Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 92 of 100
Found at i:18253599 original size:18 final size:20
Alignment explanation
Indices: 18253565--18253605 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18253555 TTTCACCTAT
*
18253565 TTTTCATCAC-TTTTTTTTC
1 TTTTCATCACATTTTTTCTC
18253584 TTTTCATC-CATTTTTTCTC
1 TTTTCATCACATTTTTTCTC
18253603 TTT
1 TTT
18253606 CACCTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCATCACATTTTTTCTC
Found at i:18255360 original size:21 final size:21
Alignment explanation
Indices: 18255334--18255382 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
18255324 GCTTAGATAA
18255334 GATCGATCCCCTCAGGGAAGG
1 GATCGATCCCCTCAGGGAAGG
18255355 GATCGATCCCCTCAGGGAAGG
1 GATCGATCCCCTCAGGGAAGG
18255376 GATCGAT
1 GATCGAT
18255383 TGCTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.16
Consensus pattern (21 bp):
GATCGATCCCCTCAGGGAAGG
Found at i:18268193 original size:29 final size:28
Alignment explanation
Indices: 18268161--18268223 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
18268151 ATTAAAGGAA
*
18268161 TTTATCAATTAATT-TTTATTATGATTATT
1 TTTATAAATTAATTATTTATTA--ATTATT
* *
18268190 TTTAAAAAATTTATTATTTATTAATTATT
1 TTT-ATAAATTAATTATTTATTAATTATT
18268219 TTTAT
1 TTTAT
18268224 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
28 1 0.04
29 12 0.43
30 8 0.29
31 7 0.25
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATAAATTAATTATTTATTAATTATT
Found at i:18268372 original size:13 final size:14
Alignment explanation
Indices: 18268347--18268385 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
18268337 AAAATATCAA
18268347 TTATTATTA-TTTT
1 TTATTATTATTTTT
18268360 TTATT-TTATTTTT
1 TTATTATTATTTTT
18268373 TTATTATTATTTT
1 TTATTATTATTTT
18268386 GTATTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 14 0.58
14 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTATTATTTTT
Found at i:18268390 original size:13 final size:13
Alignment explanation
Indices: 18268347--18268390 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
18268337 AAAATATCAA
18268347 TTATTATTATTTT
1 TTATTATTATTTT
18268360 TTATT-TTATTTTT
1 TTATTATTA-TTTT
18268373 TTATTATTATTTT
1 TTATTATTATTTT
*
18268386 GTATT
1 TTATT
18268391 GTTTAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 3 0.11
13 22 0.79
14 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:18268552 original size:13 final size:13
Alignment explanation
Indices: 18268514--18268552 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18268504 AGCTTTCTTT
18268514 AAAAATTATATTTA
1 AAAAATT-TATTTA
* *
18268528 AAATATTCATTTA
1 AAAAATTTATTTA
18268541 AAAAATTTATTT
1 AAAAATTTATTT
18268553 TTATTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTTATTTA
Found at i:18268566 original size:8 final size:8
Alignment explanation
Indices: 18268553--18268579 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18268543 AAATTTATTT
18268553 TTATTTTA
1 TTATTTTA
18268561 TTATTTTA
1 TTATTTTA
18268569 TTATTTTA
1 TTATTTTA
18268577 TTA
1 TTA
18268580 CTATTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:18268816 original size:26 final size:25
Alignment explanation
Indices: 18268764--18268860 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 25
18268754 AATTATTAAT
**
18268764 ATAAAATAACAATAATATCATGAAAAA
1 ATAAAATAA-AATAA-ATCAACAAAAA
18268791 ATAAAATAAAATAAATCAACATAAAA
1 ATAAAATAAAATAAATCAACA-AAAA
* * * *
18268817 ATGATACAAAATAAATAAAACAAAAA
1 ATAAAATAAAATAAAT-CAACAAAAA
18268843 ATCAAAATAGAAAATAAA
1 AT-AAAAT--AAAATAAA
18268861 AAGAAAAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
25 5 0.09
26 28 0.50
27 15 0.27
29 8 0.14
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (25 bp):
ATAAAATAAAATAAATCAACAAAAA
Found at i:18269277 original size:51 final size:51
Alignment explanation
Indices: 18269178--18269277 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
18269168 TGATGGTCGA
* * *
18269178 AAAATTCAACGGTCACTAAAAAATTTAAACTTTTCCAAATTTCGGTGACAG
1 AAAATTCAACGGTCACCAAAAAATTCAAACTTTTCCAAATTTCAGTGACAG
*
18269229 AAAATTCAACGGTCGCCAAAAAATTCAAACTTTTCC-AATTTCCAGTGAC
1 AAAATTCAACGGTCACCAAAAAATTCAAACTTTTCCAAATTT-CAGTGAC
18269278 CCAAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (51 bp):
AAAATTCAACGGTCACCAAAAAATTCAAACTTTTCCAAATTTCAGTGACAG
Found at i:18269297 original size:10 final size:10
Alignment explanation
Indices: 18269282--18269312 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18269272 AGTGACCCAA
18269282 AAAAATTTTC
1 AAAAATTTTC
*
18269292 AAAAATTCTC
1 AAAAATTTTC
18269302 AAAAATTTTC
1 AAAAATTTTC
18269312 A
1 A
18269313 CAATGATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTTTC
Found at i:18269733 original size:14 final size:12
Alignment explanation
Indices: 18269698--18269724 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18269688 TCAAAGACTT
18269698 TTTTTTTTTTAC
1 TTTTTTTTTTAC
18269710 TTTTTTTTTTAC
1 TTTTTTTTTTAC
18269722 TTT
1 TTT
18269725 GTTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTAC
Found at i:18271286 original size:10 final size:9
Alignment explanation
Indices: 18271253--18271297 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
18271243 TATTTTGCTT
18271253 AAAAACAAAG
1 AAAAA-AAAG
*
18271263 AAAAAAATAC
1 AAAAAAA-AG
*
18271273 AAAAAAAGG
1 AAAAAAAAG
18271282 AAAAAAAAG
1 AAAAAAAAG
18271291 AAAAAAA
1 AAAAAAA
18271298 TGGGAAGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:18272859 original size:33 final size:33
Alignment explanation
Indices: 18272822--18272962 Score: 94
Period size: 33 Copynumber: 4.2 Consensus size: 33
18272812 AATCCCAGTC
*
18272822 TCTTTATTTTCTTAACTAACGGTTAAATCTCGA
1 TCTTTATTTTCTTAACTAACGGTTTAATCTCGA
* *
18272855 TCTTT-TTAATTC-TAAGTCACGGTTTAATCTCGA
1 TCTTTATT--TTCTTAACTAACGGTTTAATCTCGA
* *
18272888 TCCTCATTA-TTTCTCTAACTTACAGTTTAATCTCGA
1 T-CT--TTATTTTCT-TAACTAACGGTTTAATCTCGA
* * *
18272924 TCTCTT-TATTTCTTGACAAATGGTTTAATACT-GA
1 TCT-TTAT-TTTCTTAACTAACGGTTTAAT-CTCGA
18272958 TCTTT
1 TCTTT
18272963 TTAATTCTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 22
0.71 0.10 0.18
Matches are distributed among these distances:
32 2 0.02
33 26 0.31
34 26 0.31
35 9 0.11
36 22 0.26
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (33 bp):
TCTTTATTTTCTTAACTAACGGTTTAATCTCGA
Found at i:18272879 original size:103 final size:103
Alignment explanation
Indices: 18272739--18273461 Score: 492
Period size: 106 Copynumber: 6.9 Consensus size: 103
18272729 TCTAAATTAT
* * * * * * * * *
18272739 GGTTTAATCTCAATCTCTTTAATTTTAAATCATGGTTTAGTCTCGATAATTGCTA-TTCTCTGAC
1 GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCATT-TTATTTCTCTGAC
**
18272803 TTGCAATTTAATCCCAGTCTCTTTATTTTCTTAACTAAC
65 TTGCGGTTTAATCCCAGTCTCTTTATTTTCTTAACTAAC
* * * *
18272842 GGTTAAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCCTCATTATTTCTCTAAC
1 GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCAT-TTTATTTCTCTGAC
* * * * * *
18272907 TTACAGTTTAATCTC-GATCTCTTTA-TTTCTTGACAAAT
65 TTGCGGTTTAATCCCAG-TCTCTTTATTTTCTTAACTAAC
* * * * * *
18272945 GGTTTAATACT-GATCTTTTTAATTCTAAATCAAGGTTTAATATCGATCCTTATTATTTGTCTGA
1 GGTTCAAT-CTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCATT-TTATTTCTCTGA
* * ** * * ***
18273009 CTTACGGCTTAATCCTGGTTTCTTTATTTTTTTCTAACTCGT
64 CTTGCGGTTTAATCCCAGTCTCTTTA-TTTTCT-TAACTAAC
* * * * * * *
18273051 GGTTCAATCCCGATCTCTTTACTTCTAAGTCATGGTTTAATCCCAATTC-TCTTTATTTCTTTGA
1 GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGA-TCAT-TTTATTTCTCTGA
* * * ***
18273115 CTTGCGGTTTAATCCCAATCTTTTTTATTTTTCTTGACTCGT
64 CTTGCGGTTTAATCCCAGTC-TCTTTA-TTTTCTTAACTAAC
* * * *
18273157 GGTTCAATCAT-GATCTTTTTAATTCTAAGTTACGGTTTAATCCCAATCTTTATTATTTCTCTGA
1 GGTTCAATC-TCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCATT-TTATTTCTCTGA
* * * * * *
18273221 CTTGTGGTTTAATCTCGGTCTCTTTATTTTTTTTTTTACTCAC
64 CTTGCGGTTTAATCCCAGTCTCTTTA---TTTTCTTAACTAAC
* * * * * *
18273264 GATTCAATCCCGATCTCTTTACTTCTAAGTCACTGTTTAATCTCGATCCTCATTT-TTTCTCTGA
1 GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCAT--TTTATTTCTCTGA
* * *
18273328 CTTGCAGTTTAATCCC-GATCTCATTA-TTTCTCTAACTAGC
64 CTTGCGGTTTAATCCCAG-TCTCTTTATTTTCT-TAACTAAC
* * * * * *
18273368 GGTTCAATCTCGATCTTTTTACTTTTAAGTCGCGATTTAATCTCGATCCTTATTCTTTCTCTGAC
1 GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCATT-TTATTTCTCTGAC
* * * *
18273433 TTGTGATTTAATCCCAATCTATTTATTTT
65 TTGCGGTTTAATCCCAGTCTCTTTATTTT
18273462 TCTTGACTCG
Statistics
Matches: 493, Mismatches: 100, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
102 1 0.00
103 132 0.27
104 107 0.22
105 16 0.03
106 140 0.28
107 94 0.19
108 2 0.00
109 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (103 bp):
GGTTCAATCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCTCGATCATTTTATTTCTCTGACT
TGCGGTTTAATCCCAGTCTCTTTATTTTCTTAACTAAC
Found at i:18273087 original size:33 final size:34
Alignment explanation
Indices: 18273040--18273110 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
18273030 CTTTATTTTT
* *
18273040 TTCTAACTCGTGGTTCAATCCCGA-TCTCTTTAC
1 TTCTAACTCATGGTTCAATCCCAATTCTCTTTAC
* * *
18273073 TTCTAAGTCATGGTTTAATCCCAATTCTCTTTAT
1 TTCTAACTCATGGTTCAATCCCAATTCTCTTTAC
18273107 TTCT
1 TTCT
18273111 TTGACTTGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (34 bp):
TTCTAACTCATGGTTCAATCCCAATTCTCTTTAC
Found at i:18273142 original size:36 final size:36
Alignment explanation
Indices: 18273084--18273234 Score: 121
Period size: 36 Copynumber: 4.2 Consensus size: 36
18273074 TCTAAGTCAT
*
18273084 GGTTTAATCCCAAT-TCTCTTTATTTCTTTGACTTGC
1 GGTTTAATCCCAATCT-TTTTTATTTCTTTGACTTGC
* * *
18273120 GGTTTAATCCCAATCTTTTTTATTTTTCTTGACTCGT
1 GGTTTAATCCCAATCTTTTTTATTTCT-TTGACTTGC
* *** * * * *
18273157 GGTTCAATCATGATC-TTTTTAATTC--TAAGTTAC
1 GGTTTAATCCCAATCTTTTTTATTTCTTTGACTTGC
* * *
18273190 GGTTTAATCCCAATCTTTATTATTTCTCTGACTTGT
1 GGTTTAATCCCAATCTTTTTTATTTCTTTGACTTGC
18273226 GGTTTAATC
1 GGTTTAATC
18273235 TCGGTCTCTT
Statistics
Matches: 85, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
33 14 0.16
34 8 0.09
36 44 0.52
37 19 0.22
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.50
Consensus pattern (36 bp):
GGTTTAATCCCAATCTTTTTTATTTCTTTGACTTGC
Found at i:18273358 original size:35 final size:35
Alignment explanation
Indices: 18273298--18273383 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
18273288 CTAAGTCACT
* * *
18273298 GTTTAATCTCGATCCTCATTTTTTCTCTGACTTGCA
1 GTTTAATCTCGAT-CTCATTATTTCTCTAACTAGCA
* *
18273334 GTTTAATCCCGATCTCATTATTTCTCTAACTAGCG
1 GTTTAATCTCGATCTCATTATTTCTCTAACTAGCA
*
18273369 GTTCAATCTCGATCT
1 GTTTAATCTCGATCT
18273384 TTTTACTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 31 0.72
36 12 0.28
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.43
Consensus pattern (35 bp):
GTTTAATCTCGATCTCATTATTTCTCTAACTAGCA
Found at i:18273461 original size:142 final size:141
Alignment explanation
Indices: 18273317--18273612 Score: 364
Period size: 142 Copynumber: 2.1 Consensus size: 141
18273307 CGATCCTCAT
* *
18273317 TTTTTCTCTGACTTGCAGTTTAATCCCGATCTCATTA-TTTCTCTAACT-AGCGGTTCAATCTCG
1 TTTTTCT-TGACTTGCAGTTTAATCCCAATCTCATTATTTTCTCTAACTCA-CAGTTCAATCTCG
* **
18273380 ATCTTTTTACTTTTAAGTCGCGATTTAAT-CTCGATCCTTATTCTTTCTCTGACTTGTGATTTAA
64 ATCTCTTTACTTTTAAGTCGCGATTTAATCCT-GATCCTTATTCTTTCTCTGACTTACGATTTAA
18273444 TCCCAATCTATTTA
128 TCCCAATCTATTTA
* ** * * * * *
18273458 TTTTTCTTGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTCTAACTCATAGTTTAATCTCGA
1 TTTTTCTTGACTTGCAGTTTAATCCCAATCTCATTA-TTTTCTCTAACTCACAGTTCAATCTCGA
* * *
18273523 TCTCTTTACTTTTAAGTCGTGATTTAATCCTGATCCTTATTCTTTCTTTGACTTACGGTTTAATC
65 TCTCTTTACTTTTAAGTCGCGATTTAATCCTGATCCTTATTCTTTCTCTGACTTACGATTTAATC
* * *
18273588 TCGATCTCTTTA
130 CCAATCTATTTA
18273600 TTTTTCTTGACTT
1 TTTTTCTTGACTT
18273613 ATGATTCAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
140 23 0.18
141 7 0.05
142 98 0.75
143 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (141 bp):
TTTTTCTTGACTTGCAGTTTAATCCCAATCTCATTATTTTCTCTAACTCACAGTTCAATCTCGAT
CTCTTTACTTTTAAGTCGCGATTTAATCCTGATCCTTATTCTTTCTCTGACTTACGATTTAATCC
CAATCTATTTA
Found at i:18273469 original size:36 final size:37
Alignment explanation
Indices: 18273417--18273507 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 37
18273407 ATCTCGATCC
*
18273417 TTATTCTTTCTCTGACTTGTGATTTAATCCCAATCTAT
1 TTATT-TTTCTCTGACTCGTGATTTAATCCCAATCTAT
* * *
18273455 TTATTTTTCT-TGACTCGTGGTTTAATCTCAATCTCT
1 TTATTTTTCTCTGACTCGTGATTTAATCCCAATCTAT
* *
18273491 TTATTTTTTTCTAACTC
1 TTATTTTTCTCTGACTC
18273508 ATAGTTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 31 0.67
37 10 0.22
38 5 0.11
ACGTcount: A:0.19, C:0.20, G:0.08, T:0.54
Consensus pattern (37 bp):
TTATTTTTCTCTGACTCGTGATTTAATCCCAATCTAT
Found at i:18273499 original size:37 final size:38
Alignment explanation
Indices: 18273403--18273535 Score: 132
Period size: 37 Copynumber: 3.6 Consensus size: 38
18273393 TAAGTCGCGA
* * * *
18273403 TTTAATCTCGATC-C-TTATTCTTTCTCTGACTTGTGA
1 TTTAATCTCAATCTCTTTATTTTTTCTCTGACTCGTGG
* *
18273439 TTTAATCCCAATCTATTTA-TTTTTCT-TGACTCGTGG
1 TTTAATCTCAATCTCTTTATTTTTTCTCTGACTCGTGG
* * *
18273475 TTTAATCTCAATCTCTTTATTTTTT-TCTAACTCATAG
1 TTTAATCTCAATCTCTTTATTTTTTCTCTGACTCGTGG
* *
18273512 TTTAATCTCGATCTCTTTACTTTT
1 TTTAATCTCAATCTCTTTATTTTT
18273536 AAGTCGTGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
36 37 0.46
37 40 0.50
38 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (38 bp):
TTTAATCTCAATCTCTTTATTTTTTCTCTGACTCGTGG
Found at i:18273585 original size:36 final size:36
Alignment explanation
Indices: 18273559--18273820 Score: 116
Period size: 36 Copynumber: 7.4 Consensus size: 36
18273549 ATCCTGATCC
18273559 TTATTCTTTCTTTGACTTACGGTTTAATCTCGATCTCT
1 TTATT-TTTC-TTGACTTACGGTTTAATCTCGATCTCT
* * *
18273597 TTATTTTTCTTGACTTATGATTCAATCTCGATCT-T
1 TTATTTTTCTTGACTTACGGTTTAATCTCGATCTCT
** * * * * *
18273632 TT-TAATTC-TAAGTCACGGTTTAATC-CTAATCCTCA
1 TTATTTTTCTTGACTTACGGTTTAATCTC-GAT-CTCT
* * * * ** *
18273667 TTATTTCT-TTAACTTGCAGTTTAATAACGATCTTT
1 TTATTTTTCTTGACTTACGGTTTAATCTCGATCTCT
* * * *
18273702 TTATTTTTCTTGACTCACGATTCAGTCTCGATCT-T
1 TTATTTTTCTTGACTTACGGTTTAATCTCGATCTCT
** ** *
18273737 TT-TAATTC-T-AAGTAGCGGTTTAATCCCGATC-C-
1 TTATTTTTCTTGACTTA-CGGTTTAATCTCGATCTCT
* * *
18273769 TTATTGTTTCTCTGACTTGCGGTTTAGTCCCGATCTCT
1 TTATT-TTTCT-TGACTTACGGTTTAATCTCGATCTCT
18273807 TTA-TTTTCTTGACT
1 TTATTTTTCTTGACT
18273821 CGCGGTGTTG
Statistics
Matches: 159, Mismatches: 49, Indels: 35
0.65 0.20 0.14
Matches are distributed among these distances:
32 5 0.03
33 27 0.17
34 13 0.08
35 22 0.14
36 75 0.47
37 9 0.06
38 8 0.05
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (36 bp):
TTATTTTTCTTGACTTACGGTTTAATCTCGATCTCT
Found at i:18273624 original size:142 final size:142
Alignment explanation
Indices: 18273373--18273635 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
18273363 CTAGCGGTTC
* **
18273373 AATCTCGATCTTTTTACTTTTAAGTCGCGATTTAATCTCGATCCTTATTCTTTCTCTGACTTGTG
1 AATCTCGATCTCTTTACTTTTAAGTCGCGATTTAATCTCGATCCTTATTCTTTCTCTGACTTACG
* * *
18273438 ATTTAATCCCAATCTATTTATTTTTCTTGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTCT
66 ATTTAATCCCAATCTATTTATTTTTCTTGACTCATGATTCAATCTCAATCTCTTTATTTTTTTCT
18273503 AACTCATAGTTT
131 AACTCATAGTTT
* *
18273515 AATCTCGATCTCTTTACTTTTAAGTCGTGATTTAATC-CTGATCCTTATTCTTTCTTTGACTTAC
1 AATCTCGATCTCTTTACTTTTAAGTCGCGATTTAATCTC-GATCCTTATTCTTTCTCTGACTTAC
* * * * * * *
18273579 GGTTTAATCTCGATCTCTTTATTTTTCTTGACTTATGATTCAATCTCGATCTTTTTA
65 GATTTAATCCCAATCTATTTATTTTTCTTGACTCATGATTCAATCTCAATCTCTTTA
18273636 ATTCTAAGTC
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
141 1 0.01
142 104 0.99
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (142 bp):
AATCTCGATCTCTTTACTTTTAAGTCGCGATTTAATCTCGATCCTTATTCTTTCTCTGACTTACG
ATTTAATCCCAATCTATTTATTTTTCTTGACTCATGATTCAATCTCAATCTCTTTATTTTTTTCT
AACTCATAGTTT
Found at i:18273628 original size:247 final size:246
Alignment explanation
Indices: 18273191--18273717 Score: 593
Period size: 247 Copynumber: 2.1 Consensus size: 246
18273181 CTAAGTTACG
* **
18273191 GTTTAATCCCAATC-TTTATTATTTCTCTGACTTGTGGTTTAATCTCGGTCTCTTTATTTTTTTT
1 GTTTAATCCCAATCTTTTATT-TTTCT-TGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTT
* * * *
18273255 TTTACTCACGATTCAATCCCGATCTCTTTACTTCTAAGTCACTGTTTAATCTCGATCCTCATTTT
64 CTAACTCAAGATTCAATCCCGATCTCTTTACTTCTAAGTCACTGTTTAATCTCGATCCTCATTCT
* *
18273320 TTCTCTGACTTGCAGTTTAATCCCGATCTCATTATTTCTCTAACTAGCGGTTCAATCTCGATCTT
129 TTCTCTGACTTACAGTTTAATCCCGATCTCATTATTTCTCTAACTAGCGATTCAATCTCGATCTT
* * * * * * * *
18273385 TTTACTTTTAAGTCGCGATTTAAT-CTCGATCCTTATTCTTTCTCTGACTTG-T
194 TTTAATTCTAAGTCACGATTTAATCCT-AATCCTCATTATTTCTCTAACTTGCA
18273437 GATTTAATCCCAATCTATTTATTTTTCTTGACTCGTGGTTTAATCTCAATCTCTTTA-TTTTTTT
1 G-TTTAATCCCAATCT-TTTATTTTTCTTGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTT
* * * * *
18273501 CTAACTCATAG-TTTAATCTCGATCTCTTTACTTTTAAGTC-GTGATTTAATC-CTGATCCTTAT
64 CTAACTCA-AGATTCAATCCCGATCTCTTTACTTCTAAGTCACTG-TTTAATCTC-GATCCTCAT
* * * * * * *
18273563 TCTTTCTTTGACTTACGGTTTAATCTCGATCTCTTTATTTTTCTTGACTTA-TGATTCAATCTCG
126 TCTTTCTCTGACTTACAGTTTAATCCCGATCTCATTATTTCTC-TAAC-TAGCGATTCAATCTCG
* *
18273627 ATCTTTTTAATTCTAAGTCACGGTTTAATCCTAATCCTCATTATTTCTTTAACTTGCA
189 ATCTTTTTAATTCTAAGTCACGATTTAATCCTAATCCTCATTATTTCTCTAACTTGCA
** *
18273685 GTTTAATAACGATCTTTTTATTTTTCTTGACTC
1 GTTTAATCCCAATC-TTTTATTTTTCTTGACTC
18273718 ACGATTCAGT
Statistics
Matches: 236, Mismatches: 34, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
245 3 0.01
246 91 0.39
247 125 0.53
248 11 0.05
249 6 0.03
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (246 bp):
GTTTAATCCCAATCTTTTATTTTTCTTGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTTCT
AACTCAAGATTCAATCCCGATCTCTTTACTTCTAAGTCACTGTTTAATCTCGATCCTCATTCTTT
CTCTGACTTACAGTTTAATCCCGATCTCATTATTTCTCTAACTAGCGATTCAATCTCGATCTTTT
TAATTCTAAGTCACGATTTAATCCTAATCCTCATTATTTCTCTAACTTGCA
Found at i:18273658 original size:105 final size:105
Alignment explanation
Indices: 18273455--18273821 Score: 411
Period size: 105 Copynumber: 3.5 Consensus size: 105
18273445 CCCAATCTAT
* * * * * *
18273455 TTATT-TTTC-TTGACTCGTGGTTTAATCTCAATCTCTTTATTTTTTTCTAACTCAT-AGTTTAA
1 TTATTATTTCTTTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCT-TGACTCATGA-TTCAA
* * * ** *
18273517 TCTCGATCTCTTTACTTTTAAGTCGTGATTTAATCCTGATCC
64 TCTCGATCTTTTTAATTCTAAGTCACGGTTTAATCCTGATCC
* * *
18273559 TTATTCTTTCTTTGACTTACGGTTTAATCTCGATCTCTTTATTTTTCTTGACTTATGATTCAATC
1 TTATTATTTCTTTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTGACTCATGATTCAATC
*
18273624 TCGATCTTTTTAATTCTAAGTCACGGTTTAATCCTAATCC
66 TCGATCTTTTTAATTCTAAGTCACGGTTTAATCCTGATCC
* * * ** * * *
18273664 TCATTATTTCTTTAACTTGCAGTTTAATAACGATCTTTTTATTTTTCTTGACTCACGATTCAGTC
1 TTATTATTTCTTTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTGACTCATGATTCAATC
*
18273729 TCGATCTTTTTAATTCTAAGT-AGCGGTTTAATCCCGATCC
66 TCGATCTTTTTAATTCTAAGTCA-CGGTTTAATCCTGATCC
* * * *
18273769 TTATTGTTTCTCTGACTTGCGGTTTAGTCCCGATCTCTTTA-TTTTCTTGACTC
1 TTATTATTTCTTTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTGACTC
18273822 GCGGTGTTGT
Statistics
Matches: 222, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
104 18 0.08
105 171 0.77
106 33 0.15
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (105 bp):
TTATTATTTCTTTGACTTGCGGTTTAATCTCGATCTCTTTATTTTTCTTGACTCATGATTCAATC
TCGATCTTTTTAATTCTAAGTCACGGTTTAATCCTGATCC
Found at i:18274240 original size:16 final size:15
Alignment explanation
Indices: 18274214--18274244 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18274204 TATTTTTAAT
18274214 TTTTAATTTAATTTA
1 TTTTAATTTAATTTA
18274229 TTTTAATATTAATTTA
1 TTTTAAT-TTAATTTA
18274245 CTAATTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTAATTTAATTTA
Found at i:18275894 original size:27 final size:28
Alignment explanation
Indices: 18275863--18275918 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
18275853 CCCCAAATCT
18275863 ATTAAA-CCTCAAACC-TCTAAACCCTAA
1 ATTAAACCCT-AAACCTTCTAAACCCTAA
*
18275890 ATTAAACCCTAAACCTTCTGAACCCTAA
1 ATTAAACCCTAAACCTTCTAAACCCTAA
18275918 A
1 A
18275919 AACGAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (28 bp):
ATTAAACCCTAAACCTTCTAAACCCTAA
Found at i:18275949 original size:30 final size:31
Alignment explanation
Indices: 18275893--18275992 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 31
18275883 ACCCTAAATT
*
18275893 AAACCCTAAA-CCTTCTGAACCCTAAAAACG
1 AAACCCTAAACCCTTCTGAACCCTAAAAACA
*
18275923 AAACCCTAAACCCTT-T-AGACCTTAAAAACA
1 AAACCCTAAACCCTTCTGA-ACCCTAAAAACA
** ** * *
18275953 AAACATTAAACCC-TCCAAACCCCAAAATCA
1 AAACCCTAAACCCTTCTGAACCCTAAAAACA
*
18275983 AATCCCTAAA
1 AAACCCTAAA
18275993 GCATCCAAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
29 2 0.04
30 48 0.87
31 5 0.09
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (31 bp):
AAACCCTAAACCCTTCTGAACCCTAAAAACA
Found at i:18276041 original size:16 final size:17
Alignment explanation
Indices: 18276020--18276052 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18276010 TTGAAACCCT
18276020 AAATTCAAAA-CCCAAA
1 AAATTCAAAATCCCAAA
18276036 AAATTCAAAATCCCAAA
1 AAATTCAAAATCCCAAA
18276053 CCTTAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (17 bp):
AAATTCAAAATCCCAAA
Found at i:18276121 original size:29 final size:29
Alignment explanation
Indices: 18276070--18276125 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
18276060 TTCTAGCCCT
*
18276070 TAAACACTAAACCCTAAATCCTCTAAACTC
1 TAAACACTAAACCCCAAATCCTC-AAACTC
18276100 TAAA-ACTAAAACCCCAAA-CCTCAAAC
1 TAAACACT-AAACCCCAAATCCTCAAAC
18276126 CCGAAATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 7 0.29
30 13 0.54
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (29 bp):
TAAACACTAAACCCCAAATCCTCAAACTC
Found at i:18278315 original size:42 final size:42
Alignment explanation
Indices: 18278218--18278315 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
18278208 ATTCCTATCC
*
18278218 TTTCATTCCATACTGCTTCACCTACATGTTGATTTTCTATCAT
1 TTTCATTCC-TACTGCATCACCTACATGTTGATTTTCTATCAT
* * *
18278261 TTT-ATTCACTACTGCATCATCTACATGTTGATTTTTTA-CTT
1 TTTCATTC-CTACTGCATCACCTACATGTTGATTTTCTATCAT
18278302 TTTCATTCTCTACT
1 TTTCATTC-CTACT
18278316 ACCTTAGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
41 5 0.10
42 39 0.81
43 4 0.08
ACGTcount: A:0.20, C:0.23, G:0.06, T:0.50
Consensus pattern (42 bp):
TTTCATTCCTACTGCATCACCTACATGTTGATTTTCTATCAT
Found at i:18278714 original size:10 final size:10
Alignment explanation
Indices: 18278695--18278746 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
18278685 TATTAAATAC
*
18278695 AATAATAAAA
1 AATAAAAAAA
18278705 AAT-AAAAAA
1 AATAAAAAAA
18278714 AATAAAAAAA
1 AATAAAAAAA
18278724 TATATAAAAAAA
1 -A-ATAAAAAAA
*
18278736 AACAAAAAAA
1 AATAAAAAAA
18278746 A
1 A
18278747 GAGGGACGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 8 0.22
10 18 0.49
11 2 0.05
12 9 0.24
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:18278716 original size:24 final size:22
Alignment explanation
Indices: 18278689--18278746 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
18278679 TATTATTATT
18278689 AAATACAATAATAAAAAATAAAAA
1 AAATACAA-AA-AAAAAATAAAAA
* *
18278713 AAATA-AAAAAATATATAAAAA
1 AAATACAAAAAAAAAATAAAAA
18278734 AAA-ACAAAAAAAA
1 AAATACAAAAAAAA
18278747 GAGGGACGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 20 0.67
22 2 0.07
23 2 0.07
24 5 0.17
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAAAAAATAAAAA
Found at i:18279799 original size:21 final size:20
Alignment explanation
Indices: 18279757--18279800 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
18279747 TTTAGAATTT
* **
18279757 TTTTAATATTATTTTTGTTA
1 TTTTAATATTATTCTTAATA
18279777 TTTTAATTATTATTCTTAATA
1 TTTTAA-TATTATTCTTAATA
18279798 TTT
1 TTT
18279801 ATGCATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTAATATTATTCTTAATA
Found at i:18292223 original size:50 final size:50
Alignment explanation
Indices: 18292164--18292520 Score: 302
Period size: 50 Copynumber: 7.2 Consensus size: 50
18292154 AACTTGATTT
* * **
18292164 GGAG-CTTTTCCAAGATAAAATTTTTAAAGTTGTTGAGTTTCTATTGAGA
1 GGAGCCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
*
18292213 GGAG-CTTTTTCAAGA-G-AATTTTTAAAGTTGTTGAGCCTCTATAGAGA
1 GGAGCCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
* * ** *
18292260 GGAG-CTTTTTCCAAGATGAAA-TTTTAAAATTGTTAAGCCTCTGCTGAAA
1 GGAGCCTTTTT-CAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
* * * * *
18292309 AGAGCCTATTTT--AGATTTTAAA-TTTTAAAGTTATTGAGCCTCCATTGGGA
1 GGAGCCT-TTTTCAAGA--TGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
* * * * *
18292359 TGAGCCCTTTTCAATATGAGATTCTTAAAGTTGTTGAGCCTCTATTGAGA
1 GGAGCCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
* * *
18292409 AGAGCCATTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGTTGAGA
1 GGAGCCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
* * * ** * *
18292459 GGAGTCTTTTTC-AGATTTTAAATTTTCAAAAGTTGTCAAGCCTCAAGTGAGA
1 GGAGCCTTTTTCAAGA--TGAAATTTT-TAAAGTTGTTGAGCCTCTATTGAGA
*
18292511 GGAGCATTTT
1 GGAGCCTTTT
18292521 CGATTTGATG
Statistics
Matches: 247, Mismatches: 48, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
47 38 0.15
48 8 0.03
49 50 0.20
50 110 0.45
51 14 0.06
52 27 0.11
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (50 bp):
GGAGCCTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTATTGAGA
Found at i:18292501 original size:52 final size:49
Alignment explanation
Indices: 18292427--18292526 Score: 112
Period size: 52 Copynumber: 2.0 Consensus size: 49
18292417 TTTCAAGATG
* ** * *
18292427 AAATTTTTAAAGTTGTTGAGCCTC-TGTTGAGAGGAGTCTTTTTCAGATTTT
1 AAATTTTAAAAGTTGTCAAGCCTCAAG-TGAGAGGAG-CATTTTC-GATTTT
18292478 AAATTTTCAAAAGTTGTCAAGCCTCAAGTGAGAGGAGCATTTTCGATTT
1 AAATTTT-AAAAGTTGTCAAGCCTCAAGTGAGAGGAGCATTTTCGATTT
18292527 GATGAGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 5 0.12
51 13 0.31
52 23 0.55
53 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (49 bp):
AAATTTTAAAAGTTGTCAAGCCTCAAGTGAGAGGAGCATTTTCGATTTT
Found at i:18296479 original size:3 final size:3
Alignment explanation
Indices: 18296465--18296687 Score: 112
Period size: 3 Copynumber: 77.0 Consensus size: 3
18296455 ATCAATTTTC
* *
18296465 ATT ATT AGT ATT ATT -TT ATT -CT ATT ATT ATT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
18296510 ATT ATT GTAT AAT ATT -GT ATT ATT ATT ATT ATT ATT ATT ATT -GT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
18296554 ATA ATAT AGT A-T AAT ATT -GT ATA ATAT AGT A-T AAT ATT -GT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * *
18296597 ATT ATT ATT ATT ATC ATC ATC ATC ATT ATT ATT GTAT AGT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* *
18296642 ATT A-T ATAT ATT -TT -TT ATT TTT ATT ATT ATT ATT CTT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18296685 ATT
1 ATT
18296688 TCTTTTCCTT
Statistics
Matches: 169, Mismatches: 34, Indels: 34
0.71 0.14 0.14
Matches are distributed among these distances:
2 21 0.12
3 141 0.83
4 7 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:18296527 original size:10 final size:10
Alignment explanation
Indices: 18296512--18296595 Score: 86
Period size: 10 Copynumber: 8.8 Consensus size: 10
18296502 ATATTATTAT
18296512 TATTGTATAA
1 TATTGTATAA
18296522 TATTGTAT--
1 TATTGTATAA
* *
18296530 TATTAT-TAT
1 TATTGTATAA
* *
18296539 TATTAT-TAT
1 TATTGTATAA
18296548 TATTGTATAA
1 TATTGTATAA
*
18296558 TATAGTATAA
1 TATTGTATAA
18296568 TATTGTATAA
1 TATTGTATAA
*
18296578 TATAGTATAA
1 TATTGTATAA
18296588 TATTGTAT
1 TATTGTAT
18296596 TATTATTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 14 0.22
10 44 0.69
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (10 bp):
TATTGTATAA
Found at i:18297535 original size:17 final size:17
Alignment explanation
Indices: 18297513--18297589 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 17
18297503 AGGTTTCCTT
18297513 TTTATTTTTATTTTTAG
1 TTTATTTTTATTTTTAG
*
18297530 TTTATTTTTTGATTTGATTTG
1 TTTA-TTTTT-ATTT--TTAG
18297551 ATTTGATTTTT-TTTTTAAG
1 -TTT-ATTTTTATTTTT-AG
18297570 TTT-TATTTTATTTTTAG
1 TTTAT-TTTTATTTTTAG
18297587 TTT
1 TTT
18297590 TGTATCTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
16 1 0.02
17 13 0.27
18 15 0.31
19 5 0.10
20 3 0.06
21 3 0.06
22 8 0.16
23 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTATTTTTATTTTTAG
Found at i:18298539 original size:25 final size:25
Alignment explanation
Indices: 18298500--18298611 Score: 73
Period size: 25 Copynumber: 4.2 Consensus size: 25
18298490 GAGAATTTTT
18298500 TTTATTGCTTATACTTGC-TTAATTA
1 TTTATTGCTTATACTT-CTTTAATTA
* * *
18298525 TTTATTTCTTTTACTTCTTTCATTA
1 TTTATTGCTTATACTTCTTTAATTA
* * * *
18298550 TTTATACTTGCTTATTTATTTTTTTATTTT
1 -TT-TA-TTGCTTA--TACTTCTTTAATTA
* *
18298580 TTTCATTGCTTATACTTGTATAATTA
1 TTT-ATTGCTTATACTTCTTTAATTA
18298606 TTTATT
1 TTTATT
18298612 TATTATATAT
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
24 1 0.02
25 23 0.35
26 14 0.22
27 2 0.03
28 13 0.20
29 3 0.05
30 9 0.14
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTATTGCTTATACTTCTTTAATTA
Found at i:18298584 original size:38 final size:37
Alignment explanation
Indices: 18298522--18298615 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 37
18298512 ACTTGCTTAA
* *
18298522 TTATTTATTTCTTTTACTTCTTTCATTATTTATACTTG
1 TTATTTATTT-TTTTATTTCTTTCATTACTTATACTTG
* *
18298560 CTTATTTATTTTTTTATTTTTTTCATTGCTTATACTTG
1 -TTATTTATTTTTTTATTTCTTTCATTACTTATACTTG
* *
18298598 TATAATTATTTATTTATT
1 T-TATTTATTTTTTTATT
18298616 ATATATATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 37 0.77
39 10 0.21
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.67
Consensus pattern (37 bp):
TTATTTATTTTTTTATTTCTTTCATTACTTATACTTG
Found at i:18301762 original size:16 final size:16
Alignment explanation
Indices: 18301732--18301762 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18301722 AAATGTGTGC
*
18301732 AAAAAAGAAGAAAAAT
1 AAAAAAGAAAAAAAAT
18301748 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
18301763 GGGACAAAAG
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:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAT
Found at i:18302783 original size:120 final size:120
Alignment explanation
Indices: 18302582--18302810 Score: 282
Period size: 120 Copynumber: 1.9 Consensus size: 120
18302572 TGACTTGGAG
* *
18302582 TTCTGTCTCGATTAGCTATCTTTGACCTCGACTCGATCTTAGTCACTTTATCTTTTTGACTCATG
1 TTCTGTCTCGATTAGCTATCTTTGACCTCAACTCGATCCTAGTCACTTTATCTTTTTGACTCATG
** * *
18302647 ATTTTGTCTCGGTCATTTGATCTCAACTTAATCCAAATCATTTTCTAACTAGTGA
66 ATTTCATCCCGATCATTTGATCTCAACTTAATCCAAATCATTTTCTAACTAGTGA
* * * * *
18302702 TTCTGTTTCGGTTAG-TCATCTTTGACCTCAACTCGGTCCTGGTCA-TCTTATTTTTTTGACTCA
1 TTCTGTCTCGATTAGCT-ATCTTTGACCTCAACTCGATCCTAGTCACT-TTATCTTTTTGACTCA
* * * * *
18302765 TGGTTTCATCCCGATCATTTGATCTCGACTTAGTCTAAATTATTTT
64 TGATTTCATCCCGATCATTTGATCTCAACTTAATCCAAATCATTTT
18302811 TTGACTCGCG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
119 2 0.02
120 89 0.98
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (120 bp):
TTCTGTCTCGATTAGCTATCTTTGACCTCAACTCGATCCTAGTCACTTTATCTTTTTGACTCATG
ATTTCATCCCGATCATTTGATCTCAACTTAATCCAAATCATTTTCTAACTAGTGA
Found at i:18303199 original size:119 final size:120
Alignment explanation
Indices: 18302985--18303239 Score: 291
Period size: 120 Copynumber: 2.1 Consensus size: 120
18302975 TCCTAATAGA
* * * *
18302985 TTTATTTATTCGACTTACAATTTTATCTCAGTCATTCAATCTCAGCACAGTCCGATCATTTTTTA
1 TTTATTTATTTGACTCACAATTTTATCTCAGTCATTCAATCTCAGCACAATCCGATCATTTATTA
* * * * * *
18303050 ACTCATAATTGCGTTTCGATCAGCCAATTTT-GATCTCGACTTGATCTTGGTTAC
66 ACTCATAATTGCATCTCGATCAGCCAATTTTCGACCTCGACTCGATCTGGGTCAC
** **
18303104 TTTATTTATTTGACTCACAATTTTATCTTGGTCATTCAATCTCAGCTTAATCCAGATCATTTATT
1 TTTATTTATTTGACTCACAATTTTATCTCAGTCATTCAATCTCAGCACAATCC-GATCATTTATT
* ** * *
18303169 GACTTGTAGTTTCATCTC-AGTCAGCC-ATTTTCGACCTCGACTCGATCTGGGTCAC
65 AACTCATAATTGCATCTCGA-TCAGCCAATTTTCGACCTCGACTCGATCTGGGTCAC
*
18303224 TTTATTTTTTTGACTC
1 TTTATTTATTTGACTC
18303240 GTGGTTTCAT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
119 52 0.46
120 61 0.54
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (120 bp):
TTTATTTATTTGACTCACAATTTTATCTCAGTCATTCAATCTCAGCACAATCCGATCATTTATTA
ACTCATAATTGCATCTCGATCAGCCAATTTTCGACCTCGACTCGATCTGGGTCAC
Found at i:18303470 original size:3 final size:3
Alignment explanation
Indices: 18303456--18303598 Score: 79
Period size: 3 Copynumber: 50.0 Consensus size: 3
18303446 ACTAATTTTC
* * *
18303456 ATT ATT AAT ATT ATT -TT ATT A-T ATT ATT ATT ATT ATT AGT ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
18303501 AGT A-T AAT ATT -GT ATT ATT ATT ATT ATC ATC ATC ATC ATC ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
18303547 -GT ATGGT ATT A-T ATT A-T ATT -TT CTT ATT ATT ATT ATT ATT ATT
1 ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18303590 ATT ATT ATT
1 ATT ATT ATT
18303599 TCTCTTCCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
2 16 0.14
3 98 0.84
5 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:18304454 original size:5 final size:5
Alignment explanation
Indices: 18304444--18304506 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
18304434 TTTTTTCTAT
* * * *
18304444 TTTTA TTTTA -TTT- TTTGA TTTTA TTTTC TTTTA TTTTTA TTTT- CTTAA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
18304492 GTTTTA TTTTA TTTT
1 -TTTTA TTTTA TTTT
18304507 TAGTTTTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
4 7 0.16
5 30 0.67
6 8 0.18
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:18304496 original size:16 final size:15
Alignment explanation
Indices: 18304448--18304501 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
18304438 TTCTATTTTT
*
18304448 ATTTTA-TTT-TTTG
1 ATTTTATTTTCTTTA
18304461 ATTTTATTTTCTTTTA
1 ATTTTATTTTC-TTTA
*
18304477 TTTTTATTTTC-TTA
1 ATTTTATTTTCTTTA
18304491 AGTTTTATTTT
1 A-TTTTATTTT
18304502 ATTTTTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 9 0.26
16 13 0.38
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (15 bp):
ATTTTATTTTCTTTA
Found at i:18306301 original size:38 final size:36
Alignment explanation
Indices: 18306244--18306315 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 36
18306234 CTGTCCCAAG
*
18306244 AAATCCAATTCTATAACACAAAATCATCCAAAAACA
1 AAATCCAATTCAATAACACAAAATCATCCAAAAACA
*
18306280 AAATCCACATTCAATTAACACAAAATCATCTAAAAA
1 AAATCCA-ATTCAA-TAACACAAAATCATCCAAAAA
18306316 AAACCAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 7 0.22
37 5 0.16
38 20 0.62
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (36 bp):
AAATCCAATTCAATAACACAAAATCATCCAAAAACA
Found at i:18306674 original size:3 final size:3
Alignment explanation
Indices: 18306609--18306657 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
18306599 TGTAATATAG
18306609 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18306657 A
1 A
18306658 CAACAACAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18307248 original size:7 final size:7
Alignment explanation
Indices: 18307236--18307274 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
18307226 GGTAGGCTCA
18307236 TTTTATT
1 TTTTATT
18307243 TTTTATT
1 TTTTATT
*
18307250 TTGTATT
1 TTTTATT
*
18307257 TTATATT
1 TTTTATT
*
18307264 TTATATT
1 TTTTATT
18307271 TTTT
1 TTTT
18307275 TAACTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTTATT
Found at i:18307258 original size:14 final size:14
Alignment explanation
Indices: 18307239--18307349 Score: 55
Period size: 14 Copynumber: 7.7 Consensus size: 14
18307229 AGGCTCATTT
*
18307239 TATTTTTTATTTTG
1 TATTTTTTATTTTA
*
18307253 TATTTTATATTTTA
1 TATTTTTTATTTTA
* *
18307267 TATTTTTTTAACTTATG
1 TA-TTTTTT-A-TTTTA
*
18307284 TATTTATTA-TTTA
1 TATTTTTTATTTTA
*
18307297 T-TTATTTATTATTA
1 TATTTTTTATT-TTA
* * *
18307311 CTATTTATTAATATA
1 -TATTTTTTATTTTA
* *
18307326 TATATTTTATTTTT
1 TATTTTTTATTTTA
*
18307340 TATTATTTAT
1 TATTTTTTAT
18307350 CTGTTAATAT
Statistics
Matches: 69, Mismatches: 21, Indels: 14
0.66 0.20 0.13
Matches are distributed among these distances:
12 5 0.07
13 4 0.06
14 34 0.49
15 9 0.13
16 12 0.17
17 5 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTATTTTA
Found at i:18307293 original size:3 final size:3
Alignment explanation
Indices: 18307287--18307417 Score: 63
Period size: 3 Copynumber: 40.7 Consensus size: 3
18307277 ACTTATGTAT
* *
18307287 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA -TA TATA TT-
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* *
18307332 TTA TT- TT- TTA TTA TTTA TCTG TTA ATA TATA TTTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA -TTA TTA TTA -TTA
* *
18307377 TCTA TTA TTA TTA TTA TTA TTTA TCTA TTA ATA TTT TTA TT
1 T-TA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TT
18307418 TATCTAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 28
0.73 0.08 0.20
Matches are distributed among these distances:
2 8 0.08
3 57 0.55
4 37 0.36
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:18307296 original size:7 final size:7
Alignment explanation
Indices: 18307279--18307420 Score: 89
Period size: 7 Copynumber: 19.6 Consensus size: 7
18307269 TTTTTTTAAC
18307279 TTATGTAT
1 TTAT-TAT
18307287 TTATTAT
1 TTATTAT
18307294 TTATTTAT
1 TTA-TTAT
18307302 TTATTA-
1 TTATTAT
*
18307308 TTACTAT
1 TTATTAT
18307315 TTATTAAT
1 TTATT-AT
*
18307323 ATATATATT
1 TTAT-TA-T
*
18307332 TTATTTT
1 TTATTAT
18307339 TTATTAT
1 TTATTAT
*
18307346 TTATCTGT
1 TTAT-TAT
18307354 TAATATATAT
1 T--TAT-TAT
18307364 TTATTA-
1 TTATTAT
18307370 TTATTTAT
1 TTA-TTAT
*
18307378 CTATTA-
1 TTATTAT
18307384 TTATTA-
1 TTATTAT
18307390 TTATTAT
1 TTATTAT
18307397 TTATCTA-
1 TTAT-TAT
*
18307404 TTAATAT
1 TTATTAT
18307411 TT-TTAT
1 TTATTAT
18307417 TTAT
1 TTAT
18307421 CTAATTATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
6 26 0.24
7 42 0.39
8 28 0.26
9 5 0.05
10 6 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:18307371 original size:35 final size:36
Alignment explanation
Indices: 18307293--18307392 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 36
18307283 GTATTTATTA
*
18307293 TTTATTTATTTATTATTACTATTTATTAATATATATAT
1 TTTATTT-TTTATTATTA-TATCTATTAATATATATAT
*
18307331 TTTATTTTTTATTATT-TATCTGTTAATATATAT-T
1 TTTATTTTTTATTATTATATCTATTAATATATATAT
*
18307365 TATTATTATTTATCTATTATTAT-TATTA
1 T-TTATTTTTTAT-TATTA-TATCTATTA
18307393 TTATTTATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.04
35 25 0.46
36 4 0.07
37 13 0.24
38 10 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (36 bp):
TTTATTTTTTATTATTATATCTATTAATATATATAT
Found at i:18307425 original size:17 final size:17
Alignment explanation
Indices: 18307339--18307431 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 17
18307329 ATTTTATTTT
*
18307339 TTATTATTTATCTGTTAA
1 TTATT-TTTATCTATTAA
* *
18307357 TATATATTTAT-TATTAT
1 T-TATTTTTATCTATTAA
*
18307374 TTATCTATTAT-TATT-A
1 TTAT-TTTTATCTATTAA
18307390 TTATTATTTATCTATTAA
1 TTATT-TTTATCTATTAA
*
18307408 -TATTTTTATTTATCTAA
1 TTATTTTTATCTAT-TAA
18307425 TTATTTT
1 TTATTTT
18307432 CTTTTAATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
15 1 0.02
16 19 0.32
17 24 0.40
18 13 0.22
19 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (17 bp):
TTATTTTTATCTATTAA
Found at i:18308313 original size:6 final size:6
Alignment explanation
Indices: 18308285--18308427 Score: 80
Period size: 6 Copynumber: 23.3 Consensus size: 6
18308275 CGTTCCCAGG
* *
18308285 TTTTT- TTTTTA TTTATT- TATTTA TTTTTA TTTTTA TTATTA TTTATTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
* * * * *** *
18308333 TTATTA TTATTA TTATTA TTTGTTTA TTACATTA GAATTA TTTAGTA TTTCTTA
1 TTTTTA TTTTTA TTTTTA -TT-TTTA TT--TTTA TTTTTA TTT-TTA TTT-TTA
*
18308387 -TTTTA -TTTTA -TTTTA TTTTTA TCTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
18308428 ATTTTCTTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
5 20 0.18
6 67 0.60
7 18 0.16
8 6 0.05
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:18308325 original size:3 final size:3
Alignment explanation
Indices: 18308305--18308352 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
18308295 ATTTATTTAT
* *
18308305 TTA TTT TTA TTT TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
18308351 TT
1 TT
18308353 TGTTTATTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:18308326 original size:22 final size:22
Alignment explanation
Indices: 18308285--18308432 Score: 90
Period size: 22 Copynumber: 6.5 Consensus size: 22
18308275 CGTTCCCAGG
18308285 TTTTT-TTTTTATTTATTTATTTA
1 TTTTTATTTTTA-TTA-TTATTTA
18308308 TTTTTATTTTTATTATTATTTA
1 TTTTTATTTTTATTATTATTTA
* *
18308330 TTATTATTATTATTATTA-TTA
1 TTTTTATTTTTATTATTATTTA
* **
18308351 TTTGTTTATTACATTAGAATTATTTA
1 -TT-TTTATT--TTTATTATTATTTA
18308377 GTATTTCT-TATTTTATT-TTATTTTA
1 -T-TTT-TAT-TTTTATTATTA-TTTA
* *
18308402 TTTTTATCTTTATTTTTATTT-
1 TTTTTATTTTTATTATTATTTA
*
18308423 TTATTATTTT
1 TTTTTATTTT
18308433 CTTTAAATAA
Statistics
Matches: 101, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
21 11 0.11
22 35 0.35
23 20 0.20
24 10 0.10
25 15 0.15
26 7 0.07
27 3 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTATTTTTATTATTATTTA
Found at i:18308394 original size:5 final size:5
Alignment explanation
Indices: 18308384--18308432 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
18308374 TTAGTATTTC
*
18308384 TTATT TTATT TTATT TTATTT TTATCT TTATTT TTATT TT-TA TTATT
1 TTATT TTATT TTATT TTA-TT TTAT-T TTA-TT TTATT TTATT TTATT
18308431 TT
1 TT
18308433 CTTTAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 3 0.08
5 21 0.55
6 13 0.34
7 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:18308437 original size:12 final size:12
Alignment explanation
Indices: 18308378--18308437 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
18308368 AATTATTTAG
18308378 TATTTCTTAT-TT
1 TATTT-TTATCTT
18308390 TA-TTTTAT-TT
1 TATTTTTATCTT
18308400 TATTTTTATCTT
1 TATTTTTATCTT
*
18308412 TATTTTTATTTT
1 TATTTTTATCTT
18308424 TATTATTT-TCTT
1 TATT-TTTATCTT
18308436 TA
1 TA
18308438 AATAAAATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
10 8 0.19
11 8 0.19
12 24 0.56
13 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTATCTT
Found at i:18308601 original size:58 final size:58
Alignment explanation
Indices: 18308450--18308650 Score: 323
Period size: 58 Copynumber: 3.4 Consensus size: 58
18308440 TAAAATTCAA
* *
18308450 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTTCT
1 AAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-CTTTCT
* *
18308510 AAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
18308569 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
18308627 AAAAAATATTTTT-AGGGAAAAGTT
1 AAAAAATATTTTTGA-GGAAAAGTT
18308651 CACGAAAGCA
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
57 1 0.01
58 78 0.59
59 5 0.04
60 44 0.33
61 5 0.04
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
Found at i:18311681 original size:16 final size:17
Alignment explanation
Indices: 18311638--18311678 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
18311628 ATTTAACATT
18311638 AAAAAAAAT-AAAAAGA
1 AAAAAAAATGAAAAAGA
*
18311654 AAATAAAAATGAAGAAGA
1 AAA-AAAAATGAAAAAGA
18311672 AAAAAAA
1 AAAAAAA
18311679 TGACTGCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAAAATGAAAAAGA
Found at i:18311903 original size:118 final size:118
Alignment explanation
Indices: 18311693--18312031 Score: 465
Period size: 118 Copynumber: 2.9 Consensus size: 118
18311683 TGCTTTTGTG
* * *
18311693 CAAGAAAAATTGATACTTTCAAC-TTTCCTCAAAAAT-TCATTTTT-GAAAACTTATTTTTAAGA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTAGAAAGCTTATTTTCAAGG
* * * * *
18311755 AAAATTGCTACTTTCAACTTTTTCCT-AAAAATAGTTTTTTTG-GAAAGCTTATTTT
64 AAAATTGATACTTTTAAC-TTTTCCTCAAAAATA-TTTTTTAGAAAAAACTTATTTT
*
18311810 CAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
*
18311875 AATTAATACTTTTAACTTTTCCTCAAAAATA-TTTTTAGAAAAAAACTTATTTT
66 AATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAG-AAAAAACTTATTTT
* * *
18311928 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGGAAGCTTATTTTCAAGGA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTTCAAGGA
18311993 AAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTA
65 AAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTA
18312032 TATATTTTTA
Statistics
Matches: 199, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
116 6 0.03
117 35 0.18
118 95 0.48
119 57 0.29
120 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (118 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAA
AATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTT
Found at i:18312011 original size:59 final size:59
Alignment explanation
Indices: 18311693--18312030 Score: 443
Period size: 60 Copynumber: 5.7 Consensus size: 59
18311683 TGCTTTTGTG
* *
18311693 CAAGAAAAATTGATACTTTCAAC-TTTCCTCAAAAAT-TCATTTTT-GAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAAGCTTATTTT
* * *
18311750 TAAGAAAAATTGCTACTTTCAACTTTTTCCT-AAAAATAGTTTTTTTGGAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TTTTTTTAGAAAGCTTATTTT
*
18311810 CAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTAGAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* * * ** * *
18311868 CAAGGAAAATTAATACTTTTAACTTTTCCTCAAAAATATTTTTAGAAAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TTAGAAAGCTTATTTT
* * *
18311928 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGGAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* *
18311987 CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
18312031 ATATATTTTT
Statistics
Matches: 247, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.09
58 59 0.24
59 74 0.30
60 93 0.38
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
Found at i:18314554 original size:3 final size:3
Alignment explanation
Indices: 18314546--18314590 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
18314536 ATCATAGCTA
* * * *
18314546 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18314591 CTCTTAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18315281 original size:38 final size:38
Alignment explanation
Indices: 18315233--18315305 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
18315223 ACATTATTCA
*
18315233 ATATTTAAATTATTAA-AATATAATTTTATTTTACTTTT
1 ATATCTAAATTA-TAAGAATATAATTTTATTTTACTTTT
*
18315271 ATATCTAAATTATAAGTATATAATTTTATTTTACT
1 ATATCTAAATTATAAGAATATAATTTTATTTTACT
18315306 CCCATTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (38 bp):
ATATCTAAATTATAAGAATATAATTTTATTTTACTTTT
Found at i:18317115 original size:3 final size:3
Alignment explanation
Indices: 18317107--18317138 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18317097 TTCTTACAAA
18317107 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18317139 ATGACCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18319015 original size:57 final size:54
Alignment explanation
Indices: 18318954--18319066 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 54
18318944 TTCTTTAATA
* * *
18318954 ATTTTGTTTCAAGCTCTATTAGTTGATATGGGTGTAGTAGTCCCTCTTTATGATTTT
1 ATTTTATTTCAAGCTCTATTAGTTGATATGAGTATAGTAGT--C-CTTTATGATTTT
*
18319011 ATTTTATTTCAAGCTCTATTAGTTGATATGAGTATTGTAGTCCTTTATGATTTT
1 ATTTTATTTCAAGCTCTATTAGTTGATATGAGTATAGTAGTCCTTTATGATTTT
18319065 AT
1 AT
18319067 ACTTCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 14 0.27
55 1 0.02
57 37 0.71
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (54 bp):
ATTTTATTTCAAGCTCTATTAGTTGATATGAGTATAGTAGTCCTTTATGATTTT
Found at i:18322841 original size:2 final size:2
Alignment explanation
Indices: 18322834--18322864 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18322824 GGCATGATGA
18322834 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
18322865 AGCAGTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18324452 original size:5 final size:5
Alignment explanation
Indices: 18324442--18324467 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18324432 CCGATTATTA
18324442 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
18324468 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:18324513 original size:13 final size:14
Alignment explanation
Indices: 18324497--18324529 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18324487 ATTAAATTTT
18324497 TTAATTT-TAAAAA
1 TTAATTTATAAAAA
*
18324510 TTAATTTATTAAAA
1 TTAATTTATAAAAA
18324524 TTAATT
1 TTAATT
18324530 CAATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAATTTATAAAAA
Found at i:18324698 original size:28 final size:30
Alignment explanation
Indices: 18324641--18324698 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
18324631 GATTATTCAA
*
18324641 TAAAAATATTTAAATATCTAAATATTAAAT
1 TAAAAATATTTAAATATCTAAATATAAAAT
*
18324671 TAAAAAT-TTT-AATAATTTAAA-ATAAAAT
1 TAAAAATATTTAAAT-ATCTAAATATAAAAT
18324699 GAGTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAAAATATTTAAATATCTAAATATAAAAT
Found at i:18326118 original size:76 final size:76
Alignment explanation
Indices: 18325992--18326143 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
18325982 AACTGTCTGG
*
18325992 CTCTAATAAACAGTGGAGCTGTGAATTCAATGATCGTAAAATTCTGAAAATCGATTAAATTGATT
1 CTCTAATAAACAGTAGAGCTGTGAATTCAATGATCGTAAAATTCTGAAAATCGATTAAATTGATT
18326057 TAATTTTTTTA
66 TAATTTTTTTA
*
18326068 CTCTAATAAACAGTAGAGCTGTGAATTCAATGATTGTAAAATTCTGAAAATCGATTAAATTGATT
1 CTCTAATAAACAGTAGAGCTGTGAATTCAATGATCGTAAAATTCTGAAAATCGATTAAATTGATT
18326133 TAATTTTTTTA
66 TAATTTTTTTA
18326144 AAAATTGAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (76 bp):
CTCTAATAAACAGTAGAGCTGTGAATTCAATGATCGTAAAATTCTGAAAATCGATTAAATTGATT
TAATTTTTTTA
Found at i:18327090 original size:4 final size:4
Alignment explanation
Indices: 18327081--18327136 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
18327071 ATTATAATTG
* * * * *
18327081 TTTA TTTA TTTG TTTG TTTA TTTG TTCA TTTTA TTTA TTTA TGTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA
18327130 TTTA TTT
1 TTTA TTT
18327137 GTAAATAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
4 40 0.93
5 3 0.07
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:18327095 original size:12 final size:12
Alignment explanation
Indices: 18327068--18327136 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
18327058 ATCCTTGTAT
*
18327068 TTTATTATAATTG
1 TTTATT-TATTTG
18327081 TTTATTTATTTG
1 TTTATTTATTTG
*
18327093 TTTGTTTATTTG
1 TTTATTTATTTG
* *
18327105 TTCATTTTATTTA
1 TTTA-TTTATTTG
* *
18327118 TTTATGTATTTA
1 TTTATTTATTTG
18327130 TTTATTT
1 TTTATTT
18327137 GTAAATAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
12 31 0.66
13 16 0.34
ACGTcount: A:0.20, C:0.01, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:18345194 original size:11 final size:11
Alignment explanation
Indices: 18345180--18345265 Score: 58
Period size: 11 Copynumber: 8.2 Consensus size: 11
18345170 TTCAAAATTA
*
18345180 TTAAATTGAAT
1 TTAAATTAAAT
18345191 TTAAA-T-AAT
1 TTAAATTAAAT
18345200 TT-AATTAAAT
1 TTAAATTAAAT
*
18345210 TATAAATCAAAT
1 T-TAAATTAAAT
18345222 TTAAA-TATAA-
1 TTAAATTA-AAT
* *
18345232 TAAAATAAAAT
1 TTAAATTAAAT
*
18345243 TT-GATTAAAT
1 TTAAATTAAAT
*
18345253 TAAAATTAAAT
1 TTAAATTAAAT
18345264 TT
1 TT
18345266 CGGACCTCCC
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
8 2 0.04
9 6 0.11
10 19 0.33
11 22 0.39
12 8 0.14
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:18345196 original size:19 final size:20
Alignment explanation
Indices: 18345174--18345216 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18345164 AATTTATTCA
* *
18345174 AAATTATTAAATTGAATT-T
1 AAATAATTAAATTAAATTAT
*
18345193 AAATAATTTAATTAAATTAT
1 AAATAATTAAATTAAATTAT
18345213 AAAT
1 AAAT
18345217 CAAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATAATTAAATTAAATTAT
Found at i:18345256 original size:21 final size:21
Alignment explanation
Indices: 18345197--18345265 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
18345187 GAATTTAAAT
*
18345197 AATTTAATTAAATTATAAATCA
1 AATTTAATTAAATTA-AAATAA
*
18345219 AATTTAAATATAA-TAAAATAA
1 AATTTAATTA-AATTAAAATAA
* *
18345240 AATTTGATTAAATTAAAATTA
1 AATTTAATTAAATTAAAATAA
18345261 AATTT
1 AATTT
18345266 CGGACCTCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.05
21 25 0.62
22 11 0.28
23 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
AATTTAATTAAATTAAAATAA
Found at i:18353308 original size:14 final size:14
Alignment explanation
Indices: 18353289--18353321 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18353279 GTATCCTTTT
18353289 CTTTATTAAAGCTA
1 CTTTATTAAAGCTA
*
18353303 CTTTATTAAAGTTA
1 CTTTATTAAAGCTA
18353317 CTTTA
1 CTTTA
18353322 CTATTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (14 bp):
CTTTATTAAAGCTA
Found at i:18354493 original size:24 final size:25
Alignment explanation
Indices: 18354447--18354497 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
18354437 AGAGAAATTT
18354447 AGAAACATATGCTCTATATTTCACAA
1 AGAAACATA-GCTCTATATTTCACAA
*
18354473 AGAAACATA-CTTTATATTTCACAA
1 AGAAACATAGCTCTATATTTCACAA
18354497 A
1 A
18354498 AGTTTCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.62
26 9 0.38
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (25 bp):
AGAAACATAGCTCTATATTTCACAA
Found at i:18361904 original size:26 final size:27
Alignment explanation
Indices: 18361870--18361920 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
18361860 TTTTAAAATT
18361870 TAAACATTATGGATGA-AAATATAACA
1 TAAACATTATGGATGATAAATATAACA
*
18361896 TAAAGATTATGGATGATAAATATAA
1 TAAACATTATGGATGATAAATATAA
18361921 TTAACTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (27 bp):
TAAACATTATGGATGATAAATATAACA
Found at i:18376501 original size:20 final size:20
Alignment explanation
Indices: 18376476--18376524 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
18376466 TGATGTGGCC
18376476 ATTGACTTTGTCAATGTGTT
1 ATTGACTTTGTCAATGTGTT
18376496 ATTGACTTTGTCAATGTGTT
1 ATTGACTTTGTCAATGTGTT
18376516 ATTGACTTT
1 ATTGACTTT
18376525 CTATCATGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.51
Consensus pattern (20 bp):
ATTGACTTTGTCAATGTGTT
Found at i:18376772 original size:3 final size:3
Alignment explanation
Indices: 18376766--18376791 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18376756 TTTGTCATCA
18376766 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
18376792 ATCTTTAAAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18377616 original size:12 final size:11
Alignment explanation
Indices: 18377588--18377613 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18377578 TTTTTATTGA
18377588 TTTTATGTTAT
1 TTTTATGTTAT
18377599 TTTTATGTTAT
1 TTTTATGTTAT
18377610 TTTT
1 TTTT
18377614 TATATAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTATGTTAT
Found at i:18379831 original size:17 final size:16
Alignment explanation
Indices: 18379809--18379845 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
18379799 TCTTCCCATA
18379809 ATTTATTATTATTATTT
1 ATTTATTATTATTA-TT
*
18379826 ATTTATTTTTATTATT
1 ATTTATTATTATTATT
18379842 ATTT
1 ATTT
18379846 CAAAAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTATTATTATTATT
Found at i:18379999 original size:32 final size:33
Alignment explanation
Indices: 18379949--18380023 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
18379939 GCATGAATAA
* * *
18379949 AATATAAACTAAAATAAAATGATAATAATGAAAG
1 AATA-AAAATAAAATAAAATAATAATAATAAAAG
* *
18379983 AA-AAAAATAAAGTAAAATAATAATAATAAAAT
1 AATAAAAATAAAATAAAATAATAATAATAAAAG
18380015 AATAAAAAT
1 AATAAAAAT
18380024 CAAACAATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 26 0.74
33 7 0.20
34 2 0.06
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (33 bp):
AATAAAAATAAAATAAAATAATAATAATAAAAG
Found at i:18380032 original size:22 final size:22
Alignment explanation
Indices: 18380007--18380049 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18379997 AAATAATAAT
*
18380007 AATA-AAATAATAAAAATCAAAC
1 AATAGAAA-AATAAAAAGCAAAC
*
18380029 AATAGAAAAATACAAAGCAAA
1 AATAGAAAAATAAAAAGCAAA
18380050 ATATTTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (22 bp):
AATAGAAAAATAAAAAGCAAAC
Found at i:18385580 original size:12 final size:13
Alignment explanation
Indices: 18385531--18385601 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 13
18385521 TTGCAACTCG
18385531 AAAATAGAAAGAA
1 AAAATAGAAAGAA
*
18385544 AGAAATA-ATAG--
1 A-AAATAGAAAGAA
18385555 AAAATAGAAAGAA
1 AAAATAGAAAGAA
*
18385568 AAAATAG-AGGAA
1 AAAATAGAAAGAA
* *
18385580 AAGAGAGAAAAGAA
1 AAAATAG-AAAGAA
18385594 AAAA-AGAA
1 AAAATAGAA
18385602 TCCAAAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
10 5 0.11
11 4 0.09
12 11 0.24
13 13 0.29
14 12 0.27
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
AAAATAGAAAGAA
Found at i:18386097 original size:3 final size:3
Alignment explanation
Indices: 18386089--18386265 Score: 124
Period size: 3 Copynumber: 62.7 Consensus size: 3
18386079 GAATCAATTT
* * *
18386089 TTA TTA TTA TCA TTA TT- TT- TTG TTA TTA TTA TTA TT- TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
18386134 CTA TTG GTA TTA TTA CTA -TA CTA -TA TCA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
18386179 -TA TCA CTA TTA TTA TTA -TA TTA TTA TTA TTA TTA -TA GTA GCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
18386223 TTA -TA TTA TTA CTA CTA TTA TTA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18386266 TATTTTTTCT
Statistics
Matches: 140, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
2 20 0.14
3 120 0.86
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:18386114 original size:19 final size:19
Alignment explanation
Indices: 18386086--18386132 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
18386076 ATCGAATCAA
18386086 TTTTTATTATTATCATTAT
1 TTTTTATTATTATCATTAT
* *
18386105 TTTTTGTTATTATTATTAT
1 TTTTTATTATTATCATTAT
18386124 TTTATTATT
1 TTT-TTATT
18386133 GCTATTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTATTATTATCATTAT
Found at i:18397847 original size:52 final size:52
Alignment explanation
Indices: 18397754--18397883 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 52
18397744 TTGCTTGAGC
* * * ** *
18397754 AAAAAAACAAGTTCAAATTGAAAACTCTAAAAAACGGCTTGAGCAAATTAAA
1 AAAAAAAAAAGTTCAAGTTGAAAACTCGAAAAAACAACTTGAGCAAATGAAA
* * ** *
18397806 AAAAAAAGAAGTTCAAGTTGAAAGCTCGAAAAAGTAACTTGAGCGAATGAAA
1 AAAAAAAAAAGTTCAAGTTGAAAACTCGAAAAAACAACTTGAGCAAATGAAA
*
18397858 AAAAAAGATAAAGTTCAAGTTAAAAA
1 AAAAAA-A-AAAGTTCAAGTTGAAAA
18397884 TTCGGAAAGG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
52 48 0.76
53 1 0.02
54 14 0.22
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.18
Consensus pattern (52 bp):
AAAAAAAAAAGTTCAAGTTGAAAACTCGAAAAAACAACTTGAGCAAATGAAA
Found at i:18399543 original size:50 final size:50
Alignment explanation
Indices: 18399421--18399546 Score: 157
Period size: 50 Copynumber: 2.5 Consensus size: 50
18399411 ATGTTTTGTC
* **
18399421 ATTATTATTATTTTATTATTGCTATTAGTATTATTACTATACTATATCAT
1 ATTATTATTATATTATTATTATTATTAGTATTATTACTATACTATATCAT
* * *
18399471 ATTATTATTATTATTATTATTATTATTATTA-TATTA-TAGTAGTATATTAT
1 ATTATTATTA-TATTATTATTATTATTAGTATTATTACTA-TACTATATCAT
18399521 ATTATTATTACTATTATTATTATTAT
1 ATTATTATTA-TATTATTATTATTAT
18399547 CCCTATTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.03
50 49 0.73
51 16 0.24
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (50 bp):
ATTATTATTATATTATTATTATTATTAGTATTATTACTATACTATATCAT
Found at i:18399556 original size:3 final size:3
Alignment explanation
Indices: 18399421--18399546 Score: 115
Period size: 3 Copynumber: 44.7 Consensus size: 3
18399411 ATGTTTTGTC
** * * *
18399421 ATT ATT ATT ATT -TT ATT ATT GCT ATT AGT ATT ATT ACT A-T ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
18399466 ATC A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A-T AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
18399511 AGT A-T ATT A-T ATT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18399547 CCCTATTATT
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
2 15 0.14
3 89 0.86
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:18400454 original size:25 final size:24
Alignment explanation
Indices: 18400426--18400480 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
18400416 TTTAATTTCT
* *
18400426 TTTTTTGATTTTGATTTTTTATTTA
1 TTTTTT-ATTTTAAGTTTTTATTTA
* *
18400451 TTTTCATATTTTAAGTTTTTATTTC
1 TTTT-TTATTTTAAGTTTTTATTTA
18400476 TTTTT
1 TTTTT
18400481 GGCTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTTATTTTAAGTTTTTATTTA
Found at i:18402021 original size:5 final size:5
Alignment explanation
Indices: 18402011--18402063 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
18402001 ATTTTTAAAT
* *
18402011 TTTTA TTTTA TTTTA -TTTA TTTCCA TTATT- TTTTA TTTTA TTTTA GTTTA
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TT-TTA TTTTA TTTTA TTTTA TTTTA
18402061 TTT
1 TTT
18402064 AAAAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 6 0.15
5 30 0.75
6 3 0.08
7 1 0.03
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:18402757 original size:26 final size:26
Alignment explanation
Indices: 18402703--18402762 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
18402693 TACTTTATTA
* * *
18402703 TTTGTTTATTTCTTTATGCATATATT
1 TTTGTTTATTTATTTATACATATAAT
* *
18402729 TTTGTTTATTTATTTATATATTTAAT
1 TTTGTTTATTTATTTATACATATAAT
*
18402755 TTTTTTTA
1 TTTGTTTA
18402763 CACATGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTGTTTATTTATTTATACATATAAT
Found at i:18410858 original size:37 final size:37
Alignment explanation
Indices: 18410808--18410882 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
18410798 ATAAATCCAA
18410808 ACTGATTGTGCTTCTTACCAATAATCTCCACAAGAAC
1 ACTGATTGTGCTTCTTACCAATAATCTCCACAAGAAC
18410845 ACTGATTGTGCTTCTTACCAATAATCTCCACAAGAAC
1 ACTGATTGTGCTTCTTACCAATAATCTCCACAAGAAC
18410882 A
1 A
18410883 AACTCCATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (37 bp):
ACTGATTGTGCTTCTTACCAATAATCTCCACAAGAAC
Found at i:18416510 original size:37 final size:37
Alignment explanation
Indices: 18416464--18416541 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
18416454 AAGAATATAA
*
18416464 CTATTAATATCAAGATCATTAATAGACAAGGCAATAT
1 CTATCAATATCAAGATCATTAATAGACAAGGCAATAT
*
18416501 CTATCAATATCAAGATCATTAATAGATAAGGCAATAT
1 CTATCAATATCAAGATCATTAATAGACAAGGCAATAT
18416538 CTAT
1 CTAT
18416542 ATATCCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (37 bp):
CTATCAATATCAAGATCATTAATAGACAAGGCAATAT
Found at i:18422218 original size:33 final size:33
Alignment explanation
Indices: 18422181--18422267 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
18422171 ATATAGGATA
*
18422181 TTTAAGAGCTTATATTATAAT-TTTGGAGATTTT
1 TTTAAGAGCTTAAATTATAATCTTTGGAGA-TTT
* * ** *
18422214 TTTAAAAACTTAGGTTATGATCTTTGGAGATTT
1 TTTAAGAGCTTAAATTATAATCTTTGGAGATTT
* *
18422247 TGTAAGAGGTTAAATTATAAT
1 TTTAAGAGCTTAAATTATAAT
18422268 AATTAGATTA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
33 33 0.80
34 8 0.20
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.46
Consensus pattern (33 bp):
TTTAAGAGCTTAAATTATAATCTTTGGAGATTT
Found at i:18427891 original size:15 final size:15
Alignment explanation
Indices: 18427871--18427905 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18427861 TTAATTTTGT
18427871 TAATAAATAATAAAA
1 TAATAAATAATAAAA
18427886 TAATAAATAATAAAA
1 TAATAAATAATAAAA
*
18427901 AAATA
1 TAATA
18427906 TATCGTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:18427971 original size:18 final size:18
Alignment explanation
Indices: 18427948--18427992 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
18427938 GGTTTGTAAA
18427948 GTTGGAATTAGGTTTAAG
1 GTTGGAATTAGGTTTAAG
18427966 GTTGGAATTAGGTTTAAG
1 GTTGGAATTAGGTTTAAG
18427984 GTTGGAATT
1 GTTGGAATT
18427993 CAAAGGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (18 bp):
GTTGGAATTAGGTTTAAG
Found at i:18428587 original size:8 final size:8
Alignment explanation
Indices: 18428576--18428613 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
18428566 CAAAACAAAA
18428576 AAAAATAG
1 AAAAATAG
*
18428584 AAAAAGA-
1 AAAAATAG
18428591 AAAAATAG
1 AAAAATAG
18428599 AAAAATAG
1 AAAAATAG
18428607 AAAAATA
1 AAAAATA
18428614 TTGATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAATAG
Found at i:18428595 original size:15 final size:15
Alignment explanation
Indices: 18428575--18428613 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
18428565 TCAAAACAAA
18428575 AAAAAATAGAAAAAG
1 AAAAAATAGAAAAAG
*
18428590 AAAAAATAGAAAAAT
1 AAAAAATAGAAAAAG
18428605 AGAAAAATA
1 A-AAAAATA
18428614 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAAATAGAAAAAG
Found at i:18428873 original size:26 final size:24
Alignment explanation
Indices: 18428822--18428874 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
18428812 CAATGATGAG
**
18428822 ATTCTTAAAAATTTTAAATGGTAA
1 ATTCTTAAAAATTTTAAATGAAAA
*
18428846 ATTCTTAAAAAATCTTTAGATGAAAA
1 ATTCTT-AAAAAT-TTTAAATGAAAA
18428872 ATT
1 ATT
18428875 TCTTTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 6 0.25
26 12 0.50
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTCTTAAAAATTTTAAATGAAAA
Found at i:18429126 original size:56 final size:57
Alignment explanation
Indices: 18429004--18429123 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 57
18428994 CAATTGGTGA
* * **
18429004 AAAATTTAGAAATCCAACAAAGAAAAGAGAGAATTTCTAACTAGGCCTAAATTGTGG
1 AAAATTTAGAAATCCAACAAAGAAAAGAGAAAATTTCTAACTAGGCCAAAATAATGG
* * * *
18429061 AAAATTTAGAAATCTAAGAAA-AAAAGA-AAATATTTCTAATTTGGCCAAAATAATGG
1 AAAATTTAGAAATCCAACAAAGAAAAGAGAAA-ATTTCTAACTAGGCCAAAATAATGG
18429117 AATAATT
1 AA-AATT
18429124 AGATATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 2 0.04
56 28 0.53
57 23 0.43
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (57 bp):
AAAATTTAGAAATCCAACAAAGAAAAGAGAAAATTTCTAACTAGGCCAAAATAATGG
Found at i:18433002 original size:16 final size:16
Alignment explanation
Indices: 18432964--18433019 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
18432954 CTAATAGATG
*
18432964 GAAAAAAGAGAAAAAAA
1 GAAAAAAG-GAAAAAAT
*
18432981 GGAAAAAGGAAAAAAT
1 GAAAAAAGGAAAAAAT
** *
18432997 GAAAAAAATAATAAAT
1 GAAAAAAGGAAAAAAT
18433013 GAAAAAA
1 GAAAAAA
18433020 ATGTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 26 0.79
17 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (16 bp):
GAAAAAAGGAAAAAAT
Found at i:18433005 original size:9 final size:9
Alignment explanation
Indices: 18432990--18433030 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
18432980 AGGAAAAAGG
18432990 AAAAAATGA
1 AAAAAATGA
18432999 AAAAAAT--
1 AAAAAATGA
*
18433006 AATAAATGA
1 AAAAAATGA
18433015 AAAAAATGTA
1 AAAAAATG-A
18433025 AAAAAA
1 AAAAAA
18433031 ATAGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (9 bp):
AAAAAATGA
Found at i:18433767 original size:70 final size:70
Alignment explanation
Indices: 18433642--18433819 Score: 157
Period size: 70 Copynumber: 2.5 Consensus size: 70
18433632 GGATCAGTGA
* *
18433642 ATGAAATTCACTT-TGGAATGGCTAGTACTGAAAAGCCTGTCAATGGTGATCAAATGATGA-AGA
1 ATGAAATTCA-TTCTGGAATGGCTAATACTGAAAAGCCTGTCAATGATGATCAAATGAT-ATAGA
18433705 CCAATGG
64 CCAATGG
* * * * *
18433712 ATGAAATTCATTCTGGAATGGTTAATGCTGACAAGCCTGT-AAGTTATGAGT-AAATGATATAGG
1 ATGAAATTCATTCTGGAATGGCTAATACTGAAAAGCCTGTCAA-TGATGA-TCAAATGATATAGA
**
18433775 GTAATGG
64 CCAATGG
* * * * **
18433782 ATGAAATTTATTCTGAAATTGCTAGTGTTGAAAAGCCT
1 ATGAAATTCATTCTGGAATGGCTAATACTGAAAAGCCT
18433820 ATAAATTGTG
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
69 5 0.06
70 82 0.93
71 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (70 bp):
ATGAAATTCATTCTGGAATGGCTAATACTGAAAAGCCTGTCAATGATGATCAAATGATATAGACC
AATGG
Found at i:18434252 original size:21 final size:22
Alignment explanation
Indices: 18434223--18434264 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18434213 AAGTCATGAA
18434223 TCTTCAAATAAGAACCTCTAAG
1 TCTTCAAATAAGAACCTCTAAG
* *
18434245 TCTT-AAATGAGAATCTCTAA
1 TCTTCAAATAAGAACCTCTAA
18434265 TATGTTTTTA
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:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (22 bp):
TCTTCAAATAAGAACCTCTAAG
Found at i:18434300 original size:46 final size:46
Alignment explanation
Indices: 18434225--18434910 Score: 637
Period size: 46 Copynumber: 14.8 Consensus size: 46
18434215 GTCATGAATC
* * * * *
18434225 TTCAAATAAGAACCTCTAAGTCTTAAATGAGAATCTCTAATATGTT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATGTT
* * * *
18434271 TTTAAATGAGAACCTTTAGGTCTTTAATGAAAATCTTTAAGACGTT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATGTT
*
18434317 TTCAAATGAGAACCTTTCA-GTGTTAAATGAGAATCTTTAAGATGTT
1 TTCAAATGAGAACCTTT-AGGTCTTAAATGAGAATCTTTAAGATGTT
* * * *
18434363 TTCAATTAAGAACCTTT-GAGTCTTAAATAAGAATCTTTAAGATATT
1 TTCAAATGAGAACCTTTAG-GTCTTAAATGAGAATCTTTAAGATGTT
* * * * * * * *
18434409 TTCAAATAAAAATCTTTAAGATGTTTTCAATTGAGAACCTTT--GA-ATC
1 TTCAAATGAGAACCTTT-AG--GTCTT-AAATGAGAATCTTTAAGATGTT
* * *
18434456 TT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT--GA-GTC
1 TTCAAATGAGAACCTTT-AG--GTCTT-AAATGAGAATCTTTAAGATGTT
* ** * *
18434502 TT-AAATGAAAATATTTAAAATGTTTTCAAATGAGAATCTTTAAGATGTT
1 TTCAAATGAGAACCTTT---AGGTCTT-AAATGAGAATCTTTAAGATGTT
* * ***
18434551 TTTAAATGAGAACCTTT-GATTCTTAAATGAGAATCTTTAAGACAAT
1 TTCAAATGAGAACCTTTAG-GTCTTAAATGAGAATCTTTAAGATGTT
* *
18434597 TTCAAATGAAAACCTTT-GAGTCTTAAATGAGAATCCTTAAGATGTT
1 TTCAAATGAGAACCTTTAG-GTCTTAAATGAGAATCTTTAAGATGTT
* *
18434643 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATATT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATGTT
* *
18434689 TTCAAATGAGAAACTTT-GAGTATTAAATGAGAATCTTTAAGATGTT
1 TTCAAATGAGAACCTTTAG-GTCTTAAATGAGAATCTTTAAGATGTT
* *
18434735 TTCAAATGAGAACCTTTAAGTATTAAATGAGAATCTTTAAGATGTT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATGTT
* * * *
18434781 TTTAAATGAGAACCTTTAAGTATTAAATGAGAATCTTTAAGACGCTT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATG-TT
* **
18434828 TT-AAATGAGAACCTTTTA-GTCTTAAATGAGAATTTTTAAGACATT
1 TTCAAATGAGAACC-TTTAGGTCTTAAATGAGAATCTTTAAGATGTT
*
18434873 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTT
1 TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTT
18434911 GAGTCTTAAA
Statistics
Matches: 550, Mismatches: 69, Indels: 42
0.83 0.10 0.06
Matches are distributed among these distances:
45 8 0.01
46 489 0.89
47 16 0.03
48 7 0.01
49 8 0.01
50 22 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (46 bp):
TTCAAATGAGAACCTTTAGGTCTTAAATGAGAATCTTTAAGATGTT
Found at i:18434386 original size:92 final size:92
Alignment explanation
Indices: 18434225--18434910 Score: 726
Period size: 92 Copynumber: 7.4 Consensus size: 92
18434215 GTCATGAATC
* * * * *
18434225 TTCAAATAAGAACCTCTAAGTCTTAAATGAGAATCTCTAATATGTTTTTAAATGAGAACCTTT-A
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTGA
* * *
18434289 GGTCTTTAATGAAAATCTTTAAGACGTT
66 -GTCTTAAATGAGAATCTTTAAGACATT
* * * *
18434317 TTCAAATGAGAACCTTTCAGTGTTAAATGAGAATCTTTAAGATGTTTTCAATTAAGAACCTTTGA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTGA
* *
18434382 GTCTTAAATAAGAATCTTTAAGATATT
66 GTCTTAAATGAGAATCTTTAAGACATT
* * * * * * * * *
18434409 TTCAAATAAAAATCTTTAAGATGTTTTCAATTGAGAACCTTT--GA-ATCTT-AAATGAGAATCT
1 TTCAAATGAGAACCTTT-A-A-GTCTT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCT
* * *
18434470 TTAAGATGTTTTCAAATGAGAATCTTT--GA-GTC
62 TT--GA-GTCTT-AAATGAGAATCTTTAAGACATT
* ** * *
18434502 TT-AAATGAAAATATTTAAAATGTTTTCAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCT
1 TTCAAATGAGAACCTTT--AA-GTCTT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCT
* *
18434566 TTGATTCTTAAATGAGAATCTTTAAGACAAT
62 TTGAGTCTTAAATGAGAATCTTTAAGACATT
* * * *
18434597 TTCAAATGAAAACCTTTGAGTCTTAAATGAGAATCCTTAAGATGTTTTCAAATGAGAACCTTTAA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTGA
*
18434662 GTCTTAAATGAGAATCTTTAAGATATT
66 GTCTTAAATGAGAATCTTTAAGACATT
* * * *
18434689 TTCAAATGAGAAACTTTGAGTATTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTGA
* **
18434754 GTATTAAATGAGAATCTTTAAGATGTT
66 GTCTTAAATGAGAATCTTTAAGACATT
* * * *
18434781 TTTAAATGAGAACCTTTAAGTATTAAATGAGAATCTTTAAGACGCTTTT-AAATGAGAACCTTTT
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATG-TTTTCAAATGAGAACCTTTG
*
18434845 AGTCTTAAATGAGAATTTTTAAGACATT
65 AGTCTTAAATGAGAATCTTTAAGACATT
18434873 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTT
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTT
18434911 GAGTCTTAAA
Statistics
Matches: 506, Mismatches: 69, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
92 409 0.81
93 20 0.04
94 14 0.03
95 13 0.03
96 50 0.10
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (92 bp):
TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTGA
GTCTTAAATGAGAATCTTTAAGACATT
Found at i:18434506 original size:117 final size:115
Alignment explanation
Indices: 18434296--18434954 Score: 643
Period size: 117 Copynumber: 5.7 Consensus size: 115
18434286 TTAGGTCTTT
* * * * *
18434296 AATGAAAATCTTTAAGACGTTTTCAAATGAGAACCTTTCAGTGTTAAATGAGAATCTTTAAGATG
1 AATGAGAATCTTTAAGATGTTTT-AAATGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGA-G
* * *
18434361 TTTTCAATTAAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGATATTTTCA
64 TTTTCAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCA
* * *
18434413 AATAAAAATCTTTAAGATGTTTTCAATTGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGATG
1 AATGAGAATCTTTAAGATGTTTT-AAATGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGA-G
* * * * *
18434478 TTTTCAAATGAGAATCTTTGAGTCTTAAATGAAAATATTTAAAATGTTTTCA
64 TTTTCAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCA
* *
18434530 AATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTTGATTCTTAAATGAGAATCTTTAAGACA
1 AATGAGAATCTTTAAGATG-TTTTAAATGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGA-G
* * * *
18434595 ATTTCAAATGAAAACCTTTGAGTCTTAAATGAGAATCCTTAAGATGTTTTCA
64 TTTTCAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCA
* * * * *
18434647 AATGAGAACCTTT-A-A-GTCTTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAACTTT--G
1 AATGAGAATCTTTAAGATGTTTTAAATGAGAACCTTT--GA-ATCTT-AAATGAGAATCTTTAAG
* * * *
18434707 AGTATT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAG-TA--TT-A
62 AGTTTTCAAATGAGAACCTTT--GA-GTCTT-AAATGAGAATCTTTAAGATATTTTCA
*
18434760 AATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTT-AAGTATTAAATGAGAATCTTTAAGAC
1 AATGAGAATCTTTAAGATG-TTTTAAATGAGAACCTTTGAA-TCTTAAATGAGAATCTTTAAGA-
* * *
18434824 GCTTTT-AAATGAGAACCTTTTAGTCTTAAATGAGAATTTTTAAGACATTTTCA
63 G-TTTTCAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCA
* * * * **
18434877 AATGAGAACCTTT-A-A-GTCTTAAATGAGAATCTTTGAGTCTTAAAAAAGAATCTTT--GAG-T
1 AATGAGAATCTTTAAGATGTTTTAAATGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGAGTT
* *
18434936 TTCAAATAAGAATCTTTGA
66 TTCAAATGAGAACCTTTGA
18434955 AAATCTTTAA
Statistics
Matches: 454, Mismatches: 64, Indels: 56
0.79 0.11 0.10
Matches are distributed among these distances:
108 3 0.01
109 13 0.03
110 1 0.00
111 2 0.00
113 101 0.22
114 17 0.04
115 12 0.03
116 14 0.03
117 287 0.63
118 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (115 bp):
AATGAGAATCTTTAAGATGTTTTAAATGAGAACCTTTGAATCTTAAATGAGAATCTTTAAGAGTT
TTCAAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCA
Found at i:18434588 original size:163 final size:161
Alignment explanation
Indices: 18434223--18434754 Score: 588
Period size: 163 Copynumber: 3.3 Consensus size: 161
18434213 AAGTCATGAA
* * * * *
18434223 TCTTCAAATAAGAACCTCTA-A-GTCTTAAATGAGAATCTCTAATATGTTTTTAAATGAGAACCT
1 TCTT-AAATAAGAACCTTTAGATATCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCT
* * * * *
18434286 TT-AGGTCTTTAATGAAAATCTTTAAGACGTTTTCAAATGAGAACCTTTCAGTGTTAAATGAGAA
65 TTGA-GTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAA
* * *
18434350 TCTTTAAGATGTTTTCAATTAAGAACCTTTGAG
129 TCTTTAAGATGTTTTCAAATGAGAAACTTTGAG
* * * * *
18434383 TCTTAAATAAGAATCTTTAAGATATTTTCAAATAAAAATCTTTAAGATGTTTTCAATTGAGAACC
1 TCTTAAATAAGAACCTTT-AGATATCTT-AAATGAGAATCTTTAAGATGTTTTCAAATGAGAACC
* * * *
18434448 TTTGAATCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTGAGTCTTAAATGAAAA
64 TTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAA
* * *
18434513 TATTTAAAATGTTTTCAAATGAGAATCTTTAAGATG
129 TCTTTAAGATGTTTTCAAATGAGAAACTTT--GA-G
* * *** *
18434549 TTTTTAAATGAGAACCTTT-GAT-TCTTAAATGAGAATCTTTAAGACAATTTCAAATGAAAACCT
1 -TCTTAAATAAGAACCTTTAGATATCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCT
*
18434612 TTGAGTCTTAAATGAGAATCCTTAAGATGTTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAAT
65 TTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAAT
*
18434677 CTTTAAGATATTTTCAAATGAGAAACTTTGAG
130 CTTTAAGATGTTTTCAAATGAGAAACTTTGAG
* * * * * *
18434709 TATTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAG
1 TCTTAAATAAGAACCTTT-AGATATCTT-AAATGAGAATCTTTAAG
18434755 TATTAAATGA
Statistics
Matches: 312, Mismatches: 47, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
159 28 0.09
160 6 0.02
161 6 0.02
162 6 0.02
163 241 0.77
164 4 0.01
165 5 0.02
166 1 0.00
167 15 0.05
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (161 bp):
TCTTAAATAAGAACCTTTAGATATCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTT
TGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATC
TTTAAGATGTTTTCAAATGAGAAACTTTGAG
Found at i:18434680 original size:138 final size:138
Alignment explanation
Indices: 18434225--18434907 Score: 745
Period size: 138 Copynumber: 4.9 Consensus size: 138
18434215 GTCATGAATC
* * * *
18434225 TTCAAATAAGAACCTCTAAGTCTTAAATGAGAATCTCTAATATGTTTTTAAATGAGAACCTTT-A
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTTGA
* * * * * *
18434289 GGTCTTTAATGAAAATCTTTAAGACGTTTTCAAATGAGAACCTTTCAGTGTTAAATGAGAATCTT
66 -GTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCCT
18434354 TAAGATGTT
130 TAAGATGTT
* * * * * * * * *
18434363 TTCAATTAAGAACCTTTGAGTCTTAAATAAGAATCTTTAAGATATTTTCAAATAAAAATCTTTAA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTT--
* * * * * *
18434428 GATGTTTTCAATTGAGAACCTTT--GA-ATCTT-AAATGAGAATCTTTAAGATGTTTTCAAATGA
64 GA-GTCTT-AAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTT-A-A-GTCTT-AAATGA
* *
18434489 GAAT-CTT-TGA-GTC
123 GAATCCTTAAGATGTT
* ** *
18434502 TT-AAATGAAAATATTTAAAATGTTTTCAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCT
1 TTCAAATGAGAACCTTT--AA-GTCTT-AAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCT
* * * *
18434566 TTGATTCTTAAATGAGAATCTTTAAGACAATTTCAAATGAAAACCTTTGAGTCTTAAATGAGAAT
62 TTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAAT
18434631 CCTTAAGATGTT
127 CCTTAAGATGTT
* * *
18434643 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAACTTTGA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTTGA
* ** * *
18434708 GTATTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAACCTTTAAGTATTAAATGAGAATCTTT
66 GTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCCTT
18434773 AAGATGTT
131 AAGATGTT
* * * * *
18434781 TTTAAATGAGAACCTTTAAGTATTAAATGAGAATCTTTAAGACGCTTTTAAATGAGAACCTTTTA
1 TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTTGA
*
18434846 GTCTTAAATGAGAATTTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATC
66 GTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATC
18434908 TTTGAGTCTT
Statistics
Matches: 446, Mismatches: 79, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
138 312 0.70
139 21 0.05
140 15 0.03
141 22 0.05
142 76 0.17
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (138 bp):
TTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCTTTAAGATGTTTTTAAATGAGAACCTTTGA
GTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAACCTTTAAGTCTTAAATGAGAATCCTT
AAGATGTT
Found at i:18434968 original size:31 final size:32
Alignment explanation
Indices: 18434925--18434990 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
18434915 CTTAAAAAAG
* *
18434925 AATCTTTGAG-TTTCAAATAAGAATCTTTGAA
1 AATCTTTAAGTTTTCAAATAAGAATCTTTAAA
*
18434956 AATCTTTAAGTTTTTCAAATGAGAATCTTTAAA
1 AATCTTTAAG-TTTTCAAATAAGAATCTTTAAA
18434989 AA
1 AA
18434991 AAACTCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 9 0.30
33 21 0.70
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (32 bp):
AATCTTTAAGTTTTCAAATAAGAATCTTTAAA
Found at i:18435507 original size:43 final size:42
Alignment explanation
Indices: 18435450--18435676 Score: 169
Period size: 43 Copynumber: 5.4 Consensus size: 42
18435440 TCAAAGGGCC
*
18435450 TTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTAGAGGAGCCT
1 TTTTATTTTTC-AAAGTTGTTGTGCCTCTATTTAGAAGAGCCT
* *
18435493 TTTTATTTTTCAAAAGTTATTGTGTCTCTATTTA-AATGAGCC-
1 TTTTATTTTTC-AAAGTTGTTGTGCCTCTATTTAGAA-GAGCCT
* ** * ** * *
18435535 TTTTA-TTTTCTAAAGTTATTAAGCCTTTGCTTAAAAGAACC-
1 TTTTATTTTTC-AAAGTTGTTGTGCCTCTATTTAGAAGAGCCT
** * * *
18435576 -TTTATTTTTCAAAGTTGTTAAGCCTTTATTTAGATGAGCAT
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAAGAGCCT
* * *
18435617 TATTTATTTTTCAAAGTCGTTGAT-CCTCTGTTTAGAAGAGCAT
1 T-TTTATTTTTCAAAGTTGTTG-TGCCTCTATTTAGAAGAGCCT
*
18435660 TATTTATTTTTTAAAGT
1 T-TTTATTTTTCAAAGT
18435677 CATTAAGCCT
Statistics
Matches: 152, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
40 27 0.18
41 30 0.20
42 8 0.05
43 87 0.57
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (42 bp):
TTTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAAGAGCCT
Found at i:18435677 original size:43 final size:43
Alignment explanation
Indices: 18435576--18435712 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
18435566 TAAAAGAACC
* * *
18435576 TTTATTTTTCAAAGTTGTTAAGCCTTTATTTAGATGAGCATTA
1 TTTATTTTTCAAAGTCGTTAAGCCTCTATTTAGAAGAGCATTA
* * *
18435619 TTTATTTTTCAAAGTCGTTGATCCTCTGTTTAGAAGAGCATTA
1 TTTATTTTTCAAAGTCGTTAAGCCTCTATTTAGAAGAGCATTA
* * * * *
18435662 TTTATTTTTTAAAGTCATTAAGCCTTTATTTAGAGGAG-TTTA
1 TTTATTTTTCAAAGTCGTTAAGCCTCTATTTAGAAGAGCATTA
*
18435704 TTTTTTTTT
1 TTTATTTTT
18435713 TTCAAAAAGA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 11 0.14
43 68 0.86
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCGTTAAGCCTCTATTTAGAAGAGCATTA
Found at i:18435708 original size:124 final size:125
Alignment explanation
Indices: 18435451--18435688 Score: 286
Period size: 124 Copynumber: 1.9 Consensus size: 125
18435441 CAAAGGGCCT
** * *
18435451 TTTATTTTTCAAAAGTTGTTGTGCCTCTATTTAGAGGAGCCTTTTTATTTTTCAAAAGTTATTGT
1 TTTATTTTTCAAAAGTTGTTAAGCCTCTATTTAGAGGAGCATTTTTATTTTTCAAAAGTCATTGT
* * *
18435516 GTCTCTATTTAAATGAGCCTTTTATTTTCTAAAGTTATTAAGCCTTTGCTTAAAAGAACC
66 GCCTCTATTTAAATGAGCCTTTTATTTTCTAAAGTCATTAAGCCTTTGATTAAAAGAACC
* * *
18435576 TTTATTTTTC-AAAGTTGTTAAGCCTTTATTTAGATGAGCATTATTTATTTTTC-AAAGTCGTTG
1 TTTATTTTTCAAAAGTTGTTAAGCCTCTATTTAGAGGAGCATT-TTTATTTTTCAAAAGTCATTG
* * *
18435639 AT-CCTCTGTTTAGAA-GAGCATTATTTATTTTTTAAAGTCATTAAGCCTTT
65 -TGCCTCTATTTA-AATGAGC-CT-TTTATTTTCTAAAGTCATTAAGCCTTT
18435689 ATTTAGAGGA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
124 47 0.49
125 24 0.25
126 25 0.26
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (125 bp):
TTTATTTTTCAAAAGTTGTTAAGCCTCTATTTAGAGGAGCATTTTTATTTTTCAAAAGTCATTGT
GCCTCTATTTAAATGAGCCTTTTATTTTCTAAAGTCATTAAGCCTTTGATTAAAAGAACC
Found at i:18435875 original size:8 final size:8
Alignment explanation
Indices: 18435862--18435902 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
18435852 TAATTTTGTT
18435862 AATAAAAA
1 AATAAAAA
18435870 AATAAAAA
1 AATAAAAA
*
18435878 AAT-AAAT
1 AATAAAAA
18435885 AATAAAAA
1 AATAAAAA
18435893 TAATAAAAA
1 -AATAAAAA
18435902 A
1 A
18435903 TAGGTAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.21
8 15 0.52
9 8 0.28
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AATAAAAA
Found at i:18435886 original size:12 final size:12
Alignment explanation
Indices: 18435865--18435902 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18435855 TTTTGTTAAT
18435865 AAAA-AAATAAA
1 AAAATAAATAAA
18435876 AAAATAAATAATA
1 AAAATAAATAA-A
18435889 AAAAT-AATAAA
1 AAAATAAATAAA
18435900 AAA
1 AAA
18435903 TAGGTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.32
12 11 0.44
13 6 0.24
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:18435904 original size:16 final size:16
Alignment explanation
Indices: 18435861--18435904 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
18435851 TTAATTTTGT
18435861 TAATAAAAAAATAAAAA
1 TAAT-AAAAAATAAAAA
*
18435878 -AATAAATAATAAAAA
1 TAATAAAAAATAAAAA
18435893 TAATAAAAAATA
1 TAATAAAAAATA
18435905 GGTAGTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAATAAAAAATAAAAA
Done.