAT
Found at i:13699023 original size:20 final size:21
Alignment explanation
Indices: 13698987--13699038 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
13698977 ACCCGAAATT
13698987 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
13699007 AATATAAATATTATTTTTT-A
1 AATATAAATATTATTTTTTAA
13699027 AATATAAATATT
1 AATATAAATATT
13699039 TGAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:13699977 original size:33 final size:32
Alignment explanation
Indices: 13699938--13700023 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
13699928 TTATTGATTT
*
13699938 TAAAATTATAATATTTTATTTATTATTTTAATA
1 TAAAATTATAATATTTTATTTA-AATTTTAATA
* **
13699971 TAAAATTTTAATATATTTAAATAAATTTTAATA
1 TAAAATTATAATAT-TTTATTTAAATTTTAATA
*
13700004 TAAAATTATTAT-TTTTATTT
1 TAAAATTATAATATTTTATTT
13700024 TATAAAAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 5 0.11
32 1 0.02
33 32 0.73
34 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TAAAATTATAATATTTTATTTAAATTTTAATA
Done.