Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, 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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 51
Found at i:6119640 original size:19 final size:19
Alignment explanation
Indices: 6119616--6119652 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6119606 TGTAAGAGAA
6119616 AATGTGTTTGGAGTGTTCG
1 AATGTGTTTGGAGTGTTCG
6119635 AATGTGTTTGGAGTGTTC
1 AATGTGTTTGGAGTGTTC
6119653 AAATTCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.43
Consensus pattern (19 bp):
AATGTGTTTGGAGTGTTCG
Found at i:6125313 original size:36 final size:35
Alignment explanation
Indices: 6125236--6125333 Score: 133
Period size: 36 Copynumber: 2.8 Consensus size: 35
6125226 AACACAATCA
*
6125236 TCAATTACATTCTAAACCCCAAATTCTAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCAAAAATAAT
* *
6125271 TTAATTACATTCTAAACCTCAAATTCCAAAAATAAT
1 TCAATTACATTCTAAACCCCAAATT-CAAAAATAAT
* **
6125307 TCAATTACATGCCCAACCCCAAATTCA
1 TCAATTACATTCTAAACCCCAAATTCA
6125334 TAATATATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 25 0.46
36 29 0.54
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCAAAAATAAT
Found at i:6125381 original size:19 final size:21
Alignment explanation
Indices: 6125357--6125395 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6125347 AAATCTACCA
6125357 TAACAAAC-TAAA-CTCAAAG
1 TAACAAACTTAAACCTCAAAG
*
6125376 TAACAACCTTAAACCTCAAA
1 TAACAAACTTAAACCTCAAA
6125396 ATATAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.18
Consensus pattern (21 bp):
TAACAAACTTAAACCTCAAAG
Found at i:6126211 original size:25 final size:26
Alignment explanation
Indices: 6126182--6126243 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
6126172 AATCTTCTGA
6126182 TATATTTTATTTTA-GTCATTTACTT
1 TATATTTTATTTTATGTCATTTACTT
*
6126207 TATATTTTAATTTATGTCATTTACTT
1 TATATTTTATTTTATGTCATTTACTT
*
6126233 TTTA-TTTATTT
1 TATATTTTATTT
6126244 AATTTCAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.66
Consensus pattern (26 bp):
TATATTTTATTTTATGTCATTTACTT
Found at i:6126226 original size:26 final size:25
Alignment explanation
Indices: 6126182--6126239 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
6126172 AATCTTCTGA
*
6126182 TATATTTTATTTTAGTCATTTACTT
1 TATATTTTAATTTAGTCATTTACTT
6126207 TATATTTTAATTTATGTCATTTACTT
1 TATATTTTAATTTA-GTCATTTACTT
*
6126233 TTTATTT
1 TATATTT
6126240 ATTTAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (25 bp):
TATATTTTAATTTAGTCATTTACTT
Found at i:6127943 original size:19 final size:19
Alignment explanation
Indices: 6127889--6127943 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
6127879 AACCAATAAT
6127889 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
6127908 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
6127927 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
6127944 GAAGACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:6128049 original size:22 final size:21
Alignment explanation
Indices: 6128024--6128088 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
6128014 AAGAGCAAAG
6128024 AAATTAAAAATATAATGAAAAT
1 AAATTAAAAATATAAT-AAAAT
*
6128046 AAA-TAAATAGTATAAATAAAAT
1 AAATTAAA-AATAT-AATAAAAT
*
6128068 -AATAAAAAAATATATATAAAA
1 AAAT-TAAAAATATA-ATAAAA
6128089 ATATAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
21 7 0.20
22 22 0.63
23 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (21 bp):
AAATTAAAAATATAATAAAAT
Found at i:6128078 original size:25 final size:23
Alignment explanation
Indices: 6128043--6128097 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
6128033 ATATAATGAA
*
6128043 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATAAA-AAAAT
*
6128068 AATAAAAAAATATATATAAAAAT
1 AATAAAAAAATATATAAAAAAAT
6128091 -ATAAAAA
1 AATAAAAA
6128098 TGTATGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 5 0.18
25 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAAAAAATATATAAAAAAAT
Found at i:6128094 original size:22 final size:22
Alignment explanation
Indices: 6128029--6128097 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
6128019 CAAAGAAATT
*
6128029 AAAAATATA-AT-GAAA-ATAA
1 AAAAATATATATAAAAATATAA
* *
6128048 ATAAATAGTATAAATAAAATAATAA
1 AAAAATA-TATATA-AAAAT-ATAA
6128073 AAAAATATATATAAAAATATAA
1 AAAAATATATATAAAAATATAA
6128095 AAA
1 AAA
6128098 TGTATGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 1 0.03
22 7 0.18
23 8 0.21
24 5 0.13
25 10 0.26
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAATATATATAAAAATATAA
Found at i:6128107 original size:22 final size:23
Alignment explanation
Indices: 6128043--6128144 Score: 73
Period size: 22 Copynumber: 4.4 Consensus size: 23
6128033 ATATAATGAA
* *
6128043 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATATA-AAAAT
6128068 AATAAAAAAATATATATAAAAAT
1 AATAAAAAAATATATATAAAAAT
** * *
6128091 -ATAAAAATGTATGTAT-AATAT
1 AATAAAAAAATATATATAAAAAT
* * * *
6128112 AATAAAATACTAAATAGTAATAAT
1 AATAAAAAAATATATA-TAAAAAT
6128136 AATAAAAAA
1 AATAAAAAA
6128145 TAAAAAATAA
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
21 4 0.07
22 23 0.38
23 6 0.10
24 16 0.27
25 11 0.18
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
AATAAAAAAATATATATAAAAAT
Found at i:6128114 original size:44 final size:44
Alignment explanation
Indices: 6128029--6128118 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
6128019 CAAAGAAATT
*
6128029 AAAAATATAATGAAAATAAATAAATAGTATAAATAAAATAATAA
1 AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAA
** *
6128073 AAAAATATATATAAAAATATAA-AAAT-GTATGTATAATATAATAA
1 AAAAATATA-ATAAAAATA-AATAAATAGTATAAATAAAATAATAA
6128117 AA
1 AA
6128119 TACTAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
44 26 0.65
45 12 0.30
46 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (44 bp):
AAAAATATAATAAAAATAAATAAATAGTATAAATAAAATAATAA
Found at i:6128378 original size:23 final size:24
Alignment explanation
Indices: 6128344--6128408 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
6128334 AAGCAAAGAA
6128344 AAATGAAA-AAAATTATAA-TAAAT
1 AAAT-AAATAAAATTATAATTAAAT
6128367 AAATAAATAAAA-TATAATTAAAT
1 AAATAAATAAAATTATAATTAAAT
* * *
6128390 ATATACATATAAATAATAA
1 AAATAAATA-AAATTATAA
6128409 GGGTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 8 0.23
23 20 0.57
24 3 0.09
25 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATTATAATTAAAT
Found at i:6128383 original size:19 final size:18
Alignment explanation
Indices: 6128361--6128405 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6128351 AAAAATTATA
6128361 ATAAATAAATAAATAAAAT
1 ATAAATAAATAAAT-AAAT
* * *
6128380 ATAATTAAATATATACAT
1 ATAAATAAATAAATAAAT
6128398 ATAAATAA
1 ATAAATAA
6128406 TAAGGGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:6128892 original size:37 final size:37
Alignment explanation
Indices: 6128799--6128896 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
6128789 ATGCTTGTGG
** * * * *
6128799 ATCCTATCATTAGGAGTTTAAATAATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
*
6128836 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
6128873 ATCCTATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTGAATC
6128897 CTAGTAGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
Found at i:6129835 original size:106 final size:106
Alignment explanation
Indices: 6129650--6130353 Score: 1111
Period size: 106 Copynumber: 6.6 Consensus size: 106
6129640 AGCATTGTTC
* * * * *
6129650 CGAGTCCAATATCCTCCATCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
6129715 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTCGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
6129756 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
6129821 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** * *
6129862 CGAGTCCAATATCCTTCACTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
6129927 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
6129968 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
**
6130033 ACCAGCGGTCCCTTCGTTATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
6130074 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
6130139 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
6130180 GGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
6130245 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
6130286 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
6130351 ACC
66 ACC
6130354 GTGAAGTTGA
Statistics
Matches: 557, Mismatches: 41, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 557 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:6130029 original size:212 final size:212
Alignment explanation
Indices: 6129650--6130911 Score: 1822
Period size: 212 Copynumber: 6.0 Consensus size: 212
6129640 AGCATTGTTC
* * *
6129650 CGAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGA
1 CGAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
* * * * * *
6129713 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTCGTGTTGTCTCGAGTCCAATATCCTTTGTTGT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
*
6129778 GAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGA
129 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGA
6129843 AGTTGAACTTGCGTTGTCT
194 AGTTGAACTTGCGTTGTCT
* *
6129862 CGAGTCCAATATCCTTCACTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
6129927 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * * **
6129992 AGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCGTTATGAAG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
6130057 TTGAACTTGCGTTGTCT
196 TTGAACTTGCGTTGTCT
* * * * *
6130074 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
6130139 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCGCTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
*
6130204 AGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
6130269 TTGAACTTGCGTTGTCT
196 TTGAACTTGCGTTGTCT
*
6130286 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC-
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
6130350 A--A----------C--CGTGAAGTTGAACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * * * *
6130401 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGATCCCTTCGTCTTGAAG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
*
6130466 TTGAACTTGTGTTGTCT
196 TTGAACTTGCGTTGTCT
* * *
6130483 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* ** *
6130548 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTAAGTCCAATATCCTTCGCTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * *
6130613 AGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCATCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
**
6130678 TTGAACAGGCGTTGTCT
196 TTGAACTTGCGTTGTCT
* * * * * *
6130695 GGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTTTTAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
6130760 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * * * *
6130825 AGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAACCAGTC-TTCCCTTCGTTGTGAA
131 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG-CGGTCCCTTCATCGTGAA
*
6130889 GTTGAACTTGTGTTGTCT
195 GTTGAACTTGCGTTGTCT
6130907 CGAGT
1 CGAGT
6130912 GGCACGATAT
Statistics
Matches: 938, Mismatches: 94, Indels: 36
0.88 0.09 0.03
Matches are distributed among these distances:
197 178 0.19
198 1 0.00
199 1 0.00
200 1 0.00
209 1 0.00
210 1 0.00
211 1 0.00
212 749 0.80
213 4 0.00
214 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG
TTGAACTTGCGTTGTCT
Found at i:6130228 original size:318 final size:317
Alignment explanation
Indices: 6129650--6130911 Score: 1856
Period size: 318 Copynumber: 4.0 Consensus size: 317
6129640 AGCATTGTTC
* *
6129650 CGAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGA
1 CGAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGA
* * * *
6129713 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTCGTGTTGTCTCGAGTCCAATATCCTTTGTTGT
64 CAACCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
* *
6129778 GAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGA
128 GAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* * *
6129843 AGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCACTATGAAGTTGAAATTGGCTCTGAAATT
193 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
6129908 GGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
258 GGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
6129968 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
6130033 ACCAGCGGTCCCTTCGTTATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
66 ACCAGC-GTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
* *
6130098 AGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* *
6130163 TTGAACTTGCGTTGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGG
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
6130228 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
260 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
6130286 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC-
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
6130350 A--A------C--C---GTGAAGTTGAACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGAA
66 ACCAGCGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * * * *
6130402 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGATCCCTTCGTCTTGAAGT
131 GTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
6130467 TGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
6130532 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
** * *
6130589 TAAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * ** *
6130654 ACCAGCAGTCCCTTCATCGTGAAGTTGAACAGGCGTTGTCTGGAGTCCAATATCATTCGTTGTGA
66 ACCAGC-GTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
*** *
6130719 AGTTGAAATTGGCTTTTAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * *
6130784 TTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGG
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
6130849 GAAGTTGTTTGTTGACAACCAGTC-TTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
260 GAAGTTGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
6130907 CGAGT
1 CGAGT
6130912 GGCACGATAT
Statistics
Matches: 855, Mismatches: 70, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
303 275 0.32
304 1 0.00
306 2 0.00
308 1 0.00
313 1 0.00
315 2 0.00
317 2 0.00
318 567 0.66
319 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (317 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:6130417 original size:91 final size:91
Alignment explanation
Indices: 6130262--6130550 Score: 362
Period size: 91 Copynumber: 3.0 Consensus size: 91
6130252 GTCCCTTCAT
* *
6130262 CGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
*
6130327 AAATTGGGAAGTTGTTTGTTGACAAC
66 AAATTGAGAAGTTGTTTGTTGACAAC
* * *
6130353 CGTGAAGTTGAACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
6130418 AAATTGAGAAGTTGTTTGTTGACAAC
66 AAATTGAGAAGTTGTTTGTTGACAAC
* *
6130444 CAGTGATCCCTTCGTCTTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
1 C-GTGA------------A--GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
6130509 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
51 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
6130550 C
1 C
6130551 AGCGGTCCCT
Statistics
Matches: 171, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
91 86 0.50
92 4 0.02
106 81 0.47
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (91 bp):
CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
AAATTGAGAAGTTGTTTGTTGACAAC
Found at i:6130540 original size:106 final size:106
Alignment explanation
Indices: 6130353--6130911 Score: 816
Period size: 106 Copynumber: 5.3 Consensus size: 106
6130343 TGTTGACAAC
* *
6130353 CGTGAAGTTGAACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
*
6130418 AAATTGAGAAGTTGTTTGTTGACAACCAGTGATCCCTTCGT
66 AAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGT
* * *
6130459 CTTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
* *
6130524 AAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGT
66 AAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGT
* ** * *
6130565 CATGAAGTTGAACTTGCGTTGTCTTAAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
* * * *
6130630 AAATTGGGAAATTGTTTATTGACAACCAGC-AGTCCCTTCAT
66 AAATTGAGAAGTTGTTTGTTGACAACCAGCGA-TCCCTTCGT
** * * *
6130671 CGTGAAGTTGAACAGGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTTTT
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
*
6130736 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGT
66 AAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGT
*
6130777 CGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
* * *
6130842 AATTTGGGAAGTTGTTTGTTGACAACCAGTC-TTCCCTTCGT
66 AAATTGAGAAGTTGTTTGTTGACAACCAG-CGATCCCTTCGT
* * *
6130883 TGTGAAGTTGAACTTGTGTTGTCTCGAGT
1 CGTGAAGTTGAACTTGCGTTGTCTGGAGT
6130912 GGCACGATAT
Statistics
Matches: 407, Mismatches: 43, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
106 406 1.00
107 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (106 bp):
CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
AAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGT
Found at i:6131682 original size:23 final size:22
Alignment explanation
Indices: 6131624--6131686 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
6131614 TTTTATTTTC
*
6131624 AAAGTTCTGAAAATA-TCAATA
1 AAAGTTTTGAAAATATTCAATA
* *
6131645 AAGAGTTTCGAAAAATATTTAATCA
1 AA-AGTTTTG-AAAATATTCAAT-A
6131670 AAAGTTTTGAAAATATT
1 AAAGTTTTGAAAATATT
6131687 GTCTCTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 14 0.41
24 10 0.29
25 3 0.09
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.33
Consensus pattern (22 bp):
AAAGTTTTGAAAATATTCAATA
Found at i:6132530 original size:9 final size:8
Alignment explanation
Indices: 6132508--6132572 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 8
6132498 TTTTTATCCC
6132508 TTTTTC-T
1 TTTTTCTT
6132515 TTTTTCTT
1 TTTTTCTT
6132523 TTTGTTCTT
1 TTT-TTCTT
*
6132532 TCTTTTTTT
1 T-TTTTCTT
6132541 TATTTTCTTCT
1 T-TTTTC-T-T
6132552 TTTTTGCTT
1 TTTTT-CTT
*
6132561 CTTTTCTT
1 TTTTTCTT
6132569 TTTT
1 TTTT
6132573 GTTTTTGCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.13
8 10 0.21
9 20 0.43
10 8 0.17
11 3 0.06
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:6132530 original size:16 final size:15
Alignment explanation
Indices: 6132508--6132572 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
6132498 TTTTTATCCC
6132508 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
6132523 TTTGTTCTTTCTTT-TT
1 TTT-TTCTTT-TTTCTT
* *
6132539 TTTAT-TTTCTTCTT
1 TTTTTCTTTTTTCTT
*
6132553 TTTTGCTTCTTTTCTT
1 TTTTTCTT-TTTTCTT
6132569 TTTT
1 TTTT
6132573 GTTTTTGCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 6 0.15
16 21 0.52
17 3 0.08
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:6132540 original size:21 final size:20
Alignment explanation
Indices: 6132510--6132553 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
6132500 TTTATCCCTT
*
6132510 TTTCTTTTTTCT-TTTTGTTC
1 TTTCTTTTTT-TATTTTCTTC
6132530 TTTCTTTTTTTTATTTTCTTC
1 TTTC-TTTTTTTATTTTCTTC
6132551 TTT
1 TTT
6132554 TTTGCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTTTATTTTCTTC
Found at i:6132573 original size:16 final size:16
Alignment explanation
Indices: 6132508--6132573 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 16
6132498 TTTTTATCCC
6132508 TTTTT-CTT-TTTTC-
1 TTTTTGCTTCTTTTCT
6132521 TTTTTG-TTC-TTTCT
1 TTTTTGCTTCTTTTCT
* *
6132535 TTTTT-TTATTTTCTTCT
1 TTTTTGCT-TCTT-TTCT
6132552 TTTTTGCTTCTTTTCT
1 TTTTTGCTTCTTTTCT
6132568 TTTTTG
1 TTTTTG
6132574 TTTTTGCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
13 11 0.26
14 6 0.14
15 1 0.02
16 11 0.26
17 12 0.29
18 1 0.02
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTGCTTCTTTTCT
Found at i:6136863 original size:19 final size:19
Alignment explanation
Indices: 6136809--6136863 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
6136799 AACCAATAAT
6136809 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
6136828 GATGAAAA-AAAATTAAATTG
1 AAT-AAAATAAAA-TAAATTG
6136848 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
6136864 ATAAATGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:6136986 original size:13 final size:12
Alignment explanation
Indices: 6136970--6137018 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
6136960 TATAATGAAA
6136970 ATAAATAAATAGT
1 ATAAATAAATA-T
6136983 ATAAATAAA-AT
1 ATAAATAAATAT
*
6136994 AATAAAAAAATAT
1 -ATAAATAAATAT
6137007 ATAAA-AAATAT
1 ATAAATAAATAT
6137018 A
1 A
6137019 AAAAATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 8 0.24
12 14 0.42
13 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
ATAAATAAATAT
Found at i:6137007 original size:22 final size:22
Alignment explanation
Indices: 6136955--6137084 Score: 69
Period size: 22 Copynumber: 6.0 Consensus size: 22
6136945 CAAAGAAACT
6136955 AAAAATAT-AATGAAAATAA-ATA
1 AAAAATATAAAT-AAAATAATA-A
* *
6136977 AATAGTATAAATAAAATAATAA
1 AAAAATATAAATAAAATAATAA
6136999 AAAAATAT--ATAAAA-AATATA
1 AAAAATATAAATAAAATAATA-A
* ** *
6137019 AAAAATGTATGTATAAT-ATAA
1 AAAAATATAAATAAAATAATAA
* *
6137040 TAAAATACTAAATAGTAATAATAA
1 AAAAATA-TAAATA-AAATAATAA
* *
6137064 TAATA-ATAAATAAAA-AATAA
1 AAAAATATAAATAAAATAATAA
6137084 A
1 A
6137085 TATACATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
19 4 0.05
20 19 0.22
21 8 0.09
22 37 0.44
23 9 0.11
24 8 0.09
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATATAAATAAAATAATAA
Found at i:6137081 original size:29 final size:30
Alignment explanation
Indices: 6137049--6137147 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 30
6137039 ATAAAATACT
6137049 AAATAGTAATAATA-ATAATAATAAATAAA
1 AAATAGTAATAATAGATAATAATAAATAAA
* * * *
6137078 AAATA--AATATACATATAATATTAACTAAA
1 AAATAGTAATA-ATAGATAATAATAAATAAA
*
6137107 AAATAGTAATCATAGA-AAT-ATAAATAAA
1 AAATAGTAATAATAGATAATAATAAATAAA
* *
6137135 TAA-AGTAAGAATA
1 AAATAGTAATAATA
6137148 TATATATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
27 12 0.22
28 11 0.20
29 26 0.47
30 3 0.05
31 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
AAATAGTAATAATAGATAATAATAAATAAA
Found at i:6137152 original size:2 final size:2
Alignment explanation
Indices: 6137145--6137169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6137135 TAAAGTAAGA
6137145 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
6137170 ACGTTAGGAA
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:6137313 original size:22 final size:23
Alignment explanation
Indices: 6137279--6137342 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
6137269 AAGCAAAGAA
*
6137279 AAATGAAAAAAATTATAA-TAAAT
1 AAAT-AAATAAATTATAATTAAAT
6137302 AAATAAATAAA-TATAATTAAAT
1 AAATAAATAAATTATAATTAAAT
* *
6137324 ATATACATATAAATAATAA
1 AAATA-A-ATAAATTATAA
6137343 GGGTTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 15 0.44
23 5 0.15
24 5 0.15
25 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAAATAAATTATAATTAAAT
Found at i:6137317 original size:18 final size:18
Alignment explanation
Indices: 6137296--6137339 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6137286 AAAAATTATA
6137296 ATAAATAAATAAATAAAT
1 ATAAATAAATAAATAAAT
* * *
6137314 ATAATTAAATATATACAT
1 ATAAATAAATAAATAAAT
6137332 ATAAATAA
1 ATAAATAA
6137340 TAAGGGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:6137794 original size:21 final size:21
Alignment explanation
Indices: 6137768--6137825 Score: 63
Period size: 16 Copynumber: 3.0 Consensus size: 21
6137758 TAGTATAACA
6137768 CTATCCTATTTTTAGGAGTTT
1 CTATCCTATTTTTAGGAGTTT
**
6137789 CTATCCTA---TTA--AAATT
1 CTATCCTATTTTTAGGAGTTT
6137805 CTATCCTATTTTTAGGAGTTT
1 CTATCCTATTTTTAGGAGTTT
6137826 GAATCCTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
16 11 0.39
18 3 0.11
19 3 0.11
21 11 0.39
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (21 bp):
CTATCCTATTTTTAGGAGTTT
Found at i:6140345 original size:21 final size:21
Alignment explanation
Indices: 6140321--6140384 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
6140311 AAAAGTTCTA
6140321 GGATGATTCAAAAGAGCAAAT
1 GGATGATTCAAAAGAGCAAAT
* ** * *
6140342 GGATCAAGCAAAAAAGTTC-CA-
1 GGATGATTCAAAAGAG--CAAAT
6140363 GGATGATTCAAAAGAGCAAAT
1 GGATGATTCAAAAGAGCAAAT
6140384 G
1 G
6140385 ACAAAATTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 25 0.86
22 1 0.03
23 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.17
Consensus pattern (21 bp):
GGATGATTCAAAAGAGCAAAT
Found at i:6140349 original size:42 final size:42
Alignment explanation
Indices: 6140301--6140384 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
6140291 AGAGATGATC
*
6140301 GATCAAGCAAAAAAGTTCTAGGATGATTCAAAAGAGCAAATG
1 GATCAAGCAAAAAAGTTCCAGGATGATTCAAAAGAGCAAATG
6140343 GATCAAGCAAAAAAGTTCCAGGATGATTCAAAAGAGCAAATG
1 GATCAAGCAAAAAAGTTCCAGGATGATTCAAAAGAGCAAATG
6140385 ACAAAATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (42 bp):
GATCAAGCAAAAAAGTTCCAGGATGATTCAAAAGAGCAAATG
Found at i:6142681 original size:89 final size:89
Alignment explanation
Indices: 6142540--6142710 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 89
6142530 ATATTCATAT
* *
6142540 TATTATTATATGTACAGTAAAGCTTGAGTTATCCCCCTAAAGCAATTAGTTAATAGCCCTGGCTT
1 TATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCAATTAGTTAATAGCCCTGGCTT
6142605 TATGGATAATATTCAGCCATCCTA
66 TATGGATAATATTCAGCCATCCTA
* * * * *
6142629 TATTATTATATATACAATAAAGCTTGAGTTGTTCCTCTAAAGTAATTGGTTAATAGCCCTGGCTT
1 TATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCAATTAGTTAATAGCCCTGGCTT
6142694 TATGGATAATATTCAGC
66 TATGGATAATATTCAGC
6142711 TAGTCTGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (89 bp):
TATTATTATATATACAATAAAGCTTGAGTTATCCCCCTAAAGCAATTAGTTAATAGCCCTGGCTT
TATGGATAATATTCAGCCATCCTA
Found at i:6145429 original size:123 final size:123
Alignment explanation
Indices: 6145207--6145965 Score: 1066
Period size: 123 Copynumber: 6.2 Consensus size: 123
6145197 ATTTCAGGAA
*
6145207 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGGAGTTCATAATCTGAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * *
6145272 TATTCAACCTTTTGCTCGACTCTATCACAAAATGAGATAGAGCAACATCAACATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
*
6145330 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATCTGAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * * *
6145395 TATTTAACCTTTTGCTCGACTCTATCGCAGAATGAGATAGA-TAAGCAACAATATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAA-CATCAACATTTCC
* * *
6145453 AGAAGGAGTTTGTAATAAGAAAAACTCATCTGAAGAGGAAGAAGAA-TCTCATAATCTGAAGAAT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGT-TCATAATCTGAAGAAC
* *
6145517 TTATTCAACCTCTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCATCAACATTTCC
65 TTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
* * *
6145576 AGAAGGAGTTCGTAAT---AAGAACTCATCTGAAAAGAAAGAAGAAGTTCATAATCTGAATAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * *
6145638 TATTCAACCTTTTACTCGACTCTATCGTAGAAGGAGATAGAGCAGCATCAAAATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
* * * * * *
6145696 AGAAGAAGTTCGTAATAAGAAGAACCCATCTGAAAAGAAAGAAGAAGTTCATAATATAAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* *
6145761 TATTTAACATTTTGCTCGACTCTATCGCAGAAGGAGA-AGAGCAACATCAACATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
* *
6145818 AGAAGAAGTTCCTAATAAGAAGAACTCATCTGAAGAGGAATGAA-AAGTTCATAATCTGAAGAAC
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAA-GAAGAAGTTCATAATCTGAAGAAC
* * * * * * *
6145882 TTATTCAACCTTTTGCTAGATTCTATCGCAAAATGAGATAGAGCATCATCAATATTTTC
65 TTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
* *
6145941 AGAA-GAGTTCATAATGAGAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACT
6145966 AGTCCAAAGT
Statistics
Matches: 569, Mismatches: 58, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
120 108 0.19
121 1 0.00
122 125 0.22
123 334 0.59
124 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (123 bp):
AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCC
Found at i:6145741 original size:243 final size:243
Alignment explanation
Indices: 6145207--6145965 Score: 1058
Period size: 243 Copynumber: 3.1 Consensus size: 243
6145197 ATTTCAGGAA
*
6145207 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGGAGTTCATAATCTGAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAA-GAATTCATAATCTGAAGAACT
* * *
6145272 TATTCAACCTTTTGCTCGACTCTATCACAAAATGAGATAGAGCAACATCAACATTTCCAGAAGGA
65 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGA
* * * *
6145337 GTTCGTAATAAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATCTGAAGAACTTATTTAA
130 GTTCGTAAT-A-AAGAACTCATCTGAAAAGAAAGAAGAAGTTCATAATCTGAAGAACTTATTCAA
** *
6145402 CCTTTTGCTCGACTCTATCGCAGAATGAGATAGATAAGCAACAATATTTCC
193 CCTTTTGCTCGACTCTATCGCAGAATGAGATAGAGCAGCATCAATATTTCC
* * *
6145453 AGAAGGAGTTTGTAATAAGAAAAACTCATCTGAAGAGGAAGAAGAATCTCATAATCTGAAGAATT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAT-TCATAATCTGAAGAACT
* *
6145518 TATTCAACCTCTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCATCAACATTTCCAGAAGGA
65 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGA
*
6145583 GTTCGTAAT-AAGAACTCATCTGAAAAGAAAGAAGAAGTTCATAATCTGAATAACTTATTCAACC
130 GTTCGTAATAAAGAACTCATCTGAAAAGAAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACC
* * * *
6145647 TTTTACTCGACTCTATCGTAGAAGGAGATAGAGCAGCATCAAAATTTCC
195 TTTTGCTCGACTCTATCGCAGAATGAGATAGAGCAGCATCAATATTTCC
* * * * * *
6145696 AGAAGAAGTTCGTAATAAGAAGAACCCATCTGAAAAGAAAGAAGAAGTTCATAATATAAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAA-TTCATAATCTGAAGAACT
* * *
6145761 TATTTAACATTTTGCTCGACTCTATCGCAGAAGGAGA-AGAGCAACATCAACATTTCCAGAAGAA
65 TATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGA
* * *
6145825 GTTCCTAATAAGAAGAACTCATCTGAAGAGGAATGAA-AAGTTCATAATCTGAAGAACTTATTCA
130 GTTCGTAAT-A-AAGAACTCATCTGAA-AAGAAAGAAGAAGTTCATAATCTGAAGAACTTATTCA
* * * * *
6145889 ACCTTTTGCTAGATTCTATCGCAAAATGAGATAGAGCATCATCAATATTTTC
192 ACCTTTTGCTCGACTCTATCGCAGAATGAGATAGAGCAGCATCAATATTTCC
* *
6145941 AGAA-GAGTTCATAATGAGAAGAACT
1 AGAAGGAGTTCGTAATAAGAAGAACT
6145966 AGTCCAAAGT
Statistics
Matches: 455, Mismatches: 52, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
242 33 0.07
243 180 0.40
244 18 0.04
245 91 0.20
246 133 0.29
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (243 bp):
AGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAATTCATAATCTGAAGAACTT
ATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAACATCAACATTTCCAGAAGGAG
TTCGTAATAAAGAACTCATCTGAAAAGAAAGAAGAAGTTCATAATCTGAAGAACTTATTCAACCT
TTTGCTCGACTCTATCGCAGAATGAGATAGAGCAGCATCAATATTTCC
Found at i:6146155 original size:22 final size:22
Alignment explanation
Indices: 6146129--6146180 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
6146119 CCTCCATGTT
6146129 GCAGCTTCACCCAACAGTTCCA
1 GCAGCTTCACCCAACAGTTCCA
*
6146151 GCAGCTTCACCCAACGGTTCCA
1 GCAGCTTCACCCAACAGTTCCA
6146173 GCAGCTTC
1 GCAGCTTC
6146181 CAGAGGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.19
Consensus pattern (22 bp):
GCAGCTTCACCCAACAGTTCCA
Found at i:6147377 original size:14 final size:15
Alignment explanation
Indices: 6147332--6147377 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
6147322 TTTATGCCAT
*
6147332 TTTTATTTA-TTTAA
1 TTTTAGTTACTTTAA
*
6147346 TTTCAGTT-CTTTAA
1 TTTTAGTTACTTTAA
6147360 TTTTA-TTACTTTAA
1 TTTTAGTTACTTTAA
6147374 TTTT
1 TTTT
6147378 CTATTTTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.07
14 25 0.93
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTAGTTACTTTAA
Found at i:6149631 original size:15 final size:15
Alignment explanation
Indices: 6149611--6149644 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6149601 TGTAAATAAA
**
6149611 TAAATTTATGTTAAT
1 TAAATTTAAATTAAT
6149626 TAAATTTAAATTAAT
1 TAAATTTAAATTAAT
6149641 TAAA
1 TAAA
6149645 ATTCAAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTTAAATTAAT
Found at i:6150073 original size:13 final size:15
Alignment explanation
Indices: 6150044--6150077 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
6150034 CACAACAAAA
6150044 TTATTTAGTCTTTAT
1 TTATTTAGTCTTTAT
6150059 TTATTTA-TC-TTAT
1 TTATTTAGTCTTTAT
6150072 TTATTT
1 TTATTT
6150078 TTCCAATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 2 0.11
15 7 0.37
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (15 bp):
TTATTTAGTCTTTAT
Found at i:6153975 original size:2 final size:2
Alignment explanation
Indices: 6153968--6154007 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6153958 GAATGTTGGT
6153968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6154008 ATAATGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6154017 original size:3 final size:3
Alignment explanation
Indices: 6154011--6154044 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6154001 ATATATAATA
*
6154011 ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
6154045 AAATAAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:6163017 original size:14 final size:14
Alignment explanation
Indices: 6162998--6163029 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6162988 ATAGCAAGAT
6162998 TCTAAAGTATCAAC
1 TCTAAAGTATCAAC
6163012 TCTAAAGTATCAAC
1 TCTAAAGTATCAAC
6163026 TCTA
1 TCTA
6163030 GTGTGTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (14 bp):
TCTAAAGTATCAAC
Found at i:6168684 original size:22 final size:21
Alignment explanation
Indices: 6168656--6168724 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 21
6168646 ACCCGACTCG
6168656 ACCCGAGAACAAAGGAGCCTCC
1 ACCCGAGAAC-AAGGAGCCTCC
* * *
6168678 ACCCGAGACCCA--A-CC-CG
1 ACCCGAGAACAAGGAGCCTCC
6168695 ACCCGAGAACAAGGAAGCCTCC
1 ACCCGAGAACAAGG-AGCCTCC
6168717 ACCCGAGA
1 ACCCGAGA
6168725 CCCAAGCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 11 0.31
18 2 0.06
19 1 0.03
20 1 0.03
21 3 0.08
22 18 0.50
ACGTcount: A:0.35, C:0.41, G:0.22, T:0.03
Consensus pattern (21 bp):
ACCCGAGAACAAGGAGCCTCC
Found at i:6168714 original size:39 final size:39
Alignment explanation
Indices: 6168654--6168739 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
6168644 CCACCCGACT
6168654 CGACCCGAGAACAAAGGAGCCTCCACCCGAGACCCAACC
1 CGACCCGAGAACAAAGGAGCCTCCACCCGAGACCCAACC
*
6168693 CGACCCGAGAAC-AAGGAAGCCTCCACCCGAGACCCAAGC
1 CGACCCGAGAACAAAGG-AGCCTCCACCCGAGACCCAACC
6168732 CGACCCGA
1 CGACCCGA
6168740 CCAAAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.33, C:0.43, G:0.22, T:0.02
Consensus pattern (39 bp):
CGACCCGAGAACAAAGGAGCCTCCACCCGAGACCCAACC
Found at i:6179682 original size:21 final size:20
Alignment explanation
Indices: 6179596--6179753 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
6179586 AAATGACCAA
**
6179596 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
6179615 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
6179635 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
6179655 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
6179676 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
6179697 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
6179717 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
6179738 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
6179754 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:6179782 original size:20 final size:20
Alignment explanation
Indices: 6179720--6179913 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
6179710 CGATTTTCCA
* ** *
6179720 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
6179740 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
6179760 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6179780 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
6179800 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
6179820 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
6179840 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
6179860 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
6179880 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
6179901 AAATCGCAACGCG
1 AAATCGCAACGCG
6179914 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:6179804 original size:60 final size:60
Alignment explanation
Indices: 6179720--6179913 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
6179710 CGATTTTCCA
* ** * *
6179720 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
6179780 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
6179840 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
6179901 AAATCGCAACGCG
1 AAATCGCAACGCG
6179914 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:6180335 original size:33 final size:33
Alignment explanation
Indices: 6180296--6180366 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6180286 TTCACTTAGA
*
6180296 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
6180329 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
6180362 TTTCA
1 TTTCA
6180367 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:6180490 original size:20 final size:20
Alignment explanation
Indices: 6180446--6180555 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
6180436 TGCAGAAGAG
*
6180446 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
6180467 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
6180487 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
6180508 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
6180522 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
6180541 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
6180556 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:6180503 original size:41 final size:38
Alignment explanation
Indices: 6180439--6180555 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
6180429 TTCAATTTGC
* *
6180439 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
6180477 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
6180518 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
6180551 AGAAT
1 AGAAT
6180556 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:6180525 original size:14 final size:14
Alignment explanation
Indices: 6180506--6180562 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6180496 GAGAAATGAA
6180506 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6180520 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6180539 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6180553 AATCGCAACG
1 AATCGCAACG
6180563 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6180538 original size:33 final size:33
Alignment explanation
Indices: 6180498--6180578 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
6180488 CGCAACGAGA
6180498 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6180531 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
6180564 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
6180579 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6180596 original size:19 final size:19
Alignment explanation
Indices: 6180574--6180701 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
6180564 GAAACCAAAA
*
6180574 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6180593 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
6180607 TCTCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6180626 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6180640 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
6180660 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
6180680 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
6180700 TC
1 TC
6180702 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.22
16 6 0.07
17 6 0.07
19 21 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6180625 original size:33 final size:33
Alignment explanation
Indices: 6180579--6180701 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
6180569 CAAAATCGCA
6180579 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6180612 TTGTGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6180645 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
6180686 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
6180702 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 43 0.54
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6180648 original size:14 final size:14
Alignment explanation
Indices: 6180596--6180652 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6180586 TTTCATTTCG
6180596 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
6180610 CGTTGTGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6180629 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6180643 CGTTGCGATT
1 CGTTGCGATT
6180653 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6180663 original size:21 final size:21
Alignment explanation
Indices: 6180637--6180701 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
6180627 CGCGTTGCGA
6180637 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6180658 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6180678 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
6180699 TTC
1 TTC
6180702 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6180698 original size:20 final size:20
Alignment explanation
Indices: 6180636--6180699 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
6180626 TCGCGTTGCG
6180636 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
6180656 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
6180677 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
6180697 ATT
1 ATT
6180700 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:6182631 original size:185 final size:185
Alignment explanation
Indices: 6182400--6182774 Score: 725
Period size: 185 Copynumber: 2.0 Consensus size: 185
6182390 TAGATTGCTT
6182400 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182465 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
6182530 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
6182586 AGTAAATTTGTTCGGTTGCTGCCAATT-TGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182650 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
6182715 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
6182770 AGTAA
1 AGTAA
6182775 TGCAATCCAT
Statistics
Matches: 188, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 6 0.03
185 156 0.83
186 26 0.14
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:6182678 original size:92 final size:93
Alignment explanation
Indices: 6182400--6182774 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
6182390 TAGATTGCTT
*
6182400 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182465 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6182493 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182558 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6182586 AGTAAATTTGTTCGGTTGCTGCCAATT-TGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182650 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6182678 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6182743 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6182770 AGTAA
1 AGTAA
6182775 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 98 0.35
93 182 0.65
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:6182862 original size:19 final size:19
Alignment explanation
Indices: 6182822--6182950 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
6182812 TAGTTTACTT
* *
6182822 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
6182842 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
6182861 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
6182880 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
6182894 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
6182913 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
6182927 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
6182946 TCGCA
1 TCGCA
6182951 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:6182901 original size:33 final size:32
Alignment explanation
Indices: 6182858--6182950 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
6182848 CGCGAAACCA
**
6182858 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
6182890 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
6182923 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
6182951 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:6182948 original size:52 final size:52
Alignment explanation
Indices: 6182822--6182950 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
6182812 TAGTTTACTT
**
6182822 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
6182874 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
6182927 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
6182951 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:6182968 original size:19 final size:19
Alignment explanation
Indices: 6182946--6183118 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
6182936 GAAACCAAAA
*
6182946 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6182965 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
6182981 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
6182998 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
6183014 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
6183031 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
6183050 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
6183069 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
6183088 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
6183108 TCGTGTTGCGA
1 TCGCGTTGCGA
6183119 AAGTAAACTA
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 15 0.12
16 11 0.09
17 11 0.09
19 79 0.62
20 12 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6182987 original size:14 final size:14
Alignment explanation
Indices: 6182968--6183024 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6182958 TTTCATTTCG
6182968 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
6182982 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
6182999 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
6183015 CGTTGCGATT
1 CGTTGCGATT
6183025 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:6183076 original size:38 final size:38
Alignment explanation
Indices: 6182946--6183118 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
6182936 GAAACCAAAA
*
6182946 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
6182981 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* **
6183014 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
6183050 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
6183088 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
6183119 AAGTAAACTA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
33 56 0.48
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.09
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:6184923 original size:14 final size:14
Alignment explanation
Indices: 6184904--6184939 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6184894 ATTGTTTAAT
6184904 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6184918 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
6184932 TGATTTGT
1 TGATTTGT
6184940 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6185106 original size:33 final size:33
Alignment explanation
Indices: 6185064--6185182 Score: 166
Period size: 33 Copynumber: 3.4 Consensus size: 33
6185054 GCGAAATGAA
6185064 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
6185097 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--A-GAG
6185136 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
6185170 AATCGCAATGCGA
1 AATCGCAATGCGA
6185183 TTTTAATTTC
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
33 29 0.38
34 13 0.17
35 2 0.03
36 1 0.01
37 1 0.01
38 2 0.03
39 13 0.17
40 16 0.21
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:6185133 original size:20 final size:19
Alignment explanation
Indices: 6185046--6185163 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
6185036 AAAAATGACT
6185046 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6185065 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6185084 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
6185098 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
6185117 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
6185137 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
6185157 ATCGCAA
1 ATCGCAA
6185164 CGAGAGAATC
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 39 0.43
20 36 0.40
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6185195 original size:73 final size:72
Alignment explanation
Indices: 6185046--6185182 Score: 258
Period size: 73 Copynumber: 1.9 Consensus size: 72
6185036 AAAAATGACT
6185046 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
6185110 AATGAAA
66 AATGAAA
6185117 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCG
6185182 A
65 A
6185183 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 10 0.16
72 19 0.30
73 35 0.55
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (72 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
AATGAAA
Found at i:6185200 original size:19 final size:19
Alignment explanation
Indices: 6185172--6185355 Score: 156
Period size: 19 Copynumber: 10.7 Consensus size: 19
6185162 AACGAGAGAA
* *
6185172 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
6185191 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
6185207 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6185224 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
6185240 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
6185257 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
6185276 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
6185292 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
6185309 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
6185327 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
6185343 TCGCATTGCGATT
1 TCGCATTGCGATT
6185356 CTCTCGTTGC
Statistics
Matches: 132, Mismatches: 12, Indels: 42
0.71 0.06 0.23
Matches are distributed among these distances:
14 28 0.21
16 23 0.17
17 19 0.14
18 3 0.02
19 48 0.36
20 11 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:6185215 original size:14 final size:14
Alignment explanation
Indices: 6185196--6185250 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6185186 TAATTTCGCA
6185196 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
6185210 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
6185227 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
6185243 TTGCGATT
1 TTGCGATT
6185251 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:6185215 original size:33 final size:33
Alignment explanation
Indices: 6185178--6185269 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
6185168 AGAATCGCAA
*
6185178 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
6185211 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
6185244 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
6185270 TTCATTTCGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:6185235 original size:52 final size:52
Alignment explanation
Indices: 6185210--6185327 Score: 164
Period size: 52 Copynumber: 2.2 Consensus size: 52
6185200 GATTCTCTCG
** *
6185210 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTAATTGCGATTTGCATTTCGCA
** * *
6185262 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTAATTGCGATTTGCATTT-CGCA
6185315 TTGCGATTTTCAT
1 TTGCGATTTTCAT
6185328 GTTGGGATTT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 47 0.73
53 17 0.27
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTAATTGCGATTTGCATTTCGCA
Found at i:6185377 original size:33 final size:33
Alignment explanation
Indices: 6185262--6185369 Score: 164
Period size: 33 Copynumber: 3.2 Consensus size: 33
6185252 TCATTTCGCA
6185262 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
6185295 TTGCAATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
6185329 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
6185362 TTGCGATT
1 TTGCGATT
6185370 GTAATTTCCG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 36 0.55
34 28 0.42
35 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:6187670 original size:12 final size:12
Alignment explanation
Indices: 6187653--6187677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6187643 TCTTCGGGGA
6187653 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6187665 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6187677 C
1 C
6187678 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6187886 original size:24 final size:24
Alignment explanation
Indices: 6187852--6187898 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6187842 CTGAAACATC
6187852 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
6187876 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
6187899 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:6188609 original size:20 final size:20
Alignment explanation
Indices: 6188581--6188790 Score: 233
Period size: 20 Copynumber: 10.5 Consensus size: 20
6188571 AAATTTCAGT
* * *
6188581 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
6188601 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
6188621 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
6188641 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
6188661 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
6188681 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
6188701 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
6188721 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
6188741 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
6188761 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
6188781 GTTGCGATTT
1 GTTGCGATTT
6188791 TGGAAAATCG
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 167 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:6188807 original size:21 final size:21
Alignment explanation
Indices: 6188777--6188859 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
6188767 ATTTTCATAT
*
6188777 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
6188798 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
6188819 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
6188840 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
6188860 CTGATTTACG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:6188850 original size:42 final size:43
Alignment explanation
Indices: 6188757--6188855 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
6188747 ATTTATGTGT
*
6188757 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
6188798 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
6188840 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
6188856 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:6191060 original size:37 final size:38
Alignment explanation
Indices: 6191000--6191073 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
6190990 TGTTCTTTTT
* *
6191000 TGAGTGATGATTCAGTGAGTGATTGCTTTTTCTTATCTG
1 TGAGTGATGATTCAGT-AGTGATTCCATTTTCTTATCTG
*
6191039 TGAGTGATGATTCAGT-TTGATTCCATTTTCTTATC
1 TGAGTGATGATTCAGTAGTGATTCCATTTTCTTATC
6191074 ATCACGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 16 0.50
39 16 0.50
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.47
Consensus pattern (38 bp):
TGAGTGATGATTCAGTAGTGATTCCATTTTCTTATCTG
Found at i:6192915 original size:116 final size:122
Alignment explanation
Indices: 6192778--6192994 Score: 297
Period size: 122 Copynumber: 1.8 Consensus size: 122
6192768 AATAAAAATA
*
6192778 ATTTACATCTTTTTATTATTATGAATATC-TA-TGAAGAAT-TT-T-CATAA-TGTAA-ATATTT
1 ATTTACATCTTTTTATTATTATGAATATCTTAGT-AA-AATGTTATGCAAAATTGTAATATATTT
6192836 TTACATAAATTATGTAAAATTTAAAATTAATTAAAATATCTTAAATTATAAACATTTTT
64 TTACATAAATTATGTAAAATTTAAAATTAATTAAAATATCTTAAATTATAAACATTTTT
* * * *
6192895 ATTTA-ATTTTTTTATTATTATGAATATCTTAGTTAAATGTTGATGTAAAATTTTAATATATTTT
1 ATTTACATCTTTTTATTATTATGAATATCTTAGTAAAATGTT-ATGCAAAATTGTAATATATTTT
*
6192959 TACATAAATTATGTAAAATTTAATATTAATTAAAAT
65 TACATAAATTATGTAAAATTTAAAATTAATTAAAAT
6192995 TAAAATAATA
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
116 25 0.29
117 10 0.12
118 1 0.01
119 1 0.01
120 3 0.03
121 4 0.05
122 42 0.49
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (122 bp):
ATTTACATCTTTTTATTATTATGAATATCTTAGTAAAATGTTATGCAAAATTGTAATATATTTTT
ACATAAATTATGTAAAATTTAAAATTAATTAAAATATCTTAAATTATAAACATTTTT
Found at i:6193069 original size:15 final size:15
Alignment explanation
Indices: 6193049--6193079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6193039 TAACAAATAA
6193049 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
6193064 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
6193079 A
1 A
6193080 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:6195979 original size:5 final size:5
Alignment explanation
Indices: 6195969--6196061 Score: 50
Period size: 5 Copynumber: 18.8 Consensus size: 5
6195959 TCTATTCTTT
** **** *
6195969 TTTTA TTTTA TTTTA TTACA TTTT- TTTTA -TTTA TTTTCA GCAAA CTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA
* *
6196018 TTTTCA -TTAA TTTTA TTTTA TTTTA -ATTA TTTTAA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTT
6196062 TTAACATATT
Statistics
Matches: 64, Mismatches: 17, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
4 12 0.19
5 45 0.70
6 7 0.11
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:6196037 original size:20 final size:20
Alignment explanation
Indices: 6196014--6196061 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
6196004 TTCAGCAAAC
*
6196014 TTTATTTTCATTAATTTT-AT
1 TTTATTTTAATT-ATTTTAAT
6196034 TTTATTTTAATTATTTTAAT
1 TTTATTTTAATTATTTTAAT
6196054 TTTATTTT
1 TTTATTTT
6196062 TTAACATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATTTTAATTATTTTAAT
Found at i:6196049 original size:14 final size:15
Alignment explanation
Indices: 6196030--6196065 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
6196020 TTCATTAATT
6196030 TTATTTT-ATTTTAA
1 TTATTTTAATTTTAA
6196044 TTATTTTAATTTT-A
1 TTATTTTAATTTTAA
6196058 TT-TTTTAA
1 TTATTTTAA
6196066 CATATTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 10 0.48
15 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTAATTTTAA
Found at i:6200634 original size:17 final size:17
Alignment explanation
Indices: 6200609--6200642 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6200599 CTTTATCCCA
*
6200609 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
6200626 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
6200643 TTATCTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:6212555 original size:95 final size:96
Alignment explanation
Indices: 6212388--6212568 Score: 267
Period size: 95 Copynumber: 1.9 Consensus size: 96
6212378 GGCTGTATCG
* * *
6212388 ATACCATTGTAAGGGTATCGATACCAAGAAAACATCGAATCTAATTTTGGTATCGATACCGTAAG
1 ATACCATGGTAAGGGTATCGATACCAAGAAAACATCGAACCTAATTTTGGTATCGATACCGCAAG
**
6212453 GGGGTATCAGTACCATAGTATAGTAGTATTT
66 GAAGTATCAGTACCATAGTATAGTAGTATTT
*
6212484 ATACCATGGTAAGGGTATCGATACC-AGGAAACATCGAACCTAATTTTGGTATCGATACC-CAGA
1 ATACCATGGTAAGGGTATCGATACCAAGAAAACATCGAACCTAATTTTGGTATCGATACCGCA-A
* *
6212547 GGAAGTATCGGTAGCATAGTAT
65 GGAAGTATCAGTACCATAGTAT
6212569 TGAAGTATCG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
94 1 0.01
95 51 0.67
96 24 0.32
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (96 bp):
ATACCATGGTAAGGGTATCGATACCAAGAAAACATCGAACCTAATTTTGGTATCGATACCGCAAG
GAAGTATCAGTACCATAGTATAGTAGTATTT
Found at i:6212575 original size:22 final size:22
Alignment explanation
Indices: 6212548--6212625 Score: 156
Period size: 22 Copynumber: 3.5 Consensus size: 22
6212538 ATACCCAGAG
6212548 GAAGTATCGGTAGCATAGTATT
1 GAAGTATCGGTAGCATAGTATT
6212570 GAAGTATCGGTAGCATAGTATT
1 GAAGTATCGGTAGCATAGTATT
6212592 GAAGTATCGGTAGCATAGTATT
1 GAAGTATCGGTAGCATAGTATT
6212614 GAAGTATCGGTA
1 GAAGTATCGGTA
6212626 CCAAGGTAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (22 bp):
GAAGTATCGGTAGCATAGTATT
Found at i:6213143 original size:45 final size:45
Alignment explanation
Indices: 6213057--6213287 Score: 322
Period size: 45 Copynumber: 5.1 Consensus size: 45
6213047 TGAAAATAAT
* * ** * *
6213057 AATGCATATGGGTGCATTATCGGCATG-AAAGGATGCCATAGTTGA
1 AATGTATATGGGTACATTATCAACA-GAAAAGTATGCTATAGTTGA
*
6213102 AATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
* *
6213147 AATGCATATGGGTACATTATCAATAGAAAAGTATG-TCATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCT-ATAGTTGA
* * *
6213192 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAATTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
6213237 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
6213282 AATGTA
1 AATGTA
6213288 CCCAAGTTGA
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
44 2 0.01
45 164 0.98
46 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (45 bp):
AATGTATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGA
Found at i:6213361 original size:45 final size:45
Alignment explanation
Indices: 6213292--6213406 Score: 169
Period size: 45 Copynumber: 2.5 Consensus size: 45
6213282 AATGTACCCA
* * *
6213292 AGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATGCTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
6213337 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
*
6213382 AGTTAAAAATGCATAAT-GGTGCATT
1 AGTT-GAAATGCAT-ATGGGTGCATT
6213407 TTAAACATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
45 46 0.72
46 16 0.25
47 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAT
Found at i:6213371 original size:106 final size:106
Alignment explanation
Indices: 6213186--6213385 Score: 346
Period size: 106 Copynumber: 1.9 Consensus size: 106
6213176 AGTATGTCAT
* *
6213186 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAATTGAAATGTATATGGGTA
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAATTGAAATGCATATGGGTA
6213251 CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTACCCA
66 CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTACCCA
* * * *
6213292 AGTTGAAATGTATATGGGTACATTATCAACATAAAAGTATGCTATAGTTGAAATGCATATGGGTG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAATTGAAATGCATATGGGTA
6213357 CATTATCAACAGAAAAGTATGCTATAGTT
66 CATTATCAACAGAAAAGTATGCTATAGTT
6213386 AAAAATGCAT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 88 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (106 bp):
AGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATGCTATAATTGAAATGCATATGGGTA
CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTACCCA
Found at i:6215543 original size:19 final size:18
Alignment explanation
Indices: 6215499--6215544 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
6215489 TGCTAGAAGG
**
6215499 TAATTTTTTTAACTTTTT
1 TAATTTTTTTAACTTAAT
*
6215517 TAAATTTTATTAACTTAAT
1 T-AATTTTTTTAACTTAAT
6215536 TAATTTTTT
1 TAATTTTTT
6215545 ATATGTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTTTTAACTTAAT
Found at i:6215569 original size:16 final size:17
Alignment explanation
Indices: 6215548--6215579 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6215538 ATTTTTTATA
6215548 TGTTTTT-AATATTTTT
1 TGTTTTTAAATATTTTT
6215564 TGTTTTTAAATATTTT
1 TGTTTTTAAATATTTT
6215580 AAATAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TGTTTTTAAATATTTTT
Found at i:6216851 original size:21 final size:20
Alignment explanation
Indices: 6216821--6216861 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
6216811 AGTTACCCTC
6216821 TTTTTTAATTTCTAATTTTA
1 TTTTTTAATTTCTAATTTTA
6216841 TTTTTTAAATTTCTAATTTTA
1 TTTTTT-AATTTCTAATTTTA
6216862 AATTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTAATTTCTAATTTTA
Found at i:6216867 original size:21 final size:21
Alignment explanation
Indices: 6216822--6216867 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6216812 GTTACCCTCT
* **
6216822 TTTTTAATTTCTAATTTTATT
1 TTTTAAATTTCTAATTTTAAA
6216843 TTTTAAATTTCTAATTTTAAA
1 TTTTAAATTTCTAATTTTAAA
6216864 TTTT
1 TTTT
6216868 TTTCAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAAATTTCTAATTTTAAA
Found at i:6219975 original size:14 final size:14
Alignment explanation
Indices: 6219956--6220000 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
6219946 TTTTTTTTCA
*
6219956 TTCGAATCTGATTT
1 TTCGAATTTGATTT
*
6219970 TTCGAATTTGTTTT
1 TTCGAATTTGATTT
6219984 TCTCGAATTTGATTT
1 T-TCGAATTTGATTT
6219999 TT
1 TT
6220001 TGTGGGTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.58
Consensus pattern (14 bp):
TTCGAATTTGATTT
Found at i:6223779 original size:54 final size:54
Alignment explanation
Indices: 6223721--6223829 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
6223711 GACAGAGAAT
*
6223721 GAGAGAAGGGGTCGAGTGGCTAAAGGAAATAATTAGGGAGAGGGTCTGGGATTA
1 GAGAGAAGGGGTCGAGTGGCTAAAGGAAACAATTAGGGAGAGGGTCTGGGATTA
*
6223775 GAGAGAAGGGGTCGAGTGGCTAAAGGAAACAATTAGGGAGAGGGTTTGGGATTA
1 GAGAGAAGGGGTCGAGTGGCTAAAGGAAACAATTAGGGAGAGGGTCTGGGATTA
6223829 G
1 G
6223830 GTCATATGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.43, T:0.18
Consensus pattern (54 bp):
GAGAGAAGGGGTCGAGTGGCTAAAGGAAACAATTAGGGAGAGGGTCTGGGATTA
Found at i:6230908 original size:32 final size:32
Alignment explanation
Indices: 6230866--6230953 Score: 115
Period size: 32 Copynumber: 2.7 Consensus size: 32
6230856 ATTTTATTCT
* *
6230866 CTCATCTTTTTATGGTTAATTATGGTT-TGCCC
1 CTCAT-TTTTTATGGTTAATTATAGTTAGGCCC
6230898 CTTCATTTTTTATGGTTAATTATAGTTAGGCCC
1 C-TCATTTTTTATGGTTAATTATAGTTAGGCCC
* *
6230931 CTCAGTTTTTATGATTAATTATA
1 CTCATTTTTTATGGTTAATTATA
6230954 TCTTTCCCCC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 41 0.82
33 9 0.18
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.50
Consensus pattern (32 bp):
CTCATTTTTTATGGTTAATTATAGTTAGGCCC
Found at i:6231777 original size:39 final size:39
Alignment explanation
Indices: 6231734--6231844 Score: 129
Period size: 39 Copynumber: 2.8 Consensus size: 39
6231724 TTTAAAAAAT
*
6231734 AATTTAGAATTTTAATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
**
6231773 AATTTAGAATGTT-ATGGTGATAA-AATTTAAGAAATTTTG
1 AATTTAGAATGTTAAT-GTGA-AATAATTTAAGAAATTAAG
* *
6231812 AATTTTGAATGTTAGA-GTGAAATAATTTGAGAA
1 AATTTAGAATGTTA-ATGTGAAATAATTTAAGAA
6231845 TTATAAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
38 4 0.06
39 55 0.89
40 2 0.03
41 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (39 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
Found at i:6233145 original size:14 final size:14
Alignment explanation
Indices: 6233126--6233155 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6233116 GAAATTATTG
6233126 AAATGTAAAATATA
1 AAATGTAAAATATA
*
6233140 AAATGTAAAATTTA
1 AAATGTAAAATATA
6233154 AA
1 AA
6233156 TAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATGTAAAATATA
Found at i:6244587 original size:17 final size:17
Alignment explanation
Indices: 6244565--6244600 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6244555 GTGAGTTGGA
*
6244565 TTCAATTTGATTGTTTC
1 TTCAATTTGATGGTTTC
*
6244582 TTCAATTTTATGGTTTC
1 TTCAATTTGATGGTTTC
6244599 TT
1 TT
6244601 TTGATTCTTG
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:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
TTCAATTTGATGGTTTC
Found at i:6245956 original size:20 final size:20
Alignment explanation
Indices: 6245933--6245976 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6245923 GGTCCTTTGG
* *
6245933 GACATACAGAGGTCTTTCGT
1 GACATACAGAGGTCATTCGA
*
6245953 GACATACATAGGTCATTCGA
1 GACATACAGAGGTCATTCGA
6245973 GACA
1 GACA
6245977 AATTTCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (20 bp):
GACATACAGAGGTCATTCGA
Found at i:6248001 original size:145 final size:145
Alignment explanation
Indices: 6247769--6248102 Score: 508
Period size: 145 Copynumber: 2.3 Consensus size: 145
6247759 TGGCTTGAAT
** * *
6247769 GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGGGGCG
1 GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATAATAAACCCTCTGGTGGGGCA
*
6247834 TTGCTGATTCGAAGTGTCGTGAATCGAGCAAATAAAATGTTAAAAACATCCTGCCCGAAGGTCTT
66 TTGCTGATTCGAAGTGTCGTGAATCGAGCAAAGAAAATGTTAAAAACATCCTGCCCGAAGGTCTT
* * * *
6247899 ATGGATGTCTCGAAG
131 ATGAATGGCCCAAAG
*
6247914 GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGAAATAGGAAATAATAAACCCTCTGGTGGGGCA
1 GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATAATAAACCCTCTGGTGGGGCA
* * * * *
6247979 TTGCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACATTCTGCCTGAAGGTCTT
66 TTGCTGATTCGAAGTGTCGTGAATCGAGCAAAGAAAATGTTAAAAACATCCTGCCCGAAGGTCTT
6248044 ATGAATGGCCCAAAG
131 ATGAATGGCCCAAAG
* *
6248059 GAGTTAAGCTGATTTGAAGTGTTGTGAATCGAGCAA-AGGAAATA
1 GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATA
6248103 TTGAAAGCAT
Statistics
Matches: 171, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
144 8 0.05
145 163 0.95
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (145 bp):
GACTTAAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATAATAAACCCTCTGGTGGGGCA
TTGCTGATTCGAAGTGTCGTGAATCGAGCAAAGAAAATGTTAAAAACATCCTGCCCGAAGGTCTT
ATGAATGGCCCAAAG
Found at i:6248128 original size:85 final size:85
Alignment explanation
Indices: 6247981--6248145 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 85
6247971 GTGGGGCATT
* * * *
6247981 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATGTTGAAAACATTCTGCCTGAAGGTCTTAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCGAAAGTCTTAT
*
6248046 GAATGGCCCAAAGGAGTTAA
66 GAATAGCCCAAAGGAGTTAA
* *
6248066 GCTGATTTGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAGCATCCTGCCCGAAAGTCTTAT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCGAAAGTCTTAT
* *
6248131 GGATAGCCCGAAGGA
66 GAATAGCCCAAAGGA
6248146 CTTATCATCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (85 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAAAGGAAATATTGAAAACATCCTGCCCGAAAGTCTTAT
GAATAGCCCAAAGGAGTTAA
Found at i:6248240 original size:42 final size:41
Alignment explanation
Indices: 6248119--6248240 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 41
6248109 GCATCCTGCC
* * **
6248119 CGAAAGTCTTATGGATAGCCCGAAGGACTTATCATCTTGCT
1 CGAAAGACTTATAGATAGCCCGAAGGACTTATCATCACGCT
*
6248160 CGAAAGACTTATAGATTA-CCCGAAGGATTTAAGT-ATCACGCT
1 CGAAAGACTTATAGA-TAGCCCGAAGGACTT-A-TCATCACGCT
* *
6248202 CGAAAGGCTTACT-GATGGCCCGAAGGACTTACTCATCAC
1 CGAAAGACTTA-TAGATAGCCCGAAGGACTTA-TCATCAC
6248241 CCTTTGAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 27 0.41
42 37 0.56
43 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
CGAAAGACTTATAGATAGCCCGAAGGACTTATCATCACGCT
Found at i:6248335 original size:39 final size:39
Alignment explanation
Indices: 6248276--6248388 Score: 109
Period size: 39 Copynumber: 2.9 Consensus size: 39
6248266 TTATATCTTT
* *
6248276 TGTTTCGAGCGAAACTATCTCAAGCGAGAAAAAATATTC
1 TGTTTCAAGCGAAACTATCTCAAGCGAGAAAAAATATTA
* * * * ** *
6248315 TGTTTCTAGTGAAACAATCTCAGGCGAGGTAAAATCTTA
1 TGTTTCAAGCGAAACTATCTCAAGCGAGAAAAAATATTA
* * * *
6248354 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1 TGTTTCAAGCGAAACTATCTCAAGCGAGAAAAAAT
6248389 TTGTTTTAAG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGCGAAACTATCTCAAGCGAGAAAAAATATTA
Found at i:6248401 original size:36 final size:36
Alignment explanation
Indices: 6248354--6248921 Score: 514
Period size: 36 Copynumber: 16.1 Consensus size: 36
6248344 TAAAATCTTA
*
6248354 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
6248390 TGTTTTAAGGGAAAC--TCTCAA-AGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
6248423 AGTTTAAAGGGAAAC-GTTCTC-A-A-AG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* ** * *
6248451 ATATTTCAATAGAAACTATCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
6248488 TGTTTCAAGGGAAATTGTTTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
6248524 TGTTTAAAGGGAAACTATCTGAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
6248561 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* *
6248598 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
6248634 TGTTTCAAGAGAAACTGTCTCAAGGGAAACGAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
6248670 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
6248706 TGTTTCAAGGGAAATTATCTCAAGAGAAACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
6248742 TGTTTCAAGGGAAACAT-TTTC-A-A-AG-----TTT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
6248770 ATGTTTCAAGTGAAACAGTCTCAAGGGAGACAAAACTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
** * *
6248808 TGTTTCAAAAGAAACTTTCTTAAG-GAAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAG-AGACAAAA-TT
*
6248845 TGTTTCATGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * * * *
6248881 TGTTTAAAGAGAAATTGTCCCAAGGGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
6248917 TGTTT
1 TGTTT
6248922 TGAGTAAAAA
Statistics
Matches: 431, Mismatches: 74, Indels: 54
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.01
29 31 0.07
30 2 0.00
32 4 0.01
33 27 0.06
34 9 0.02
35 5 0.01
36 221 0.51
37 125 0.29
38 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:6248497 original size:21 final size:21
Alignment explanation
Indices: 6248471--6248535 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
6248461 AGAAACTATC
6248471 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
6248492 TCAA-GG-G---AAA-TTGTT
1 TCAAGGGAGACAAAATTTGTT
*
6248507 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
6248528 TAAAGGGA
1 TCAAGGGA
6248536 AACTATCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
15 9 0.26
16 4 0.11
17 1 0.03
19 1 0.03
20 5 0.14
21 15 0.43
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:6248669 original size:20 final size:21
Alignment explanation
Indices: 6248644--6248684 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6248634 TGTTTCAAGA
6248644 GAAAC-TGTCTCAAGGGAAAC
1 GAAACTTGTCTCAAGGGAAAC
*
6248664 GAAACTTGTTTCAAGGGAAAC
1 GAAACTTGTCTCAAGGGAAAC
6248685 TGTCTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (21 bp):
GAAACTTGTCTCAAGGGAAAC
Found at i:6248875 original size:175 final size:173
Alignment explanation
Indices: 6248598--6248921 Score: 452
Period size: 175 Copynumber: 1.9 Consensus size: 173
6248588 GACAAAACTT
* *
6248598 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAAA
1 TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAAA
* * * *
6248663 CGAAACTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGGGAAATTATCTCA
66 CAAAACTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTAAAGAGAAATTATCCCA
*
6248728 AGAGAAACAAAATTTGTTTCAAGGGAAACATTTTCAAAGTTTA
131 AGAGAAACAAAACTTGTTTCAAGGGAAACATTTTCAAAGTTTA
* ** * *
6248771 TGTTTCAAGTGAAACAGTCTCAAGGGAGACAAAACTTTGTTTCAAAAGAAACTTTCTTAA-GGAA
1 TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAA-TTTGTTTCAAAAGAAACTGTCTCAAGGGAA
* * * *
6248835 GACAAAATTTTGTTTCATGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGAGAAATTGTC
65 -ACAAAA-CTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTAAAGAGAAATTATC
* *
6248900 CCAAGGGAGACAAAACTTGTTT
128 CCAAGAGAAACAAAACTTGTTT
6248922 TGAGTAAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
173 34 0.26
174 27 0.21
175 69 0.53
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (173 bp):
TGTTTCAAGAGAAACAGTCTCAAGAAAGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAAA
CAAAACTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTAAAGAGAAATTATCCCA
AGAGAAACAAAACTTGTTTCAAGGGAAACATTTTCAAAGTTTA
Found at i:6248949 original size:37 final size:35
Alignment explanation
Indices: 6248860--6249043 Score: 109
Period size: 36 Copynumber: 4.9 Consensus size: 35
6248850 CATGGGAAAC
* *
6248860 TGTCTCAAGAGAGACAAAATTTGTTTAAAGAGAAAT
1 TGTCTCAAGAGAGACAAAA-TTGTTTTAAGAAAAAT
* * *
6248896 TGTCCCAAGGGAGACAAAACTTGTTTTGAGTAAAAAT
1 TGTCTCAAGAGAGACAAAA-TTGTTTTAAG-AAAAAT
* * *
6248933 TGTCTCAAGTGTGACAAAATTCGTTTTTTTAGAGAAAAAC
1 TGTCTCAAGAGAGACAAAATT-G---TTTTA-AGAAAAAT
** * ** *
6248973 AATCTCAAGAGAGATTAATTTTGTTTTAAGGAAAAT
1 TGTCTCAAGAGAGA-CAAAATTGTTTTAAGAAAAAT
* *
6249009 TGTCTTCAA-CGAGACAAAATTTGTTCTTAGGAAAA
1 TGTC-TCAAGAGAGACAAAA-TTGTT-TTAAGAAAA
6249044 CTATCTCATG
Statistics
Matches: 110, Mismatches: 28, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
35 2 0.02
36 44 0.40
37 38 0.35
40 20 0.18
41 6 0.05
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (35 bp):
TGTCTCAAGAGAGACAAAATTGTTTTAAGAAAAAT
Found at i:6250516 original size:2 final size:2
Alignment explanation
Indices: 6250492--6250536 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
6250482 AGCTTTACTG
* * *
6250492 TA TA CA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6250533 TA TA
1 TA TA
6250537 GGTTGATAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6258583 original size:21 final size:21
Alignment explanation
Indices: 6258557--6258610 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
6258547 CAGTTCCAGC
*
6258557 ACAACCGACTCCTACTGATGA
1 ACAACCAACTCCTACTGATGA
6258578 ACAACCAACTCCTACTGATGA
1 ACAACCAACTCCTACTGATGA
6258599 ACAACCAACTCC
1 ACAACCAACTCC
6258611 AGCATGAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (21 bp):
ACAACCAACTCCTACTGATGA
Found at i:6267075 original size:3 final size:3
Alignment explanation
Indices: 6267067--6267095 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6267057 TTTTTGTCCT
6267067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6267096 TAAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6269933 original size:17 final size:17
Alignment explanation
Indices: 6269893--6269945 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6269883 GTACTAACCA
*
6269893 TTTTATTTTT-TTCCTT
1 TTTTATTTTTATTCATT
* *
6269909 TCTCATTTTTATTCATT
1 TTTTATTTTTATTCATT
*
6269926 TTTTATTTTTCATACATT
1 TTTTATTTTT-ATTCATT
6269944 TT
1 TT
6269946 GCTCTAACTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 8 0.28
17 13 0.45
18 8 0.28
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTATTCATT
Found at i:6274674 original size:73 final size:73
Alignment explanation
Indices: 6274588--6274842 Score: 411
Period size: 73 Copynumber: 3.5 Consensus size: 73
6274578 TTTTTCTCAA
* * * *
6274588 AGCAATTTTTCTCACTTGAAATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAATTTCA
1 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAGAAAATTTCA
6274653 CTCGAAAT
66 CTCGAAAT
*
6274661 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTATTTCTCGCTAGAGAAAATTTCA
1 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAGAAAATTTCA
*
6274726 CTTGAAAT
66 CTCGAAAT
* * *
6274734 AGCAATTTATCTCACTTGAGACTGTTTTTCTTAAAACAAACTGTTTCTCGCTTGAGAAAGTTTCA
1 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAGAAAATTTCA
*
6274799 CTCAAAAT
66 CTCGAAAT
*
6274807 AGCAATTTATCTCACTTGATATTGTTTTTCTTAAAA
1 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
6274843 TATTTTCCAG
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 168 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (73 bp):
AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTAGAGAAAATTTCA
CTCGAAAT
Found at i:6274843 original size:37 final size:37
Alignment explanation
Indices: 6274588--6274844 Score: 136
Period size: 37 Copynumber: 7.0 Consensus size: 37
6274578 TTTTTCTCAA
* *
6274588 AGCAATTTTTCTCACTTGA-AATTGTTTTTCTTAAAAC
1 AGCAATTTATCTCACTTGAGAA-TGTTTTTCTTAAAAT
* * * ** ** **
6274625 A--AATTGTTTCTCGCTGGAGAAAATTTCACTCGAAAT
1 AGCAATT-TATCTCACTTGAGAATGTTTTTCTTAAAAT
* *
6274661 AGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AGCAATTTATCTCACTTGAGAATGTTTTTCTTAAAAT
* * ** ** *
6274698 A--AACTATT-TCTCGCTAGAGAAAATTTCACTTGAAAT
1 AGCAA-T-TTATCTCACTTGAGAATGTTTTTCTTAAAAT
* *
6274734 AGCAATTTATCTCACTTGAGACTGTTTTTCTTAAAAC
1 AGCAATTTATCTCACTTGAGAATGTTTTTCTTAAAAT
* * ** *
6274771 A--AACTGTT-TCTCGCTTGAGAAAGTTTCACTCAAAAT
1 AGCAA-T-TTATCTCACTTGAGAATGTTTTTCTTAAAAT
* *
6274807 AGCAATTTATCTCACTTGATATTGTTTTTCTTAAAAT
1 AGCAATTTATCTCACTTGAGAATGTTTTTCTTAAAAT
6274844 A
1 A
6274845 TTTTCCAGAA
Statistics
Matches: 154, Mismatches: 52, Indels: 28
0.66 0.22 0.12
Matches are distributed among these distances:
35 8 0.05
36 67 0.44
37 71 0.46
38 8 0.05
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (37 bp):
AGCAATTTATCTCACTTGAGAATGTTTTTCTTAAAAT
Found at i:6275062 original size:120 final size:121
Alignment explanation
Indices: 6274846--6275136 Score: 390
Period size: 120 Copynumber: 2.4 Consensus size: 121
6274836 CTTAAAATAT
*
6274846 TTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTTATAATCTAAA
1 TTTCCAGAAGGAGTTCGTAAT-A-AAGAACTCATCTAAAGAGGAAGAAGAAGTTTATAATCTAAA
* * *
6274911 GAACTTATTCAACCTTTTGCTCGATTCTATCGCAGAATGATATAAAACATCATCAACA
64 GAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAAAACATCATCAACA
* *
6274969 TTTCCAGAAGGAGTTCGTAAT-AAGAACTCTTCTAAAGAGGAAGAAGAA-TTTCATAATCTGAAG
1 TTTCCAGAAGGAGTTCGTAATAAAGAACTCATCTAAAGAGGAAGAAGAAGTTT-ATAATCTAAAG
* * *
6275032 AACTTATTCAA-CTTATTGTTCGACTGTATCGCAGAAGGAGATAGAACATCATCAACA
65 AACTTATTCAACCTT-TTGCTCGACTCTATCGCAGAAGGAGATAAAACATCATCAACA
** * *
6275089 TTTCCAGAAGGAGTTTATAATCAGAAGAACTCATCTGAAGAAGAAGAA
1 TTTCCAGAAGGAGTTCGTAAT-A-AAGAACTCATCTAAAGAGGAAGAA
6275137 CTTGTTCAAC
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
119 6 0.04
120 101 0.68
123 42 0.28
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (121 bp):
TTTCCAGAAGGAGTTCGTAATAAAGAACTCATCTAAAGAGGAAGAAGAAGTTTATAATCTAAAGA
ACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAAAACATCATCAACA
Done.