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 73 of 106
Found at i:13699978 original size:20 final size:20
Alignment explanation
Indices: 13699955--13700005 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13699945 ATAATATTTT
*
13699955 ATTTATTAT-TTTAATATAAA
1 ATTTAATATATTTAA-ATAAA
13699975 ATTTTAATATATTTAAATAAA
1 A-TTTAATATATTTAAATAAA
*
13699996 TTTTAATATA
1 ATTTAATATA
13700006 AAATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAATATATTTAAATAAA
Found at i:13699980 original size:13 final size:12
Alignment explanation
Indices: 13699962--13700007 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 12
13699952 TTTATTTATT
13699962 ATTTTAATATAAA
1 ATTTTAATAT-AA
13699975 ATTTTAATAT--
1 ATTTTAATATAA
13699985 A-TTTAA-ATAA
1 ATTTTAATATAA
13699995 ATTTTAATATAA
1 ATTTTAATATAA
13700007 A
1 A
13700008 ATTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.07
9 5 0.17
10 2 0.07
11 5 0.17
12 5 0.17
13 10 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAATATAA
Found at i:13699994 original size:21 final size:21
Alignment explanation
Indices: 13699956--13700005 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
13699946 TAATATTTTA
*
13699956 TTTATTAT-TTTAATATAAAAT
1 TTTAATATATTTAATAT-AAAT
13699977 TTTAATATATTTAA-ATAAAT
1 TTTAATATATTTAATATAAAT
13699997 TTTAATATA
1 TTTAATATA
13700006 AAATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.48
21 9 0.33
22 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATATATTTAATATAAAT
Found at i:13700117 original size:11 final size:11
Alignment explanation
Indices: 13700096--13700151 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
13700086 TTATCTTATG
13700096 ATTCAAAATTTA
1 ATTC-AAATTTA
13700108 ATTCAAATTTA
1 ATTCAAATTTA
*
13700119 ATAT-ATATTTA
1 AT-TCAAATTTA
13700130 ATATCTAAATTTA
1 AT-TC-AAATTTA
13700143 ATTCAAATT
1 ATTCAAATT
13700152 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 24 0.62
12 7 0.18
13 8 0.21
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTCAAATTTA
Found at i:13700156 original size:24 final size:23
Alignment explanation
Indices: 13700096--13700156 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
13700086 TTATCTTATG
13700096 ATTCAAAATTTAAT-TCAAATTTA
1 ATTC-AAATTTAATATCAAATTTA
*
13700119 ATAT-ATATTTAATATCTAAATTTA
1 AT-TCAAATTTAATATC-AAATTTA
*
13700143 ATTCAAATTAAATA
1 ATTCAAATTTAATA
13700157 AAAAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 8 0.26
23 5 0.16
24 18 0.58
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTCAAATTTAATATCAAATTTA
Found at i:13702798 original size:2 final size:2
Alignment explanation
Indices: 13702791--13702826 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13702781 TTCTTGATCC
* *
13702791 AT AT AT AT AT AT AT AT AT AT AT TT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13702827 TCATTATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13718363 original size:40 final size:40
Alignment explanation
Indices: 13718313--13718392 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
13718303 AACAGAGCAC
* *
13718313 TTTCCATACTGAAAGTAAAAATCAACTTTATCAGCAACTA
1 TTTCAATACTGAAAGGAAAAATCAACTTTATCAGCAACTA
*
13718353 TTTCAATACTGAAAGGAAAAATGAACTTTATCAGCAACTA
1 TTTCAATACTGAAAGGAAAAATCAACTTTATCAGCAACTA
13718393 GATCTGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (40 bp):
TTTCAATACTGAAAGGAAAAATCAACTTTATCAGCAACTA
Found at i:13724443 original size:2 final size:2
Alignment explanation
Indices: 13724438--13724478 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
13724428 GCTGATTTCT
* * *
13724438 TA TA TA GA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13724479 CCTCTCTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13725645 original size:25 final size:27
Alignment explanation
Indices: 13725599--13725652 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
13725589 AGAAGTTTGA
13725599 TATAATTTTCACTCAATAAAATCCATAT
1 TATAATTTTCACT-AATAAAATCCATAT
* *
13725627 TATAATTTT-ACT-ATCAAATTCATAT
1 TATAATTTTCACTAATAAAATCCATAT
13725652 T
1 T
13725653 CACCGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
27 3 0.12
28 9 0.38
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAATTTTCACTAATAAAATCCATAT
Found at i:13730104 original size:31 final size:31
Alignment explanation
Indices: 13730066--13730127 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13730056 TTCAACTTTC
13730066 TGAAGATGGTCAATATATCCATCCAATTCAT
1 TGAAGATGGTCAATATATCCATCCAATTCAT
*
13730097 TGAAGATGGTCAATGTATCCATCCAATTCAT
1 TGAAGATGGTCAATATATCCATCCAATTCAT
13730128 GAATGAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (31 bp):
TGAAGATGGTCAATATATCCATCCAATTCAT
Found at i:13730271 original size:19 final size:19
Alignment explanation
Indices: 13730236--13730274 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13730226 TTTTCCGTCA
13730236 CTTTTTTTCTCTATATTTT
1 CTTTTTTTCTCTATATTTT
*
13730255 CTTTTATTTCT-TTTATTTT
1 CTTTT-TTTCTCTATATTTT
13730274 C
1 C
13730275 AATCTCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
CTTTTTTTCTCTATATTTT
Found at i:13743640 original size:12 final size:12
Alignment explanation
Indices: 13743623--13743647 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13743613 CTTTAAATTA
13743623 TAATATAATATT
1 TAATATAATATT
13743635 TAATATAATATT
1 TAATATAATATT
13743647 T
1 T
13743648 TAAATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATATAATATT
Found at i:13744049 original size:17 final size:18
Alignment explanation
Indices: 13744005--13744054 Score: 91
Period size: 18 Copynumber: 2.7 Consensus size: 18
13743995 CTTACTTTTG
13744005 AAATAAATAAATTTCATAA
1 AAATAAA-AAATTTCATAA
13744024 AAATAAAAAATTTCATAA
1 AAATAAAAAATTTCATAA
13744042 AAATAAAAAATTT
1 AAATAAAAAATTT
13744055 AATTGCTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAAAAATTTCATAA
Found at i:13746883 original size:2 final size:2
Alignment explanation
Indices: 13746876--13746904 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13746866 TGAATTGATA
13746876 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13746905 TTTAATTTCA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13758955 original size:2 final size:2
Alignment explanation
Indices: 13758948--13758979 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13758938 CAACAAACTC
*
13758948 AG AG AG AG AG AG AT 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
13758980 CAAATAATTA
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:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:13759372 original size:32 final size:32
Alignment explanation
Indices: 13759326--13759386 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
13759316 ATACATAAAC
* *
13759326 ATTTATAGGCATAATTTTCCTCTAATTGCAAT
1 ATTTATAGGAATAATTTTCCTCCAATTGCAAT
13759358 ATTTATAGGAATAATTTTCCTCCAATTGC
1 ATTTATAGGAATAATTTTCCTCCAATTGC
13759387 TTGCTGAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (32 bp):
ATTTATAGGAATAATTTTCCTCCAATTGCAAT
Found at i:13762674 original size:33 final size:33
Alignment explanation
Indices: 13762632--13762697 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
13762622 GTGTAAAGCA
* *
13762632 CTTTCATATCTATGTTTCTTGTAATAATTAATG
1 CTTTCATATCTATGTTTCTTGAAAAAATTAATG
*
13762665 CTTTCATATCTTTGTTTCTTGAAAAAATTAATG
1 CTTTCATATCTATGTTTCTTGAAAAAATTAATG
13762698 TCACTGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (33 bp):
CTTTCATATCTATGTTTCTTGAAAAAATTAATG
Found at i:13763531 original size:2 final size:2
Alignment explanation
Indices: 13763526--13763558 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13763516 TGTGTGTGTC
*
13763526 TA TA TA AA 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
13763559 CCGAGAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13764076 original size:2 final size:2
Alignment explanation
Indices: 13764069--13764093 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13764059 TGTTTGCGTT
13764069 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
13764094 AAGAGAGAGA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:13775455 original size:18 final size:19
Alignment explanation
Indices: 13775421--13775460 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13775411 AAAATATGAA
*
13775421 AATAATTATACATATT-AT
1 AATAATTATACAAATTAAT
*
13775439 AATAGTTATACAAATTAAT
1 AATAATTATACAAATTAAT
13775458 AAT
1 AAT
13775461 TTTAAGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
AATAATTATACAAATTAAT
Found at i:13775755 original size:22 final size:23
Alignment explanation
Indices: 13775727--13775774 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
13775717 TATTAATTTA
*
13775727 AAAATAA-AAAATTTTATAATAT
1 AAAATAATAAAATTTTAAAATAT
*
13775749 AAAATAATTATAATTTTAAAATAT
1 AAAATAA-TAAAATTTTAAAATAT
13775773 AA
1 AA
13775775 TAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATAATAAAATTTTAAAATAT
Found at i:13775777 original size:16 final size:18
Alignment explanation
Indices: 13775748--13775785 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13775738 TTTTATAATA
*
13775748 TAAAATAATTAT-AATTT
1 TAAAATAATAATAAATTT
13775765 TAAAAT-ATAATAAATTT
1 TAAAATAATAATAAATTT
13775782 TAAA
1 TAAA
13775786 TTACATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATAATAATAAATTT
Found at i:13775787 original size:24 final size:25
Alignment explanation
Indices: 13775735--13775787 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
13775725 TAAAAATAAA
*
13775735 AAATTTTATAATATAAAATAATTAT
1 AAATTTTAAAATATAAAATAATTAT
* *
13775760 -AATTTTAAAATATAATA-AATTTT
1 AAATTTTAAAATATAAAATAATTAT
13775783 AAATT
1 AAATT
13775788 ACATATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATTTTAAAATATAAAATAATTAT
Found at i:13778890 original size:3 final size:3
Alignment explanation
Indices: 13778884--13778913 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13778874 TATGATGGTG
13778884 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
13778914 ATTTTAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:13779100 original size:153 final size:153
Alignment explanation
Indices: 13778894--13779169 Score: 480
Period size: 153 Copynumber: 1.8 Consensus size: 153
13778884 GTAGTAGTAG
** * * *
13778894 TAGTAGTAGTAGTAGTAGTAATTTTAGTTCACGGTACTTAAATTATGGTGGTTGTAGTACATCCA
1 TAGTAGTAGTAGTAGTAGTAATTTTAGTTCACCATACTCAAATTACGGCGGTTGTAGTACATCCA
*
13778959 TTTGTGGAGCACCTACCTGCAATGGTTCTTTCTGCCAGAGGACAGTTAAGGGAAATGGGAGATGT
66 TTTGTGGAGCACCTACCCGCAATGGTTCTTTCTGCCAGAGGACAGTTAAGGGAAATGGGAGATGT
13779024 TTTCAGCACTTGAATTATGGTGA
131 TTTCAGCACTTGAATTATGGTGA
*
13779047 TAGTAGTAGTAGTAGTAGTAATTTTAGTTCACCATACTCATATTACGGCGGTTGTAGTACATCCA
1 TAGTAGTAGTAGTAGTAGTAATTTTAGTTCACCATACTCAAATTACGGCGGTTGTAGTACATCCA
*
13779112 TTTGTGGAGCACCTACCCGCAATGGTTCTTTCTGCCGGAGGACAGTTAAGGGAAATGG
66 TTTGTGGAGCACCTACCCGCAATGGTTCTTTCTGCCAGAGGACAGTTAAGGGAAATGG
13779170 AAGGTGTTGG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
153 115 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (153 bp):
TAGTAGTAGTAGTAGTAGTAATTTTAGTTCACCATACTCAAATTACGGCGGTTGTAGTACATCCA
TTTGTGGAGCACCTACCCGCAATGGTTCTTTCTGCCAGAGGACAGTTAAGGGAAATGGGAGATGT
TTTCAGCACTTGAATTATGGTGA
Found at i:13782536 original size:22 final size:21
Alignment explanation
Indices: 13782527--13782571 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
13782517 AATTAATCTA
13782527 AAAT-AAAAATTTATATTATT
1 AAATAAAAAATTTATATTATT
*
13782547 AAATAAAAAATTTAT-TTACT
1 AAATAAAAAATTTATATTATT
13782567 AAATA
1 AAATA
13782572 TATATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAAAAAATTTATATTATT
Found at i:13786285 original size:21 final size:21
Alignment explanation
Indices: 13786261--13786306 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13786251 ATATATTATT
*
13786261 TCATAATCAAT-TTTAATCTCA
1 TCATAAT-AATATCTAATCTCA
*
13786282 TCATAATAATATCTAATCTTA
1 TCATAATAATATCTAATCTCA
13786303 TCAT
1 TCAT
13786307 TGCAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCATAATAATATCTAATCTCA
Found at i:13795311 original size:22 final size:22
Alignment explanation
Indices: 13795274--13795323 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
13795264 ATTTAAATCA
* *
13795274 TTAAGTTTAAAATATTTTTATAT
1 TTAA-TTTAAAATATTTATAAAT
*
13795297 TTAATTTAAATTATTTATAAAT
1 TTAATTTAAAATATTTATAAAT
13795319 TTAAT
1 TTAAT
13795324 CAAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATTTAAAATATTTATAAAT
Found at i:13795338 original size:18 final size:17
Alignment explanation
Indices: 13795287--13795357 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 17
13795277 AGTTTAAAAT
13795287 ATTTTTATATTTAATTTAA
1 ATTTTTATATTTAA--TAA
13795306 ATTATTTATAAATTTAATCAA
1 ATT-TTTAT--ATTTAAT-AA
*
13795327 ATTTTTATATTTTAATAT
1 ATTTTTATA-TTTAATAA
13795345 ATTTTTATTATTT
1 ATTTTTA-TATTT
13795358 TAATTAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
18 12 0.27
19 11 0.24
20 11 0.24
21 5 0.11
22 6 0.13
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTATATTTAATAA
Found at i:13795342 original size:19 final size:18
Alignment explanation
Indices: 13795287--13795361 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 18
13795277 AGTTTAAAAT
13795287 ATTTTTATA-TTTAATTTAA
1 ATTTTTATATTTTAA--TAA
*
13795306 ATTATTTATAAATTTAATCAA
1 ATT-TTTAT-ATTTTAAT-AA
*
13795327 ATTTTTATATTTTAATAT
1 ATTTTTATATTTTAATAA
13795345 ATTTTTATTATTTTAAT
1 ATTTTTA-TATTTTAAT
13795362 TAATAAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
18 8 0.16
19 19 0.39
20 11 0.22
21 6 0.12
22 5 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATATTTTAATAA
Found at i:13810431 original size:2 final size:2
Alignment explanation
Indices: 13810419--13810462 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
13810409 CTCCTTGAAG
* *
13810419 CT CT C- CT CT CT CT GT CC CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13810460 CT C
1 CT C
13810463 GTCTATCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.52, G:0.02, T:0.45
Consensus pattern (2 bp):
CT
Found at i:13812861 original size:8 final size:9
Alignment explanation
Indices: 13812838--13812867 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13812828 TATTTTAAAA
13812838 ATATTTTTT
1 ATATTTTTT
13812847 ATATTTTTT
1 ATATTTTTT
13812856 AT-TTTTTT
1 ATATTTTTT
13812864 ATAT
1 ATAT
13812868 ACATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
ATATTTTTT
Found at i:13818171 original size:2 final size:2
Alignment explanation
Indices: 13818166--13818195 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13818156 TAATTAACCC
*
13818166 AT AT AT AT TT 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
13818196 GAATCACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13818674 original size:23 final size:23
Alignment explanation
Indices: 13818648--13818691 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13818638 TTATTCTTTT
*
13818648 AAGATTGTAAAAG-TTACAAGCAA
1 AAGATAGTAAAAGCTTA-AAGCAA
13818671 AAGATAGTAAAAGCTTAAAGC
1 AAGATAGTAAAAGCTTAAAGC
13818692 TATTAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.20
Consensus pattern (23 bp):
AAGATAGTAAAAGCTTAAAGCAA
Found at i:13824269 original size:18 final size:17
Alignment explanation
Indices: 13824248--13824292 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
13824238 ATTTTAAAGT
*
13824248 AAATTAATATTTTATTTG
1 AAATAAATA-TTTATTTG
*
13824266 AAATAAATATTTATTTT
1 AAATAAATATTTATTTG
13824283 AATATAAATA
1 AA-ATAAATA
13824293 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATAAATATTTATTTG
Found at i:13824324 original size:29 final size:29
Alignment explanation
Indices: 13824266--13824349 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
13824256 ATTTTATTTG
* * *
13824266 AAATAAATATTTATTTTAATATAAATAAA
1 AAATAAAAAATTATTTAAATATAAATAAA
13824295 AAATAAAAAATTATTTAAATATAACA-AAA
1 AAATAAAAAATTATTTAAATATAA-ATAAA
* * *
13824324 ATATAAAAAAATATTATAAACATAAA
1 AAATAAAAAATTATT-TAAATATAAA
13824350 ATAATTCAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 38 0.81
30 9 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATAAAAAATTATTTAAATATAAATAAA
Found at i:13848366 original size:19 final size:19
Alignment explanation
Indices: 13848317--13848366 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13848307 AATACGACAT
* *
13848317 GACACGATTAGTATGATTA
1 GACACGATTAATACGATTA
* *
13848336 GACATGAATAATACGATTA
1 GACACGATTAATACGATTA
13848355 GACACGATTAAT
1 GACACGATTAAT
13848367 CTATTTAACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (19 bp):
GACACGATTAATACGATTA
Found at i:13852062 original size:14 final size:14
Alignment explanation
Indices: 13852045--13852085 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
13852035 AAAATATGAA
13852045 TATAATAATTTTTT
1 TATAATAATTTTTT
13852059 TATAA-AATTTTTT
1 TATAATAATTTTTT
*
13852072 T-TAAT-TTTTTTT
1 TATAATAATTTTTT
13852084 TA
1 TA
13852086 ATTTTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATAATAATTTTTT
Found at i:13852063 original size:11 final size:11
Alignment explanation
Indices: 13852049--13852090 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
13852039 TATGAATATA
13852049 ATAATTTTTTT
1 ATAATTTTTTT
13852060 ATAAAATTTTTTT
1 AT--AATTTTTTT
13852073 -TAATTTTTTT
1 ATAATTTTTTT
*
13852083 TTAATTTT
1 ATAATTTT
13852091 GTTTTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.32
11 9 0.32
12 1 0.04
13 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:13857831 original size:102 final size:103
Alignment explanation
Indices: 13857653--13857868 Score: 380
Period size: 102 Copynumber: 2.1 Consensus size: 103
13857643 CATCTGGCAG
*
13857653 AAACCAAATCAAAGATCAGCTCTCCCTGGATATATCTCCGGAAAGGAATAACATCTCTAATGTTA
1 AAACCAAATCAAAGATCAGCTCTCCCTGGA-ATATCTCCGGAAAGGAATAACATCTCTAATATTA
13857718 ACAACGCCAGTGGCAAATAGAATCATTCGTTCAAAGCCT
65 ACAACGCCAGTGGCAAATAGAATCATTCGTTCAAAGCCT
* *
13857757 AAACCAAATCAAAGATCAGCTCTCCCTGG-ATATCTCGGGAAAGGAATAACATCTCTAATATTAT
1 AAACCAAATCAAAGATCAGCTCTCCCTGGAATATCTCCGGAAAGGAATAACATCTCTAATATTAA
*
13857821 CAATGCCAGTGGCAAATAGAATCATTCGTTCAAAGCCT
66 CAACGCCAGTGGCAAATAGAATCATTCGTTCAAAGCCT
13857859 AAACCAAATC
1 AAACCAAATC
13857869 CACAATGTTT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
102 79 0.73
104 29 0.27
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (103 bp):
AAACCAAATCAAAGATCAGCTCTCCCTGGAATATCTCCGGAAAGGAATAACATCTCTAATATTAA
CAACGCCAGTGGCAAATAGAATCATTCGTTCAAAGCCT
Found at i:13860866 original size:26 final size:27
Alignment explanation
Indices: 13860827--13860878 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
13860817 AATTAAAAAC
13860827 ATTTTTTCATATTTTA-ATTTATTTTT
1 ATTTTTTCATATTTTATATTTATTTTT
*
13860853 ATTTTTT-ATAATTTTATTTTTATTTT
1 ATTTTTTCAT-ATTTTATATTTATTTT
13860879 CAATTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 2 0.09
26 13 0.57
27 8 0.35
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (27 bp):
ATTTTTTCATATTTTATATTTATTTTT
Found at i:13861955 original size:17 final size:17
Alignment explanation
Indices: 13861933--13861966 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13861923 TATGTAGTTG
13861933 AACAAGGCAAGAATCCT
1 AACAAGGCAAGAATCCT
13861950 AACAAGGCAAGAATCCT
1 AACAAGGCAAGAATCCT
13861967 GTTGAAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (17 bp):
AACAAGGCAAGAATCCT
Found at i:13863623 original size:50 final size:50
Alignment explanation
Indices: 13863554--13863653 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
13863544 TCCTCCATTC
* * *
13863554 AATCTCGTGATGCCCTCGTCATAGAAGTTGACCATCTTGCCTACCTCCCT
1 AATCTAGTGATGCCCTCGTCACAGAAGTTGACCACCTTGCCTACCTCCCT
* *
13863604 AATCTAGTGATGCCTTCGTCACAGAAGTTGGCCACCTTGCCTACCTCCCT
1 AATCTAGTGATGCCCTCGTCACAGAAGTTGACCACCTTGCCTACCTCCCT
13863654 CGAGGGGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (50 bp):
AATCTAGTGATGCCCTCGTCACAGAAGTTGACCACCTTGCCTACCTCCCT
Found at i:13864063 original size:21 final size:20
Alignment explanation
Indices: 13864037--13864080 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13864027 ATATTATTTT
13864037 TAAAATATATAAATAAAAAAA
1 TAAAATA-ATAAATAAAAAAA
* *
13864058 TAAAATAATTAATTAAAAAA
1 TAAAATAATAAATAAAAAAA
13864078 TAA
1 TAA
13864081 TTTTATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATAATAAATAAAAAAA
Found at i:13865913 original size:14 final size:13
Alignment explanation
Indices: 13865888--13865912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13865878 ACGCTTAAGG
13865888 AAAAAAATCCCCA
1 AAAAAAATCCCCA
13865901 AAAAAAATCCCC
1 AAAAAAATCCCC
13865913 CTCCCACCCT
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:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAATCCCCA
Found at i:13870734 original size:6 final size:6
Alignment explanation
Indices: 13870723--13870817 Score: 84
Period size: 6 Copynumber: 15.3 Consensus size: 6
13870713 TTCAATTGAC
* **
13870723 TTTTAT TTTTAT TTTTAT TTTTAT TATTTGT CTATTTAT TAATAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT -T-TTTAT TTTTAT TTTTAT
* * **
13870774 TTTTAT TTTTAT TTTT-T ATCTAT TAATAT TTTTAT TATTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TT
13870818 GCTTTTATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
5 3 0.04
6 52 0.72
7 11 0.15
8 6 0.08
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:13870780 original size:39 final size:35
Alignment explanation
Indices: 13870726--13870887 Score: 143
Period size: 35 Copynumber: 4.4 Consensus size: 35
13870716 AATTGACTTT
*
13870726 TATTTTTATTTTTATTTTTATTATTTGTCTATTTATTAA
1 TATTTTTATTTTTATTTTTA-T-TTT-T-TATCTATTAA
13870765 TATTTTTATTTTTATTTTTATTTTTTATCTATTAA
1 TATTTTTATTTTTATTTTTATTTTTTATCTATTAA
*
13870800 TATTTTTATTATTTATTTGCTTTTATTATTTATCTATT--
1 TATTTTTATT-TTTA--T--TTTTATTTTTTATCTATTAA
* *
13870838 T-CTTTTATTTATCTAATTATTT-TTTGTTATCTATTAA
1 TATTTTTATTT-T-T-ATT-TTTATTTTTTATCTATTAA
13870875 TATTTTTATTTTT
1 TATTTTTATTTTT
13870888 TTTATTTTGA
Statistics
Matches: 105, Mismatches: 6, Indels: 27
0.76 0.04 0.20
Matches are distributed among these distances:
35 31 0.30
36 10 0.10
37 14 0.13
38 12 0.11
39 21 0.20
40 17 0.16
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (35 bp):
TATTTTTATTTTTATTTTTATTTTTTATCTATTAA
Found at i:13870837 original size:21 final size:20
Alignment explanation
Indices: 13870741--13870846 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
13870731 TTATTTTTAT
* *
13870741 TTTTATTATTTGTCTATTTA
1 TTTTATTATTTATCTATTTC
* *
13870761 TTAATATT-TTTAT-T-TTTAT
1 TT-TTATTATTTATCTATTT-C
* **
13870780 TTTTATTTTTTATCTATTAA
1 TTTTATTATTTATCTATTTC
*
13870800 TATTT-TTA-TTATTTATTTGC
1 T-TTTATTATTTATCTATTT-C
13870820 TTTTATTATTTATCTATTTC
1 TTTTATTATTTATCTATTTC
13870840 TTTTATT
1 TTTTATT
13870847 TATCTAATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
18 7 0.11
19 19 0.29
20 22 0.33
21 18 0.27
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTATTTATCTATTTC
Found at i:13870858 original size:21 final size:21
Alignment explanation
Indices: 13870804--13870859 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
13870794 TATTAATATT
*
13870804 TTTATTATTTATTTGCTTTTA
1 TTTATTAATTATTTGCTTTTA
*
13870825 -TTATTTATCTATTT-CTTTTA
1 TTTATTAAT-TATTTGCTTTTA
13870845 TTTATCTAATTATTT
1 TTTAT-TAATTATTT
13870860 TTTGTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 12 0.41
21 14 0.48
22 3 0.10
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTATTAATTATTTGCTTTTA
Found at i:13870875 original size:21 final size:20
Alignment explanation
Indices: 13870834--13870881 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
13870824 ATTATTTATC
* *
13870834 TATTTCTTTTATTTATCTAA
1 TATTTTTTTTATCTATCTAA
13870854 TTATTTTTTGTTATCTAT-TAA
1 -TATTTTTT-TTATCTATCTAA
13870875 TATTTTT
1 TATTTTT
13870882 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 10 0.42
22 7 0.29
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTTTTTATCTATCTAA
Found at i:13871820 original size:25 final size:25
Alignment explanation
Indices: 13871758--13871820 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
13871748 TTAATTATCT
*
13871758 AATGATAAAATTTATAAAAATTTTA
1 AATGATAAATTTTATAAAAATTTTA
13871783 AATGA-AAATTTT-TATAAAATTCTTA
1 AATGATAAATTTTATA-AAAATT-TTA
**
13871808 GGTGATAAATTTT
1 AATGATAAATTTT
13871821 GTCTAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 11 0.34
26 7 0.22
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
AATGATAAATTTTATAAAAATTTTA
Found at i:13884950 original size:11 final size:12
Alignment explanation
Indices: 13884929--13884960 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13884919 ATAAGAATTA
13884929 AAAAT-AAAAAT
1 AAAATAAAAAAT
13884940 -AAATAAAAAAT
1 AAAATAAAAAAT
13884951 AAAATAAAAA
1 AAAATAAAAA
13884961 CCTCAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.21
11 6 0.32
12 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:13893832 original size:11 final size:11
Alignment explanation
Indices: 13893816--13893859 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
13893806 ATACGATAAT
13893816 ATAATATAAAA
1 ATAATATAAAA
13893827 ATAATATAAATAA
1 ATAATAT-AA-AA
*
13893840 AAAATATAAAA
1 ATAATATAAAA
*
13893851 ATGATATAA
1 ATAATATAA
13893860 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 16 0.57
12 4 0.14
13 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:13893845 original size:16 final size:16
Alignment explanation
Indices: 13893811--13893842 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13893801 ATATGATACG
13893811 ATAATATAATATAAAA
1 ATAATATAATATAAAA
13893827 ATAATATAA-ATAAAA
1 ATAATATAATATAAAA
13893842 A
1 A
13893843 ATATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATATAATATAAAA
Found at i:13894543 original size:21 final size:21
Alignment explanation
Indices: 13894519--13894559 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13894509 ATTATTTTGA
*
13894519 TTAA-TTAAAATTAATATATTT
1 TTAATTTAAAAAT-ATATATTT
13894540 TTAATTTAAAAATATATATT
1 TTAATTTAAAAATATATATT
13894560 AATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATTTAAAAATATATATTT
Found at i:13895697 original size:15 final size:16
Alignment explanation
Indices: 13895677--13895713 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13895667 TGATACATCA
13895677 TTAAATA-ATTTAATT
1 TTAAATATATTTAATT
*
13895692 TTAAATATATTTATTT
1 TTAAATATATTTAATT
13895708 TTAAAT
1 TTAAAT
13895714 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAATATATTTAATT
Found at i:13902302 original size:21 final size:21
Alignment explanation
Indices: 13902264--13902303 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13902254 AATATACAAT
* *
13902264 AAAATGAATATATATTTTGTA
1 AAAATGAAAAGATATTTTGTA
*
13902285 AAAATGAAAAGATTTTTTG
1 AAAATGAAAAGATATTTTG
13902304 GATGTGTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAATGAAAAGATATTTTGTA
Found at i:13902490 original size:13 final size:14
Alignment explanation
Indices: 13902463--13902492 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13902453 AAATTTAAAT
13902463 TTTATTAATAATTA
1 TTTATTAATAATTA
13902477 TTTATTAA-AATTA
1 TTTATTAATAATTA
13902490 TTT
1 TTT
13902493 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTAATAATTA
Found at i:13902494 original size:14 final size:15
Alignment explanation
Indices: 13902461--13902494 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
13902451 TTAAATTTAA
13902461 ATTTTATTAATAATT
1 ATTTTATTAATAATT
13902476 A-TTTATTAA-AATT
1 ATTTTATTAATAATT
13902489 ATTTTA
1 ATTTTA
13902495 AATATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTATTAATAATT
Found at i:13902519 original size:41 final size:40
Alignment explanation
Indices: 13902431--13902520 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 40
13902421 GATTAAATTT
*
13902431 ATATTT-TTTAATAAAAAATTTTAAATTTAAATTTTATTA
1 ATATTTATTTAATAAAAAATTTTAAATATAAATTTTATTA
* * *
13902470 ATAATTATTTATTAAAATTATTTTAAATATATAA-TTTA-TA
1 ATATTTATTTAATAAAA-AATTTTAAATATA-AATTTTATTA
13902510 ATTATTTATTT
1 A-TATTTATTT
13902521 TAAATTATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
39 5 0.12
40 12 0.29
41 23 0.55
42 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
ATATTTATTTAATAAAAAATTTTAAATATAAATTTTATTA
Found at i:13902526 original size:14 final size:14
Alignment explanation
Indices: 13902487--13902528 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
13902477 TTTATTAAAA
13902487 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
* *
13902500 ATAATTTATAATTAT
1 TTATTTTA-AATTAT
13902515 TTATTTTAAATTAT
1 TTATTTTAAATTAT
13902529 CAAATATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:13902543 original size:28 final size:29
Alignment explanation
Indices: 13902487--13902550 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
13902477 TTTATTAAAA
*
13902487 TTATTTTAAATATATAATTTATAATTA-T
1 TTATTTTAAATATATAATATATAATTATT
*
13902515 TTATTTTAAAT-TATCAA-ATATGATATATT
1 TTATTTTAAATATAT-AATATATAAT-TATT
13902544 TTATTTT
1 TTATTTT
13902551 GATTTAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 8 0.26
28 15 0.48
29 8 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TTATTTTAAATATATAATATATAATTATT
Found at i:13903097 original size:19 final size:21
Alignment explanation
Indices: 13903056--13903100 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
13903046 GACGCTTCAT
*
13903056 TTTTTTTTTTGCTTTTCATTTC
1 TTTTTTTTTT-CTTTTCAATTC
13903078 TTTTTTTTTT-TTTT-AATTC
1 TTTTTTTTTTCTTTTCAATTC
13903097 TTTT
1 TTTT
13903101 CTATTACTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
22 10 0.45
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTCTTTTCAATTC
Found at i:13904506 original size:19 final size:22
Alignment explanation
Indices: 13904468--13904509 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
13904458 TTATAGATAC
13904468 ATTTTAAACATATAATTTTTAT
1 ATTTTAAACATATAATTTTTAT
13904490 ATTTTAAA-AT-T-ATTTTTAT
1 ATTTTAAACATATAATTTTTAT
13904509 A
1 A
13904510 AATTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 2 0.10
22 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAACATATAATTTTTAT
Found at i:13904671 original size:15 final size:15
Alignment explanation
Indices: 13904651--13904681 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13904641 TCATCTTCTA
13904651 TTTTCTTAAAAGACT
1 TTTTCTTAAAAGACT
13904666 TTTTCTTAAAAGACT
1 TTTTCTTAAAAGACT
13904681 T
1 T
13904682 GATGCATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTTCTTAAAAGACT
Found at i:13907712 original size:14 final size:14
Alignment explanation
Indices: 13907695--13907725 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13907685 ATTATTTATT
*
13907695 TTTATATAATATAA
1 TTTATATAATAAAA
13907709 TTTATATAATAAAA
1 TTTATATAATAAAA
13907723 TTT
1 TTT
13907726 TGATCAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTATATAATAAAA
Found at i:13908299 original size:16 final size:16
Alignment explanation
Indices: 13908249--13908301 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
13908239 TGTTAATTAT
* *
13908249 ATATATTTATATAATA
1 ATATATTTAAAAAATA
*
13908265 ATAT-TTTAAAATAT-
1 ATATATTTAAAAAATA
*
13908279 TTATATTTAAAAAATA
1 ATATATTTAAAAAATA
13908295 ATATATT
1 ATATATT
13908302 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 16 0.55
16 10 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTTAAAAAATA
Found at i:13908305 original size:21 final size:20
Alignment explanation
Indices: 13908274--13908325 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
13908264 AATATTTTAA
13908274 AATATTTATATTTAAAAAAT
1 AATATTTATATTTAAAAAAT
*
13908294 AATATATTATATTTTAAAAAT
1 AATAT-TTATATTTAAAAAAT
13908315 AATATTT-TATT
1 AATATTTATATT
13908326 AATTTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 19 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:13908898 original size:23 final size:23
Alignment explanation
Indices: 13908837--13908898 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
13908827 ATTCAAAAAT
*
13908837 AAAA-AAT-AAATTAAA-ATTTA
1 AAAATAATAAAATTAAATTTTTA
* *
13908857 AAATTATTAAATATT-AATTTTTA
1 AAAATAATAAA-ATTAAATTTTTA
13908880 AAAATAATAAAATTAAATT
1 AAAATAATAAAATTAAATT
13908899 CAGCTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.09
21 2 0.06
22 7 0.22
23 20 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAATAAAATTAAATTTTTA
Found at i:13911152 original size:2 final size:2
Alignment explanation
Indices: 13911145--13911170 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13911135 GCTCAAACAA
13911145 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
13911171 GTGCTGGAGG
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:13911728 original size:15 final size:16
Alignment explanation
Indices: 13911708--13911742 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
13911698 TACCAAGCCG
13911708 AGGTAA-CAAGCTCCA
1 AGGTAAGCAAGCTCCA
13911723 AGGTAAGTCAAGCTCCA
1 AGGTAAG-CAAGCTCCA
13911740 AGG
1 AGG
13911743 AGAGTCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (16 bp):
AGGTAAGCAAGCTCCA
Found at i:13915708 original size:3 final size:3
Alignment explanation
Indices: 13915700--13915724 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13915690 ATTTAATCCT
13915700 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13915725 ATTTCTAGAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13919313 original size:25 final size:25
Alignment explanation
Indices: 13919263--13919315 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
13919253 AAGTTGAAAT
*
13919263 AGAAAAGAAAAGGGCGAACAAAAAA
1 AGAAAAGAAAAGGGAGAACAAAAAA
*
13919288 AGAAAAGAAACAGGGAGAAAATAAAAA
1 AGAAAAGAAA-AGGGAGAACA-AAAAA
13919315 A
1 A
13919316 CAATTTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
26 8 0.33
27 6 0.25
ACGTcount: A:0.70, C:0.06, G:0.23, T:0.02
Consensus pattern (25 bp):
AGAAAAGAAAAGGGAGAACAAAAAA
Found at i:13924908 original size:127 final size:127
Alignment explanation
Indices: 13924682--13924925 Score: 452
Period size: 127 Copynumber: 1.9 Consensus size: 127
13924672 ATGGATATCA
*
13924682 TTGACAACATTGGGATCTAAATGCACGGTATTTTTAGCATAAAATCCCCTGTATCCTCCCTGCAT
1 TTGACAACATTGGGATCTAAATGCACGGTATTTTTAGCATAAAATCCCCTGTATCCTCCCTGCAA
*
13924747 ATGCATTAAACTCATTAATCGCTAATGCACCAACTTATTAAATGATGGATATAATATATATT
66 ATGCATTAAACTCATTAATCGCTAATGCACCAACTTATTAAATGATGAATATAATATATATT
* *
13924809 TTGACAACCTTGGGATCTAAATGCACGGTTTTTTTAGCATAAAATCCCCTGTATCCTCCCTGCAA
1 TTGACAACATTGGGATCTAAATGCACGGTATTTTTAGCATAAAATCCCCTGTATCCTCCCTGCAA
13924874 ATGCATTAAACTCATTAATCGCTAATGCACCAACTTATTAAATGATGAATAT
66 ATGCATTAAACTCATTAATCGCTAATGCACCAACTTATTAAATGATGAATAT
13924926 CTATATTGCA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 113 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (127 bp):
TTGACAACATTGGGATCTAAATGCACGGTATTTTTAGCATAAAATCCCCTGTATCCTCCCTGCAA
ATGCATTAAACTCATTAATCGCTAATGCACCAACTTATTAAATGATGAATATAATATATATT
Found at i:13927089 original size:13 final size:13
Alignment explanation
Indices: 13927067--13927097 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13927057 TTAATTGAGA
*
13927067 TAAATTTATATAT
1 TAAATATATATAT
13927080 TAAATATATATAT
1 TAAATATATATAT
13927093 TAAAT
1 TAAAT
13927098 TCGAATTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATATATATAT
Found at i:13941474 original size:18 final size:19
Alignment explanation
Indices: 13941435--13941474 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
13941425 ATTAAAGCTT
13941435 CTTT-TTCTCTTCATTTTG
1 CTTTATTCTCTTCATTTTG
*
13941453 -TTTATTCT-TTCCTTTTG
1 CTTTATTCTCTTCATTTTG
13941470 CTTTA
1 CTTTA
13941475 GTTCAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTTATTCTCTTCATTTTG
Found at i:13942890 original size:2 final size:2
Alignment explanation
Indices: 13942883--13942915 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13942873 AGGGTTGCTT
13942883 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
13942916 TGAAACTATC
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:13946279 original size:2 final size:2
Alignment explanation
Indices: 13946261--13946298 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
13946251 TTTCATCATC
*
13946261 TA TA T- TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13946299 TCCACAGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:13950713 original size:8 final size:8
Alignment explanation
Indices: 13950700--13950732 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13950690 CCATTTGTGA
13950700 AAAATAAT
1 AAAATAAT
13950708 AAAATAAT
1 AAAATAAT
13950716 AAAATAA-
1 AAAATAAT
13950723 AAAAT-AT
1 AAAATAAT
13950730 AAA
1 AAA
13950733 TCTTGGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.04
7 8 0.33
8 15 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:13951949 original size:17 final size:17
Alignment explanation
Indices: 13951923--13951960 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13951913 ATTGATTTTC
13951923 AAAAAGTATTATTTAAA
1 AAAAAGTATTATTTAAA
* *
13951940 AAAAATTATTTTTTAAA
1 AAAAAGTATTATTTAAA
13951957 AAAA
1 AAAA
13951961 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAAAAGTATTATTTAAA
Found at i:13951993 original size:26 final size:23
Alignment explanation
Indices: 13951939--13951984 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13951929 TATTATTTAA
*
13951939 AAAAAATTATTTTTTAAAAAAAT
1 AAAAAATTATTATTTAAAAAAAT
*
13951962 AAAAAATTATTATTTAAATAAAT
1 AAAAAATTATTATTTAAAAAAAT
13951985 TAATGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAATTATTATTTAAAAAAAT
Found at i:13952451 original size:18 final size:17
Alignment explanation
Indices: 13952425--13952483 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
13952415 AATAAAATTC
13952425 AAATGTATAATAAGAAA
1 AAATGTATAATAAGAAA
13952442 AAATGTTATAATAAGAACA
1 AAATG-TATAATAAGAA-A
**
13952461 CATAACATATAATAAGAAA
1 -A-AATGTATAATAAGAAA
13952480 AAAT
1 AAAT
13952484 ATTTGATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.20
18 12 0.34
19 2 0.06
20 12 0.34
21 2 0.06
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (17 bp):
AAATGTATAATAAGAAA
Found at i:13952576 original size:9 final size:9
Alignment explanation
Indices: 13952549--13952582 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
13952539 TAAAAATCTT
13952549 TTTTATATA
1 TTTTATATA
13952558 TTATTAATATA
1 TT-TT-ATATA
13952569 TTTTATATA
1 TTTTATATA
13952578 TTTTA
1 TTTTA
13952583 AGAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:13952606 original size:16 final size:15
Alignment explanation
Indices: 13952576--13952614 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
13952566 ATATTTTATA
13952576 TATTTTA-AGAAAAAT
1 TATTTTATA-AAAAAT
13952591 TATTATTATAAAAAAT
1 TATT-TTATAAAAAAT
13952607 TATTTTAT
1 TATTTTAT
13952615 GTAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 13 0.59
17 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTTTATAAAAAAT
Found at i:13952925 original size:13 final size:14
Alignment explanation
Indices: 13952896--13952930 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
13952886 AATATTCAAG
*
13952896 AATAATTATATTTT
1 AATAATAATATTTT
13952910 AATAATAATA-TTT
1 AATAATAATATTTT
13952923 AATAATAA
1 AATAATAA
13952931 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:13952962 original size:32 final size:33
Alignment explanation
Indices: 13952899--13952964 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
13952889 ATTCAAGAAT
* *
13952899 AATTATATTTTAATAATAATATTTAATAATAAAA
1 AATTATA-TTTAATAAAAATACTTAATAATAAAA
13952933 AATTATA-TTAATAAAAAATACTTAA-AATAAAA
1 AATTATATTTAAT-AAAAATACTTAATAATAAAA
13952965 CTATTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 12 0.41
33 10 0.34
34 7 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (33 bp):
AATTATATTTAATAAAAATACTTAATAATAAAA
Found at i:13953041 original size:17 final size:18
Alignment explanation
Indices: 13953000--13953042 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
13952990 TTTCAAATAT
*
13953000 TTAAAATATTATTACTTTC
1 TTAAAATATTATTA-TTTA
13953019 TTAAAATATTATT-TTTA
1 TTAAAATATTATTATTTA
13953036 TTAAAAT
1 TTAAAAT
13953043 TAAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
19 13 0.57
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATATTATTATTTA
Found at i:13953319 original size:42 final size:45
Alignment explanation
Indices: 13953226--13953329 Score: 137
Period size: 40 Copynumber: 2.4 Consensus size: 45
13953216 TCATATTAAG
13953226 AAAATATTATTATTATATTATTTAACTTTAATTATTAAAATAATA
1 AAAATATTATTATTATATTATTTAACTTTAATTATTAAAATAATA
*
13953271 AAAATATTATTA-TATGTTA-TT-AC-TT-ATTATTAAAATAATA
1 AAAATATTATTATTATATTATTTAACTTTAATTATTAAAATAATA
13953311 ATATAATATTATTTATTAT
1 A-A-AATATTA-TTATTAT
13953330 TGAAATACTA
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
40 16 0.30
41 3 0.06
42 9 0.17
43 5 0.09
44 9 0.17
45 12 0.22
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (45 bp):
AAAATATTATTATTATATTATTTAACTTTAATTATTAAAATAATA
Found at i:13954344 original size:2 final size:2
Alignment explanation
Indices: 13954337--13954369 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13954327 ACGCGTCTTT
13954337 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
13954370 TTAAAATCAT
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:13959595 original size:57 final size:57
Alignment explanation
Indices: 13959507--13959618 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
13959497 ATTTAAAAGA
13959507 TCACAATCAATGCTCGTTAATCCTAGCTGGATGTCGGTCTATGATCTTTTGCTGCCG
1 TCACAATCAATGCTCGTTAATCCTAGCTGGATGTCGGTCTATGATCTTTTGCTGCCG
13959564 TCACAATCAATGCTCGTTAATCCTAGCTGGATGTCGGTCTATGATCTTTTGCTGC
1 TCACAATCAATGCTCGTTAATCCTAGCTGGATGTCGGTCTATGATCTTTTGCTGC
13959619 TTCTTTCTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (57 bp):
TCACAATCAATGCTCGTTAATCCTAGCTGGATGTCGGTCTATGATCTTTTGCTGCCG
Found at i:13972064 original size:2 final size:2
Alignment explanation
Indices: 13972057--13972081 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13972047 TGAAGGAATA
13972057 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 A
13972082 GATTTATAGA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13978603 original size:21 final size:22
Alignment explanation
Indices: 13978577--13978624 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
13978567 TAATTTTTTA
13978577 TTTATATTTT-AAAAATAATAT
1 TTTATATTTTAAAAAATAATAT
13978598 TTTATATTTTAAAAAATAATAT
1 TTTATATTTTAAAAAATAATAT
13978620 TTTAT
1 TTTAT
13978625 CAATTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTATATTTTAAAAAATAATAT
Found at i:13979216 original size:22 final size:23
Alignment explanation
Indices: 13979173--13979217 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13979163 ATAATTTTAA
*
13979173 AATATATAAAAAAAAGAAAATTT
1 AATATATAAAAAAAACAAAATTT
*
13979196 AATAT-TAAAAAAAACATAATTT
1 AATATATAAAAAAAACAAAATTT
13979218 TGAGATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
AATATATAAAAAAAACAAAATTT
Found at i:14003243 original size:2 final size:2
Alignment explanation
Indices: 14003236--14003261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14003226 ATTGTACATA
14003236 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
14003262 TCAAATTCAG
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:14010762 original size:14 final size:14
Alignment explanation
Indices: 14010743--14010790 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
14010733 TATATAAAGT
14010743 TTAAAATTTTATAA
1 TTAAAATTTTATAA
14010757 TTAAAATATTT-TAA
1 TTAAAAT-TTTATAA
*
14010771 -AAAAATTTTATAA
1 TTAAAATTTTATAA
14010784 TTAAAAT
1 TTAAAAT
14010791 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 8 0.28
14 15 0.52
15 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAAATTTTATAA
Found at i:14010769 original size:16 final size:16
Alignment explanation
Indices: 14010748--14010796 Score: 63
Period size: 12 Copynumber: 3.4 Consensus size: 16
14010738 AAAGTTTAAA
14010748 ATTTTATAATTAAAAT
1 ATTTTATAATTAAAAT
14010764 A-TTT-TAA--AAAA-
1 ATTTTATAATTAAAAT
14010775 ATTTTATAATTAAAAT
1 ATTTTATAATTAAAAT
14010791 ATTTTA
1 ATTTTA
14010797 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 1 0.04
12 7 0.25
13 3 0.11
14 3 0.11
15 7 0.25
16 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTATAATTAAAAT
Found at i:14010799 original size:26 final size:27
Alignment explanation
Indices: 14010745--14010806 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
14010735 TATAAAGTTT
14010745 AAAATTTTATAATTAAAATATTTTAAA
1 AAAATTTTATAATTAAAATATTTTAAA
14010772 AAAATTTTATAATTAAAATATTTTAAA
1 AAAATTTTATAATTAAAATATTTTAAA
*
14010799 AAATTTTT
1 AAAATTTT
14010807 TATCAGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATTTTATAATTAAAATATTTTAAA
Found at i:14017822 original size:12 final size:12
Alignment explanation
Indices: 14017807--14017831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14017797 ATTTATTTAA
14017807 TATAAAATTTTT
1 TATAAAATTTTT
14017819 TATAAAATTTTT
1 TATAAAATTTTT
14017831 T
1 T
14017832 TAATTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATAAAATTTTT
Found at i:14017844 original size:23 final size:23
Alignment explanation
Indices: 14017818--14017877 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
14017808 ATAAAATTTT
*
14017818 TTATAA-AATTTTTTTAATTATAA
1 TTATAATAATTTTTTT-ACTATAA
14017841 TTATAATAATTTTTTTACTATAA
1 TTATAATAATTTTTTTACTATAA
* *
14017864 TTACAGTAATTTTT
1 TTATAATAATTTTT
14017878 ATTATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 24 0.73
24 9 0.27
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATAATAATTTTTTTACTATAA
Found at i:14019846 original size:4 final size:4
Alignment explanation
Indices: 14019837--14019862 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14019827 AATCCATCAT
14019837 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
14019863 ATTATTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:14021198 original size:2 final size:2
Alignment explanation
Indices: 14021191--14021217 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14021181 GAATATGGCA
14021191 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 A
14021218 TGTAGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14021397 original size:2 final size:2
Alignment explanation
Indices: 14021392--14021424 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14021382 TGACCCCCCT
14021392 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14021425 TGACAGACCA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14023381 original size:5 final size:5
Alignment explanation
Indices: 14023371--14023400 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
14023361 TTTTACATGT
14023371 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG
14023401 GGGGAGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:14029406 original size:2 final size:2
Alignment explanation
Indices: 14029399--14029428 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14029389 CTTGGCTAAG
*
14029399 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14029429 GCTCCAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14035127 original size:26 final size:26
Alignment explanation
Indices: 14035076--14035133 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14035066 TTTTTTTATG
* * *
14035076 ATTTTTTTTTAATTGTAGCTATAATA
1 ATTTTTTTTTAATCGTAACTACAATA
*
14035102 ATTTTTTTTTAATCGTAATTACAATA
1 ATTTTTTTTTAATCGTAACTACAATA
*
14035128 ACTTTT
1 ATTTTT
14035134 ATTACTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTTTTTTTTAATCGTAACTACAATA
Found at i:14038825 original size:62 final size:62
Alignment explanation
Indices: 14038703--14038825 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
14038693 TTGTCAAAAA
* ** * *
14038703 AACACCTTCAATAATCCTCTTCATTTTTTATAAGGGAATTATTGAAGATGTTTTATGCAAAC
1 AACACCTTCAATAATCCCCTTCATTTTTTATAAGGGAATTATTGAAGACATTTCAAGCAAAC
* * * *
14038765 AACACCTTTAATAATCCCCTTCAATTTTTTATGATGG-ATTATTGAAGGCATTTCAAGCAAA
1 AACACCTTCAATAATCCCCTTC-ATTTTTTATAAGGGAATTATTGAAGACATTTCAAGCAAA
14038826 AAAAGCCTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 39 0.76
63 12 0.24
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (62 bp):
AACACCTTCAATAATCCCCTTCATTTTTTATAAGGGAATTATTGAAGACATTTCAAGCAAAC
Found at i:14038917 original size:16 final size:16
Alignment explanation
Indices: 14038896--14038927 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14038886 AAGAAATGTC
14038896 TTCAATAATTCTCCTA
1 TTCAATAATTCTCCTA
14038912 TTCAATAATTCTCCTA
1 TTCAATAATTCTCCTA
14038928 AAAAATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (16 bp):
TTCAATAATTCTCCTA
Found at i:14039486 original size:62 final size:60
Alignment explanation
Indices: 14039420--14039684 Score: 200
Period size: 62 Copynumber: 4.3 Consensus size: 60
14039410 ATTGGAAGAA
*
14039420 ATTATTGAAGGCGTTTTCTGCACAAAATACCTTCAATAATTCCCTCTAAAAAATTAGATGGG
1 ATTATTGAAGGCGTTTTTTGCACAAAATACCTTCAATAA-TCCCTCTAAAAAATTAGA-GGG
* * * * * * *
14039482 ATTATT-AAAG-GTATTTTG-ACTAAAAAACGCTATCAGTAATTTCCTCTAAAAAATTAAAAAGG
1 ATTATTGAAGGCGTTTTTTGCAC-AAAATAC-CT-TCAATAA-TCCCTCTAAAAAATT-AGAGGG
* * * * * *
14039544 ATTATTAAAAGCGTTTTTTATCA-AAAATACATTCAATAATCTCCTCATCAAAATTTA-AGAGG
1 ATTATTGAAGGCGTTTTTT-GCACAAAATACCTTCAATAATC-CCTC-TAAAAAATTAGAG-GG
** * *
14039606 ATTATTGAAGGTATTTTTTACAGAAAATACCTTCAATAATCCC-CTAAAAAAATTTAGAGGG
1 ATTATTGAAGGCGTTTTTTGCACAAAATACCTTCAATAATCCCTCT-AAAAAA-TTAGAGGG
*
14039667 ATTATTGAAGGTGTTTTT
1 ATTATTGAAGGCGTTTTT
14039685 GGGTAAAAAA
Statistics
Matches: 162, Mismatches: 26, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
59 3 0.02
60 17 0.10
61 33 0.20
62 82 0.51
63 14 0.09
64 12 0.07
66 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (60 bp):
ATTATTGAAGGCGTTTTTTGCACAAAATACCTTCAATAATCCCTCTAAAAAATTAGAGGG
Found at i:14039657 original size:124 final size:127
Alignment explanation
Indices: 14039529--14039801 Score: 290
Period size: 124 Copynumber: 2.2 Consensus size: 127
14039519 AATTTCCTCT
* *
14039529 AAAAAATTAAAAAGGATTATTAAAAGCGTTTTT-TATCAAAAATAC-ATTCAATAATCTCCTCAT
1 AAAAAATTTAAAAGGATTATTAAAAGCGTTTTTGGAT-AAAAA-ACGATTCAATAATCTCCTCAT
* * * *
14039592 CAAAATTTAAGAGGATTATTGAA-G-GTATTTTT-T-ACAGAAAATACCTTCAATAATCCCCTA
64 CAAAATTTAAGAGGATTATTGAATGCGTATTTTTATAAAAAAAAAAACATTCAATAATCCCCTA
* * * * * * * ** *
14039652 AAAAAATTTAGAGGGATTATTGAAGGTGTTTTTGGGTAAAAAACGTCTTCAATAATCTTTTTATC
1 AAAAAATTTAAAAGGATTATTAAAAGCGTTTTTGGATAAAAAACG-ATTCAATAATCTCCTCATC
* *
14039717 AAAATTTAAGAGGATTATTGAATGCTTTTTTTTATAAAAAAAAAAACATTCAATAATCCTCTCT-
65 AAAATTTAAGAGGATTATTGAATGCGTATTTTTATAAAAAAAAAAACATTCAATAATCC-C-CTA
14039781 AAAAAATTTAAAAGGATTATT
1 AAAAAATTTAAAAGGATTATT
14039802 GAAGGCACTT
Statistics
Matches: 121, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
122 2 0.02
123 32 0.26
124 38 0.31
125 1 0.01
126 6 0.05
127 1 0.01
128 19 0.16
129 20 0.17
130 2 0.02
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (127 bp):
AAAAAATTTAAAAGGATTATTAAAAGCGTTTTTGGATAAAAAACGATTCAATAATCTCCTCATCA
AAATTTAAGAGGATTATTGAATGCGTATTTTTATAAAAAAAAAAACATTCAATAATCCCCTA
Found at i:14039733 original size:186 final size:187
Alignment explanation
Indices: 14039371--14039835 Score: 459
Period size: 186 Copynumber: 2.5 Consensus size: 187
14039361 ATTCAAGACA
* * * * * * *
14039371 TTTTTTAACTAAAACACATTCAATAATGT-CTCATAAAAAATTGGAAGA-AATTATTGAAGGCGT
1 TTTTTTATCAAAAAAACATTCAATAATCTCCTCATAAAAAATT-TAAGAGGATTATTGAAGGCAT
*
14039434 TTTCTGCACAAAATACCTTCAATAATTCCCTCTAAAAAATTAGATGGGATTATTAAAGGTATTTT
65 TTTCTACACAAAATACCTTCAATAATTCCCTCTAAAAAATTAGATGGGATTATTAAAGGTATTTT
*
14039499 GACTAAAAAACGCTATCAGTAATTTCCTCTAAAAAATTAAAAAGGATTATTAAAAGC-G
130 GACTAAAAAACGCTATCAATAATTT-CTCTAAAAAATTAAAAAGGATTATTAAAAGCTG
* * *
14039557 TTTTTTATCAAAAATACATTCAATAATCTCCTCAT-CAAAATTTAAGAGGATTATTGAAGGTATT
1 TTTTTTATCAAAAAAACATTCAATAATCTCCTCATAAAAAATTTAAGAGGATTATTGAAGGCATT
* * * *
14039621 TTTTACAGAAAATACCTTCAATAA-TCCC-CTAAAAAAATTTAGA-GGGATTATTGAAGGTGTTT
66 TTCTACACAAAATACCTTCAATAATTCCCTCT-AAAAAA-TTAGATGGGATTATTAAAGGT-ATT
** * * * * * * *
14039683 TTGGGTAAAAAACGTCT-TCAATAATCTT-TTTATCAAAATTTAAGAGGATTATTGAATGCTT
128 TTGACTAAAAAACG-CTATCAATAAT-TTCTCTA-AAAAATTAAAAAGGATTATTAAAAGCTG
* *
14039744 TTTTTTATAAAAAAAAAAACATTCAATAATC-CTCTC-TAAAAAATTTAAAAGGATTATTGAAGG
1 TTTTTTAT---CAAAAAAACATTCAATAATCTC-CTCATAAAAAATTTAAGAGGATTATTGAAGG
* * *
14039807 CACTTTCTAC-CTGAAACACCTTCAATAAT
62 CATTTTCTACAC-AAAATACCTTCAATAAT
14039836 CATTTTTGCA
Statistics
Matches: 229, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
184 2 0.01
185 31 0.14
186 112 0.49
187 17 0.07
189 2 0.01
190 65 0.28
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (187 bp):
TTTTTTATCAAAAAAACATTCAATAATCTCCTCATAAAAAATTTAAGAGGATTATTGAAGGCATT
TTCTACACAAAATACCTTCAATAATTCCCTCTAAAAAATTAGATGGGATTATTAAAGGTATTTTG
ACTAAAAAACGCTATCAATAATTTCTCTAAAAAATTAAAAAGGATTATTAAAAGCTG
Found at i:14039756 original size:62 final size:60
Alignment explanation
Indices: 14039556--14039756 Score: 163
Period size: 62 Copynumber: 3.2 Consensus size: 60
14039546 TATTAAAAGC
* * * * * *
14039556 GTTTTTTATCAAAAATACATTCAATAATCTCCTCATCAAAATTTAAGAGGATTATTGAAG
1 GTTTTTTTTAAAAAACACCTTCAATAATCTCCTTATCAAAATTTAAGAGGATTATTGAAT
* * * **
14039616 GTATTTTTTACAGAAAATACCTTCAATAATC-CCCTAAAAAAATTT-AGAGGGATTATTGAAGGT
1 GTTTTTTTTA-A-AAAACACCTTCAATAATCTCCTTATCAAAATTTAAGA-GGATTATTGAA--T
** ** **
14039679 GTTTTTGGGTAAAAAACGTCTTCAATAATCTTTTTATCAAAATTTAAGAGGATTATTGAAT
1 GTTTTT-TTTAAAAAACACCTTCAATAATCTCCTTATCAAAATTTAAGAGGATTATTGAAT
14039740 GCTTTTTTTTATAAAAA
1 G-TTTTTTTTA-AAAAA
14039757 AAAAAACATT
Statistics
Matches: 109, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
60 10 0.09
61 26 0.24
62 42 0.39
63 26 0.24
64 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (60 bp):
GTTTTTTTTAAAAAACACCTTCAATAATCTCCTTATCAAAATTTAAGAGGATTATTGAAT
Found at i:14043577 original size:12 final size:11
Alignment explanation
Indices: 14043545--14043588 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
14043535 AAAATATAAA
14043545 AAAATTTTTATT
1 AAAA-TTTTATT
*
14043557 AAAAATTTATAT
1 AAAATTTTAT-T
*
14043569 ATAATTTTATT
1 AAAATTTTATT
14043580 AAAATTTTA
1 AAAATTTTA
14043589 AATTAATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 14 0.52
12 13 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAAATTTTATT
Found at i:14043595 original size:22 final size:23
Alignment explanation
Indices: 14043533--14043595 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
14043523 CATATTAATA
* *
14043533 TAAAAATATAAA-AAAATTTTTAT
1 TAAAAATTTAAATATAA-TTTTAT
*
14043556 TAAAAATTTATATATAATTTTAT
1 TAAAAATTTAAATATAATTTTAT
*
14043579 TAAAATTTTAAAT-TAAT
1 TAAAAATTTAAATATAAT
14043596 CTTTTTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 4 0.12
23 27 0.79
24 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAAAATTTAAATATAATTTTAT
Found at i:14043653 original size:17 final size:16
Alignment explanation
Indices: 14043598--14043654 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
14043588 AAATTAATCT
14043598 TTTTTA-TATATTAT-
1 TTTTTATTATATTATA
*
14043612 TTTTTATTATATTCGTA
1 TTTTTATTATATT-ATA
**
14043629 TCATTATTATATTATA
1 TTTTTATTATATTATA
14043645 TTTTATATTA
1 TTTT-TATTA
14043655 CAAATCAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 5 0.15
17 16 0.48
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTTATTATATTATA
Found at i:14045576 original size:15 final size:15
Alignment explanation
Indices: 14045558--14045590 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14045548 GAAGGTGGCA
*
14045558 GTGGGAGCGGCGGTG
1 GTGGGAGCGGCGGCG
14045573 GTGGGAGCGGCGGCG
1 GTGGGAGCGGCGGCG
14045588 GTG
1 GTG
14045591 TGTGCCGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.67, T:0.12
Consensus pattern (15 bp):
GTGGGAGCGGCGGCG
Found at i:14051809 original size:73 final size:71
Alignment explanation
Indices: 14051626--14051837 Score: 259
Period size: 73 Copynumber: 3.0 Consensus size: 71
14051616 CGGGATCAGA
* * * *
14051626 GCATCCACTCATCCGGCGTCTCAAATCAGTTTAACCGTCACGGTTCACATCCTTGTGA-GGTATT
1 GCATCCACTCATCCGACGTCTCAGATCAGTTTAACTGTCACGGTTCACACCCTTGTGAGGGTATT
14051690 GTCCGG
66 GTCCGG
* * * * * *
14051696 ACCTCTACTCATCCAACTTCTCAGATCAGTATAA-TCGTCACGGTTCACACCCTTGTGAGGGATT
1 GCATCCACTCATCCGACGTCTCAGATCAGTTTAACT-GTCACGGTTCACACCCTTGTGAGGG--T
*
14051760 GTTGTCCGG
63 ATTGTCCGG
*
14051769 GCATCCACTCATCCGACGTCTCAGATCAGTTTAACTGTCACGGTTCACACCCTTATGA-GGTATT
1 GCATCCACTCATCCGACGTCTCAGATCAGTTTAACTGTCACGGTTCACACCCTTGTGAGGGTATT
*
14051833 ATCCG
66 GTCCG
14051838 CTCTGGTCCT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
70 54 0.46
71 2 0.02
72 2 0.02
73 58 0.50
74 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (71 bp):
GCATCCACTCATCCGACGTCTCAGATCAGTTTAACTGTCACGGTTCACACCCTTGTGAGGGTATT
GTCCGG
Found at i:14052049 original size:50 final size:50
Alignment explanation
Indices: 14051986--14052085 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
14051976 ATGGTTTTGT
14051986 CCTACAAAAGGTCTCTCACAAGGAAGAGATAGGAAGAGATGGTGTGAACC
1 CCTACAAAAGGTCTCTCACAAGGAAGAGATAGGAAGAGATGGTGTGAACC
14052036 CCTACAAAAGGTCTCTCACAAGGAAGAGATAGGAAGAGATGGTGTGAACC
1 CCTACAAAAGGTCTCTCACAAGGAAGAGATAGGAAGAGATGGTGTGAACC
14052086 TTTATATACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (50 bp):
CCTACAAAAGGTCTCTCACAAGGAAGAGATAGGAAGAGATGGTGTGAACC
Found at i:14058613 original size:25 final size:25
Alignment explanation
Indices: 14058585--14058648 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
14058575 CAAGGGTTCA
14058585 CATTTTTAAATTTATCTTTTTTTAT
1 CATTTTTAAATTTATCTTTTTTTAT
* * *
14058610 CATTTTTTAACTTCTCTTTTTTTAT
1 CATTTTTAAATTTATCTTTTTTTAT
* *
14058635 TATATTTAATATTT
1 CATTTTTAA-ATTT
14058649 TAAATATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 28 0.90
26 3 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (25 bp):
CATTTTTAAATTTATCTTTTTTTAT
Found at i:14059487 original size:16 final size:16
Alignment explanation
Indices: 14059465--14059506 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14059455 CCTATTAACT
14059465 TTTTTTAATATTTA-A
1 TTTTTTAATATTTAGA
*
14059480 GTTTTTT-ATATTTTGA
1 -TTTTTTAATATTTAGA
14059496 TTTTTTAATAT
1 TTTTTTAATAT
14059507 GGGTCGCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (16 bp):
TTTTTTAATATTTAGA
Found at i:14059975 original size:25 final size:25
Alignment explanation
Indices: 14059938--14059993 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
14059928 CTCTTTACAC
*
14059938 ATAATTACAAAAATGCCTT-ATCATT
1 ATAATTACAAAAATACCTTCAT-ATT
** *
14059963 ATAATTATGAAAATATCTTCATATT
1 ATAATTACAAAAATACCTTCATATT
14059988 ATAATT
1 ATAATT
14059994 GGCTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (25 bp):
ATAATTACAAAAATACCTTCATATT
Done.