Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 101 of 131
Found at i:18071062 original size:17 final size:18
Alignment explanation
Indices: 18071029--18071077 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
18071019 TTTGAATCCG
18071029 AATCTTGCAAATCTTGCA
1 AATCTTGCAAATCTTGCA
*
18071047 AATCTT-CAATTCTTGCA
1 AATCTTGCAAATCTTGCA
*
18071064 AAT-TTGAAAATCTT
1 AATCTTGCAAATCTT
18071078 ATGAATCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 19 0.70
18 6 0.22
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (18 bp):
AATCTTGCAAATCTTGCA
Found at i:18071130 original size:18 final size:19
Alignment explanation
Indices: 18071092--18071130 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18071082 ATCTTTGATC
* *
18071092 TTTACGAATCTGAAAATTT
1 TTTACAAATCTGAAAACTT
18071111 TTTACAAATCT-AAAACTT
1 TTTACAAATCTGAAAACTT
18071129 TT
1 TT
18071131 GTGAATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (19 bp):
TTTACAAATCTGAAAACTT
Found at i:18071137 original size:17 final size:17
Alignment explanation
Indices: 18071117--18071180 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
18071107 ATTTTTTACA
18071117 AATCTAAAACTT-TTGTG
1 AATCTAAAA-TTCTTGTG
18071134 AATCTAAAATTCTTGTG
1 AATCTAAAATTCTTGTG
* * **
18071151 AAACT-GAGCTCTTGTG
1 AATCTAAAATTCTTGTG
*
18071167 AATCTGAAATTCTT
1 AATCTAAAATTCTT
18071181 ACAAATCTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (17 bp):
AATCTAAAATTCTTGTG
Found at i:18071187 original size:17 final size:17
Alignment explanation
Indices: 18071167--18071215 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
18071157 AGCTCTTGTG
18071167 AATCTGAAATTCTTACA
1 AATCTGAAATTCTTACA
*
18071184 AATCTGAAATTCTTACC
1 AATCTGAAATTCTTACA
*
18071201 AATATGAAATTCTTA
1 AATCTGAAATTCTTA
18071216 TGAATCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (17 bp):
AATCTGAAATTCTTACA
Found at i:18071341 original size:16 final size:16
Alignment explanation
Indices: 18071317--18071352 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18071307 AACTTTTTGT
*
18071317 GAATTTGAAATCTTAC
1 GAATATGAAATCTTAC
*
18071333 GAATATGAAATCTTAT
1 GAATATGAAATCTTAC
18071349 GAAT
1 GAAT
18071353 CTAAGTTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (16 bp):
GAATATGAAATCTTAC
Found at i:18071432 original size:17 final size:17
Alignment explanation
Indices: 18071410--18071444 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18071400 GACTTTGAAA
* *
18071410 TCTTGCGAATTTAAAAT
1 TCTTGCAAATCTAAAAT
18071427 TCTTGCAAATCTAAAAT
1 TCTTGCAAATCTAAAAT
18071444 T
1 T
18071445 TATTGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (17 bp):
TCTTGCAAATCTAAAAT
Found at i:18080814 original size:18 final size:18
Alignment explanation
Indices: 18080780--18080814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18080770 GGGAAATTGG
*
18080780 AAAAAAAAGAGAAAAAAT
1 AAAAAAAAGAAAAAAAAT
*
18080798 AAAAACAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAA
18080815 GTTGTGAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAT
Found at i:18085685 original size:17 final size:17
Alignment explanation
Indices: 18085663--18085700 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18085653 TTGGTTTGAA
*
18085663 ATTTTCCTCTAAAACCC
1 ATTTTCCTCGAAAACCC
18085680 ATTTTCCTCGAAAACCC
1 ATTTTCCTCGAAAACCC
18085697 ATTT
1 ATTT
18085701 GAAACCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTTTCCTCGAAAACCC
Found at i:18093102 original size:10 final size:10
Alignment explanation
Indices: 18093089--18093127 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
18093079 AGTCAATTAT
*
18093089 AGTTAGTTAG
1 AGTTAGTTAC
18093099 AGTTAGTTAC
1 AGTTAGTTAC
* *
18093109 AGTTAATTAT
1 AGTTAGTTAC
18093119 AGTTAGTTA
1 AGTTAGTTA
18093128 ATTCAGTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (10 bp):
AGTTAGTTAC
Found at i:18093122 original size:20 final size:20
Alignment explanation
Indices: 18093089--18093127 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18093079 AGTCAATTAT
*
18093089 AGTTAGTTAGAGTTAGTTAC
1 AGTTAATTAGAGTTAGTTAC
*
18093109 AGTTAATTATAGTTAGTTA
1 AGTTAATTAGAGTTAGTTA
18093128 ATTCAGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (20 bp):
AGTTAATTAGAGTTAGTTAC
Found at i:18094490 original size:142 final size:141
Alignment explanation
Indices: 18094234--18094490 Score: 297
Period size: 142 Copynumber: 1.8 Consensus size: 141
18094224 ATGATTTGAC
*
18094234 ATTATTTTATGATTTTTGGTGTAATAAAAACTTTCATCACACCTCAAAAGATGTTAAATTACTAA
1 ATTATTTTATGATTTTTGGTGCAATAAAAAC-TTCATCACACCTCAAAAGATGTTAAATTACTAA
* * *** **
18094299 ATTACCCCTTAGAGGTATTTTTGTAATTTGACTGTTTTAAGGTTTTTTTTGCAAAATGCTTTAGA
65 AATACCCCTTAAAGGTATTTTTGTAATTTGACTGTCCCAAGGTGATTTTTGCAAAATGCTTTAGA
18094364 TCATGTTTTAAA
130 TCATGTTTTAAA
* * * *
18094376 ATTATTTTATTATTTTTGGTGCATTAAAAAAC-TCAATCACACCTCGAAAGGTG-TAAATTAAC-
1 ATTATTTTATGATTTTTGGTGCAAT-AAAAACTTC-ATCACACCTCAAAAGATGTTAAATT-ACT
** *
18094438 AAAATACCTTTTAAAGGTATTTTTGTAATTTGACCT-TCCCAATGTCGATTTTT
63 AAAATACCCCTTAAAGGTATTTTTGTAATTTGA-CTGTCCCAAGGT-GATTTTT
18094491 CACAAAAAGC
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
141 42 0.44
142 47 0.49
143 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (141 bp):
ATTATTTTATGATTTTTGGTGCAATAAAAACTTCATCACACCTCAAAAGATGTTAAATTACTAAA
ATACCCCTTAAAGGTATTTTTGTAATTTGACTGTCCCAAGGTGATTTTTGCAAAATGCTTTAGAT
CATGTTTTAAA
Found at i:18098129 original size:22 final size:21
Alignment explanation
Indices: 18098113--18098164 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
18098103 GAACCAACTT
18098113 TAAACCCTAAATAAACCCTAAA
1 TAAACCCTAAATAAACCCT-AA
18098135 TAAACCCTAAATAAACCCTAA
1 TAAACCCTAAATAAACCCTAA
*
18098156 GTTAACCCT
1 -TAAACCCT
18098165 CAAACCCCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAATAAACCCTAA
Found at i:18098164 original size:11 final size:11
Alignment explanation
Indices: 18098113--18098155 Score: 86
Period size: 11 Copynumber: 3.9 Consensus size: 11
18098103 GAACCAACTT
18098113 TAAACCCTAAA
1 TAAACCCTAAA
18098124 TAAACCCTAAA
1 TAAACCCTAAA
18098135 TAAACCCTAAA
1 TAAACCCTAAA
18098146 TAAACCCTAA
1 TAAACCCTAA
18098156 GTTAACCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAACCCTAAA
Found at i:18106766 original size:21 final size:21
Alignment explanation
Indices: 18106740--18106784 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18106730 AAGCAGCTTG
*
18106740 ACAGGATTGATCCCCTGAGTT
1 ACAGGATCGATCCCCTGAGTT
* *
18106761 ACAGGATCGATCCCTTGGGTT
1 ACAGGATCGATCCCCTGAGTT
18106782 ACA
1 ACA
18106785 AAATAGATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
ACAGGATCGATCCCCTGAGTT
Found at i:18108353 original size:19 final size:19
Alignment explanation
Indices: 18108311--18108370 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
18108301 TTTTGCTTTC
**
18108311 TAAACTTTTTTAAAGTTTTT
1 TAAA-TTTTTTAAAGTTTAA
*
18108331 TAAATTTTTTAATGTTTAA
1 TAAATTTTTTAAAGTTTAA
*
18108350 TAAATATTTTTTAAGATTTAA
1 TAAAT-TTTTTAAAG-TTTAA
18108371 AATTTTAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 17 0.52
20 11 0.33
21 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TAAATTTTTTAAAGTTTAA
Found at i:18108790 original size:17 final size:18
Alignment explanation
Indices: 18108770--18108807 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18108760 TTTCTTCTTG
*
18108770 TTTATCCTTTTTA-AATA
1 TTTATACTTTTTATAATA
*
18108787 TTTATATTTTTTATAATA
1 TTTATACTTTTTATAATA
18108805 TTT
1 TTT
18108808 TAAGTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATACTTTTTATAATA
Found at i:18108971 original size:16 final size:19
Alignment explanation
Indices: 18108936--18108972 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
18108926 GAAATAAGAT
18108936 ATGATGACACAATATAAAA
1 ATGATGACACAATATAAAA
18108955 ATGAT-ACA-AATA-AAAA
1 ATGATGACACAATATAAAA
18108971 AT
1 AT
18108973 ATAGAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 3 0.17
19 5 0.28
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (19 bp):
ATGATGACACAATATAAAA
Found at i:18109991 original size:21 final size:22
Alignment explanation
Indices: 18109957--18110003 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
18109947 TCTCAATGAG
*
18109957 TTTTCTTTTTCTTTTT-T-TGT
1 TTTTCTTTTCCTTTTTATGTGT
18109977 TTTTCCTTTTCCTTTTTATGTGT
1 TTTT-CTTTTCCTTTTTATGTGT
18110000 TTTT
1 TTTT
18110004 ATCTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 11 0.48
22 1 0.04
23 7 0.30
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTTCTTTTCCTTTTTATGTGT
Found at i:18110266 original size:18 final size:18
Alignment explanation
Indices: 18110243--18110277 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18110233 GAGTTCTCTA
18110243 AAAAATAGTATTT-GGGTC
1 AAAAAT-GTATTTAGGGTC
18110261 AAAAATGTATTTAGGGT
1 AAAAATGTATTTAGGGT
18110278 ACTTTGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (18 bp):
AAAAATGTATTTAGGGTC
Found at i:18110462 original size:8 final size:8
Alignment explanation
Indices: 18110445--18110530 Score: 52
Period size: 9 Copynumber: 10.5 Consensus size: 8
18110435 ATAAGTTTTT
18110445 TTTTTC-A
1 TTTTTCTA
18110452 TTTTTCTA
1 TTTTTCTA
*
18110460 TTTTTTTCA
1 TTTTTCT-A
*
18110469 TTTTTTTCA
1 TTTTTCT-A
*
18110478 TTTTTTTCA
1 TTTTTCT-A
*
18110487 TTTTCTCCA
1 TTTT-TCTA
18110496 TTTTTC-A
1 TTTTTCTA
*
18110503 TTTTTTTA
1 TTTTTCTA
*
18110511 TTTTTGTA
1 TTTTTCTA
18110519 TTTATTCT-
1 TTT-TTCTA
18110527 TTTT
1 TTTT
18110531 ATTAGATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
7 13 0.19
8 23 0.34
9 31 0.46
10 1 0.01
ACGTcount: A:0.12, C:0.12, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTCTA
Found at i:18110465 original size:10 final size:9
Alignment explanation
Indices: 18110443--18110515 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
18110433 CTATAAGTTT
18110443 TTTTTTTCA
1 TTTTTTTCA
*
18110452 TTTTTCT-A
1 TTTTTTTCA
18110460 TTTTTTTCA
1 TTTTTTTCA
18110469 TTTTTTTCA
1 TTTTTTTCA
18110478 TTTTTTTCA
1 TTTTTTTCA
* *
18110487 TTTTCTCCA
1 TTTTTTTCA
18110496 --TTTTTCA
1 TTTTTTTCA
18110503 TTTTTTT-A
1 TTTTTTTCA
18110511 TTTTT
1 TTTTT
18110516 GTATTTATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
7 5 0.09
8 13 0.24
9 37 0.67
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:18110465 original size:18 final size:17
Alignment explanation
Indices: 18110443--18110515 Score: 87
Period size: 17 Copynumber: 4.3 Consensus size: 17
18110433 CTATAAGTTT
18110443 TTTTTTTCATTTTTCTA
1 TTTTTTTCATTTTTCTA
*
18110460 TTTTTTTCATTTTTTTCA
1 TTTTTTTCATTTTTCT-A
*
18110478 TTTTTTTCATTTTCTCCA
1 TTTTTTTCATTTT-TCTA
*
18110496 --TTTTTCATTTTTTTA
1 TTTTTTTCATTTTTCTA
18110511 TTTTT
1 TTTTT
18110516 GTATTTATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 2 0.04
16 11 0.23
17 18 0.38
18 15 0.32
19 1 0.02
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTCATTTTTCTA
Found at i:18110483 original size:34 final size:33
Alignment explanation
Indices: 18110443--18110515 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
18110433 CTATAAGTTT
*
18110443 TTTTTTTCATTTT-TCTATTTTTTTCATTTTTTTCA
1 TTTTTTTCATTTTCTCCA--TTTTTCATTTTTTT-A
18110478 TTTTTTTCATTTTCTCCATTTTTCATTTTTTTA
1 TTTTTTTCATTTTCTCCATTTTTCATTTTTTTA
18110511 TTTTT
1 TTTTT
18110516 GTATTTATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 6 0.17
34 14 0.39
35 13 0.36
36 3 0.08
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTTTTCATTTTCTCCATTTTTCATTTTTTTA
Found at i:18111058 original size:19 final size:20
Alignment explanation
Indices: 18111036--18111080 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
18111026 TTTTATAAAT
18111036 ATAAATTAATA-TAATTTTA
1 ATAAATTAATATTAATTTTA
*
18111055 ATAAA-AAATATTAATTTTA
1 ATAAATTAATATTAATTTTA
*
18111074 ATTAATT
1 ATAAATT
18111081 TAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATTAATATTAATTTTA
Found at i:18111100 original size:23 final size:22
Alignment explanation
Indices: 18111059--18111118 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
18111049 ATTTTAATAA
*
18111059 AAAATATTAATTT-TAATTAATTT
1 AAAATAATAATTTAT-ATT-ATTT
18111082 AAAATAATAATTTATATTATTT
1 AAAATAATAATTTATATTATTT
*
18111104 --AATAAAAATTTATAT
1 AAAATAATAATTTATAT
18111119 ACTATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.41
22 4 0.12
23 15 0.44
24 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATAATAATTTATATTATTT
Found at i:18113302 original size:18 final size:18
Alignment explanation
Indices: 18113279--18113314 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18113269 AAAAGTTCGA
18113279 ATGAAATGGGGCTCTGAC
1 ATGAAATGGGGCTCTGAC
18113297 ATGAAATGGGGCTCTGAC
1 ATGAAATGGGGCTCTGAC
18113315 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAATGGGGCTCTGAC
Found at i:18120114 original size:22 final size:21
Alignment explanation
Indices: 18120076--18120116 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18120066 ATTCTTTTAA
18120076 ATTTTTTAAAATATTAATTCT
1 ATTTTTTAAAATATTAATTCT
* *
18120097 ATTTTTCTAATATTTTAATT
1 ATTTTT-TAAAATATTAATT
18120117 TTTTTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTAAAATATTAATTCT
Found at i:18121175 original size:18 final size:18
Alignment explanation
Indices: 18121138--18121184 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
18121128 ATATATATAT
* *
18121138 ATATACACATATGTATAC
1 ATATATACATATGTACAC
*
18121156 ATATATACATATTTACAC
1 ATATATACATATGTACAC
*
18121174 ATATATCCATA
1 ATATATACATA
18121185 ATCATTTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (18 bp):
ATATATACATATGTACAC
Found at i:18123623 original size:9 final size:9
Alignment explanation
Indices: 18123611--18123638 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18123601 CACTCTTTCT
18123611 TTTCAAGAA
1 TTTCAAGAA
18123620 TTTCAAGAA
1 TTTCAAGAA
18123629 TTTCAAGAA
1 TTTCAAGAA
18123638 T
1 T
18123639 CACTAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (9 bp):
TTTCAAGAA
Found at i:18123700 original size:30 final size:30
Alignment explanation
Indices: 18123650--18123707 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
18123640 ACTAAAAACA
18123650 CATCAAAAGCATTCCAAGAATCATTCCAATG
1 CATCAAAAGCATTCCAAGAATCA-TCCAATG
18123681 CATCAAGAAGCA-T-CAAGAATCATCCAA
1 CATCAA-AAGCATTCCAAGAATCATCCAA
18123708 GATTGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 9 0.35
31 7 0.27
32 5 0.19
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (30 bp):
CATCAAAAGCATTCCAAGAATCATCCAATG
Found at i:18126587 original size:18 final size:19
Alignment explanation
Indices: 18126564--18126600 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18126554 TTAAAACTTC
*
18126564 TTTTTTCTTTTTT-ATTTT
1 TTTTTTATTTTTTGATTTT
18126582 TTTTTTATTTTTTGATTTT
1 TTTTTTATTTTTTGATTTT
18126601 CAAATAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.86
Consensus pattern (19 bp):
TTTTTTATTTTTTGATTTT
Found at i:18126622 original size:5 final size:5
Alignment explanation
Indices: 18126602--18126687 Score: 63
Period size: 5 Copynumber: 16.6 Consensus size: 5
18126592 TTTGATTTTC
18126602 AAATA AAGATTA AAATA AAATA AAAT- AAATA ATAA-A AGAATA GAAATGAA
1 AAATA AA-A-TA AAATA AAATA AAATA AAATA A-AATA A-AATA -AAAT--A
* *
18126652 AAATA AAA-A GAA-G AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
18126688 AAATAATGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
4 9 0.13
5 40 0.60
6 8 0.12
7 9 0.13
8 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:18126624 original size:17 final size:17
Alignment explanation
Indices: 18126602--18126693 Score: 64
Period size: 17 Copynumber: 5.4 Consensus size: 17
18126592 TTTGATTTTC
*
18126602 AAATAAAGATTAA-AATA
1 AAATAAA-ATAAATAATA
18126619 AAATAAAATAAATAATA
1 AAATAAAATAAATAATA
* * * *
18126636 AAAGAATAGAAATGA-A
1 AAATAAAATAAATAATA
*
18126652 AAATAAAA-AGAAGAAATA
1 AAATAAAATA-AA-TAATA
*
18126670 AAATAAAATAAAATAAAA
1 AAATAAAAT-AAATAATA
18126688 AAATAA
1 AAATAA
18126694 TGAAAAAGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 13 0.22
17 23 0.40
18 18 0.31
19 2 0.03
20 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAATAATA
Found at i:18126635 original size:12 final size:11
Alignment explanation
Indices: 18126602--18126688 Score: 61
Period size: 12 Copynumber: 7.3 Consensus size: 11
18126592 TTTGATTTTC
*
18126602 AAATAAAGATTA
1 AAATAAA-ATAA
18126614 AAATAAAAT-A
1 AAATAAAATAA
18126624 AAATAAATAATAAA
1 AAAT-AA-AAT-AA
18126638 AGAATAGAAATGAA
1 A-AATA-AAAT-AA
*
18126652 AAATAAAAAGAA
1 AAAT-AAAATAA
18126664 GAAATAAAAT-A
1 -AAATAAAATAA
18126675 AAATAAAATAA
1 AAATAAAATAA
18126686 AAA
1 AAA
18126689 AATAATGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
10 14 0.22
11 9 0.14
12 16 0.25
13 10 0.16
14 10 0.16
15 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:18126656 original size:21 final size:20
Alignment explanation
Indices: 18126620--18126699 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
18126610 ATTAAAATAA
18126620 AATAAAATAAATAATAAAAG
1 AATAAAATAAATAATAAAAG
18126640 AATAGAAATGAAA-AATAAAAAG
1 AATA-AAAT-AAATAAT-AAAAG
*
18126662 AA-GAAATAAAATAA-AATAA-
1 AATAAAAT-AAATAATAA-AAG
18126681 AATAAAA-AAATAATGAAAA
1 AATAAAATAAATAAT-AAAA
18126700 AGGATGAGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
18 6 0.12
19 6 0.12
20 18 0.37
21 9 0.18
22 10 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (20 bp):
AATAAAATAAATAATAAAAG
Found at i:18126700 original size:23 final size:23
Alignment explanation
Indices: 18126646--18126700 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
18126636 AAAGAATAGA
*
18126646 AATGAAAAATAAAAAGAAGAAAT
1 AATGAAAAATAAAAAGAAAAAAT
*
18126669 AA-AATAAAATAAAATA-AAAAAAT
1 AATGA-AAAATAAAA-AGAAAAAAT
18126692 AATGAAAAA
1 AATGAAAAA
18126701 GGATGAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.04
23 23 0.88
24 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (23 bp):
AATGAAAAATAAAAAGAAAAAAT
Found at i:18127099 original size:41 final size:42
Alignment explanation
Indices: 18127054--18127143 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
18127044 GCACAACTTT
*
18127054 AAAAAATAAA-AGCTGTTTCAACACAAAGG-CACAACTTAAA
1 AAAAAAAAAAGAGCTGTTTCAACACAAAGGACACAACTTAAA
* * * *
18127094 AAAAAAAAAAGAGCTTTTTTAACACGAAGGTACACAACTTTAA
1 AAAAAAAAAAGAGCTGTTTCAACACAAAGG-ACACAACTTAAA
*
18127137 ATAAAAA
1 AAAAAAA
18127144 GAGATTCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 9 0.22
41 16 0.39
43 16 0.39
ACGTcount: A:0.56, C:0.14, G:0.10, T:0.20
Consensus pattern (42 bp):
AAAAAAAAAAGAGCTGTTTCAACACAAAGGACACAACTTAAA
Found at i:18127130 original size:43 final size:40
Alignment explanation
Indices: 18127041--18127143 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 40
18127031 TCAATATGTG
* *
18127041 AAGGCACAACTT--TAAAAAATAAAAGCTGTTTCAACACA
1 AAGGCACAACTTAAAAAAAAAAAAAAGCTGTTTCAACACA
* * *
18127079 AAGGCACAACTTAAAAAAAAAAAAAGAGCTTTTTTAACACG
1 AAGGCACAACTTAAAAAAAAAAAAA-AGCTGTTTCAACACA
* *
18127120 AAGGTACACAACTTTAAATAAAAA
1 AAGG--CACAACTTAAAAAAAAAA
18127144 GAGATTCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
38 12 0.23
40 9 0.17
41 16 0.30
43 16 0.30
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (40 bp):
AAGGCACAACTTAAAAAAAAAAAAAAGCTGTTTCAACACA
Found at i:18132723 original size:9 final size:9
Alignment explanation
Indices: 18132709--18132784 Score: 53
Period size: 9 Copynumber: 7.7 Consensus size: 9
18132699 AAAGGTTTTA
18132709 AAAAATTCT
1 AAAAATTCT
*
18132718 AAAAATTTTCA
1 AAAAA--TTCT
*
18132729 AAAGCAATTCC
1 AAA--AATTCT
18132740 AAAATATTCT
1 AAAA-ATTCT
18132750 AAAAAATTCT
1 -AAAAATTCT
*
18132760 AAAAATTTT
1 AAAAATTCT
*
18132769 AAAAATATAT
1 AAAAAT-TCT
18132779 AAAAAT
1 AAAAAT
18132785 ATTATGAAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 20 0.36
10 17 0.31
11 16 0.29
13 2 0.04
ACGTcount: A:0.58, C:0.09, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTCT
Found at i:18132755 original size:12 final size:10
Alignment explanation
Indices: 18132669--18132773 Score: 63
Period size: 10 Copynumber: 10.4 Consensus size: 10
18132659 CATCATTAAC
18132669 AAAAATT-TAA
1 AAAAATTCT-A
*
18132679 AAAAATTATA
1 AAAAATTCTA
* *
18132689 AAAATTTCCA
1 AAAAATTCTA
** *
18132699 AAAGGTTTTA
1 AAAAATTCTA
18132709 AAAAATTCT-
1 AAAAATTCTA
*
18132718 AAAAATTTTCA
1 AAAAATTCT-A
*
18132729 AAAGCAATTCCA
1 AAA--AATTCTA
*
18132741 AAATATTCTA
1 AAAAATTCTA
18132751 AAAAATTCT-
1 AAAAATTCTA
*
18132760 AAAAATTTTA
1 AAAAATTCTA
18132770 AAAA
1 AAAA
18132774 TATATAAAAA
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
9 16 0.22
10 44 0.61
11 4 0.06
12 4 0.06
13 4 0.06
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:18132776 original size:30 final size:31
Alignment explanation
Indices: 18132674--18132776 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 31
18132664 TTAACAAAAA
* * * * *
18132674 TTTAAAAAAATTATAAAAATTTCCAAAAGGT
1 TTTAAAAATATTCTAAAAAATTCTAAAAGAT
* *
18132705 TTTAAAAA-ATTCT-AAAAATTTTCAAAAGCAA
1 TTTAAAAATATTCTAAAAAATTCT-AAAAG-AT
**
18132736 TTCCAAAATATTCTAAAAAATTCTAAAA-AT
1 TTTAAAAATATTCTAAAAAATTCTAAAAGAT
18132766 TTTAAAAATAT
1 TTTAAAAATAT
18132777 ATAAAAATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
29 6 0.11
30 19 0.34
31 14 0.25
32 9 0.16
33 8 0.14
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (31 bp):
TTTAAAAATATTCTAAAAAATTCTAAAAGAT
Found at i:18133038 original size:27 final size:25
Alignment explanation
Indices: 18132964--18133039 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 25
18132954 CAAAGCTATT
18132964 AAAATTTAAAAGATTCAAAAAATATGA
1 AAAATTTAAAA-ATT-AAAAAATATGA
**
18132991 AAAATAAAAAAATCTAAAAAATTATGA
1 AAAATTTAAAAAT-TAAAAAA-TATGA
18133018 AAAATTCTAAAAATTAGAAAAA
1 AAAATT-TAAAAATTA-AAAAA
18133040 ACCCAAATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.20
27 22 0.54
28 11 0.27
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (25 bp):
AAAATTTAAAAATTAAAAAATATGA
Found at i:18133040 original size:19 final size:21
Alignment explanation
Indices: 18132996--18133040 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
18132986 TATGAAAAAT
18132996 AAAAAAATCTAAAAAATTATG
1 AAAAAAATCTAAAAAATTATG
*
18133017 -AAAAATTCT-AAAAATTA-G
1 AAAAAAATCTAAAAAATTATG
18133035 AAAAAA
1 AAAAAA
18133041 CCCAAATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAAAATCTAAAAAATTATG
Found at i:18133172 original size:16 final size:17
Alignment explanation
Indices: 18133136--18133173 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18133126 AAATAATAAA
*
18133136 AAAAAATGAAAATATCT
1 AAAAAATGAAAATATCC
18133153 AAAAAATGAAAA-ATCC
1 AAAAAATGAAAATATCC
18133169 AAAAA
1 AAAAA
18133174 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.71, C:0.08, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAAATGAAAATATCC
Found at i:18133367 original size:28 final size:24
Alignment explanation
Indices: 18133303--18133376 Score: 60
Period size: 28 Copynumber: 2.9 Consensus size: 24
18133293 AATTTTAAAA
*
18133303 TTTTAGAATTTTTATATTTTTTAT
1 TTTTAAAATTTTTATATTTTTTAT
* *
18133327 TCTTTGAATTTTTTCATATAATTTTTAT
1 T-TTTAAAATTTTT-ATAT--TTTTTAT
*
18133355 GTTTTAAAATTTTCA-ATTTTTT
1 -TTTTAAAATTTTTATATTTTTT
18133377 TCTGAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
24 6 0.15
25 9 0.23
26 6 0.15
27 1 0.03
28 16 0.41
29 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTAAAATTTTTATATTTTTTAT
Found at i:18133394 original size:16 final size:16
Alignment explanation
Indices: 18133375--18133428 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
18133365 TTTCAATTTT
18133375 TTTCTGAATTTTTTAA
1 TTTCTGAATTTTTTAA
*
18133391 TTTCTAAATTTTTTTAA
1 TTTCTGAA-TTTTTTAA
*
18133408 TTTCTTGGATTTTTTTAA
1 TTTC-T-GAATTTTTTAA
18133426 TTT
1 TTT
18133429 ATTGCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 7 0.22
17 12 0.38
18 12 0.38
19 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCTGAATTTTTTAA
Found at i:18133419 original size:18 final size:18
Alignment explanation
Indices: 18133375--18133443 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
18133365 TTTCAATTTT
18133375 TTTC-TGAA-TTTTTTAA
1 TTTCTTGAATTTTTTTAA
*
18133391 TTTC-TAAATTTTTTTAA
1 TTTCTTGAATTTTTTTAA
*
18133408 TTTCTTGGATTTTTTTAA
1 TTTCTTGAATTTTTTTAA
* * *
18133426 TTTATTGCATTTTGTTAA
1 TTTCTTGAATTTTTTTAA
18133444 ATAATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.16
17 12 0.27
18 26 0.58
ACGTcount: A:0.23, C:0.06, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTCTTGAATTTTTTTAA
Found at i:18135563 original size:113 final size:112
Alignment explanation
Indices: 18135425--18135656 Score: 356
Period size: 113 Copynumber: 2.1 Consensus size: 112
18135415 AACATGATGT
* * * ** *
18135425 ACAAATATAAAAAAAAGTTTCATATTTCAAAGTTAGACATTATGTGTAAATATATATGCCCTATA
1 ACAAATATAAAAAAAAGTCTAATATTTCAAACTTAGACATTATGTACAAATATATATGCCATATA
* *
18135490 TGCATAAACTTATATCTACTAGTCCTAATCCTTGCTCATCTTGTTTC
66 TGCATAAACTTATATCTACCAGTCCTAATCCTTACTCATCTTGTTTC
*
18135537 ACAAATATAAAAAAATTGTCTAATATTTCAAACTTAGACATTATGTACAAATATATATGCCATAT
1 ACAAATATAAAAAAA-AGTCTAATATTTCAAACTTAGACATTATGTACAAATATATATGCCATAT
* *
18135602 ATGCATAAACTTATATCTACCAGTCTTAATCCTTACTTATCTTGTTTC
65 ATGCATAAACTTATATCTACCAGTCCTAATCCTTACTCATCTTGTTTC
18135650 ACAAATA
1 ACAAATA
18135657 AACATTGAGG
Statistics
Matches: 108, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 15 0.14
113 93 0.86
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (112 bp):
ACAAATATAAAAAAAAGTCTAATATTTCAAACTTAGACATTATGTACAAATATATATGCCATATA
TGCATAAACTTATATCTACCAGTCCTAATCCTTACTCATCTTGTTTC
Found at i:18139252 original size:413 final size:408
Alignment explanation
Indices: 18138465--18139276 Score: 1006
Period size: 413 Copynumber: 2.0 Consensus size: 408
18138455 ATATATATAT
* * ***
18138465 ATGCATTATAAATGAAGACATTAATCTAAAAATGAAGCATATTCAAATGATGAACAAATGTGAAT
1 ATGCATTATAAATGAAGACATTAATCTAAAAATGAAACATATGCAAATGATGAACAAATACAAAT
* * *
18138530 TTAAGAATAAGGTTTTCAAATATAAAGAGACCACATGGACTCTCCAACATCTAGATAGAGTTTGG
66 TTAAGAATAAGGTTTTCAAATATAAAGAGACCACATGAACTCTCCAACATCTAGACAGACTTTGG
* * * * *
18138595 GTGTGAATTTTTATATTTAAAATCTCATTCTATTATTTTTATTATTTTGTATTTTTATAATTATG
131 ATGTGAATTTTTATATTTAAAATCCCATCCTACTATTTTTATTATTTTGTATTTTTATAATCATG
* *
18138660 GTCAAAACAAATTTATTTTGAGTTGAAAATGTATAAAAATTCTTAATGAAATAAAAATTCTTAAA
196 GTCAAAACAAAGTTATTTTAAGTTGAAAATGTATAAAAATTCTTAATGAAATAAAAATTCTTAAA
* * * * * *
18138725 TACCCAAATATCTAGGTGGCATTTGAAAATAAATTATTTTATAAAAGGTTTTCATACAACTCCTT
261 TACCCAAACATCTAGGTGGCATTTCAAAACAAATTATTTCATAAAAGATTTTCATACAAATCCTT
* * ** * *
18138790 AGAAATTTAAAATGAGTTTGAGATTTTAGGTAGGTTTGGGTTCAAATTTTAAGAATTTATGAACC
326 AAAAATTTAAAATGAGTTTGAGATTTTAGGTAAGTTCAGATTCAAATTTTAAGAATTCATGAACC
*
18138855 -CTTTAAAAACATGTATC
391 ACTCTAAAAACATGTATC
* * * *
18138872 ATGCATTATAAATGACA-ACATTAGTTTAAAAATGAAACGTATGCAAATGATGATCAAATACAAA
1 ATGCATTATAAATGA-AGACATTAATCTAAAAATGAAACATATGCAAATGATGAACAAATACAAA
* * * ** * *
18138936 TTTAAGAATCA-GTTTTCAAATTTAAAGAGACCACCTGAACTCTTTAACATTTAGGCAGACTTTG
65 TTTAAGAATAAGGTTTTCAAATATAAAGAGACCACATGAACTCTCCAACATCTAGACAGACTTTG
*
18139000 GATGTGAATTTTTATATTTAAAATCCCATCCTACTATTTTTATTATTTTGTATTTTTATACTCAT
130 GATGTGAATTTTTATATTTAAAATCCCATCCTACTATTTTTATTATTTTGTATTTTTATAATCAT
* * *
18139065 GGTTTTAACAAAACGAAGTTATTTTAAGTTGTGGAAATGTATGAAAATTCTTAATGAAAT-AAAA
195 GG---T--CAAAACAAAGTTATTTTAAG-T-TGAAAATGTATAAAAATTCTTAATGAAATAAAAA
* * * *
18139129 TTTTCTAAATACCCTAACATCTATGTGGCA-TTCAAGAACATATTATTTCATAAAAGATTTTCAT
253 TTCT-TAAATACCCAAACATCTAGGTGGCATTTCAA-AACAAATTATTTCATAAAAGATTTTCAT
** * * * *
18139193 GTAAATCCTTAAAAATTTAAAATGGGTTTAGGGA-TTTGGGTAAGTTCAGATTTAAATTTTAAGA
316 ACAAATCCTTAAAAATTTAAAATGAGTTT-GAGATTTTAGGTAAGTTCAGATTCAAATTTTAAGA
18139257 ATTCATGAACCACTCTAAAA
380 ATTCATGAACCACTCTAAAA
18139277 GTCTCCAACA
Statistics
Matches: 340, Mismatches: 53, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
406 105 0.31
407 63 0.19
408 1 0.00
409 1 0.00
411 17 0.05
412 12 0.04
413 131 0.39
414 10 0.03
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (408 bp):
ATGCATTATAAATGAAGACATTAATCTAAAAATGAAACATATGCAAATGATGAACAAATACAAAT
TTAAGAATAAGGTTTTCAAATATAAAGAGACCACATGAACTCTCCAACATCTAGACAGACTTTGG
ATGTGAATTTTTATATTTAAAATCCCATCCTACTATTTTTATTATTTTGTATTTTTATAATCATG
GTCAAAACAAAGTTATTTTAAGTTGAAAATGTATAAAAATTCTTAATGAAATAAAAATTCTTAAA
TACCCAAACATCTAGGTGGCATTTCAAAACAAATTATTTCATAAAAGATTTTCATACAAATCCTT
AAAAATTTAAAATGAGTTTGAGATTTTAGGTAAGTTCAGATTCAAATTTTAAGAATTCATGAACC
ACTCTAAAAACATGTATC
Found at i:18139357 original size:22 final size:22
Alignment explanation
Indices: 18139332--18139404 Score: 146
Period size: 22 Copynumber: 3.3 Consensus size: 22
18139322 ATTTTCTTTT
18139332 CTTTTTTTTAGAAAAAAAAATC
1 CTTTTTTTTAGAAAAAAAAATC
18139354 CTTTTTTTTAGAAAAAAAAATC
1 CTTTTTTTTAGAAAAAAAAATC
18139376 CTTTTTTTTAGAAAAAAAAATC
1 CTTTTTTTTAGAAAAAAAAATC
18139398 CTTTTTT
1 CTTTTTT
18139405 GTAATTTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (22 bp):
CTTTTTTTTAGAAAAAAAAATC
Found at i:18141676 original size:6 final size:6
Alignment explanation
Indices: 18141667--18141723 Score: 53
Period size: 6 Copynumber: 8.8 Consensus size: 6
18141657 TCTTTTTTAA
*
18141667 TTTTTG TTTTTG TTTTTG ATTTTG TTTTTG ACTTTTT- TTTTGTG ATTTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG --TTTTTG TTTT-TG --TTTTTG
18141719 TTTTT
1 TTTTT
18141724 CATTTTTTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 4 0.09
6 28 0.65
8 7 0.16
9 4 0.09
ACGTcount: A:0.05, C:0.02, G:0.14, T:0.79
Consensus pattern (6 bp):
TTTTTG
Found at i:18141682 original size:12 final size:13
Alignment explanation
Indices: 18141667--18141730 Score: 71
Period size: 12 Copynumber: 4.9 Consensus size: 13
18141657 TCTTTTTTAA
18141667 TTTTTG-TTTTTG
1 TTTTTGATTTTTG
18141679 TTTTTGA-TTTTG
1 TTTTTGATTTTTG
18141691 TTTTTGACTTTTT-
1 TTTTTGA-TTTTTG
18141704 TTTTGTGATTTTTTG
1 TTTT-TGA-TTTTTG
*
18141719 TTTTTCATTTTT
1 TTTTTGATTTTT
18141731 TGGTTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 18 0.40
13 9 0.20
14 14 0.31
15 4 0.09
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.78
Consensus pattern (13 bp):
TTTTTGATTTTTG
Found at i:18141732 original size:14 final size:14
Alignment explanation
Indices: 18141673--18141738 Score: 75
Period size: 14 Copynumber: 4.8 Consensus size: 14
18141663 TTAATTTTTG
18141673 TTTTTGTTTTTGA-
1 TTTTTGTTTTTGAT
18141686 -TTTTGTTTTTGACT
1 TTTTTGTTTTTGA-T
*
18141700 TTTTT-TTTGTGAT
1 TTTTTGTTTTTGAT
*
18141713 TTTTTGTTTTTCAT
1 TTTTTGTTTTTGAT
18141727 TTTTTGGTTTTT
1 TTTTT-GTTTTT
18141739 AACTAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
12 12 0.27
13 6 0.13
14 17 0.38
15 10 0.22
ACGTcount: A:0.06, C:0.03, G:0.14, T:0.77
Consensus pattern (14 bp):
TTTTTGTTTTTGAT
Found at i:18141815 original size:24 final size:24
Alignment explanation
Indices: 18141757--18141815 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
18141747 AACTTGATAA
*
18141757 TTTGAAAAC--AAATTTAAAAACT
1 TTTGAAAACAAAAACTTAAAAACT
** *
18141779 TTTTTAAACAAAAACTTAATAACT
1 TTTGAAAACAAAAACTTAAAAACT
*
18141803 TTTGAAAATAAAA
1 TTTGAAAACAAAA
18141816 TAAAAGATCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 7 0.25
24 21 0.75
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (24 bp):
TTTGAAAACAAAAACTTAAAAACT
Found at i:18141915 original size:22 final size:22
Alignment explanation
Indices: 18141870--18141915 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18141860 AAATTCAGTT
*
18141870 TGAAAAACTTACAAATTTTACC
1 TGAAAAACTTACAAATTATACC
*
18141892 TGAAAAACTTA-AAGATTATGCC
1 TGAAAAACTTACAA-ATTATACC
18141914 TG
1 TG
18141916 GTGGTCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (22 bp):
TGAAAAACTTACAAATTATACC
Found at i:18142035 original size:22 final size:22
Alignment explanation
Indices: 18142010--18142064 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
18142000 AGTTCATAAG
*
18142010 GATTTTGCTC-GAAGGTCTTAGA
1 GATTTTGCCCAGAA-GTCTTAGA
*
18142032 GATTTTGCCCAGAAGTGTTAGA
1 GATTTTGCCCAGAAGTCTTAGA
*
18142054 GATTATGCCCA
1 GATTTTGCCCA
18142065 AGGGTTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
GATTTTGCCCAGAAGTCTTAGA
Found at i:18142384 original size:126 final size:126
Alignment explanation
Indices: 18142138--18142648 Score: 456
Period size: 126 Copynumber: 4.0 Consensus size: 126
18142128 ATTTAAAATG
* * * * * * *
18142138 TTATGCCCAGAGGTCTTGGAAATTATGCCTAGAAGTCTTA-AAGATTTTAAAATCTTTGAATGCT
1 TTATGCCCAGAAGTTTTAGAGATTATGCCTAGAGGTCTTACAA-ATCTCAAAATCTTTGAATGCT
** * * * **
18142202 TTTCATACATTAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTG-CTTGGAGGTCTTGGAAA
65 CATCAT--AGTAGAGGCATTAAAACTTTAAAAATTTAAAATGTTTTGTC-TGAAGGTCTTAAAAA
* * * *
18142266 TTATGCCCAGATGTTTTAGAGATTATACCTGGAGGTCTTACAAATCTCAAAATCTTTAAATGCTC
1 TTATGCCCAGAAGTTTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTC
*
18142331 ATCATAGTAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGTCTGAAGGTCTTAAAAA
66 ATCATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATGTTTTGTCTGAAGGTCTTAAAAA
* * * * * **
18142392 TTATGTCTAGAGGTTTTAGAGATTATGCCTAAAGGTCATACAAATCTCAAAATCTTTGAATATTC
1 TTATGCCCAGAAGTTTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTC
* ** * * * * ** *
18142457 CTTGTAGTAAAGGCACTAAAACTTCAAAAATTTAAAAT-ATTTACCTGAAGGTCTTAAATA
66 ATCATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATGTTTTGTCTGAAGGTCTTAAAAA
* * * * * * * * *
18142517 TTGTGGCCAGAAGTTTTAAAAATTATGTCTAGAGATTTTA-AAGATTTCAAAATCTTTGACTGCT
1 TTATGCCCAGAAGTTTTAGAGATTATGCCTAGAGGTCTTACAA-ATCTCAAAATCTTTGAATGCT
* * * * * *
18142581 TATCATACATTAGAGGTATTAAAACTTTAAAAATTTAAAATATTTTGCTTTG-AGGTCTTAGAAA
65 CATCAT--AGTAGAGGCATTAAAACTTTAAAAATTTAAAATGTTTTG-TCTGAAGGTCTTAAAAA
18142645 TTAT
1 TTAT
18142649 ACCCGAAAGT
Statistics
Matches: 308, Mismatches: 68, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
124 2 0.01
125 66 0.21
126 136 0.44
127 29 0.09
128 71 0.23
129 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (126 bp):
TTATGCCCAGAAGTTTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTC
ATCATAGTAGAGGCATTAAAACTTTAAAAATTTAAAATGTTTTGTCTGAAGGTCTTAAAAA
Found at i:18142405 original size:22 final size:22
Alignment explanation
Indices: 18142379--18142428 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
18142369 GTTTTGTCTG
*
18142379 AAGGTCTTAAAAATTATGTCTA
1 AAGGTCTTAAAAATTATGCCTA
* * * *
18142401 GAGGTTTTAGAGATTATGCCTA
1 AAGGTCTTAAAAATTATGCCTA
18142423 AAGGTC
1 AAGGTC
18142429 ATACAAATCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (22 bp):
AAGGTCTTAAAAATTATGCCTA
Found at i:18142765 original size:103 final size:104
Alignment explanation
Indices: 18142535--18142770 Score: 246
Period size: 103 Copynumber: 2.3 Consensus size: 104
18142525 AGAAGTTTTA
* * * * * * * * * *
18142535 AAAATTATGTCTAGAGATTTTAAAGATTTCAAAATCTTTGACTGCTTATCATACATTAGAGGTAT
1 AAAATTATGTCCAAAGATCTTAAAGATCTCAAAATCTTTAAATGCTCATCATA-AGTAGAAGCAT
* * *
18142600 TAAAACTTTAAAAATTTAAAATATTTTGCTTTGAGGTCTT
65 TAAAACTTTAAAAATTTAAAATATTTTACCTGGAGGTCTT
**
18142640 AGAAATTATACCCGAAAG-TCTTATAA-ATCTCAAAATCTTTAAATGCTCATCAT-AGTAGAAGC
1 A-AAATTATGTCC-AAAGATCTTA-AAGATCTCAAAATCTTTAAATGCTCATCATAAGTAGAAGC
*
18142702 ATTGAAACTTTAAAAA-TTAAAATATTTTACCTGGAGGTCTT
63 ATTAAAACTTTAAAAATTTAAAATATTTTACCTGGAGGTCTT
*
18142743 GAAAATTATGTCCAAAGATCTTAGAGAT
1 -AAAATTATGTCCAAAGATCTTAAAGAT
18142771 TATGCCTAGA
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
102 5 0.05
103 38 0.36
104 22 0.21
105 1 0.01
106 35 0.33
107 5 0.05
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (104 bp):
AAAATTATGTCCAAAGATCTTAAAGATCTCAAAATCTTTAAATGCTCATCATAAGTAGAAGCATT
AAAACTTTAAAAATTTAAAATATTTTACCTGGAGGTCTT
Found at i:18143108 original size:10 final size:10
Alignment explanation
Indices: 18143078--18143110 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
18143068 TTTTTCTCCC
18143078 TCTTTTTTTT
1 TCTTTTTTTT
18143088 TGC-TTTTTTT
1 T-CTTTTTTTT
18143098 TCTTTTTTTT
1 TCTTTTTTTT
18143108 TCT
1 TCT
18143111 AACATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:18154155 original size:144 final size:145
Alignment explanation
Indices: 18153790--18154183 Score: 353
Period size: 144 Copynumber: 2.7 Consensus size: 145
18153780 TTTAAAAATA
* *
18153790 AAAAATTATGAAATATTATAAAATTAAGATCTAAAAAATTTCATGAAAATCTGAACTCAGAAGG-
1 AAAAATTATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAA-CTGAACTCAGAAGGC
** * * * *
18153854 TCAAATTACAAAAATACCCTTAAAATGGTATTTTTTAGTAATGTTACATTTATAGGGGTACTATT
65 T-AAATTATGAAAATACCCTTAAAATGGTATATTTTAGTAATGTTACACTTATAGAGGTACTACT
* *
18153919 GTGATTTCAAATGCATC
129 ATGATTTCAAATGCACC
* * * * * * * * ***
18153936 AAAAATCATGAAATATTATGAAAGTAGGATATGAAAAGTTTCATGAAAATTCGATCTCAAAAAAA
1 AAAAATTATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAACT-GAACTCAGAAGGC
* * *
18154001 TCAAATTATGAAAATACCAC-T-ATA-GG-AGTATTTTGGTAAT-TTCACACTTCT-GAGGTACT
65 T-AAATTATGAAAATACC-CTTAAAATGGTA-TATTTTAGTAATGTT-ACACTTATAGAGGTACT
18154060 ACTATGATTTCAAATGCACC
126 ACTATGATTTCAAATGCACC
* *
18154080 AAAAATTATGAAACATTATAAAATTAAGATCTGAAAAGTTTCATGAAAACCTGAGCT-AGGGAAG
1 AAAAATTATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAA-CTGAACTCA--GAAG
* *
18154144 GCTAAAATATGAAAATA-TCTCTAAAA-GG--TATTTTAGTAAT
63 GCTAAATTATGAAAATACCCT-TAAAATGGTATATTTTAGTAAT
18154184 TTTATAATTC
Statistics
Matches: 198, Mismatches: 39, Indels: 25
0.76 0.15 0.10
Matches are distributed among these distances:
142 1 0.01
143 12 0.06
144 88 0.44
145 27 0.14
146 52 0.26
147 17 0.09
148 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (145 bp):
AAAAATTATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAACTGAACTCAGAAGGCT
AAATTATGAAAATACCCTTAAAATGGTATATTTTAGTAATGTTACACTTATAGAGGTACTACTAT
GATTTCAAATGCACC
Found at i:18159817 original size:17 final size:18
Alignment explanation
Indices: 18159786--18159825 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
18159776 AAATTTTAAA
*
18159786 AAATTATAATTTTTTTTT
1 AAATTATAATATTTTTTT
18159804 AAATTATAA-ATTTTTTT
1 AAATTATAATATTTTTTT
18159821 AAATT
1 AAATT
18159826 TTAACAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AAATTATAATATTTTTTT
Found at i:18159880 original size:18 final size:19
Alignment explanation
Indices: 18159840--18159888 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
18159830 CAATTATAAA
* * *
18159840 AAAATTCTAAAATTATTTT
1 AAAATTTTAAAATAATTTC
18159859 AAAATTTTAAAA-AATTTC
1 AAAATTTTAAAATAATTTC
*
18159877 AAAATTTCAAAA
1 AAAATTTTAAAA
18159889 CAAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAAAATAATTTC
Found at i:18159909 original size:21 final size:21
Alignment explanation
Indices: 18159869--18159909 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18159859 AAAATTTTAA
* *
18159869 AAAATTTCAAAATTTCAAAAC
1 AAAATTTCAAAAATTAAAAAC
*
18159890 AAAATTTTAAAAATTAAAAA
1 AAAATTTCAAAAATTAAAAA
18159910 TATAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTTCAAAAATTAAAAAC
Found at i:18160085 original size:28 final size:28
Alignment explanation
Indices: 18160037--18160112 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
18160027 TTGGCCCTTC
18160037 TTTTTGAAAAATTATAAAAAAATT-ATAAAA
1 TTTTT-AAAAATTAT-AAAAAATTCA-AAAA
*
18160067 TTTTTAAAAGTTATAAAAAATTCAAAAA
1 TTTTTAAAAATTATAAAAAATTCAAAAA
* *
18160095 TTTTTAAAATTTTTAAAA
1 TTTTTAAAAATTATAAAA
18160113 TATAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 28 0.67
29 9 0.21
30 5 0.12
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTTTAAAAATTATAAAAAATTCAAAAA
Found at i:18160121 original size:28 final size:28
Alignment explanation
Indices: 18160037--18160123 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
18160027 TTGGCCCTTC
* * *
18160037 TTTTTGAAAAATTATAAAAAAATTATAAAA
1 TTTTT-AAAAGTTAT-AAAAAATAAAAAAA
**
18160067 TTTTTAAAAGTTATAAAAAATTCAAAAA
1 TTTTTAAAAGTTATAAAAAATAAAAAAA
* * *
18160095 TTTTTAAAATTTTTAAAATATAAAAAAA
1 TTTTTAAAAGTTATAAAAAATAAAAAAA
18160123 T
1 T
18160124 ATAAAAAAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 36 0.73
29 8 0.16
30 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (28 bp):
TTTTTAAAAGTTATAAAAAATAAAAAAA
Found at i:18160178 original size:20 final size:20
Alignment explanation
Indices: 18160153--18160209 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
18160143 CAAGAATCTA
18160153 AAAAATTCTAAAATTTTTTG
1 AAAAATTCTAAAATTTTTTG
**
18160173 AAAAATTCATAAAA-AATTTG
1 AAAAATTC-TAAAATTTTTTG
*
18160193 AAAAATTTTTAAAATTT
1 AAAAA-TTCTAAAATTT
18160210 ATAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAAATTCTAAAATTTTTTG
Found at i:18160217 original size:21 final size:20
Alignment explanation
Indices: 18160193--18160252 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
18160183 AAAAAATTTG
*
18160193 AAAAATTTTTAAAATTTATAA
1 AAAAATTTTGAAAATTT-TAA
*
18160214 AAAAATTTTGAATATTTT-A
1 AAAAATTTTGAAAATTTTAA
*
18160233 AAAATTTTTAGAAAATTTTA
1 AAAAATTTT-GAAAATTTTA
18160253 GAAATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.27
20 9 0.27
21 15 0.45
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAAATTTTGAAAATTTTAA
Found at i:18160219 original size:30 final size:29
Alignment explanation
Indices: 18160151--18160267 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 29
18160141 CCCAAGAATC
* *
18160151 TAAAAAATTCT-AAAATTTTTTGAAAAATTCA
1 TAAAAAATT-TGAAAAATTTTT--AAAATTTA
18160182 TAAAAAATTTGAAAAATTTTTAAAATTTA
1 TAAAAAATTTGAAAAATTTTTAAAATTTA
* * *
18160211 TAAAAAAATTTTG-AATATTTTAAAAATTTT
1 T-AAAAAA-TTTGAAAAATTTTTAAAATTTA
* * * *
18160241 TAGAAAATTTTAGAAATTTTTAGAATT
1 TAAAAAATTTGAAAAATTTTTAAAATT
18160268 ATTTTAGACT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 3 0.04
29 24 0.34
30 22 0.31
31 22 0.31
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (29 bp):
TAAAAAATTTGAAAAATTTTTAAAATTTA
Found at i:18160250 original size:20 final size:19
Alignment explanation
Indices: 18160185--18160261 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
18160175 AAATTCATAA
*
18160185 AAAATTTGAAAAATTTTT-
1 AAAATTTTAAAAATTTTTG
*
18160203 AAAATTTATAAAAAAATTTTG
1 AAAATTT-T-AAAAATTTTTG
*
18160224 AATATTTTAAAAATTTTTAG
1 AAAATTTTAAAAATTTTT-G
*
18160244 AAAATTTTAGAAATTTTT
1 AAAATTTTAAAAATTTTT
18160262 AGAATTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.14
19 9 0.18
20 27 0.55
21 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AAAATTTTAAAAATTTTTG
Found at i:18160262 original size:20 final size:21
Alignment explanation
Indices: 18160219--18160275 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
18160209 TATAAAAAAA
*
18160219 TTTT-GAAT-ATTTTAAAAAT
1 TTTTAGAATAATTTTAGAAAT
18160238 TTTTAGAA-AATTTTAGAAAT
1 TTTTAGAATAATTTTAGAAAT
*
18160258 TTTTAGAATTATTTTAGA
1 TTTTAGAATAATTTTAGA
18160276 CTTTTTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
20 21 0.64
21 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTAGAATAATTTTAGAAAT
Found at i:18160263 original size:10 final size:10
Alignment explanation
Indices: 18160228--18160302 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
18160218 ATTTTGAATA
*
18160228 TTTTAAAAAT
1 TTTTAGAAAT
*
18160238 TTTTAGAAAA
1 TTTTAGAAAT
18160248 TTTTAGAAAT
1 TTTTAGAAAT
*
18160258 TTTTAGAATT
1 TTTTAGAAAT
**
18160268 ATTTTAGACTT
1 -TTTTAGAAAT
* *
18160279 TTTTTGAATT
1 TTTTAGAAAT
*
18160289 TTTTA-TAAT
1 TTTTAGAAAT
18160298 TTTTA
1 TTTTA
18160303 AAAAAGAAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
9 7 0.13
10 38 0.70
11 9 0.17
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (10 bp):
TTTTAGAAAT
Found at i:18160301 original size:11 final size:11
Alignment explanation
Indices: 18160248--18160301 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
18160238 TTTTAGAAAA
*
18160248 TTTTAGAA-AT
1 TTTTAGAATTT
*
18160258 TTTTAGAATTA
1 TTTTAGAATTT
*
18160269 TTTTAGACTTT
1 TTTTAGAATTT
18160280 TTTT-GAA-TT
1 TTTTAGAATTT
*
18160289 TTTTATAATTT
1 TTTTAGAATTT
18160300 TT
1 TT
18160302 AAAAAAGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.17
10 12 0.34
11 17 0.49
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:18160464 original size:10 final size:10
Alignment explanation
Indices: 18160441--18160511 Score: 65
Period size: 10 Copynumber: 7.1 Consensus size: 10
18160431 TAAAAAAAAA
18160441 TTTAGAATTTT
1 TTTAGAA-TTT
18160452 TTTAGAATTT
1 TTTAGAATTT
18160462 TTTA-AATTT
1 TTTAGAATTT
*
18160471 TTTAGAAATT
1 TTTAGAATTT
* * *
18160481 TTCAAAAATT
1 TTTAGAATTT
*
18160491 TTTAAAATTT
1 TTTAGAATTT
18160501 GTTTAG-ATTT
1 -TTTAGAATTT
18160511 T
1 T
18160512 AAAAAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
9 10 0.19
10 31 0.60
11 11 0.21
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (10 bp):
TTTAGAATTT
Found at i:18160488 original size:50 final size:49
Alignment explanation
Indices: 18160403--18160511 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 49
18160393 CATTTATAAG
* *
18160403 TTTT-GAATTTTTTAAATATTTAGAACTTTAAAAAAAAATTTAGAATTT
1 TTTTAGAATTTTTTAAATATTTAGAAATTTAAAAAAAAATTTAAAATTT
* ** **
18160451 TTTTAGAATTTTTTAAATTTTTTAGAAATTTTCAAAAATTTTTAAAATTT
1 TTTTAGAATTTTTTAAA-TATTTAGAAATTTAAAAAAAAATTTAAAATTT
*
18160501 GTTTAG-ATTTT
1 TTTTAGAATTTT
18160512 AAAAAATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.08
49 17 0.33
50 30 0.59
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (49 bp):
TTTTAGAATTTTTTAAATATTTAGAAATTTAAAAAAAAATTTAAAATTT
Found at i:18160493 original size:29 final size:29
Alignment explanation
Indices: 18160457--18160522 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
18160447 ATTTTTTTAG
* *
18160457 AATTTTTTAAATTT-TTTAGAAATTTTCAAA
1 AATTTTTAAAATTTGTTTAG--ATTTTAAAA
18160487 AATTTTTAAAATTTGTTTAGATTTTAAAA
1 AATTTTTAAAATTTGTTTAGATTTTAAAA
18160516 AATTTTT
1 AATTTTT
18160523 CTTTTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 15 0.45
30 13 0.39
31 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
AATTTTTAAAATTTGTTTAGATTTTAAAA
Found at i:18163351 original size:14 final size:15
Alignment explanation
Indices: 18163329--18163361 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18163319 TGATTCTATG
*
18163329 AAACCCTAAA-CCTA
1 AAACACTAAACCCTA
18163343 AAACACTAAACCCTA
1 AAACACTAAACCCTA
18163358 AAAC
1 AAAC
18163362 CAACCATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (15 bp):
AAACACTAAACCCTA
Found at i:18165270 original size:12 final size:10
Alignment explanation
Indices: 18165213--18165266 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
18165203 GAAGAAATTC
18165213 AAAAAAAAGAG
1 AAAAAAAA-AG
*
18165224 GAAAAAAAAG
1 AAAAAAAAAG
*
18165234 AAAGAAAACATG
1 AAA-AAAA-AAG
18165246 AAAAAAAAAG
1 AAAAAAAAAG
*
18165256 AAAAGAAAAG
1 AAAAAAAAAG
18165266 A
1 A
18165267 GAAAGTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 16 0.44
11 15 0.42
12 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:18165270 original size:22 final size:22
Alignment explanation
Indices: 18165213--18165270 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
18165203 GAAGAAATTC
*
18165213 AAAA-AAAAGAGGAAAAAAAAG
1 AAAAGAAAAGAGAAAAAAAAAG
*
18165234 -AAAGAAAACATGAAAAAAAAAG
1 AAAAGAAAAGA-GAAAAAAAAAG
18165256 AAAAGAAAAGAGAAA
1 AAAAGAAAAGAGAAA
18165271 GTTGAAGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 5 0.16
22 14 0.45
23 9 0.29
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAGAGAAAAAAAAAG
Found at i:18166267 original size:22 final size:22
Alignment explanation
Indices: 18166242--18166296 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
18166232 CATTAAACTT
18166242 TAAACCCTAAACCTT-AAAACC
1 TAAACCCTAAACCTTAAAAACC
*
18166263 GTAAACCCTAAACTTTAAAAACC
1 -TAAACCCTAAACCTTAAAAACC
*
18166286 TAAACCTTAAA
1 TAAACCCTAAA
18166297 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCTTAAAAACC
Found at i:18166506 original size:15 final size:17
Alignment explanation
Indices: 18166477--18166508 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18166467 TCAAAATAAA
18166477 TTTTTTAGAAGTAAAAT
1 TTTTTTAGAAGTAAAAT
18166494 TTTTTTA-AA-TAAAAT
1 TTTTTTAGAAGTAAAAT
18166509 AATATCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTTTAGAAGTAAAAT
Found at i:18167292 original size:27 final size:26
Alignment explanation
Indices: 18167262--18167312 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
18167252 TTGTTTTCTT
*
18167262 AAAAAATAAAAATTTTGAAAAAAAAAC
1 AAAAAATAAAAAATTT-AAAAAAAAAC
**
18167289 AAAATTTAAAAAATTTAAAAAAAA
1 AAAAAATAAAAAATTTAAAAAAAA
18167313 TAAAAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (26 bp):
AAAAAATAAAAAATTTAAAAAAAAAC
Found at i:18167319 original size:27 final size:26
Alignment explanation
Indices: 18167261--18167319 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18167251 TTTGTTTTCT
*
18167261 TAAAAAATAAAAATTTTGAAAAAAAA
1 TAAAAAATAAAAAATTTGAAAAAAAA
*
18167287 -ACAAAATTTAAAAAATTT-AAAAAAAA
1 TA-AAAA-ATAAAAAATTTGAAAAAAAA
18167313 TAAAAAA
1 TAAAAAA
18167320 GTTTTGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
25 1 0.04
26 16 0.59
27 10 0.37
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (26 bp):
TAAAAAATAAAAAATTTGAAAAAAAA
Found at i:18168469 original size:37 final size:37
Alignment explanation
Indices: 18168346--18168480 Score: 126
Period size: 37 Copynumber: 3.6 Consensus size: 37
18168336 AAGTGCATGT
* * * * *
18168346 ATTTAATCTCGTGCACTTCTTAGTAGATAGTACATGC
1 ATTTCATCTCATGCACATCTTAATAGATAGTACATAC
* * * *
18168383 ATTTCATCTCATACATATCTCAATAGATAATACATAC
1 ATTTCATCTCATGCACATCTTAATAGATAGTACATAC
* * * *
18168420 ATTTTATTTCATGCACATCTTAATAGATAGTATATAT
1 ATTTCATCTCATGCACATCTTAATAGATAGTACATAC
* * *
18168457 ATTGCATCTCATGTATATCTTAAT
1 ATTTCATCTCATGCACATCTTAAT
18168481 GGTAATGTTG
Statistics
Matches: 76, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (37 bp):
ATTTCATCTCATGCACATCTTAATAGATAGTACATAC
Found at i:18173230 original size:25 final size:26
Alignment explanation
Indices: 18173172--18173231 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
18173162 AAATGGGGAG
*
18173172 AAAGAAAAAAGAATATAAGAAAAGCA
1 AAAGAAAAAAGAATAAAAGAAAAGCA
* *
18173198 AATA-AAAAAAGAATAAAAG-AGAGGA
1 AA-AGAAAAAAGAATAAAAGAAAAGCA
18173223 AAAGAAAAA
1 AAAGAAAAA
18173232 GTTTGTGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 11 0.38
26 16 0.55
27 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.07
Consensus pattern (26 bp):
AAAGAAAAAAGAATAAAAGAAAAGCA
Found at i:18176460 original size:21 final size:21
Alignment explanation
Indices: 18176435--18176475 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18176425 ATGTCTACAA
* *
18176435 CCTAAACCCTAAATCTTAAAC
1 CCTAAAACCTAAATCCTAAAC
*
18176456 CCTAAAATCTAAATCCTAAA
1 CCTAAAACCTAAATCCTAAA
18176476 ACATACTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTAAAACCTAAATCCTAAAC
Found at i:18176476 original size:14 final size:14
Alignment explanation
Indices: 18176436--18176476 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
18176426 TGTCTACAAC
18176436 CTAAACCCT-AAAT
1 CTAAACCCTAAAAT
18176449 CTTAAACCCTAAAAT
1 C-TAAACCCTAAAAT
*
18176464 CTAAATCCTAAAA
1 CTAAACCCTAAAA
18176477 CATACTCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 19 0.76
15 5 0.20
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCCTAAAAT
Found at i:18179940 original size:107 final size:107
Alignment explanation
Indices: 18179754--18179966 Score: 417
Period size: 107 Copynumber: 2.0 Consensus size: 107
18179744 TAATTCAGTT
18179754 ATTAAAGTGTATGGCTATTACCATAAGGCCATAGGTTCGATCCCTCTCTCTTGCATTTGAAGGTT
1 ATTAAAGTGTATGGCTATTACCATAAGGCCATAGGTTCGATCCCTCTCTCTTGCATTTGAAGGTT
18179819 TTTCAAAGGATTATTGAAGGTGTTTTTGGGATTATTCAAGGC
66 TTTCAAAGGATTATTGAAGGTGTTTTTGGGATTATTCAAGGC
*
18179861 ATTAAAGTGTATGGCTATTACCATAAGGCCGTAGGTTCGATCCCTCTCTCTTGCATTTGAAGGTT
1 ATTAAAGTGTATGGCTATTACCATAAGGCCATAGGTTCGATCCCTCTCTCTTGCATTTGAAGGTT
18179926 TTTCAAAGGATTATTGAAGGTGTTTTTGGGATTATTCAAGG
66 TTTCAAAGGATTATTGAAGGTGTTTTTGGGATTATTCAAGG
18179967 TATTTTTGGG
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (107 bp):
ATTAAAGTGTATGGCTATTACCATAAGGCCATAGGTTCGATCCCTCTCTCTTGCATTTGAAGGTT
TTTCAAAGGATTATTGAAGGTGTTTTTGGGATTATTCAAGGC
Found at i:18179959 original size:21 final size:21
Alignment explanation
Indices: 18179933--18179976 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
18179923 GTTTTTCAAA
* *
18179933 GGATTATTGAAGGTGTTTTTG
1 GGATTATTCAAGGTATTTTTG
18179954 GGATTATTCAAGGTATTTTTG
1 GGATTATTCAAGGTATTTTTG
18179975 GG
1 GG
18179977 CAAAAATGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.45
Consensus pattern (21 bp):
GGATTATTCAAGGTATTTTTG
Found at i:18180184 original size:40 final size:40
Alignment explanation
Indices: 18180139--18180216 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
18180129 AAATTTTTTA
* * *
18180139 AATGGATTATTGAAGGCGTTTTTTACCAAAAATGCCTTTG
1 AATGGATTATTGAAGGCGATTTTGACCAAAAATACCTTTG
*
18180179 AATGGATTATTGAAGGCGATTTTGGCCAAAAATACCTT
1 AATGGATTATTGAAGGCGATTTTGACCAAAAATACCTT
18180217 CAATAATCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (40 bp):
AATGGATTATTGAAGGCGATTTTGACCAAAAATACCTTTG
Found at i:18181244 original size:38 final size:38
Alignment explanation
Indices: 18181176--18181255 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
18181166 GAGTTAGAAA
* * * * *
18181176 TAATAAAATAGTATATACATTTCATTTCATACACATTT
1 TAATAAAATAATACATACATTCCATCTCATACACATCT
*
18181214 TAATAAAATAATACATGCATTCCATCTCATACACATCT
1 TAATAAAATAATACATACATTCCATCTCATACACATCT
18181252 TAAT
1 TAAT
18181256 GGTAATGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (38 bp):
TAATAAAATAATACATACATTCCATCTCATACACATCT
Found at i:18184368 original size:24 final size:24
Alignment explanation
Indices: 18184341--18184387 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18184331 AAATGCCTTG
*
18184341 AAAAGAAAAATGAAAG-AAAAAATA
1 AAAAGAAAAA-AAAAGCAAAAAATA
18184365 AAAAGAAAAAAAAAGCAAAAAAT
1 AAAAGAAAAAAAAAGCAAAAAAT
18184388 TTCTCTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAAAAAAGCAAAAAATA
Found at i:18185070 original size:19 final size:19
Alignment explanation
Indices: 18185039--18185075 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18185029 TATATACAAT
18185039 AAAAAAAAGTAAAAAGAAC
1 AAAAAAAAGTAAAAAGAAC
18185058 AAAATAAAA-TAAAAAGAA
1 AAAA-AAAAGTAAAAAGAA
18185076 ATGAATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAAAAAAGTAAAAAGAAC
Found at i:18189942 original size:51 final size:51
Alignment explanation
Indices: 18189877--18189978 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 51
18189867 TAATAATACC
* * * **
18189877 TTTTTTTATTATTCAATT-CTCTTGGTGGTGAT-ATTTGAGTTTTTCTACATG
1 TTTTTATATGATTC-ATTGCTCTTAGTGGTGATAATTCAAGTTTTT-TACATG
*
18189928 TTTTTATATGATTCATTGCTTTTAGTGGTGATAATTCAAGTTTTTTACATG
1 TTTTTATATGATTCATTGCTCTTAGTGGTGATAATTCAAGTTTTTTACATG
18189979 CTTTATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
50 3 0.07
51 30 0.70
52 10 0.23
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.55
Consensus pattern (51 bp):
TTTTTATATGATTCATTGCTCTTAGTGGTGATAATTCAAGTTTTTTACATG
Found at i:18190474 original size:71 final size:71
Alignment explanation
Indices: 18190350--18190485 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 71
18190340 TTCTCAACAT
** * **
18190350 CAAAATCCAAACTTTTTGTTAAAATTTTCTCAGTGGCACAATTCCACTTTTCATTAAAACTCTTT
1 CAAAATCCAAACCCTTTATTAAAATTTTCTCAGTGGCACAATTCCACCATTCATTAAAACTCTTT
18190415 CGATGG
66 CGATGG
* * **
18190421 CAAAATCCAACCCCTTTATTAAAATTTTCTCAGTGGTGA-AATTTGACCATTCATTAAAACTCTT
1 CAAAATCCAAACCCTTTATTAAAATTTTCTCAGTGG-CACAATTCCACCATTCATTAAAACTCTT
18190485 T
65 T
18190486 AAGTAATGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 54 0.98
72 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (71 bp):
CAAAATCCAAACCCTTTATTAAAATTTTCTCAGTGGCACAATTCCACCATTCATTAAAACTCTTT
CGATGG
Found at i:18191115 original size:29 final size:25
Alignment explanation
Indices: 18191083--18191154 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
18191073 TCCTTATCAA
18191083 TGGTGATATCTGAAGTCATTTCTACTCGG
1 TGGTGATATCTGAAGTCATTT-T--T-GG
*
18191112 TGGTAATAT-TCGAAGTCA-TTTTGG
1 TGGTGATATCT-GAAGTCATTTTTGG
*
18191136 TGGTGATATCTAAAGTCAT
1 TGGTGATATCTGAAGTCAT
18191155 CTCATTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
24 16 0.43
25 2 0.05
27 1 0.03
28 3 0.08
29 15 0.41
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (25 bp):
TGGTGATATCTGAAGTCATTTTTGG
Found at i:18191273 original size:20 final size:19
Alignment explanation
Indices: 18191244--18191285 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
18191234 AAGAAAGAAA
18191244 AAAAGAGAATGAATGAAATG
1 AAAAGAGAATGAATG-AATG
*
18191264 AAAAGTGAATGAATGAATG
1 AAAAGAGAATGAATGAATG
18191283 AAA
1 AAA
18191286 TGACATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.17
Consensus pattern (19 bp):
AAAAGAGAATGAATGAATG
Found at i:18191295 original size:10 final size:9
Alignment explanation
Indices: 18191251--18191303 Score: 60
Period size: 8 Copynumber: 6.2 Consensus size: 9
18191241 AAAAAAAGAG
18191251 AATGAATGA
1 AATGAATGA
18191260 AATGAA--A
1 AATGAATGA
*
18191267 AGTGAATG-
1 AATGAATGA
18191275 AATGAATGA
1 AATGAATGA
18191284 AATGACATGA
1 AATGA-ATGA
18191294 AATG-ATGA
1 AATGAATGA
18191302 AA
1 AA
18191304 GAACAATGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 6 0.16
8 13 0.34
9 11 0.29
10 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.23, T:0.21
Consensus pattern (9 bp):
AATGAATGA
Found at i:18191817 original size:17 final size:17
Alignment explanation
Indices: 18191795--18191833 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18191785 TTAAGAAAAC
* *
18191795 AAATACGTTTGAAGAAT
1 AAATACGTTTCAAGAAG
*
18191812 AAATACTTTTCAAGAAG
1 AAATACGTTTCAAGAAG
18191829 AAATA
1 AAATA
18191834 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (17 bp):
AAATACGTTTCAAGAAG
Found at i:18191867 original size:15 final size:14
Alignment explanation
Indices: 18191849--18191876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18191839 AAAACTAAAG
18191849 AAAAAAAATCCTTT
1 AAAAAAAATCCTTT
18191863 AAAAAAAATCCTTT
1 AAAAAAAATCCTTT
18191877 TCAAGTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAAAATCCTTT
Found at i:18192012 original size:49 final size:49
Alignment explanation
Indices: 18191959--18192062 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 49
18191949 GTTTCTTGCC
* **
18191959 TATCTTTATAGATGCCCTTTTGA-AAAAGAAATTTTTAAAATTTGTTACA
1 TATCTTTATAGAAGCCCTTTCCAGAAAAG-AATTTTTAAAATTTGTTACA
* * * *
18192008 TATCTTTATAGAAGCCCTTTCCAGAAAAGCATTTTTTAAATTTGTTGCC
1 TATCTTTATAGAAGCCCTTTCCAGAAAAGAATTTTTAAAATTTGTTACA
18192057 TATCTT
1 TATCTT
18192063 CATAAAAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 42 0.89
50 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (49 bp):
TATCTTTATAGAAGCCCTTTCCAGAAAAGAATTTTTAAAATTTGTTACA
Found at i:18192091 original size:49 final size:48
Alignment explanation
Indices: 18191942--18192092 Score: 117
Period size: 49 Copynumber: 3.1 Consensus size: 48
18191932 AAAATAAAGA
* * ** * * *
18191942 TTTTAAAGTTTCTTGCCTATCTTTATAGATGCCCTTTTGAAAAAGAAATT
1 TTTTAAA-TTTGTTGCCTATCTTTATAAAAACCCCTTT-CAAAAGAGATT
* * * * *
18191992 TTTAAAATTTGTTACATATCTTTAT-AGAAGCCCTTTCCAGAAA-AGCATT
1 TTTTAAATTTGTTGCCTATCTTTATAAAAACCCCTTT-CA-AAAGAG-ATT
*
18192041 TTTTAAATTTGTTGCCTATCTTCATAAAAACCCCTTTCAAAATGAGATT
1 TTTTAAATTTGTTGCCTATCTTTATAAAAACCCCTTTCAAAA-GAGATT
18192090 TTT
1 TTT
18192093 CGTAAAAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
48 10 0.13
49 50 0.65
50 17 0.22
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (48 bp):
TTTTAAATTTGTTGCCTATCTTTATAAAAACCCCTTTCAAAAGAGATT
Found at i:18194902 original size:25 final size:23
Alignment explanation
Indices: 18194874--18194932 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
18194864 TCACTTTAAA
*
18194874 AAAAATTAAAAATGTTTTGTCTTT
1 AAAAATTAAAAATGATTT-TCTTT
**
18194898 CAAAAAAAAAAAATGATTTTCTTT
1 -AAAAATTAAAAATGATTTTCTTT
18194922 -AAAATTAAAAA
1 AAAAATTAAAAA
18194933 AAAAAAGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 9 0.31
24 5 0.17
25 15 0.52
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAAATTAAAAATGATTTTCTTT
Found at i:18194933 original size:25 final size:25
Alignment explanation
Indices: 18194867--18194936 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
18194857 AATTGTTTCA
* *
18194867 CTTTAAAAAAAATTAAAAATGTTTTGT
1 CTTTCAAAAAAA--AAAAATGATTTGT
18194894 CTTTCAAAAAAAAAAAATGATTT-T
1 CTTTCAAAAAAAAAAAATGATTTGT
*
18194918 CTTTAAAATTAAAAAAAAA
1 CTTTCAAA--AAAAAAAAA
18194937 AAGAAGAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 8 0.21
25 10 0.26
26 9 0.24
27 11 0.29
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (25 bp):
CTTTCAAAAAAAAAAAATGATTTGT
Found at i:18196168 original size:18 final size:19
Alignment explanation
Indices: 18196123--18196168 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
18196113 TCTTTTTAAA
18196123 AAATTAAAAATTATGTATT
1 AAATTAAAAATTATGTATT
*
18196142 ATAA-T-AAAATTATTTA-T
1 A-AATTAAAAATTATGTATT
18196159 AAATTAAAAA
1 AAATTAAAAA
18196169 ATCCAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
16 2 0.09
17 3 0.13
18 14 0.61
19 2 0.09
20 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTAAAAATTATGTATT
Found at i:18206465 original size:21 final size:21
Alignment explanation
Indices: 18206436--18206479 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18206426 ATAATATAAT
*
18206436 ATATCAATTACCATGAAATTA
1 ATATAAATTACCATGAAATTA
* *
18206457 ATATAAATTATCATGCAATTA
1 ATATAAATTACCATGAAATTA
18206478 AT
1 AT
18206480 TAATAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATAAATTACCATGAAATTA
Found at i:18206493 original size:19 final size:19
Alignment explanation
Indices: 18206469--18206505 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18206459 ATAAATTATC
18206469 ATGCAAT-TAATTAATAATT
1 ATGCAATATAA-TAATAATT
18206488 ATGCAATATAATAATAAT
1 ATGCAATATAATAATAAT
18206506 AAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATGCAATATAATAATAATT
Found at i:18206587 original size:3 final size:3
Alignment explanation
Indices: 18206573--18206610 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
18206563 TTTAATTAGC
*
18206573 AAT AAC AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18206611 GTAACACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18206599 original size:14 final size:14
Alignment explanation
Indices: 18206580--18206608 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18206570 AGCAATAACA
18206580 ATAATAATAATAAT
1 ATAATAATAATAAT
18206594 ATAATAATAATAAT
1 ATAATAATAATAAT
18206608 A
1 A
18206609 ATGTAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:18206661 original size:30 final size:32
Alignment explanation
Indices: 18206596--18206661 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 32
18206586 ATAATAATAT
* *
18206596 AATAATAATAATAATGTAACACACAAAAAATAA
1 AATAATAATAACAA-GTAACACACAAAAAAAAA
18206629 AATAATAATAACAA-TAA-ACA-AAAAGAAAAA
1 AATAATAATAACAAGTAACACACAAAA-AAAAA
18206659 AAT
1 AAT
18206662 CAAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 4 0.13
30 10 0.33
31 3 0.10
33 13 0.43
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (32 bp):
AATAATAATAACAAGTAACACACAAAAAAAAA
Found at i:18206679 original size:19 final size:19
Alignment explanation
Indices: 18206644--18206698 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
18206634 TAATAACAAT
*
18206644 AAACAAAAAGAAAAAAATCAA
1 AAACAAAATG-AAAAAAT-AA
*
18206665 AATCAAAAT-AAAAAATAA
1 AAACAAAATGAAAAAATAA
*
18206683 AAAGAAAATGAAAAAA
1 AAACAAAATGAAAAAA
18206699 AGATGGGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.31
19 13 0.45
21 7 0.24
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.09
Consensus pattern (19 bp):
AAACAAAATGAAAAAATAA
Found at i:18207090 original size:30 final size:30
Alignment explanation
Indices: 18207056--18207116 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18207046 TTCATATTCA
18207056 ATTTTTAAAAAAAAAACCAAAAAAACATAG
1 ATTTTTAAAAAAAAAACCAAAAAAACATAG
*** *
18207086 ATTTTTAAAATTTAAACCAAAAAAACTTAG
1 ATTTTTAAAAAAAAAACCAAAAAAACATAG
18207116 A
1 A
18207117 ACCAAGAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.26
Consensus pattern (30 bp):
ATTTTTAAAAAAAAAACCAAAAAAACATAG
Found at i:18207615 original size:12 final size:12
Alignment explanation
Indices: 18207600--18207655 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
18207590 TTTGACCATT
18207600 TTTTTTTTTTAC
1 TTTTTTTTTTAC
* *
18207612 TTTTTTTTTAAA
1 TTTTTTTTTTAC
*
18207624 TTTTTTTACATTGAC
1 TTTTTTT---TTTAC
18207639 TTTTTTTTTTAC
1 TTTTTTTTTTAC
18207651 TTTTT
1 TTTTT
18207656 GAAAAAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
12 26 0.72
15 10 0.28
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTTAC
Found at i:18208455 original size:17 final size:17
Alignment explanation
Indices: 18208433--18208468 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18208423 ACTTTTTAAC
*
18208433 TTCACAAGGATAGAAGA
1 TTCACAAAGATAGAAGA
18208450 TTCACAAAGATAGAAGA
1 TTCACAAAGATAGAAGA
18208467 TT
1 TT
18208469 TGTAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (17 bp):
TTCACAAAGATAGAAGA
Found at i:18208491 original size:16 final size:16
Alignment explanation
Indices: 18208472--18208528 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
18208462 GAAGATTTGT
18208472 AAGAATTTAAATTCGC
1 AAGAATTTAAATTCGC
** *
18208488 AAGAATAAAAGATTCGT
1 AAGAATTTAA-ATTCGC
* *
18208505 AAAAATTTAAATTCAC
1 AAGAATTTAAATTCGC
*
18208521 GAGAATTT
1 AAGAATTT
18208529 TAGATTTATG
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (16 bp):
AAGAATTTAAATTCGC
Found at i:18208534 original size:33 final size:33
Alignment explanation
Indices: 18208449--18208526 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
18208439 AGGATAGAAG
* * *
18208449 ATTCACAA-AGATAGAAGATTTGTAAGAATTTAA
1 ATTCACAAGA-ATAAAAGATTCGTAAAAATTTAA
*
18208482 ATTCGCAAGAATAAAAGATTCGTAAAAATTTAA
1 ATTCACAAGAATAAAAGATTCGTAAAAATTTAA
*
18208515 ATTCACGAGAAT
1 ATTCACAAGAAT
18208527 TTTAGATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (33 bp):
ATTCACAAGAATAAAAGATTCGTAAAAATTTAA
Found at i:18208887 original size:22 final size:22
Alignment explanation
Indices: 18208862--18208994 Score: 72
Period size: 22 Copynumber: 6.0 Consensus size: 22
18208852 ATTTTCCCTT
*
18208862 CAAAAATGTAAAGATTCACATC
1 CAAAAATTTAAAGATTCACATC
* * * *
18208884 CAAAATTTTAAAAATTCATATGT
1 CAAAAATTTAAAGATTCACAT-C
* *
18208907 GAAAAATTTTAGAGATTCACATC
1 CAAAAA-TTTAAAGATTCACATC
* *** *
18208930 C-AAAAGTTAAAGATTTTTATTT
1 CAAAAATTTAAAGATTCACA-TC
* *
18208952 GAAAAATTTAAGGATTCACAT-
1 CAAAAATTTAAAGATTCACATC
* *
18208973 CAAAATTTTCAAAGATTTACAT
1 CAAAAATTT-AAAGATTCACAT
18208995 TCGAAAAGCT
Statistics
Matches: 78, Mismatches: 28, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
21 16 0.21
22 33 0.42
23 17 0.22
24 12 0.15
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CAAAAATTTAAAGATTCACATC
Found at i:18208936 original size:90 final size:89
Alignment explanation
Indices: 18208818--18208981 Score: 220
Period size: 90 Copynumber: 1.8 Consensus size: 89
18208808 ATTCTTCCTA
* * * * *
18208818 AAAAATTTTAGGGTTTCATATCTAAAAGTTAAAAATTTTCCCTTCAAAAATGTAAAGATTCACAT
1 AAAAATTTTAGAGATTCACATCCAAAAGTTAAAAATTTTCACTTCAAAAATGTAAAGATTCACAT
18208883 CCAAAATTTTAAAAATTCATATGTG
66 -CAAAATTTTAAAAATTCATATGTG
* * * * * *
18208908 AAAAATTTTAGAGATTCACATCCAAAAGTTAAAGATTTTTATTTGAAAAATTTAAGGATTCACAT
1 AAAAATTTTAGAGATTCACATCCAAAAGTTAAAAATTTTCACTTCAAAAATGTAAAGATTCACAT
18208973 CAAAATTTT
66 CAAAATTTT
18208982 CAAAGATTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 9 0.14
90 54 0.86
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (89 bp):
AAAAATTTTAGAGATTCACATCCAAAAGTTAAAAATTTTCACTTCAAAAATGTAAAGATTCACAT
CAAAATTTTAAAAATTCATATGTG
Found at i:18208987 original size:45 final size:45
Alignment explanation
Indices: 18208863--18208991 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
18208853 TTTTCCCTTC
* * * *
18208863 AAAAATGTAAAGATTCACATCCAAAATTTTAAAAATTCATATGTG
1 AAAAATTTAAGGATTCACATCCAAAATTTTAAAGATTTATATGTG
* * * *
18208908 AAAAATTTTAGAGATTCACATCCAAAA-GTTAAAGATTTTTATTTG
1 AAAAATTTAAG-GATTCACATCCAAAATTTTAAAGATTTATATGTG
18208953 AAAAATTTAAGGATTCACAT-CAAAATTTTCAAAGATTTA
1 AAAAATTTAAGGATTCACATCCAAAATTTT-AAAGATTTA
18208992 CATTCGAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 5 0.07
44 11 0.16
45 39 0.56
46 15 0.21
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (45 bp):
AAAAATTTAAGGATTCACATCCAAAATTTTAAAGATTTATATGTG
Found at i:18209192 original size:34 final size:34
Alignment explanation
Indices: 18209148--18209221 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
18209138 CAAATGCCTT
* *
18209148 CTAAATGATGCAAATGTAACAATCCATATTCTCA
1 CTAAATGATGCAAATGCAACAATCCAAATTCTCA
*
18209182 TTAAATGATGCAAATGCAACAATCCAAATTCTCA
1 CTAAATGATGCAAATGCAACAATCCAAATTCTCA
18209216 CTAAAT
1 CTAAAT
18209222 ACAAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (34 bp):
CTAAATGATGCAAATGCAACAATCCAAATTCTCA
Done.