Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 138 of 228
Found at i:41398394 original size:22 final size:21
Alignment explanation
Indices: 41398356--41398400 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
41398346 TTGATCCTCA
* * *
41398356 CTTTTCTTTCTTTTACATTTT
1 CTTTTCTTTCATGTACAATTT
41398377 CTTTTCTTTTCATGTACAATTT
1 CTTTTC-TTTCATGTACAATTT
41398399 CT
1 CT
41398401 AGTAAGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.13, C:0.20, G:0.02, T:0.64
Consensus pattern (21 bp):
CTTTTCTTTCATGTACAATTT
Found at i:41418033 original size:13 final size:13
Alignment explanation
Indices: 41418015--41418051 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
41418005 GAAGCATGCG
* *
41418015 TAAAACTTATCTT
1 TAAAACATAACTT
41418028 TAAAACATAACTT
1 TAAAACATAACTT
41418041 TAAAACATAAC
1 TAAAACATAAC
41418052 AACACACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATAACTT
Found at i:41423560 original size:35 final size:35
Alignment explanation
Indices: 41423514--41423584 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
41423504 TATAGTTTCC
41423514 TAAGGAGGTGTTGGGAAAGGAGTTTGCACATTTGG
1 TAAGGAGGTGTTGGGAAAGGAGTTTGCACATTTGG
41423549 TAAGGAGGTGTTGGGAAAGGAGTTTGCACATTTGG
1 TAAGGAGGTGTTGGGAAAGGAGTTTGCACATTTGG
41423584 T
1 T
41423585 GTTCCAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.06, G:0.39, T:0.30
Consensus pattern (35 bp):
TAAGGAGGTGTTGGGAAAGGAGTTTGCACATTTGG
Found at i:41426408 original size:21 final size:21
Alignment explanation
Indices: 41426371--41426419 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
41426361 ATAAATATAT
*
41426371 TATAA-TTTTTTTTATAA-AA
1 TATAACTTTTTTTCATAATAA
41426390 TATAACTTATTTTTCATAATAA
1 TATAACTT-TTTTTCATAATAA
41426412 -ATAACTTT
1 TATAACTTT
41426420 AGAATTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 16 0.62
22 2 0.08
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (21 bp):
TATAACTTTTTTTCATAATAA
Found at i:41427588 original size:92 final size:92
Alignment explanation
Indices: 41427426--41427612 Score: 340
Period size: 92 Copynumber: 2.0 Consensus size: 92
41427416 AAATGTTTTG
*
41427426 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTGAATTGTATTGGTT
1 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTAAATTGTATTGGTT
41427491 GAATTTTACATTGTAATTGGTTAGACA
66 GAATTTTACATTGTAATTGGTTAGACA
41427518 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCAT-TCGTAAATTGTATTGGT
1 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCT-GTAAATTGTATTGGT
*
41427582 TTAATTTTACATTGTAATTGGTTAGACA
65 TGAATTTTACATTGTAATTGGTTAGACA
41427610 TAT
1 TAT
41427613 AATTGTATTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
91 1 0.01
92 91 0.99
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (92 bp):
TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTAAATTGTATTGGTT
GAATTTTACATTGTAATTGGTTAGACA
Found at i:41429344 original size:44 final size:42
Alignment explanation
Indices: 41429281--41429393 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 42
41429271 TGTGATATCG
41429281 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTT--GA-TTACA
41429325 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTACA
*
41429368 TGTAAGACCACGTCTAGGACGTTGGC
1 TGTAAGACCACGTCTGGGACGTTGGC
41429394 GTTGTACGAG
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
42 1 0.02
43 27 0.44
44 29 0.47
45 1 0.02
46 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:41432428 original size:13 final size:13
Alignment explanation
Indices: 41432410--41432435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41432400 ATAACTTCCT
41432410 TACATAGCGTAGG
1 TACATAGCGTAGG
41432423 TACATAGCGTAGG
1 TACATAGCGTAGG
41432436 CAAACTCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TACATAGCGTAGG
Found at i:41432738 original size:23 final size:23
Alignment explanation
Indices: 41432709--41432818 Score: 94
Period size: 23 Copynumber: 4.8 Consensus size: 23
41432699 GATCTCGCCT
* *
41432709 CAAAGGCATTACAGAATGTGTCA
1 CAAAGGCATTACAGAATATGCCA
* *
41432732 CATAGGCATCACAGAATATGCCA
1 CAAAGGCATTACAGAATATGCCA
* * * *
41432755 CAAAGGCTTTACAGAACACGTCA
1 CAAAGGCATTACAGAATATGCCA
* * *
41432778 CAAAAGCTTTACAGAATATTCCA
1 CAAAGGCATTACAGAATATGCCA
* * *
41432801 CACAGGCTTTACTGAATA
1 CAAAGGCATTACAGAATA
41432819 CGTCTATGTT
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (23 bp):
CAAAGGCATTACAGAATATGCCA
Found at i:41432778 original size:46 final size:46
Alignment explanation
Indices: 41432709--41432822 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
41432699 GATCTCGCCT
* ** * *
41432709 CAAAGGCATTACAGAATGTGTCACATAGGCATCACAGAATATGCCA
1 CAAAGGCTTTACAGAATACGTCACAAAAGCATCACAGAATATGCCA
* * * *
41432755 CAAAGGCTTTACAGAACACGTCACAAAAGCTTTACAGAATATTCCA
1 CAAAGGCTTTACAGAATACGTCACAAAAGCATCACAGAATATGCCA
* *
41432801 CACAGGCTTTACTGAATACGTC
1 CAAAGGCTTTACAGAATACGTC
41432823 TATGTTTACT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (46 bp):
CAAAGGCTTTACAGAATACGTCACAAAAGCATCACAGAATATGCCA
Found at i:41440119 original size:48 final size:47
Alignment explanation
Indices: 41439895--41440274 Score: 672
Period size: 47 Copynumber: 8.0 Consensus size: 47
41439885 AATTCTAAAT
41439895 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41439942 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41439989 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41440036 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41440083 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41440131 TGTGA-ATAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATA-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41440178 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41440226 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41440274 T
1 T
41440275 ATATGATGTA
Statistics
Matches: 322, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 186 0.58
48 134 0.42
49 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:41440147 original size:95 final size:94
Alignment explanation
Indices: 41439895--41440274 Score: 672
Period size: 95 Copynumber: 4.0 Consensus size: 94
41439885 AATTCTAAAT
41439895 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
41439960 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* *
41439989 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
41440054 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
*
41440083 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-ATAGGCCTAAT
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA-AGGCCTAAT
41440147 GGCCGATGTGATGAATGTGAAAGTGTATATA
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* *
41440178 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAAT
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAAT
41440243 GGCCGATGTGATGAATGTGAAAGTGTATATA
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
41440274 T
1 T
41440275 ATATGATGTA
Statistics
Matches: 276, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
94 97 0.35
95 137 0.50
96 41 0.15
97 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:41442620 original size:20 final size:19
Alignment explanation
Indices: 41442595--41442640 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
41442585 GTATTGATCC
41442595 GGTATC-TATACTTTTCTCAA
1 GGTATCATATA-TTTTCT-AA
41442615 GGTATCGATATATTTTCTAA
1 GGTATC-ATATATTTTCTAA
41442635 GGTATC
1 GGTATC
41442641 GATGTTCCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.58
21 6 0.25
22 4 0.17
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (19 bp):
GGTATCATATATTTTCTAA
Found at i:41442641 original size:20 final size:22
Alignment explanation
Indices: 41442601--41442643 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
41442591 ATCCGGTATC
41442601 TATACTTTTCTCAAGGTATCGA
1 TATACTTTTCTCAAGGTATCGA
41442623 TATA-TTTTCT-AAGGTATCGA
1 TATACTTTTCTCAAGGTATCGA
41442643 T
1 T
41442644 GTTCCTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 6 0.29
22 4 0.19
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (22 bp):
TATACTTTTCTCAAGGTATCGA
Found at i:41445913 original size:113 final size:111
Alignment explanation
Indices: 41445667--41445893 Score: 373
Period size: 113 Copynumber: 2.0 Consensus size: 111
41445657 AGATGAACAA
*
41445667 ATTAAAACAATGATGAAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATGGGCAAGTTAT
1 ATTAAAACAATGAT-AAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTAT
*
41445732 ATATAGTCAGTGACATGAACTTTACTATGAACTTGTAGAGGCTCATG
65 ATATAGTCAGTGACATGAACTTTACTATGAACTTATAGAGGCTCATG
*
41445779 CATTAAAACAATGATGAAAATACGTATTTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTA
1 -ATTAAAACAATGAT-AAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTA
*
41445844 TATATAGTCGCAGTGACGTGAACTTTACTATGAACTTATAGAGGCTCATG
64 TATATAGT--CAGTGACATGAACTTTACTATGAACTTATAGAGGCTCATG
41445894 TTGTTAACGT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
113 70 0.65
115 38 0.35
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (111 bp):
ATTAAAACAATGATAAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTATA
TATAGTCAGTGACATGAACTTTACTATGAACTTATAGAGGCTCATG
Found at i:41446757 original size:16 final size:17
Alignment explanation
Indices: 41446736--41446770 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
41446726 AATTTTAAAT
41446736 TTTAAAATTTT-ATTTA
1 TTTAAAATTTTAATTTA
*
41446752 TTTAAAGTTTTAATTTA
1 TTTAAAATTTTAATTTA
41446769 TT
1 TT
41446771 AACTTCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTAAAATTTTAATTTA
Found at i:41446764 original size:8 final size:7
Alignment explanation
Indices: 41446705--41446747 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
41446695 TTATCAAAAG
41446705 AATTTTA
1 AATTTTA
*
41446712 AACTTTA
1 AATTTTA
*
41446719 AACTTTA
1 AATTTTA
41446726 AATTTTA
1 AATTTTA
41446733 AATTTTAA
1 AATTTT-A
41446741 AATTTTA
1 AATTTTA
41446748 TTTATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (7 bp):
AATTTTA
Found at i:41446772 original size:16 final size:15
Alignment explanation
Indices: 41446723--41446772 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
41446713 ACTTTAAACT
41446723 TTAAATTTTAAATTT-
1 TTAAATTTT-AATTTA
*
41446738 TAAAATTTT-ATTTA
1 TTAAATTTTAATTTA
41446752 TTTAAAGTTTTAATTTA
1 -TTAAA-TTTTAATTTA
41446769 TTAA
1 TTAA
41446773 CTTCCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 4 0.14
15 12 0.41
16 8 0.28
17 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTAAATTTTAATTTA
Found at i:41447090 original size:16 final size:17
Alignment explanation
Indices: 41447062--41447093 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41447052 TGTATAAATT
41447062 ATTTAAAATTAAAATCC
1 ATTTAAAATTAAAATCC
41447079 ATTTAAAA-TAAAATC
1 ATTTAAAATTAAAATC
41447094 TTAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTAAAATTAAAATCC
Found at i:41447162 original size:7 final size:7
Alignment explanation
Indices: 41447142--41447178 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
41447132 TCAATATATT
41447142 TTTAAAA
1 TTTAAAA
41447149 TTTTAAAA
1 -TTTAAAA
41447157 TTTAAAA
1 TTTAAAA
41447164 TTTAAAA
1 TTTAAAA
41447171 TTATAAAA
1 TT-TAAAA
41447179 ATGGAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 16 0.57
8 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:41447162 original size:15 final size:14
Alignment explanation
Indices: 41447142--41447178 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
41447132 TCAATATATT
41447142 TTTAAAATTTTAAAA
1 TTTAAAA-TTTAAAA
41447157 TTTAAAATTTAAAA
1 TTTAAAATTTAAAA
41447171 TTATAAAA
1 TT-TAAAA
41447179 ATGGAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAAAATTTAAAA
Found at i:41448075 original size:16 final size:17
Alignment explanation
Indices: 41448054--41448085 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41448044 CTAAACTAAT
41448054 TTTTTATAT-ATTTTTA
1 TTTTTATATAATTTTTA
41448070 TTTTTATATAATTTTT
1 TTTTTATATAATTTTT
41448086 TATATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATATAATTTTTA
Found at i:41448104 original size:14 final size:12
Alignment explanation
Indices: 41448070--41448096 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41448060 TATATTTTTA
41448070 TTTTTATATAAT
1 TTTTTATATAAT
41448082 TTTTTATATAAT
1 TTTTTATATAAT
41448094 TTT
1 TTT
41448097 CTTAATATTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:41448112 original size:28 final size:28
Alignment explanation
Indices: 41448050--41448113 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
41448040 AAACCTAAAC
* **
41448050 TAATTTTTTATATATTTTTATTTTTATA
1 TAATTTTTTATATAATTTTATTAATATA
*
41448078 TAATTTTTTATATAATTTTCTTAATAT-
1 TAATTTTTTATATAATTTTATTAATATA
*
41448105 TTATTTTTT
1 TAATTTTTT
41448114 CAGTTATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
TAATTTTTTATATAATTTTATTAATATA
Found at i:41448164 original size:14 final size:14
Alignment explanation
Indices: 41448147--41448175 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41448137 TCTAATATTA
41448147 TAAATATAATTTTT
1 TAAATATAATTTTT
41448161 TAAATATAATTTTT
1 TAAATATAATTTTT
41448175 T
1 T
41448176 TAGTAAATAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAATATAATTTTT
Found at i:41448205 original size:20 final size:18
Alignment explanation
Indices: 41448161--41448205 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
41448151 TATAATTTTT
*
41448161 TAAATATAATTTTTTTAG
1 TAAATATAATTTTTATAG
41448179 TAAATATAATTTTTATATG
1 TAAATATAATTTTTATA-G
41448198 TGAAATAT
1 T-AAATAT
41448206 TTATTCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.67
19 2 0.08
20 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (18 bp):
TAAATATAATTTTTATAG
Found at i:41451805 original size:73 final size:73
Alignment explanation
Indices: 41451689--41451827 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
41451679 TGCTCTTCGT
* * *
41451689 GAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCCCGATATGGCTCGCTTGAACTTCCTGATATAT
1 GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTTCCCGATATGGCTCGCATGAACTTCCTGAT-TAT
41451754 GGTTATCCA
65 GGTTATCCA
* * *
41451763 GAGCTT-CTCATTAATGGCTCTTCG-GAG-TTACCCGTTATTGGCTCGCATGAGCTTCCTGATTA
1 GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTT-CCCGATA-TGGCTCGCATGAACTTCCTGATTA
41451825 TGG
64 TGG
41451828 CTCTTATGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
71 2 0.04
72 14 0.25
73 35 0.61
74 6 0.11
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTTCCCGATATGGCTCGCATGAACTTCCTGATTATG
GTTATCCA
Found at i:41455740 original size:47 final size:47
Alignment explanation
Indices: 41455662--41455927 Score: 424
Period size: 47 Copynumber: 5.6 Consensus size: 47
41455652 CCCTTCGGGA
* * * * * *
41455662 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41455709 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41455756 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41455803 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41455852 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41455899 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
41455928 TATTCAAATA
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
47 139 0.68
49 66 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41455859 original size:96 final size:96
Alignment explanation
Indices: 41455662--41455927 Score: 446
Period size: 96 Copynumber: 2.8 Consensus size: 96
41455652 CCCTTCGGGA
* * * * * * * *
41455662 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
41455725 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
41455756 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
41455821 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
41455852 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
41455917 ACTTTCACATT
66 ACTTTCACATT
41455928 TATTCAAATA
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 47 0.29
96 115 0.71
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41468362 original size:15 final size:15
Alignment explanation
Indices: 41468342--41468370 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41468332 TTTATAATTA
41468342 ATTTAATTAATATTT
1 ATTTAATTAATATTT
41468357 ATTTAATTAATATT
1 ATTTAATTAATATT
41468371 AATCACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTAATTAATATTT
Found at i:41469532 original size:41 final size:40
Alignment explanation
Indices: 41469433--41469577 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
41469423 ATTATTGTAT
* * * *
41469433 TGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACCTC
1 TGAATGCACATACGTGCCCCTGATTGTACTTCGATACCCC
* ** * *
41469473 TAAATGCACATAATTGCCCTTGATTGTACTTTGATACCCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTCGATA-CCCC
* **
41469514 TGAATGCACATGCGTGCCCCTTTTTGTACTTC-AGTACCCC
1 TGAATGCACATACGTGCCCCTGATTGTACTTCGA-TACCCC
* * * *
41469554 AGAATGCATATACATGCTCCTGAT
1 TGAATGCACATACGTGCCCCTGAT
41469578 CTTATTATGG
Statistics
Matches: 79, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
40 50 0.63
41 29 0.37
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGATTGTACTTCGATACCCC
Found at i:41472310 original size:19 final size:18
Alignment explanation
Indices: 41472286--41472322 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
41472276 GCGAAGAAAT
41472286 TAAATAATTAAATTCAAAA
1 TAAATAATTAAATT-AAAA
41472305 TAAATAATTAAATTAAAA
1 TAAATAATTAAATTAAAA
41472323 GATCATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAATAATTAAATTAAAA
Found at i:41473956 original size:25 final size:27
Alignment explanation
Indices: 41473918--41473967 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
41473908 GTTAAATAAA
*
41473918 TAAAAAAAACAAACT-AGTCCATTTGT
1 TAAAAAAAACAAACTGAATCCATTTGT
*
41473944 TAAAAATAA-AAACTGAATCCATTT
1 TAAAAAAAACAAACTGAATCCATTT
41473968 TTACGGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (27 bp):
TAAAAAAAACAAACTGAATCCATTTGT
Found at i:41477253 original size:22 final size:22
Alignment explanation
Indices: 41477228--41477270 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
41477218 AATTAGTTAA
41477228 TAAC-AAATAATTTTTATTAAAT
1 TAACTAAA-AATTTTTATTAAAT
* *
41477250 TAACTTAAAATTTTTTTTAAA
1 TAACTAAAAATTTTTATTAAA
41477271 AAAAGTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TAACTAAAAATTTTTATTAAAT
Found at i:41481671 original size:98 final size:98
Alignment explanation
Indices: 41481546--41481742 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
41481536 TTTAAAATAA
** *
41481546 TAAAGGAAATATTCTGAGTTTGCGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTT
1 TAAAGGAAATATTCCAAGTTTGCGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
41481611 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
* * *
41481644 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGCGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
*
41481709 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
41481742 T
1 T
41481743 TTTATTGCAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGCGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
Found at i:41482772 original size:11 final size:12
Alignment explanation
Indices: 41482754--41482784 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
41482744 TTAATATAAG
41482754 ATTATTTAAATA
1 ATTATTTAAATA
41482766 ATT-TTTAAATA
1 ATTATTTAAATA
41482777 ATTATTTA
1 ATTATTTA
41482785 GGTTATAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTTAAATA
Found at i:41486065 original size:23 final size:23
Alignment explanation
Indices: 41486035--41486081 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
41486025 CTTCGTTTCG
41486035 GTACTTAGTTTAAAAATGATTAT
1 GTACTTAGTTTAAAAATGATTAT
41486058 GTACTTAGTTTAAAAATGATTAT
1 GTACTTAGTTTAAAAATGATTAT
41486081 G
1 G
41486082 ACGTGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
GTACTTAGTTTAAAAATGATTAT
Found at i:41486674 original size:29 final size:31
Alignment explanation
Indices: 41486614--41486676 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
41486604 TCACATTTGG
* *
41486614 TACTTGTACTTTTATAAAATGTCTAATGTGA
1 TACTTGTACTTTTATAAAATATCTAATATGA
41486645 TACTTGTAC-TTTA-AAAATATCTAATATGA
1 TACTTGTACTTTTATAAAATATCTAATATGA
41486674 TAC
1 TAC
41486677 CTGAGCTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.57
30 4 0.13
31 9 0.30
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (31 bp):
TACTTGTACTTTTATAAAATATCTAATATGA
Found at i:41486965 original size:20 final size:20
Alignment explanation
Indices: 41486905--41486965 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
41486895 GCATTACGTG
*
41486905 AAAAACTAAATAAAAGTTCAAT
1 AAAAAATAAATAAAA-TT-AAT
* * * *
41486927 TAAAAATATATATAGTTAAT
1 AAAAAATAAATAAAATTAAT
41486947 AAAAAATAAATAAAATTAA
1 AAAAAATAAATAAAATTAA
41486966 GCTTACATGA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 18 0.60
21 2 0.07
22 10 0.33
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAAATAAATAAAATTAAT
Found at i:41494279 original size:25 final size:25
Alignment explanation
Indices: 41494251--41494299 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
41494241 ACCAATACTC
* *
41494251 AGCTCATATAAGCTTACCGTTATTT
1 AGCTCAGAGAAGCTTACCGTTATTT
* *
41494276 AGCTCGGAGGAGCTTACCGTTATT
1 AGCTCAGAGAAGCTTACCGTTATT
41494300 CAGATTGGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTCAGAGAAGCTTACCGTTATTT
Found at i:41494309 original size:25 final size:25
Alignment explanation
Indices: 41494261--41494321 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
41494251 AGCTCATATA
* *
41494261 AGCTTACCGTTATTTAGCTCGGAGG
1 AGCTTACCGTTATTCAGATCGGAGG
*
41494286 AGCTTACCGTTATTCAGATTGGAGG
1 AGCTTACCGTTATTCAGATCGGAGG
*
41494311 AGCTTATCGTT
1 AGCTTACCGTT
41494322 TATAGCTCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (25 bp):
AGCTTACCGTTATTCAGATCGGAGG
Found at i:41499852 original size:16 final size:16
Alignment explanation
Indices: 41499831--41499862 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41499821 ATTTTGTTGC
*
41499831 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
41499847 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
41499863 CGTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:41500393 original size:51 final size:51
Alignment explanation
Indices: 41500326--41500523 Score: 197
Period size: 51 Copynumber: 3.9 Consensus size: 51
41500316 TTAATGATAT
* * * *
41500326 CGATTCACATAGTAGCCTGCACATAGTACTACACATGTGCCCATCACTATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACAATC
* * * *
41500377 CAATACACGTAGTAGCCTGCACATAGTACTAAACATGTGATCGA--AGCAATT
1 CGATACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CAATC
* * * * *
41500428 CGATACGCATAGTAGCCTGCACATAGTACTACATATGCGACC-T-ACCATTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CAATC
* * *
41500478 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
41500524 TTTTCACTTT
Statistics
Matches: 117, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
50 41 0.35
51 73 0.62
52 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACAATC
Found at i:41500396 original size:245 final size:245
Alignment explanation
Indices: 41499966--41500445 Score: 924
Period size: 245 Copynumber: 2.0 Consensus size: 245
41499956 TTTCCCGAAG
*
41499966 AACACTTCGGAATAATAACAGATACACGATGGATTCTGCACACAGCAACCACCCTTTGTAATCAA
1 AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGCAACCACCCTTTGTAATCAA
41500031 TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
66 TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
41500096 CCTGCACATAGTACCACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
131 CCTGCACATAGTACCACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
41500161 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
196 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
*
41500211 AACACTTCGGAATAATAACAGATACACGGTGGATTCCGCACACAGCAACCACCCTTTGTAATCAA
1 AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGCAACCACCCTTTGTAATCAA
41500276 TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
66 TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
*
41500341 CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
131 CCTGCACATAGTACCACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
*
41500406 TAAACATGTGATCGAAGCAATTCGATACGCATAGTAGCCT
196 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCT
41500446 GCACATAGTA
Statistics
Matches: 231, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 231 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (245 bp):
AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGCAACCACCCTTTGTAATCAA
TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
CCTGCACATAGTACCACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
Found at i:41500541 original size:101 final size:102
Alignment explanation
Indices: 41500325--41500517 Score: 264
Period size: 101 Copynumber: 1.9 Consensus size: 102
41500315 ATTAATGATA
* *
41500325 TCGATTCACATAGTAGCCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGT
1 TCGATTCACATAGTAGCCTGCACATAGTACTACACATGCGCCCACCACTATCCAATACACGTAGT
*
41500390 AGCCTGCACATAGTACTAAACATGTGATCGAAGCAAT
66 AGCCTGCACATAGTACTAAACACGTGATCGAAGCAAT
* * * * ***
41500427 TCGATACGCATAGTAGCCTGCACATAGTACTACATATGCGACCTACCA-T-TCTGGTACACGTAG
1 TCGATTCACATAGTAGCCTGCACATAGTACTACACATGCG-CCCACCACTATCCAATACACGTAG
*
41500490 TAGCCTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTAAACACGTGA
41500518 CCATCATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
101 37 0.47
102 37 0.47
103 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
TCGATTCACATAGTAGCCTGCACATAGTACTACACATGCGCCCACCACTATCCAATACACGTAGT
AGCCTGCACATAGTACTAAACACGTGATCGAAGCAAT
Found at i:41504609 original size:25 final size:25
Alignment explanation
Indices: 41504551--41504638 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
41504541 TTAGGGTTAT
41504551 CGAT-TTCAGCTCT-TATGAGCTTAC
1 CGATATTCAGCT-TGTATGAGCTTAC
* *
41504575 TGATACTCAGCTTGTATGAGCTTAC
1 CGATATTCAGCTTGTATGAGCTTAC
* * * *
41504600 CGCTATTCAGCTCGGAGGAGCTTAC
1 CGATATTCAGCTTGTATGAGCTTAC
* *
41504625 CGTTATTCAACTTG
1 CGATATTCAGCTTG
41504639 GAGCAGCATA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 4 0.08
25 47 0.92
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
CGATATTCAGCTTGTATGAGCTTAC
Found at i:41513973 original size:19 final size:19
Alignment explanation
Indices: 41513949--41513986 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41513939 TATGTAAATA
*
41513949 AAGACAAAATTTAGTAATT
1 AAGACAAAATTAAGTAATT
*
41513968 AAGACATAATTAAGTAATT
1 AAGACAAAATTAAGTAATT
41513987 TTAAAGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AAGACAAAATTAAGTAATT
Found at i:41514781 original size:31 final size:31
Alignment explanation
Indices: 41514746--41515044 Score: 388
Period size: 31 Copynumber: 9.7 Consensus size: 31
41514736 GTATATGTTT
** * * *
41514746 TATACATTGTTGAATTTGACTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
41514777 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
41514808 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
41514839 TATACATTGCCGAATTTGATTTGTGTATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
41514870 TATATATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
41514900 TATACATTGCCGAAGTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
41514931 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
41514962 TATTCATTGCCGAA-TTGATTTTTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
** *
41514992 TATACATTGCTAAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
41515023 TACATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
41515045 AGCATTGGAT
Statistics
Matches: 237, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
30 59 0.25
31 178 0.75
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:41514912 original size:123 final size:122
Alignment explanation
Indices: 41514758--41515044 Score: 405
Period size: 123 Copynumber: 2.3 Consensus size: 122
41514748 TACATTGTTG
* *
41514758 AATTTGACTTGTTTATAGATATACATTGCCGAATTTGATTTGTATATGGTTATACATTGCCGAAT
1 AATTTGATTTGTATATAGATATACATTGCCGAA-TTGATTTGTATATGGTTATACATTGCCGAAT
* * * * *
41514823 TTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGTGTATGGATATATATTGCCG
65 TTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGATATACATTGCCA
41514882 AA-TTGATTTGTATATAGATATACATTGCCGAAGTTGATTTGTATATGGTTATACATTGCCGAAT
1 AATTTGATTTGTATATAGATATACATTGCCGAA-TTGATTTGTATATGGTTATACATTGCCGAAT
* * *
41514946 TTGATTTGTATATGGATATTCATTGCCGAATTGATTTTTATATAGATATACATTGCTA
65 TTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATACATTGCCA
* * * * *
41515004 AATTTGATTCGTATATGGATACATATTGCTGAATTGATTTG
1 AATTTGATTTGTATATAGATATACATTGCCGAATTGATTTG
41515045 AGCATTGGAT
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
122 32 0.22
123 112 0.77
124 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (122 bp):
AATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATGGTTATACATTGCCGAATT
TGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGATATACATTGCCA
Found at i:41514922 original size:92 final size:92
Alignment explanation
Indices: 41514735--41515044 Score: 408
Period size: 92 Copynumber: 3.4 Consensus size: 92
41514725 TGAATTTAAA
* ** * * * *
41514735 TGTATATGTTTTATACATTGTTGAATTTGACTTGTTTATAGATATACATTGCCGAATTTGATTTG
1 TGTATATG-GTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAA-TTGATTTG
* *
41514800 TATATGGTTATACATTGCCGAATTTGATT
64 TATATAGATATACATTGCCGAATTTGATT
*
41514829 TGTATATGGTTATACATTGCCGAATTTGATTTGTGTATGGATATATATTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAATTGATTTGTA
*
41514894 TATAGATATACATTGCCGAAGTTGATT
66 TATAGATATACATTGCCGAATTTGATT
*
41514921 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATAT-TCATTGCCGAATTGATTTTT
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATAT-ATTGCCGAATTGATTTGT
**
41514985 ATATAGATATACATTGCTAAATTTGATT
65 ATATAGATATACATTGCCGAATTTGATT
* * * * *
41515013 CGTATATGGATACATATTGCTGAA-TTGATTTG
1 TGTATATGGTTATACATTGCCGAATTTGATTTG
41515045 AGCATTGGAT
Statistics
Matches: 195, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
91 9 0.05
92 138 0.71
93 40 0.21
94 8 0.04
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (92 bp):
TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAATTGATTTGTA
TATAGATATACATTGCCGAATTTGATT
Found at i:41522510 original size:47 final size:49
Alignment explanation
Indices: 41522435--41522534 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 49
41522425 GGAGTAAAAT
* *
41522435 CAGATTTCTCGGTCGCCTGTACACAGTCCGTACCACCTTTGT-TAATAA
1 CAGATTTCTCGGTCGCCTGCACACAGTCCGTACCACCCTTGTATAATAA
* * * *
41522483 CAGA-TTCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCATAA
1 CAGATTTCTCGGTCGCCTGCACACAGTCCGTACCACCCTTGTATAATAA
41522531 CAGA
1 CAGA
41522535 ATACCGGTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 32 0.71
48 13 0.29
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (49 bp):
CAGATTTCTCGGTCGCCTGCACACAGTCCGTACCACCCTTGTATAATAA
Found at i:41529470 original size:35 final size:35
Alignment explanation
Indices: 41529431--41529683 Score: 172
Period size: 35 Copynumber: 6.9 Consensus size: 35
41529421 CCTTAGATAT
41529431 GTCTATCCCAACCTTTTTAAAGTTGCTTTAGACAG
1 GTCTATCCCAACCTTTTTAAAGTTGCTTTAGACAG
* * *
41529466 GTCTATCCTAACTTTTTTTAAAGGTTGTTTTAGAC-G
1 GTCTATCCCAAC-CTTTTTAAA-GTTGCTTTAGACAG
*
41529502 TGTCTATCCCAA-CTTTTTAAGGTTGCTTTAGACAAG
1 -GTCTATCCCAACCTTTTTAAAGTTGCTTTAGAC-AG
* * *
41529538 GTCTATGTCTATCTTAACTTTTTTTAAATGTTGCTTTAGA-TG
1 GTCTA--TC---C-CAAC-CTTTTTAAA-GTTGCTTTAGACAG
* *
41529580 TGTCTATCCCAA-CTTTTTAAGGTTGCTTTAGATAAG
1 -GTCTATCCCAACCTTTTTAAAGTTGCTTTAGA-CAG
* * * * *
41529616 GTCTATCCCAACCTTTCTGAGGTTGTTTTAGACGG
1 GTCTATCCCAACCTTTTTAAAGTTGCTTTAGACAG
* * * *
41529651 GTTTATTCTAACATTTTTTAAAGGTTGCTTTAG
1 GTCTATCCCAAC-CTTTTTAAA-GTTGCTTTAG
41529684 GGTCTATTTC
Statistics
Matches: 170, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
34 22 0.13
35 51 0.30
36 33 0.19
37 34 0.20
38 1 0.01
40 1 0.01
41 4 0.02
42 1 0.01
43 12 0.07
44 11 0.06
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (35 bp):
GTCTATCCCAACCTTTTTAAAGTTGCTTTAGACAG
Found at i:41529550 original size:41 final size:40
Alignment explanation
Indices: 41529502--41529621 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 40
41529492 GTTTTAGACG
41529502 TGTCTATCCCAACTTTTTAAGGTTGCTTTAGACAAGGTCTA
1 TGTCTATCCCAACTTTTTAAGGTTGCTTTAGA-AAGGTCTA
** * *
41529543 TGTCTATCTTAACTTTTTTTAAATGTTGCTTTAG--A----TG
1 TGTCTATCCCAAC--TTTTT-AAGGTTGCTTTAGAAAGGTCTA
41529580 TGTCTATCCCAACTTTTTAAGGTTGCTTTAGATAAGGTCTA
1 TGTCTATCCCAACTTTTTAAGGTTGCTTTAGA-AAGGTCTA
41529621 T
1 T
41529622 CCCAACCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
34 12 0.20
35 5 0.08
37 13 0.21
41 14 0.23
43 5 0.08
44 12 0.20
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (40 bp):
TGTCTATCCCAACTTTTTAAGGTTGCTTTAGAAAGGTCTA
Found at i:41529576 original size:78 final size:78
Alignment explanation
Indices: 41529466--41529621 Score: 267
Period size: 78 Copynumber: 2.0 Consensus size: 78
41529456 CTTTAGACAG
*
41529466 GTCTATCCTAACTTTTTTTAAAGGTTGTTTTAGACGTGTCTATCCCAACTTTTTAAGGTTGCTTT
1 GTCTATCCTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTTTAAGGTTGCTTT
41529531 AGACAAGGTCTAT
66 AGACAAGGTCTAT
* * *
41529544 GTCTATCTTAACTTTTTTTAAATGTTGCTTTAGATGTGTCTATCCCAACTTTTTAAGGTTGCTTT
1 GTCTATCCTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTTTAAGGTTGCTTT
*
41529609 AGATAAGGTCTAT
66 AGACAAGGTCTAT
41529622 CCCAACCTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (78 bp):
GTCTATCCTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTTTAAGGTTGCTTT
AGACAAGGTCTAT
Found at i:41530767 original size:20 final size:20
Alignment explanation
Indices: 41530731--41530769 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41530721 TTTTCCTTCG
*
41530731 TTCTTTAATTATTTTCTTTT
1 TTCTTTAATTATCTTCTTTT
41530751 TTCTTTAATT-TACTTCTTT
1 TTCTTTAATTAT-CTTCTTT
41530770 CGCTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTTAATTATCTTCTTTT
Found at i:41531396 original size:21 final size:21
Alignment explanation
Indices: 41531352--41531421 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
41531342 TGTAACTCGG
*
41531352 TCACACGGGCGTGTG-CTCACT
1 TCACACGGGCGTGTGCCTC-TT
*
41531373 TCACATGGGCGTGTGCCTCTT
1 TCACACGGGCGTGTGCCTCTT
* *
41531394 TCATACAGGCGTGTGCCTCCTT
1 TCACACGGGCGTGTGCCT-CTT
41531416 TACACA
1 T-CACA
41531422 GCCTAAACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 30 0.75
22 7 0.17
23 3 0.08
ACGTcount: A:0.16, C:0.31, G:0.24, T:0.29
Consensus pattern (21 bp):
TCACACGGGCGTGTGCCTCTT
Found at i:41532897 original size:17 final size:18
Alignment explanation
Indices: 41532861--41532904 Score: 65
Period size: 16 Copynumber: 2.5 Consensus size: 18
41532851 AAGGGAATTC
41532861 ATTTATTTTTATATAAATA
1 ATTTA-TTTTATATAAATA
41532880 ATTTATTTTATA-AAATA
1 ATTTATTTTATATAAATA
41532897 A-TTATTTT
1 ATTTATTTT
41532905 CTTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 7 0.28
19 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATTTTATATAAATA
Found at i:41543970 original size:359 final size:359
Alignment explanation
Indices: 41543307--41544383 Score: 2100
Period size: 359 Copynumber: 3.0 Consensus size: 359
41543297 CACCGCTCAT
41543307 AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
1 AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
*
41543372 ACTAATTTATCCCCCTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
66 ACTAATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
41543437 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
131 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
41543502 TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
196 TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
*
41543567 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTTTATGGCCTTAATCCAATATTCAGCCAC
261 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
41543632 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
326 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
*
41543666 AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTTAGCTTCATACTCAGCC
1 AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
*
41543731 ACTAATTTATCTCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
66 ACTAATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
41543796 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
131 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
*
41543861 TTTTAACTATAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
196 TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
41543926 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
261 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
41543991 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
326 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
*
41544025 AATTGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
1 AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
41544090 ACTAATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
66 ACTAATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
41544155 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
131 CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
41544220 TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
196 TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
41544285 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
261 TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
41544350 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
326 GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
41544384 TCAGCCCCAT
Statistics
Matches: 709, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
359 709 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (359 bp):
AATCGGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCC
ACTAATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCC
CACATACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCT
TTTTAACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTC
TGTTCGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCAC
GTTAGGAGCAATTCCAGCAATACCCCTAAAAATC
Found at i:41549620 original size:16 final size:17
Alignment explanation
Indices: 41549599--41549633 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
41549589 TAACTAAAAT
*
41549599 AAATAAATAAACAA-TA
1 AAATAAACAAACAACTA
41549615 AAATAAACAAACAACTA
1 AAATAAACAAACAACTA
41549632 AA
1 AA
41549634 CCAGTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATAAACAAACAACTA
Found at i:41564836 original size:17 final size:16
Alignment explanation
Indices: 41564796--41564837 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
41564786 AAATCCGTAC
41564796 TTTTTTTATATTAATA
1 TTTTTTTATATTAATA
41564812 TTTATTTTAGT-TTAATA
1 TTT-TTTTA-TATTAATA
41564829 TATTTTTTA
1 T-TTTTTTA
41564838 ACTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTTATATTAATA
Found at i:41569983 original size:46 final size:44
Alignment explanation
Indices: 41569931--41570027 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
41569921 TAAATAGAAC
41569931 TGTAATGGAATA-AAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAA-CTGTAAT-AGT-ATTC-ATGTGTTTGGTTGAA
*
41569977 TGTAATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAA
*
41570021 TGGAATG
1 TGTAATG
41570028 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 3 0.06
46 19 0.40
47 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:41570248 original size:57 final size:58
Alignment explanation
Indices: 41570117--41570252 Score: 168
Period size: 58 Copynumber: 2.4 Consensus size: 58
41570107 TATTGTTATT
* * *
41570117 AAATTTTAATAAGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACC
1 AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
* * * * * *
41570175 ATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
41570232 AAATTCTTAA-AAAATTATTAT
1 AAATT-TTAACAAAATTATTAT
41570253 ATGAATTAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 31 0.47
58 35 0.53
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (58 bp):
AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
Found at i:41574257 original size:20 final size:20
Alignment explanation
Indices: 41574234--41574299 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
41574224 ACACTTTGGT
*
41574234 GCCTTTATTTGCACTTCGGC
1 GCCTCTATTTGCACTTCGGC
* **
41574254 GCCTCTGTTTGCACTTCGAT
1 GCCTCTATTTGCACTTCGGC
* * * *
41574274 GCCTATGTTTGCACTACGGT
1 GCCTCTATTTGCACTTCGGC
41574294 GCCTCT
1 GCCTCT
41574300 GGTTAGCATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.11, C:0.30, G:0.21, T:0.38
Consensus pattern (20 bp):
GCCTCTATTTGCACTTCGGC
Found at i:41584789 original size:15 final size:13
Alignment explanation
Indices: 41584754--41584779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41584744 TTAGGGTTTT
41584754 ACTAAAAATAATA
1 ACTAAAAATAATA
41584767 ACTAAAAATAATA
1 ACTAAAAATAATA
41584780 TAATTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
ACTAAAAATAATA
Found at i:41588307 original size:13 final size:13
Alignment explanation
Indices: 41588229--41588307 Score: 52
Period size: 13 Copynumber: 6.1 Consensus size: 13
41588219 TTTAAACCAA
* *
41588229 ACTTTTTAAAAGC
1 ACTTTTCAAAAGT
* *
41588242 ACTTATCAAAAAT
1 ACTTTTCAAAAGT
* *
41588255 ACTTATCAAAAAT
1 ACTTTTCAAAAGT
* *
41588268 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGT
* *
41588281 ACTTTTCTACAGT
1 ACTTTTCAAAAGT
41588294 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
41588307 A
1 A
41588308 TTGCTAAACT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
12 6 0.12
13 38 0.75
14 7 0.14
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:41588439 original size:30 final size:30
Alignment explanation
Indices: 41588405--41588462 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
41588395 TTCTTTTAAC
41588405 AATTAAATCGTGAATTATTATTTATTAAAA
1 AATTAAATCGTGAATTATTATTTATTAAAA
* * *
41588435 AATTAAATTGTGATTTATTTTTTATTAA
1 AATTAAATCGTGAATTATTATTTATTAA
41588463 CTAGCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (30 bp):
AATTAAATCGTGAATTATTATTTATTAAAA
Found at i:41589035 original size:3 final size:3
Alignment explanation
Indices: 41589027--41589053 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
41589017 AATGCGACTT
41589027 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
41589054 ATTGGACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:41589751 original size:18 final size:17
Alignment explanation
Indices: 41589730--41589774 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
41589720 CAGTTAAAAT
41589730 TATTTTATAATAAGATAA
1 TATTTTATAATAA-ATAA
*
41589748 TATTTTTACAATAAATAA
1 TA-TTTTATAATAAATAA
41589766 TATTTTATA
1 TATTTTATA
41589775 TAGACTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:41589760 original size:19 final size:18
Alignment explanation
Indices: 41589732--41589771 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
41589722 GTTAAAATTA
*
41589732 TTTTATAATAAGATAATAT
1 TTTTACAATAA-ATAATAT
41589751 TTTTACAATAAATAATAT
1 TTTTACAATAAATAATAT
41589769 TTT
1 TTT
41589772 ATATAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTACAATAAATAATAT
Found at i:41591303 original size:20 final size:20
Alignment explanation
Indices: 41591268--41591322 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
41591258 GGTAATTTAA
*
41591268 ATTTTTTTTAAGATTTTTAGAT
1 ATTTTTTTT-A-ATTTTAAGAT
41591290 -TTTTTTTTGAATTTTAAGAT
1 ATTTTTTTT-AATTTTAAGAT
*
41591310 ATATTTTTTAATT
1 ATTTTTTTTAATT
41591323 GGGACAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
ATTTTTTTTAATTTTAAGAT
Found at i:41596239 original size:27 final size:27
Alignment explanation
Indices: 41596209--41596262 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
41596199 TATATTGTAT
41596209 ACATTAATTATGGATGCAGAAAAGAGG
1 ACATTAATTATGGATGCAGAAAAGAGG
41596236 ACATTAATTATGGATGCAGAAAAGAGG
1 ACATTAATTATGGATGCAGAAAAGAGG
41596263 CTTGGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (27 bp):
ACATTAATTATGGATGCAGAAAAGAGG
Found at i:41600928 original size:32 final size:31
Alignment explanation
Indices: 41600861--41600931 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
41600851 AGTGTGGCCG
* **
41600861 TGTGGGCCACAGGGCAAGGCCAAGTTGGGTG
1 TGTGGGCCACAGGGCAAGGCCAAGTTGAGCA
*
41600892 TGTGGGCCACATGGGTAAGGCCAA-TATGAGCA
1 TGTGGGCCACA-GGGCAAGGCCAAGT-TGAGCA
41600924 TGTGGGCC
1 TGTGGGCC
41600932 TAGAATTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.35
32 22 0.65
ACGTcount: A:0.21, C:0.20, G:0.41, T:0.18
Consensus pattern (31 bp):
TGTGGGCCACAGGGCAAGGCCAAGTTGAGCA
Found at i:41601347 original size:14 final size:15
Alignment explanation
Indices: 41601328--41601365 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
41601318 GATGGTTGGA
41601328 GATGGTGTGT-AGAG
1 GATGGTGTGTAAGAG
41601342 GATGGTGTGTAGAGAG
1 GATGGTGTGTA-AGAG
41601358 GATGGTGT
1 GATGGTGT
41601366 CTGATCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
16 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (15 bp):
GATGGTGTGTAAGAG
Found at i:41627094 original size:31 final size:29
Alignment explanation
Indices: 41627055--41627676 Score: 214
Period size: 31 Copynumber: 20.3 Consensus size: 29
41627045 ATATACCCAA
41627055 CAATTCGGCAATGTATAACCATTCACGAAT
1 CAATTCGGCAATGTATAACCATT-ACGAAT
* * *
41627085 CAAGTTCGGCAATGTATAATCATACACAAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
* * * ** *
41627116 CAAATTCGACATTCTATATTCATAAAC-AATT
1 C-AATTCGGCAATGTATAACCAT-TACGAA-T
* * *
41627147 CAATGTCGACAATATATAACCATTTACAAAT
1 CAAT-TCGGCAATGTATAACCA-TTACGAAT
* ** *
41627178 TAATTTCAACAATGTACAACCATATACGAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
* * *
41627209 CAATTCAGG-AACT-TATATCCATATACCAAA
1 CAATTC-GGCAA-TGTATAACCAT-TACGAAT
* *
41627239 CAATTCGACAATGTATAACCATACACGAAT
1 CAATTCGGCAATGTATAACCAT-TACGAAT
* * * *
41627269 CAAGTTCGACAATGTATAATCATACACAAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
* * ** *
41627300 CAAATTCGGCATTCTATATTCATAAAC-AATT
1 C-AATTCGGCAATGTATAACCAT-TACGAA-T
* * *
41627331 CAATGTCGACAATATATAACCATGTATGAAT
1 CAAT-TCGGCAATGTATAACCAT-TACGAAT
* * *
41627362 TAATTTCAGCAATGTACAACCATATACGAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
** * * *
41627393 CAATTCAACAACT-TATATCCATATACCAAA
1 CAATTCGGCAA-TGTATAACCAT-TACGAAT
* *
41627423 CAATTCGGCAATGTATAACCGTACACGAAT
1 CAATTCGGCAATGTATAACCAT-TACGAAT
* * * *
41627453 CAAGATCGACAATGTATAATCATATACAAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
* * ** *
41627484 CCAATTTGGCAATCTATATTCATAAAC-AATT
1 -CAATTCGGCAATGTATAACCAT-TACGAA-T
* * * *
41627515 CAGTATCAGCAATATATAACCATGTACAAAT
1 CAAT-TCGGCAATGTATAACCAT-TACGAAT
* * * *
41627546 TAATTTCAGCAAGGTACAACCATGTACGAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
* * *
41627577 CAATTCGGCAACT-TATATCCATATACCAAA
1 CAATTCGGCAA-TGTATAACCAT-TACGAAT
* *
41627607 CAATTCGGCAAGGTATAACCATACACGAAT
1 CAATTCGGCAATGTATAACCAT-TACGAAT
* * *
41627637 CAAGTTCGACAATGTATAATCATATACAAAT
1 CAA-TTCGGCAATGTATAACCAT-TACGAAT
41627668 CCAATTCGG
1 -CAATTCGG
41627677 GATCCTATAT
Statistics
Matches: 451, Mismatches: 110, Indels: 61
0.73 0.18 0.10
Matches are distributed among these distances:
29 3 0.01
30 151 0.33
31 277 0.61
32 20 0.04
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (29 bp):
CAATTCGGCAATGTATAACCATTACGAAT
Found at i:41627343 original size:153 final size:154
Alignment explanation
Indices: 41627062--41627483 Score: 333
Period size: 153 Copynumber: 2.7 Consensus size: 154
41627052 CAACAATTCG
* * * * *
41627062 GCAATGTATAACCAT-TCACGAATCAAGTTCGGCAATGTATAATCATACACAAATCAAATTCGAC
1 GCAATGTACAACCATAT-ACCAAACAA-TTCGACAATGTATAACCATACACAAATC-AATTCGAC
* * * * * ** *
41627126 ATTCTATATTCATAAACAATTC-AATGTCGACAATATATAACCATTTACAAATTAATTTCAACAA
63 AATGTATAATCATACACAAATCAAATGTCGACAATATATAACCATAAACAAATTAATGTCAACAA
*
41627190 TGTACAACCATATACGAATCAA-TTCA
128 TATACAACCATATACGAATCAATTTCA
* * * *
41627216 GGAACT-TATATCCATATACCAAACAATTCGACAATGTATAACCATACACGAATCAAGTTCGACA
1 GCAA-TGTACAACCATATACCAAACAATTCGACAATGTATAACCATACACAAATCAA-TTCGACA
* * * ** *
41627280 ATGTATAATCATACACAAATCAAAT-TCGGCATTCTATATTCATAAAC-AATTCAATGTCGACAA
64 ATGTATAATCATACACAAATCAAATGTCGACAATATATAACCATAAACAAATT-AATGTCAACAA
* * * *
41627343 TATATAACCATGTATGAATTAATTTCA
128 TATACAACCATATACGAATCAATTTCA
* * * * * *
41627370 GCAATGTACAACCATATACGAATCAATTCAACAACT-TATATCCATATACCAAA-CAATTCGGCA
1 GCAATGTACAACCATATACCAAACAATTCGACAA-TGTATAACCATACA-CAAATCAATTCGACA
* * * * * *
41627433 ATGTATAACCGTACACGAATC-AA-GATCGACAATGTATAATCATATACAAAT
64 ATGTATAATCATACACAAATCAAATG-TCGACAATATATAACCATAAACAAAT
41627484 CCAATTTGGC
Statistics
Matches: 212, Mismatches: 44, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
152 8 0.04
153 131 0.62
154 67 0.32
155 6 0.03
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (154 bp):
GCAATGTACAACCATATACCAAACAATTCGACAATGTATAACCATACACAAATCAATTCGACAAT
GTATAATCATACACAAATCAAATGTCGACAATATATAACCATAAACAAATTAATGTCAACAATAT
ACAACCATATACGAATCAATTTCA
Found at i:41627365 original size:184 final size:184
Alignment explanation
Indices: 41627013--41627745 Score: 1119
Period size: 184 Copynumber: 4.0 Consensus size: 184
41627003 TATATATATT
* * * *
41627013 CATATACGAATCCAATTTAGCAA-TGAATATCGATATACCCAACAATTCGGCAATGTATAACCAT
1 CATATACGAAT-CAATTCAGCAACT-TATATCCATATACCAAACAATTCGGCAATGTATAACCAT
* * *
41627077 TCACGAATCAAGTTCGGCAATGTATAATCATACACAAATCAAATTCGACATTCTATATTCATAAA
64 ACACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAA
* * *
41627142 CAATTCAATGTCGACAATATATAACCATTTACAAATTAATTTCAACAATGTACAAC
129 CAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTACAAC
* *
41627198 CATATACGAATCAATTCAGGAACTTATATCCATATACCAAACAATTCGACAATGTATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCATAC
41627263 ACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAACA
66 ACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAACA
* **
41627328 ATTCAATGTCGACAATATATAACCATGTATGAATTAATTTCAGCAATGTACAAC
131 ATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTACAAC
* *
41627382 CATATACGAATCAATTCAACAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCGTAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCATAC
* * * * *
41627447 ACGAATCAAGATCGACAATGTATAATCATATACAAATCCAATTTGGCAATCTATATTCATAAACA
66 ACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAACA
* *
41627512 ATTCAGTATC-AGCAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAAC
131 ATTCAATATCGA-CAATATATAACCATGTACAAATTAATTTCAGCAATGTACAAC
* * *
41627566 CATGTACGAATCAATTCGGCAACTTATATCCATATACCAAACAATTCGGCAAGGTATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCATAC
* * * *
41627631 ACGAATCAAGTTCGACAATGTATAATCATATACAAATCCAATTCGGGATCCTATATTCATAAACA
66 ACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAACA
* * *
41627696 ATTCAATATTGACAATATATAACCATGTACAAATTAATTTTACCAATGTA
131 ATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTA
41627746 TATAACATTT
Statistics
Matches: 503, Mismatches: 42, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
183 1 0.00
184 489 0.97
185 13 0.03
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (184 bp):
CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCATAC
ACGAATCAAGTTCGACAATGTATAATCATACACAAATCAAATTCGGCATTCTATATTCATAAACA
ATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTACAAC
Found at i:41631870 original size:120 final size:120
Alignment explanation
Indices: 41631732--41631971 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
41631722 GCTGAAACGC
41631732 AACAAGAACAATAAAACAAGTTAACCAATAAATCGACACAAACAAAAAATAATTAAAAAAAACAA
1 AACAAGAACAATAAAACAAGTTAACCAATAAATCGACACAAACAAAAAATAATTAAAAAAAACAA
41631797 ACAACAAAAAAGATGGATAAAGTCCTAAGAAGCCTTGAAATCGAAAAAGATTTCA
66 ACAACAAAAAAGATGGATAAAGTCCTAAGAAGCCTTGAAATCGAAAAAGATTTCA
41631852 AACAAGAACAATAAAACAAGTTAACCAATAAATCGACACAAACAAAAAATAATTAAAAAAAACAA
1 AACAAGAACAATAAAACAAGTTAACCAATAAATCGACACAAACAAAAAATAATTAAAAAAAACAA
*
41631917 ACAGCAAAAAAGATGGATAAAGTCCTAAGAAGCCTTGAAATCGAAAAAGATTTCA
66 ACAACAAAAAAGATGGATAAAGTCCTAAGAAGCCTTGAAATCGAAAAAGATTTCA
41631972 CAACTCCCTT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (120 bp):
AACAAGAACAATAAAACAAGTTAACCAATAAATCGACACAAACAAAAAATAATTAAAAAAAACAA
ACAACAAAAAAGATGGATAAAGTCCTAAGAAGCCTTGAAATCGAAAAAGATTTCA
Found at i:41632160 original size:12 final size:12
Alignment explanation
Indices: 41632143--41632167 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41632133 AAAATCTGAT
41632143 TTCAATGTGTAA
1 TTCAATGTGTAA
41632155 TTCAATGTGTAA
1 TTCAATGTGTAA
41632167 T
1 T
41632168 GTGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:41633305 original size:33 final size:34
Alignment explanation
Indices: 41633251--41633325 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
41633241 ATATTTAAAC
* * *
41633251 AAATTAATTACTGACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
41633285 AAATTAATT-CTAACACTTATTTGAGCTAAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
41633318 AATTTAAT
1 AAATTAAT
41633326 AAACTAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 27 0.75
34 9 0.25
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTAAACTA
Found at i:41637306 original size:12 final size:12
Alignment explanation
Indices: 41637289--41637313 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41637279 AAAATCTGAT
41637289 TTCAATGTGTAA
1 TTCAATGTGTAA
41637301 TTCAATGTGTAA
1 TTCAATGTGTAA
41637313 T
1 T
41637314 ATGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:41641358 original size:31 final size:31
Alignment explanation
Indices: 41641314--41641718 Score: 137
Period size: 31 Copynumber: 13.2 Consensus size: 31
41641304 TATACCCAAC
* * * *
41641314 AATTCAGCAATGTATAACCATTCACGAGTCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* *
41641345 AGTTCGGCAATGTATAATCATACACAAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * ** * **
41641376 AATTCGGCATTCTATATTCATAAAC-AATTT
1 AATTCGGCAATGTATAACCATACACAAATCA
* * ** *
41641406 AATGTCGACAATATATAACCATGTA-AGAATTA
1 AAT-TCGGCAATGTATAACCATACACA-AATCA
* ** * * *
41641438 ATTTTAGCAATGTACAACCATATACCCAA-C-
1 AATTCGGCAATGTATAACCATACA-CAAATCA
*
41641468 AATTCGGCAATGTATAACCATACACGAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * * * *
41641499 AGTTCGGTAATGTATAATCATATACAAATCC
1 AATTCGGCAATGTATAACCATACACAAATCA
* ** * *
41641530 AATTCGGC-ATCCTATATTCATAAACAATTC-
1 AATTCGGCAAT-GTATAACCATACACAAATCA
** * **
41641560 AATATCGATAATATATAACCATGTACAAAT-A
1 AAT-TCGGCAATGTATAACCATACACAAATCA
* * * * *
41641591 AATTTCAGCAAGGTACAACCATATACGAATC-
1 AA-TTCGGCAATGTATAACCATACACAAATCA
* * ** * *
41641622 AATTGGGTAACCTATATCCATATACCAAA-C-
1 AATTCGGCAATGTATAACCATACA-CAAATCA
* * *
41641652 AATTCGGCAAGGTATAACCATAAACTAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * * * * *
41641683 AGTTTGGTAATGTATAATCATATACAAATCC
1 AATTCGGCAATGTATAACCATACACAAATCA
41641714 AATTC
1 AATTC
41641719 AGCATCCTAT
Statistics
Matches: 269, Mismatches: 89, Indels: 32
0.69 0.23 0.08
Matches are distributed among these distances:
29 6 0.02
30 66 0.25
31 186 0.69
32 11 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (31 bp):
AATTCGGCAATGTATAACCATACACAAATCA
Found at i:41641625 original size:154 final size:154
Alignment explanation
Indices: 41641303--41641616 Score: 495
Period size: 154 Copynumber: 2.0 Consensus size: 154
41641293 ATGAAAATCG
* *
41641303 ATATACCCAACAATTCAGCAATGTATAACCATTCACGAGTCAAGTTCGGCAATGTATAATCATAC
1 ATATACCCAACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
* * *
41641368 ACAAATCAAATTCGGCATTCTATATTCATAAACAATTTAATGTCGACAATATATAACCATGTAAG
66 ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAG
* * *
41641433 AATTAATTTTAGCAATGTACAACC
131 AATAAATTTCAGCAAGGTACAACC
* * *
41641457 ATATACCCAACAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTATAATCATAT
1 ATATACCCAACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
* *
41641522 ACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGATAATATATAACCATGTACA
66 ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTA-A
41641587 -AATAAATTTCAGCAAGGTACAACC
130 GAATAAATTTCAGCAAGGTACAACC
41641611 ATATAC
1 ATATAC
41641617 GAATCAATTG
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 145 0.99
155 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (154 bp):
ATATACCCAACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAG
AATAAATTTCAGCAAGGTACAACC
Found at i:41641643 original size:154 final size:154
Alignment explanation
Indices: 41641303--41641683 Score: 471
Period size: 154 Copynumber: 2.5 Consensus size: 154
41641293 ATGAAAATCG
* ** * *
41641303 ATATACCCAACAATTCAGCAATGTATAACCATTCACGAGTCAAGTTCGGCAATGTATAATCATAC
1 ATATACCCAACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
* * *
41641368 ACAAATCAAATTCGGCATTCTATATTCATAAACAATTTAATGTCGACAATATATAACCATGTAAG
66 ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAG
* * *
41641433 AATTAATTTTAGCAATGTACAACC
131 AATAAATTTCAGCAAGGTACAACC
** * *
41641457 ATATACCCAACAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTATAATCATAT
1 ATATACCCAACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
* *
41641522 ACAAATCCAATTCGGCATCCTATATTCATAAACAATTCAATATCGATAATATATAACCATGTACA
66 ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTA-A
41641587 -AATAAATTTCAGCAAGGTACAACC
130 GAATAAATTTCAGCAAGGTACAACC
* * * * * * * * *
41641611 ATATA-CGAATCAATTGGGTAACCTATATCCATATACCAAACAA-TTCGGCAAGGTATAACCATA
1 ATATACCCAA-CAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATA
* *
41641674 AACTAATCAA
65 CACAAATCAA
41641684 GTTTGGTAAT
Statistics
Matches: 197, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
153 27 0.14
154 169 0.86
155 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (154 bp):
ATATACCCAACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATAC
ACAAATCAAATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAG
AATAAATTTCAGCAAGGTACAACC
Found at i:41641792 original size:62 final size:60
Alignment explanation
Indices: 41641453--41641792 Score: 202
Period size: 62 Copynumber: 5.5 Consensus size: 60
41641443 AGCAATGTAC
* * * * * * *
41641453 AACCATATACCCAA-CAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTAT
1 AACCATATA-CAAATCAATTCAGCAAGGTATATCCATAAACGAATCAA-TTCGATAATATAT
* * *** *
41641514 AATCATATACAAATCCAATTCGGCATCCTATATTCATAAAC-AATTCAATATCGATAATATAT
1 AACCATATACAAAT-CAATTCAGCAAGGTATATCCATAAACGAA-TCAAT-TCGATAATATAT
* * * * * * * **
41641576 AACCATGTACAAATAAATTTCAGCAAGGTACAACCATATACGAATCAATTGGGTAACCTAT
1 AACCATATACAAATCAA-TTCAGCAAGGTATATCCATAAACGAATCAATTCGATAATATAT
* * * * * * *
41641637 ATCCATATACCAAA-CAATTCGGCAAGGTATAACCATAAACTAATCAAGTTTGGTAATGTAT
1 AACCATATA-CAAATCAATTCAGCAAGGTATATCCATAAACGAATCAA-TTCGATAATATAT
* *** * *
41641698 AATCATATACAAATCCAATTCAGCATCCTATATTCATAAAC-AATTCAATATCGACAATATAT
1 AACCATATACAAAT-CAATTCAGCAAGGTATATCCATAAACGAA-TCAAT-TCGATAATATAT
* * *
41641760 AACCATGTACAAATTAATTTCAGCAATGTATAT
1 AACCATATACAAATCAA-TTCAGCAAGGTATAT
41641793 AACATTTATA
Statistics
Matches: 213, Mismatches: 53, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
60 33 0.15
61 52 0.24
62 126 0.59
63 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (60 bp):
AACCATATACAAATCAATTCAGCAAGGTATATCCATAAACGAATCAATTCGATAATATAT
Found at i:41644451 original size:29 final size:28
Alignment explanation
Indices: 41644412--41644534 Score: 88
Period size: 29 Copynumber: 4.3 Consensus size: 28
41644402 TAAAAGAAGT
*
41644412 GCCTTTATGGCTATCTCTATTAAAAGGAA
1 GCCTTTGTGGC-ATCTCTATTAAAAGGAA
* * * *
41644441 GCATTTGTGGCGATCTTTGTTAAATGGAA
1 GCCTTTGTGGC-ATCTCTATTAAAAGGAA
* * *
41644470 TCCTTT-TAGGCAATTTCTATTAAATGGAA
1 GCCTTTGT-GGC-ATCTCTATTAAAAGGAA
* * *
41644499 GTCTTTGTGGCAT-TCTATGTCAAAGGAT
1 GCCTTTGTGGCATCTCTAT-TAAAAGGAA
41644527 GCCTTTGT
1 GCCTTTGT
41644535 AACGCCCCAA
Statistics
Matches: 73, Mismatches: 18, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
27 5 0.07
28 16 0.22
29 51 0.70
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (28 bp):
GCCTTTGTGGCATCTCTATTAAAAGGAA
Found at i:41645048 original size:11 final size:11
Alignment explanation
Indices: 41645034--41645060 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
41645024 GTTTTTCTTC
41645034 TTTTCCTTTCT
1 TTTTCCTTTCT
41645045 TTTTCCTTTCT
1 TTTTCCTTTCT
41645056 TTTTC
1 TTTTC
41645061 TTCATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCCTTTCT
Found at i:41645069 original size:10 final size:10
Alignment explanation
Indices: 41645025--41645062 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
41645015 TCCTCTTTTG
41645025 TTTTTC-TTC
1 TTTTTCTTTC
*
41645034 TTTTCCTTTC
1 TTTTTCTTTC
41645044 TTTTTCCTTTC
1 TTTTT-CTTTC
41645055 TTTTTCTT
1 TTTTTCTT
41645063 CATTTTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 10 0.40
11 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:41648211 original size:34 final size:34
Alignment explanation
Indices: 41648173--41648241 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
41648163 ATACAACGTA
*
41648173 AGAAGGTGGTGGAGAGGTCTCGAGAGGATCCAAC
1 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
41648207 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
1 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
41648241 A
1 A
41648242 CCCCAAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.41, T:0.14
Consensus pattern (34 bp):
AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
Found at i:41649719 original size:23 final size:21
Alignment explanation
Indices: 41649689--41649763 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 21
41649679 GAAAAAAAGC
41649689 CCTAAATTTGTGGAATACAAATG
1 CCTAAATTT-TGGAA-ACAAATG
* * *
41649712 CCTAAATTTTAGCCAAAGAAATC
1 CCTAAATTTT-G-GAAACAAATG
41649735 CCTAAAATTTTGGAAGACAAATG
1 CCT-AAATTTTGGAA-ACAAATG
41649758 CCTAAA
1 CCTAAA
41649764 ACTTAGCCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
22 6 0.14
23 27 0.64
24 9 0.21
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (21 bp):
CCTAAATTTTGGAAACAAATG
Found at i:41652063 original size:45 final size:44
Alignment explanation
Indices: 41651962--41652111 Score: 182
Period size: 45 Copynumber: 3.4 Consensus size: 44
41651952 CAGAAATGAG
* *
41651962 TAAGACCATAGCTGAAAGACGCTATGGCATCA-TA-ATGAA--AA
1 TAAGACCATAGCTGAAAGACACTATGGCATCATTATAT-AAGGAC
* *
41652003 TAAGACCATAACTGAAAGACACTATGGCATCATTATATATAGGGC
1 TAAGACCATAGCTGAAAGACACTATGGCATCATTATATA-AGGAC
* * *
41652048 TAAGACCATGGCTGAAAGACACTATGACATCATTGTATACAGGAC
1 TAAGACCATAGCTGAAAGACACTATGGCATCATTATATA-AGGAC
41652093 TAAGACCATAGCTGAAAGA
1 TAAGACCATAGCTGAAAGA
41652112 TGCTACGATA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 30 0.32
42 3 0.03
43 3 0.03
45 57 0.61
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (44 bp):
TAAGACCATAGCTGAAAGACACTATGGCATCATTATATAAGGAC
Found at i:41653949 original size:21 final size:20
Alignment explanation
Indices: 41653920--41653965 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
41653910 CAAAATGCAA
41653920 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
41653941 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
41653961 T-AACC
1 TCAACC
41653966 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:41671701 original size:25 final size:25
Alignment explanation
Indices: 41671616--41671736 Score: 111
Period size: 25 Copynumber: 4.7 Consensus size: 25
41671606 CCTTAACCGG
*
41671616 TAGTCCTTGCGAAC-TCCCTCAATAGA
1 TAGTCCTTGCG-ACTTCCAT-AATAGA
* *
41671642 CAGTCCTTACGGACTTCCA-ACATAGGA
1 TAGTCCTTGC-GACTTCCATA-ATA-GA
*
41671669 TAGCCCTTGCGACTTCCATAATAGA
1 TAGTCCTTGCGACTTCCATAATAGA
**
41671694 TAGTCCTTGCGACTTCTGTAATAGA
1 TAGTCCTTGCGACTTCCATAATAGA
*
41671719 TAGTCCTTACAGACTTCC
1 TAGTCCTTGC-GACTTCC
41671737 CATAGATATG
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
25 34 0.44
26 30 0.38
27 14 0.18
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (25 bp):
TAGTCCTTGCGACTTCCATAATAGA
Found at i:41676450 original size:20 final size:19
Alignment explanation
Indices: 41676434--41676480 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
41676424 AAAAAAATTC
41676434 AAAAAATAATTTTAAAAATA
1 AAAAAATAA-TTTAAAAATA
*
41676454 AAAAAATTATTTAAAAAGTA
1 AAAAAATAATTTAAAAA-TA
*
41676474 CAAAAAT
1 AAAAAAT
41676481 GATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAAATAATTTAAAAATA
Found at i:41676452 original size:21 final size:20
Alignment explanation
Indices: 41676426--41676470 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
41676416 AAAATTTAAA
41676426 AAAAATTCAAAAAATAATTTT
1 AAAAATTCAAAAAATAA-TTT
* *
41676447 AAAAA-TAAAAAAATTATTT
1 AAAAATTCAAAAAATAATTT
41676466 AAAAA
1 AAAAA
41676471 GTACAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTCAAAAAATAATTT
Found at i:41676456 original size:19 final size:21
Alignment explanation
Indices: 41676434--41676480 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
41676424 AAAAAAATTC
41676434 AAAAAATAAT-TTTAAAAA-T
1 AAAAAATAATATTTAAAAAGT
*
41676453 AAAAAA-ATTATTTAAAAAGT
1 AAAAAATAATATTTAAAAAGT
41676473 ACAAAAAT
1 A-AAAAAT
41676481 GATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 2 0.09
21 5 0.22
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAAATAATATTTAAAAAGT
Found at i:41682141 original size:11 final size:11
Alignment explanation
Indices: 41682125--41682151 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
41682115 AATCTTGGTT
41682125 TATAAAATTTA
1 TATAAAATTTA
41682136 TATAAAATTTA
1 TATAAAATTTA
41682147 TATAA
1 TATAA
41682152 TTTTAACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAAAATTTA
Found at i:41684908 original size:34 final size:31
Alignment explanation
Indices: 41684853--41684922 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 31
41684843 CAATTCAATA
*
41684853 ACAGTTCAGTTCAGTTGGGCCTTAGCCTATT
1 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
41684884 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGT-TCAGT-TCAGT-TGGGCCTTAGCCCATT
41684918 ACAGT
1 ACAGT
41684923 GATAGTAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 5 0.14
34 20 0.57
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (31 bp):
ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
Found at i:41688067 original size:27 final size:27
Alignment explanation
Indices: 41688035--41688102 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
41688025 CTAGAAAAAA
41688035 GAAGCCTTTGTGGC-GATCT-ATGAAATG
1 GAAGCCTTTGTGGCGGATCTCA--AAATG
*
41688062 GAAGCCTGTGTGGCGGATCTCAAAATG
1 GAAGCCTTTGTGGCGGATCTCAAAATG
* *
41688089 AAAGCCCTTGTGGC
1 GAAGCCTTTGTGGC
41688103 AATAATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 29 0.83
28 5 0.14
29 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (27 bp):
GAAGCCTTTGTGGCGGATCTCAAAATG
Found at i:41689849 original size:19 final size:19
Alignment explanation
Indices: 41689827--41689868 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
41689817 AAAAAAATTG
41689827 GAATTTT-TACAAATATTTT
1 GAATTTTATA-AAATATTTT
*
41689846 GAATTTTATAAATTATTTT
1 GAATTTTATAAAATATTTT
41689865 GAAT
1 GAAT
41689869 ATTTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
GAATTTTATAAAATATTTT
Found at i:41689880 original size:20 final size:19
Alignment explanation
Indices: 41689831--41689889 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
41689821 AAATTGGAAT
*
41689831 TTTTACAAA-TATTTTGAA
1 TTTTATAAATTATTTTGAA
41689849 TTTTATAAATTATTTTGAA
1 TTTTATAAATTATTTTGAA
*
41689868 TATTTGA-AAATTATTTTAAA
1 T-TTT-ATAAATTATTTTGAA
41689888 TT
1 TT
41689890 ATTTTGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
20 16 0.44
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTATAAATTATTTTGAA
Found at i:41689890 original size:10 final size:10
Alignment explanation
Indices: 41689840--41689894 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
41689830 TTTTTACAAA
*
41689840 TATTTTGAAT
1 TATTTTAAAT
*
41689850 T-TTATAAAT
1 TATTTTAAAT
*
41689859 TATTTTGAA-
1 TATTTTAAAT
*
41689868 TATTTGAAAAT
1 TATTT-TAAAT
41689879 TATTTTAAAT
1 TATTTTAAAT
41689889 TATTTT
1 TATTTT
41689895 GTAATTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
9 12 0.34
10 18 0.51
11 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:41690066 original size:24 final size:23
Alignment explanation
Indices: 41690011--41690064 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
41690001 TCGAACTCAA
* *
41690011 AACTCGAATTACTTATTTGAATT
1 AACTCAAATAACTTATTTGAATT
*
41690034 TACTCAAATAACTTGATTTG-ATT
1 AACTCAAATAACTT-ATTTGAATT
41690057 AACTCAAA
1 AACTCAAA
41690065 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (23 bp):
AACTCAAATAACTTATTTGAATT
Found at i:41696393 original size:57 final size:57
Alignment explanation
Indices: 41696325--41696438 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
41696315 GGCTTATGAC
* * **
41696325 AGAGTAAGTTGGGATTTCATTGGTGTGTGTCTCTTAGCTATCGGGATTCCCGAGTTA
1 AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
* * *
41696382 AGAGTAAGTTGGGATTTTATTGATGTGTCTTTCAAAGCTGTCGGGATTCCCGAGTTA
1 AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
41696439 CTCATAACTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (57 bp):
AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
Found at i:41701140 original size:20 final size:20
Alignment explanation
Indices: 41701124--41701194 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 20
41701114 ACCAAAAATT
41701124 TATTTTAAAAATTAAAAAAG
1 TATTTTAAAAATTAAAAAAG
*
41701144 TATTTTAAAAATATTTTAAAAA-
1 TATTTT-AAAA-A-TTAAAAAAG
*
41701166 TATTTTAAAATTTAAAAAA-
1 TATTTTAAAAATTAAAAAAG
41701185 -ATTTTAAAAA
1 TATTTTAAAAA
41701195 GTATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.20
19 7 0.16
20 6 0.14
21 8 0.18
22 7 0.16
23 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAG
Found at i:41701158 original size:11 final size:11
Alignment explanation
Indices: 41701138--41701257 Score: 103
Period size: 11 Copynumber: 11.4 Consensus size: 11
41701128 TTAAAAATTA
41701138 AAAAAGTATTTT
1 AAAAA-TATTTT
41701150 AAAAATATTTT
1 AAAAATATTTT
41701161 AAAAATATTTT
1 AAAAATATTTT
41701172 --AAA-A-TTT
1 AAAAATATTTT
*
41701179 AAAAAAATTTT
1 AAAAATATTTT
41701190 AAAAAGTATTTT
1 AAAAA-TATTTT
*
41701202 TAAAATATTTT
1 AAAAATATTTT
*
41701213 --AAA-A-TTA
1 AAAAATATTTT
* **
41701220 AAAAATAATAA
1 AAAAATATTTT
41701231 AAAAAGTATTTT
1 AAAAA-TATTTT
41701243 AAAAATATTTT
1 AAAAATATTTT
41701254 AAAA
1 AAAA
41701258 TTAAAAAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
7 5 0.05
8 2 0.02
9 12 0.13
10 2 0.02
11 48 0.53
12 22 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:41701189 original size:29 final size:31
Alignment explanation
Indices: 41701147--41701207 Score: 99
Period size: 29 Copynumber: 2.0 Consensus size: 31
41701137 AAAAAAGTAT
*
41701147 TTTAAAAATATTTTAAAAA-TA-TTTTAAAA
1 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
41701176 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
1 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
41701207 T
1 T
41701208 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 18 0.62
30 2 0.07
31 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
Found at i:41701200 original size:41 final size:41
Alignment explanation
Indices: 41701124--41701274 Score: 202
Period size: 41 Copynumber: 3.7 Consensus size: 41
41701114 ACCAAAAATT
*
41701124 TATTTTAAAAATTAAAAAAGTATTTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATTAAAAAA-TATTTAAAAAAGTATTTTAAAAA
* *
41701166 TATTTTAAAATTTAAAAAA-ATTTTAAAAAGTATTTTTAAAA
1 TATTTTAAAA-TTAAAAAATATTTAAAAAAGTATTTTAAAAA
* *
41701207 TATTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAATATTTAAAAAAGTATTTTAAAAA
41701248 TATTTTAAAATT-AAAAA-ATTTAAAAAA
1 TATTTTAAAATTAAAAAATATTTAAAAAA
41701275 TAAATATATT
Statistics
Matches: 99, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
39 8 0.08
40 23 0.23
41 54 0.55
42 14 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAATATTTAAAAAAGTATTTTAAAAA
Found at i:41701263 original size:17 final size:17
Alignment explanation
Indices: 41701241--41701286 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
41701231 AAAAAGTATT
*
41701241 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
41701258 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
41701274 ATAAATATATTTA
1 TTAAAAATATTTA
41701287 TTATATCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:41709492 original size:17 final size:17
Alignment explanation
Indices: 41709470--41709512 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
41709460 AATTTATAGC
41709470 TAAATATATATTA-ATAA
1 TAAATATA-ATTATATAA
41709487 TAAATATAATTATATAA
1 TAAATATAATTATATAA
41709504 TAAATATAA
1 TAAATATAA
41709513 ATTTAATTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATATAATTATATAA
Found at i:41714916 original size:120 final size:120
Alignment explanation
Indices: 41714703--41714942 Score: 410
Period size: 120 Copynumber: 2.0 Consensus size: 120
41714693 AAATTTGAAA
* *
41714703 TTAAGTTCAACAAGGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCATTAAAGTA
1 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCAATAAAGTA
41714768 AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAAATGTAT
66 AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAAATGTAT
41714823 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGAT-GTATATCAATAAAGT
1 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAG-ATATCAATAAAGT
* * * *
41714887 CAATTTTGGATGTGGCATTGCAAAAAAGGGACTAAATTGTAAAATAGGAACTGTAT
65 AAATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAAATGTAT
41714943 GAGGACTATA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 1 0.01
120 112 0.99
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (120 bp):
TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCAATAAAGTA
AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAAATGTAT
Found at i:41719729 original size:50 final size:50
Alignment explanation
Indices: 41719488--41719729 Score: 249
Period size: 50 Copynumber: 4.9 Consensus size: 50
41719478 GATAATAACA
* * * *
41719488 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * * ** * *
41719537 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
41719587 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTTATCTCGG
* * *
41719637 TGCGAACGCCATGTCCCAGACATGGTCTTATATGGAACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
41719687 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGTCCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
41719730 TACCCAAATG
Statistics
Matches: 161, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
49 34 0.21
50 121 0.75
51 5 0.03
52 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:41720100 original size:30 final size:30
Alignment explanation
Indices: 41720066--41720123 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41720056 CCTTGACTCG
41720066 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * *
41720096 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTGGAAAAATTACAATTTTGCCCC
41720124 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:41725007 original size:27 final size:26
Alignment explanation
Indices: 41724977--41725164 Score: 198
Period size: 27 Copynumber: 7.0 Consensus size: 26
41724967 CTCCATTGAC
**
41724977 CGAAATACCCTTATAGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
*
41725003 TCGAAATACCCTCATAGGGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
* **
41725030 TCCAAATACCCTTATA-GGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
* *
41725056 CTGAAATACCCCTATAGGGTAGAATGA
1 C-GAAATACCCCCATAGGGTAAAATGA
*
41725083 CCGAAATACCCCAATAGGGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
*
41725110 CTAAAATACCCCCATAGGGTAAAATGAA
1 C-GAAATACCCCCATAGGGTAAAATG-A
* * *
41725138 CAAAATACCACCATTGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
41725164 C
1 C
41725165 TGTTATACCC
Statistics
Matches: 144, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.01
26 25 0.17
27 115 0.80
28 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
CGAAATACCCCCATAGGGTAAAATGA
Found at i:41725042 original size:54 final size:52
Alignment explanation
Indices: 41724973--41725166 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 52
41724963 TGCTCTCCAT
41724973 TGACCGAAATACCCTTATAGGGTAAAATGA-TCGAAATACCCTCATAGGGTAAAA
1 TGACC-AAATACCCTTATAGGGTAAAATGACT-GAAATACCC-CATAGGGTAAAA
*
41725027 TGATCCAAATACCCTTATA-GGTAAAATGACTGAAATACCCCTATAGGGTAGAA
1 TGA-CCAAATACCCTTATAGGGTAAAATGACTGAAATACCCC-ATAGGGTAAAA
** *
41725080 TGACCGAAATACCCCAATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAA
1 TGACC-AAATACCCTTATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAA
* * *
41725134 TGAACAAAATACCAC-CATTGGGTAAAATGACTG
1 TG-ACCAAATACC-CTTATAGGGTAAAATGACTG
41725167 TTATACCCTT
Statistics
Matches: 123, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
52 3 0.02
53 43 0.35
54 68 0.55
55 9 0.07
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (52 bp):
TGACCAAATACCCTTATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAA
Found at i:41725117 original size:80 final size:81
Alignment explanation
Indices: 41724973--41725164 Score: 239
Period size: 80 Copynumber: 2.4 Consensus size: 81
41724963 TGCTCTCCAT
* * *
41724973 TGACCGAAATACCCTTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGATCCAAATA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCAAAATA
**
41725038 CCCTTATA-GGTAAAA
66 CCCCCATAGGGTAAAA
* *
41725053 TGACTGAAATACCCCTATAGGGTAGAATGACCGAAATACCC-CAATAGGGTAAAATGA-CTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAAAATGATC-AAAA
41725116 TACCCCCATAGGGTAAAA
64 TACCCCCATAGGGTAAAA
* * *
41725134 TGAACAAAATACCACC-ATTGGGTAAAATGAC
1 TGACCGAAATACC-CCTATAGGGTAAAATGAC
41725165 TGTTATACCC
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 62 0.65
81 30 0.31
82 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCAAAATA
CCCCCATAGGGTAAAA
Found at i:41735857 original size:2 final size:2
Alignment explanation
Indices: 41735850--41735881 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
41735840 TTGGACCCTT
41735850 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
41735882 CAAAATTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:41742911 original size:13 final size:12
Alignment explanation
Indices: 41742879--41742912 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
41742869 GTTTCATATG
41742879 CATAAT-ATAAA
1 CATAATCATAAA
41742890 CATAATCATAAA
1 CATAATCATAAA
41742902 CATCAATCATA
1 CAT-AATCATA
41742913 TCCAAAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (12 bp):
CATAATCATAAA
Found at i:41744599 original size:20 final size:20
Alignment explanation
Indices: 41744557--41744599 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
41744547 TTTTCTTTTC
*
41744557 TTAATTTTATGTTTTATTTA
1 TTAATTTTATGTTTTATTAA
41744577 TTAATTTTATGTTATT-TTAA
1 TTAATTTTATGTT-TTATTAA
41744597 TTA
1 TTA
41744600 CAAACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAATTTTATGTTTTATTAA
Found at i:41755477 original size:18 final size:20
Alignment explanation
Indices: 41755454--41755493 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
41755444 ACTTGTTATG
41755454 TTAATATGT-TT-AATTTAA
1 TTAATATGTCTTAAATTTAA
41755472 TTAATATGTCTTAAATTTAA
1 TTAATATGTCTTAAATTTAA
41755492 TT
1 TT
41755494 CGTGTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTAATATGTCTTAAATTTAA
Found at i:41758886 original size:27 final size:28
Alignment explanation
Indices: 41758798--41758895 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
41758788 CATGAGATTG
* * * *
41758798 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41758827 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41758855 ACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41758882 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41758896 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41758909 original size:29 final size:27
Alignment explanation
Indices: 41758828--41758909 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
41758818 AATTGTACAG
* *
41758828 CACTAAGTGTGCGAGTTTGATTATATAA
1 CACTAAGTGTGCGA-CTTAATTATATAA
* * *
41758856 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAA
*
41758883 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
41758910 TTTTGAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 20 0.43
29 5 0.11
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAA
Done.