Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 10 of 106
Found at i:4829521 original size:24 final size:24
Alignment explanation
Indices: 4829420--4829521 Score: 61
Period size: 24 Copynumber: 4.2 Consensus size: 24
4829410 GTGAAGAAGA
4829420 GAAGAGG-GGCAGGGGAAGAGGAGG
1 GAAGAGGAGGCAGGGGAA-AGGAGG
* * *
4829444 AAAGCAGAGAGG-A-AGGAGAGGAAGGG
1 GAAG-AG-GAGGCAGGGGAAAGG-A-GG
* *
4829470 GAAGGGGAGGAAGTGGG--AGGAGG
1 GAAGAGGAGGCAG-GGGAAAGGAGG
4829493 CGAAGAGGAGGCAGGGGAAAGGAGG
1 -GAAGAGGAGGCAGGGGAAAGGAGG
4829518 GAAG
1 GAAG
4829522 TGGTGGGGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 22
0.66 0.09 0.25
Matches are distributed among these distances:
23 5 0.08
24 26 0.44
25 17 0.29
26 7 0.12
27 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.58, T:0.01
Consensus pattern (24 bp):
GAAGAGGAGGCAGGGGAAAGGAGG
Found at i:4839988 original size:25 final size:25
Alignment explanation
Indices: 4839928--4839983 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
4839918 GAAATTTATA
* *
4839928 AGGAGATAGGGAGGAAGGAGCGAGG
1 AGGAGAAAGGGAGGAAGGAGAGAGG
*
4839953 AGGAGAAAGGGAGGAAGGAGAGGGG
1 AGGAGAAAGGGAGGAAGGAGAGAGG
4839978 AAGGAG
1 -AGGAG
4839984 GAGGGGGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.57, T:0.02
Consensus pattern (25 bp):
AGGAGAAAGGGAGGAAGGAGAGAGG
Found at i:4842723 original size:26 final size:27
Alignment explanation
Indices: 4842664--4842723 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
4842654 TTTCAAAAAA
*
4842664 TTTAAATGAATTTTATTTTTTTATTAT
1 TTTAAATGAATTTTATTTGTTTATTAT
* *
4842691 GTTAAATTAATTTT-TTGTGTTT-TTAT
1 TTTAAATGAATTTTATT-TGTTTATTAT
4842717 TTTAAAT
1 TTTAAAT
4842724 CAAACATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (27 bp):
TTTAAATGAATTTTATTTGTTTATTAT
Found at i:4842899 original size:24 final size:23
Alignment explanation
Indices: 4842859--4842905 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4842849 ATAGTCACAC
*
4842859 TAACATGTTATATTATCATCATTA
1 TAACATGTAATATTATCA-CATTA
4842883 TAACATGTCAATA-TATCACATTA
1 TAACATGT-AATATTATCACATTA
4842906 ACATCATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 13 0.62
25 3 0.14
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (23 bp):
TAACATGTAATATTATCACATTA
Found at i:4844977 original size:22 final size:23
Alignment explanation
Indices: 4844952--4844998 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
4844942 TACTTGGTTC
*
4844952 TCCTAGTTTTGCT-CAATATTTA
1 TCCTAGTTTTGCTCCAACATTTA
4844974 TCCTAGTTTTGCTCCAACATTTA
1 TCCTAGTTTTGCTCCAACATTTA
4844997 TC
1 TC
4844999 TGACTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (23 bp):
TCCTAGTTTTGCTCCAACATTTA
Found at i:4856222 original size:173 final size:172
Alignment explanation
Indices: 4855903--4856227 Score: 472
Period size: 173 Copynumber: 1.9 Consensus size: 172
4855893 TAGACTGTAG
* **
4855903 TATAACTCATGCTATTCTATAAAATATACAATCAAGGGCAAATTAATTAGGACTTAGCAAAGAAC
1 TATAACTCATGCTATTCTATAAAATATACAACCAAGGGCAAATTAATTAGGACTTAAAAAAGAAC
* ** * *
4855968 TTCCACATTTTACTTTTCATTCTGAAGGACGTGCAGAATATGAAGTAACTTTCTTCTATTCCTTT
66 TTCCACATTTTACTTTTCACTCCAAAGGACGTGCAGAAAAAGAAGTAACTTTCTTCTATTCCTTT
*
4856033 TCCCCAGCGCCAGATGCATCAACTGCGTTAGTTCTATTTTAA
131 TCCCCAGCACCAGATGCATCAACTGCGTTAGTTCTATTTTAA
*
4856075 TATAACTCATGCTATTCTATAAAATGATGCAACCAAGGGCAAATTAATTAGGACTTAAAAAAGAA
1 TATAACTCATGCTATTCTATAAAAT-ATACAACCAAGGGCAAATTAATTAGGACTTAAAAAAGAA
* * * *
4856140 CTTCCACTTTTTATTTTTCACTCCAAAGGATGTGTAGAACAAAG-AGTAACTTTCTTCTATTCCT
65 CTTCCACATTTTACTTTTCACTCCAAAGGACGTGCAGAA-AAAGAAGTAACTTTCTTCTATTCCT
* * *
4856204 TTTCCCCGGCATCAGATGCCTCAA
129 TTTCCCCAGCACCAGATGCATCAA
4856228 ATGCCTGGCT
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
172 25 0.19
173 107 0.80
174 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (172 bp):
TATAACTCATGCTATTCTATAAAATATACAACCAAGGGCAAATTAATTAGGACTTAAAAAAGAAC
TTCCACATTTTACTTTTCACTCCAAAGGACGTGCAGAAAAAGAAGTAACTTTCTTCTATTCCTTT
TCCCCAGCACCAGATGCATCAACTGCGTTAGTTCTATTTTAA
Found at i:4865615 original size:12 final size:13
Alignment explanation
Indices: 4865598--4865627 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4865588 TGTCTATGGG
4865598 TTTTCTTTTT-TT
1 TTTTCTTTTTCTT
4865610 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
4865623 TTTTC
1 TTTTC
4865628 ACTCAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:4869645 original size:2 final size:2
Alignment explanation
Indices: 4869640--4869753 Score: 95
Period size: 2 Copynumber: 61.0 Consensus size: 2
4869630 ATATTTTAAA
* *
4869640 AT AT AT A- AT AC AT AT AT AT AT A- AT AT AT AT AT AC 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
* * *
4869680 AT AT AT AT AT AT AT AT CGT AT AN A- AT GT -T AT AT -T A- AT ACT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A-T
4869720 AT AT AT AT AT AT AT AT A- AT -T AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4869754 CTCAATTGGA
Statistics
Matches: 92, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
1 10 0.11
2 79 0.86
3 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4873791 original size:5 final size:5
Alignment explanation
Indices: 4873781--4873847 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
4873771 TTTGGTTCAC
* ** * * *
4873781 AAAAT AAAAT AAAAT GAAAT AAAAT AAATATT TTAAG AGAAT AAAAT AAATT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT
4873833 AAAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAA
4873848 ATATTATTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
5 40 0.83
6 6 0.12
7 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:4873900 original size:45 final size:39
Alignment explanation
Indices: 4873832--4873934 Score: 100
Period size: 45 Copynumber: 2.5 Consensus size: 39
4873822 TAAAATAAAT
*
4873832 TAAAAATAAAATAAAAATATTATTATATAA-TTTAATTGA
1 TAAAAATAAAATAAAAATATTATTATA-AAGTTTAATTAA
*
4873871 TAAAAAATAAAATAATAATAATTATTTATTATAAAGTTTTATTAA
1 T-AAAAATAAAAT-A-AA-AA-TA-TTATTATAAAGTTTAATTAA
* *
4873916 TAAAAATAAATTTAAAATA
1 TAAAAATAAAATAAAAATA
4873935 ATAGCAGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
39 1 0.02
40 13 0.25
41 3 0.06
42 4 0.08
43 2 0.04
44 14 0.26
45 16 0.30
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (39 bp):
TAAAAATAAAATAAAAATATTATTATAAAGTTTAATTAA
Found at i:4874068 original size:33 final size:33
Alignment explanation
Indices: 4874026--4874215 Score: 105
Period size: 33 Copynumber: 5.3 Consensus size: 33
4874016 TTTTTAATAA
*
4874026 TATTAATAATTAATAATTTAAATATTAATATTT
1 TATTTATAATTAATAATTTAAATATTAATATTT
4874059 TATTTATAATTTAAATATTATTATGATTAAAATATTAATAATTT
1 TATTTATAA-TT--A-A-TA--AT--TT-AAATATTAAT-ATTT
* * * *
4874103 TAATTA-ATTTTAA-AATTTGAAATATTATTTTTT
1 TATTTATA-ATTAATAATTT-AAATATTAATATTT
* * * * **
4874136 TATATATAATTAAAAATTTAAACTTTTTTATAATAA
1 TATTTATAATTAATAATTTAAA--TATTAAT-ATTT
* *
4874172 TATTAATAATTGATAATTTAAATATTAATATTT
1 TATTTATAATTAATAATTTAAATATTAATATTT
4874205 TATTTATAATT
1 TATTTATAATT
4874216 CAAATATTAT
Statistics
Matches: 116, Mismatches: 24, Indels: 34
0.67 0.14 0.20
Matches are distributed among these distances:
33 34 0.29
34 24 0.21
35 4 0.03
36 22 0.19
37 1 0.01
38 3 0.03
40 3 0.03
41 1 0.01
42 2 0.02
43 13 0.11
44 9 0.08
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (33 bp):
TATTTATAATTAATAATTTAAATATTAATATTT
Found at i:4874070 original size:26 final size:26
Alignment explanation
Indices: 4874038--4874224 Score: 98
Period size: 26 Copynumber: 7.6 Consensus size: 26
4874028 TTAATAATTA
4874038 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
* *
4874064 ATAATTTAAATATT-AT-TATGA-TT
1 ATAATTTAAATATTAATATTTTATTT
* * **
4874087 AAAATATTAATAATTTTAAT-TAAT-TTT
1 ATAAT-TT-A-AATATTAATATTTTATTT
* * * *
4874114 AAAATTTGAAATATTATTTTTTTATAT
1 ATAATTT-AAATATTAATATTTTATTT
* *
4874141 ATAA-TTAAAAATTTAA-ACTTT-TTT
1 ATAATTTAAATA-TTAATATTTTATTT
*
4874165 ATAA--T-AATATTAATA----ATTG
1 ATAATTTAAATATTAATATTTTATTT
4874184 ATAATTTAAATATTAATATTTTATTT
1 ATAATTTAAATATTAATATTTTATTT
*
4874210 ATAATTCAAATATTA
1 ATAATTTAAATATTA
4874225 TCATGATTAA
Statistics
Matches: 122, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
19 6 0.05
21 5 0.04
22 14 0.11
23 7 0.06
24 11 0.09
25 17 0.14
26 46 0.38
27 16 0.13
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATTT
Found at i:4874247 original size:146 final size:145
Alignment explanation
Indices: 4873999--4874303 Score: 452
Period size: 146 Copynumber: 2.1 Consensus size: 145
4873989 ATTTATCTTT
*
4873999 TAATTAATAATTTAAGTTTTTTAATAATATTAATAATTAATAATTTAAATATTAATATTTTATTT
1 TAATTAAAAATTTAAGTTTTTTAATAATATTAATAATTAATAATTTAAATATTAATATTTTATTT
* * * * *
4874064 ATAATTTAAATATTATTATGATTAAAATATTAATAATTTTAATTAATTTTAAAATTTGAAATATT
66 ATAATTCAAATATTATCATGATTAAAATAATAATAATTTTAACTAATTTTAAAATTTAAAATATT
4874129 ATTTTTT-T-ATATA
131 ATTTTTTATAATATA
* *
4874142 TAATTAAAAATTTAAACTTTTTTATAATAATATTAATAATTGATAATTTAAATATTAATATTTTA
1 TAATTAAAAATTT-AA-GTTTTT-TAATAATATTAATAATTAATAATTTAAATATTAATATTTTA
* *
4874207 TTTATAATTCAAATATTATCATGATTAAAATAATAATAATTTTAACTCATTTTTAAATTTAAAAT
63 TTTATAATTCAAATATTATCATGATTAAAATAATAATAATTTTAACTAATTTTAAAATTTAAAAT
*
4874272 ATTCTTTTTTATAATATA
128 ATTATTTTTTATAATATA
*
4874290 TAATATATAAATTT
1 TAAT-TAAAAATTT
4874304 TCAAACTTGT
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
143 12 0.08
144 2 0.01
145 5 0.03
146 107 0.74
147 1 0.01
148 9 0.06
149 8 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (145 bp):
TAATTAAAAATTTAAGTTTTTTAATAATATTAATAATTAATAATTTAAATATTAATATTTTATTT
ATAATTCAAATATTATCATGATTAAAATAATAATAATTTTAACTAATTTTAAAATTTAAAATATT
ATTTTTTATAATATA
Found at i:4875952 original size:14 final size:14
Alignment explanation
Indices: 4875933--4875963 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4875923 TCCTTAATCA
4875933 GATTTTTGAATTAT
1 GATTTTTGAATTAT
*
4875947 GATTTTTGAATTCT
1 GATTTTTGAATTAT
4875961 GAT
1 GAT
4875964 ACATGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (14 bp):
GATTTTTGAATTAT
Found at i:4877715 original size:27 final size:29
Alignment explanation
Indices: 4877659--4877716 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
4877649 TTGATAAGTT
4877659 AATAATTTATTAATTTATATATTAATTAAAA
1 AATAATTTATTAA-TTATATATT-ATTAAAA
4877690 AATAATTTATTAA-TATATATT-TTAAAA
1 AATAATTTATTAATTATATATTATTAAAA
4877717 TATTACACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.22
29 8 0.30
31 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAATTTATTAATTATATATTATTAAAA
Found at i:4879317 original size:7 final size:7
Alignment explanation
Indices: 4879305--4879341 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
4879295 ATTTTTTTTG
4879305 ATTATTT
1 ATTATTT
4879312 ATTATTT
1 ATTATTT
4879319 ATTATTT
1 ATTATTT
4879326 ATTATTT
1 ATTATTT
4879333 ATTATTT
1 ATTATTT
4879340 AT
1 AT
4879342 ATATACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:4880473 original size:29 final size:29
Alignment explanation
Indices: 4880441--4880508 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
4880431 CGTCGGCCTC
*
4880441 TCTCTCTCTTCTCTCTACTCGCCGATCGA
1 TCTCTCTCTTCTCTCTACTCGCCGACCGA
*
4880470 TCTCTCTGTTCTCTCTACTCGCCGACCGA
1 TCTCTCTCTTCTCTCTACTCGCCGACCGA
*
4880499 TCCCTCTCTT
1 TCTCTCTCTT
4880509 TCCCTCTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.09, C:0.43, G:0.10, T:0.38
Consensus pattern (29 bp):
TCTCTCTCTTCTCTCTACTCGCCGACCGA
Found at i:4880993 original size:17 final size:19
Alignment explanation
Indices: 4880954--4880995 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4880944 ATTTTTTTAA
* *
4880954 TTTTATATTATTATTATTT
1 TTTTATATTATTAGTATTG
4880973 TTTTATATT-TTAGT-TTG
1 TTTTATATTATTAGTATTG
4880990 TTTTAT
1 TTTTAT
4880996 TATAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATATTATTAGTATTG
Found at i:4888316 original size:39 final size:39
Alignment explanation
Indices: 4888273--4888350 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
4888263 ATAAGTTTTC
4888273 CTTTTCCATTTACAACTGTTTCATGTAACTTCTGTGCAG
1 CTTTTCCATTTACAACTGTTTCATGTAACTTCTGTGCAG
4888312 CTTTTCCATTTACAACTGTTTCATGTAACTTCTGTGCAG
1 CTTTTCCATTTACAACTGTTTCATGTAACTTCTGTGCAG
4888351 GCTCTCTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (39 bp):
CTTTTCCATTTACAACTGTTTCATGTAACTTCTGTGCAG
Found at i:4929079 original size:22 final size:22
Alignment explanation
Indices: 4929032--4929081 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4929022 AGATATAATG
* * *
4929032 TTTTAAAAAAATTCTAAATTAT
1 TTTTTAAAAAATTCTAAATAAA
4929054 TTTTTAAAAAATT-TAAATAAAA
1 TTTTTAAAAAATTCTAAAT-AAA
4929076 TTTTTA
1 TTTTTA
4929082 TTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTTAAAAAATTCTAAATAAA
Found at i:4941933 original size:21 final size:21
Alignment explanation
Indices: 4941907--4941958 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4941897 TCAATGAAAC
4941907 CGATTAAGTGTGGATTAAAAG
1 CGATTAAGTGTGGATTAAAAG
4941928 CGATTAAGTGTGGATTAAAAG
1 CGATTAAGTGTGGATTAAAAG
4941949 CGATT-AGTGT
1 CGATTAAGTGT
4941959 CAACTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (21 bp):
CGATTAAGTGTGGATTAAAAG
Found at i:4942584 original size:31 final size:31
Alignment explanation
Indices: 4942549--4942622 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
4942539 ATTTAATTAC
4942549 AAAATATATTTAATATAAAATAA-AAAATATA
1 AAAATATATTTAA-ATAAAATAACAAAATATA
* * * *
4942580 AAAATTTAATTAAATATAATAACAAAATTTA
1 AAAATATATTTAAATAAAATAACAAAATATA
*
4942611 AATAATCTATTT
1 AA-AATATATTT
4942623 TTTTAAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
30 8 0.23
31 20 0.57
32 7 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAATATATTTAAATAAAATAACAAAATATA
Found at i:4953266 original size:19 final size:18
Alignment explanation
Indices: 4953235--4953273 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
4953225 TTCAACAGGT
*
4953235 AAGGATTCCTTACCTGAA
1 AAGGATTCATTACCTGAA
4953253 AAGGAATTCATTACCTGAA
1 AAGG-ATTCATTACCTGAA
4953272 AA
1 AA
4953274 TGGCATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (18 bp):
AAGGATTCATTACCTGAA
Found at i:4958897 original size:4 final size:4
Alignment explanation
Indices: 4958890--4958925 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
4958880 TACATATGTA
4958890 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
4958926 AGGGAGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4965660 original size:32 final size:30
Alignment explanation
Indices: 4965610--4965670 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
4965600 TGTCATTTTA
* *
4965610 TTAAAAAATAATTTTTAAATTTTTAAAATC
1 TTAAAAAATAATTATTAAATTTTAAAAATC
4965640 TTAAAAATATATATTATTAAATTTTAAAAAT
1 TTAAAAA-ATA-ATTATTAAATTTTAAAAAT
4965671 AATAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 7 0.26
31 3 0.11
32 17 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAAAAAATAATTATTAAATTTTAAAAATC
Found at i:4965678 original size:31 final size:31
Alignment explanation
Indices: 4965611--4965682 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
4965601 GTCATTTTAT
* * * **
4965611 TAAAAAATA-ATTTTTAAATTTTTAAAATCT
1 TAAAATATATATTATTAAATTTTAAAAATAA
4965641 TAAAAATATATATTATTAAATTTTAAAAATAA
1 T-AAAATATATATTATTAAATTTTAAAAATAA
4965673 TAAAATATAT
1 TAAAATATAT
4965683 TTTTTTTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.03
31 16 0.46
32 18 0.51
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAAATATATATTATTAAATTTTAAAAATAA
Found at i:4966439 original size:29 final size:28
Alignment explanation
Indices: 4966364--4966439 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
4966354 TAAGTGTACA
*
4966364 AGAATAGGTACAAGAGAATAAACTATAC
1 AGAATAGGTACAAGAGAATAAGCTATAC
* * *
4966392 GAGAACAAGTACAAAAGAATAAGCTATAC
1 -AGAATAGGTACAAGAGAATAAGCTATAC
*
4966421 ATGAATAGGTACACGAGAA
1 A-GAATAGGTACAAGAGAA
4966440 CAAGGTAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.16
Consensus pattern (28 bp):
AGAATAGGTACAAGAGAATAAGCTATAC
Found at i:4966702 original size:35 final size:35
Alignment explanation
Indices: 4966663--4966753 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
4966653 TTCCATATGG
* * * * *
4966663 AGTAGTGCTTTACTTATTCTAGTTGTTTTGCTTTA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTATGCATGA
* *
4966698 AGTAGTACTTCACTTGTTATAGTTGTTATGCATGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTATGCATGA
4966733 AGTAGTGCTTCACTTGTTCTA
1 AGTAGTGCTTCACTTGTTCTA
4966754 CATGAAGTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (35 bp):
AGTAGTGCTTCACTTGTTCTAGTTGTTATGCATGA
Found at i:4966757 original size:26 final size:26
Alignment explanation
Indices: 4966728--4966805 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
4966718 AGTTGTTATG
4966728 CATGAAGTAGTGCTTCACTTGTTCTA
1 CATGAAGTAGTGCTTCACTTGTTCTA
4966754 CATGAAGTAGTGCTTCACTTGTTCTA
1 CATGAAGTAGTGCTTCACTTGTTCTA
4966780 CATGAAGTAGTGCTTCACTTGTTCTA
1 CATGAAGTAGTGCTTCACTTGTTCTA
4966806 GTTATTCTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
CATGAAGTAGTGCTTCACTTGTTCTA
Found at i:4967982 original size:76 final size:75
Alignment explanation
Indices: 4967841--4967992 Score: 241
Period size: 76 Copynumber: 2.0 Consensus size: 75
4967831 ACTGATAAAC
* * *
4967841 GCATAAAAGCTAGCAAAAGCTGCACGTTTTTCTTTTTTTTTTAATATAACTTGACGTTGACTTGT
1 GCATAAAAGCTAACAAAAGCTGCACGTGTTTCTTTTTTTTTTAATATAAATTGACGTTGACTTGT
4967906 CTTTTGTTTT
66 CTTTTGTTTT
* * *
4967916 GCATAAAGGCTAACAAAAGCTGCATGTGTTTCTATTTTTTTTTAATATAAATTGACTTTGACTTG
1 GCATAAAAGCTAACAAAAGCTGCACGTGTTTCT-TTTTTTTTTAATATAAATTGACGTTGACTTG
4967981 TCTTTTGTTTT
65 TCTTTTGTTTT
4967992 G
1 G
4967993 GTGCAGCTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 29 0.41
76 41 0.59
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (75 bp):
GCATAAAAGCTAACAAAAGCTGCACGTGTTTCTTTTTTTTTTAATATAAATTGACGTTGACTTGT
CTTTTGTTTT
Found at i:4974592 original size:101 final size:100
Alignment explanation
Indices: 4974430--4974676 Score: 307
Period size: 101 Copynumber: 2.4 Consensus size: 100
4974420 ATAGCATAAC
* * * *
4974430 ATCATTACAGCCAAATTATGAGCGATAAAGCTAGTGGCTGGAATATGAGTAATAAATTATGGTCA
1 ATCATTACAACCAAA-TATGAGCGATAAAGCTAGCGGCT-GAATAAGAGTAATAAACTATGGTCA
*
4974495 AAGAATAAGCAATAAAGCTTGCGACCAATAGA-AAAAT
64 AAGAATAAGCAATAAAGCTGGCGACCAATA-ATAAAAT
* * * *
4974532 ATCATTGCAACCAAATATGAGCGGTAAAGCTTGCGGCTGAAGTAAGAGTGATAAACTATGGTCAA
1 ATCATTACAACCAAATATGAGCGATAAAGCTAGCGGCTGAA-TAAGAGTAATAAACTATGGTCAA
* *
4974597 AGAATGAGCAATAAAGCTGGCGACCAATAATATAAT
65 AGAATAAGCAATAAAGCTGGCGACCAATAATAAAAT
* * * *
4974633 ATAATTACAATCAAAATATAAGCGATAAAGCTAGCGCCTGAATA
1 ATCATTACAA-CCAAATATGAGCGATAAAGCTAGCGGCTGAATA
4974677 TGAATTTTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 4 0.03
101 81 0.65
102 39 0.31
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (100 bp):
ATCATTACAACCAAATATGAGCGATAAAGCTAGCGGCTGAATAAGAGTAATAAACTATGGTCAAA
GAATAAGCAATAAAGCTGGCGACCAATAATAAAAT
Found at i:4975815 original size:29 final size:28
Alignment explanation
Indices: 4975772--4975847 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
4975762 TAGGTGTACA
* *
4975772 AGAATAGGTATAAGAGAAGAAGCTATAC
1 AGAATAGGTACAAGAGAAGAAACTATAC
* *
4975800 GAGAACAGGTACAAGAGAAGAAACTGTAC
1 -AGAATAGGTACAAGAGAAGAAACTATAC
*
4975829 ATGAATAGGTACATGAGAA
1 A-GAATAGGTACAAGAGAA
4975848 CAAGGTAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.16
Consensus pattern (28 bp):
AGAATAGGTACAAGAGAAGAAACTATAC
Found at i:4976110 original size:35 final size:35
Alignment explanation
Indices: 4976071--4976239 Score: 151
Period size: 35 Copynumber: 4.8 Consensus size: 35
4976061 TTCCATATGG
* * ***
4976071 AGTAGTGCTTAACTTATTCTAGTTGTTCTGCTTTA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTGCAAGA
* *
4976106 AGTAGTACTTCACTTGTTATAGTTGTTCTGCAAGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTGCAAGA
* * * *
4976141 AGTAGCGCTTCACTTGTTCTAGTTATTTTGCATGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTGCAAGA
** * * * *
4976176 AGTAGCACTTCACTTGTTCTAGTTATTTTGTATGA
1 AGTAGTGCTTCACTTGTTCTAGTTGTTCTGCAAGA
**
4976211 AGTAGCACTTCACTTGTTC-ACGTTGTTCT
1 AGTAGTGCTTCACTTGTTCTA-GTTGTTCT
4976240 TTGTACAATA
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
34 1 0.01
35 115 0.99
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (35 bp):
AGTAGTGCTTCACTTGTTCTAGTTGTTCTGCAAGA
Found at i:4976161 original size:70 final size:70
Alignment explanation
Indices: 4976071--4976239 Score: 196
Period size: 70 Copynumber: 2.4 Consensus size: 70
4976061 TTCCATATGG
* * * * * * *
4976071 AGTAGTGCTTAACTTATTCTAGTTGTTCTGCTTTAAGTAGTACTTCACTTGTTATAGTTGTTCTG
1 AGTAGCGCTTCACTTGTTCTAGTTGTTCTGCATGAAGTAGCACTTCACTTGTTATAGTTATTCTG
4976136 CAAGA
66 CAAGA
* * * *
4976141 AGTAGCGCTTCACTTGTTCTAGTTATTTTGCATGAAGTAGCACTTCACTTGTTCTAGTTATTTTG
1 AGTAGCGCTTCACTTGTTCTAGTTGTTCTGCATGAAGTAGCACTTCACTTGTTATAGTTATTCTG
* *
4976206 TATGA
66 CAAGA
*
4976211 AGTAGCACTTCACTTGTTC-ACGTTGTTCT
1 AGTAGCGCTTCACTTGTTCTA-GTTGTTCT
4976240 TTGTACAATA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
69 1 0.01
70 81 0.99
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (70 bp):
AGTAGCGCTTCACTTGTTCTAGTTGTTCTGCATGAAGTAGCACTTCACTTGTTATAGTTATTCTG
CAAGA
Found at i:4978250 original size:7 final size:7
Alignment explanation
Indices: 4978238--4978267 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4978228 AATAAACAAA
4978238 AAAAATG
1 AAAAATG
4978245 AAAAATG
1 AAAAATG
4978252 AATAAATG
1 AA-AAATG
4978260 AAAAATG
1 AAAAATG
4978267 A
1 A
4978268 TGAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:4978264 original size:25 final size:25
Alignment explanation
Indices: 4978203--4978257 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
4978193 ACACTAAATT
* * *
4978203 ATAAACAAGTAAAAATTAAAAATATA
1 ATAAACAA-AAAAAATGAAAAATAGA
4978229 ATAAACAAAAAAAATGAAAAAT-GA
1 ATAAACAAAAAAAATGAAAAATAGA
4978253 ATAAA
1 ATAAA
4978258 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 6 0.23
25 12 0.46
26 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (25 bp):
ATAAACAAAAAAAATGAAAAATAGA
Found at i:4991061 original size:2 final size:2
Alignment explanation
Indices: 4991054--4991100 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4991044 NNNNNNNNNN
4991054 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
4991096 AT AT A
1 AT AT A
4991101 AGAACTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4994365 original size:25 final size:25
Alignment explanation
Indices: 4994336--4994399 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
4994326 TCATATCATC
4994336 ATCAATTATGATATGCCACATTATA
1 ATCAATTATGATATGCCACATTATA
*
4994361 ATCAATTATGATATGTCACATTATA
1 ATCAATTATGATATGCCACATTATA
4994386 ATCAATTATGATAT
1 ATCAATTATGATAT
4994400 TTTAACACTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (25 bp):
ATCAATTATGATATGCCACATTATA
Found at i:4995067 original size:29 final size:28
Alignment explanation
Indices: 4994966--4995068 Score: 75
Period size: 32 Copynumber: 3.5 Consensus size: 28
4994956 GTAGATATTT
* * *
4994966 TTTAAACTTAGTTTATTTTAAGTTATTAAA
1 TTTAAATTTATTTTATTTTTA-TTA-TAAA
4994996 CTTTTAAATTTATTTTATTTTTATTATAAA
1 --TTTAAATTTATTTTATTTTTATTATAAA
**
4995026 TTATAAAAGTATTATTATTTTCATATTA-AAA
1 TT-TAAATTTATT-TTATTTT--TATTATAAA
4995057 -TTAAATTTATTT
1 TTTAAATTTATTT
4995069 ACGTTAGCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 3 0.05
29 16 0.27
30 12 0.20
31 6 0.10
32 23 0.38
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (28 bp):
TTTAAATTTATTTTATTTTTATTATAAA
Found at i:5004182 original size:29 final size:27
Alignment explanation
Indices: 5004150--5004210 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 27
5004140 AGAATAATCC
5004150 TAAAACAACTTTAATTATAATAATAATAA
1 TAAAACAACTTTAATT-TAATAAT-ATAA
*
5004179 TAAAACAACTTTAATTTAATAATATTA
1 TAAAACAACTTTAATTTAATAATATAA
5004206 TAAAA
1 TAAAA
5004211 GATGCATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 8 0.26
28 7 0.23
29 16 0.52
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAACAACTTTAATTTAATAATATAA
Found at i:5005800 original size:2 final size:2
Alignment explanation
Indices: 5005793--5005840 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
5005783 TGAATGTTNC
5005793 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT -T A- 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
5005832 AT AT AT AT A
1 AT AT AT AT A
5005841 ATTAAACCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5006028 original size:252 final size:251
Alignment explanation
Indices: 5005576--5006042 Score: 916
Period size: 252 Copynumber: 1.9 Consensus size: 251
5005566 AAACATACCC
*
5005576 ATATATTTATATAATTAAACCATAATGAACAATTCAACTTACTGTATCATCAAGCCACTTCCTTG
1 ATATATATATATAATTAAACCATAATGAACAATTCAACTTACTGTATCATCAAGCCACTTCCTTG
5005641 GTTCCAATGTCATCATCTCACTCCTAATTGCATATGTATCAATGAAATCAACAATTTTCTCCTCA
66 GTTCCAATGTCATCATCTCACTCCTAATTGCATATGTATCAATGAAATCAACAATTTTCTCCTCA
5005706 CTACGTTAAGAAATAATTAATCAACATTTTTTATTAAAAAAAAACAAAATATGAAAAAACTATTA
131 CTACGTTAAGAAATAATTAATCAACATTTTTTATTAAAAAAAAACAAAATATGAAAAAACTATTA
5005771 AAACTACCTGTTTGAATGTTNCATATATATTATATATATATATATATATATTAATAT
196 AAACTACCTGTTTGAATGTT-CATATATATTATATATATATATATATATATTAATAT
5005828 ATATATATATATAATTAAACCATAATGAACAATTCAACTTACTGTATCATCAAGCCACTTCCTTG
1 ATATATATATATAATTAAACCATAATGAACAATTCAACTTACTGTATCATCAAGCCACTTCCTTG
5005893 GTTCCAATGTCATCATCTCACTCCTAATTGCATATGTATCAATGAAATCAACAATTTTCTCCTCA
66 GTTCCAATGTCATCATCTCACTCCTAATTGCATATGTATCAATGAAATCAACAATTTTCTCCTCA
5005958 CTACGTTAAGAAATAATTAATCAACATTTTTTATTAAAAAAAAACAAAATATGAAAAAACTATTA
131 CTACGTTAAGAAATAATTAATCAACATTTTTTATTAAAAAAAAACAAAATATGAAAAAACTATTA
5006023 AAACTACCTGTTTGAATGTT
196 AAACTACCTGTTTGAATGTT
5006043 TATTCCACAC
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 214 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.35
Consensus pattern (251 bp):
ATATATATATATAATTAAACCATAATGAACAATTCAACTTACTGTATCATCAAGCCACTTCCTTG
GTTCCAATGTCATCATCTCACTCCTAATTGCATATGTATCAATGAAATCAACAATTTTCTCCTCA
CTACGTTAAGAAATAATTAATCAACATTTTTTATTAAAAAAAAACAAAATATGAAAAAACTATTA
AAACTACCTGTTTGAATGTTCATATATATTATATATATATATATATATATTAATAT
Found at i:5007106 original size:48 final size:48
Alignment explanation
Indices: 5007054--5007207 Score: 120
Period size: 48 Copynumber: 3.2 Consensus size: 48
5007044 CACTTCAAAC
*
5007054 TTTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTT
1 TTTCATACTCTAGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTT
* * * ** * **
5007102 TTTCATACTCCAATAATTCCTTCAACTTTTTCATTTCA-CACTTCA--A--AC
1 TTTCATACT-C--TAGTTGCTTC-TCTTTTTC-TTTCAGCTGTTGATTATTTT
* *
5007150 TCTCATACTCTTGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTT
1 TTTCATACTCTAGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTT
*
5007198 TATCATACTC
1 TTTCATACTC
5007208 CAATAATCCC
Statistics
Matches: 76, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
43 5 0.07
44 11 0.14
45 7 0.09
46 1 0.01
47 1 0.01
48 26 0.34
49 1 0.01
50 1 0.01
51 7 0.09
52 11 0.14
53 5 0.07
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (48 bp):
TTTCATACTCTAGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTT
Found at i:5007124 original size:96 final size:96
Alignment explanation
Indices: 5006956--5007248 Score: 493
Period size: 96 Copynumber: 3.1 Consensus size: 96
5006946 AAGCTAACGA
* *
5006956 AAAC-CTCATACTCCCGTTGCTTCTCTTTTT-TTTCAGCTTTTGATTATTTTTTTCATACTCCAA
1 AAACTCTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTTTCATACTCCAA
5007019 TAATTCCTTCAACTTTTCAATTTCACACTTC
66 TAATTCCTTCAACTTTTCAATTTCACACTTC
*
5007050 AAACTTTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTTTCATACTCCAA
1 AAACTCTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTTTCATACTCCAA
5007115 TAATTCCTTCAACTTTTTC-ATTTCACACTTC
66 TAATTCCTTCAAC-TTTTCAATTTCACACTTC
* *
5007146 AAACTCTCATACTCTTGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTATCATACTCCAA
1 AAACTCTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTTTCATACTCCAA
* *
5007211 TAATCCCTTCAACTTTTCAATTTCATACTTC
66 TAATTCCTTCAACTTTTCAATTTCACACTTC
5007242 AAACTCT
1 AAACTCT
5007249 TAATTTCACT
Statistics
Matches: 187, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
94 4 0.02
95 29 0.16
96 149 0.80
97 5 0.03
ACGTcount: A:0.22, C:0.26, G:0.05, T:0.48
Consensus pattern (96 bp):
AAACTCTCATACTCTCGTTGCTTCTCTTTTTCTTTCAGCTGTTGATTATTTTTTTCATACTCCAA
TAATTCCTTCAACTTTTCAATTTCACACTTC
Found at i:5010453 original size:119 final size:119
Alignment explanation
Indices: 5010242--5010598 Score: 624
Period size: 119 Copynumber: 3.0 Consensus size: 119
5010232 GTTTTGATGC
* *
5010242 TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTCGACTGCTG
1 TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGCTGCTG
* * * *
5010307 GTAAACAATGCTGCACTAGTTCCACGGCTCGAGATCAAAGGGTACAAATGGTGG
66 GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTACGAATGGTGG
* *
5010361 TGATATCGGTTAAAGTGAAAGACATTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGCTGCTG
1 TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGCTGCTG
5010426 GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTACGAATGGTGG
66 GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTACGAATGGTGG
*
5010480 TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGTTGCTG
1 TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGCTGCTG
*
5010545 GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTATGAATGGTGG
66 GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTACGAATGGTGG
5010599 AGAGTCCTCA
Statistics
Matches: 226, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 226 1.00
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.23
Consensus pattern (119 bp):
TGATATCGGTTAGAGTGAAAGACCTTCTAGGAAGGTTGACATTGCAGGAGAAGGTTAGGCTGCTG
GCAAACAATGCTGCACCAGTTCCACGGCTCGGGATCAAAGGGTACGAATGGTGG
Found at i:5010893 original size:5 final size:5
Alignment explanation
Indices: 5010883--5010911 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
5010873 CACCATCTTG
5010883 TATAA TATAA TATAA T-TAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA
5010912 GAGAAACGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:5010904 original size:9 final size:10
Alignment explanation
Indices: 5010883--5010911 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
5010873 CACCATCTTG
5010883 TATAATATAA
1 TATAATATAA
5010893 TATAAT-TAA
1 TATAATATAA
5010902 TATAATATAA
1 TATAATATAA
5010912 GAGAAACGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATAATATAA
Found at i:5010904 original size:14 final size:14
Alignment explanation
Indices: 5010885--5010911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5010875 CCATCTTGTA
5010885 TAATATAATATAAT
1 TAATATAATATAAT
5010899 TAATATAATATAA
1 TAATATAATATAA
5010912 GAGAAACGTG
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATAATATAAT
Found at i:5013105 original size:21 final size:21
Alignment explanation
Indices: 5013081--5013121 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5013071 GGGAAGGGGA
* * *
5013081 TATCCTAATCAGGGTCAGGGT
1 TATCCCAATCAAGGACAGGGT
5013102 TATCCCAATCAAGGACAGGG
1 TATCCCAATCAAGGACAGGG
5013122 CTTTCCACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
TATCCCAATCAAGGACAGGGT
Found at i:5024788 original size:24 final size:24
Alignment explanation
Indices: 5024755--5024801 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5024745 AATAATTAAA
*
5024755 AAATTAATT-ATTATATAAAATAAT
1 AAATTAATTAAAT-TATAAAATAAT
*
5024779 AAATTTATTAAATTATAAAATAA
1 AAATTAATTAAATTATAAAATAA
5024802 CACGTGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTAATTAAATTATAAAATAAT
Found at i:5024984 original size:2 final size:2
Alignment explanation
Indices: 5024977--5025024 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
5024967 TAGAAGCAAG
*
5024977 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA AA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5025017 TA TA TA TA
1 TA TA TA TA
5025025 ATTATTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5025001 original size:19 final size:20
Alignment explanation
Indices: 5024977--5025030 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
5024967 TAGAAGCAAG
5024977 TATATATATAATATA-TATA
1 TATATATATAATATATTATA
5024996 TATATATATAA-ATATTATA
1 TATATATATAATATATTATA
5025015 TATATATATAAT-TATT
1 TATATATATAATATATT
5025031 TAAACAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.09
19 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATATATAATATATTATA
Found at i:5029838 original size:27 final size:28
Alignment explanation
Indices: 5029808--5029860 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
5029798 AAAAGTTATT
* *
5029808 CACAAGATGCTAATTGA-AAAAAAAATC
1 CACAAAATGCAAATTGAGAAAAAAAATC
5029835 CACAAAATGCAAATTGAGAAAAAAAA
1 CACAAAATGCAAATTGAGAAAAAAAA
5029861 AACATGGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.60, C:0.13, G:0.11, T:0.15
Consensus pattern (28 bp):
CACAAAATGCAAATTGAGAAAAAAAATC
Found at i:5033286 original size:32 final size:32
Alignment explanation
Indices: 5033250--5033326 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
5033240 GTCGCATGGC
5033250 ACTAATGTGATGACGTGATAATGTCACGTGAT
1 ACTAATGTGATGACGTGATAATGTCACGTGAT
* *
5033282 ACTAATGTGATGACGTGATACTGTCACGTGGT
1 ACTAATGTGATGACGTGATAATGTCACGTGAT
5033314 ACTAATGTGATGA
1 ACTAATGTGATGA
5033327 TGTGGCAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (32 bp):
ACTAATGTGATGACGTGATAATGTCACGTGAT
Found at i:5039699 original size:82 final size:79
Alignment explanation
Indices: 5039602--5039760 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 79
5039592 TAATATCATC
*
5039602 TCTTAAAAATATTTTTAATGTCATATGTTATATTTTTATTTTTTATTATAATATTATATATTTTA
1 TCTTAAAAATATTTTTAATGTCATAT-TT-TATTTTTATGTTTTATTATAATATTATATATTTTA
5039667 TTTTTATTTTTTAAAA
64 TTTTTATTTTTTAAAA
* * *
5039683 NTCTTAAATATGTTTTTAATGTCATATTTTATTTTTATGTTTTATTATAATCTTATATATTTTAT
1 -TCTTAAAAATATTTTTAATGTCATATTTTATTTTTATGTTTTATTATAATATTATATATTTTAT
5039748 TTTTATTTTTTAA
65 TTTTATTTTTTAA
5039761 TATAATTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 47 0.64
81 2 0.03
82 24 0.33
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (79 bp):
TCTTAAAAATATTTTTAATGTCATATTTTATTTTTATGTTTTATTATAATATTATATATTTTATT
TTTATTTTTTAAAA
Found at i:5039744 original size:33 final size:33
Alignment explanation
Indices: 5039706--5039787 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
5039696 TTTTAATGTC
*
5039706 ATATTTTATTTTTATGTTTTATTATAATCTTAT
1 ATATTTTATTTTTATGTTTTAATATAATCTTAT
* * *
5039739 ATATTTTATTTTTATTTTTTAATATAATTTTTT
1 ATATTTTATTTTTATGTTTTAATATAATCTTAT
*
5039772 ATATTGTATATTTTAT
1 ATATTTTAT-TTTTAT
5039788 TTTAATTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 37 0.86
34 6 0.14
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (33 bp):
ATATTTTATTTTTATGTTTTAATATAATCTTAT
Found at i:5045346 original size:29 final size:28
Alignment explanation
Indices: 5045314--5045375 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
5045304 TACTATATAA
*
5045314 AATTT-TTAAAATTATTTATAAATTTTAAT
1 AATTTCTTAAAATAATTT-TAAA-TTTAAT
*
5045343 AATTTCCTTAAAATAATTTTTAATTTAAT
1 AATTT-CTTAAAATAATTTTAAATTTAAT
5045372 AATT
1 AATT
5045376 AATATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.52
30 3 0.10
31 11 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
AATTTCTTAAAATAATTTTAAATTTAAT
Found at i:5046222 original size:26 final size:27
Alignment explanation
Indices: 5046189--5046239 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
5046179 TTAAATTTAA
*
5046189 TTATAATTTACTT-ATTTTT-AGTTATT
1 TTATAA-TTAATTGATTTTTAAGTTATT
5046215 TTATAATTAATTGATTTTTAAGTTA
1 TTATAATTAATTGATTTTTAAGTTA
5046240 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (27 bp):
TTATAATTAATTGATTTTTAAGTTATT
Found at i:5046240 original size:16 final size:15
Alignment explanation
Indices: 5046210--5046248 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
5046200 TTATTTTTAG
5046210 TTATTTTATAATTAA
1 TTATTTTATAATTAA
5046225 TTGATTTT-TAAGTTAA
1 TT-ATTTTATAA-TTAA
5046241 TTATTTTA
1 TTATTTTA
5046249 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTATTTTATAATTAA
Found at i:5046244 original size:26 final size:25
Alignment explanation
Indices: 5046185--5046290 Score: 71
Period size: 25 Copynumber: 4.2 Consensus size: 25
5046175 GTTCTTAAAT
*
5046185 TTAATTATAATTTACTTATTTTTAG
1 TTAATTATAATTTAATTATTTTTAG
*
5046210 TTATTTTATAA-TTAATTGATTTTTAAG
1 TTA-ATTATAATTTAATT-ATTTTT-AG
5046237 TTAATTAT--TTTAATT-TTATGTTA-
1 TTAATTATAATTTAATTATT-T-TTAG
* * *
5046260 TTTATTTTAATTTGATTATTATTTA-
1 TTAATTATAATTTAATTATT-TTTAG
5046285 TTAATT
1 TTAATT
5046291 TTTATATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
23 8 0.12
24 2 0.03
25 30 0.46
26 20 0.31
27 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (25 bp):
TTAATTATAATTTAATTATTTTTAG
Found at i:5046253 original size:20 final size:20
Alignment explanation
Indices: 5046230--5046272 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5046220 ATTAATTGAT
5046230 TTTTAAGTTAATTATTTTAA
1 TTTTAAGTTAATTATTTTAA
* *
5046250 TTTTATGTTATTTATTTTAA
1 TTTTAAGTTAATTATTTTAA
5046270 TTT
1 TTT
5046273 GATTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTAAGTTAATTATTTTAA
Found at i:5046283 original size:21 final size:20
Alignment explanation
Indices: 5046241--5046286 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5046231 TTTAAGTTAA
* *
5046241 TTATTTTAATTTTATGTTAT
1 TTATTTTAATTTGATATTAT
5046261 TTATTTTAATTTGATTATTAT
1 TTATTTTAATTTGA-TATTAT
5046282 TTATT
1 TTATT
5046287 AATTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTAATTTGATATTAT
Found at i:5046660 original size:23 final size:23
Alignment explanation
Indices: 5046634--5046687 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
5046624 TTAGGGAACT
*
5046634 ATAGGTCATGTTTATTAGTATAA
1 ATAGGTCAAGTTTATTAGTATAA
*
5046657 ATAGGATGTTAAGTTTATTAGTATAA
1 ATA-G--GTCAAGTTTATTAGTATAA
5046683 ATAGG
1 ATAGG
5046688 GTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 4 0.15
24 1 0.04
25 1 0.04
26 20 0.77
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (23 bp):
ATAGGTCAAGTTTATTAGTATAA
Found at i:5047727 original size:21 final size:21
Alignment explanation
Indices: 5047697--5047736 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5047687 ATACATGTAT
*
5047697 ATATATATATATGTACTTTAA
1 ATATAAATATATGTACTTTAA
*
5047718 ATATAAATATATTTACTTT
1 ATATAAATATATGTACTTT
5047737 TTATTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
ATATAAATATATGTACTTTAA
Found at i:5057614 original size:31 final size:31
Alignment explanation
Indices: 5057579--5057640 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
5057569 CAAATTTATT
* * *
5057579 GAGTTTTCGCTTTCTGCATGTTTGTGCAAAA
1 GAGTTTTCACCTTCTGCATCTTTGTGCAAAA
5057610 GAGTTTTCACCTTCTGCATCTTTGTGCAAAA
1 GAGTTTTCACCTTCTGCATCTTTGTGCAAAA
5057641 TTCTAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (31 bp):
GAGTTTTCACCTTCTGCATCTTTGTGCAAAA
Found at i:5061210 original size:20 final size:20
Alignment explanation
Indices: 5061181--5061218 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5061171 AGTTATTTTA
5061181 TTATTATTTATCTATTTATT
1 TTATTATTTATCTATTTATT
* *
5061201 TTATTTTTTATTTATTTA
1 TTATTATTTATCTATTTA
5061219 ATGTCATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTATTTATCTATTTATT
Found at i:5063369 original size:2 final size:2
Alignment explanation
Indices: 5063364--5063399 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5063354 TCTTCTTTTT
* *
5063364 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5063400 ATCCGTCTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:5063705 original size:19 final size:20
Alignment explanation
Indices: 5063668--5063705 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5063658 TTTAATTATG
5063668 AATTAGTAATATTTTAAATA
1 AATTAGTAATATTTTAAATA
5063688 AATTA-TAA-ATTATTAAAT
1 AATTAGTAATATT-TTAAAT
5063706 TTTATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 9 0.53
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTAGTAATATTTTAAATA
Found at i:5064605 original size:26 final size:27
Alignment explanation
Indices: 5064547--5064613 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
5064537 AAAAAAATTT
* *
5064547 AAATAAATTTTTAT-TTTTATTACGTT
1 AAATAAATTTTTATATTTTATTACATC
* *
5064573 AATTAAATTTTTATATTTTTTTA-ATC
1 AAATAAATTTTTATATTTTATTACATC
*
5064599 AAATAAATCTTTATA
1 AAATAAATTTTTATA
5064614 ATTAATAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (27 bp):
AAATAAATTTTTATATTTTATTACATC
Found at i:5064929 original size:29 final size:30
Alignment explanation
Indices: 5064872--5064966 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 30
5064862 TAATTATTAA
*
5064872 TTATTTAACTCAAAATAAAAATATAAAAAT
1 TTATTTAAATCAAAATAAAAATATAAAAAT
* * *
5064902 TTATTTTATTCAAAATAAAAATATAAAAAA
1 TTATTTAAATCAAAATAAAAATATAAAAAT
* *
5064932 ATAATTAAAT-AAAATAAAAATATAAAAAT
1 TTATTTAAATCAAAATAAAAATATAAAAAT
5064961 TTATTT
1 TTATTT
5064967 TAAAATTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 22 0.40
30 33 0.60
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
TTATTTAAATCAAAATAAAAATATAAAAAT
Found at i:5065865 original size:16 final size:17
Alignment explanation
Indices: 5065844--5065881 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
5065834 TTTTGAAATT
*
5065844 TTTTTTTAAAAA-ATAA
1 TTTTTTTAAAAACAAAA
5065860 TTTTTTTAAAAACAAAA
1 TTTTTTTAAAAACAAAA
5065877 TTTTT
1 TTTTT
5065882 AAAAAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTTAAAAACAAAA
Found at i:5065886 original size:16 final size:15
Alignment explanation
Indices: 5065846--5065888 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
5065836 TTGAAATTTT
**
5065846 TTTTTAAAAAATAATT
1 TTTTTAAAAAA-AAAA
*
5065862 TTTTTAAAAACAAAA
1 TTTTTAAAAAAAAAA
5065877 TTTTTAAAAAAA
1 TTTTTAAAAAAA
5065889 GAGTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTTAAAAAAAAAA
Found at i:5066725 original size:31 final size:31
Alignment explanation
Indices: 5066682--5066742 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
5066672 AATAATTAAT
* * *
5066682 TATAAAATTTTATTTGACTTAAAATAAAAAA
1 TATAAAAGTTTATATGACTCAAAATAAAAAA
5066713 TATAAAAGTTTATATGACTCAAAATAAAAA
1 TATAAAAGTTTATATGACTCAAAATAAAAA
5066743 TACAAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (31 bp):
TATAAAAGTTTATATGACTCAAAATAAAAAA
Found at i:5066950 original size:22 final size:23
Alignment explanation
Indices: 5066912--5066955 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
5066902 TTGTTTGTAT
5066912 AAATAAAATTATAAAATTTTAATA
1 AAATAAAA-TATAAAATTTTAATA
5066936 AAATAAAA-ATAAAATTTTAA
1 AAATAAAATATAAAATTTTAA
5066956 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAAAATATAAAATTTTAATA
Found at i:5067969 original size:171 final size:170
Alignment explanation
Indices: 5067680--5068000 Score: 563
Period size: 171 Copynumber: 1.9 Consensus size: 170
5067670 ATCTCCTGGT
*
5067680 TTTTTCTCTTAGTGGATTTTTCTCTGTTGTTGTGCCCGTGGACTTAGGTCATCAAAAGACCGAAC
1 TTTTTCTCTTAGTGGATTTTTCTCTGTTGTTGTGCCCGTGGACGTAGGTCATCAAAAGACCGAAC
* * * *
5067745 CGCGTAAATTCTTGTGTTTTTGTGGGTGTGCTTGATTTCTTTATTTTTTTATTCTATTGATTTG-
66 CACGTAAATTCTTGTGTTCTTGTGGGTGTACTTGATTTCTTTATTTCTTTATTCTATTGA-TTGA
5067809 GTTAGATCTTGGGCAATTCTTAGANTTCTTATAATCTTCTTA
130 GTTAGATCTTGGGCAATTCTTAGA-TTCTTATAATCTTCTTA
5067851 TTTTTCTCTTAGTGGATTTTTCTCTGTTGTTGTGCCCGTGGACGTAGGTCATCAAAAGACCGAAC
1 TTTTTCTCTTAGTGGATTTTTCTCTGTTGTTGTGCCCGTGGACGTAGGTCATCAAAAGACCGAAC
*
5067916 CACGTAAATTCTTGTGTTCTTGTGGGTGTACTTGATTTCTTTCTTTCTTTATTCTATTGATTGAG
66 CACGTAAATTCTTGTGTTCTTGTGGGTGTACTTGATTTCTTTATTTCTTTATTCTATTGATTGAG
5067981 TTAGATCTTGGGCAATTCTT
131 TTAGATCTTGGGCAATTCTT
5068001 TAGAGATAAT
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
170 3 0.02
171 140 0.98
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.47
Consensus pattern (170 bp):
TTTTTCTCTTAGTGGATTTTTCTCTGTTGTTGTGCCCGTGGACGTAGGTCATCAAAAGACCGAAC
CACGTAAATTCTTGTGTTCTTGTGGGTGTACTTGATTTCTTTATTTCTTTATTCTATTGATTGAG
TTAGATCTTGGGCAATTCTTAGATTCTTATAATCTTCTTA
Found at i:5071199 original size:23 final size:23
Alignment explanation
Indices: 5071173--5071217 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5071163 TAGAATAACA
*
5071173 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
5071196 ATTCCTAATTATATTAGGATAA
1 ATTCCTAATTATATTAGGATAA
5071218 AGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:5071605 original size:20 final size:21
Alignment explanation
Indices: 5071568--5071606 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
5071558 TAATAATTTA
*
5071568 TAAATAAAAAGTGGTTGAACT
1 TAAATAAAAAGTGATTGAACT
*
5071589 TAAA-AAAAATTGATTGAA
1 TAAATAAAAAGTGATTGAA
5071607 AAAAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (21 bp):
TAAATAAAAAGTGATTGAACT
Found at i:5075012 original size:2 final size:2
Alignment explanation
Indices: 5075007--5075034 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5074997 TGTTAGCTTC
5075007 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
5075035 AAGATTCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5076840 original size:26 final size:25
Alignment explanation
Indices: 5076784--5076843 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
5076774 ATTAAAATTT
* * *
5076784 TAAATATATATACGAATACATTTAA
1 TAAATATATATACGAATAAAATAAA
5076809 TAAATATATAATACGATATAAAATAAA
1 TAAATATAT-ATACGA-ATAAAATAAA
5076836 T-AATATAT
1 TAAATATAT
5076844 TTATTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.30
26 13 0.43
27 8 0.27
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (25 bp):
TAAATATATATACGAATAAAATAAA
Found at i:5078727 original size:99 final size:99
Alignment explanation
Indices: 5078506--5078710 Score: 329
Period size: 99 Copynumber: 2.1 Consensus size: 99
5078496 TCACTATTAT
* * *****
5078506 CTAAAGTACGTATATCAATTCTAATTTTCATGTTTTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATAAGGCACCAAATTTATTTTCAATTTTCAAAATAG
* *
5078571 TTAATTGTTAAATTTTAATTTTAAGTATATAGTA
66 TTAATTGTTAAATTTTAATATTAAATATATAGTA
5078605 CTAAAGTACATATATTAATTCTAATTTTCATAAGGCACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATAAGGCACCAAATTTATTTTCAATTTTCAAAATAG
5078670 TTAATTGTTAAATTTTAATATTAAATATATAGTA
66 TTAATTGTTAAATTTTAATATTAAATATATAGTA
5078704 CTAAAGT
1 CTAAAGT
5078711 GATTCATTAT
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (99 bp):
CTAAAGTACATATATTAATTCTAATTTTCATAAGGCACCAAATTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATATTAAATATATAGTA
Found at i:5079088 original size:119 final size:119
Alignment explanation
Indices: 5078605--5079067 Score: 579
Period size: 119 Copynumber: 3.9 Consensus size: 119
5078595 GTATATAGTA
** *
5078605 CTAAAGTACATATATTAATTCTAATTTTCATAAGGCACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
*
5078670 TTAATTGTTAAATTTTAATATTAAATATATAGTACTAAAGTGATTCATTATTAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
** * * * *
5078724 CTAAAGTA-AGTATATTGGTTCTAATTCTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATA
1 CTAAAGTACA-TATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
* * * * * *
5078788 ATTAATTATTAAGTTTTAATTTTAAATGTATAGTGCTAAAGTGATTCATTATCAT
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* ** * *
5078843 TTAAAGTATGTATATTAACTCTAATTTTCATGTGGTACCAAATATTTTTTTTTTCAATTTTCAAA
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACC-AA-A--TTTATTTTCAATTTTCAAA
* * * * * * *
5078908 ATTGTTAATCGTTAAATTTTAATTTTAAAGATGTAATATTACAGTGATTCATTATTAT
62 ATAGTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * *
5078966 CTAAAGTACATATATTAATTATAATTTTCATGTGGTA-CATAATTTATTTTTAATTGTCAAAATA
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCA-AATTTATTTTCAATTTTCAAAATA
5079030 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTA
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTA
5079068 CAGTATGTAT
Statistics
Matches: 285, Mismatches: 52, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
118 1 0.00
119 183 0.64
120 2 0.01
121 2 0.01
122 2 0.01
123 95 0.33
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (119 bp):
CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
Found at i:5079091 original size:99 final size:99
Alignment explanation
Indices: 5078976--5079166 Score: 278
Period size: 99 Copynumber: 1.9 Consensus size: 99
5078966 CTAAAGTACA
* * * *
5078976 TATATTAATTATAATTTTCATGTGGTACATAATTTAT-TTTT-AATTGTCAAAATAGTTAATTGT
1 TATATTAATTATAATTTTCAGGCGGTAC-CAATTT-TGTTTTCAATTGTCAAAATAATTAATTGT
5079039 TAAATTTTAATTTTAAATATATAGTACTACAGTATG
64 TAAATTTTAATTTTAAATATATAGTACTACAGTATG
* *
5079075 TATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTA
1 TATATTAATTATAATTTTCAGGCGGTACCAATTTTGTTTTCAATTGTCAAAATAATTAATTGTTA
* *
5079140 AGTTTTAATTTTAAATGTATAGTACTA
66 AATTTTAATTTTAAATATATAGTACTA
5079167 AAGTGATTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 1 0.01
98 9 0.11
99 72 0.88
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (99 bp):
TATATTAATTATAATTTTCAGGCGGTACCAATTTTGTTTTCAATTGTCAAAATAATTAATTGTTA
AATTTTAATTTTAAATATATAGTACTACAGTATG
Found at i:5079204 original size:119 final size:118
Alignment explanation
Indices: 5079069--5079518 Score: 536
Period size: 119 Copynumber: 3.8 Consensus size: 118
5079059 ATAGTACTAC
* *
5079069 AGTATGTATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
1 AGTATGTATATTAATTCTAATTTTCATGCGGTACAAATTTTGTTTTCAATTTTCAAAATAATTAA
* *
5079134 TTGTTAAGTTTTAATTTTAAATGTATAGTACTAAAGTGATTCATTATCATTTAA
66 TTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATCA-TTAA
* * * * * **
5079188 AGTACGTATATTAATTCTAATTTTCATGTGGCACGAAATAATTTTTTTTCCATTTTCAAAATTGT
1 AGTATGTATATTAATTCTAATTTTCATGCGGTAC-AAAT--TTTGTTTTCAATTTTCAAAATAAT
* * * *
5079253 TAATTGTTAAATTTTAATCTTAAAGATATAATATTAAA--G--T-ATTATC--TAA
63 TAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATCATTAA
* * * * * * *
5079302 AGTATGTTTATTGATTATAATTTTCATGAGGTACAAAATTTATTTTTAATTTTCAAAATAATTAA
1 AGTATGTATATTAATTCTAATTTTCATGCGGTACAAATTTTGTTTTCAATTTTCAAAATAATTAA
* * * * *
5079367 TTGTTAAGTTTTACTTTTAAATATATTGTGCTAAAGTGATTCATTATTATCTAA
66 TTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATCAT-TAA
* * *
5079421 AGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
1 AGTATGTATATTAATTCTAATTTTCATGCGGTACAAATTTTGTTTTCAATTTTCAAAATAATTAA
5079486 TTGTTAAATTTTAATTTTAAATATATAGTACTA
66 TTGTTAAATTTTAATTTTAAATATATAGTACTA
5079519 CAGTATGTAT
Statistics
Matches: 270, Mismatches: 50, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
111 49 0.18
113 4 0.01
114 31 0.11
115 1 0.00
116 5 0.02
117 6 0.02
118 1 0.00
119 117 0.43
120 4 0.01
122 52 0.19
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.47
Consensus pattern (118 bp):
AGTATGTATATTAATTCTAATTTTCATGCGGTACAAATTTTGTTTTCAATTTTCAAAATAATTAA
TTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATCATTAA
Found at i:5079537 original size:99 final size:99
Alignment explanation
Indices: 5079421--5079611 Score: 346
Period size: 99 Copynumber: 1.9 Consensus size: 99
5079411 TATTATCTAA
5079421 AGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
1 AGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
5079486 TTGTTAAATTTTAATTTTAAATATATAGTACTAC
66 TTGTTAAATTTTAATTTTAAATATATAGTACTAC
* *
5079520 AGTATGTATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
1 AGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
* *
5079585 TTGTTAAGTTTTACTTTTAAATATATA
66 TTGTTAAATTTTAATTTTAAATATATA
5079612 TATAGTACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (99 bp):
AGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
TTGTTAAATTTTAATTTTAAATATATAGTACTAC
Found at i:5079659 original size:99 final size:98
Alignment explanation
Indices: 5079428--5079644 Score: 244
Period size: 99 Copynumber: 2.2 Consensus size: 98
5079418 TAAAGTAAGT
* * *
5079428 ATATTAATTCTAATTTTCAA-GCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTA
1 ATATTAATTATAA-TTTAAAGGCGATACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTA
**
5079492 AATTTTAATTTTAAATATATAGTACTACAGTATGT
65 AATTTTAATTTTAAATATATAGTACTA-AGTATAA
* ** *
5079527 ATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAA
1 ATATTAATTATAATTTAAAGGCGATACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAA
* *
5079592 GTTTTACTTTTAAATATATA-TA-T-AGTACTAA
66 ATTTTAATTTTAAATATATAGTACTAAGTA-TAA
* *
5079623 AGTGATTCATTATCATTTAAAG
1 A-T-ATTAATTATAATTTAAAG
5079645 TCGTATATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
95 4 0.04
96 2 0.02
97 2 0.02
98 19 0.18
99 76 0.74
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (98 bp):
ATATTAATTATAATTTAAAGGCGATACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAA
ATTTTAATTTTAAATATATAGTACTAAGTATAA
Found at i:5079665 original size:122 final size:118
Alignment explanation
Indices: 5079520--5079861 Score: 416
Period size: 122 Copynumber: 2.9 Consensus size: 118
5079510 ATAGTACTAC
* * * * * * *
5079520 AGTATGTATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAA
1 AGTACGTATATTAATTATAATTTTCATGTGGTACAAATTTTATTTTCAATTTTCAAAATAGTTAA
* *
5079585 TTGTTAAGTTTTACTTTTAAATATATATATAGTACTAAAGTGATTCATTATCATTTAA
66 TTGTTAA-TTTTAATTTTAAATATATA-ATA-T--TAAAGTGATTCATTATCATCTAA
* * * *
5079643 AGT-CGTATATTAATTTTAATTTTCATGTGGTACTAATTTTTTTTTCAATTTTCAAAATTGTTAA
1 AGTACGTATATTAATTATAATTTTCATGTGGTACAAATTTTATTTTCAATTTTCAAAATAGTTAA
* * *
5079707 TCGTTAAATTTTAATTTTAAAGATATAATATTAAAGTGATTCATTATTATCTAA
66 TTGTT-AATTTTAATTTTAAATATATAATATTAAAGTGATTCATTATCATCTAA
* * * *
5079761 AGTACATATATTAATTATAATTTTCATGTGGTACAAAATTTATTTTTAATTGTCAAAATAGTTAA
1 AGTACGTATATTAATTATAATTTTCATGTGGTACAAATTTTATTTTCAATTTTCAAAATAGTTAA
* * *
5079826 TTGTTAAATTTAATTTTAAATATATAGTACTAAAGT
66 TTGTTAATTTTAATTTTAAATATATAATATTAAAGT
5079862 ACATATATTA
Statistics
Matches: 191, Mismatches: 26, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
118 51 0.27
119 57 0.30
120 1 0.01
121 3 0.02
122 74 0.39
123 5 0.03
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (118 bp):
AGTACGTATATTAATTATAATTTTCATGTGGTACAAATTTTATTTTCAATTTTCAAAATAGTTAA
TTGTTAATTTTAATTTTAAATATATAATATTAAAGTGATTCATTATCATCTAA
Found at i:5079914 original size:97 final size:99
Alignment explanation
Indices: 5079757--5079976 Score: 338
Period size: 97 Copynumber: 2.2 Consensus size: 99
5079747 TCATTATTAT
* *
5079757 CTAAAGTACATATATTAATTATAATTTTCATGTGGTACAAAATTTATTTTTAATTGTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACAAAATTTATTTTCAATTGTCAAAATAG
*
5079822 TTAATTGTTAAA-TTTAATTTTAAATATATAGTA
66 TTAATTGTTAAATTTTAATATTAAATATATAGTA
* *
5079855 CTAAAGTACATATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACAAAATTTATTTTCAATTGTCAAAATAG
*
5079919 TTAATTGTTAAATTTTAATATTGAATATATAGTA
66 TTAATTGTTAAATTTTAATATTAAATATATAGTA
* *
5079953 CTAAAGT-GATTTATTAATATCTAA
1 CTAAAGTACATATATTAAT-TCTAA
5079977 AGTAAGTATA
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
97 58 0.52
98 54 0.48
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (99 bp):
CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACAAAATTTATTTTCAATTGTCAAAATAG
TTAATTGTTAAATTTTAATATTAAATATATAGTA
Found at i:5080031 original size:119 final size:119
Alignment explanation
Indices: 5079855--5080435 Score: 763
Period size: 119 Copynumber: 4.9 Consensus size: 119
5079845 ATATATAGTA
*
5079855 CTAAAGTACA-TATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
1 CTAAAGTA-AGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATA
* * *
5079918 GTTAATTGTTAAATTTTAATATTGAATATATAGTACTAAAGTGATTTATTAATAT
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAATAT
* * *
5079973 CTAAAGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAG
* * *
5080038 TTAATTGTTAAGTTTTACTTTTAAATATATAGTACTAAAGTGATTCATTATTAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAATAT
* *** * *
5080092 CTAAAGTAAGTATACTAATTCTAATTTTCAAACGGTACCAATTTTATTTTCAATTTTTAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAG
* * * *
5080157 TTAATTGTTAAGTTTTACTTTTAAATGTATAGTACTAAAGTGATTCATT-GTCAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAAT-AT
* * * * * * *
5080211 TTAAAGTACGCATATTAATTTTAATTTTCATGTGGTACTAATTTTTTTTTCAATTTTCAAAATTG
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAG
* * * * *
5080276 TTAATCGTTAAATTTTAATTTTAAAGATATAATATTAAAGTGATTCATTATTAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAATAT
* * * * * * *
5080330 CTAAAGTATGTATATTAATTATAATTTTCTTGTGGTACAAAATTTATTTTTAATTGTCAAAATAG
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAG
*
5080395 TTAATTGTTAAATTTTAATTTTAAATATATAGTTCTAAAGT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGT
5080436 ACATATATTA
Statistics
Matches: 407, Mismatches: 52, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
117 1 0.00
118 23 0.06
119 382 0.94
120 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (119 bp):
CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAATAT
Found at i:5080198 original size:238 final size:238
Alignment explanation
Indices: 5079855--5080998 Score: 1293
Period size: 238 Copynumber: 5.0 Consensus size: 238
5079845 ATATATAGTA
5079855 CTAAAGTACA-TATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
1 CTAAAGTA-AGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
* * * *
5079918 GTTAATTGTTAAATTTTAATATTGAATATATAGTACTAAAGTGATTTATTAATATCTAAAGTAAG
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGTATCTAAAGTAAG
* *
5079983 TATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTA
130 TATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTA
* *
5080048 AGTTTTACTTTTAAATATATAGTACTAAAGTGATTCATTATTAT
195 AATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* *** * * *
5080092 CTAAAGTAAGTATACTAATTCTAATTTTCAAACGGTACCAATTTTATTTTCAATTTTTAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
* * * * *
5080157 TTAATTGTTAAGTTTTACTTTTAAATGTATAGTACTAAAGTGATTCATT-GTCATTTAAAGTACG
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGT-ATCTAAAGTAAG
* * * * ** *
5080221 CATATTAATTTTAATTTTCATGTGGTACTAATTTTTTTTTCAATTTTCAAAATTGTTAATCGTTA
130 TATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTA
* * *
5080286 AATTTTAATTTTAAAGATATAATATTAAAGTGATTCATTATTAT
195 AATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * * * * *
5080330 CTAAAGTATGTATATTAATTATAATTTTCTTGTGGTACAAAATTTATTTTTAATTGTCAAAATAG
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
*
5080395 TTAATTGTTAAATTTTAATTTTAAATATATAGT--T---CT-A---A--AGTA-C-------A-T
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGTATCTAAAGTAAGT
* *
5080440 ATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAA
131 ATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
5080505 A-TTTAATTTTAAATATATAGTACTAAA--G---------TA-
196 ATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
5080535 C-------A-TATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
* * * *
5080591 TTAATTGTTAAATTTTAATATTAACTATATAGTACTAAAGTGATTCATTATTATCTAAAGTGAGT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGTATCTAAAGTAAGT
* * * *
5080656 ATATTAATTCTAATTTTCAAGCGGTACCATTTTTATTTTCAATTTTTAAAATAATTAATTGTTAA
131 ATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
* * * *
5080721 GTTTTAATTTTAAATGTATAGTACTGAAGTGATTCATTATCAT
196 ATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * * *
5080764 TTAAAGTACGTATATTCATTCTAATTTTCATGTGGTACCAAATATTTTTTTACAATTTTCAAAAT
1 CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAAAT-TTATTTT-CAATTTTCAAAA-
* * * * *
5080829 TA-TTAATCGTTAAATTTTAATTTTAAAGATATAATATTAAAGTGA-TCATTATTATCTAAAGTA
63 TAGTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGTATCTAAAGTA
* * * * * *
5080892 TGTATATTGATTATAATTTTCATGTGGTACAAAATTTATTTTTAATTTTCAAAATAATTAATTGT
128 AGTATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGT
*
5080957 TAAATTTTAATTTTAAATATATATAGTATTAAAGTGATTCAT
193 TAAATTTTAATTTT-AA-ATATATAGTACTAAAGTGATTCAT
5080999 GTTGGTCTTA
Statistics
Matches: 752, Mismatches: 104, Indels: 98
0.79 0.11 0.10
Matches are distributed among these distances:
196 67 0.09
197 13 0.02
198 1 0.00
201 1 0.00
202 1 0.00
205 2 0.00
206 2 0.00
207 3 0.00
208 1 0.00
215 2 0.00
216 60 0.08
217 47 0.06
218 60 0.08
219 1 0.00
227 1 0.00
228 3 0.00
229 1 0.00
232 1 0.00
233 1 0.00
236 2 0.00
237 35 0.05
238 282 0.38
239 91 0.12
240 51 0.07
241 23 0.03
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (238 bp):
CTAAAGTAAGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTAGTATCTAAAGTAAGT
ATATTAATTCTAATTTTCATGTGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
ATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
Found at i:5080394 original size:573 final size:571
Alignment explanation
Indices: 5078724--5080979 Score: 2745
Period size: 573 Copynumber: 4.0 Consensus size: 571
5078714 TCATTATTAT
** * * * *
5078724 CTAAAGTA-AGTATATTGGTTCTAATTCTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATA
1 CTAAAGTACA-TATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
* * * * * * *
5078788 ATTAATTATTAAGTTTTAATTTTAAATGTATAGTGCTAAAGTGATTCATTATCATTTAAAGTATG
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATT-ATTAT-ATCTAAAGTAAG
* * * * ** *
5078853 TATATTAACTCTAATTTTCATGTGGTACCAAATATTTTTTTTTTCAATTTTCAAAATTGTTAATC
128 TATATTAATTCTAATTTTCAAGCGGTACC--A-A-TTTTATTTTCAATTTTCAAAATAATTAATT
* * * * * *
5078918 GTTAAATTTTAATTTTAAAGATGTAATATTACAGTGATTCATTATTATCTAAAGTACATATATTA
189 GTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTA-GTATA-TA
* * * * * * * * *
5078983 ATTATAATTTTCATGTGGTA-CATAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTT
252 ATTCTAATTTTCAAGCGGTACCA-ATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTT
* *
5079047 AATTTT-AA---ATA-TA-T--AGT-A--C--TA-C------AGTATGTATATTAATTCTAATTT
316 ACTTTTAAATGTATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTT
* * * * * * *
5079092 TCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAAGTTTTAATTTTAAATG
381 TCATGTGGTACTAATTTTTTTTTCAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAA-G
* * * * * *
5079157 -TATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTTTCATGTGGCA
445 ATATAATATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATGTGGTA
* * *
5079221 CGAAATAATTT-TTTTTCCATTTTCAAAATTGTTAATTGTTAAATTTTAATCTTAAAGATATAAT
510 C--AA-AATTTATTTTT-AATTGTCAAAATAGTTAATTGTTAAATTTTAAT-TT-----TA-AAT
*
5079285 ATTAAAGTATTA
564 A-T--A-TAGTA
** * * * * * *
5079297 TCTAAAGTATGTTTATTGATTATAATTTTCATGAGGTACAAAATTTATTTTTAATTTTCAAAATA
1 -CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
* * * * *
5079362 ATTAATTGTTAAGTTTTACTTTTAAATATATTGTGCTAAAGTGATTCATTATTATCTAAAGTAAG
65 GTTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATT-ATTA-TATCTAAAGTAAG
*
5079427 TATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTA
128 TATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTA
*
5079492 AATTTTAATTTTAAATATATAGTAC-----T-A--C---AGTA--T---GTA-TAT-TAATTCTA
193 AATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAGTATATAATTCTA
* * *
5079539 ATTTTCAGGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAAGTTTTACTTTTA
258 ATTTTCAAGCGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTACTTTT-
* *
5079604 AATATATATATAGTACTAAAGTGATTCATTATCATTTAAAGT-CGTATATTAATTTTAATTTTCA
322 -A-A-ATGTATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTTTCA
*
5079668 TGTGGTACTAATTTTTTTTTCAATTTTCAAAATTGTTAATCGTTAAATTTTAATTTTAAAGATAT
384 TGTGGTACTAATTTTTTTTTCAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAAGATAT
*
5079733 AATATTAAAGTGATTCATTATTATCTAAAGTACATATATTAATTATAATTTTCATGTGGTACAAA
449 AATATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATGTGGTACAAA
5079798 ATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAA-TTTAATTTTAAATATATAGTA
514 ATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATAGTA
5079855 CTAAAGTACATATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
* *
5079919 TTAATTGTTAAATTTTAATATTGAATATATAGTACTAAAGTGATTTATTAATATCTAAAGTAAGT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGA-TTATT-ATATCTAAAGTAAGT
5079984 ATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
129 ATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
* *
5080049 GTTTTACTTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGTATACTAATTCT
194 ATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGT-AGTATA-TAATTCT
*
5080114 AATTTTCAAACGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTACTTTT
257 AATTTTCAAGCGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTACTTTT
* * *
5080179 AAATGTATAGTACTAAAGTGATTCATTGTCATTTAAAGTACGCATATTAATTTTAATTTTCATGT
322 AAATGTATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTTTCATGT
*
5080244 GGTACTAATTTTTTTTTCAATTTTCAAAATTGTTAATCGTTAAATTTTAATTTTAAAGATATAAT
387 GGTACTAATTTTTTTTTCAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAAGATATAAT
* *
5080309 ATTAAAGTGATTCATTATTATCTAAAGTATGTATATTAATTATAATTTTCTTGTGGTACAAAATT
452 ATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATGTGGTACAAAATT
*
5080374 TATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATAGTT
517 TATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATAGTA
5080429 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
5080494 TTAATTGTTAAA-TTTAATTTTAAATATATAGTACTAAA--G-------TA-C-------A-TAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTATTATATCTAAAGTAAGTAT
* * * *
5080540 ATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAAAT
131 ATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAAAT
* *
5080604 TTTAATATTAACTATATAGTACTAAAGTGATTCATTATTATCTAAAGTGAGTATATTAATTCTAA
196 TTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGT-AGTATA-TAATTCTAA
* *
5080669 TTTTCAAGCGGTACCATTTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTAATTTTAA
259 TTTTCAAGCGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTACTTTTAA
* *
5080734 ATGTATAGTACTGAAGTGATTCATTATCATTTAAAGTACGTATATTCATTCTAATTTTCATGTGG
324 ATGTATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTTTCATGTGG
* *
5080799 TACCAAATATTTTTTTACAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAAGATATAAT
389 TA-CTAAT-TTTTTTTTCAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAAGATATAAT
* *
5080864 ATTAAAGTGA-TCATTATTATCTAAAGTATGTATATTGATTATAATTTTCATGTGGTACAAAATT
452 ATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATGTGGTACAAAATT
* *
5080928 TATTTTTAATTTTCAAAATAATTAATTGTTAAATTTTAATTTTAAATATATA
517 TATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATA
5080980 TAGTATTAAA
Statistics
Matches: 1510, Mismatches: 116, Indels: 132
0.86 0.07 0.08
Matches are distributed among these distances:
550 59 0.04
551 2 0.00
552 3 0.00
553 232 0.15
554 124 0.08
555 66 0.04
556 176 0.12
557 23 0.02
558 7 0.00
559 6 0.00
560 1 0.00
561 2 0.00
562 10 0.01
563 5 0.00
564 2 0.00
565 2 0.00
567 5 0.00
568 3 0.00
569 7 0.00
570 79 0.05
571 8 0.01
572 40 0.03
573 316 0.21
574 211 0.14
575 53 0.04
576 68 0.05
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (571 bp):
CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTATTATATCTAAAGTAAGTAT
ATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAAAT
TTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAGTATATAATTCTAATT
TTCAAGCGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGTTTTACTTTTAAAT
GTATAGTACTAAAGTGATTCATTATCATTTAAAGTACGTATATTAATTCTAATTTTCATGTGGTA
CTAATTTTTTTTTCAATTTTCAAAATTATTAATCGTTAAATTTTAATTTTAAAGATATAATATTA
AAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATGTGGTACAAAATTTATT
TTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATAGTA
Found at i:5080622 original size:672 final size:671
Alignment explanation
Indices: 5078605--5080998 Score: 2945
Period size: 672 Copynumber: 3.5 Consensus size: 671
5078595 GTATATAGTA
*
5078605 CTAAAGTACA-TATATTAATTCTAATTTTCATA-AGGCACCAAATTTATTTTCAATTTTCAAAAT
1 CTAAAGTA-AGTATATTAATTCTAATTTTCA-AGAGGTACCAAATTTATTTTCAATTTTCAAAAT
* * *
5078668 AGTTAATTGTTAAATTTTAATATTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAA
64 AATTAATTGTTAAGTTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAA
** * *
5078733 GTATATTGGTTCTAATTCTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTATT
129 GTATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTT
* * *
5078798 AAGTTTTAATTTTAAATGTATAGTGCTAAAGTGATTCATTATCATTTAAAGTATGTATATTAACT
194 AAATTTTAATTTTAAATGTATAGTACTAAAGTGA-TCATTATCATTTAAAGTATGTATATTAATT
* **
5078863 CTAATTTTCATGTGGTACCAAATATTTTTTTTTTCAATTTTCAAAATTGTTAATCGTTAAATTTT
258 CTAATTTTCATGTGGTA-C--ATAATTTTTTTTTCAATTTTCAAAATAATTAATCGTTAAATTTT
* * *
5078928 AATTTTAAAGATGTA-ATATTACAGTGATTCATTATTATCTAAAGTACATATATTAATTATAATT
320 AATTTTAAAGATATATATATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATT
5078992 TTCATGTGGTACATAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAAT
385 TTCATGTGGTACATAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAAT
* * ** * * * *
5079057 ATATAGTACTACAGTATGTATATTAATTCTAATTTTCAGGCGGTACCAATTTTGTTTTCAATTTT
450 ATATAGTTCTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTT
* *
5079122 CAAAATAATTAATTGTTAAGTTTTAATTTTAAATGTATAGTACTAAAGTGATTCATTATCATTTA
515 CAAAATAGTTAATTGTTAA-ATTTAATTTT-AA---ATA-TA-T--A--G------TA-C---TA
* * * * * *
5079187 AAGTACGTATATTAATTCTAATTTTCATGTGGCACGAAATAATTTTTTTTCCATTTTCAAAATTG
559 AAGTACATATATTAATTCTAA-TTTCATGTGGTAC--CA-AATTTATTTTCAATTTTCAAAATAG
* * * *
5079252 TTAATTGTTAAATTTTAATCTTAAAGATATAATATTAAA--G---TA-T-TAT
620 TTAATTGTTAAATTTTAATATT-AATATATAGTACTAAAGTGATTTATTATAT
* * * * * * *
5079298 CTAAAGTATGTTTATTGATTATAATTTTCATGAGGTACAAAATTTATTTTTAATTTTCAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCAAGAGGTACCAAATTTATTTTCAATTTTCAAAATAA
* * *
5079363 TTAATTGTTAAGTTTTACTTTTAAATATATTGTGCTAAAGTGATTCATTATTATCTAAAGTAAGT
66 TTAATTGTTAAGTTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGT
*
5079428 ATATTAATTCTAATTTTCAAGCGGTACCAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAA
131 ATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
5079493 ATTTTAATTTT-AA---ATA-TA-T--AGT-A-C--TA-C------AGTATGTATATTAATTCTA
196 ATTTTAATTTTAAATGTATAGTACTAAAGTGATCATTATCATTTAAAGTATGTATATTAATTCTA
* * * * * * *
5079539 ATTTTCAGGCGGTAC-CAATTTTGTTTTCAATTTTCAAAATAATTAATTGTTAAGTTTTACTTTT
261 ATTTTCATGTGGTACATAATTTTTTTTTCAATTTTCAAAATAATTAATCGTTAAATTTTAATTTT
* * * *
5079603 AAATATATATATAGTACTAAAGTGATTCATTATCATTTAAAGT-CGTATATTAATTTTAATTTTC
326 AAAGATATATATA-T--TAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTC
* * * *
5079667 ATGTGGTAC-TAATTTTTTTTTCAATTTTCAAAATTGTTAATCGTTAAATTTTAATTTTAAAGAT
388 ATGTGGTACATAATTTATTTTT-AATTGTCAAAATAGTTAATTGTTAAATTTTAATTTT--A-A-
* *
5079731 ATAATATTAAAGTGATTCATTATTATCTAAAGTACATATATTAATTATAATTTTCATGTGGTACA
448 AT-ATA-T--A--G---------T-TCTAAAGTACATATATTAATTCTAATTTTCATGTGGTACC
* *
5079796 AAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTAATTTTAAATATATAGTACTAAAG
497 AAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAAATTTAATTTTAAATATATAGTACTAAAG
5079861 TACATATATTAATTCTAATTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTG
562 TACATATATTAATTCTAATTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTG
5079926 TTAAATTTTAATATTGAATATATAGTACTAAAGTGATTTATTAATAT
627 TTAAATTTTAATATT-AATATATAGTACTAAAGTGATTTATT-ATAT
* *
5079973 CTAAAGTAAGTATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCAAGAGGTACCAAATTTATTTTCAATTTTCAAAATAA
*
5080038 TTAATTGTTAAGTTTTACTTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGT
66 TTAATTGTTAAGTTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGT
* * *
5080103 ATACTAATTCTAATTTTCAAACGGTACCAATTTTATTTTCAATTTTTAAAATAATTAATTGTTAA
131 ATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
* * * * * *
5080168 GTTTTACTTTTAAATGTATAGTACTAAAGTGATTCATTGTCATTTAAAGTACGCATATTAATTTT
196 ATTTTAATTTTAAATGTATAGTACTAAAGTGA-TCATTATCATTTAAAGTATGTATATTAATTCT
**
5080233 AATTTTCATGTGGTAC-TAATTTTTTTTTCAATTTTCAAAATTGTTAATCGTTAAATTTTAATTT
260 AATTTTCATGTGGTACATAATTTTTTTTTCAATTTTCAAAATAATTAATCGTTAAATTTTAATTT
* *
5080297 TAAAGATATA-ATATTAAAGTGATTCATTATTATCTAAAGTATGTATATTAATTATAATTTTCTT
325 TAAAGATATATATATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCAT
*
5080361 GTGGTACAAAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATA
390 GTGGTACATAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATA
5080426 GTTCTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAA
455 GTTCTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAA
5080491 TAGTTAATTGTTAAATTTAATTTTAAATATATAGTACTAAAGTACATATATTAATTCTAATTTCA
520 TAGTTAATTGTTAAATTTAATTTTAAATATATAGTACTAAAGTACATATATTAATTCTAATTTCA
5080556 TGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAAATTTTAATATTAACTATAT
585 TGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAAATTTTAATATTAA-TATAT
*
5080621 AGTACTAAAGTGATTCATTATTAT
649 AGTACTAAAGTGATTTATTA-TAT
* * ** *
5080645 CTAAAGTGAGTATATTAATTCTAATTTTCAAGCGGTACCATTTTTATTTTCAATTTTTAAAATAA
1 CTAAAGTAAGTATATTAATTCTAATTTTCAAGAGGTACCAAATTTATTTTCAATTTTCAAAATAA
* * * * *
5080710 TTAATTGTTAAGTTTTAATTTTAAATGTATAGTACTGAAGTGATTCATTATCATTTAAAGTACGT
66 TTAATTGTTAAGTTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGT
* * * * *
5080775 ATATTCATTCTAATTTTCATGTGGTACCAAATATTT-TTTTACAATTTTCAAAATTATTAATCGT
131 ATATTAATTCTAATTTTCAAGCGGTACC-AAT-TTTATTTT-CAATTTTCAAAATAATTAATTGT
* * * * *
5080839 TAAATTTTAATTTTAAA-GATATAATATTAAAGTGATCATTATTATCTAAAGTATGTATATTGAT
193 TAAATTTTAATTTTAAATG-TATAGTACTAAAGTGATCATTATCATTTAAAGTATGTATATTAAT
* * * *
5080903 TATAATTTTCATGTGGTACAAAATTTATTTTT-AATTTTCAAAATAATTAATTGTTAAATTTTAA
257 TCTAATTTTCATGTGGTACATAATTTTTTTTTCAATTTTCAAAATAATTAATCGTTAAATTTTAA
*
5080967 TTTTAAATATATATAGTATTAAAGTGATTCAT
322 TTTTAAAGATATATA-TATTAAAGTGATTCAT
5080999 GTTGGTCTTA
Statistics
Matches: 1487, Mismatches: 148, Indels: 150
0.83 0.08 0.08
Matches are distributed among these distances:
667 56 0.04
668 1 0.00
669 49 0.03
670 15 0.01
671 37 0.02
672 415 0.28
673 145 0.10
674 65 0.04
675 211 0.14
676 4 0.00
677 3 0.00
678 1 0.00
679 4 0.00
680 5 0.00
681 2 0.00
682 3 0.00
683 4 0.00
684 3 0.00
685 4 0.00
686 4 0.00
687 7 0.00
688 4 0.00
689 5 0.00
690 3 0.00
691 34 0.02
692 126 0.08
693 195 0.13
694 3 0.00
695 79 0.05
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (671 bp):
CTAAAGTAAGTATATTAATTCTAATTTTCAAGAGGTACCAAATTTATTTTCAATTTTCAAAATAA
TTAATTGTTAAGTTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTATCTAAAGTAAGT
ATATTAATTCTAATTTTCAAGCGGTACCAATTTTATTTTCAATTTTCAAAATAATTAATTGTTAA
ATTTTAATTTTAAATGTATAGTACTAAAGTGATCATTATCATTTAAAGTATGTATATTAATTCTA
ATTTTCATGTGGTACATAATTTTTTTTTCAATTTTCAAAATAATTAATCGTTAAATTTTAATTTT
AAAGATATATATATTAAAGTGATTCATTATTATCTAAAGTACGTATATTAATTATAATTTTCATG
TGGTACATAATTTATTTTTAATTGTCAAAATAGTTAATTGTTAAATTTTAATTTTAAATATATAG
TTCTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAAT
AGTTAATTGTTAAATTTAATTTTAAATATATAGTACTAAAGTACATATATTAATTCTAATTTCAT
GTGGTACCAAATTTATTTTCAATTTTCAAAATAGTTAATTGTTAAATTTTAATATTAATATATAG
TACTAAAGTGATTTATTATAT
Found at i:5080648 original size:98 final size:99
Alignment explanation
Indices: 5080330--5080631 Score: 500
Period size: 98 Copynumber: 3.1 Consensus size: 99
5080320 TCATTATTAT
** * * * * *
5080330 CTAAAGTATGTATATTAATTATAATTTTCTTGTGGTACAAAATTTATTTTTAATTGTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
*
5080395 TTAATTGTTAAATTTTAATTTTAAATATATAGTT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTA
5080429 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
5080494 TTAATTGTTAAA-TTTAATTTTAAATATATAGTA
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTA
5080527 CTAAAGTACATATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
* *
5080591 TTAATTGTTAAATTTTAATATTAACTATATAGTA
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTA
5080625 CTAAAGT
1 CTAAAGT
5080632 GATTCATTAT
Statistics
Matches: 192, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
97 52 0.27
98 70 0.36
99 70 0.36
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (99 bp):
CTAAAGTACATATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
TTAATTGTTAAATTTTAATTTTAAATATATAGTA
Found at i:5080691 original size:119 final size:119
Alignment explanation
Indices: 5080527--5080998 Score: 635
Period size: 119 Copynumber: 3.9 Consensus size: 119
5080517 ATATATAGTA
* *
5080527 CTAAAGTACATATATTAATTCTAA-TTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAG
1 CTAAAGTACGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAA
* *
5080591 TTAATTGTTAAATTTTAATATTAACTATATAGTACTAAAGTGATTCATTATTAT
66 TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * ** *
5080645 CTAAAGTGA-GTATATTAATTCTAATTTTCAAGCGGTACCATTTTTATTTTCAATTTTTAAAATA
1 CTAAAGT-ACGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATA
* * * *
5080709 ATTAATTGTTAAGTTTTAATTTTAAATGTATAGTACTGAAGTGATTCATTATCAT
65 ATTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * *
5080764 TTAAAGTACGTATATTCATTCTAATTTTCATGTGGTACCAAATATTTTTTTACAATTTTCAAAAT
1 CTAAAGTACGTATATTAATTCTAATTTTCATGTGGTACCAAAT-TTATTTT-CAATTTTCAAAAT
* * * * *
5080829 TATTAATCGTTAAATTTTAATTTTAAAGATATAATATTAAAGTGA-TCATTATTAT
64 AATTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
* * * * *
5080884 CTAAAGTATGTATATTGATTATAATTTTCATGTGGTACAAAATTTATTTTTAATTTTCAAAATAA
1 CTAAAGTACGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAA
*
5080949 TTAATTGTTAAATTTTAATTTTAAATATATATAGTATTAAAGTGATTCAT
66 TTAATTGTTAAATTTTAATTTT-AA-ATATATAGTACTAAAGTGATTCAT
5080999 GTTGGTCTTA
Statistics
Matches: 305, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
118 56 0.18
119 126 0.41
120 70 0.23
121 53 0.17
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (119 bp):
CTAAAGTACGTATATTAATTCTAATTTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAA
TTAATTGTTAAATTTTAATTTTAAATATATAGTACTAAAGTGATTCATTATTAT
Found at i:5080932 original size:239 final size:239
Alignment explanation
Indices: 5080528--5080998 Score: 664
Period size: 239 Copynumber: 2.0 Consensus size: 239
5080518 TATATAGTAC
5080528 TAAAGTACATATATTAATTCTAATTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTT
1 TAAAGTACATATATTAATTCTAATTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTT
* ** *
5080593 AATTGTTAAATTTTAATATTAACTATATAGTACTAAAGTGATTCATTATTATCTAAAGTGAGTAT
66 AATCGTTAAATTTTAATATTAAAGATATAATACTAAAGTGATTCATTATTATCTAAAGTGAGTAT
* * ** * *
5080658 ATTAATTCTAATTTTCAAGCGGTACCATTTTTATTTTCAATTTTTAAAATAATTAATTGTTAAGT
131 ATTAATTATAATTTTCAAGCGGTACAAAATTTATTTTCAATTTTCAAAATAATTAATTGTTAAAT
* *
5080723 TTTAATTTT-AA-ATGTATAGTACTGAAGTGATTCATTATCATT
196 TTTAATTTTAAATATATATAGTACTAAAGTGATTCATTATCATT
* * *
5080765 TAAAGTACGTATATTCATTCTAATTTTCATGTGGTACCAAATATTTTTTTACAATTTTCAAAATT
1 TAAAGTACATATATTAATTCTAA-TTTCATGTGGTACCAAAT-TTATTTT-CAATTTTCAAAA-T
* *
5080830 A-TTAATCGTTAAATTTTAATTTTAAAGATATAATATTAAAGTGA-TCATTATTATCTAAAGT-A
62 AGTTAATCGTTAAATTTTAATATTAAAGATATAATACTAAAGTGATTCATTATTATCTAAAGTGA
* * * *
5080892 TGTATATTGATTATAATTTTCATGTGGTACAAAATTTATTTTTAATTTTCAAAATAATTAATTGT
127 -GTATATTAATTATAATTTTCAAGCGGTACAAAATTTATTTTCAATTTTCAAAATAATTAATTGT
*
5080957 TAAATTTTAATTTTAAATATATATAGTATTAAAGTGATTCAT
191 TAAATTTTAATTTTAAATATATATAGTACTAAAGTGATTCAT
5080999 GTTGGTCTTA
Statistics
Matches: 205, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
237 21 0.10
238 19 0.09
239 91 0.44
240 51 0.25
241 23 0.11
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (239 bp):
TAAAGTACATATATTAATTCTAATTTCATGTGGTACCAAATTTATTTTCAATTTTCAAAATAGTT
AATCGTTAAATTTTAATATTAAAGATATAATACTAAAGTGATTCATTATTATCTAAAGTGAGTAT
ATTAATTATAATTTTCAAGCGGTACAAAATTTATTTTCAATTTTCAAAATAATTAATTGTTAAAT
TTTAATTTTAAATATATATAGTACTAAAGTGATTCATTATCATT
Found at i:5082594 original size:118 final size:118
Alignment explanation
Indices: 5082367--5082825 Score: 551
Period size: 119 Copynumber: 3.8 Consensus size: 118
5082357 GGAGTCAACA
* * *
5082367 ATTCATTATTATCTAAAGTACGTACACTAATTCTAATTTTCATATGGTATCAAATTTTTTATTTC
1 ATTCATTATTATCTAAAGTACATATATTAATTCTAATTTTCATATGGTA-CAAA-TTTTT-TTTC
5082432 AATTTTCAAAATAGTTAATAGTTAAATTTTAATTTTAAATATATAGTATTAAAGTG
63 AATTTTCAAAATAGTTAATAGTTAAATTTTAATTTTAAATATATAGTATTAAAGTG
* * * * *
5082488 ATTCATTATTATCTAAATTACATGTATTAATTCTAATTTTCATGTGGTACCAATTTTTTTGCAAT
1 ATTCATTATTATCTAAAGTACATATATTAATTCTAATTTTCATATGGTACAAATTTTTTTTCAAT
* * * *
5082553 TTTCAAAGTACTTAATAGTTAAATTTTAATTTTAAAGATATAGTACTAAAGTG
66 TTTCAAAATAGTTAATAGTTAAATTTTAATTTTAAATATATAGTATTAAAGTG
** * * * * * **
5082606 ATTCATTATTATCTAAAGTATGTACATTAAGTATAAGTTTAATATGGTACAAAATTTACTTTCAA
1 ATTCATTATTATCTAAAGTACATATATTAATTCTAATTTTCATATGGTAC-AAATTTTTTTTCAA
* * * *
5082671 TTTTCAAAATAATTAATTGTTAAATTTCAATTTTAAATATATAGT-TCTAAACTG
65 TTTTCAAAATAGTTAATAGTTAAATTTTAATTTTAAATATATAGTAT-TAAAGTG
* ** * *
5082725 ATTCATTATTATCTAAAGTACATATATTAATTCAAATTTTCAGGTAGTACCAATTTTATTTTCAA
1 ATTCATTATTATCTAAAGTACATATATTAATTCTAATTTTCATATGGTACAAATTTT-TTTTCAA
* * * *
5082790 TTTTCAAAATAGTCAATTGTCAAAATTTAATTTTAA
65 TTTTCAAAATAGTTAATAGTTAAATTTTAATTTTAA
5082826 TAAAATTTGT
Statistics
Matches: 283, Mismatches: 52, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
118 100 0.35
119 137 0.48
120 3 0.01
121 43 0.15
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (118 bp):
ATTCATTATTATCTAAAGTACATATATTAATTCTAATTTTCATATGGTACAAATTTTTTTTCAAT
TTTCAAAATAGTTAATAGTTAAATTTTAATTTTAAATATATAGTATTAAAGTG
Found at i:5083949 original size:23 final size:21
Alignment explanation
Indices: 5083923--5083974 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 21
5083913 TTGTATTTCA
*
5083923 ATAACATATTTAAATTAATGAAG
1 ATAACATATTTAAA-GAA-GAAG
* * *
5083946 ATAAAAAATTTCAAGAAGAAG
1 ATAACATATTTAAAGAAGAAG
5083967 ATAACATA
1 ATAACATA
5083975 AATTTGTTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 10 0.43
22 2 0.09
23 11 0.48
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.27
Consensus pattern (21 bp):
ATAACATATTTAAAGAAGAAG
Found at i:5103539 original size:20 final size:20
Alignment explanation
Indices: 5103516--5103555 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5103506 AATTAATTTT
*
5103516 AAATTTATTTACTAACAATA
1 AAATTTATATACTAACAATA
5103536 AAATTTATATACTAACAATA
1 AAATTTATATACTAACAATA
5103556 CATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTATATACTAACAATA
Found at i:5116512 original size:26 final size:26
Alignment explanation
Indices: 5116474--5116525 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5116464 TGGATTTTTA
5116474 GGGCAATCGTGATTTGAGGTCATCTG
1 GGGCAATCGTGATTTGAGGTCATCTG
*
5116500 GGGCAATCTTGATTTGAGGTCATCTG
1 GGGCAATCGTGATTTGAGGTCATCTG
5116526 TGTCTGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (26 bp):
GGGCAATCGTGATTTGAGGTCATCTG
Found at i:5134974 original size:40 final size:40
Alignment explanation
Indices: 5134900--5134976 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
5134890 GTCTCTGGCT
* *
5134900 TCTATCAGTTTGGCTTAAGATGCGAGCGCTGAGACTACCA
1 TCTATCAGTTTGGCTTAAGATGCGAACGCAGAGACTACCA
* *
5134940 TCTATCA-TTTCGGCTTAAGGTGCGAATGCAGAGACTA
1 TCTATCAGTTT-GGCTTAAGATGCGAACGCAGAGACTA
5134977 TCAGACTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
TCTATCAGTTTGGCTTAAGATGCGAACGCAGAGACTACCA
Found at i:5175448 original size:17 final size:18
Alignment explanation
Indices: 5175428--5175462 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5175418 GAAATTTTAC
5175428 TTTTCA-TTTTTTTTTTT
1 TTTTCAGTTTTTTTTTTT
*
5175445 TTTTTAGTTTTTTTTTTT
1 TTTTCAGTTTTTTTTTTT
5175463 GTGATGGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.06, C:0.03, G:0.03, T:0.89
Consensus pattern (18 bp):
TTTTCAGTTTTTTTTTTT
Found at i:5175921 original size:29 final size:30
Alignment explanation
Indices: 5175874--5175946 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
5175864 AAAAAAATTT
* * *
5175874 AAATAAGTTCTTATTTTTTTATTCT-ATTC
1 AAATAAGTTTTTATATTTTTATTCTGAATC
* *
5175903 AATTAAGTTTTTATATTTTTATTTTGAATC
1 AAATAAGTTTTTATATTTTTATTCTGAATC
5175933 AAATAAGTTTTTAT
1 AAATAAGTTTTTAT
5175947 GATTAATGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (30 bp):
AAATAAGTTTTTATATTTTTATTCTGAATC
Found at i:5176292 original size:25 final size:22
Alignment explanation
Indices: 5176229--5176293 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 22
5176219 AGTTTTAATT
5176229 AAATATAATTATTATTTTAAAAAA
1 AAAT-TAA-TATTATTTTAAAAAA
*
5176253 AAATTAA-A-TAATTTATAAAAA
1 AAATTAATATTATTTTA-AAAAA
5176274 AAATTAGATATTATGTTTAA
1 AAATTA-ATATTAT-TTTAA
5176294 TATCAACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 6 0.18
21 12 0.35
22 1 0.03
23 4 0.12
24 7 0.21
25 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
AAATTAATATTATTTTAAAAAA
Found at i:5180519 original size:23 final size:23
Alignment explanation
Indices: 5180475--5180520 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5180465 CTATACTCCC
*
5180475 GATTTCTCTCTCTCGCGTTTTCA
1 GATTTCTCTCTCTCGCGCTTTCA
* * *
5180498 GATTTCTCTTTCTTGTGCTTTCA
1 GATTTCTCTCTCTCGCGCTTTCA
5180521 AGATACCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.09, C:0.26, G:0.13, T:0.52
Consensus pattern (23 bp):
GATTTCTCTCTCTCGCGCTTTCA
Found at i:5181070 original size:45 final size:44
Alignment explanation
Indices: 5180952--5181073 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 44
5180942 TTTTTTTTCA
* * ** *
5180952 ATATGACATGTAACAATCTAACTATGAAATGTCACATGTTTTTT
1 ATATGACGTGTAACAATCTAACAATGACGTGTCACATATTTTTT
* *
5180996 ATACATGACGTGTAGCAATCTAACCATGACGTGTCACATATTTTTGT
1 AT--ATGACGTGTAACAATCTAACAATGACGTGTCACATATTTTT-T
5181043 ATATGACGTGTAACAA-CTTAACAATGACGTG
1 ATATGACGTGTAACAATC-TAACAATGACGTG
5181074 CAACAACCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 3 0.05
45 25 0.38
46 35 0.53
47 3 0.05
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (44 bp):
ATATGACGTGTAACAATCTAACAATGACGTGTCACATATTTTTT
Found at i:5181071 original size:21 final size:21
Alignment explanation
Indices: 5181045--5181099 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5181035 ATTTTTGTAT
*
5181045 ATGACGTGTAACAACTTAA-C
1 ATGACGTGTAACAACCTAATC
*
5181065 AATGACGTGCAACAACCTAATC
1 -ATGACGTGTAACAACCTAATC
*
5181087 ATGACATGTAACA
1 ATGACGTGTAACA
5181100 TGTTTTTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.22
Consensus pattern (21 bp):
ATGACGTGTAACAACCTAATC
Found at i:5192932 original size:30 final size:30
Alignment explanation
Indices: 5192898--5192959 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
5192888 CTCGTCAATT
5192898 AACTTGAAAGAGTGTTGCGTATTTATTTCA
1 AACTTGAAAGAGTGTTGCGTATTTATTTCA
5192928 AACTTGAAAGAGTGTTGCGTATTTATTTCA
1 AACTTGAAAGAGTGTTGCGTATTTATTTCA
5192958 AA
1 AA
5192960 AACAGAATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (30 bp):
AACTTGAAAGAGTGTTGCGTATTTATTTCA
Found at i:5199857 original size:17 final size:18
Alignment explanation
Indices: 5199825--5199860 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5199815 CCATTTATAC
*
5199825 AATGTATATCTAGATTTG
1 AATGTAAATCTAGATTTG
5199843 AATGTAAAT-TAGATTTG
1 AATGTAAATCTAGATTTG
5199860 A
1 A
5199861 TGAATATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.42
Consensus pattern (18 bp):
AATGTAAATCTAGATTTG
Found at i:5200566 original size:26 final size:26
Alignment explanation
Indices: 5200534--5200613 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
5200524 TATTTTAATT
5200534 ATAATTTTACCACAAAAAGTGGATGA
1 ATAATTTTACCACAAAAAGTGGATGA
* *
5200560 ATAATTTTATCATCAAAATA-T--AAGA
1 ATAATTTTACCA-CAAAA-AGTGGATGA
**
5200585 ATAATTTTACCATTAAAAGTGGATGA
1 ATAATTTTACCACAAAAAGTGGATGA
5200611 ATA
1 ATA
5200614 CTTTCAACTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 14 0.33
26 17 0.40
27 6 0.14
28 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (26 bp):
ATAATTTTACCACAAAAAGTGGATGA
Found at i:5203633 original size:18 final size:18
Alignment explanation
Indices: 5203607--5203643 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5203597 GTGAATTACT
*
5203607 TAAAGAAAGAATTTGAGA
1 TAAAAAAAGAATTTGAGA
5203625 TAAAAAAAGAATTTGAGA
1 TAAAAAAAGAATTTGAGA
5203643 T
1 T
5203644 GAAAGACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (18 bp):
TAAAAAAAGAATTTGAGA
Found at i:5205429 original size:209 final size:209
Alignment explanation
Indices: 5205050--5205668 Score: 848
Period size: 209 Copynumber: 2.9 Consensus size: 209
5205040 AACAATAACC
* *
5205050 TATATGTTATAATAT-TTTATATCAAAATTTGTATAAATAAAAACTAATTATAAACAATATGTTA
1 TATATGTTA-AA-ATGTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTA
* * * *
5205114 TAAAATCTAAGATGATAGCTAATAAACTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
64 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATTATAAG
* * **
5205179 TTATAGTAAAACTTATGCATAAATTAAATATATAAATATATAATATATTATTTTATTATATATAT
129 TTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATTATTTTATTATATATAT
*
5205244 AATTAATGATATAAAT
194 AATTAATGACATAAAT
* *
5205260 TATATGTTAAAATGTTTATATCAAGGTTTGTATAAATAATAACTAATTATAAATAATATGTTATA
1 TATATGTTAAAATGTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATA
* * *
5205325 AAATCTAAGGTGATAACTAATAAAGTTATTAAATATAATCATACAAATAAAGTCTATTATAAGTT
66 AAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATTATAAGTT
* * *
5205390 ATTGTAAGGCTTATGTATAAATTAAATATATGTATATATAATATATGACTTCATTA-TATATATA
131 ATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATTA-TT--TTATTATATATA
*
5205454 TGAAATTAATGACATAACT
193 T--AATTAATGACATAAAT
* * *
5205473 TATATGTTATAATGTTTTATATCAAAGTTTGTATCAATAATAACTAATTATAAACAAT-TCATTA
1 TATATGTTAAAATG-TTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATAT-GTTA
* * *
5205537 TAAAATATAAGGTGATAACTAATAAAGGTATTAAATGTAATCATATAAATAAAGTTTATTATAAA
64 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATTATAAG
* * ***
5205602 TTATAGTAATGTTTATGTATAAATTAAATATATGTATATATAATATATTTATACAATTATATATA
129 TTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATA-TTATTTTATTATATATA
5205667 TA
193 TA
5205669 TATATATTCA
Statistics
Matches: 361, Mismatches: 38, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
208 2 0.01
209 148 0.41
210 11 0.03
211 10 0.03
212 4 0.01
213 37 0.10
214 147 0.41
215 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (209 bp):
TATATGTTAAAATGTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATATGTTATA
AAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATTATAAGTT
ATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATTATTTTATTATATATATAA
TTAATGACATAAAT
Found at i:5205571 original size:214 final size:210
Alignment explanation
Indices: 5205044--5205649 Score: 867
Period size: 214 Copynumber: 2.9 Consensus size: 210
5205034 TTTCATAACA
* * * *
5205044 ATAACCTATATGTTATAATATTTTATATCAAAATTTGTATAAATAAAAACTAATTATAAACAATA
1 ATAACTTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATA
* * * *
5205109 TGTTATAAAATCTAAGATGATAGCTAATAAACTTATTAAGTGTAATCATATAAATAAAGTTTATT
66 TGTTATAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATT
* * ** *
5205174 ATAAGTTATAGTAAAACTTATGCATAAATTAAATATATAAATATATAATATATTATTTTATTATA
131 ATAAGTTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATGATTTTATTATA
*
5205239 TATATAATTAATGAT
196 TATATAATTAATGAC
* * * *
5205254 ATAAATTATATGTTAAAATG-TTTATATCAAGGTTTGTATAAATAATAACTAATTATAAATAATA
1 ATAACTTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATA
* * *
5205318 TGTTATAAAATCTAAGGTGATAACTAATAAAGTTATTAAATATAATCATACAAATAAAGTCTATT
66 TGTTATAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATT
* *
5205383 ATAAGTTATTGTAAGGCTTATGTATAAATTAAATATATGTATATATAATATATGACTTCATTA-T
131 ATAAGTTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATGA-TT--TTATT
5205447 ATATATATGAAATTAATGAC
193 ATATATAT--AATTAATGAC
*
5205467 ATAACTTATATGTTATAATGTTTTATATCAAAGTTTGTATCAATAATAACTAATTATAAACAAT-
1 ATAACTTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATA
* * *
5205531 TCATTATAAAATATAAGGTGATAACTAATAAAGGTATTAAATGTAATCATATAAATAAAGTTTAT
66 T-GTTATAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTAT
* * *
5205596 TATAAATTATAGTAATGTTTATGTATAAATTAAATATATGTATATATAATATAT
130 TATAAGTTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATAT
5205650 TTATACAATT
Statistics
Matches: 351, Mismatches: 38, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
209 146 0.42
210 18 0.05
211 9 0.03
212 3 0.01
213 28 0.08
214 147 0.42
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (210 bp):
ATAACTTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAACAATA
TGTTATAAAATCTAAGGTGATAACTAATAAAGTTATTAAATGTAATCATATAAATAAAGTTTATT
ATAAGTTATAGTAAAGCTTATGTATAAATTAAATATATGTATATATAATATATGATTTTATTATA
TATATAATTAATGAC
Found at i:5205606 original size:23 final size:23
Alignment explanation
Indices: 5205584--5205631 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
5205574 TAATCATATA
5205584 AATAAAGTTTAT-TATAAATTAT
1 AATAAAGTTTATGTATAAATTAT
* *
5205606 AGTAATGTTTATGTATAAATTA-
1 AATAAAGTTTATGTATAAATTAT
5205628 AATA
1 AATA
5205632 TATGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AATAAAGTTTATGTATAAATTAT
Found at i:5205636 original size:23 final size:21
Alignment explanation
Indices: 5205582--5205644 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
5205572 TGTAATCATA
*
5205582 TAAATAAAGTTTATTATAAAT
1 TAAATAATGTTTATTATAAAT
*
5205603 TATAGTAATGTTTATGTATAAAT
1 TA-AATAATGTTTAT-TATAAAT
*
5205626 TAAATATATGTATA-TATAA
1 TAAATA-ATGTTTATTATAA
5205645 TATATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.20
22 13 0.37
23 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
TAAATAATGTTTATTATAAAT
Found at i:5205839 original size:14 final size:14
Alignment explanation
Indices: 5205822--5205857 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5205812 ATTAATACAG
5205822 ATTTATAAATAAAT
1 ATTTATAAATAAAT
5205836 ATTTATAAATAAAT
1 ATTTATAAATAAAT
*
5205850 ATATATAA
1 ATTTATAA
5205858 TATTAAATTA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTTATAAATAAAT
Found at i:5205864 original size:16 final size:15
Alignment explanation
Indices: 5205825--5205874 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
5205815 AATACAGATT
*
5205825 TATAA-ATAAATATT
1 TATAATATAAATATA
5205839 TATAA-ATAAATATA
1 TATAATATAAATATA
5205853 TATAATATTAAAT-TA
1 TATAATA-TAAATATA
5205868 CTATAAT
1 -TATAAT
5205875 TTTGATTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 18 0.56
15 3 0.09
16 11 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATATAAATATA
Found at i:5208463 original size:14 final size:13
Alignment explanation
Indices: 5208444--5208503 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
5208434 TTATTTTATT
5208444 TAATTAAATCTTTA
1 TAATTAAAT-TTTA
*
5208458 TAATTATATTTTA
1 TAATTAAATTTTA
5208471 GTAA-TAAATATTTA
1 -TAATTAAAT-TTTA
*
5208485 TAATT-AATTAT-
1 TAATTAAATTTTA
5208496 TAATTAAA
1 TAATTAAA
5208504 ATATTATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.13
12 4 0.10
13 14 0.36
14 16 0.41
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TAATTAAATTTTA
Found at i:5208464 original size:27 final size:27
Alignment explanation
Indices: 5208415--5208508 Score: 70
Period size: 27 Copynumber: 3.5 Consensus size: 27
5208405 AATAATTATT
* * **
5208415 TTTAATTAATTTTTTATTTTTATTTTA
1 TTTAATTAAATATTTATAATTATTTTA
*
5208442 TTTAATTAAATCTTTATAATTATATTT-
1 TTTAATTAAATATTTATAATTAT-TTTA
* *
5208469 TAGTAA-TAAATATTTATAATTA-ATTA
1 T-TTAATTAAATATTTATAATTATTTTA
5208495 -TTAATTAAAATATT
1 TTTAATT-AAATATT
5208509 ATTTGTCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
24 3 0.06
25 3 0.06
26 7 0.13
27 35 0.65
28 6 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTAATTAAATATTTATAATTATTTTA
Found at i:5208645 original size:18 final size:19
Alignment explanation
Indices: 5208614--5208652 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
5208604 TATTTTAATT
5208614 AAATTTATTATTAATTATAA
1 AAATTTATTATTAATT-TAA
5208634 AAATTTA-T-TTAATTTAA
1 AAATTTATTATTAATTTAA
5208651 AA
1 AA
5208653 TAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 1 0.05
20 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTATTATTAATTTAA
Found at i:5208715 original size:29 final size:29
Alignment explanation
Indices: 5208630--5208715 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
5208620 ATTATTAATT
* *
5208630 ATAAAAATTTATTTAAT-TTAAAATAAAAAT
1 ATAAAAATTTATTT-ATGTTTAAA-AAAAAG
* ** * * *
5208660 ATAAAAACTTAACTAAGTATAATAAAAAG
1 ATAAAAATTTATTTATGTTTAAAAAAAAG
5208689 ATAAAAATTTATTTATGTTTAAAAAAA
1 ATAAAAATTTATTTATGTTTAAAAAAA
5208716 CATTATACCT
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
29 27 0.66
30 14 0.34
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (29 bp):
ATAAAAATTTATTTATGTTTAAAAAAAAG
Found at i:5231388 original size:33 final size:31
Alignment explanation
Indices: 5231351--5231441 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 31
5231341 TTTAAATATC
*
5231351 ATATATTTTATTTTTATTTTTTATTATAATCTT
1 ATATATTTTATTTTTATTTTTAATT-TAAT-TT
*
5231384 ATATATTTTATTTTCATTAATTTAATTTAATTT
1 ATATATTTTATTTTTATT--TTTAATTTAATTT
* * *
5231417 TTATATTATATATTTA-TTTTAATTT
1 ATATATTTTATTTTTATTTTTAATTT
5231442 CTTTTACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 8 0.16
32 1 0.02
33 31 0.62
34 4 0.08
35 6 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (31 bp):
ATATATTTTATTTTTATTTTTAATTTAATTT
Done.