Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 83 of 106
Found at i:16911026 original size:18 final size:17
Alignment explanation
Indices: 16910985--16911026 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
16910975 AATTAATAGA
16910985 ATTTA-ATATAAAAATT
1 ATTTATATATAAAAATT
* *
16911001 AATAATATATAAAAAATT
1 ATTTATATAT-AAAAATT
16911019 ATTTATAT
1 ATTTATAT
16911027 TTTTAAGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 3 0.15
17 4 0.20
18 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTATATATAAAAATT
Found at i:16911078 original size:12 final size:12
Alignment explanation
Indices: 16911055--16911128 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
16911045 TATTCAACGA
*
16911055 TAAAAATTTTAT
1 TAAAATTTTTAT
*
16911067 TAATATTTTTAT
1 TAAAATTTTTAT
*
16911079 TAAAATATTTATT
1 TAAAATTTTTA-T
* *
16911092 TAAAAATATATAT
1 T-AAAATTTTTAT
16911105 TAAAATTTTT-T
1 TAAAATTTTTAT
*
16911116 T-AAATTTTAAT
1 TAAAATTTTTAT
16911127 TA
1 TA
16911129 TTTAATCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.14
11 4 0.08
12 26 0.52
13 4 0.08
14 9 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:16911087 original size:14 final size:14
Alignment explanation
Indices: 16911068--16911110 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
16911058 AAATTTTATT
*
16911068 AATATTTTTATTAA
1 AATATTTATATTAA
16911082 AATATTTAT-TTAA
1 AATATTTATATTAA
*
16911095 AA-ATATATATTAA
1 AATATTTATATTAA
16911108 AAT
1 AAT
16911111 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 5 0.20
13 12 0.48
14 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTTATATTAA
Found at i:16911774 original size:15 final size:15
Alignment explanation
Indices: 16911756--16911802 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
16911746 AATTATTTAA
16911756 TTATATTTTATATAT
1 TTATATTTTATATAT
* * *
16911771 TTATATTTTAAAAAA
1 TTATATTTTATATAT
*
16911786 TAATATTTTATAT-T
1 TTATATTTTATATAT
16911800 TTA
1 TTA
16911803 AAAATAATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATTTTATATAT
Found at i:16911797 original size:22 final size:21
Alignment explanation
Indices: 16911765--16911817 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 21
16911755 ATTATATTTT
16911765 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATATTTT-AAAAATA
16911788 ATATTTTATATTTTAAAAATA
1 ATATTTTATATTTTAAAAATA
16911809 ATATTTTAT
1 ATATTTTAT
16911818 TAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 16 0.53
22 10 0.33
23 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAATA
Found at i:16911828 original size:21 final size:21
Alignment explanation
Indices: 16911765--16911823 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
16911755 ATTATATTTT
*
16911765 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATAATTT-AAAAATA
*
16911788 ATATTTTATATTTTAAAAATA
1 ATATTTTATAATTTAAAAATA
16911809 ATATTTTATTAATTT
1 ATATTTTA-TAATTT
16911824 CAAATCAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 15 0.44
22 15 0.44
23 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTATAATTTAAAAATA
Found at i:16912339 original size:34 final size:34
Alignment explanation
Indices: 16912295--16912403 Score: 112
Period size: 34 Copynumber: 3.1 Consensus size: 34
16912285 GATATTTATC
*
16912295 ATTTTCAAAAAAATATAACACTTCTCCAAAATGA
1 ATTTTCAAAAAAATATAACACTTCTCGAAAATGA
* *
16912329 ATTTTTAAAAAATGATCATAACATTTCTCGAAAAT-A
1 ATTTTCAAAAAA--AT-ATAACACTTCTCGAAAATGA
* * * *
16912365 CATTTTCAAAAAATTATAATACTTTTCGAAAATGC
1 -ATTTTCAAAAAAATATAACACTTCTCGAAAATGA
16912400 ATTT
1 ATTT
16912404 GACTTTTCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
34 30 0.49
35 1 0.02
36 3 0.05
37 27 0.44
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (34 bp):
ATTTTCAAAAAAATATAACACTTCTCGAAAATGA
Found at i:16915363 original size:15 final size:18
Alignment explanation
Indices: 16915333--16915369 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16915323 TCATATATCA
16915333 ATAAATTTTATATAAAT-
1 ATAAATTTTATATAAATG
16915350 ATAAATTTT-T-TAAATG
1 ATAAATTTTATATAAATG
16915366 ATAA
1 ATAA
16915370 TATAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 5 0.26
17 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAAATTTTATATAAATG
Found at i:16916070 original size:16 final size:17
Alignment explanation
Indices: 16916051--16916083 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16916041 ATAAAGATAT
*
16916051 TATTCAATAAT-TTAAA
1 TATTAAATAATATTAAA
16916067 TATTAAATAATATTAAA
1 TATTAAATAATATTAAA
16916084 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTAAATAATATTAAA
Found at i:16916531 original size:15 final size:15
Alignment explanation
Indices: 16916511--16916545 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
16916501 TGTATATACC
16916511 CAATCATCTTTAAAT
1 CAATCATCTTTAAAT
16916526 CAATCATCTTTAAAT
1 CAATCATCTTTAAAT
16916541 CAATC
1 CAATC
16916546 GTCAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (15 bp):
CAATCATCTTTAAAT
Found at i:16918194 original size:268 final size:269
Alignment explanation
Indices: 16917900--16918398 Score: 840
Period size: 268 Copynumber: 1.9 Consensus size: 269
16917890 AATACACCAA
* *
16917900 TGGATACTATATTTAATCAAATATAAATATATCAAATAATTAATTAGATAATCAATTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATATATCAAATAATTAATTAGAGAATAAATTATTTTATA
16917965 ATTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAAAATAAG
66 ATTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAAAATAA-
*
16918030 AA-TTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAGAGTGATTTAAAATCAATAATAA
130 AATTTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTAAAATCAATAATAA
*
16918094 AAACATTAATATAATAAATTTTAT-TTTTAAATTATATTAGCTTTATATATTTATATATTAAATA
195 AAACATTAATATAATAAATTTAATATTTTAAATTATATTAGCTTTATATATTTATATATTAAATA
16918158 CATCAATTAC
260 CATCAATTAC
* * *
16918168 TGGATGCTATATTTAATCAAATATAAATGTATCAAATAATTGATTAGAGAATAAATTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATATATCAAATAATTAATTAGAGAATAAATTATTTTATA
* * *
16918233 ATTGTAATTGTAGTGTTTATTAATTTATTAATTTTATATTGATTGATTTAATTTGTCAAATTAAA
66 ATTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAAAATAAA
* *
16918298 ATTTTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTAAAGTTAATAATAA
131 A-TTTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTAAAATCAATAATAA
* *
16918363 AAATATTAATATAATCAATTTAATATTTTAAATTAT
195 AAACATTAATATAATAAATTTAATATTTTAAATTAT
16918399 TTTTAAATTA
Statistics
Matches: 214, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
267 2 0.01
268 121 0.57
269 80 0.37
270 11 0.05
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (269 bp):
TGGATACTATATTTAATCAAATATAAATATATCAAATAATTAATTAGAGAATAAATTATTTTATA
ATTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAAAATAAA
ATTTTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTAAAATCAATAATAAA
AACATTAATATAATAAATTTAATATTTTAAATTATATTAGCTTTATATATTTATATATTAAATAC
ATCAATTAC
Found at i:16919274 original size:28 final size:25
Alignment explanation
Indices: 16919246--16919300 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 25
16919236 TCAAATATTA
16919246 AATATTTTGAAAAAATTTTATAATTTT
1 AATA-TTT-AAAAAATTTTATAATTTT
16919273 AATATTTAAAATTAATTTTACTAATTTT
1 AATATTTAAAA--AATTTTA-TAATTTT
16919301 TAATTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.16
26 3 0.12
27 11 0.44
28 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
AATATTTAAAAAATTTTATAATTTT
Found at i:16920091 original size:2 final size:2
Alignment explanation
Indices: 16920084--16920114 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16920074 CAATATTACA
16920084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16920115 CACTTTAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16922889 original size:8 final size:8
Alignment explanation
Indices: 16922852--16922890 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
16922842 TTAATTCCCA
*
16922852 TTTTATAT
1 TTTTTTAT
16922860 TTTTTTAT
1 TTTTTTAT
*
16922868 ATTTTTCAT
1 -TTTTTTAT
16922877 TTTTTTAT
1 TTTTTTAT
16922885 TTTTTT
1 TTTTTT
16922891 GGTTGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:16922890 original size:17 final size:17
Alignment explanation
Indices: 16922858--16922889 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16922848 CCCATTTTAT
16922858 ATTTTTTTATATTTTTC
1 ATTTTTTTATATTTTTC
16922875 ATTTTTTTAT-TTTTT
1 ATTTTTTTATATTTTT
16922890 TGGTTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTTTATATTTTTC
Found at i:16923989 original size:12 final size:12
Alignment explanation
Indices: 16923972--16924005 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
16923962 TAAAAATATA
16923972 AAATACAAATAC
1 AAATACAAATAC
16923984 AAATACAAATAC
1 AAATACAAATAC
16923996 AAATA-AAATA
1 AAATACAAATA
16924006 GGTTAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATACAAATAC
Found at i:16923995 original size:18 final size:17
Alignment explanation
Indices: 16923972--16924005 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16923962 TAAAAATATA
16923972 AAATACAAATACAAATAC
1 AAATACAAATA-AAATAC
16923990 AAATACAAATAAAATA
1 AAATACAAATAAAATA
16924006 GGTTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATACAAATAAAATAC
Found at i:16924292 original size:42 final size:42
Alignment explanation
Indices: 16924245--16924380 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
16924235 ATAACTTTTG
* * * *
16924245 AAAAATAAAAT-GCTCATTTAAACAAAGGTAACAAAACTTTAA
1 AAAAAT-AAATGGCTCATCTAAATAGAGGTAACAGAACTTTAA
* * *
16924287 AAAAATAAATGGCTCATCTGAATAGAGGCAACAGAACTTTAG
1 AAAAATAAATGGCTCATCTAAATAGAGGTAACAGAACTTTAA
* * *
16924329 AAAAATAAATGGTTCCTCTAAATAGAGGTAACAGAACTTTGA
1 AAAAATAAATGGCTCATCTAAATAGAGGTAACAGAACTTTAA
16924371 AAAAATAAAT
1 AAAAATAAAT
16924381 TACTCTTTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 4 0.05
42 76 0.95
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (42 bp):
AAAAATAAATGGCTCATCTAAATAGAGGTAACAGAACTTTAA
Found at i:16924782 original size:21 final size:20
Alignment explanation
Indices: 16924753--16924793 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
16924743 ACTCAAATAC
16924753 TTTTCTTTGAAATTCAAAGA
1 TTTTCTTTGAAATTCAAAGA
16924773 TTTTCATTTGAAATTCAAAGA
1 TTTTC-TTTGAAATTCAAAGA
16924794 CTCTCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTTCTTTGAAATTCAAAGA
Found at i:16924800 original size:21 final size:21
Alignment explanation
Indices: 16924758--16924800 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16924748 AATACTTTTC
* *
16924758 TTTGAAATTCAAAGATTTTCA
1 TTTGAAATTCAAAGACTCTCA
16924779 TTTGAAATTCAAAGACTCTCA
1 TTTGAAATTCAAAGACTCTCA
16924800 T
1 T
16924801 AAAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTGAAATTCAAAGACTCTCA
Found at i:16925189 original size:48 final size:51
Alignment explanation
Indices: 16925102--16925249 Score: 151
Period size: 56 Copynumber: 2.9 Consensus size: 51
16925092 TCTCAGAATA
* * ** *
16925102 AATTTT-TTTTTCTATCACTTGATCATTGCTCATAAGCTTTTCAGTA-T-AG
1 AATTTTATCTTTC-ATCACTTGATCATTGTTCATGGGCTTTTCAATATTAAG
*
16925151 -ATTTTATCTTTCATCACTTGATCATCGTTCATGGGCTTTTCAATATTTCAGAG
1 AATTTTATCTTTCATCACTTGATCATTGTTCATGGGCTTTTCAATA-TT-A-AG
*
16925204 CAAATTTTATCCTTCATCACTTGATCATTGTTCATGGGCTTTTCAA
1 --AATTTTATCTTTCATCACTTGATCATTGTTCATGGGCTTTTCAA
16925250 CACCACTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
48 33 0.40
49 5 0.06
50 1 0.01
53 2 0.02
56 41 0.50
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (51 bp):
AATTTTATCTTTCATCACTTGATCATTGTTCATGGGCTTTTCAATATTAAG
Found at i:16926827 original size:19 final size:20
Alignment explanation
Indices: 16926800--16926855 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 20
16926790 AAAATGAATA
*
16926800 TAAATGAAATCCTATTAC-C
1 TAAAAGAAATCCTATTACTC
16926819 TAAAAGAAATCCTAACATTACTC
1 TAAAAGAAATCCT---ATTACTC
16926842 TAAAAGAAATCCTA
1 TAAAAGAAATCCTA
16926856 AAATGATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 12 0.38
20 1 0.03
22 5 0.16
23 14 0.44
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAAAGAAATCCTATTACTC
Found at i:16926845 original size:23 final size:22
Alignment explanation
Indices: 16926813--16926856 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
16926803 ATGAAATCCT
16926813 ATTACCTAAAAGAAATCCTAAC
1 ATTACCTAAAAGAAATCCTAAC
16926835 ATTACTCTAAAAGAAATCCTAA
1 ATTAC-CTAAAAGAAATCCTAA
16926857 AATGATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (22 bp):
ATTACCTAAAAGAAATCCTAAC
Found at i:16930617 original size:196 final size:195
Alignment explanation
Indices: 16930266--16930621 Score: 449
Period size: 195 Copynumber: 1.8 Consensus size: 195
16930256 CAATTATTTG
* *
16930266 TATTGAAATTTCATCTAAATTATTCCACAATTTGGGATAAATTTAGAGAAAAATTTTCACCTAGA
1 TATTGAAATTTCATCTAAATTATTCCACAATTTGGGACAAATTTAGAGAAAAATTTTCACCTAAA
* * * * **
16930331 GATTTCTTAAGAATTTACCATTTGAAATTTCTAAGAATCTCATTATTAGGTAATTTGTATTAATT
66 AATTTCATAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAGGTAATTAATATTAATT
* *
16930396 CCTATTTTATATATTTTTATATTTTTTATTATTATTTTTGGTTGAAAAATAAATATTAATTACTG
131 CCAAATTTATATATTTTTATA-TTTTTATTATTATTTTTGGTTGAAAAATAAATATTAATTACTG
16930461 T
195 T
*
16930462 TATTGAAACTTT-ATCTAAATTATTCCATC-ATTTGGGCCAAATTTA-A-ATAAAATTTCTCACC
1 TATTGAAA-TTTCATCTAAATTATTCCA-CAATTTGGGACAAATTTAGAGA-AAAATTT-TCACC
*
16930523 TAAAAATTT-ATAAAAATTTACCATTTGAAATTTCTATA-AATTTCATCATT-GGATAATTAATA
62 TAAAAATTTCATAAAAATTTACCATTTGAAATTTCTA-AGAATCTCATCATTAGG-TAATTAATA
* *
16930585 TTTATTCACAAAATTTATTTATTTTT-TATTTTTATTA
125 TTAATTC-C-AAATTTATATATTTTTATATTTTTATTA
16930622 AATTAAATCA
Statistics
Matches: 138, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
194 3 0.02
195 65 0.47
196 53 0.38
197 17 0.12
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (195 bp):
TATTGAAATTTCATCTAAATTATTCCACAATTTGGGACAAATTTAGAGAAAAATTTTCACCTAAA
AATTTCATAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTAGGTAATTAATATTAATT
CCAAATTTATATATTTTTATATTTTTATTATTATTTTTGGTTGAAAAATAAATATTAATTACTGT
Found at i:16940521 original size:3 final size:3
Alignment explanation
Indices: 16940513--16940538 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16940503 AGTTTTTTGG
16940513 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16940539 TTAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16941306 original size:24 final size:23
Alignment explanation
Indices: 16941262--16941335 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
16941252 ATTTTAAATA
***
16941262 ATTATATTTAAATAAAAATAATT
1 ATTATATTTAAATAGTTATAATT
16941285 ATTATATGTTAAATAGTTATAATT
1 ATTATAT-TTAAATAGTTATAATT
* *
16941309 ATT-TGATAATAAATTGTTATAATT
1 ATTAT-AT-TTAAATAGTTATAATT
16941333 ATT
1 ATT
16941336 TGAATATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
23 8 0.19
24 35 0.81
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATTATATTTAAATAGTTATAATT
Found at i:16941336 original size:24 final size:24
Alignment explanation
Indices: 16941294--16941348 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
16941284 TATTATATGT
16941294 TAAATAGTTATAATTATTTG-ATAA
1 TAAATAGTTATAATTATTTGAAT-A
*
16941318 TAAATTGTTATAATTATTTGAATA
1 TAAATAGTTATAATTATTTGAATA
16941342 TAAATAG
1 TAAATAG
16941349 ATCATTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (24 bp):
TAAATAGTTATAATTATTTGAATA
Found at i:16950933 original size:25 final size:26
Alignment explanation
Indices: 16950892--16950941 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
16950882 ACCTGATACC
16950892 TGAGTCTCCCTCTTCCTTTTTCTTGG
1 TGAGTCTCCCTCTTCCTTTTTCTTGG
16950918 TGAGTCT-CCTCTTCCTTTTTCTTG
1 TGAGTCTCCCTCTTCCTTTTTCTTG
16950942 CTTCTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.04, C:0.30, G:0.14, T:0.52
Consensus pattern (26 bp):
TGAGTCTCCCTCTTCCTTTTTCTTGG
Found at i:16953288 original size:1 final size:1
Alignment explanation
Indices: 16953282--16953306 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16953272 TGATAATAGG
16953282 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
16953307 GGAGTGGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16958255 original size:19 final size:19
Alignment explanation
Indices: 16958215--16958256 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16958205 TAACTATAAG
* *
16958215 TTATAATTATAATCAAATA
1 TTATAATTATAATAAAAAA
16958234 TTAT-ATTATATATAAAAAA
1 TTATAATTATA-ATAAAAAA
16958253 TTAT
1 TTAT
16958257 TTAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAATTATAATAAAAAA
Found at i:16962071 original size:16 final size:14
Alignment explanation
Indices: 16962040--16962083 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
16962030 AAAATAAAAC
*
16962040 ATAAATAATTAAATT
1 ATAAATAA-AAAATT
16962055 AGTAATATAAAAAATT
1 A-TAA-ATAAAAAATT
16962071 ATAAATAAAAAAT
1 ATAAATAAAAAAT
16962084 AATCCTACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 9 0.35
17 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
ATAAATAAAAAATT
Found at i:16962350 original size:210 final size:209
Alignment explanation
Indices: 16961885--16962362 Score: 495
Period size: 210 Copynumber: 2.3 Consensus size: 209
16961875 AATTTTAAAC
* *
16961885 CAAAAAATAA-AAGTTAATGTAAAAAAGTGAGAATAATCATAAAACTAGTATTATTTGACATAAA
1 CAAAAAATAAGTA-TTAATGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTGACATAAA
* * * * * * *
16961949 ATGATTATAAGTATTGTTACACTTTAATAAATATTTTGATAATTTTAAACATAGTGAAAAGTAAC
65 ATGATTATAAGTATCGTAACACTTTAATAAAAATTGTGATAATTCTAAACATAATAAAAAGTAAC
* *
16962014 AACAAGTGTAAAAAAAAAAATAAAACATAAATAATTAAATTAGTAATATAAAAAATTATAAATAA
130 AACAAGCGTAAAAAAAAAAATAAAACATAAATAATTAAATTAGCAATATAAAAAATTATAAATAA
*
16962079 AAAATAATCCTACAC
195 AAAATAATCCTACAA
* ** * * * * ***
16962094 CAAAAAATAAGTGTTAACCTAAAAAATATAAAAATAATCGTAAAATTAGTATT-TTTAGGGGTAA
1 CAAAAAATAAGTATTAATGTAAAAAA-GTGAGAATAATCATAAAATTAGTATTATTT-GACATAA
* *
16962158 AATGGTTATAAGTATCGTAACACCTTTAA-AAAAATTGTGATAATTCTAAACGTAATAAAAAGTA
64 AATGATTATAAGTATCGTAACA-CTTTAATAAAAATTGTGATAATTCTAAACATAATAAAAAGTA
* * * * *
16962222 ACAACAAGCGTAAAAAAATATTATTATAACGTAAATAATTAAGTT-GACAATATAAAAAATTTAT
128 ACAACAAGCGTAAAAAAA-A-AAATAAAACATAAATAATTAAATTAG-CAATATAAAAAA-TTA-
* * *
16962286 TATTATAAAAAA-ATTTCT-CAA
188 TA-AATAAAAAATAATCCTACAA
* * *
16962307 C-AAAAA-AAGTATTAATGTAAAAAAGTGAGAATAATTATAAAATTAGAATAATTTGA
1 CAAAAAATAAGTATTAATGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTGA
16962363 TGTAAAGTGT
Statistics
Matches: 215, Mismatches: 43, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
209 24 0.11
210 110 0.51
211 26 0.12
212 35 0.16
213 6 0.03
214 6 0.03
215 8 0.04
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (209 bp):
CAAAAAATAAGTATTAATGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTGACATAAAA
TGATTATAAGTATCGTAACACTTTAATAAAAATTGTGATAATTCTAAACATAATAAAAAGTAACA
ACAAGCGTAAAAAAAAAAATAAAACATAAATAATTAAATTAGCAATATAAAAAATTATAAATAAA
AAATAATCCTACAA
Found at i:16962580 original size:16 final size:16
Alignment explanation
Indices: 16962559--16962590 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16962549 AACATAAAAG
*
16962559 AATTATTATTATAAAT
1 AATTATAATTATAAAT
16962575 AATTATAATTATAAAT
1 AATTATAATTATAAAT
16962591 TAAAAAATAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTATAATTATAAAT
Found at i:16963044 original size:19 final size:19
Alignment explanation
Indices: 16962991--16963044 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
16962981 TTGATAACGT
*
16962991 AAAAAAATTAGTGTT-ATA
1 AAAAAAATAAGTGTTAATA
*
16963009 AATAAAAA-ATA-TTTTAATA
1 AA-AAAAATA-AGTGTTAATA
16963028 AAAAAAATAAGTGTTAA
1 AAAAAAATAAGTGTTAA
16963045 CGTAAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAAAAATAAGTGTTAATA
Found at i:16963243 original size:17 final size:18
Alignment explanation
Indices: 16963223--16963269 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
16963213 TTTATTATGA
*
16963223 TAAATAAAAAATA-ATTT
1 TAAATAAAAAATACATGT
16963240 TAAATAAAAAAATACATGT
1 TAAAT-AAAAAATACATGT
16963259 TAACATAAAAA
1 TAA-ATAAAAA
16963270 TGCGAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 8 0.31
19 11 0.42
20 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAATAAAAAATACATGT
Found at i:16963251 original size:18 final size:19
Alignment explanation
Indices: 16963223--16963269 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
16963213 TTTATTATGA
*
16963223 TAAAT-AAAAAATA-ATTT
1 TAAATAAAAAAATACATGT
16963240 TAAATAAAAAAATACATGT
1 TAAATAAAAAAATACATGT
16963259 TAACATAAAAA
1 TAA-ATAAAAA
16963270 TGCGAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 8 0.31
19 6 0.23
20 7 0.27
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAATAAAAAAATACATGT
Found at i:16963491 original size:21 final size:21
Alignment explanation
Indices: 16963449--16963520 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
16963439 AGAAATAAGT
* *
16963449 ATAAAAAATATTATT-GTAAC
1 ATAAATAATATTATTATTAAC
*
16963469 ATAAATAATATTTTTATTAAC
1 ATAAATAATATTATTATTAAC
*
16963490 ATAAA-AGA-ATTATTATTACAA
1 ATAAATA-ATATTATTATTA-AC
16963511 ATAAATAATA
1 ATAAATAATA
16963521 ATTCTAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 23 0.55
21 17 0.40
22 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAAATAATATTATTATTAAC
Found at i:16963920 original size:16 final size:16
Alignment explanation
Indices: 16963896--16963930 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16963886 AAAATATATT
*
16963896 ATTGAAATGTAATAAA
1 ATTGAAATGTAAAAAA
*
16963912 ATTGTAATGTAAAAAA
1 ATTGAAATGTAAAAAA
16963928 ATT
1 ATT
16963931 AATATTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (16 bp):
ATTGAAATGTAAAAAA
Found at i:16964435 original size:931 final size:920
Alignment explanation
Indices: 16961842--16964683 Score: 2311
Period size: 931 Copynumber: 3.0 Consensus size: 920
16961832 GTTAATAATA
* **
16961842 TAAAAGAAA-TATTATTACAAATAAAATAATAATAATTTTAAACCAAAAAATAAAAGTTAATGTA
1 TAAAA-AAATTATTATTACAAAT--AA-AA-AATAATTTTAAA-CAAAAAATAAGAGTTAACATA
* * * * * *
16961906 AAA-AAGTGAGAATAATCATAAAACTAGTATTATTTGACATAAAAT-GATTATAAGTATTGTTAC
60 AAACAA-TGAGAATAATCATAAAA-TTGAATTATTTAATACAAAATAG-TTAGAAGTATTGTTAC
* * * * * *
16961969 ACTTTAA-TAAATATTTTG--ATAATTTTAAACATAGTGAAAAGTAACAAC--AAGTGTAAAAAA
122 ACCTTAACAAAAAATTTTGTAATAATTATAAACATAATGAAAAGTAACAACAAAAAT-TAAAAAA
** * * ** * * * *
16962029 AAAAATAAAACATAA-ATAATTAAATTA-GTAATATAAA--AA-ATTATAAATAAAAAATAATCC
186 ATTATTGAAATGTAATA-AATT-GATAACGTAA-AAAAATTAATATTATAAATAAAAAAT-AT-T
* ** * ** * * * * *
16962089 TACA-CCAAAAAATAAGTGTTAACCTAAAAAATATAAAAATAATCGTAAAATTAG--TATTTTTA
246 TAAATAAAAAAAATAAGCGTTAAAGT-AAAAATGTGAAAATAATTGTAAAAATAGCTTA-ATTTA
* ** * * * * **
16962151 GGGGTAAAAT-GGTTATAAGTATCGTAACACCTTTA-AAAAAATTGTGATAATTCTAAACGTAAT
309 -GCGTAAAATATATTAAAAGTATCAT-AGACCTTAAGAAAAAATTGTGATAATTCTAAATATAAT
* *
16962214 AAAAAGTAACAACAAGCGTAAAAAAATATTATTATAACGTAAATAATTAAGTTGACAATATAAAA
372 AAAAAGTAAGAACAAGCGT-AAAAAAT-TTATTATAACGTAAATAATTAAGTTGACAACATAAAA
* * * **
16962279 AATTTATTAT-TATAAAAAAATTTCTCAA-CAAAAA-AAGTATTAATGTAAAAA-AGTGAGAATA
435 AATTTATTATAAATAAAATAATTT-TAAATCAAAAATAAGTATTAACATAAAAAGA-TGAGAATA
* * * *
16962340 ATTATAAAATTAGAATAATTTGATGTAAAGTGTGTTAGAAATGTCGT-ACTGTAAAAATGTAAGA
498 ATT-TAAAATTA-AATAATTTGATGTAAAATGTGTTAGAAGTAT-GTAAC-GTAAAAATATAAGA
* ** * * * * *
16962404 ATAATTATAAAATTTGTGTCACTTTGCATAAATTATATTAAAATTATCGTAATACCTTAACAAAT
559 ATAGTCGTAAAATTTGTGTCATTTTACATAAAATATATTAAAACTATCGTAACACCTTAACAAAT
* * * *
16962469 AGTTGTGATAAATTTAAACATAATAAAAAGTAAGAACAAGTGTAAAAAATATATTATTGTAATAT
624 AGTTGTGAT-AATATAAACATAA-AAAAAATAAGAATAAGTATAAAAAA-A-ATTATTGTAATAT
* * *
16962534 AACTAAATT-TTTTG-CAACATAAAAGAATTATTATTATAAAT-AATTATAATTATAAATTAAAA
685 AAAT-AATTATTTTGACAACATAAAAGAATTATTATTA-AAATAAATAATAATTCTAAA-TAAAA
* * * * * *
16962596 AATAAGTGTTAGTATAAAAAAAATTAGAGTAATTGTAAAATT-AGTATTATTTGATGTAAAATGA
747 AATAAGTGTTAATATAAAAAATATAAGAGTAATTATAAAATTGA-TATCATTT-A-GAAAAATGA
* * *
16962660 TTAGAAGTGTTGTAACACTTTTAAGAAAAAAATTATAAT-ATTTCTAAACGTAATGAAAAATAGC
809 TTAGAAGTGTTGTAACACTTTT-A-AAAAAAATTATGATAATTT-TAAACATAATGAAAAATAAC
** **
16962724 AACAAGTGTACAAATATATTATTATAACATAAATAATTAAATTGACAATA
871 AACAAGTGTACAAATATATTATTATAACATAAATAATTAAATTGGTAACG
* * * **
16962774 TAAAAAAAATTTATTATAACAAATAAAAAATTATTTTAAATAAAAGTTAAGAGTTAACATAAAAC
1 T-AAAAAAA-TTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGAGTTAACATAAAAC
* * *
16962839 AATGAGAATAATCATAAAATTGATATTATTTAATGCAAAATAGTTATAAGTATTGTTACACTTTA
64 AATGAGAATAATCATAAAATTGA-ATTATTTAATACAAAATAGTTAGAAGTATTGTTACACCTTA
* *
16962904 AGAAAAAATTTTGTAATAATTATAAACATAATGAAAAGTAACAACAAATATTAAAAAAATTATTG
128 ACAAAAAATTTTGTAATAATTATAAACATAATGAAAAGTAACAACAAAAATTAAAAAAATTATTG
* * *
16962969 AAATGTAATAAATTGATAACGTAAAAAAATTAGTGTTATAAATAAAAAATATTTTAATAAAAAAA
193 AAATGTAATAAATTGATAACGTAAAAAAATTAATATTATAAATAAAAAATATTTAAATAAAAAAA
* * * * * * * *
16963034 ATAAGTGTTAACGTAAAAATGTGAGAATAATTTTAAAATTGGCTTCATTTAGTGTAAAATATATT
258 ATAAGCGTTAAAGTAAAAATGTGAAAATAATTGTAAAAATAGCTTAATTTAGCGTAAAATATATT
* * * *
16963099 AAAAGTATCATAGTACCTTAAGAAAAAATTATGATAATTCTAAATATAATAAAAGGTCAGAATAA
323 AAAAGTATCATAG-ACCTTAAGAAAAAATTGTGATAATTCTAAATATAATAAAAAGTAAGAACAA
* *
16963164 GCGTAAAATATTTTATTATAACATAAAT-A-TAAGTTGACAACATAAAAAATTTATTATGATAAA
387 GCGTAAAA-AATTTATTATAACGTAAATAATTAAGTTGACAACATAAAAAATTTA-T-T-ATAAA
* * * *
16963227 TAAAAAATAATTTTAAATAAAAAAATACA-TGTTAACATAAAAATG-CGAGAATAATTAAAAAGT
448 T--AAAATAATTTTAAAT-CAAAAATA-AGTATTAACATAAAAA-GATGAGAATAATTTAAAA--
* * * * * * *
16963290 TTGAATCATTTGGTGTAAAATATATTATAATGTCA--TAACCT-AAAATGATAAGAATAG-CTGT
506 TTAAATAATTTGATGTAAAATGTGTTAGAA-GT-ATGTAACGTAAAAAT-ATAAGAATAGTC-GT
* * * * ** * * * * * * * *
16963351 AAACTTGGTGTCATTTGACAT-AAATTTGATTAGGAGTGTCATAACATCTTAATAAAAAGTTATA
567 AAAATTTGTGTCATTTTACATAAAATAT-ATTAAAACTATCGTAACACCTTAACAAATAGTTGTG
* * *
16963415 ATAGTTATAAACATAATAAAAAAT-AGAAATAAGTATAAAAAATATTATTGTAACATAAATAA-T
631 ATA-ATATAAACATAA-AAAAAATAAG-AATAAGTATAAAAAAAATTATTGTAATATAAATAATT
* * *
16963478 ATTTTTATTAACATAAAAGAATTATTATTACAAATAAATAATAATTCTAAATAAAAAATAAATGT
693 ATTTTGA-CAACATAAAAGAATTATTATTA-AAATAAATAATAATTCTAAATAAAAAATAAGTGT
* *
16963543 TAATATAAAAAATATAAGAGTAATCATAAAATTGATATCATTTAGCAAAAAAGATT-GAAGTGTT
756 TAATATAAAAAATATAAGAGTAATTATAAAATTGATATCATTTAG-AAAAATGATTAGAAGTGTT
* * * * ** * ** *
16963607 GTAACACCTTTAAAAAAAGTTATGATAATCTTAAACATAGTGAAAGGTAATAACAAGCATAAAAA
820 GTAACACTTTTAAAAAAAATTATGATAATTTTAAACATAATGAAAAATAACAACAAGTGTACAAA
* ** *
16963672 GATATTATTATAATGTAAATAATTAAGTTGGTAACG
885 TATATTATTATAACATAAATAATTAAATTGGTAACG
* ***
16963708 TAAAAAAATTATTATTACAAATAAAAAATAATTTTAGACAAAAAATAAGAGTTAACAT-AAATTG
1 TAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGAGTTAACATAAAACAA
* ** * * * * * *
16963772 TGATAATAATTGTAAAATTCG-ATTATTTTATATAAAATTGTTAGATGTGTTGTTATACCTTAAC
66 TGAGAATAATCATAAAATT-GAATTATTTAATACAAAATAGTTAGAAGTATTGTTACACCTTAAC
* *
16963836 AAAAAA-TTTGTAATAATTTTAAATATAATGAAAAGTAACAA-AAAAATGTAAAAATATATTATT
130 AAAAAATTTTGTAATAATTATAAACATAATGAAAAGTAACAACAAAAAT-TAAAAA-A-ATTATT
*
16963899 GAAATGTAATAAAATTG-TAATGTAAAAAAATTAATATTATAAAT-AAAAATAATTCTAAAT-AA
192 GAAATGTAAT-AAATTGATAACGTAAAAAAATTAATATTATAAATAAAAAAT-ATT-TAAATAAA
16963961 AAAAATAAGCGTTAAAGTAAAAA-GATGAAAATAATTGTAAAAATAG-TATAATTT-GACGTAAA
254 AAAAATAAGCGTTAAAGTAAAAATG-TGAAAATAATTGTAAAAATAGCT-TAATTTAG-CGTAAA
** * * ** * * *
16964023 ATATATTTGAAGTGTCGTA-ATTTTAAGAAAAAATTGTGATAATTTTAAATATTATAAAATGTAA
316 ATATATTAAAAGTATCATAGACCTTAAGAAAAAATTGTGATAATTCTAAATATAATAAAAAGTAA
* * *
16964087 GAACAAG-GTTAACAAACTTTATTATAATGTAAATAATTAAATTGACAACA-AAAAAA-TTATTA
381 GAACAAGCG-TAA-AAAATTTATTATAACGTAAATAATTAAGTTGACAACATAAAAAATTTATTA
*
16964149 TAAATAAATAGTAATTTTAAATCTAAAAATAAGTATTAACATAAAAAGATAAGAATAATTGTAAA
444 TAAATAAA-A-TAATTTTAAATC-AAAAATAAGTATTAACATAAAAAGATGAGAATAATT-TAAA
* ** *
16964214 ATTAATATAATTTAACATAAAATGTGTTA-AACGTATTGTAACGTAAAAATATAAAAATAGTCGT
505 ATTAA-ATAATTTGATGTAAAATGTGTTAGAA-GTA-TGTAACGTAAAAATATAAGAATAGTCGT
* * *
16964278 AAAATTTGTATCATTTTATATAAAAATATATTAAAACTATCGTAACA-CTATAAGAAATAGTTGT
567 AAAATTTGTGTCATTTTACAT-AAAATATATTAAAACTATCGTAACACCT-TAACAAATAGTTGT
* * * * ** * *
16964342 GATAATCCTAAACGTAACGAAATATAAGAATAAGCCTAAAAAAAATTATTTTAATGTAAATAATT
630 GATAAT-ATAAACATAA-AAAAAATAAGAATAAGTATAAAAAAAATTATTGTAATATAAATAATT
** ** *
16964407 AAGTTGACAACATAAAATTATTATTATTATAAATAAAAAATAATTC--AATAAAAAAATAAGTGT
693 ATTTTGACAACATAAAAGAATTATTATTA-AAATAAATAATAATTCTAAAT-AAAAAATAAGTG-
* * * * * *
16964470 TTAA-GT-AAAAATGTAATAATAATTATAAAATTTG-TATCACTTGGTATAAAAGTGTATTAGAA
755 TTAATATAAAAAATATAAGAGTAATTATAAAA-TTGATATCA-TT--TAGAAAAATG-ATTAGAA
* * * * *
16964532 GTGTTGTAACA-TTTTAAGAAAAATTTTGTGATAATTTTAAACATAA-CAAAATATAAGAATAAG
815 GTGTTGTAACACTTTTAA-AAAAA-ATTATGATAATTTTAAACATAATGAAAA-ATAACAACAAG
*
16964595 TGTACAAATATATTATTATAACATAAATATTTAAATTGGTAACG
877 TGTACAAATATATTATTATAACATAAATAATTAAATTGGTAACG
* ** * *
16964639 T-AAAAATTTATTATTATTAATAATAAATAATTCTAAACTAAAAAA
1 TAAAAAAATTATTATTACAAATAAAAAATAATTTTAAAC-AAAAAA
16964684 GTGTTAACGT
Statistics
Matches: 1531, Mismatches: 283, Indels: 193
0.76 0.14 0.10
Matches are distributed among these distances:
924 4 0.00
925 10 0.01
926 90 0.06
927 57 0.04
928 127 0.08
929 198 0.13
930 134 0.09
931 210 0.14
932 119 0.08
933 70 0.05
934 143 0.09
935 65 0.04
936 27 0.02
937 27 0.02
938 94 0.06
939 107 0.07
940 45 0.03
941 4 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.33
Consensus pattern (920 bp):
TAAAAAAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGAGTTAACATAAAACAA
TGAGAATAATCATAAAATTGAATTATTTAATACAAAATAGTTAGAAGTATTGTTACACCTTAACA
AAAAATTTTGTAATAATTATAAACATAATGAAAAGTAACAACAAAAATTAAAAAAATTATTGAAA
TGTAATAAATTGATAACGTAAAAAAATTAATATTATAAATAAAAAATATTTAAATAAAAAAAATA
AGCGTTAAAGTAAAAATGTGAAAATAATTGTAAAAATAGCTTAATTTAGCGTAAAATATATTAAA
AGTATCATAGACCTTAAGAAAAAATTGTGATAATTCTAAATATAATAAAAAGTAAGAACAAGCGT
AAAAAATTTATTATAACGTAAATAATTAAGTTGACAACATAAAAAATTTATTATAAATAAAATAA
TTTTAAATCAAAAATAAGTATTAACATAAAAAGATGAGAATAATTTAAAATTAAATAATTTGATG
TAAAATGTGTTAGAAGTATGTAACGTAAAAATATAAGAATAGTCGTAAAATTTGTGTCATTTTAC
ATAAAATATATTAAAACTATCGTAACACCTTAACAAATAGTTGTGATAATATAAACATAAAAAAA
ATAAGAATAAGTATAAAAAAAATTATTGTAATATAAATAATTATTTTGACAACATAAAAGAATTA
TTATTAAAATAAATAATAATTCTAAATAAAAAATAAGTGTTAATATAAAAAATATAAGAGTAATT
ATAAAATTGATATCATTTAGAAAAATGATTAGAAGTGTTGTAACACTTTTAAAAAAAATTATGAT
AATTTTAAACATAATGAAAAATAACAACAAGTGTACAAATATATTATTATAACATAAATAATTAA
ATTGGTAACG
Found at i:16964698 original size:218 final size:218
Alignment explanation
Indices: 16964252--16964698 Score: 481
Period size: 218 Copynumber: 2.1 Consensus size: 218
16964242 AAACGTATTG
* * * *
16964252 TAACGTAAAAATATAAAAATAGTCGTAAAATTTGTATCATTTTATATAAAAATATATTAAAACTA
1 TAACGTAAAAATATAAAAATAATCATAAAATTTGTATCACTTGATATAAAAATATATTAAAACTA
* * *
16964317 TCGTAACACTATAAGAAATAGTTGTGATAATCCTAAACGTAACGAAATATAAGAATAAGCCTAAA
66 TCGTAACACTATAAGAAAAAGTTGTGATAATCCTAAACATAACAAAATATAAGAATAAGCCTAAA
* ** * *
16964382 AAAAATTATTTTAATGTAAATAATTAAGTTGACAACATAAAATTATTATTATTATAAATAAAAAA
131 AAAAATTATTATAACATAAATAATTAAATTGACAACATAAAAATATTATTATTATAAATAAAAAA
16964447 TAATTCAATAAAAAAATAAGTGTT
196 TAATTC-ATAAAAAAATAAGTGTT
* * * * * * * * *
16964471 TAA-GTAAAAATGTAATAATAATTATAAAATTTGTATCACTTGGTATAAAAGTGTATTAGAAGTG
1 TAACGTAAAAATATAAAAATAATCATAAAATTTGTATCACTTGATATAAAAATATATTAAAACTA
* * * * ** **
16964535 TTGTAACATTTTAAGAAAAATTTTGTGATAATTTTAAACATAACAAAATATAAGAATAAGTGTAC
66 TCGTAACACTATAAGAAAAA-GTTGTGATAATCCTAAACATAACAAAATATAAGAATAAGCCTA-
* * * ** * * *
16964600 AAATATATTATTATAACATAAATATTTAAATTGGTAACGTAAAAAT-TTATTATTATTAATAATA
129 AAAAAAATTATTATAACATAAATAATTAAATTGACAACATAAAAATATTATTATTATAAATAAAA
16964664 AATAATTC-TAAACTAAAA-AAGTG-T
194 AATAATTCATAAA--AAAATAAGTGTT
16964688 TAACGTAAAAA
1 TAACGTAAAAA
16964699 AAATAATCGT
Statistics
Matches: 186, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
217 8 0.04
218 76 0.41
219 67 0.36
220 35 0.19
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (218 bp):
TAACGTAAAAATATAAAAATAATCATAAAATTTGTATCACTTGATATAAAAATATATTAAAACTA
TCGTAACACTATAAGAAAAAGTTGTGATAATCCTAAACATAACAAAATATAAGAATAAGCCTAAA
AAAAATTATTATAACATAAATAATTAAATTGACAACATAAAAATATTATTATTATAAATAAAAAA
TAATTCATAAAAAAATAAGTGTT
Found at i:16965496 original size:17 final size:17
Alignment explanation
Indices: 16965443--16965496 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
16965433 TTAATAAAAA
*
16965443 ATTTTTATATTTTGATAA
1 ATTTTTATATTTT-ATAT
* **
16965461 AATTTTATATAATATAT
1 ATTTTTATATTTTATAT
*
16965478 ATTTTTATATTTTACAT
1 ATTTTTATATTTTATAT
16965495 AT
1 AT
16965497 ATTTGACATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTTATATTTTATAT
Found at i:16965933 original size:24 final size:25
Alignment explanation
Indices: 16965882--16965935 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
16965872 AAATAATAAT
* *
16965882 AAAAATTATTGTATTTATGATTGAA
1 AAAAATTATTATAATTATGATTGAA
16965907 AAAAATTATTATAATTATGATTGAA
1 AAAAATTATTATAATTATGATTGAA
16965932 AAAA
1 AAAA
16965936 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (25 bp):
AAAAATTATTATAATTATGATTGAA
Found at i:16965946 original size:24 final size:25
Alignment explanation
Indices: 16965896--16965946 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
16965886 ATTATTGTAT
* * *
16965896 TTATGATTGAAAAAAATTATTATAA
1 TTATGATTGAAAAAAATAATAAAAA
16965921 TTATGATTG-AAAAAATAATAAAAA
1 TTATGATTGAAAAAAATAATAAAAA
16965945 TT
1 TT
16965947 TTATATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (25 bp):
TTATGATTGAAAAAAATAATAAAAA
Found at i:16967080 original size:61 final size:60
Alignment explanation
Indices: 16967001--16967132 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 60
16966991 CTAAAAAAGC
* *
16967001 CTTAAATAATTCAATTTAAAAATATATTAGAGATTATTTAA-TATATTTTGGTTAAAAATAT
1 CTTAAATAATCCAATTTAAAAA-ATATTAGAG-TTATTTAAGTATATTTTGATTAAAAATAT
** * *
16967062 CTTAAATAATCCCGTTTAAAAAATATTAGAGTTATTTAAGTTTTTTTTTGATTAAAAATAT
1 CTTAAATAATCCAATTTAAAAAATATTAGAGTTATTTAAG-TATATTTTGATTAAAAATAT
16967123 CTTAAATAAT
1 CTTAAATAAT
16967133 ATTTTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
59 8 0.13
60 9 0.14
61 46 0.73
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (60 bp):
CTTAAATAATCCAATTTAAAAAATATTAGAGTTATTTAAGTATATTTTGATTAAAAATAT
Found at i:16967217 original size:59 final size:59
Alignment explanation
Indices: 16967001--16967230 Score: 166
Period size: 60 Copynumber: 3.8 Consensus size: 59
16966991 CTAAAAAAGC
* * ** * ** *
16967001 CTTAAATAATTCAATTTAAAAATATATTAGAGATTATTTAATATATTTTGGTTAAAAATA
1 CTTAAATAATTC-ATTTAAAAAAATATTAGAAATTATTTAAGGTGTTTTTTTTAAAAACA
* * * * * *
16967061 TCTTAAATAATCCCGTTT-AAAAAATATTAG-AGTTATTTAAGTTTTTTTTTGATTAAAAATA
1 -CTTAAATAAT-TCATTTAAAAAAATATTAGAAATTATTTAAGGTGTTTTTT--TTAAAAACA
* * *
16967122 TCTTAAATAA-T-ATTTTTAAAAAAT-TGAAGAATATTATTTAAGGCGTTTTTTTTAAAAAGCA
1 -CTTAAATAATTCA-TTTAAAAAAATAT-TAGAA-ATTATTTAAGGTGTTTTTTTTAAAAA-CA
*
16967183 -TTAAATAATTCATTTAAAAAAATATTAGAAATTATTTAAAGTGTTTTT
1 CTTAAATAATTCATTTAAAAAAATATTAGAAATTATTTAAGGTGTTTTT
16967231 AGATAAAAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
59 41 0.30
60 42 0.31
61 36 0.27
62 16 0.12
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (59 bp):
CTTAAATAATTCATTTAAAAAAATATTAGAAATTATTTAAGGTGTTTTTTTTAAAAACA
Found at i:16979115 original size:31 final size:31
Alignment explanation
Indices: 16979078--16979140 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
16979068 TGAAAAAATT
* * *
16979078 AATAATCGATTTAATTGATTTTTATTTAATA
1 AATAATCGAATTAATTGAATATTATTTAATA
*
16979109 AATAATCGAATTGATTGAATATTATTTAATA
1 AATAATCGAATTAATTGAATATTATTTAATA
16979140 A
1 A
16979141 CTGATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AATAATCGAATTAATTGAATATTATTTAATA
Found at i:16979438 original size:9 final size:9
Alignment explanation
Indices: 16979426--16979458 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16979416 ATTGATAGAA
16979426 TTAATTAAT
1 TTAATTAAT
16979435 TTAATTAAT
1 TTAATTAAT
*
16979444 TTAA-AAAT
1 TTAATTAAT
16979452 TTAATTA
1 TTAATTA
16979459 TAACTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTAATTAAT
Found at i:16983783 original size:2 final size:2
Alignment explanation
Indices: 16983776--16983800 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16983766 ATTCAACTAT
16983776 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16983801 GAATAGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16988064 original size:28 final size:28
Alignment explanation
Indices: 16988033--16988086 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
16988023 ATATGTTGTT
* *
16988033 TATTTAAAGAAAATGATAAAACTAGACA
1 TATTAAAAGAAAATAATAAAACTAGACA
**
16988061 TATTAAAAGTGAATAATAAAACTAGA
1 TATTAAAAGAAAATAATAAAACTAGA
16988087 TATGTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (28 bp):
TATTAAAAGAAAATAATAAAACTAGACA
Found at i:16989266 original size:21 final size:21
Alignment explanation
Indices: 16989218--16989278 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
16989208 CAAAACTATT
*
16989218 AGAGAGAGAATTGATTGATTTTAA
1 AGAGAGAGAA-TGAAT--TTTTAA
*
16989242 AGAGAGAGAATGAATTTTTAG
1 AGAGAGAGAATGAATTTTTAA
* *
16989263 AGAGAGAAAATAAATT
1 AGAGAGAGAATGAATT
16989279 GAGATGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.58
23 4 0.12
24 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.28
Consensus pattern (21 bp):
AGAGAGAGAATGAATTTTTAA
Found at i:16991605 original size:2 final size:2
Alignment explanation
Indices: 16991598--16991625 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16991588 TAAGTTGATA
16991598 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16991626 TCTATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16992480 original size:32 final size:31
Alignment explanation
Indices: 16992406--16992488 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
16992396 GAAAAAATTT
*** *
16992406 TATCATTTTAAAAAATTAAATAAAAATTTCTA
1 TATCATTTT-AAAAATTAAATAAAAAACCCCA
16992438 TATCGA-TTTAAGAAATTAAATAAAAAACCCCA
1 TATC-ATTTTAA-AAATTAAATAAAAAACCCCA
*
16992470 TCTCATTTTAAAATATTAA
1 TATCATTTTAAAA-ATTAA
16992489 TTAAGTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
31 5 0.12
32 36 0.86
33 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (31 bp):
TATCATTTTAAAAATTAAATAAAAAACCCCA
Found at i:16997511 original size:20 final size:20
Alignment explanation
Indices: 16997488--16997530 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16997478 ACAAACACAT
* * *
16997488 TAATAAATAACTAAATAAAA
1 TAATAAAAAAATAAAAAAAA
16997508 TAATAAAAAAATAAAAAAAA
1 TAATAAAAAAATAAAAAAAA
16997528 TAA
1 TAA
16997531 AAACAGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
TAATAAAAAAATAAAAAAAA
Found at i:16997512 original size:16 final size:16
Alignment explanation
Indices: 16997500--16997533 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16997490 ATAAATAACT
16997500 AAATAAAATAATAAAA
1 AAATAAAATAATAAAA
*
16997516 AAATAAAAAAAATAAAA
1 AAAT-AAAATAATAAAA
16997533 A
1 A
16997534 CAGCTTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAATAATAAAA
Found at i:16997524 original size:9 final size:8
Alignment explanation
Indices: 16997500--16997533 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
16997490 ATAAATAACT
16997500 AAATAAAA
1 AAATAAAA
*
16997508 TAATAAAA
1 AAATAAAA
16997516 AAATAAAAA
1 AAAT-AAAA
16997525 AAATAAAA
1 AAATAAAA
16997533 A
1 A
16997534 CAGCTTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:16998432 original size:4 final size:4
Alignment explanation
Indices: 16998423--16998483 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
16998413 GATAAATCCA
** *
16998423 AAAT AAAT AAAT AAAT AAGC AAAT AGAT AAAT -AAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
16998470 ATA- AAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT
16998484 GGTTGGGCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 8 0.17
4 38 0.83
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:16998462 original size:35 final size:32
Alignment explanation
Indices: 16998382--16998470 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 32
16998372 AAAATCAGAT
* * * *
16998382 ATAAACAAAAATAGATAAATAATTTACAAAAG
1 ATAAATAAAAATAAATAAATAAATAACAAAAG
*
16998414 ATAAATCCAAAATAAATAAATAAATAAGCAAATAG
1 ATAAAT-AAAAATAAATAAATAAATAA-CAAA-AG
16998449 ATAAATAATAAATAAATAAATA
1 ATAAATAA-AAATAAATAAATA
16998471 TAAAATAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
32 5 0.11
33 16 0.34
34 5 0.11
35 21 0.45
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (32 bp):
ATAAATAAAAATAAATAAATAAATAACAAAAG
Found at i:16998784 original size:44 final size:43
Alignment explanation
Indices: 16998703--16998928 Score: 188
Period size: 44 Copynumber: 5.1 Consensus size: 43
16998693 CAATATAGAA
* *
16998703 ACTCCTCTAAGTAGAGGCTCACAACAACTTTCAAAAAATAAATAAG
1 ACTCATCTAAGCAGAGGCT--CAACAACTTT-AAAAAATAAATAAG
* * *
16998749 GCTCATCTAATCAGAGGCTCAACAACTTTAGAAAAATAAATAAA
1 ACTCATCTAAGCAGAGGCTCAACAACTTTA-AAAAATAAATAAG
* * *
16998793 ACTCCTATAAGCAGAGGCTCAAC-ACTTTATAAAATAAATAAGG
1 ACTCATCTAAGCAGAGGCTCAACAACTTTAAAAAATAAATAA-G
* * *
16998836 A-TCCTCTAAGCATAGGCTCAACAA-TTTAAAAAAAACAAATAAG
1 ACTCATCTAAGCAGAGGCTCAACAACTTT--AAAAAATAAATAAG
* * ** ** * *
16998879 ACTTATCCAATTAGAGGCTCAATGATTTTAAAAAAATAAAGAAG
1 ACTCATCTAAGCAGAGGCTCAACAACTTT-AAAAAATAAATAAG
16998923 ACTCAT
1 ACTCAT
16998929 TGACAATCAT
Statistics
Matches: 147, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
42 33 0.22
43 11 0.07
44 85 0.58
45 3 0.02
46 15 0.10
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (43 bp):
ACTCATCTAAGCAGAGGCTCAACAACTTTAAAAAATAAATAAG
Found at i:16998846 original size:42 final size:43
Alignment explanation
Indices: 16998705--16998868 Score: 190
Period size: 44 Copynumber: 3.8 Consensus size: 43
16998695 ATATAGAAAC
* *
16998705 TCCTCTAAGTAGAGGCTCACAACAACTTTCAAAAAATAAATAAGGC
1 TCCTCTAAGCAGAGGCT--CAACAACTTT-AAAAAATAAATAAGGA
* * *
16998751 TCATCTAATCAGAGGCTCAACAACTTTAGAAAAATAAATAA-AA
1 TCCTCTAAGCAGAGGCTCAACAACTTTA-AAAAATAAATAAGGA
* *
16998794 CTCCTATAAGCAGAGGCTCAAC-ACTTTATAAAATAAATAAGGA
1 -TCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATAAATAAGGA
*
16998837 TCCTCTAAGCATAGGCTCAACAA-TTTAAAAAA
1 TCCTCTAAGCAGAGGCTCAACAACTTTAAAAAA
16998869 AACAAATAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 38 0.38
43 9 0.09
44 40 0.40
46 14 0.14
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.23
Consensus pattern (43 bp):
TCCTCTAAGCAGAGGCTCAACAACTTTAAAAAATAAATAAGGA
Found at i:16998870 original size:86 final size:89
Alignment explanation
Indices: 16998691--16998877 Score: 229
Period size: 86 Copynumber: 2.1 Consensus size: 89
16998681 AGACTTATTG
* * *
16998691 AACAATATAGAAACTCCTCTAAGTAGAGGCTCACAACAACTTTCAAAAAATAAATAAGGCTCATC
1 AACAA-ATA-AAACTCCTATAAGCAGAGGCT-ACAACAACTTTCAAAAAATAAATAAGGATCATC
* *
16998756 TAATCAGAGGCTCAACAACTTTAGAAA
63 TAAGCAGAGGCTCAACAACTTTAAAAA
* * *
16998783 AATAAATAAAACTCCTATAAGCAGAGGCT-CAAC-ACTTT-ATAAAATAAATAAGGATCCTCTAA
1 AACAAATAAAACTCCTATAAGCAGAGGCTACAACAACTTTCAAAAAATAAATAAGGATCATCTAA
*
16998845 GCATAGGCTCAACAA-TTTAAAAAA
66 GCAGAGGCTCAACAACTTT-AAAAA
16998869 AACAAATAA
1 AACAAATAA
16998878 GACTTATCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
85 3 0.04
86 46 0.55
87 5 0.06
88 4 0.05
90 19 0.23
91 3 0.04
92 4 0.05
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.22
Consensus pattern (89 bp):
AACAAATAAAACTCCTATAAGCAGAGGCTACAACAACTTTCAAAAAATAAATAAGGATCATCTAA
GCAGAGGCTCAACAACTTTAAAAA
Found at i:16998895 original size:86 final size:87
Alignment explanation
Indices: 16998691--16998918 Score: 212
Period size: 86 Copynumber: 2.6 Consensus size: 87
16998681 AGACTTATTG
* *
16998691 AACAATATAGAAACTCCTCTAAGTAGAGGCTCACAACAACTTTCAAAAAATAAATAAGGCTCATC
1 AACAA-ATA-AAACT-CTATAAGTAGAGGCT--CAACAACTTTCAAAAAATAAATAAGGATCATC
* *
16998756 TAATCAGAGGCTCAACAACTTTAGAAA
61 TAAGCAGAGGCTCAACAACTTTAAAAA
* * * *
16998783 AATAAATAAAACTCCTATAAGCAGAGGCTCAAC-ACTTT-ATAAAATAAATAAGGATCCTCTAAG
1 AACAAATAAAACT-CTATAAGTAGAGGCTCAACAACTTTCAAAAAATAAATAAGGATCATCTAAG
*
16998846 CATAGGCTCAACAA-TTTAAAAAA
65 CAGAGGCTCAACAACTTT-AAAAA
* * ** * *
16998869 AACAAATAAGACT-TATCCAATTAGAGGCTCAATGATTTTAAAAAAATAAA
1 AACAAATAAAACTCTAT--AAGTAGAGGCTCAACAACTTTCAAAAAATAAA
16998919 GAAGACTCAT
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
84 3 0.03
85 3 0.03
86 61 0.53
87 9 0.08
88 13 0.11
90 19 0.17
91 3 0.03
92 4 0.03
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (87 bp):
AACAAATAAAACTCTATAAGTAGAGGCTCAACAACTTTCAAAAAATAAATAAGGATCATCTAAGC
AGAGGCTCAACAACTTTAAAAA
Found at i:17010793 original size:27 final size:25
Alignment explanation
Indices: 17010755--17010804 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
17010745 TAATTCCAAA
*
17010755 AAATTTTATTATTTTTTATTGAAAAT
1 AAATTTTATTA-TTATTATTGAAAAT
*
17010781 AAATATTTGTTATTATTATTGAAA
1 AAAT-TTTATTATTATTATTGAAA
17010805 CTTTATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (25 bp):
AAATTTTATTATTATTATTGAAAAT
Found at i:17011959 original size:4 final size:4
Alignment explanation
Indices: 17011950--17012013 Score: 64
Period size: 4 Copynumber: 17.0 Consensus size: 4
17011940 GATAAAACCC
** *
17011950 AAAT AAAT AAAT AAAT AAAT AAGC AAAT AGAT AAAT -AAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
17011996 AAAT ATA- AAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT
17012014 GATTGGGCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
3 11 0.22
4 38 0.78
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:17012452 original size:20 final size:20
Alignment explanation
Indices: 17012427--17012491 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
17012417 AAGTCATGCA
17012427 ATCATGTAATAATTAGAAAT
1 ATCATGTAATAATTAGAAAT
17012447 ATCATGTAATAATTAGAAAT
1 ATCATGTAATAATTAGAAAT
* * *
17012467 ATCATGCAATAAATA-TAAT
1 ATCATGTAATAATTAGAAAT
17012486 ATCATG
1 ATCATG
17012492 CCAAAAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 9 0.21
20 33 0.79
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (20 bp):
ATCATGTAATAATTAGAAAT
Found at i:17012488 original size:19 final size:20
Alignment explanation
Indices: 17012427--17012605 Score: 82
Period size: 20 Copynumber: 8.5 Consensus size: 20
17012417 AAGTCATGCA
* *
17012427 ATCATGTAATAATTAGAAAT
1 ATCATGCAATAAATAGAAAT
* *
17012447 ATCATGTAATAATTAGAAAT
1 ATCATGCAATAAATAGAAAT
*
17012467 ATCATGCAATAAATA-TAAT
1 ATCATGCAATAAATAGAAAT
*
17012486 ATCATGCCAA-AAATCAAACCAAGAT
1 ATCATG-CAATAAAT---A-GAA-AT
* *
17012511 ATCATGCAATGAAACATAAA-
1 ATCATGCAAT-AAATAGAAAT
*
17012531 ATCATGCCAA-AATCATACCAAAAT
1 ATCATG-CAATAA--ATA--GAAAT
*
17012555 ATCCATGCAATAATATA-AGAT
1 AT-CATGCAATAA-ATAGAAAT
17012576 ATCATGCAATAATATA-AAAT
1 ATCATGCAATAA-ATAGAAAT
*
17012596 ATCATACAAT
1 ATCATGCAAT
17012606 TATATAATGA
Statistics
Matches: 130, Mismatches: 12, Indels: 34
0.74 0.07 0.19
Matches are distributed among these distances:
19 15 0.12
20 68 0.52
21 11 0.08
22 3 0.02
23 4 0.03
24 12 0.09
25 14 0.11
26 3 0.02
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (20 bp):
ATCATGCAATAAATAGAAAT
Found at i:17012517 original size:44 final size:43
Alignment explanation
Indices: 17012463--17012582 Score: 152
Period size: 45 Copynumber: 2.7 Consensus size: 43
17012453 TAATAATTAG
17012463 AAATATCATGCAATAAATATAATATCATGCCAAAAATCAAACCA
1 AAATATCATGCAATAAATATAATATCATGCC-AAAATCAAACCA
* * * *
17012507 AGATATCATGCAATGAAACATAAAATCATGCCAAAATCATACCA
1 AAATATCATGCAAT-AAATATAATATCATGCCAAAATCAAACCA
17012551 AAATATCCATGCAAT-AATATAAGATATCATGC
1 AAATAT-CATGCAATAAATAT-A-ATATCATGC
17012583 AATAATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.06
44 30 0.46
45 31 0.48
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.23
Consensus pattern (43 bp):
AAATATCATGCAATAAATATAATATCATGCCAAAATCAAACCA
Found at i:17012542 original size:45 final size:43
Alignment explanation
Indices: 17012463--17012567 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 43
17012453 TAATAATTAG
* *
17012463 AAATATCATGCAATAAATATAATATCATGCCAAAAATCAAACCA
1 AAATATCATGCAATAAACATAAAATCATGCC-AAAATCAAACCA
* *
17012507 AGATATCATGCAATGAAACATAAAATCATGCCAAAATCATACCA
1 AAATATCATGCAAT-AAACATAAAATCATGCCAAAATCAAACCA
17012551 AAATATCCATGCAATAA
1 AAATAT-CATGCAATAA
17012568 TATAAGATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 31 0.57
45 23 0.43
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (43 bp):
AAATATCATGCAATAAACATAAAATCATGCCAAAATCAAACCA
Found at i:17012580 original size:45 final size:43
Alignment explanation
Indices: 17012463--17012582 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 43
17012453 TAATAATTAG
17012463 AAATATCATGCAATAAATATAATATCATGCCAAAAATCAAACCA
1 AAATATCATGCAATAAATA-AATATCATGCCAAAAATCAAACCA
* *
17012507 AGATATCATGCAATGAAACATAAA-ATCATGCC-AAAATCATACCA
1 AAATATCATGCAAT--AA-ATAAATATCATGCCAAAAATCAAACCA
17012551 AAATATCCATGCAATAATATAAGATATCATGC
1 AAATAT-CATGCAATAA-ATAA-ATATCATGC
17012583 AATAATATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 6 0.09
44 30 0.45
45 23 0.35
46 4 0.06
47 3 0.05
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.23
Consensus pattern (43 bp):
AAATATCATGCAATAAATAAATATCATGCCAAAAATCAAACCA
Found at i:17012583 original size:20 final size:20
Alignment explanation
Indices: 17012553--17012723 Score: 91
Period size: 20 Copynumber: 8.9 Consensus size: 20
17012543 TCATACCAAA
17012553 ATATCCATGCAATAATATAAG
1 ATAT-CATGCAATAATATAAG
*
17012574 ATATCATGCAATAATATAAA
1 ATATCATGCAATAATATAAG
* *
17012594 ATATCATACAATTATATAATG
1 ATATCATGCAATAATATAA-G
* * * *
17012615 A-GTCATGCAGACACTA-AAT
1 ATATCATGCA-ATAATATAAG
17012634 A-ATCATGC-A-AATATAATG
1 ATATCATGCAATAATATAA-G
*
17012652 A-ATTATGC-A-AATAATAA-
1 ATATCATGCAATAAT-ATAAG
17012669 ATATCATG-AA-AATAATAA-
1 ATATCATGCAATAAT-ATAAG
* *
17012687 ATA--ATGCAAAAATATAAA
1 ATATCATGCAATAATATAAG
*
17012705 ATATCATGCAATTATATAA
1 ATATCATGCAATAATATAA
17012724 TGAGTCATGC
Statistics
Matches: 121, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
16 6 0.05
17 10 0.08
18 34 0.28
19 11 0.09
20 52 0.43
21 8 0.07
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
ATATCATGCAATAATATAAG
Found at i:17012652 original size:37 final size:37
Alignment explanation
Indices: 17012607--17012778 Score: 172
Period size: 37 Copynumber: 4.6 Consensus size: 37
17012597 TCATACAATT
* * *
17012607 ATATAATGAGTCATGCAGACACTAAATAATCATGCAA
1 ATATAATGAATCATGCAAACAATAAATAATCATGCAA
* *
17012644 ATATAATGAATTATGCAAATAATAAAT-ATCATG-AA
1 ATATAATGAATCATGCAAACAATAAATAATCATGCAA
* * *
17012679 A-ATAATAAATAATGCAAA-AATATAAAATATCATGCAA
1 ATATAATGAATCATGCAAACAATA-AATA-ATCATGCAA
* * *
17012716 TTATATAATGAGTCATGCAAACACTAAATAATCATGAAA
1 --ATATAATGAATCATGCAAACAATAAATAATCATGCAA
*
17012755 ATATAATGAATCATGCAAATAATA
1 ATATAATGAATCATGCAAACAATA
17012779 CATCATATTA
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
33 4 0.04
34 17 0.15
35 3 0.03
36 12 0.11
37 45 0.41
39 9 0.08
40 17 0.15
41 3 0.03
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.27
Consensus pattern (37 bp):
ATATAATGAATCATGCAAACAATAAATAATCATGCAA
Found at i:17012661 original size:18 final size:17
Alignment explanation
Indices: 17012631--17012775 Score: 98
Period size: 18 Copynumber: 7.9 Consensus size: 17
17012621 GCAGACACTA
17012631 AATAATCATGCAAATAT
1 AATAATCATGCAAATAT
*
17012648 AATGAATTATGCAAATAAT
1 AAT-AATCATGCAAAT-AT
17012667 AA-ATATCATG-AAA-AT
1 AATA-ATCATGCAAATAT
*
17012682 AATAAATAATGCAAAAATAT
1 AAT-AATCATGC--AAATAT
*
17012702 AAAATATCATGCAATTATAT
1 AATA-ATCATGCAA--ATAT
* *
17012722 AATGAGTCATGCAAACACT
1 AAT-AATCATGCAAATA-T
*
17012741 AAATAATCATGAAAATAT
1 -AATAATCATGCAAATAT
17012759 AATGAATCATGCAAATA
1 AAT-AATCATGCAAATA
17012776 ATACATCATA
Statistics
Matches: 100, Mismatches: 12, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
15 4 0.04
16 5 0.05
17 11 0.11
18 33 0.33
19 19 0.19
20 27 0.27
21 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (17 bp):
AATAATCATGCAAATAT
Found at i:17012705 original size:111 final size:111
Alignment explanation
Indices: 17012579--17012778 Score: 355
Period size: 111 Copynumber: 1.8 Consensus size: 111
17012569 ATAAGATATC
* * *
17012579 ATGCAATAATATAAAATATCATACAATTATATAATGAGTCATGCAGACACTAAATAATCATGCAA
1 ATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATGCAAACACTAAATAATCATGAAA
*
17012644 ATATAATGAATTATGCAAATAATAAATATCATGAAAATAATAAATA
66 ATATAATGAATCATGCAAATAATAAATATCATGAAAATAATAAATA
*
17012690 ATGCAAAAATATAAAATATCATGCAATTATATAATGAGTCATGCAAACACTAAATAATCATGAAA
1 ATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATGCAAACACTAAATAATCATGAAA
17012755 ATATAATGAATCATGCAAATAATA
66 ATATAATGAATCATGCAAATAATA
17012779 CATCATATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (111 bp):
ATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATGCAAACACTAAATAATCATGAAA
ATATAATGAATCATGCAAATAATAAATATCATGAAAATAATAAATA
Found at i:17013037 original size:2 final size:2
Alignment explanation
Indices: 17013030--17013068 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
17013020 AAGGGAACAA
*
17013030 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17013069 CCTCACTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17013395 original size:32 final size:32
Alignment explanation
Indices: 17013359--17013420 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
17013349 CAAAGTTCCA
17013359 TATTGCTTGATGATTGTTGATTCAAAATTTCG
1 TATTGCTTGATGATTGTTGATTCAAAATTTCG
17013391 TATTGCTTGATGATTGTTGATTCAAAATTT
1 TATTGCTTGATGATTGTTGATTCAAAATTT
17013421 TGTCTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (32 bp):
TATTGCTTGATGATTGTTGATTCAAAATTTCG
Found at i:17013713 original size:7 final size:7
Alignment explanation
Indices: 17013709--17013738 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17013699 CATGTTTTTC
17013709 TTTTTAT
1 TTTTTAT
17013716 TTTTTAT
1 TTTTTAT
*
17013723 TTTTGAT
1 TTTTTAT
17013730 TTTTTAT
1 TTTTTAT
17013737 TT
1 TT
17013739 GCCAATTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:17013726 original size:14 final size:14
Alignment explanation
Indices: 17013703--17013738 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
17013693 AAATCCCATG
*
17013703 TTTTTCTTTTT-AT
1 TTTTTATTTTTGAT
17013716 TTTTTATTTTTGAT
1 TTTTTATTTTTGAT
17013730 TTTTTATTT
1 TTTTTATTT
17013739 GCCAATTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTTATTTTTGAT
Found at i:17020346 original size:2 final size:2
Alignment explanation
Indices: 17020339--17020374 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17020329 TGTGTCCTAC
17020339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17020375 TGAGTTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17020951 original size:3 final size:3
Alignment explanation
Indices: 17020945--17020986 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17020935 TTTTTAGTAT
17020945 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17020987 GTAAGTTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17022970 original size:2 final size:2
Alignment explanation
Indices: 17022963--17022987 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17022953 AGGAAGATAC
17022963 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17022988 GTTCTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17023721 original size:23 final size:21
Alignment explanation
Indices: 17023695--17023741 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
17023685 TGATAATAGT
17023695 AAATATAATATAAAAATAAATAA
1 AAATATAAT-TAAAAA-AAATAA
* *
17023718 AAATATTATTCAAAAAAATAA
1 AAATATAATTAAAAAAAATAA
17023739 AAA
1 AAA
17023742 AGAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 8 0.36
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATATAATTAAAAAAAATAA
Found at i:17023787 original size:21 final size:22
Alignment explanation
Indices: 17023763--17023806 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
17023753 CTGCACAAAG
*
17023763 ATAAAAATTTAA-AAATAAATT
1 ATAAAAATGTAACAAATAAATT
17023784 ATAAAAATGTAACAAATAAATT
1 ATAAAAATGTAACAAATAAATT
17023806 A
1 A
17023807 GGAGTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAAATGTAACAAATAAATT
Found at i:17026156 original size:20 final size:20
Alignment explanation
Indices: 17026131--17026195 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
17026121 AAGTCATGCA
17026131 ATCATGTAATAATTAGAAAT
1 ATCATGTAATAATTAGAAAT
17026151 ATCATGTAATAATTAGAAAT
1 ATCATGTAATAATTAGAAAT
* * *
17026171 ATCATGCAATAAATA-TAAT
1 ATCATGTAATAATTAGAAAT
17026190 ATCATG
1 ATCATG
17026196 CCAAAAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 9 0.21
20 33 0.79
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (20 bp):
ATCATGTAATAATTAGAAAT
Found at i:17026192 original size:19 final size:20
Alignment explanation
Indices: 17026131--17026309 Score: 82
Period size: 20 Copynumber: 8.5 Consensus size: 20
17026121 AAGTCATGCA
* *
17026131 ATCATGTAATAATTAGAAAT
1 ATCATGCAATAAATAGAAAT
* *
17026151 ATCATGTAATAATTAGAAAT
1 ATCATGCAATAAATAGAAAT
*
17026171 ATCATGCAATAAATA-TAAT
1 ATCATGCAATAAATAGAAAT
*
17026190 ATCATGCCAA-AAATCAAACCAAGAT
1 ATCATG-CAATAAAT---A-GAA-AT
* *
17026215 ATCATGCAATGAAACATAAA-
1 ATCATGCAAT-AAATAGAAAT
*
17026235 ATCATGCCAA-AATCATACCAAAT
1 ATCATG-CAATAA--ATA-GAAAT
17026258 ATCCATGCAATAATATA-AGAAT
1 AT-CATGCAATAA-ATAGA-AAT
*
17026280 ATCAATGCAAT-AATATAAAT
1 ATC-ATGCAATAAATAGAAAT
*
17026300 ATCATACAAT
1 ATCATGCAAT
17026310 TATATAATGA
Statistics
Matches: 130, Mismatches: 10, Indels: 39
0.73 0.06 0.22
Matches are distributed among these distances:
19 21 0.16
20 51 0.39
21 10 0.08
22 18 0.14
23 9 0.07
24 10 0.08
25 8 0.06
26 3 0.02
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (20 bp):
ATCATGCAATAAATAGAAAT
Found at i:17026221 original size:44 final size:42
Alignment explanation
Indices: 17026167--17026275 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 42
17026157 TAATAATTAG
*
17026167 AAATATCATGCAATAAATATAATATCATGCCAAAAATCAAACC
1 AAATATCATGCAATAAATATAAAATCATGCC-AAAATCAAACC
* *
17026210 AAGATATCATGCAATGAAACATAAAATCATGCCAAAATCATACC
1 AA-ATATCATGCAAT-AAATATAAAATCATGCCAAAATCAAACC
17026254 AAATATCCATGCAAT-AATATAA
1 AAATAT-CATGCAATAAATATAA
17026276 GAATATCAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
42 6 0.10
43 6 0.10
44 32 0.54
45 15 0.25
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.23
Consensus pattern (42 bp):
AAATATCATGCAATAAATATAAAATCATGCCAAAATCAAACC
Found at i:17026281 original size:22 final size:22
Alignment explanation
Indices: 17026255--17026297 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17026245 AATCATACCA
*
17026255 AATATCCATGCAATAATATAAG
1 AATATCAATGCAATAATATAAG
17026277 AATATCAATGCAATAATATAA
1 AATATCAATGCAATAATATAA
17026298 ATATCATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (22 bp):
AATATCAATGCAATAATATAAG
Found at i:17026366 original size:18 final size:17
Alignment explanation
Indices: 17026336--17026480 Score: 98
Period size: 18 Copynumber: 7.9 Consensus size: 17
17026326 CCAGACACTA
17026336 AATAATCATGCAAATAT
1 AATAATCATGCAAATAT
*
17026353 AATGAATTATGCAAATAAT
1 AAT-AATCATGCAAAT-AT
17026372 AA-ATATCATG-AAA-AT
1 AATA-ATCATGCAAATAT
*
17026387 AATAAATAATGCAAAAATAT
1 AAT-AATCATGC--AAATAT
*
17026407 AAAATATCATGCAATTATAT
1 AATA-ATCATGCAA--ATAT
* *
17026427 AATGAGTCATGCAAACACT
1 AAT-AATCATGCAAATA-T
*
17026446 AAATAATCATGAAAATAT
1 -AATAATCATGCAAATAT
17026464 AATGAATCATGCAAATA
1 AAT-AATCATGCAAATA
17026481 ATACATCATA
Statistics
Matches: 100, Mismatches: 12, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
15 4 0.04
16 5 0.05
17 11 0.11
18 33 0.33
19 19 0.19
20 27 0.27
21 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (17 bp):
AATAATCATGCAAATAT
Found at i:17026408 original size:111 final size:111
Alignment explanation
Indices: 17026283--17026483 Score: 341
Period size: 111 Copynumber: 1.8 Consensus size: 111
17026273 TAAGAATATC
* * *
17026283 AATGCAATAATAT-AAATATCATACAATTATATAATGAGTCATGCCAGACACTAAATAATCATGC
1 AATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATG-CAAACACTAAATAATCATGA
*
17026347 AAATATAATGAATTATGCAAATAATAAATATCATGAAAATAATAAAT
65 AAATATAATGAATCATGCAAATAATAAATATCATGAAAATAATAAAT
*
17026394 AATGCAAAAATATAAAATATCATGCAATTATATAATGAGTCATGCAAACACTAAATAATCATGAA
1 AATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATGCAAACACTAAATAATCATGAA
17026459 AATATAATGAATCATGCAAATAATA
66 AATATAATGAATCATGCAAATAATA
17026484 CATCATATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
111 55 0.65
112 29 0.35
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (111 bp):
AATGCAAAAATATAAAATATCATACAATTATATAATGAGTCATGCAAACACTAAATAATCATGAA
AATATAATGAATCATGCAAATAATAAATATCATGAAAATAATAAAT
Found at i:17026418 original size:20 final size:20
Alignment explanation
Indices: 17026147--17026420 Score: 80
Period size: 20 Copynumber: 13.7 Consensus size: 20
17026137 TAATAATTAG
* * * *
17026147 AAATATCATGTAATAATTAG
1 AAATATCATGCAAAAATAAT
17026167 AAATATCATGCAATAAAT-AT
1 AAATATCATGCAA-AAATAAT
*
17026187 -AATATCATGCCAAAAATCAAACC
1 AAATATCATG-CAAAAAT--AA-T
*
17026210 AAGATATCATGCAATGAAA-CAT
1 AA-ATATCATGCAA--AAATAAT
**
17026232 AAA-ATCATGCCAAAATCATACC
1 AAATATCATG-CAAAA--ATAAT
17026254 AAATATCCATGCAATAATATAA-
1 AAATAT-CATGCAA-AA-ATAAT
* *
17026276 GAATATCAATGCAATAAT-AT
1 AAATATC-ATGCAAAAATAAT
* **
17026296 AAATATCATACAATTAT-AT
1 AAATATCATGCAAAAATAAT
* * * *
17026315 -AATGAGTCATGC-CAGACACT
1 AAAT-A-TCATGCAAAAATAAT
*
17026335 AAATAATCATGCAAATATAAT
1 AAAT-ATCATGCAAAAATAAT
*
17026356 GAAT-T-ATGC--AAATAAT
1 AAATATCATGCAAAAATAAT
17026372 AAATATCATG--AAAATAAT
1 AAATATCATGCAAAAATAAT
17026390 AAATA--ATGCAAAAAT-AT
1 AAATATCATGCAAAAATAAT
17026407 AAAATATCATGCAA
1 -AAATATCATGCAA
17026421 TTATATAATG
Statistics
Matches: 192, Mismatches: 30, Indels: 64
0.67 0.10 0.22
Matches are distributed among these distances:
16 12 0.06
17 3 0.02
18 32 0.17
19 29 0.15
20 48 0.25
21 21 0.11
22 17 0.09
23 9 0.05
24 10 0.05
25 8 0.04
26 3 0.02
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.26
Consensus pattern (20 bp):
AAATATCATGCAAAAATAAT
Found at i:17026474 original size:37 final size:37
Alignment explanation
Indices: 17026311--17026483 Score: 156
Period size: 37 Copynumber: 4.6 Consensus size: 37
17026301 TCATACAATT
* * * *
17026311 ATATAATGAGTCATGCCAGACACTAAATAATCATGCAA
1 ATATAATGAATCATG-CAAACAATAAATAATCATGAAA
* *
17026349 ATATAATGAATTATGCAAATAATAAAT-ATCATG-AA
1 ATATAATGAATCATGCAAACAATAAATAATCATGAAA
* * * *
17026384 A-ATAATAAATAATGCAAA-AATATAAAATATCATGCAATT
1 ATATAATGAATCATGCAAACAATA-AATA-ATCATG-AA-A
* *
17026423 ATATAATGAGTCATGCAAACACTAAATAATCATGAAA
1 ATATAATGAATCATGCAAACAATAAATAATCATGAAA
*
17026460 ATATAATGAATCATGCAAATAATA
1 ATATAATGAATCATGCAAACAATA
17026484 CATCATATTA
Statistics
Matches: 109, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
33 4 0.04
34 17 0.16
35 3 0.03
36 12 0.11
37 30 0.28
38 16 0.15
39 7 0.06
40 17 0.16
41 3 0.03
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (37 bp):
ATATAATGAATCATGCAAACAATAAATAATCATGAAA
Found at i:17026742 original size:2 final size:2
Alignment explanation
Indices: 17026735--17026768 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
17026725 AAAGGGAACA
*
17026735 AT AT AT AT AT AT AT AT GT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17026769 CCTACTAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17027477 original size:14 final size:13
Alignment explanation
Indices: 17027452--17027488 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
17027442 GAAACTTTTG
17027452 ACTAAAAAATAAA
1 ACTAAAAAATAAA
17027465 ACTAAAAATATAAA
1 ACTAAAAA-ATAAA
*
17027479 TCTAAAAAAT
1 ACTAAAAAAT
17027489 TAAATACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (13 bp):
ACTAAAAAATAAA
Found at i:17027492 original size:14 final size:14
Alignment explanation
Indices: 17027453--17027493 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
17027443 AAACTTTTGA
*
17027453 CTAAAAAA-TAAAA
1 CTAAAAAATTAAAT
17027466 CT-AAAAATATAAAT
1 CTAAAAAAT-TAAAT
17027480 CTAAAAAATTAAAT
1 CTAAAAAATTAAAT
17027494 ACAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 5 0.21
13 2 0.08
14 11 0.46
15 6 0.25
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAAAAATTAAAT
Found at i:17031093 original size:2 final size:2
Alignment explanation
Indices: 17031086--17031112 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17031076 TTTAGATCTT
17031086 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17031113 CATAACAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17034076 original size:2 final size:2
Alignment explanation
Indices: 17034069--17034106 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17034059 TGTGTCCTAC
17034069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17034107 TGAGTTGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17034682 original size:3 final size:3
Alignment explanation
Indices: 17034676--17034723 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17034666 TGTTTTTAGT
17034676 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17034724 GTAAGTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17037512 original size:21 final size:22
Alignment explanation
Indices: 17037486--17037529 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
17037476 TGCACAAAGA
*
17037486 ATAAAAATTTAA-AAATAAATT
1 ATAAAAATGTAACAAATAAATT
17037507 ATAAAAATGTAACAAATAAATT
1 ATAAAAATGTAACAAATAAATT
17037529 A
1 A
17037530 GGAGTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAAATGTAACAAATAAATT
Found at i:17039952 original size:21 final size:20
Alignment explanation
Indices: 17039908--17040139 Score: 110
Period size: 20 Copynumber: 10.8 Consensus size: 20
17039898 CAAATTGACG
17039908 TGCAATTAAATATATAATCA
1 TGCAATTAAATATATAATCA
*
17039928 TGCAATTATCAATATA-AAACA
1 TGCAATTA--AATATATAATCA
*
17039949 TGCAATTAAATATATTATCA
1 TGCAATTAAATATATAATCA
*
17039969 TGCAAAT-AATAATATAAATCA
1 TGCAATTAAAT-ATAT-AATCA
* * *
17039990 TGCAAATAAACATATAATTAAA
1 TGCAATTAAATATATAA-T-CA
* * * *
17040012 TAC-ATAATAATGCAAATAAACA
1 TGCAATTA-AAT--ATATAATCA
* *
17040034 TGTAATTAAATATATGATCA
1 TGCAATTAAATATATAATCA
*
17040054 TGCAAATAAATATATTAATAATCA
1 TGC-AATTAA-ATA-T-ATAATCA
*
17040078 AGCAATTAAATGTATTAATAATCA
1 TGCAATTAAA--TA-T-ATAATCA
*
17040102 TGCAATTGAATTAAATATAATCA
1 TGCAATT-AA--ATATATAATCA
* *
17040125 TACAAATAAATATAT
1 TGCAATTAAATATAT
17040140 TAATAATCAT
Statistics
Matches: 161, Mismatches: 30, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
19 9 0.06
20 36 0.22
21 35 0.22
22 24 0.15
23 21 0.13
24 32 0.20
25 3 0.02
27 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (20 bp):
TGCAATTAAATATATAATCA
Found at i:17039953 original size:41 final size:41
Alignment explanation
Indices: 17039908--17040106 Score: 154
Period size: 41 Copynumber: 4.6 Consensus size: 41
17039898 CAAATTGACG
*
17039908 TGCAATTAAATATATAATCATGC-AATTATCAATATAAAACA
1 TGCAATTAAATATATAATCATGCAAATAAT-AATATAAAACA
* *
17039949 TGCAATTAAATATATTATCATGCAAATAATAATATAAATCA
1 TGCAATTAAATATATAATCATGCAAATAATAATATAAAACA
* * * *
17039990 TGCAAATAAACATATAATTAAATACATAATAATGCAA-AT-AAACA
1 TGCAATTAAATATATAA-T-CATGCA-AATAAT--AATATAAAACA
* *
17040034 TGTAATTAAATATATGATCATGCAAATAA-ATATATTAATAATCA
1 TGCAATTAAATATATAATCATGCAAATAATA-ATA-TAA-AA-CA
*
17040078 AGCAATTAAATGTATTAATAATCATGCAA
1 TGCAATTAAA--TA-T-ATAATCATGCAA
17040107 TTGAATTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 1 0.01
41 52 0.42
42 11 0.09
43 7 0.06
44 33 0.27
45 2 0.02
46 4 0.03
47 1 0.01
48 11 0.09
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (41 bp):
TGCAATTAAATATATAATCATGCAAATAATAATATAAAACA
Found at i:17040025 original size:32 final size:32
Alignment explanation
Indices: 17039989--17040068 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
17039979 AATATAAATC
17039989 ATGCAAATAAACATATAATTAAATACATAATA
1 ATGCAAATAAACATATAATTAAATACATAATA
* * * *
17040021 ATGCAAATAAACATGTAATTAAATATATGATC
1 ATGCAAATAAACATATAATTAAATACATAATA
*
17040053 ATGCAAATAAATATAT
1 ATGCAAATAAACATAT
17040069 TAATAATCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (32 bp):
ATGCAAATAAACATATAATTAAATACATAATA
Found at i:17040044 original size:16 final size:16
Alignment explanation
Indices: 17039993--17040045 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
17039983 TAAATCATGC
17039993 AAATAAACATATAATT
1 AAATAAACATATAATT
*
17040009 AAAT--ACATAATAATGC
1 AAATAAACAT-ATAAT-T
*
17040025 AAATAAACATGTAATT
1 AAATAAACATATAATT
17040041 AAATA
1 AAATA
17040046 TATGATCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 13 0.43
17 4 0.13
18 4 0.13
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (16 bp):
AAATAAACATATAATT
Found at i:17040077 original size:24 final size:24
Alignment explanation
Indices: 17040050--17040207 Score: 136
Period size: 24 Copynumber: 6.9 Consensus size: 24
17040040 TAAATATATG
17040050 ATCATGCAAATAAATATATTAATA
1 ATCATGCAAATAAATATATTAATA
* * *
17040074 ATCAAGCAATTAAATGTATTAATA
1 ATCATGCAAATAAATATATTAATA
* * *
17040098 ATCATGCAATTGAAT-TA-AATATA
1 ATCATGCAAATAAATATATTA-ATA
*
17040121 ATCATACAAATAAATATATTAATA
1 ATCATGCAAATAAATATATTAATA
17040145 ATCATGC----AAATATATTAATA
1 ATCATGCAAATAAATATATTAATA
* * *
17040165 A--AT-CACATAAATAAATATATTA
1 ATCATGCAAATAAATATAT-TAATA
*
17040187 ATCATACAAATAAATATATTA
1 ATCATGCAAATAAATATATTA
17040208 GGCAAATAAG
Statistics
Matches: 108, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
17 1 0.01
18 2 0.02
20 14 0.13
21 7 0.06
22 6 0.06
23 17 0.16
24 49 0.45
25 12 0.11
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
ATCATGCAAATAAATATATTAATA
Found at i:17040135 original size:47 final size:45
Alignment explanation
Indices: 17040050--17040188 Score: 147
Period size: 47 Copynumber: 3.0 Consensus size: 45
17040040 TAAATATATG
* * * *
17040050 ATCATGCAAATAAATATATTAATAATCAAGCAATTAAATGTATTAATA
1 ATCATGCAAATATAT-TAAT-ATAATCAA-CAAATAAATATATTAATA
*
17040098 ATCATGCAATTGA-ATTAAATATAATCATACAAATAAATATATTAATA
1 ATCATGCAAAT-ATATT-AATATAATCA-ACAAATAAATATATTAATA
*
17040145 ATCATGCAAATATATTAATA-AATCACATAAATAAATATATTAAT
1 ATCATGCAAATATATTAATATAATCA-ACAAATAAATATATTAAT
17040189 CATACAAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
45 22 0.28
46 5 0.06
47 37 0.46
48 15 0.19
49 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (45 bp):
ATCATGCAAATATATTAATATAATCAACAAATAAATATATTAATA
Found at i:17040189 original size:21 final size:21
Alignment explanation
Indices: 17040119--17040207 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
17040109 GAATTAAATA
*
17040119 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
* *
17040140 TAATAATCATGCAAATATAT-TAAT
1 TAATCA-CA--CAAATAAATAT-AT
* *
17040164 AAATCACATAAATAAATATAT
1 TAATCACACAAATAAATATAT
*
17040185 TAATCATACAAATAAATATAT
1 TAATCACACAAATAAATATAT
17040206 TA
1 TA
17040208 GGCAAATAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
21 34 0.64
22 2 0.04
23 3 0.06
24 14 0.26
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (21 bp):
TAATCACACAAATAAATATAT
Found at i:17040883 original size:13 final size:13
Alignment explanation
Indices: 17040865--17040894 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
17040855 CTTTTGACTA
17040865 AAAAAATTAAAAT
1 AAAAAATTAAAAT
17040878 AAAAAATTAAAAT
1 AAAAAATTAAAAT
17040891 AAAA
1 AAAA
17040895 TAAAATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:17041290 original size:43 final size:42
Alignment explanation
Indices: 17041150--17041336 Score: 209
Period size: 42 Copynumber: 4.4 Consensus size: 42
17041140 TTTTTTTTTT
* *
17041150 AAATGCTTCCCT-ACAATTGAGGCTTTGAAACTTTTGGAAATA
1 AAATGC-TCCCTCACAACTGAGGCTTTGAAACTTTTGAAAATA
* * * *
17041192 AAATACTCCATCACAACTGCGG-TTTCGAAACTTTTAAAAATA
1 AAATGCTCCCTCACAACTGAGGCTTT-GAAACTTTTGAAAATA
* *
17041234 AAATGCTCACTCACAAGTGAGGCTTT-AGAACTTTTGAAAAATA
1 AAATGCTCCCTCACAACTGAGGCTTTGA-AACTTTTG-AAAATA
* * *
17041277 AAATGTTCCCTCACAACTGAGGCTGTGAGACTTTTGAAAATA
1 AAATGCTCCCTCACAACTGAGGCTTTGAAACTTTTGAAAATA
*
17041319 AAATGCTCTCTCACAACT
1 AAATGCTCCCTCACAACT
17041337 AATCCCCTAC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 8 0.07
42 73 0.61
43 38 0.32
44 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (42 bp):
AAATGCTCCCTCACAACTGAGGCTTTGAAACTTTTGAAAATA
Found at i:17041310 original size:85 final size:84
Alignment explanation
Indices: 17041162--17041334 Score: 215
Period size: 85 Copynumber: 2.0 Consensus size: 84
17041152 ATGCTTCCCT
* * * *
17041162 ACAATTGAGGCTTTGAAACTTTTGGAAATAAAATACTCCATCACAACTGCGGTTTCGAAACTTTT
1 ACAAGTGAGGCTTTGAAACTTTTGAAAATAAAATACTCCATCACAACTGAGGTGTCGAAACTTTT
17041227 AAAAATAAAATGCTCACTC
66 AAAAATAAAATGCTCACTC
** * *
17041246 ACAAGTGAGGCTTT-AGAACTTTTGAAAAATAAAATGTTCCCTCACAACTGAGGCTGT-GAGACT
1 ACAAGTGAGGCTTTGA-AACTTTTG-AAAATAAAATACTCCATCACAACTGAGG-TGTCGAAACT
* *
17041309 TTTGAAAATAAAATGCTCTCTC
63 TTTAAAAATAAAATGCTCACTC
17041331 ACAA
1 ACAA
17041335 CTAATCCCCT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.01
84 21 0.28
85 52 0.68
86 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (84 bp):
ACAAGTGAGGCTTTGAAACTTTTGAAAATAAAATACTCCATCACAACTGAGGTGTCGAAACTTTT
AAAAATAAAATGCTCACTC
Found at i:17041375 original size:56 final size:57
Alignment explanation
Indices: 17041284--17041392 Score: 168
Period size: 56 Copynumber: 1.9 Consensus size: 57
17041274 ATAAAATGTT
* *
17041284 CCCTCACAACTGAGGCTGTGAGACTTTTGAAAATAAAATGCTCTCTCACAACTAATC
1 CCCTCACAACTGAGGCTGTGAAACTTTTGAAAATAAAATGCTCTCCCACAACTAATC
*
17041341 CCCT-ACAACTGAGGCTTTGAAAC-TTTGAAAAATAAAATGCTCTCCCACAACT
1 CCCTCACAACTGAGGCTGTGAAACTTTTG-AAAATAAAATGCTCTCCCACAACT
17041393 GAAGCTTTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 4 0.08
56 40 0.83
57 4 0.08
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.26
Consensus pattern (57 bp):
CCCTCACAACTGAGGCTGTGAAACTTTTGAAAATAAAATGCTCTCCCACAACTAATC
Found at i:17044886 original size:17 final size:17
Alignment explanation
Indices: 17044860--17044895 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17044850 AAAAATATGG
*
17044860 ATGAGTAACTTTTCATT
1 ATGAGCAACTTTTCATT
*
17044877 ATGAGCAACTTTTTATT
1 ATGAGCAACTTTTCATT
17044894 AT
1 AT
17044896 AAATGTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
ATGAGCAACTTTTCATT
Found at i:17047629 original size:14 final size:15
Alignment explanation
Indices: 17047601--17047630 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17047591 ATGGATGTAA
17047601 TTAAGATTCTTTTTG
1 TTAAGATTCTTTTTG
17047616 TTAAGATT-TTTTTG
1 TTAAGATTCTTTTTG
17047630 T
1 T
17047631 AGCAATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (15 bp):
TTAAGATTCTTTTTG
Found at i:17048807 original size:25 final size:26
Alignment explanation
Indices: 17048774--17048852 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 26
17048764 CAATTATATT
17048774 ATAA-ATCATGCCAAATATCATG-TA
1 ATAATATCATGCCAAATATCATGCTA
* *
17048798 ATAATATCATGCC-TAGATCATGCTA
1 ATAATATCATGCCAAATATCATGCTA
* *
17048823 A-AATATTCATGCAAGAATATCATGCAA
1 ATAATA-TCATGCCA-AATATCATGCTA
17048850 ATA
1 ATA
17048853 TATTAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 15 0.35
25 17 0.40
27 10 0.23
28 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.29
Consensus pattern (26 bp):
ATAATATCATGCCAAATATCATGCTA
Found at i:17048847 original size:13 final size:12
Alignment explanation
Indices: 17048778--17048855 Score: 59
Period size: 13 Copynumber: 6.2 Consensus size: 12
17048768 TATATTATAA
*
17048778 ATCATGCCAAAT
1 ATCATGCAAAAT
*
17048790 ATCATGTAATAAT
1 ATCATGCAA-AAT
** *
17048803 ATCATGC-CTAG
1 ATCATGCAAAAT
17048814 ATCATGCTAAAAT
1 ATCATGC-AAAAT
17048827 ATTCATGCAAGAAT
1 A-TCATGCAA-AAT
17048841 ATCATGCAAATAT
1 ATCATGCAAA-AT
17048854 AT
1 AT
17048856 TAATTATAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
11 8 0.16
12 8 0.16
13 25 0.49
14 10 0.20
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (12 bp):
ATCATGCAAAAT
Found at i:17049042 original size:20 final size:20
Alignment explanation
Indices: 17049017--17049056 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17049007 GTAATTATGA
* *
17049017 ATAATCTTGCAATTACATAT
1 ATAATCATGCAATTAAATAT
17049037 ATAATCATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
17049057 CATTCAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:17049315 original size:32 final size:32
Alignment explanation
Indices: 17049272--17049370 Score: 162
Period size: 32 Copynumber: 3.1 Consensus size: 32
17049262 TAACAATGTA
* *
17049272 AAACATGCAATTAAATATATGATTATGCAAAT
1 AAACATGCAATTAAATATATAATAATGCAAAT
*
17049304 AAACATACAATTAAATATATAATAATGCAAAT
1 AAACATGCAATTAAATATATAATAATGCAAAT
*
17049336 AAACATGCAATTAAATATATAATCATGCAAAT
1 AAACATGCAATTAAATATATAATAATGCAAAT
17049368 AAA
1 AAA
17049371 TATATTAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (32 bp):
AAACATGCAATTAAATATATAATAATGCAAAT
Found at i:17049357 original size:20 final size:20
Alignment explanation
Indices: 17049334--17049375 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17049324 AATAATGCAA
*
17049334 ATAAACATGCAATTAAATAT
1 ATAAACATGCAAATAAATAT
*
17049354 ATAATCATGCAAATAAATAT
1 ATAAACATGCAAATAAATAT
17049374 AT
1 AT
17049376 TAATAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAACATGCAAATAAATAT
Found at i:17049381 original size:24 final size:24
Alignment explanation
Indices: 17049354--17049494 Score: 141
Period size: 24 Copynumber: 6.0 Consensus size: 24
17049344 AATTAAATAT
17049354 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* * *
17049378 ATAATCAAGTAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* *
17049402 ATAATCATGC-AATCGAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
*
17049424 TATAATCATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
**
17049449 ATAAATCACACAAATAAATATA-T-
1 AT-AATCATGCAAATAAATATATTA
17049472 -TAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
17049495 GGCAAATAAG
Statistics
Matches: 95, Mismatches: 14, Indels: 17
0.75 0.11 0.13
Matches are distributed among these distances:
21 17 0.18
22 3 0.03
23 16 0.17
24 40 0.42
25 19 0.20
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:17049476 original size:21 final size:21
Alignment explanation
Indices: 17049426--17049494 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
17049416 GAATTAAATA
17049426 TAATCATACAAATAAATATATT
1 TAATCATACAAATAAATATA-T
*
17049448 AATAAATCACACAAATAAATATAT
1 --T-AATCATACAAATAAATATAT
*
17049472 TAATCATGCAAATAAATATAT
1 TAATCATACAAATAAATATAT
17049493 TA
1 TA
17049495 GGCAAATAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 20 0.49
22 1 0.02
24 2 0.05
25 18 0.44
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (21 bp):
TAATCATACAAATAAATATAT
Found at i:17049517 original size:16 final size:17
Alignment explanation
Indices: 17049474--17049537 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
17049464 AAATATATTA
17049474 ATCATGCAAATAAATAT
1 ATCATGCAAATAAATAT
* * *
17049491 ATTAGGCAAATAAGT-T
1 ATCATGCAAATAAATAT
17049507 ATCATGCAAATATAATATT
1 ATCATGCAAATA-AATA-T
17049526 AGTCATGCAAAT
1 A-TCATGCAAAT
17049538 TCATGTAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 11 0.30
17 14 0.38
19 2 0.05
20 10 0.27
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
ATCATGCAAATAAATAT
Found at i:17061970 original size:11 final size:11
Alignment explanation
Indices: 17061946--17061975 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
17061936 GCTTTTACCC
17061946 AAAAAAAACAA
1 AAAAAAAACAA
17061957 AAAAAGAAACAA
1 AAAAA-AAACAA
17061969 AAAAAAA
1 AAAAAAA
17061976 GAAAACTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:17062596 original size:19 final size:19
Alignment explanation
Indices: 17062574--17062725 Score: 77
Period size: 18 Copynumber: 8.2 Consensus size: 19
17062564 TGAATATTTT
17062574 AAAAATTTATTAAAAAATA
1 AAAAATTTATTAAAAAATA
* * *
17062593 AAAAATATTTTTAGAAATTA
1 AAAAAT-TTATTAAAAAATA
*
17062613 TAAAAA-TTA-TAAAAATTA
1 -AAAAATTTATTAAAAAATA
* *
17062631 AAAAATTT-TTAAAAATTT
1 AAAAATTTATTAAAAAATA
* *
17062649 AAAATTTTAAT-AAAAATA
1 AAAAATTTATTAAAAAATA
* * *
17062667 TGAAAATATATTAAAAATTCTA
1 -AAAAATTTATTAAAAA--ATA
*
17062689 AAAAA-TT-TT-AAAAATG
1 AAAAATTTATTAAAAAATA
* *
17062705 AAAACTTTAAT-AAAAATA
1 AAAAATTTATTAAAAAATA
17062723 AAA
1 AAA
17062726 TTTTCAAAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
16 5 0.05
17 7 0.07
18 44 0.44
19 18 0.18
20 15 0.15
21 9 0.09
22 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTTATTAAAAAATA
Found at i:17062634 original size:8 final size:9
Alignment explanation
Indices: 17062607--17062703 Score: 74
Period size: 9 Copynumber: 10.4 Consensus size: 9
17062597 ATATTTTTAG
17062607 AAATTATAA
1 AAATTATAA
17062616 AAATTATAA
1 AAATTATAA
17062625 AAATTA-AA
1 AAATTATAA
*
17062633 AAATTTTTAA
1 AAA-TTATAA
17062643 AAATT-TAA
1 AAATTATAA
*
17062651 AATTTTAATAA
1 AA-ATT-ATAA
*
17062662 AAA-TATGA
1 AAATTATAA
17062670 AAATATATTAA
1 AAAT-TA-TAA
*
17062681 AAATTCTAAA
1 AAATTAT-AA
*
17062691 AAATTTTAA
1 AAATTATAA
17062700 AAAT
1 AAAT
17062704 GAAAACTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
8 16 0.22
9 29 0.40
10 16 0.22
11 11 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Done.