Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006750.1 Hibiscus syriacus cultivar Beakdansim tig00016988_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: 333982
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:3819 original size:15 final size:15
Alignment explanation
Indices: 3799--3833 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3789 TGAGTGTTGA
3799 GAAGCAAGCAGACGG
1 GAAGCAAGCAGACGG
3814 GAAGCAAGCAGACGG
1 GAAGCAAGCAGACGG
3829 GAAGC
1 GAAGC
3834 TTAGCGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAGCAAGCAGACGG
Found at i:4938 original size:29 final size:30
Alignment explanation
Indices: 4911--4972 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4901 CGCATTAATT
4911 TAACCCTCGAAGTTATTTA-GGGCATAATCA
1 TAACCC-CGAAGTTATTTATGGGCATAATCA
*
4941 TAGCCCCGAAGTTATTTATGGGCATAATCA
1 TAACCCCGAAGTTATTTATGGGCATAATCA
4971 TA
1 TA
4973 GCCCTCCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (30 bp):
TAACCCCGAAGTTATTTATGGGCATAATCA
Found at i:4966 original size:30 final size:29
Alignment explanation
Indices: 4918--4976 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
4908 ATTTAACCCT
4918 CGAAGTTATTTAGGGCATAATCATAGCCC
1 CGAAGTTATTTAGGGCATAATCATAGCCC
4947 CGAAGTTATTTATGGGCATAATCATAGCCC
1 CGAAGTTATTTA-GGGCATAATCATAGCCC
4977 TCCAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (29 bp):
CGAAGTTATTTAGGGCATAATCATAGCCC
Found at i:10713 original size:294 final size:298
Alignment explanation
Indices: 10037--11266 Score: 2120
Period size: 294 Copynumber: 4.2 Consensus size: 298
10027 GTTATAAATC
*
10037 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATCAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAAA
* *
10102 TAATCACTATTGTATGATTATGATAGTTTAATGAATCATTTACAACTTGGTGAAAATTATATGGC
66 TAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
*
10167 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACACGGTT
131 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACATGGTT
* *
10232 TTGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGAT
196 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGAT
10297 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
261 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
* *
10335 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTGTAAACTTATAAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAAA
* * * *
10400 TAATCACAATCTTATGATTATGATAGTTTAATGATTCATTTACAGCTTAGTGAAAATTATATGGC
66 TAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
*
10465 AAGTTAAATGTTGATGATAGGTATATTAAAATAAA-T-T-ATAATCATATCTAATTTACATGGTT
131 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACATGGTT
*
10527 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATG-AATTTATTGAT
196 TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGAT
10591 CTTATCTTAATTT-AAATAAATTAATAAATTTGAACTT
261 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
10628 GGTATTATACTTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAA
1 GGTATTATAC-TTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAA
* *
10693 ATAAACACTATTTTATGATTATGATAGTTTAATGAATCATTTACATCTTAGTGAAAATTATATGG
65 ATAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
*
10758 CAAGTTAAATGTTGATGATAGGTATATTAATATAAATTATCATAATCATACCTAATTTACATGGT
130 CAAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACATGGT
*
10823 TTTGCTAAATCTTTACGTATCCAATTATATCTTTAAATTAATATAATAATTATGCATTTTATTGA
195 TTTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGA
* *
10888 TCTTATCTTAATCTAAATTAAATTAATAAATTTGAACTT
260 TCTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
* * *
10927 GGTATTATACTTTTCAATTAAAATGGTTATTAAATTTATTAAAATATTATTTAAATTTATCAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATT-TTTAAATTTATAAAAA
*
10992 ATAATCACTATTTTGTGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
65 ATAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
*
11057 CAAGTTAAATGTTGATGATAGGTATATTAAAAT-AA--AT--TAATCATATCTAATTTACATGGT
130 CAAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACATGGT
11117 TTTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGA
195 TTTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGA
11182 TCTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
260 TCTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
* * *
11221 GGTGTTATACTCTTCAAATAAAATGGTCATTAAATTTATAAAAATA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATA
11267 ATCACTATTT
Statistics
Matches: 882, Mismatches: 43, Indels: 18
0.94 0.05 0.02
Matches are distributed among these distances:
293 34 0.04
294 334 0.38
295 75 0.09
296 4 0.00
297 77 0.09
298 216 0.24
299 142 0.16
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (298 bp):
GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAAA
TAATCACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACATGGTT
TTGCTAAATCTTTACGTATCCAATTATATCTTTAAATCAATATAATAATTATGCATTTTATTGAT
CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTT
Found at i:10967 original size:21 final size:21
Alignment explanation
Indices: 10943--10991 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
10933 ATACTTTTCA
*
10943 ATTAAAATGGTTA-TTAAATTT
1 ATTAAAAT-ATTATTTAAATTT
10964 ATTAAAATATTATTTAAATTT
1 ATTAAAATATTATTTAAATTT
*
10985 ATCAAAA
1 ATTAAAA
10992 ATAATCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
ATTAAAATATTATTTAAATTT
Found at i:11180 original size:592 final size:590
Alignment explanation
Indices: 10037--11364 Score: 2223
Period size: 592 Copynumber: 2.3 Consensus size: 590
10027 GTTATAAATC
10037 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATCAAAAA
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTAT-AAAAA
* *
10102 TAATCACTATTGTATGATTATGATAGTTTAATGAATCATTTACAACTTGGTGAAAATTATATGGC
65 TAA-CACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGC
10167 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACACGGTT
129 AAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACACGGTT
10232 TTGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGAT
194 TTGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGAT
*
10297 CTTATCTTAATTTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGT
259 CTTATCTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGT
10362 CATTAAATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGT
324 CATTAAATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGT
* *
10427 TTAATGATTCATTTACAGCTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATT
389 TTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATT
10492 AAAATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATC
454 AAAATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATC
10557 TTTAAATCAATATAATAATTATGAATTTATTGATCTTATCTTAATTT-AAATAAATTAATAAATT
519 TTTAAATCAATATAATAATTATGAATTTATTGATCTTATCTTAATTTAAAATAAATTAATAAATT
10621 TGAACTT
584 TGAACTT
10628 GGTATTATACTTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAA
1 GGTATTATAC-TTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTAT-AAAA
*
10693 ATAAACACTATTTTATGATTATGATAGTTTAATGAATCATTTACATCTTAGTGAAAATTATATGG
64 AT-AACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGG
* *
10758 CAAGTTAAATGTTGATGATAGGTATATTAATATAAATTATCATAATCATACCTAATTTACATGGT
128 CAAGTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACACGGT
* * *
10823 TTTGCTAAATCTTTACGTATCCAATTATATCTTTAAATTAATATAATAATTATGCATTTTATTGA
193 TTTGCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGA
* *
10888 TCTTATCTTAATCTAAATTAAATTAATAAATTTGAACTTGGTATTATACTTTTCAATTAAAATGG
258 TCTTATCTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGG
* * * * * * *
10953 TTATTAAATTTATTAAAATATTATTTAAATTTATCAAAAATAATCACTATTTTGTGATTATGATA
323 TCATTAAATTTATTAAAATATT-TGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATA
11018 GTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATA
387 GTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATA
11083 TTAAAATAAA-T-TAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATA
452 TTAAAATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATA
*
11146 TCTTTAAATCAATATAATAATTATGCATTTTATTGATCTTATCTTAATTTAAAATAAATTAATAA
517 TCTTTAAATCAATATAATAATTATG-AATTTATTGATCTTATCTTAATTTAAAATAAATTAATAA
11211 ATTTGAACTT
581 ATTTGAACTT
* *
11221 GGTGTTATACTCTTCAAATAAAATGGTCATTAAA--T-TT---ATA-----AAA---AT---AAT
1 GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAAT
*
11269 --CACTATTTTATGATTATGATAGTTTAATGAATCATTTACAGCTTAGTGAAAATTATATGGCAA
66 AACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAA
11332 GTTAAATGTTGATGATAGGTATATTAAAATAAA
131 GTTAAATGTTGATGATAGGTATATTAAAATAAA
11365 AAAATTAGCT
Statistics
Matches: 706, Mismatches: 26, Indels: 30
0.93 0.03 0.04
Matches are distributed among these distances:
571 94 0.13
574 3 0.00
578 2 0.00
581 3 0.00
586 3 0.00
589 2 0.00
590 1 0.00
591 87 0.12
592 367 0.52
593 144 0.20
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (590 bp):
GGTATTATACTTTTCAAATAAAATGGTCATTAAATTTATTAAAATATTTTTAAATTTATAAAAAT
AACACTATTTTATGATTATGATAGTTTAATGAATCATTTACAACTTAGTGAAAATTATATGGCAA
GTTAAATGTTGATGATAGGTATATTAAAATAAATTATCATAATCATACCTAATTTACACGGTTTT
GCTAAATCTTTACGTATCCAACTATAACTTTAAATCAATATAATAATTATGCATTTTATTGATCT
TATCTTAATCTAAAATAAATTAATAAATTTGAACTTGGTATTATACTTTTCAAATAAAATGGTCA
TTAAATTTATTAAAATATTTGTAAACTTATAAAAAATAATCACAATCTTATGATTATGATAGTTT
AATGAATCATTTACAACTTAGTGAAAATTATATGGCAAGTTAAATGTTGATGATAGGTATATTAA
AATAAATTATAATCATATCTAATTTACATGGTTTTGCTAAATCTTTACGTATCCAATTATATCTT
TAAATCAATATAATAATTATGAATTTATTGATCTTATCTTAATTTAAAATAAATTAATAAATTTG
AACTT
Found at i:14054 original size:17 final size:17
Alignment explanation
Indices: 14032--14064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14022 CAAAAATTTA
14032 TATATAAAAAATTAAAT
1 TATATAAAAAATTAAAT
*
14049 TATATAAAAATTTAAA
1 TATATAAAAAATTAAA
14065 ATTTTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATATAAAAAATTAAAT
Found at i:30597 original size:60 final size:60
Alignment explanation
Indices: 30530--30661 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
30520 TTTAGAATGG
* *
30530 GGATCATAGTTTACGGGTGAAATTAGAATGCTTACA-AGTTTAAGGACTAATGTAAAATAA
1 GGATCATAGTTTACGGGTGAAATTAGAATACTTA-ATAGTTTAAGAACTAATGTAAAATAA
* * * * * * *
30590 GGGTCATAGTCTAGGGGTGAACTTAGAATACTTAATGGTTTAAGAACTAATTTAGAATAA
1 GGATCATAGTTTACGGGTGAAATTAGAATACTTAATAGTTTAAGAACTAATGTAAAATAA
*
30650 GGAACATAGTTT
1 GGATCATAGTTT
30662 GAGGATGTAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 58 0.98
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (60 bp):
GGATCATAGTTTACGGGTGAAATTAGAATACTTAATAGTTTAAGAACTAATGTAAAATAA
Found at i:32324 original size:21 final size:22
Alignment explanation
Indices: 32283--32330 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
32273 TAAAATAATT
32283 ATTTAATTATTTTTATGTTTAAA
1 ATTTAATTATTTTTA-GTTTAAA
32306 ATTT-ATTATTTTCTA-TTTAAA
1 ATTTAATTATTTT-TAGTTTAAA
32327 ATTT
1 ATTT
32331 GACGGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTAATTATTTTTAGTTTAAA
Found at i:33035 original size:16 final size:16
Alignment explanation
Indices: 33014--33056 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
33004 GCCGATTTGA
33014 AATTATTCT-TTCAAAT
1 AATTATT-TATTCAAAT
*
33030 AATTATTTATTTAAAT
1 AATTATTTATTCAAAT
33046 AATTATTTATT
1 AATTATTTATT
33057 TGAGTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTATTTATTCAAAT
Found at i:33057 original size:16 final size:16
Alignment explanation
Indices: 33026--33057 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33016 TTATTCTTTC
33026 AAATAATTATTTATTT
1 AAATAATTATTTATTT
33042 AAATAATTATTTATTT
1 AAATAATTATTTATTT
33058 GAGTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATAATTATTTATTT
Found at i:40844 original size:4 final size:4
Alignment explanation
Indices: 40835--40860 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
40825 TATGACATTG
40835 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
40861 TATACGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:42560 original size:13 final size:13
Alignment explanation
Indices: 42521--42561 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
42511 TTTGACAAAC
*
42521 TGATTTGATTAAC
1 TGATTTGATTAAT
**
42534 TGATTTGAGAAAT
1 TGATTTGATTAAT
42547 TGATTTGATTAAT
1 TGATTTGATTAAT
42560 TG
1 TG
42562 TTTATATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (13 bp):
TGATTTGATTAAT
Found at i:43940 original size:30 final size:31
Alignment explanation
Indices: 43906--43965 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
43896 TTTCGCCTCC
*
43906 TAAAATTTTATAAATTCAAATTCG-TCCCCT
1 TAAAATTTTATAAATCCAAATTCGCTCCCCT
* *
43936 TAAAATTTTATGAATCCAAGTTCGCTCCCC
1 TAAAATTTTATAAATCCAAATTCGCTCCCC
43966 CTAATATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAAATTTTATAAATCCAAATTCGCTCCCCT
Found at i:44725 original size:2 final size:2
Alignment explanation
Indices: 44714--44764 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
44704 TTCGGCCACC
44714 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44755 AT AT AT AT AT
1 AT AT AT AT AT
44765 TGGGTTAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:45121 original size:2 final size:2
Alignment explanation
Indices: 45114--45171 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
45104 GGATCCTAAC
45114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45156 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
45172 TTACACCAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49972 original size:31 final size:31
Alignment explanation
Indices: 49934--50018 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
49924 AGTTTTGAAA
* *
49934 AAAATTGAAAGTTTAGGTATTAAAACATACC
1 AAAATTGATAGTTTATGTATTAAAACATACC
* *
49965 AAAATTGATAGTTTATGTACTAAAATATACC
1 AAAATTGATAGTTTATGTATTAAAACATACC
*
49996 -AAACTGATAGTTTATGTATTAAA
1 AAAATTGATAGTTTATGTATTAAA
50019 TACGTGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 21 0.44
31 27 0.56
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (31 bp):
AAAATTGATAGTTTATGTATTAAAACATACC
Found at i:52342 original size:16 final size:15
Alignment explanation
Indices: 52319--52374 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 15
52309 CCCCGCCCCG
52319 ATTATATATATATAT
1 ATTATATATATATAT
52334 A-TATATATA-ATAT
1 ATTATATATATATAT
* *
52347 TTTATATAT-TTTAT
1 ATTATATATATATAT
52361 ATTA-AT-TATATAT
1 ATTATATATATATAT
52374 A
1 A
52375 AAATATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.32
14 21 0.62
15 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATATATATAT
Found at i:53303 original size:17 final size:17
Alignment explanation
Indices: 53281--53319 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
53271 TGAATCAAAT
53281 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
53298 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
53315 -AATTA
1 TAATTA
53320 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:60633 original size:22 final size:21
Alignment explanation
Indices: 60594--60670 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
60584 ATATGTCCCC
* *
60594 ATCAGTGCTAAGGTACTTTAGT
1 ATCAATGCTAA-GCACTTTAGT
**
60616 ATCAATGCTAATGCACTTCCGT
1 ATCAATGCTAA-GCACTTTAGT
* * *
60638 ATCAGTACTGAGACACTTTAGT
1 ATCAATGCTAAG-CACTTTAGT
*
60660 ACCAATGCTAA
1 ATCAATGCTAA
60671 AGCATTTTCG
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (21 bp):
ATCAATGCTAAGCACTTTAGT
Found at i:61824 original size:15 final size:15
Alignment explanation
Indices: 61804--61833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61794 CATTTTGTCG
61804 CATCCGAACGAGATC
1 CATCCGAACGAGATC
61819 CATCCGAACGAGATC
1 CATCCGAACGAGATC
61834 GACCTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
CATCCGAACGAGATC
Found at i:62688 original size:31 final size:30
Alignment explanation
Indices: 62653--62760 Score: 144
Period size: 31 Copynumber: 3.5 Consensus size: 30
62643 TTCAACGTTC
*
62653 AAGTGACCAAAACTTAATAAAATTATAATGT
1 AAGTGACCAAAACTTAATAAAATAATAA-GT
* *
62684 AAGTGACCAAAACTTAATAAAATGATAACAT
1 AAGTGACCAAAACTTAATAAAATAATAA-GT
* *
62715 TAGTGACCAAAAATTAATAAAATAATAAGT
1 AAGTGACCAAAACTTAATAAAATAATAAGT
*
62745 AAGTGAACAAAACTTA
1 AAGTGACCAAAACTTA
62761 CGTGACCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 14 0.21
31 53 0.79
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (30 bp):
AAGTGACCAAAACTTAATAAAATAATAAGT
Found at i:65648 original size:28 final size:28
Alignment explanation
Indices: 65601--65655 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
65591 CTGAAATAAA
*
65601 GATTTTCAAAGTTTGGGTTTTTTTTTAC
1 GATTTTCAAAGTTTGGGTTTTTCTTTAC
*
65629 GATTTTCAAAAGTTT-TGTTTTTCTTTA
1 GATTTTC-AAAGTTTGGGTTTTTCTTTA
65656 AATAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.58
Consensus pattern (28 bp):
GATTTTCAAAGTTTGGGTTTTTCTTTAC
Found at i:69365 original size:18 final size:18
Alignment explanation
Indices: 69339--69373 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69329 AAAAAAAAGC
*
69339 AATTTAATAATAATAATG
1 AATTAAATAATAATAATG
*
69357 AATTAAATATTAATAAT
1 AATTAAATAATAATAAT
69374 TATTAGTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTAAATAATAATAATG
Found at i:75891 original size:12 final size:12
Alignment explanation
Indices: 75874--75900 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75864 AGCGAGTGAG
75874 ACATGAACTCAA
1 ACATGAACTCAA
75886 ACATGAACTCAA
1 ACATGAACTCAA
75898 ACA
1 ACA
75901 GGTAACTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.07, T:0.15
Consensus pattern (12 bp):
ACATGAACTCAA
Found at i:82919 original size:2 final size:2
Alignment explanation
Indices: 82912--82946 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
82902 TCAATTTGTG
*
82912 TA TA TA TA TA TA TA CA 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 T
82947 TGCAGATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:90076 original size:27 final size:27
Alignment explanation
Indices: 90014--90069 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
90004 GTTTACCATT
90014 AGAAGAAAAGATCTTTGACATGAGTAC
1 AGAAGAAAAGATCTTTGACATGAGTAC
90041 AGAAGAAAAGATCTTTGACATGAGTAC
1 AGAAGAAAAGATCTTTGACATGAGTAC
90068 AG
1 AG
90070 CTGAAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (27 bp):
AGAAGAAAAGATCTTTGACATGAGTAC
Found at i:90444 original size:2 final size:2
Alignment explanation
Indices: 90437--90467 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
90427 TTGTTGGAAT
90437 TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
90468 CACCTTCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:92515 original size:61 final size:58
Alignment explanation
Indices: 92374--92522 Score: 165
Period size: 58 Copynumber: 2.5 Consensus size: 58
92364 AAAAATTAGA
* * * *
92374 GGTCCTTAATAATTAGGGTAGAAAGTGAGGACAATTTTATAAAATTTAAGAAAATAAT
1 GGTCCTTAATAATTAAGATAGAAAGTGAGGACAATTTTATAAAATTTAAAAAAAAAAT
* * * *
92432 GGGCCTTAATAATTAAGTTAGAAAGT-AGAGATATTTTTATAAAATTTAAAAAAAAAAT
1 GGTCCTTAATAATTAAGATAGAAAGTGAG-GACAATTTTATAAAATTTAAAAAAAAAAT
* *
92490 AGGAATCCTTAAGAATTAAGATAGAAAATGAGG
1 -GG--TCCTTAATAATTAAGATAGAAAGTGAGG
92523 CCCTCAACTG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
57 2 0.03
58 48 0.64
59 2 0.03
61 21 0.28
62 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (58 bp):
GGTCCTTAATAATTAAGATAGAAAGTGAGGACAATTTTATAAAATTTAAAAAAAAAAT
Found at i:94079 original size:20 final size:18
Alignment explanation
Indices: 94045--94083 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
94035 AAATTTGAGC
94045 AATACTAGTAGTATCGAT
1 AATACTAGTAGTATCGAT
94063 AATACCTAGTGAGTATCGAT
1 AATA-CTAGT-AGTATCGAT
94083 A
1 A
94084 TTTCCCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (18 bp):
AATACTAGTAGTATCGAT
Found at i:107055 original size:18 final size:19
Alignment explanation
Indices: 107032--107070 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
107022 AAATTTAAAG
107032 ATAAAAATTA-TTAAAAAT
1 ATAAAAATTATTTAAAAAT
107050 ATAAAAATTATTTAAAAAT
1 ATAAAAATTATTTAAAAAT
107069 AT
1 AT
107071 TATAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAAATTATTTAAAAAT
Found at i:107065 original size:11 final size:10
Alignment explanation
Indices: 107033--107072 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
107023 AATTTAAAGA
107033 TAAAAATTAT
1 TAAAAATTAT
107043 TAAAAA-TA-
1 TAAAAATTAT
107051 TAAAAATTATT
1 TAAAAATTA-T
107062 TAAAAA-TAT
1 TAAAAATTAT
107071 TA
1 TA
107073 TAATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.22
9 7 0.26
10 8 0.30
11 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:107766 original size:37 final size:37
Alignment explanation
Indices: 107693--107767 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
107683 GTTGAAAAAT
* *
107693 ATTTATATATTTTTTTAAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTAAAAAAATTAAAAATCATAAA
* *
107730 ATTTATATATTTTTTTTTATAAAATTAAAAAT-ATAAA
1 ATTTATATA-TTTTTTTAAAAAAATTAAAAATCATAAA
107767 A
1 A
107768 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 15 0.45
38 18 0.55
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTATATATTTTTTTAAAAAAATTAAAAATCATAAA
Found at i:108579 original size:13 final size:13
Alignment explanation
Indices: 108563--108587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108553 CTTTTTGTCT
108563 AAAATTTTCAATG
1 AAAATTTTCAATG
108576 AAAATTTTCAAT
1 AAAATTTTCAAT
108588 ATACATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAATTTTCAATG
Found at i:115316 original size:30 final size:29
Alignment explanation
Indices: 115280--115354 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
115270 AAAATTTGTT
115280 TTCGTCCCCTCTAAAATTTATAAGTTCAAA
1 TTCGTCCCCTC-AAAATTTATAAGTTCAAA
* * * *
115310 TTCGTCCCCTGAAATTTTATAAGTTGAAG
1 TTCGTCCCCTCAAAATTTATAAGTTCAAA
*
115339 TTTGTCCCCTCAAAAT
1 TTCGTCCCCTCAAAAT
115355 GTCGGGTCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 28 0.74
30 10 0.26
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (29 bp):
TTCGTCCCCTCAAAATTTATAAGTTCAAA
Found at i:116097 original size:49 final size:49
Alignment explanation
Indices: 116026--116119 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
116016 CCGTCTCGGA
*
116026 GTCTCCTCTTGAGCTTCGAGATATCCCGATAAAGAGAGTTCGATCTCGC
1 GTCTCCTCTTGAGCTTCCAGATATCCCGATAAAGAGAGTTCGATCTCGC
*
116075 GTCTCCTCTTGAGCTTCCAGATATCCCGATAAAGAGAGTTTGATC
1 GTCTCCTCTTGAGCTTCCAGATATCCCGATAAAGAGAGTTCGATC
116120 ATCAAAGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
GTCTCCTCTTGAGCTTCCAGATATCCCGATAAAGAGAGTTCGATCTCGC
Found at i:116697 original size:15 final size:15
Alignment explanation
Indices: 116677--116707 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
116667 GAAATCTTGC
116677 AACATGGTTCAACCG
1 AACATGGTTCAACCG
116692 AACATGGTTCAACCG
1 AACATGGTTCAACCG
116707 A
1 A
116708 GGAGATTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (15 bp):
AACATGGTTCAACCG
Found at i:118827 original size:24 final size:25
Alignment explanation
Indices: 118756--118844 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 25
118746 TAATATAAAA
*
118756 TAATTTATATGATATAAAATTAAATATCT
1 TAATTTATAT--TAAAAAATT-AATAT-T
*
118785 ATAATATATATTAAAAAATTAATATT
1 -TAATTTATATTAAAAAATTAATATT
118811 TAATTTAT-TTAAAAAATTAATATT
1 TAATTTATATTAAAAAATTAATATT
* *
118835 AAATTAATAT
1 TAATTTATAT
118845 CTATAATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
24 22 0.42
25 8 0.15
26 1 0.02
27 5 0.09
28 8 0.15
30 9 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TAATTTATATTAAAAAATTAATATT
Found at i:118840 original size:11 final size:11
Alignment explanation
Indices: 118824--118924 Score: 55
Period size: 12 Copynumber: 8.6 Consensus size: 11
118814 TTTATTTAAA
118824 AAATTAATATT
1 AAATTAATATT
118835 AAATTAATATCT
1 AAATTAATAT-T
118847 ATAA-T-ATATT
1 A-AATTAATATT
118857 AAAATATTAATATT
1 --AA-ATTAATATT
* *
118871 TAATTTAT-TT
1 AAATTAATATT
118881 AAAAATTAATATT
1 --AAATTAATATT
* *
118894 AAAATTAAAATC
1 -AAATTAATATT
*
118906 AAATATAATATA
1 AAAT-TAATATT
118918 AAATTAA
1 AAATTAA
118925 ATAAAACCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
10 3 0.04
11 27 0.38
12 31 0.44
13 5 0.07
14 5 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATTAATATT
Found at i:118866 original size:36 final size:35
Alignment explanation
Indices: 118800--118882 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 35
118790 ATATATTAAA
*
118800 AAATTAATATTTAATTTATTTAAAAAATTAATATT
1 AAATTAATATTTAATATATTTAAAAAATTAATATT
*
118835 AAATTAATATCTATAATATA-TTAAAATATTAATATT
1 AAATTAATAT-T-TAATATATTTAAAAAATTAATATT
*
118871 TAATT--TATTTAA
1 AAATTAATATTTAA
118883 AAATTAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 3 0.07
33 1 0.02
34 3 0.07
35 10 0.23
36 20 0.47
37 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (35 bp):
AAATTAATATTTAATATATTTAAAAAATTAATATT
Found at i:118867 original size:60 final size:61
Alignment explanation
Indices: 118767--118924 Score: 211
Period size: 60 Copynumber: 2.6 Consensus size: 61
118757 AATTTATATG
*
118767 ATATAAAATTAAATATCTATAATATATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
1 ATATTAAATT-AATATCTATAATATATATTAAAAAATTAATATTTAATTTATTT-AAAAATTA
*
118830 ATATTAAATTAATATCTAT-A-ATATATTAAAATATTAATATTTAATTTATTTAAAAATTA
1 ATATTAAATTAATATCTATAATATATATTAAAAAATTAATATTTAATTTATTTAAAAATTA
* *
118889 ATATTAAAATTAAAATC-A-AATATA-A-TATAAAATTAA
1 ATATT-AAATTAATATCTATAATATATATTAAAAAATTAA
118925 ATAAAACCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
58 9 0.10
59 16 0.18
60 43 0.49
61 1 0.01
62 9 0.10
63 9 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (61 bp):
ATATTAAATTAATATCTATAATATATATTAAAAAATTAATATTTAATTTATTTAAAAATTA
Found at i:118874 original size:23 final size:23
Alignment explanation
Indices: 118837--118904 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
118827 TTAATATTAA
118837 ATTAATATCTATAATATATTAAAAT
1 ATTAATAT-T-TAATATATTAAAAT
*
118862 ATTAATATTTAATTTATTTAAAA-
1 ATTAATATTTAATATA-TTAAAAT
118885 ATTAATA-TTAA-A-ATTAAAAT
1 ATTAATATTTAATATATTAAAAT
118905 CAAATATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
22 4 0.10
23 13 0.33
24 7 0.18
25 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTAATATTTAATATATTAAAAT
Found at i:121638 original size:17 final size:17
Alignment explanation
Indices: 121616--121669 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
121606 AATGTTAATA
121616 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
121633 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
121650 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
121667 TTT
1 TTT
121670 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:123274 original size:21 final size:21
Alignment explanation
Indices: 123248--123320 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
123238 TATGCCATCT
*
123248 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
123269 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
123290 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
123311 CCGCAGGGTT
1 CCGCAGGGTT
123321 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:123863 original size:28 final size:28
Alignment explanation
Indices: 123831--123925 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 28
123821 GATAAATGTT
* * *
123831 TTTAAAATACAAATTATATTATTTGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
123859 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
123887 TTTAAAATTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAA-TAAAA-AT-AA-TAT--TATTCGAAA
123921 TTTAA
1 TTTAA
123926 CATTAAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
28 32 0.55
29 5 0.09
30 2 0.03
31 2 0.03
32 3 0.05
34 14 0.24
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCGAAA
Found at i:123931 original size:34 final size:34
Alignment explanation
Indices: 123851--123932 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
123841 AAATTATATT
* *
123851 ATTTGAAATTTAAAATAAAAATAATATTATTCGAA
1 ATTT-AAAATTAAAATAAAAATAATAGTATTCGAA
* *
123886 ATTTAAAATTAAAATATAAATTATAGTATTCGAA
1 ATTTAAAATTAAAATAAAAATAATAGTATTCGAA
*
123920 ATTTAACATTAAA
1 ATTTAAAATTAAA
123933 TTTTAACTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (34 bp):
ATTTAAAATTAAAATAAAAATAATAGTATTCGAA
Found at i:124576 original size:128 final size:128
Alignment explanation
Indices: 124297--124774 Score: 843
Period size: 128 Copynumber: 3.7 Consensus size: 128
124287 ACAATCCATC
*
124297 TAGTGTCCCCGAGGGACATGAGTGACCTAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
124362 GGAAGGCGCGCCCCCGGG-ACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
124424 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACACATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
124489 GGAAGGCGCGCCCCCGAGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
124552 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
124617 GGAAGGCGCGCCCCCGGGAACGAGTCTTCAAGTCCCCTGAGAAATAATAGGTACTGATAT-ATC
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGA-A
*
124680 TAGTGTCCCCGAGGGACATGAGTGACATAATAGAGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
124745 GGAAGGTGCGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
124775 TGTGAATAGT
Statistics
Matches: 333, Mismatches: 16, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
127 81 0.24
128 252 0.76
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:124868 original size:8 final size:8
Alignment explanation
Indices: 124855--124895 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
124845 TCACAAGCTT
124855 TCAAATTC
1 TCAAATTC
124863 TCAAATTC
1 TCAAATTC
* *
124871 CCAAACTC
1 TCAAATTC
124879 T-AAATTC
1 TCAAATTC
124886 TCAAATTC
1 TCAAATTC
124894 TC
1 TC
124896 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:127908 original size:46 final size:48
Alignment explanation
Indices: 127848--127952 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
127838 TGTTATCCAC
*
127848 AAAAAGAAATCCTAACCTCATGATATCTAATTCGCATGC-TTATTCAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCAA
* *
127895 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCATTTATTCGAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTC-AA
*
127944 AAAACGAAA
1 AAAAAGAAA
127953 ATAAATGACT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 27 0.54
47 8 0.16
48 6 0.12
49 9 0.18
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (48 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCAA
Found at i:129727 original size:27 final size:27
Alignment explanation
Indices: 129678--129729 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
129668 ATCAAGAATG
* *
129678 AATCAGTGACCTAAACACGAAATACTA
1 AATCAATGACCTAAACACAAAATACTA
* *
129705 AATCAATGACCTAAATATAAAATAC
1 AATCAATGACCTAAACACAAAATAC
129730 ACATAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.08, T:0.21
Consensus pattern (27 bp):
AATCAATGACCTAAACACAAAATACTA
Found at i:134329 original size:27 final size:26
Alignment explanation
Indices: 134273--134327 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
134263 TTGCTAGTAT
134273 AAAATTAAATTATCAATAAAAAATTTA
1 AAAATTAAATTAT-AATAAAAAATTTA
134300 AAAATTAAATTAT-AT-AAAAATTTA
1 AAAATTAAATTATAATAAAAAATTTA
134324 AAAA
1 AAAA
134328 AATTTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 13 0.46
25 2 0.07
27 13 0.46
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTAAATTATAATAAAAAATTTA
Found at i:141288 original size:3 final size:3
Alignment explanation
Indices: 141280--141309 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
141270 ATGAACAAGC
141280 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
141310 GTTTGAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:141709 original size:32 final size:32
Alignment explanation
Indices: 141651--141711 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
141641 TTTCCAGAGA
*
141651 AAGTGAATCACTTTAAGCTTAGAACTCAATGT
1 AAGTGAATCACTTTAAGCTCAGAACTCAATGT
*
141683 AAGTGAATCACTTT-AGTCTCATAACTCAA
1 AAGTGAATCACTTTAAG-CTCAGAACTCAA
141712 GAACATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (32 bp):
AAGTGAATCACTTTAAGCTCAGAACTCAATGT
Found at i:147461 original size:3 final size:3
Alignment explanation
Indices: 147453--147479 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
147443 TCATACATTC
147453 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
147480 TGATCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:148203 original size:2 final size:2
Alignment explanation
Indices: 148160--148190 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
148150 TGTGTGCGTG
*
148160 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
148191 GAAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:152349 original size:51 final size:51
Alignment explanation
Indices: 152280--152462 Score: 276
Period size: 51 Copynumber: 3.6 Consensus size: 51
152270 ACCCCCACCC
* *
152280 CCACCATCACCCACAGCTGGTGCATCATCGGTACCCCCACTAACGCTAGCA
1 CCACCATCACCCACAGCTGGTGCATCATCAGTACCCCCACTAATGCTAGCA
152331 CCACCATCACCCACAGCTGGTGCATCATCAGTACCCCCACTAATGCTAGCA
1 CCACCATCACCCACAGCTGGTGCATCATCAGTACCCCCACTAATGCTAGCA
** *
152382 CCACCATCACCCACAGCTGGTGCATCATCAGTACCCTTACCAATGCTAGCA
1 CCACCATCACCCACAGCTGGTGCATCATCAGTACCCCCACTAATGCTAGCA
* * * * *
152433 CCGCTATCACCCCCAACTGGTTCATCATCA
1 CCACCATCACCCACAGCTGGTGCATCATCA
152463 TCAACACCCC
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.19
Consensus pattern (51 bp):
CCACCATCACCCACAGCTGGTGCATCATCAGTACCCCCACTAATGCTAGCA
Found at i:152614 original size:69 final size:68
Alignment explanation
Indices: 152457--152614 Score: 156
Period size: 69 Copynumber: 2.3 Consensus size: 68
152447 AACTGGTTCA
* ** * * *
152457 TCATCATCAACACCCCCACATCCAACCGTTTCATCATCAGCACCCCCACCACCCCCACCCTCATC
1 TCATCATCAACACCACCACCCCCAACCGTTTCATCATCAGCACCCCCACCAACCCCACCCACAAC
152522 TAT
66 TAT
* * ** ** * *
152525 TCCATCACCAGCACTGCCACCCCCAATTGTTTCATCATCAGCGA-CGCCTCCAACCCCACCCACA
1 T-CATCATCAACACCACCACCCCCAACCGTTTCATCATCAGC-ACCCCCACCAACCCCACCCACA
152589 ACTAGT
64 ACTA-T
152595 TCATCATCAACACCACCACC
1 TCATCATCAACACCACCACC
152615 ACCACCACCA
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
68 1 0.01
69 66 0.94
70 3 0.04
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.18
Consensus pattern (68 bp):
TCATCATCAACACCACCACCCCCAACCGTTTCATCATCAGCACCCCCACCAACCCCACCCACAAC
TAT
Found at i:152666 original size:32 final size:32
Alignment explanation
Indices: 152628--152726 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
152618 ACCACCACCC
*
152628 CCCACAACTAGTTCATCATCAGCACCCCGCCA
1 CCCACAACTGGTTCATCATCAGCACCCCGCCA
* * * *
152660 CCCACAACCGGTTCATTATCAACACCTCCACCA
1 CCCACAACTGGTTCATCATCAGCACC-CCGCCA
*
152693 CCCAC-A-TGGTTCATCATCAGTACCCCCGCCA
1 CCCACAACTGGTTCATCATCAGCA-CCCCGCCA
152724 CCC
1 CCC
152727 CCACTGCCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
31 20 0.36
32 25 0.45
33 10 0.18
ACGTcount: A:0.26, C:0.47, G:0.09, T:0.17
Consensus pattern (32 bp):
CCCACAACTGGTTCATCATCAGCACCCCGCCA
Found at i:152725 original size:31 final size:33
Alignment explanation
Indices: 152628--152726 Score: 105
Period size: 31 Copynumber: 3.1 Consensus size: 33
152618 ACCACCACCC
**
152628 CCCACAACTAGTTCATCATCAGCA-CCCCGCCA
1 CCCACAACCGGTTCATCATCAGCACCCCCGCCA
* * * *
152660 CCCACAACCGGTTCATTATCAACACCTCCACCA
1 CCCACAACCGGTTCATCATCAGCACCCCCGCCA
* *
152693 CCCAC-A-TGGTTCATCATCAGTACCCCCGCCA
1 CCCACAACCGGTTCATCATCAGCACCCCCGCCA
152724 CCC
1 CCC
152727 CCACTGCCAC
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
31 22 0.41
32 21 0.39
33 11 0.20
ACGTcount: A:0.26, C:0.47, G:0.09, T:0.17
Consensus pattern (33 bp):
CCCACAACCGGTTCATCATCAGCACCCCCGCCA
Found at i:152797 original size:42 final size:42
Alignment explanation
Indices: 152733--152859 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
152723 ACCCCCACTG
*
152733 CCACCCCCTGCAACTGG-TCATCATCCGCACCCCCACCACCC
1 CCACCCCCCGCAACTGGTTCATCATCCGCACCCCCACCACCC
**
152774 CCACCCCCCGCAACTGGTTCATCA-CCAGCACCCGTACCACCC
1 CCACCCCCCGCAACTGGTTCATCATCC-GCACCCCCACCACCC
* * * *
152816 CCACCACCACCAACAACTAGTTCATCATCAGCACCCCCGCCACC
1 CCACC-CC-CC-GCAACTGGTTCATCATCCGCACCCCCACCACC
152860 GCCTGCTCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 18 0.25
42 24 0.34
43 2 0.03
44 2 0.03
45 24 0.34
46 1 0.01
ACGTcount: A:0.24, C:0.55, G:0.09, T:0.12
Consensus pattern (42 bp):
CCACCCCCCGCAACTGGTTCATCATCCGCACCCCCACCACCC
Found at i:164921 original size:25 final size:25
Alignment explanation
Indices: 164887--164951 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
164877 TAAAACTCAT
*
164887 GCCCTTTAAGGGCAATGGCATGTAA
1 GCCCTTTAAGGGCAATGGCATATAA
164912 GCCCTTTAAGGGCAATGGCATATAA
1 GCCCTTTAAGGGCAATGGCATATAA
*
164937 GCCCTTCCAAGGGCA
1 GCCCTT-TAAGGGCA
164952 CGAATTCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 30 0.81
26 7 0.19
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (25 bp):
GCCCTTTAAGGGCAATGGCATATAA
Found at i:168162 original size:15 final size:13
Alignment explanation
Indices: 168126--168155 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
168116 CTGATAATTT
168126 AAAA-AAATTAAA
1 AAAATAAATTAAA
168138 AAAATAAATTAAA
1 AAAATAAATTAAA
168151 AAAAT
1 AAAAT
168156 CCTAATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATTAAA
Found at i:171187 original size:30 final size:31
Alignment explanation
Indices: 171123--171193 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
171113 TTATGCTTTA
*
171123 TTATAATATTAAAATGACTATTTTGTAAAGTT
1 TTATAA-ATTAAAATGACTATTTTATAAAGTT
* *
171155 TTAATAAATTAAAAT-ATTATTTTAT-AATTT
1 TT-ATAAATTAAAATGACTATTTTATAAAGTT
171185 TTATAAATT
1 TTATAAATT
171194 TATTCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 7 0.20
30 6 0.17
31 8 0.23
32 10 0.29
33 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (31 bp):
TTATAAATTAAAATGACTATTTTATAAAGTT
Found at i:172566 original size:25 final size:27
Alignment explanation
Indices: 172537--172595 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
172527 TTAATACTCA
172537 AAATTTTG-G-TTAGTGATCAAAATAT
1 AAATTTTGAGTTTAGTGATCAAAATAT
*
172562 AAATTTTGAAAGTTTAGTGATCAAAGTAT
1 AAATTTTG--AGTTTAGTGATCAAAATAT
172591 AAATT
1 AAATT
172596 AAGAAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 8 0.28
28 1 0.03
29 20 0.69
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (27 bp):
AAATTTTGAGTTTAGTGATCAAAATAT
Found at i:172601 original size:29 final size:30
Alignment explanation
Indices: 172546--172608 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
172536 AAAATTTTGG
**
172546 TTAGTGATCAAAATATAAATTTTG-AAAGT
1 TTAGTGATCAAAATATAAATTAAGAAAAGT
*
172575 TTAGTGATCAAAGTATAAATTAAGAAAAGT
1 TTAGTGATCAAAATATAAATTAAGAAAAGT
172605 TTAG
1 TTAG
172609 AGACCTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (30 bp):
TTAGTGATCAAAATATAAATTAAGAAAAGT
Found at i:184017 original size:40 final size:39
Alignment explanation
Indices: 183942--184039 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
183932 TTTACAATTT
* * *
183942 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCAT-AGTAAGCCTTTAGAGCA-GATG
* *
183983 CTTAAATCCTTCGGGTCAT-GTAAGCCTTTAGAGCAGATG
1 -ATAAATCCTTCGGGCCATAGTAAGCCTTTAGAGCAGATG
*
184022 ATAAGTCCTTCGGGCCAT
1 ATAAATCCTTCGGGCCAT
184040 CCGTAAAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 15 0.31
39 4 0.08
40 14 0.29
42 15 0.31
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (39 bp):
ATAAATCCTTCGGGCCATAGTAAGCCTTTAGAGCAGATG
Found at i:184199 original size:209 final size:212
Alignment explanation
Indices: 183825--184221 Score: 647
Period size: 209 Copynumber: 1.9 Consensus size: 212
183815 GTGAAGCAAA
* *
183825 CCATCCATAAGACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATGATGTTTTAA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
* * *
183890 GAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTTACAATTTATAAGTCCTTCGG
66 GAAGATGGAAATTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * *
183955 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCA-TGTAAGCCTTTAGAGCAG
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATTGTAAGCCTTTAGAGCAG
184019 ATGATAAGTCCTTCGGG
196 ATGATAAGTCCTTCGGG
* * *
184036 CCATCCGTAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAAT-GAAAACGATGTTTTGA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
*
184100 GAAGAT-GAAATTTTGAAAACAAATAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGGAAATTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
*
184164 TCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATTTGTAAGCCTT
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAA-TTGTAAGCCTT
184222 CACCGAAGAG
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
209 96 0.56
210 19 0.11
211 56 0.33
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (212 bp):
CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
GAAGATGGAAATTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATTGTAAGCCTTTAGAGCAG
ATGATAAGTCCTTCGGG
Found at i:184316 original size:42 final size:42
Alignment explanation
Indices: 184257--184340 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
184247 ATCAGTAAGT
184257 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
*
184299 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
184341 ATAATTTGTA
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:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
Found at i:184331 original size:135 final size:122
Alignment explanation
Indices: 184258--184476 Score: 327
Period size: 122 Copynumber: 1.8 Consensus size: 122
184248 TCAGTAAGTG
184258 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
*
184323 GATGATTAAATCCTTCGGATAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGTAAAT
66 GATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGTAAAT
* * * ** *
184380 TCATCAGTAAGTCTTTCGAGCATGATGATGAAATCTTTCGGGTCATTTGTAAGTCTTTCGAGTGA
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAG-CA
* *
184445 -GATGA-TAAGTCCTTCGGGTCATTT-TAAGCCTT
65 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTT
184477 TTCGGAATAG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
120 8 0.09
121 16 0.18
122 62 0.71
123 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (122 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGTAAAT
Found at i:184449 original size:42 final size:41
Alignment explanation
Indices: 184386--184477 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
184376 AAATTCATCA
*
184386 GTAAGTCTTTCGAGCATGATGATGAAATCTTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGTCATTT
* *
184428 GTAAGTCTTTCGAGTGA-GATGATAAGTCCTTCGGGTCATTT
1 GTAAGTCTTTCGAG-CATGATGATAAATCCTTCGGGTCATTT
*
184469 -TAAGCCTTT
1 GTAAGTCTTT
184478 TCGGAATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.18
41 16 0.36
42 20 0.44
43 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (41 bp):
GTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGTCATTT
Found at i:184928 original size:53 final size:53
Alignment explanation
Indices: 184845--185096 Score: 391
Period size: 53 Copynumber: 4.8 Consensus size: 53
184835 AGAATCACAC
184845 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGT-AG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
184897 ACAAAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 -CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
184951 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGGAGAGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGA-GGGAGCGAACCCGTAAG
*
185005 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
185058 CAGAAGATTATTCAAATTCTACTCCCTGAA-CAAGAGGGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGA
185097 TCAGACCCGT
Statistics
Matches: 184, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
52 9 0.05
53 125 0.68
54 50 0.27
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:185033 original size:107 final size:107
Alignment explanation
Indices: 184845--185095 Score: 400
Period size: 107 Copynumber: 2.4 Consensus size: 107
184835 AGAATCACAC
* * *
184845 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGA-GGGAGCGAACCCGTAGACAAAAGATTGT
1 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGGAGAGAACCCGTAGACAAAAGATTAT
* *
184909 TCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
66 TCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
*
184951 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGGAGAGAACCCGTA-AGCAGAAGATTA
1 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGGAGAGAACCCGTAGA-CAAAAGATTA
185015 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
65 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
185058 CAGAAGATTATTCAAATTCTACTCCCTGAA-CAAGAGGG
1 CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGG
185096 ATCAGACCCG
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
106 44 0.33
107 91 0.67
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (107 bp):
CAGAAGATTGTTCAAGTTCTACTCCCTGAAGCAAGAGGGGAGAGAACCCGTAGACAAAAGATTAT
TCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:188504 original size:44 final size:44
Alignment explanation
Indices: 188441--188978 Score: 694
Period size: 44 Copynumber: 12.3 Consensus size: 44
188431 TATCAATCTT
* * * *
188441 CTTACCATTTATCCCATAAGCTTGTAAGCTTATTTTACTAATAAA
1 CTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
188486 CTTATCATTATTCCATAAGCTCGTAAGCTTATTTTACCAACATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * * * *
188530 CTTACCATTATACTATAAGCTTGTAAGCTTATTTTA-CATTCTA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
188573 CTTACCATTTTTTTCCATAAGCTCGTAAGCTTATTTTA-CAATCTA
1 CTTACCA--TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
188618 CTTACTATTTTTCTATAAGCTCGTAAGCTTATTTTA-CAATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
188661 CATACCATTATTCTATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
188705 ATTATCATTATTTCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
188749 -TTCATCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTT-ACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
188793 -TTCATCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTT-ACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
188837 CTCACCATTATTTCATAAGCTCGTAAGCTTATTTTA-CAATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * * *
188880 CTTAACATTTTTTCATAAGCTCGTAAGCTTACTTTACCAATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
188924 CATACCATTATTCTATAAGCTCGTAAGCTTATTTTA-CAATCTA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
188967 CTTACCATTATT
1 CTTACCATTATT
188979 GCATCACTAA
Statistics
Matches: 442, Mismatches: 45, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
43 136 0.31
44 262 0.59
45 44 0.10
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.42
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:188693 original size:21 final size:21
Alignment explanation
Indices: 188628--188693 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
188618 CTTACTATTT
188628 TTCTATAAGCTCGTAAGCTTA
1 TTCTATAAGCTCGTAAGCTTA
* * ** * *
188649 TTTTACAATATACAT-ACCATTA
1 TTCTATAAGCT-CGTAAGC-TTA
188671 TTCTATAAGCTCGTAAGCTTA
1 TTCTATAAGCTCGTAAGCTTA
188692 TT
1 TT
188694 TTACCAATAT
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
TTCTATAAGCTCGTAAGCTTA
Found at i:188857 original size:219 final size:218
Alignment explanation
Indices: 188446--188977 Score: 697
Period size: 219 Copynumber: 2.4 Consensus size: 218
188436 ATCTTCTTAC
* * * *
188446 CATTTATCCCATAAGCTTGTAAGCTTATTTTACTAATA-AACTTATCATTATTCCATAAGCTCGT
1 CATTT-TCTCATAAGCTCGTAAGCTTATTTTACCAATATAA-TTATCATTATTTCATAAGCTCGT
* * * *
188510 AAGCTTATTTTACCAACATACTTACCATTATACTATAAGCTTGTAAGCTTATTTTACATTCTACT
64 AAGCTTATTTTACCAACATACTTACCATTATACCATAAGCTCGTAAGCTTATTTTACAATATACT
* * * * *
188575 TACCATTTTTTTCCATAAGCTCGTAAGCTTATTTTACAATCTACTTACTATTTTTCTATAAGCTC
129 TA-CATATTATTCCATAAGCTCGTAAGCTTATTTTACAATATACTCACCATTTTTCTATAAGCTC
*
188640 GTAAGCTTATTTTACAATATACATAC
193 GTAAGCTTATTTTACAATATACATAA
188666 CATTATTCT-ATAAGCTCGTAAGCTTATTTTACCAATATAATTATCATTATTTCATAAGCTCGTA
1 CATT-TTCTCATAAGCTCGTAAGCTTATTTTACCAATATAATTATCATTATTTCATAAGCTCGTA
* * *
188730 AGCTTATTTTACCAATATA-TTCATCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA-
65 AGCTTATTTTACCAACATACTT-ACCATTATACCATAAGCTCGTAAGCTTATTTTA-CAATATAC
188793 TT-CATCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTCACCATTATTTC-ATAAG
128 TTACAT-ATTATTCCATAAGCTCGTAAGCTTATTTTA-CAATATACTCACCATT-TTTCTATAAG
*
188856 CTCGTAAGCTTATTTTACAATATACTTAA
190 CTCGTAAGCTTATTTTACAATATACATAA
* * *
188885 CATTTTTTCATAAGCTCGTAAGCTTACTTTACCAATATACA-TACCATTA-TTCTATAAGCTCGT
1 CATTTTCTCATAAGCTCGTAAGCTTATTTTACCAATATA-ATTATCATTATTTC-ATAAGCTCGT
188948 AAGCTTATTTTA-CAATC-TACTTACCATTAT
64 AAGCTTATTTTACCAA-CATACTTACCATTAT
188978 TGCATCACTA
Statistics
Matches: 277, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
217 3 0.01
218 48 0.17
219 207 0.75
220 18 0.06
221 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.42
Consensus pattern (218 bp):
CATTTTCTCATAAGCTCGTAAGCTTATTTTACCAATATAATTATCATTATTTCATAAGCTCGTAA
GCTTATTTTACCAACATACTTACCATTATACCATAAGCTCGTAAGCTTATTTTACAATATACTTA
CATATTATTCCATAAGCTCGTAAGCTTATTTTACAATATACTCACCATTTTTCTATAAGCTCGTA
AGCTTATTTTACAATATACATAA
Found at i:188870 original size:21 final size:21
Alignment explanation
Indices: 188844--188910 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
188834 ATACTCACCA
188844 TTATTTCATAAGCTCGTAAGC
1 TTATTTCATAAGCTCGTAAGC
* * ** *
188865 TTATTTTACAATATACTTAA-C
1 TTATTTCATAAGCT-CGTAAGC
*
188886 ATTTTTTCATAAGCTCGTAAGC
1 -TTATTTCATAAGCTCGTAAGC
188908 TTA
1 TTA
188911 CTTTACCAAT
Statistics
Matches: 31, Mismatches: 12, Indels: 6
0.63 0.24 0.12
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTATTTCATAAGCTCGTAAGC
Found at i:189138 original size:59 final size:60
Alignment explanation
Indices: 189116--190257 Score: 1076
Period size: 59 Copynumber: 19.4 Consensus size: 60
189106 ATATACTCAA
* * ** * * *
189116 TATGATTCCCTTCTCATTTTAGCATA-CAAAGTGC-CCTATATGGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* * * * *
189175 TATGTTTTCCTTAACATTTTAGCACA-CTTAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * * * * *
189234 TATGATCCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTGGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* * * * *
189293 TATGATTTCCTTAACGTTTTAGCACA-CTTAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * * * * * *
189352 TATGATCCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTAGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* *
189411 TATGATTCCCTTAACGTTTTAGCACA-CTTAGTGCTCCATATGGAAATCCATACATTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * *
189470 TATGATT-TCTTATCATTTTAGCACA-CTTAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * * * * * *
189528 TATGATCCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTAGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* *
189587 TATGATTCCCTTAACGTTTTAGCACA-CTTAGTGCTCCATATGGAAATCCATACATTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * *
189646 TATGATT-TCTTATCATTTTAGCACAT-TCAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * *
189704 TATGATTCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTGGAAATCC--ACATGTTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACAT-TT-AG
* *
189763 TATGATTTCCTTAAT-GTTTTAGCACA-CTTAGTGCTCCATATGGAAATCCATACATTTAG
1 TATGATTCCCTT-ATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * *
189822 TATGATT-TCTTATCATTTTAGCACAT-TCAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * * * *
189880 TATGATTCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTGGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* * *
189939 TATGATTTCCTTAACGTTTTAGCACA-CTTAGTGCTCCATATGGAAATCCATACATTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * *
189998 TATGATT-TCTTATCATTTTAGCACAT-TCAGTGCTCCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * * * *
190056 TATGATTCCCTTACCATTTTAGCACAT-ATAATGC-CCTATTTGGAAATCCATATATTCAA
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCC-ATATGGAAATCCATACATTTAG
* * * * *
190115 TATGATTTCCTTAACGTTTTAGCACA-CTTAGTGCTCCATATGAAAATACATACATTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
* * * * *
190174 TATGATT-TCTTATCATTTTAGCACAT-TCAGTGCTTCATATGGAAATACATACACTTAG
1 TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
*
190232 TATGATTTCCTTATCATTTT-GCACAT
1 TATGATTCCCTTATCATTTTAGCACAT
190258 GTAGTACCAT
Statistics
Matches: 877, Mismatches: 169, Indels: 75
0.78 0.15 0.07
Matches are distributed among these distances:
57 5 0.01
58 273 0.31
59 578 0.66
60 17 0.02
61 4 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (60 bp):
TATGATTCCCTTATCATTTTAGCACATCTTAGTGCTCCATATGGAAATCCATACATTTAG
Found at i:189527 original size:176 final size:176
Alignment explanation
Indices: 189183--190257 Score: 1743
Period size: 176 Copynumber: 6.1 Consensus size: 176
189173 AATATGTTTT
* * * * * * *
189183 CCTTAACATTTTAGCACACT-TAGTGCTCC-ATATGGAAATACATACACTT-AGTATGATCCCCT
1 CCTTACCATTTTAGCACA-TATAATGC-CCTATTTGGAAATCCATATA-TTCAATATGATTCCCT
* * * * * * * *
189245 TACCATTTTAGCACA-TATAATGC-CCTATTTGGAAATCCATATATTCAATATGATTTCCTTAAC
63 TAACGTTTTAGCACACT-TAGTGCTCC-ATATGGAAATCCATACATTTAGTATGATTT-CTTATC
* *
189308 GTTTTAGCACACTT-AGTGCTCCATATGGAAATACATACACTTAGTATGATCC
125 ATTTTAGCACA-TTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
*
189360 CCTTACCATTTTAGCACATATAATGCCCTATTTAGAAATCCATATATTCAATATGATTCCCTTAA
1 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
189425 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
66 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
*
189490 GCACACTT-AGTGCTCCATATGGAAATACATACACTTAGTATGATCC
131 GCACA-TTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
*
189536 CCTTACCATTTTAGCACATATAATGCCCTATTTAGAAATCCATATATTCAATATGATTCCCTTAA
1 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
189601 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
66 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
189666 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
131 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
* * *
189712 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCACATGTTCAATATGATTTCCTTAA
1 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
*
189777 TGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
66 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
189842 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
131 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
*
189888 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAA
1 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
189953 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
66 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
190018 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
131 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
*
190064 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTTCCTTAA
1 CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
* *
190129 CGTTTTAGCACACTTAGTGCTCCATATGAAAATACATACATTTAGTATGATTTCTTATCATTTTA
66 CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
* *
190194 GCACATTCAGTGCTTCATATGGAAATACATACACTTAGTATGATTT
131 GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
*
190240 CCTTATCATTTT-GCACAT
1 CCTTACCATTTTAGCACAT
190258 GTAGTACCAT
Statistics
Matches: 861, Mismatches: 31, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
175 8 0.01
176 760 0.88
177 90 0.10
178 3 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (176 bp):
CCTTACCATTTTAGCACATATAATGCCCTATTTGGAAATCCATATATTCAATATGATTCCCTTAA
CGTTTTAGCACACTTAGTGCTCCATATGGAAATCCATACATTTAGTATGATTTCTTATCATTTTA
GCACATTCAGTGCTCCATATGGAAATACATACACTTAGTATGATTC
Found at i:192720 original size:18 final size:18
Alignment explanation
Indices: 192697--192734 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
192687 GTGATATTCG
192697 AATATTG-GAATCGAATAT
1 AATATTGAG-ATCGAATAT
*
192715 AATATTTAGATCGAATAT
1 AATATTGAGATCGAATAT
192733 AA
1 AA
192735 AATCTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (18 bp):
AATATTGAGATCGAATAT
Found at i:195602 original size:21 final size:21
Alignment explanation
Indices: 195568--195607 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
195558 AGTCGTATAT
195568 AGCCGTTGGAGATG-TTTTGG
1 AGCCGTTGGAGATGATTTTGG
*
195588 AGCCGTTTGGGGATGATTTT
1 AGCCG-TTGGAGATGATTTT
195608 TATACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
AGCCGTTGGAGATGATTTTGG
Found at i:195718 original size:21 final size:21
Alignment explanation
Indices: 195692--195734 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
195682 CTGTTGAACA
195692 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
195713 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
195734 G
1 G
195735 ACATTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:195793 original size:21 final size:21
Alignment explanation
Indices: 195768--195831 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
195758 AAAACCTGCA
195768 GGGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
*
195789 GGGGGTATCTGTACTCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* *
195810 AGGGGAATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
195831 G
1 G
195832 TAATCTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.12, C:0.27, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:195953 original size:29 final size:31
Alignment explanation
Indices: 195921--195980 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
195911 AAACTTTGAA
195921 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
195950 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
195981 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:197785 original size:14 final size:15
Alignment explanation
Indices: 197766--197794 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
197756 ATGCCTACCT
197766 CTTTCTTC-TCTTCC
1 CTTTCTTCATCTTCC
197780 CTTTCTTCATCTTCC
1 CTTTCTTCATCTTCC
197795 TTCACCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.55
Consensus pattern (15 bp):
CTTTCTTCATCTTCC
Found at i:198830 original size:34 final size:32
Alignment explanation
Indices: 198768--198831 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
198758 CCTTACAAAC
*
198768 TCCCTAGTTTTTCCGGGATAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
198800 TCCCTAGCTTTTACACGGGCTAAGCTAGAACC
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACC
198832 AAAACCCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 7 0.26
33 5 0.19
34 15 0.56
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:199078 original size:20 final size:22
Alignment explanation
Indices: 199053--199092 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
199043 AGTCGTATAT
199053 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
199073 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
199093 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:199144 original size:21 final size:21
Alignment explanation
Indices: 199120--199162 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
199110 CCCAGAATAG
199120 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
199141 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
199162 A
1 A
199163 ATATTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:199223 original size:20 final size:20
Alignment explanation
Indices: 199198--199236 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
199188 CTGTTGAACA
199198 GGGGGAATCGGTACCCCTGG
1 GGGGGAATCGGTACCCCTGG
*
199218 GGGGGAATCGGTATCCCTG
1 GGGGGAATCGGTACCCCTG
199237 AACATTCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.44, T:0.18
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCTGG
Found at i:199294 original size:21 final size:20
Alignment explanation
Indices: 199272--199346 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 20
199262 AAACCTACAG
199272 GGGGGTATCTGTACCCCCTA
1 GGGGGTATCTGTACCCCCTA
199292 GGGGGTATCTGTA----CT-
1 GGGGGTATCTGTACCCCCTA
*
199307 CGGGGTATCTGTACCCCCTA
1 GGGGGTATCTGTACCCCCTA
*
199327 GAGGGGAATCTGTACCCCCT
1 G-GGGGTATCTGTACCCCCT
199347 GGGTAATCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
15 12 0.26
16 2 0.04
19 2 0.04
20 13 0.28
21 17 0.37
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCCTA
Found at i:199312 original size:35 final size:36
Alignment explanation
Indices: 199273--199341 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
199263 AACCTACAGG
*
199273 GGGGTATCTGTACCCCCTAG-GGGGTATCTGTACTC
1 GGGGTATCTGTACCCCCTAGAGGGGAATCTGTACTC
199308 GGGGTATCTGTACCCCCTAGAGGGGAATCTGTAC
1 GGGGTATCTGTACCCCCTAGAGGGGAATCTGTAC
199342 CCCCTGGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (36 bp):
GGGGTATCTGTACCCCCTAGAGGGGAATCTGTACTC
Found at i:199471 original size:29 final size:31
Alignment explanation
Indices: 199439--199498 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
199429 AAACTTTGAA
199439 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
199468 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
199499 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:200936 original size:30 final size:30
Alignment explanation
Indices: 200867--200924 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
200857 ATCATTTAAT
*
200867 ATGAAACTATTATTTAATATGTACTATCAC
1 ATGAAATTATTATTTAATATGTACTATCAC
*
200897 ATGAAATTATTATTTAATATGTATTATC
1 ATGAAATTATTATTTAATATGTACTATC
200925 TCATACAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (30 bp):
ATGAAATTATTATTTAATATGTACTATCAC
Found at i:207646 original size:56 final size:56
Alignment explanation
Indices: 207520--207638 Score: 163
Period size: 56 Copynumber: 2.1 Consensus size: 56
207510 CGAATGCATT
* * *
207520 TGATGCATCGATGCACATACCATGCATTGACGCACTCAGGGTTTTATGAAAACATC
1 TGATGCATCGATGCACAGACCATGCATCGACGCACTCAGGGTTTTATCAAAACATC
*
207576 TGATGCATCGATGCACAGACCATGCATCGATGCACTCA-GGTTATT-TCAAAACATC
1 TGATGCATCGATGCACAGACCATGCATCGACGCACTCAGGGTT-TTATCAAAACATC
207631 -GAATGCAT
1 TG-ATGCAT
207639 TTTATGCATC
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
54 1 0.02
55 19 0.33
56 37 0.65
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (56 bp):
TGATGCATCGATGCACAGACCATGCATCGACGCACTCAGGGTTTTATCAAAACATC
Found at i:215847 original size:65 final size:64
Alignment explanation
Indices: 215778--215937 Score: 266
Period size: 65 Copynumber: 2.5 Consensus size: 64
215768 GAATTAATTG
* * * *
215778 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCATCGATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTATT-TCAA
215843 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTATTTCAA
1 AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTATTTCAA
*
215907 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
215938 TCTTAGTGCA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
64 33 0.37
65 57 0.63
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGACCATGCATCGATGCACTCAGGCTATTTCAA
Found at i:217312 original size:30 final size:30
Alignment explanation
Indices: 217277--217342 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
217267 ATTTATATGA
*
217277 AATTATTATTTAATATGTACTAT-TACATGT
1 AATTATTATTTAATATGTACTATCT-CATGC
*
217307 AATTATTATTTAATATGTAGTATCTCATGC
1 AATTATTATTTAATATGTACTATCTCATGC
217337 AATTAT
1 AATTAT
217343 ACTATATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (30 bp):
AATTATTATTTAATATGTACTATCTCATGC
Found at i:223450 original size:19 final size:20
Alignment explanation
Indices: 223413--223452 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
223403 CACGTTTTCA
223413 TATACTTTTATGACATTTTT
1 TATACTTTTATGACATTTTT
*
223433 TATACTTTT-TGGCATTTTT
1 TATACTTTTATGACATTTTT
223452 T
1 T
223453 CGATTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (20 bp):
TATACTTTTATGACATTTTT
Found at i:224179 original size:60 final size:60
Alignment explanation
Indices: 224039--224198 Score: 185
Period size: 60 Copynumber: 2.6 Consensus size: 60
224029 TGATCCACTT
* * * * * *
224039 TAAATTGGTCTTTAAACTTTCAAATGTTTCAAATTCATCCCTAAACTATGACTATCATTC
1 TAAATTGGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACCATGACTATCATTC
** * *
224099 TAAATTAATCCTTAAACTTTTAAACATTTCAATTTCATCCCCAAACCATGACTTTCATTC
1 TAAATTGGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACCATGACTATCATTC
* * * *
224159 TGAATTGGTCCGTAAACTTTTTGAATATTACAATTTCATC
1 TAAATTGGTCCTTAAAC-TTTTAAATATTTCAATTTCATC
224199 TCAAACTATA
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 63 0.77
61 19 0.23
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (60 bp):
TAAATTGGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACCATGACTATCATTC
Found at i:224739 original size:13 final size:13
Alignment explanation
Indices: 224721--224751 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
224711 TTTAAAAAAT
*
224721 AAAATATTATTTA
1 AAAATATTATATA
224734 AAAATATTATATA
1 AAAATATTATATA
224747 AAAAT
1 AAAAT
224752 TCTTAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATATTATATA
Found at i:227387 original size:89 final size:89
Alignment explanation
Indices: 227247--227467 Score: 370
Period size: 89 Copynumber: 2.5 Consensus size: 89
227237 AAGATTATTT
** * * *
227247 TCCATATAGCTTACTTTATGCACATAGCAAAAAGAAAGCCGACTTAAGGATAGGCTATGAAGCTT
1 TCCATATAGCTTACCCTAAGCACACAGC-AAAGGAAAGCCGACTTAAGGATAGGCTATGAAGCTT
227312 GTATCCTTAAGCCCAAGTCAATAAG
65 GTATCCTTAAGCCCAAGTCAATAAG
227337 TCCATATAGCTTACCCTAAGCACACAGCAAAGGAAAGCCGACTTAAGGATAGGCTATGAAGCTTG
1 TCCATATAGCTTACCCTAAGCACACAGCAAAGGAAAGCCGACTTAAGGATAGGCTATGAAGCTTG
*
227402 TATCCTTAAGTCCAAGTCAATAAG
66 TATCCTTAAGCCCAAGTCAATAAG
*
227426 TCCATATAACTTACCCTAAGCACACAGCAAAGGAAAGCCGAC
1 TCCATATAGCTTACCCTAAGCACACAGCAAAGGAAAGCCGAC
227468 CTAATGAAAC
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 100 0.81
90 24 0.19
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (89 bp):
TCCATATAGCTTACCCTAAGCACACAGCAAAGGAAAGCCGACTTAAGGATAGGCTATGAAGCTTG
TATCCTTAAGCCCAAGTCAATAAG
Found at i:228302 original size:5 final size:5
Alignment explanation
Indices: 228292--228329 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
228282 AACGGTCAAC
*
228292 GGTCG GGTCG GGTCG GGT-T GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
228330 AGACCGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.00, C:0.18, G:0.58, T:0.24
Consensus pattern (5 bp):
GGTCG
Found at i:228316 original size:14 final size:14
Alignment explanation
Indices: 228297--228323 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
228287 TCAACGGTCG
228297 GGTCGGGTCGGGTT
1 GGTCGGGTCGGGTT
228311 GGTCGGGTCGGGT
1 GGTCGGGTCGGGT
228324 CGGGTCAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.59, T:0.26
Consensus pattern (14 bp):
GGTCGGGTCGGGTT
Found at i:228316 original size:19 final size:19
Alignment explanation
Indices: 228292--228328 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
228282 AACGGTCAAC
228292 GGTCGGGTCGGGTCGGGTT
1 GGTCGGGTCGGGTCGGGTT
228311 GGTCGGGTCGGGTCGGGT
1 GGTCGGGTCGGGTCGGGT
228329 CAGACCGGTC
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:0.00, C:0.16, G:0.59, T:0.24
Consensus pattern (19 bp):
GGTCGGGTCGGGTCGGGTT
Found at i:234321 original size:5 final size:5
Alignment explanation
Indices: 234311--234387 Score: 75
Period size: 5 Copynumber: 14.8 Consensus size: 5
234301 TCCATATAAC
* *
234311 GGTCG GGTCG GGTCAAA GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
* *
234360 GATCG GGT-T GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
234388 AGACCGGTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
4 3 0.05
5 48 0.81
7 8 0.14
ACGTcount: A:0.08, C:0.19, G:0.52, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:234339 original size:22 final size:22
Alignment explanation
Indices: 234311--234388 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
234301 TCCATATAAC
234311 GGTCGGGTCGGGTCAAAGGTCG
1 GGTCGGGTCGGGTCAAAGGTCG
*
234333 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAAAGGTCG
* *
234355 GGTCGGATCGGGT---TGGTCG
1 GGTCGGGTCGGGTCAAAGGTCG
234374 GGTCGGGTCGGGTCA
1 GGTCGGGTCGGGTCA
234389 GACCGGTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 17 0.34
22 33 0.66
ACGTcount: A:0.09, C:0.19, G:0.51, T:0.21
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAAAGGTCG
Found at i:234374 original size:19 final size:19
Alignment explanation
Indices: 234350--234386 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
234340 TCGGGTCAAC
234350 GGTCGGGTCGGATCGGGTT
1 GGTCGGGTCGGATCGGGTT
*
234369 GGTCGGGTCGGGTCGGGT
1 GGTCGGGTCGGATCGGGT
234387 CAGACCGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.57, T:0.24
Consensus pattern (19 bp):
GGTCGGGTCGGATCGGGTT
Found at i:234408 original size:19 final size:19
Alignment explanation
Indices: 234386--234444 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
234376 TCGGGTCGGG
234386 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
234405 TCAGACCGGTCAAAACAGT
1 TCAGACCGGTCAAACCGGT
234424 TC-GAACCGGTCAAAACCGGT
1 TCAG-ACCGGTC-AAACCGGT
234444 T
1 T
234445 TCCAGCAGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.03
19 26 0.76
20 7 0.21
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:239878 original size:30 final size:30
Alignment explanation
Indices: 239843--239908 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
239833 TTTAATATGA
*
239843 AATTATTATTTAATATGTACTATCACATGT
1 AATTATTATTTAATATGTACTATCACATGC
* *
239873 AATTATTATTTAATATGTAGTATCTCATGC
1 AATTATTATTTAATATGTACTATCACATGC
239903 AATTAT
1 AATTAT
239909 ACTATATGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (30 bp):
AATTATTATTTAATATGTACTATCACATGC
Found at i:240121 original size:12 final size:12
Alignment explanation
Indices: 240104--240128 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
240094 GAAAACAGAA
240104 CCACGTCGTTCT
1 CCACGTCGTTCT
240116 CCACGTCGTTCT
1 CCACGTCGTTCT
240128 C
1 C
240129 TTTTGAACGT
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:0.08, C:0.44, G:0.16, T:0.32
Consensus pattern (12 bp):
CCACGTCGTTCT
Found at i:243967 original size:13 final size:13
Alignment explanation
Indices: 243949--243978 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
243939 TTTTAAAAAT
*
243949 AAAATATTATTTA
1 AAAATATTATATA
243962 AAAATATTATATA
1 AAAATATTATATA
243975 AAAA
1 AAAA
243979 ATCTTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATATTATATA
Found at i:255209 original size:7 final size:7
Alignment explanation
Indices: 255197--255222 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
255187 GTTGTCTTAA
255197 TTGTCTG
1 TTGTCTG
255204 TTGTCTG
1 TTGTCTG
255211 TTGTCTG
1 TTGTCTG
255218 TTGTC
1 TTGTC
255223 CTAAAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.27, T:0.58
Consensus pattern (7 bp):
TTGTCTG
Found at i:260373 original size:16 final size:16
Alignment explanation
Indices: 260352--260385 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
260342 TTACTATTCA
*
260352 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
260368 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
260384 CG
1 CG
260386 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:272937 original size:28 final size:26
Alignment explanation
Indices: 272906--272959 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
272896 TAGTTTAATC
*
272906 CAAAAATAAATTGAATAAAGTTAAAAAT
1 CAAAAATAAAATG-ATAAA-TTAAAAAT
*
272934 CAAAAATAAAATGATGAATTAAAAAT
1 CAAAAATAAAATGATAAATTAAAAAT
272960 GATTATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 4 0.17
28 12 0.50
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (26 bp):
CAAAAATAAAATGATAAATTAAAAAT
Found at i:274385 original size:11 final size:11
Alignment explanation
Indices: 274369--274398 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
274359 AAAATAGGAG
274369 TGAGTGATAGT
1 TGAGTGATAGT
274380 TGAGTGATAGT
1 TGAGTGATAGT
274391 TGAGTGAT
1 TGAGTGAT
274399 GAATCATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (11 bp):
TGAGTGATAGT
Found at i:284232 original size:60 final size:60
Alignment explanation
Indices: 284133--284267 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 60
284123 TCATTAGGGT
* * * * *
284133 AAAG-TATAAAAATG-TTCTTTAATTATAGGGTATTGCTTTGTCGAGTCCTTTGACTATTA
1 AAAGTTAT-AAAATGATACTTTAATTATAGGATATTACTTTGTCGAGTCCCTTGACTATCA
* * *
284192 AAAGTTATAAAATGATACTTTGATTATAGGATGTTACTTTGTTGAGTCCCTTGACTATCA
1 AAAGTTATAAAATGATACTTTAATTATAGGATATTACTTTGTCGAGTCCCTTGACTATCA
*
284252 AAAGTTACAAAATGAT
1 AAAGTTATAAAATGAT
284268 CGTTCGGTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 10 0.15
60 55 0.85
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (60 bp):
AAAGTTATAAAATGATACTTTAATTATAGGATATTACTTTGTCGAGTCCCTTGACTATCA
Found at i:285334 original size:163 final size:163
Alignment explanation
Indices: 285129--285428 Score: 444
Period size: 163 Copynumber: 1.8 Consensus size: 163
285119 ATAAGTCACA
**
285129 AATTGAATGAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAA-ATAAAATTTTATTA
1 AATTGAATGAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAATA-AAAAAATTATTA
* * *
285193 TAAAAAATAGGAATTGAAAGCACACATGTATTCTAAT-ATGTTTTAGGAGCATGTAGCTCAAATT
65 TAAAAAAGAGGAATTAAAAGCACACATGTATTCT-ATCATGATTTAGGAGCATGTAGCTCAAATT
*
285257 TGGTAAAAAAACAAATGGACCTAAAATAAATGATG
129 TGATAAAAAAACAAATGGACCTAAAATAAATGATG
* *
285292 AATTGAA-GAAATAAGGAGATTATGATAAATTGAAGGACTAAATTGAAAAATAAAAAAATTATTA
1 AATTGAATG-AATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAATAAAAAAATTATTA
* * * *
285356 TCAAAAAGAGGAATTAAAAGTACACATGTATTCTATCATGATTTAGGAGCATGTGGTTCAAATTT
65 TAAAAAAGAGGAATTAAAAGCACACATGTATTCTATCATGATTTAGGAGCATGTAGCTCAAATTT
285421 GATAAAAA
130 GATAAAAA
285429 TGAACTTAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
162 3 0.02
163 118 0.97
164 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.28
Consensus pattern (163 bp):
AATTGAATGAATAAGGAGATTATGAAAAATTAAAGGACTAAATTGAAAAATAAAAAAATTATTAT
AAAAAAGAGGAATTAAAAGCACACATGTATTCTATCATGATTTAGGAGCATGTAGCTCAAATTTG
ATAAAAAAACAAATGGACCTAAAATAAATGATG
Found at i:288527 original size:135 final size:137
Alignment explanation
Indices: 288345--288594 Score: 308
Period size: 141 Copynumber: 1.8 Consensus size: 137
288335 CCACCTGTTT
* * * * * *
288345 TACTTGCCTTTTAGCTCTAGAATGTTAAAGAAAACCTTATACAATTATCA-CC-GTCTTAAGAA-
1 TACTTGCCTTCTAGCTCAAGAATGTTAAACAAAACCATAGACAATTATCAGCCAGTCCTAAGAAC
*
288407 CTTCATAAAGAATTTGAAGAACTATGTGGAAACGATTGCAGAAAAATTTGTCACCAAAACCCCAA
66 CTT-ATAAAGAATTTGAAGAACTACGTGGAAACGATTGCAGAAAAATTTGTCACCAAAACCCCAA
288472 GAGATGCC
130 GAGATGCC
* * *
288480 TACTTGCCTTCTAGTTCAAGAATGTTAAACAAAACCATAGACGATTATGAGCCTGAAAGTCCTAA
1 TACTTGCCTTCTAGCTCAAGAATGTTAAACAAAACCATAGACAATTATCAGCC----AGTCCTAA
* * * *
288545 GAACCTTATACAGTATTTGAAGAACTACGTGGACACGATTGCAGCAAAAT
62 GAACCTTATAAAGAATTTGAAGAACTACGTGGAAACGATTGCAGAAAAAT
288595 ACCCTTTCTG
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
135 42 0.45
136 2 0.02
141 47 0.50
142 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (137 bp):
TACTTGCCTTCTAGCTCAAGAATGTTAAACAAAACCATAGACAATTATCAGCCAGTCCTAAGAAC
CTTATAAAGAATTTGAAGAACTACGTGGAAACGATTGCAGAAAAATTTGTCACCAAAACCCCAAG
AGATGCC
Found at i:302169 original size:35 final size:35
Alignment explanation
Indices: 302123--302192 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
302113 TATACACTCC
302123 TACTTTTGAGGGATGATTATTATTTTCTAAACAAT
1 TACTTTTGAGGGATGATTATTATTTTCTAAACAAT
302158 TACTTTTGAGGGATGATTATTATTTTCTAAACAAT
1 TACTTTTGAGGGATGATTATTATTTTCTAAACAAT
302193 GACAACTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (35 bp):
TACTTTTGAGGGATGATTATTATTTTCTAAACAAT
Found at i:302335 original size:25 final size:25
Alignment explanation
Indices: 302307--302359 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
302297 TAAACTAAAG
302307 ATACGAAGAAAATTGAAATCTTTCA
1 ATACGAAGAAAATTGAAATCTTTCA
302332 ATACGAAGAAAATTGAAATCTTTCA
1 ATACGAAGAAAATTGAAATCTTTCA
302357 ATA
1 ATA
302360 AGAACGACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (25 bp):
ATACGAAGAAAATTGAAATCTTTCA
Found at i:302678 original size:24 final size:24
Alignment explanation
Indices: 302651--302696 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
302641 CCATGAGAAT
* *
302651 CGTGTCACAAGAGTATAGAAAACA
1 CGTGTCACAAGAGCAAAGAAAACA
302675 CGTGTCACAAGAGCAAAGAAAA
1 CGTGTCACAAGAGCAAAGAAAA
302697 AACACTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (24 bp):
CGTGTCACAAGAGCAAAGAAAACA
Done.