Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008006.1 Hibiscus syriacus cultivar Beakdansim tig00110468_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 226016
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:4444 original size:37 final size:37
Alignment explanation
Indices: 4391--4495 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
4381 CCTTTTCGTC
*
4391 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
4428 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
4465 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
4496 CCACAAGTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:4944 original size:22 final size:24
Alignment explanation
Indices: 4910--4956 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
4900 TATATATATA
4910 TATTTAATTATATTTTATTT-ATT
1 TATTTAATTATATTTTATTTCATT
*
4933 TATTT-ATTATATTTTTTTTCATT
1 TATTTAATTATATTTTATTTCATT
4956 T
1 T
4957 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTAATTATATTTTATTTCATT
Found at i:5059 original size:13 final size:13
Alignment explanation
Indices: 5041--5066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5031 TGTTTACTTA
5041 TTTACTATATTTT
1 TTTACTATATTTT
5054 TTTACTATATTTT
1 TTTACTATATTTT
5067 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:5235 original size:16 final size:17
Alignment explanation
Indices: 5211--5259 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
5201 TTATACATAC
5211 ATTTATATATTTT-TTT
1 ATTTATATATTTTATTT
*
5227 ATTTTTATATTTTATTT
1 ATTTATATATTTTATTT
* *
5244 ATATATTTA-TTTATTT
1 ATTTATATATTTTATTT
5260 TCATTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATATATTTTATTT
Found at i:5241 original size:13 final size:13
Alignment explanation
Indices: 5223--5257 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
5213 TTATATATTT
*
5223 TTTTATTTTTATA
1 TTTTATTTATATA
5236 TTTTATTTATATA
1 TTTTATTTATATA
5249 -TTTATTTAT
1 TTTTATTTAT
5258 TTTCATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATTTATATA
Found at i:5273 original size:29 final size:29
Alignment explanation
Indices: 5211--5273 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
5201 TTATACATAC
* * *
5211 ATTTATATATTTTTTTATTTTTATATTTT
1 ATTTATATATTTATTTATTTTCATATGTT
5240 ATTTATATATTTATTTATTTTCATTATGTT
1 ATTTATATATTTATTTATTTTCA-TATGTT
5270 -TTTA
1 ATTTA
5274 GTTTCTTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (29 bp):
ATTTATATATTTATTTATTTTCATATGTT
Found at i:5384 original size:19 final size:16
Alignment explanation
Indices: 5345--5388 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
5335 TTTGTATATA
*
5345 TATTTTTTTCTTCATT
1 TATTTTTTTATTCATT
5361 TATTTATTTTATTCAATT
1 TATTT-TTTTATTC-ATT
5379 TCATTTTTTT
1 T-ATTTTTTT
5389 TATATTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 8 0.33
19 4 0.17
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTTTATTCATT
Found at i:5389 original size:19 final size:17
Alignment explanation
Indices: 5347--5391 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
5337 TGTATATATA
*
5347 TTTTTTTCTTCATTTAT
1 TTTTTTTATTCATTTAT
*
5364 TTATTTTATTCAATTTCAT
1 TTTTTTTATTC-ATTT-AT
5383 TTTTTTTAT
1 TTTTTTTAT
5392 ATTTGTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTTATTCATTTAT
Found at i:9977 original size:14 final size:13
Alignment explanation
Indices: 9944--10004 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 13
9934 GGGCAAAAAC
*
9944 AAAAAAGAAAAGA
1 AAAAAAAAAAAGA
* *
9957 AGCAAAAAATAAGA
1 A-AAAAAAAAAAGA
9971 AAAAAAAAGAAAGA
1 AAAAAAAA-AAAGA
9985 ATAAAAATCAAAAAGA
1 A-AAAAA--AAAAAGA
10001 AAAA
1 AAAA
10005 GGGACAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 7 0.18
14 15 0.39
15 8 0.21
16 6 0.16
17 2 0.05
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:9987 original size:20 final size:20
Alignment explanation
Indices: 9945--10002 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
9935 GGCAAAAACA
* *
9945 AAAAAGAAAAGAAGCAAAAAAT
1 AAAAATAAAA-AAG-AAAGAAT
9967 AAGAAA-AAAAAAGAAAGAAT
1 AA-AAATAAAAAAGAAAGAAT
*
9987 AAAAATCAAAAAGAAA
1 AAAAATAAAAAAGAAA
10003 AAGGGACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 17 0.53
21 3 0.09
22 6 0.19
23 3 0.09
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAATAAAAAAGAAAGAAT
Found at i:11733 original size:106 final size:106
Alignment explanation
Indices: 11608--12484 Score: 1421
Period size: 106 Copynumber: 8.3 Consensus size: 106
11598 GTGCCACTTG
* * * ** *
11608 AGACAACACAAGTTCAACTTCACAACAAAGGGATGGCTGGTTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
11673 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
11714 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
11779 CAGAGCCAATTTCAACTTCACAACGAATGCTATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
11820 AGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTCTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
11885 CAGAGCCAATTTCAACTTCACAGCGAAGGATTTTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
11926 AGACAACGCAAGTTCAACTTCATGACGAATGGACCACTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
11991 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
12032 AGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
12097 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
12138 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
12203 CAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
12244 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* *
12309 CGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
12350 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
** *
12415 TGGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
12456 AGACAACACAAGTTCAACTTCACGACGAA
1 AGACAACGCAAGTTCAACTTCACGACGAA
12485 AACAACTTCT
Statistics
Matches: 716, Mismatches: 55, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 716 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:11881 original size:212 final size:212
Alignment explanation
Indices: 11608--12858 Score: 1745
Period size: 212 Copynumber: 6.0 Consensus size: 212
11598 GTGCCACTTG
* * * ** * *
11608 AGACAACACAAGTTCAACTTCACAACAAAGGGATGGCTGGTTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* *
11673 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
11738 ACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
* *
11803 GAATGCTATTGGACTCC
196 GAAGGATATTGGACTCC
* * *
11820 AGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTCTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * *
11885 CAGAGCCAATTTCAACTTCACAGCGAAGGATTTTGGACTCAAGACAACGCAAGTTCAACTTCATG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
11950 ACGAATGGACCACTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
12015 GAAGGATATTGGACTCC
196 GAAGGATATTGGACTCC
* * *
12032 AGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
12097 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
12162 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
*
12227 GAAGGATATTGGACTCA
196 GAAGGATATTGGACTCC
* *
12244 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * *
12309 CGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
12374 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTTCAACTTCACATC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
12439 GAAGGATATTGGACTCC
196 GAAGGATATTGGACTCC
* * ** *
12456 AGACAACACAAGTTCAACTTCACGACGAA--AACAAC----T-T---C--TCAATTT--CAA---
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * *
12504 -AG-CCAATTTT-AACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
12566 ACGAAGGGACCGTTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACCAATTTCAACTTCACAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
*
12631 GAAGGATATTGGACTCG
196 GAAGGATATTGGACTCC
* *
12648 AGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
* * * * *
12713 CGGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
12778 ACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCCCGATTCCAGAGCCAATTTCAACCTCAC-G
131 ACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
*
12841 ACGGAGGATATTGGACTC
195 -CGAAGGATATTGGACTC
12859 GGAACAATGC
Statistics
Matches: 920, Mismatches: 97, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
192 149 0.16
193 5 0.01
194 4 0.00
198 4 0.00
199 1 0.00
200 6 0.01
202 2 0.00
204 5 0.01
205 1 0.00
206 4 0.00
210 4 0.00
211 8 0.01
212 727 0.79
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (212 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTGGACTCC
Found at i:12199 original size:318 final size:317
Alignment explanation
Indices: 11608--12858 Score: 1813
Period size: 318 Copynumber: 4.0 Consensus size: 317
11598 GTGCCACTTG
* **
11608 AGACAACACAAGTTCAACTTCACAACAAAGGGATGGCTGGTTGTCAACAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAATT
*
11673 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
11738 ACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
* * * * * *
11803 GAATGCTATTGGACTCCAGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTCTCAAT
196 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAAC
* *
11868 AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATTTTGGACTCA
260 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
** * * * * *
11926 AGACAACGCAAGTTCAACTTCATGACGAATGGACCACTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAATT
*
11991 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAATTCACG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
12056 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
*
12121 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
196 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAAC
*
12186 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCA
260 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
12244 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAATT
* *
12309 CGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
12374 ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTTCAACTTCACATC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
12439 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTT--C-AC-----GA--C-----G---A-A
196 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAACA
* * * * *
12485 AACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCC
261 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* * * * *
12542 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAAAAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAATT
* * *
12607 CAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
12672 ACGAAGGGACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAAC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
* * *
12737 AAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAAC
196 GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACG-CTGGTTGTCAAC
* * * * * *
12802 AAATAATTTCCCGATTCCAGAGCCAATTTCAACCTCAC-GACGGAGGATATTGGACTC
260 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
12859 GGAACAATGC
Statistics
Matches: 842, Mismatches: 70, Indels: 42
0.88 0.07 0.04
Matches are distributed among these distances:
298 267 0.32
299 1 0.00
300 1 0.00
301 2 0.00
302 1 0.00
306 2 0.00
307 1 0.00
309 1 0.00
310 2 0.00
314 1 0.00
315 2 0.00
316 1 0.00
317 1 0.00
318 559 0.66
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (317 bp):
AGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAATT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
GAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGCTGGTTGTCAACA
AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:12537 original size:192 final size:193
Alignment explanation
Indices: 12292--12858 Score: 672
Period size: 192 Copynumber: 2.8 Consensus size: 193
12282 GGTTGTCAAC
* * *
12292 AAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAAC
1 AAACAACTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* **
12357 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCC
66 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCAGAGCC
12422 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACG-A-
131 AATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAG
* ** * *
12484 AAACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAAT
1 AAACAACTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* * * *
12549 GCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
66 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCAGAGCC
* * *
12614 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATAACGCAAGTTCAACTTCACGACGAAGG
131 AATTTCAACTTCACA-CGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAA--
12679 G
193 G
*
12680 ACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGATA
1 A------------AAC-AAC---TTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATA
* * * *
12745 TTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAAT
50 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAAAAAT
* * * *
12809 TTCCCGATTCCAGAGCCAATTTCAACCTCACGACGGAGGATATTGGACTC
114 TTCCCAATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGGACTC
12859 GGAACAATGC
Statistics
Matches: 316, Mismatches: 37, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
192 172 0.54
193 1 0.00
196 1 0.00
208 3 0.01
209 3 0.01
211 2 0.01
212 133 0.42
213 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (193 bp):
AAACAACTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAATTTCAGAGCC
AATTTCAACTTCACACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAG
Found at i:12561 original size:43 final size:43
Alignment explanation
Indices: 12425--12572 Score: 117
Period size: 43 Copynumber: 3.4 Consensus size: 43
12415 TGGAGCCAAT
*
12425 TTCAACTTCACATCGAAGGATATTGGACTCCAGACAACA-CAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAA-AGCAAG
* * * * ** *
12468 TTCAACTTCACGACGAA-AACAACTT---CTCAATTTCAAAGCCAAT
1 TTCAACTTCACAACGAAGGA-TA-TTGGACTCCA-GACAAAG-CAAG
* *
12511 TTTAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAAAGCAAG
*
12554 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
12573 GACCGTTGGT
Statistics
Matches: 77, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
41 5 0.06
42 6 0.08
43 55 0.71
44 7 0.09
45 4 0.05
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAAAGCAAG
Found at i:12640 original size:404 final size:404
Alignment explanation
Indices: 12080--12858 Score: 1294
Period size: 404 Copynumber: 1.9 Consensus size: 404
12070 GGTTGTCAAC
*
12080 AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
1 AAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* * *
12145 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
66 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
*
12210 AATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACAAAGG
131 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACAAAGG
* *
12275 GACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAA-GA
196 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAAC-AAAGGA
* *
12339 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACA
260 TATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACA
*** *
12403 ATTTCCCAATTTTGGAGCCAATTTCAACTTCAC-ATCGAAGGATATTGGACTCCAGACAACACAA
324 ATTTCCCAATTCCAGAGCCAATTTCAACCTCACGA-CGAAGGATATTGGACTCCAGACAACACAA
12467 GTTCAACTTCACGACGA
388 GTTCAACTTCACGACGA
* *
12484 AAACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAAT
1 AAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
*
12549 GCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
66 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
* * * *
12614 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATAACGCAAGTTCAACTTCACGACGAAGG
131 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACAAAGG
12679 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
196 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
* *
12744 ATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAAT
261 ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAT
* *
12809 TTCCCGATTCCAGAGCCAATTTCAACCTCACGACGGAGGATATTGGACTC
326 TTCCCAATTCCAGAGCCAATTTCAACCTCACGACGAAGGATATTGGACTC
12859 GGAACAATGC
Statistics
Matches: 348, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
403 5 0.01
404 342 0.98
405 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (404 bp):
AAACAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAACAAAGG
GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAT
TTCCCAATTCCAGAGCCAATTTCAACCTCACGACGAAGGATATTGGACTCCAGACAACACAAGTT
CAACTTCACGACGA
Found at i:12641 original size:298 final size:298
Alignment explanation
Indices: 12186--12782 Score: 978
Period size: 298 Copynumber: 2.0 Consensus size: 298
12176 GGTTGTCAAC
* * *
12186 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAAC
1 AAACAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAAC
* * * * *
12251 GCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCC
66 GCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
12316 AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
131 AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
12381 GACCGCTGGTTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTTCAACTTCACATCGAAGGAT
196 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
*
12446 ATTGGACTCCAGACAACACAAGTTCAACTTCACGACGA
261 ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGA
* * * *
12484 AAACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAAT
1 AAACAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAAC
* * *
12549 GCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
66 GCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
* * *
12614 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATAACGCAAGTTCAACTTCACGACGAAGG
131 AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
12679 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
196 GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
*
12744 ATTGGACTCGAGACAACACAAGTTCAACTTCACAACGA
261 ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGA
12782 A
1 A
12783 GGGACGACTG
Statistics
Matches: 275, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
298 275 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (298 bp):
AAACAACTTCCCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAAC
GCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAAATTCAGAACC
AATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAACAAATTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGAT
ATTGGACTCCAGACAACACAAGTTCAACTTCACAACGA
Found at i:12673 original size:106 final size:106
Alignment explanation
Indices: 12483--12859 Score: 492
Period size: 106 Copynumber: 3.5 Consensus size: 106
12473 CTTCACGACG
* * * *
12483 AAAACAACTTCTCAATTTCA-AAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACA
1 AAAA-AACTTCCCAAATTCAGAA-CCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACA
* *
12547 ATGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAC
64 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* *
12590 AAAAAACTTCCCAAATTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATAAC
1 AAAAAACTTCCCAAATTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAAC
12655 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
66 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* * * *
12696 AAACAAA-TTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAA
1 AAA-AAACTTCCCAAATTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAA
* *
12760 CACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAAC
65 CGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAAC
* * * * * * *
12802 AAATAATTTCCC-GATTCCAGAGCCAATTTCAACCTCACGACGGAGGATATTGGACTCG
1 AAAAAACTTCCCAAATT-CAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCG
12860 GAACAATGCT
Statistics
Matches: 241, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
105 6 0.02
106 226 0.94
107 9 0.04
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
AAAAAACTTCCCAAATTCAGAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAAC
GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
Found at i:13657 original size:37 final size:36
Alignment explanation
Indices: 13607--13710 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 36
13597 CCTTTTCGTC
13607 CTGCTAGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTGCTAGATTCAAACTCCTAAAAATAGGATAGAATT
* *
13643 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTGCTA-GATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
13680 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTGCTA-GATTCAAACTCCTAAAAATAGGAT
13711 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 5 0.08
37 54 0.92
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (36 bp):
CTGCTAGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:14162 original size:22 final size:20
Alignment explanation
Indices: 14132--14178 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
14122 TATATATATA
* *
14132 TATTAATTATATTTTATTTATT
1 TATTTATTATAATTT-TTT-TT
14154 TATTTATTATAATTTTTTTT
1 TATTTATTATAATTTTTTTT
14174 TATTT
1 TATTT
14179 TTCTTTGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTATTATAATTTTTTTT
Found at i:14320 original size:29 final size:29
Alignment explanation
Indices: 14275--14384 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 29
14265 GTTATATATA
*
14275 TATATATATAT-ATTACTTCATTTTATTT
1 TATATTTATATGATTACTTCATTTTATTT
* *
14303 TATATTTCTATGATTACTAT-TTTTTAGTTAATAT
1 TATATTTATATGATTACT-TCATTTTA--T--T-T
* * *
14337 TATATGTATATTTATTTCTTCATTTTATTT
1 TATATTTATA-TGATTACTTCATTTTATTT
*
14367 TATATTTTTATGATTACT
1 TATATTTATATGATTACT
14385 ATTTTTTTAG
Statistics
Matches: 61, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
28 9 0.15
29 17 0.28
30 10 0.16
31 2 0.03
33 2 0.03
34 10 0.16
35 11 0.18
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (29 bp):
TATATTTATATGATTACTTCATTTTATTT
Found at i:14323 original size:22 final size:22
Alignment explanation
Indices: 14298--14389 Score: 59
Period size: 22 Copynumber: 4.3 Consensus size: 22
14288 TACTTCATTT
14298 TATTTTATATTTCTATGATTAC
1 TATTTTATATTTCTATGATTAC
* * *
14320 TATTTTTTAGTT-AAT-ATTA-
1 TATTTTATATTTCTATGATTAC
* * *
14339 TATGTATATTTATTTCT-TCATT-T
1 TAT-T-T-TATATTTCTATGATTAC
*
14362 TATTTTATATTTTTATGATTAC
1 TATTTTATATTTCTATGATTAC
14384 TATTTT
1 TATTTT
14390 TTTAGTTAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
19 3 0.06
20 12 0.23
21 8 0.15
22 24 0.45
23 6 0.11
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTTTATATTTCTATGATTAC
Found at i:14358 original size:64 final size:65
Alignment explanation
Indices: 14268--14429 Score: 258
Period size: 64 Copynumber: 2.5 Consensus size: 65
14258 TCCTAACGTT
* * *
14268 ATATATATATATATATATATTACTTCATTTTATTTTATATTTCTATGATTACTA-TTTTTTAGTT
1 ATAT-TATATGTATATTTATTTCTTCATTTTATTTTATATTTCTATGATTACTATTTTTTTAGTT
14332 A
65 A
*
14333 ATATTATATGTATATTTATTTCTTCATTTTATTTTATATTTTTATGATTACTATTTTTTTAGTTA
1 ATATTATATGTATATTTATTTCTTCATTTTATTTTATATTTCTATGATTACTATTTTTTTAGTTA
14398 ATATTATATGTATATTTATTT-TTCA-TTTATTT
1 ATATTATATGTATATTTATTTCTTCATTTTATTT
14430 ATTATTATTG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
63 7 0.08
64 49 0.53
65 36 0.39
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (65 bp):
ATATTATATGTATATTTATTTCTTCATTTTATTTTATATTTCTATGATTACTATTTTTTTAGTTA
Found at i:14497 original size:12 final size:12
Alignment explanation
Indices: 14480--14504 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14470 TACATTTTTA
14480 TATTTTTATATT
1 TATTTTTATATT
14492 TATTTTTATATT
1 TATTTTTATATT
14504 T
1 T
14505 TTTATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATATT
Found at i:14498 original size:20 final size:19
Alignment explanation
Indices: 14473--14533 Score: 81
Period size: 20 Copynumber: 3.3 Consensus size: 19
14463 TTATACATAC
14473 ATTTTTATATTTTTATATTT
1 ATTTTTATATTTTT-TATTT
14493 ATTTTTATATTTTTTA-TT
1 ATTTTTATATTTTTTATTT
* *
14511 -TTTTTATACTATTTATTT
1 ATTTTTATATTTTTTATTT
14529 ATTTT
1 ATTTT
14534 CATTATGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 13 0.35
18 4 0.11
19 6 0.16
20 14 0.38
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTTATATTTTTTATTT
Found at i:16021 original size:23 final size:22
Alignment explanation
Indices: 15995--16054 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
15985 TGTTGTTGTG
*
15995 ATTTATGTTCGCTTGTTTTG-TTC
1 ATTTATGTTCG-TT-TATTGTTTC
*
16018 ATTTATTTTCGTTTATTGTTTC
1 ATTTATGTTCGTTTATTGTTTC
*
16040 GTTTATGTTCGTTTA
1 ATTTATGTTCGTTTA
16055 CATCCGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.56
23 10 0.31
ACGTcount: A:0.12, C:0.10, G:0.15, T:0.63
Consensus pattern (22 bp):
ATTTATGTTCGTTTATTGTTTC
Found at i:24785 original size:2 final size:2
Alignment explanation
Indices: 24771--24807 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
24761 CACAAAATTT
24771 GA GA GA G- GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
24808 CAGGCGAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26800 original size:4 final size:4
Alignment explanation
Indices: 26791--26815 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26781 TTGCTGCTTG
26791 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
26816 CATATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:30954 original size:16 final size:15
Alignment explanation
Indices: 30935--30968 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
30925 ATTATTTTTA
*
30935 TTATATTATATTTATT
1 TTATATT-TAATTATT
30951 TTATATTTAATTATT
1 TTATATTTAATTATT
30966 TTA
1 TTA
30969 ATAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTAATTATT
Found at i:33158 original size:21 final size:21
Alignment explanation
Indices: 33132--33252 Score: 136
Period size: 21 Copynumber: 5.8 Consensus size: 21
33122 TCTGACCCGA
*
33132 CTACGGTGGCATCTGATATGG
1 CTACGGTGGCATCTGATACGG
** *
33153 AAACGGTGGCATCTGACT-TGG
1 CTACGGTGGCATCTGA-TACGG
* *
33174 TTACAGTGGCATCTGATACGG
1 CTACGGTGGCATCTGATACGG
* *
33195 CTACGTTGCCATCTGATACGG
1 CTACGGTGGCATCTGATACGG
*
33216 CTACGGTGTCATCTGATACGG
1 CTACGGTGGCATCTGATACGG
*
33237 CTACGGTGCCATCTGA
1 CTACGGTGGCATCTGA
33253 AATAGCTACG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.01
21 83 0.98
22 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (21 bp):
CTACGGTGGCATCTGATACGG
Found at i:33166 original size:42 final size:42
Alignment explanation
Indices: 33115--33252 Score: 150
Period size: 42 Copynumber: 3.3 Consensus size: 42
33105 AACCAGTTGA
* * * * **
33115 GGTGTCATCTGACCCGACTACGGTGGCATCTGATATGGAAAC
1 GGTGCCATCTGACACGGCTACGGTGGCATCTGATACGGCTAC
* ** * *
33157 GGTGGCATCTGACTTGGTTACAGTGGCATCTGATACGGCTAC
1 GGTGCCATCTGACACGGCTACGGTGGCATCTGATACGGCTAC
* * *
33199 GTTGCCATCTGATACGGCTACGGTGTCATCTGATACGGCTAC
1 GGTGCCATCTGACACGGCTACGGTGGCATCTGATACGGCTAC
33241 GGTGCCATCTGA
1 GGTGCCATCTGA
33253 AATAGCTACG
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (42 bp):
GGTGCCATCTGACACGGCTACGGTGGCATCTGATACGGCTAC
Found at i:33649 original size:3 final size:3
Alignment explanation
Indices: 33641--33665 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33631 TTTGTCCCAT
33641 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
33666 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35791 original size:4 final size:4
Alignment explanation
Indices: 35784--35808 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35774 TAAATAATAA
35784 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
35809 TATATCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:39659 original size:42 final size:42
Alignment explanation
Indices: 39607--39696 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
39597 CAAATTACCT
* *
39607 GAAGGTTTTAATCATCATGCTCGAAAGACTTACTGATGACCC
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCC
* * *
39649 GAAGGATTTAAGCATCATTCTCGAAAGACTTACTGATGGCCT
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCC
39691 GAAGGA
1 GAAGGA
39697 CTTATAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGACCC
Found at i:40016 original size:216 final size:216
Alignment explanation
Indices: 39617--40669 Score: 1618
Period size: 216 Copynumber: 4.9 Consensus size: 216
39607 GAAGGTTTTA
* * * * *
39617 ATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAGCATCATTCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
39682 TGATGGCCTGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATTC
39747 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
* *
39812 TATGGATGGCCCAAAGGAATT
196 TATGGATGGCCCGAAGGACTT
* * *
39833 ATCATCTTGCTCTAAAGGCTTACACATGACCCGAATGATTTAAGCATTATGCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
39898 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATTGCCTTTTTCGTTTTCAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATTC
39963 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
* *
40028 TATGGATGGTCCGAATGACTT
196 TATGGATGGCCCGAAGGACTT
*
40049 ATCATCTTACTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
40114 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATTC
*
40179 CATCTTCTTAAAACATCATTTTTTTCA--TT----TTCATGTGAAAACATCTTACCCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
40238 TATGGATGGCCCGAAGGACTT
196 TATGGATGGCCCGAAGGACTT
* * *
40259 ATCATCTTTCTCTAAAGGCTTACAGATGACCCGAAGGATTTAA--ATCATGCTCAAAAGACTTAT
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* * *
40322 TGATGGCTCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCATTTTCAAAAAATC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATTC
*
40387 CATCTTCTTAAAACATCATTTTTTTTCA--TT----TTCATGTGAAAACATCCTACCCGAAGGTC
131 CATCTTCTTAAAACATCA-TTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
*
40446 TTATGGATGGCCCGAAGGACTC
195 TTATGGATGGCCCGAAGGACTT
*
40468 ATCATCTTGCTCTTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCAAGCTCGAAAGACTTA
1 ATCATCTTGCTC-TAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
* ** * * *
40533 CTAATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATC-ACAT-TTCGTTTTCAAGAATT
65 CTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATT
* * * *
40596 CAATCTTCTTAAAACTTCA-TTTTTTCGTTTTCAAATTCATATGAAAACATCCTACCCGAAGGTT
130 CCATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
40660 TTATGGATGG
195 TTATGGATGG
40670 ATTTGCTTCA
Statistics
Matches: 773, Mismatches: 54, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
208 105 0.14
209 70 0.09
210 153 0.20
211 2 0.00
212 55 0.07
214 39 0.05
216 349 0.45
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (216 bp):
ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTCAAAAATTC
CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
TATGGATGGCCCGAAGGACTT
Found at i:40716 original size:34 final size:34
Alignment explanation
Indices: 40673--40878 Score: 268
Period size: 35 Copynumber: 5.9 Consensus size: 34
40663 TGGATGGATT
* *
40673 TGCTTCACTACTCTTCGCTGAAGGCTTAAAATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* *
40707 TGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* *
40741 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-G
* *
40776 TGCTTCACTATTCTTCGGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-G
*
40811 TGCTTCACTACTCTCCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* * *
40845 TTTGCTTCATTCCTCTTTGGTGAAGGCTTAAGAT
1 --TGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
40879 TGACTTGCCC
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
34 62 0.40
35 64 0.42
36 28 0.18
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (34 bp):
TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
Found at i:40880 original size:103 final size:103
Alignment explanation
Indices: 40672--40878 Score: 292
Period size: 103 Copynumber: 2.0 Consensus size: 103
40662 ATGGATGGAT
*
40672 TTGCTTCACTACTCTTCGCTGAAGGCTTAAAATGGTGCTTCACTACTCCTCTGTGAAGGCTTAAG
1 TTGCTTCACTACTCTTCGCTGAAGGCTTAAAATGGTGCTTCACTACTCCTCGGTGAAGGCTTAAG
40737 ATGGTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGA
66 ATGGTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGA
* * * *
40775 TTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGATTGCTTCACTACT-CTCCGGTGAAGGCTTA
1 TTGCTTCACTACTCTTCGCTGAAGGCTTAAAATG-GTGCTTCACTACTCCT-CGGTGAAGGCTTA
* *
40839 AGATGGTTTGCTTCATTCCTCTT-TGGTGAAGGCTTAAGAT
64 AGATGG--TGCTTCACTACTCTTCT-GTGAAGGCTTAAGAT
40879 TGACTTGCCC
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
103 33 0.36
104 30 0.33
105 1 0.01
106 28 0.30
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (103 bp):
TTGCTTCACTACTCTTCGCTGAAGGCTTAAAATGGTGCTTCACTACTCCTCGGTGAAGGCTTAAG
ATGGTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGA
Found at i:45611 original size:55 final size:55
Alignment explanation
Indices: 45536--45664 Score: 206
Period size: 55 Copynumber: 2.3 Consensus size: 55
45526 CTTCAAACTC
* *
45536 CATTCATTGGATGGCATTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
1 CATTCATTGGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
* *
45591 CATTCATTTGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCCAATTTCTT
1 CATTCATTGGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
45646 CATTC-TTCGGATGTCCTTC
1 CATTCATT-GGATGTCCTTC
45665 ATGAATCATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
54 2 0.03
55 66 0.97
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (55 bp):
CATTCATTGGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
Found at i:46159 original size:17 final size:17
Alignment explanation
Indices: 46137--46169 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46127 GGTTCGGGTC
46137 AGGCTCGACCTAAATTT
1 AGGCTCGACCTAAATTT
*
46154 AGGCTCTACCTAAATT
1 AGGCTCGACCTAAATT
46170 CAAGCTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (17 bp):
AGGCTCGACCTAAATTT
Found at i:46176 original size:17 final size:17
Alignment explanation
Indices: 46139--46178 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
46129 TTCGGGTCAG
* * *
46139 GCTCGACCTAAATTTAG
1 GCTCTACCTAAATTCAA
46156 GCTCTACCTAAATTCAA
1 GCTCTACCTAAATTCAA
46173 GCTCTA
1 GCTCTA
46179 TGTTCACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (17 bp):
GCTCTACCTAAATTCAA
Found at i:49670 original size:26 final size:24
Alignment explanation
Indices: 49641--49695 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
49631 TTACTTATAA
49641 TTTTCA-TAATATTTATTATATATTAT
1 TTTTCATTAATATTT-TTAT-T-TTAT
*
49667 TTTT-ATTAATGTTTTTATTTTAT
1 TTTTCATTAATATTTTTATTTTAT
49690 TTTTCA
1 TTTTCA
49696 AGTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.31
24 2 0.08
25 5 0.19
26 11 0.42
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTCATTAATATTTTTATTTTAT
Found at i:60349 original size:23 final size:22
Alignment explanation
Indices: 60303--60348 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
60293 ATTATGCTTG
60303 AAGAAAAAAAATGAAAATGAAA
1 AAGAAAAAAAATGAAAATGAAA
60325 AAGAAAGAAAAATG-AAATGAAA
1 AAGAAA-AAAAATGAAAATGAAA
60347 AA
1 AA
60349 AATATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (22 bp):
AAGAAAAAAAATGAAAATGAAA
Found at i:60739 original size:18 final size:18
Alignment explanation
Indices: 60716--60750 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60706 TTATCTTATT
60716 GAAATTCAATTTATTTTC
1 GAAATTCAATTTATTTTC
*
60734 GAAATTTAATTTATTTT
1 GAAATTCAATTTATTTT
60751 TTCATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (18 bp):
GAAATTCAATTTATTTTC
Found at i:62092 original size:113 final size:113
Alignment explanation
Indices: 61907--62725 Score: 635
Period size: 122 Copynumber: 6.9 Consensus size: 113
61897 GCGAATATTT
* * *
61907 GAATTCATCACTCGATGGATCAGCATTTCC-G-GAAGAGTTCATAATGAGAAGAACTCATCTGAA
1 GAATTCATCACTAGATGAATCATCATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAA
* * * * * *
61970 GAATGAAGAAGAAGTTCATAATAAGAATAATTTGTTCAACATTTTACTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* *
62019 GAATTCATCACTAGATGAATCATCATTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAG
1 GAATTCATCACTAGATGAATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
62084 AAGGAAGAAGAAGTTCAAAATGAGAAGAACTTGTTCAACCTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* * *
62132 GAATTCATCACTCGATGGATCAACATTTCC-G-GAAGAGTTCATAATGAGAAGAACTCATCTGAA
1 GAATTCATCACTAGATGAATCATCATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAA
*
62195 GAAGGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* * **
62244 G-ATTCTATCAAAGAAATAGATAGATCAGCATCAAAATTTCCAGA-AGTGTTCATAATGAGAAGA
1 GAATTC-ATC-----ACTAGAT-GA--ATCATC---ATTTCCAGAGAAAGTTCATAATGAGAAGA
* * * *
62307 ACTCTTCTGAAG-AGGAATAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
** **
62366 G-ATTCAATCAAAGAAAGAGATAGATCATCATCAAAATTTCCAGA-AGTGTTCATAATGAGAAGA
1 GAATTC-ATC-----ACTAGAT-GA--ATCATC---ATTTCCAGAGAAAGTTCATAATGAGAAGA
* *
62429 ACTCATCTGAAG-AGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG-TAT
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT-C
* * *
62488 G-ACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
1 GAATTC-ATCAC-----TAGAT-GA--ATCATC-A--TTTCCAGAGAAAGTTCATAATGAGAAGA
* * * *
62552 ACTTATCTGAAG-ATGAAGTAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTATGACTC
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TT-T-TG-CTC
* * ** * * * **
62615 -TATCACAGAAGGAGATAGATCAACATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCA
1 GAAT-TC---ATCA-CTAGAT-GA-ATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCA
* *
62678 TCTGAAG-AGGAAGAAGAAATTCATAATGAGAATAACTTGTTCAACCTT
59 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
62726 GCTTTAATTC
Statistics
Matches: 600, Mismatches: 71, Indels: 64
0.82 0.10 0.09
Matches are distributed among these distances:
111 7 0.01
112 104 0.17
113 95 0.16
114 3 0.00
117 6 0.01
118 1 0.00
120 8 0.01
121 63 0.10
122 194 0.32
123 96 0.16
124 5 0.01
125 6 0.01
126 7 0.01
127 1 0.00
128 2 0.00
130 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
GAATTCATCACTAGATGAATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
Found at i:62368 original size:122 final size:122
Alignment explanation
Indices: 62150--62725 Score: 809
Period size: 122 Copynumber: 4.7 Consensus size: 122
62140 CACTCGATGG
* * * *
62150 ATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAGTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAATAAGAAGTTCATA
* *
62215 ATGAGAAGAACTTGTTCAACCTTTTGCT-CGATTCTATCAAAGAAATAGATAGATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTTG-TACGACTCTATCAAAGAAAGAGATAGATCAGC
* *
62273 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCTTCTGAAGAGGAATAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
* * * * *
62338 TGAGAAGAATTTGTTTAACCTTTTGCT-CGATTCAATCAAAGAAAGAGATAGATCATC
66 TGAGAAGAACTTGTTCAACCTTTTG-TACGACTCTATCAAAGAAAGAGATAGATCAGC
*
62395 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
* * *
62460 TGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGTACGACTCTATCAAAGAAAGAGATAGATCAGC
* ** * *
62517 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGATGAAGT-AGAAGTTCAT
1 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAA-TAAGAAGTTCAT
* * * * *
62581 AATGAGAAGAGCTTGTTCAACC-TTTGTATGACTCTATCACAGAAGGAGATAGATCAAC
64 AATGAGAAGAACTTGTTCAACCTTTTGTACGACTCTATCAAAGAAAGAGATAGATCAGC
* *
62639 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
*
62704 TGAGAATAACTTGTTCAACCTT
66 TGAGAAGAACTTGTTCAACCTT
62726 GCTTTAATTC
Statistics
Matches: 411, Mismatches: 37, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
121 62 0.15
122 243 0.59
123 105 0.26
124 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGTACGACTCTATCAAAGAAAGAGATAGATCAGC
Found at i:62437 original size:245 final size:239
Alignment explanation
Indices: 61931--62725 Score: 882
Period size: 244 Copynumber: 3.3 Consensus size: 239
61921 ATGGATCAGC
* * *
61931 ATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATAAGA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
* * * * * * *
61996 ATAATTTGTTCAACATTTTACTCGAATTC-ATC----ACTAGAT-GA--ATCATC--ATTGCCAG
65 AGAACTTGTTCAACCTTTTGCTCG-ATTCTATCAAGAAATAGATAGATCAGCATCAAATTTCCAG
* * * *
62051 AGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAAAATGAGAAGAACTT
129 AGAAAGTTCATAATGAGAAGAACTCTTCTGAAG-AGGAATAAGAAGTTCATAATGAGAAGAACTT
*** *
62116 GTTCAACCTTTTGCTTGAATTCATC----ACTCGATGGATCA-A-C--
193 GTTCAACCTTTTGCTTG-ATTCATCAAGAAAGAGATAGATCACATCAA
* *
62156 ATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAACAAGTTCATAATGAGA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
62221 AGAACTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAATAGATAGATCAGCATCAAAATTTCCA
65 AGAACTTGTTCAACCTTTTGCTCGATTCTATC-AAGAAATAGATAGATCAGCATC-AAATTTCCA
** *
62286 GA-AGTGTTCATAATGAGAAGAACTCTTCTGAAGAGGAATAAGAAGTTCATAATGAGAAGAATTT
128 GAGAAAGTTCATAATGAGAAGAACTCTTCTGAAGAGGAATAAGAAGTTCATAATGAGAAGAACTT
* *
62350 GTTTAACCTTTTGCTCGATTCAATCAAAGAAAGAGATAGATCATCATCAAA
193 GTTCAACCTTTTGCTTGATTC-ATC-AAGAAAGAGATAGATCA-CATC-AA
* *
62401 ATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAGAAGTTCATAATGAGAA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
* * ** *
62466 GAACTTGTTCAACCTTTTG-TATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCA
66 GAACTTGTTCAACCTTTTGCT-CGATTCTATCA-AGAAATAGATAGATCAGCATCAA-ATTTCCA
* *
62530 GAGAAAGTTCATAATGAGAAGAACT-TATCTGAAGATGAAGT-AGAAGTTCATAATGAGAAGAGC
128 GAGAAAGTTCATAATGAGAAGAACTCT-TCTGAAGAGGAA-TAAGAAGTTCATAATGAGAAGAAC
* *
62593 TTGTTCAACC-TTTG-TATGACTCTATCACAGAAGGAGATAGATCAACATCAA
191 TTGTTCAACCTTTTGCT-TGATTC-ATCA-AGAAAGAGATAGATC-ACATCAA
* *
62644 CATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGA
1 -ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGA
*
62709 ATAACTTGTTCAACCTT
65 AGAACTTGTTCAACCTT
62726 GCTTTAATTC
Statistics
Matches: 491, Mismatches: 45, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
224 4 0.01
225 85 0.17
230 6 0.01
231 2 0.00
233 9 0.02
234 46 0.09
235 27 0.05
236 8 0.02
239 9 0.02
241 1 0.00
242 1 0.00
243 8 0.02
244 185 0.38
245 99 0.20
246 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (239 bp):
ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGCTCGATTCTATCAAGAAATAGATAGATCAGCATCAAATTTCCAGAG
AAAGTTCATAATGAGAAGAACTCTTCTGAAGAGGAATAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGATTCATCAAGAAAGAGATAGATCACATCAA
Found at i:63187 original size:21 final size:21
Alignment explanation
Indices: 63157--63238 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 21
63147 TTAATTTTAT
*
63157 AGGCCCAGATCTAGAACCCGG
1 AGGCCCAGATCCAGAACCCGG
* * * *
63178 AGGCCTAGATCTAGAACCTGA
1 AGGCCCAGATCCAGAACCCGG
*
63199 AGGCCCAGATCCAAAACCCGG
1 AGGCCCAGATCCAGAACCCGG
*
63220 AAGCCCAGATCCAG-ACCCG
1 AGGCCCAGATCCAGAACCCG
63239 ACCCAACACC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 5 0.10
21 46 0.90
ACGTcount: A:0.32, C:0.34, G:0.24, T:0.10
Consensus pattern (21 bp):
AGGCCCAGATCCAGAACCCGG
Found at i:69115 original size:42 final size:42
Alignment explanation
Indices: 69066--69159 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
69056 CTTACAAATT
* *
69066 ACCCGAAGGTTTTAATCATCATGCTCAAAAGACTTACTGATG
1 ACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATG
* * *
69108 ACCCGAAGGATTTAGGCATCATTCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATG
*
69150 GCCCGAAGGA
1 ACCCGAAGGA
69160 CTTATAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
ACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATG
Found at i:69572 original size:215 final size:216
Alignment explanation
Indices: 69080--70132 Score: 1600
Period size: 210 Copynumber: 4.9 Consensus size: 216
69070 GAAGGTTTTA
* * * * * *
69080 ATCATCATGCTCAAAAGACTTACTGATGACCCGAAGGATTTAGGCATCATTCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
69145 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTAAAAAATTC
* *
69210 CATCTTCTTAAAACACCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACTCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
*
69275 TATGGATGGCCCAAAGGACTT
196 TATGGATGGCCCGAAGGACTT
* *
69296 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAATGATTTAAGCATTATGCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
*
69361 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATTGCCTTCTTCGTTTTAAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTAAAAAATTC
* *
69426 CATCTTCTTAAAACATCA-TTTTTTCATTTTCAAATTCATGTGAAAATATCATACCCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
*
69490 TATGGATGGTCCGAAGGACTT
196 TATGGATGGCCCGAAGGACTT
* *
69511 ATCATCTTGCTCTAAAGGCTTACAGATGACACGAAGGATTTAAGCATCATGCTCAAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* *
69576 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCACATTCTTCGTTTTAAAAAATTC
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTAAAAAATTC
69641 CATCTTCTTAAAACATCATTTTTTTCA--TT----TTCATGTGAAAACATCCTACCCGAAGGTTT
131 CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
69700 TATGGATGGCCCGAAGGACTT
196 TATGGATGGCCCGAAGGACTT
** *
69721 ATCATCTTTATCTAAAGGCTTACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTAC
1 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
* * *
69786 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTAAAAATCGTCTTCTTCATTTTCAAAAAA-T
66 TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTT-AAAAAATT
* * *
69850 CCATCTTCTTAAAACATCATTTTTTTCA--TT----TTCATGTGAAAACATCCTACCCAAAGCTC
130 CCATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
*
69909 TTATGGATGGCCCGAAGGACTC
195 TTATGGATGGCCCGAAGGACTT
*
69931 ATCATCTTGCTCTTAAAGGCTTACAGATGACCCGAAGTATTTAAGCATCATGCTCGAAAGACTTA
1 ATCATCTTGCTC-TAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
** * * * *
69996 CTGATGGCCCGAAGGACTTATAAATTATGAAATTTTGAAAATC-ACAT-TTCGTTTTCAAGAATT
65 CTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTAAAAAATT
* * *
70059 CCATCTTCTTAAAACTTCA-TTTTTTCATTTTCAAATTCATATGAAAACATCATACCCGAAGGTT
130 CCATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
70123 TTATGGATGG
195 TTATGGATGG
70133 ATTTGCTTTA
Statistics
Matches: 768, Mismatches: 59, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
208 12 0.02
209 26 0.03
210 251 0.33
211 96 0.12
214 36 0.05
215 203 0.26
216 144 0.19
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (216 bp):
ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
TGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCCTTCTTCGTTTTAAAAAATTC
CATCTTCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTT
TATGGATGGCCCGAAGGACTT
Found at i:70174 original size:34 final size:34
Alignment explanation
Indices: 70136--70341 Score: 261
Period size: 35 Copynumber: 5.9 Consensus size: 34
70126 TGGATGGATT
*
70136 TGCTTTACTACTCTTCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* *
70170 TGCTTCACTACTCCTCTGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* *
70204 TGCTTCACTACTCTTCTGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-G
* *
70239 TGCTTCACTATTCTTCGGTGAAGGCTTAAGATGAT
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-G
* *
70274 TGCTTCACTTCTCTCCGGTGAAGGCTTAAGATGG
1 TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
* *
70308 TTTGATTCACT-CATCTTTGGTGAAGGCTTAAGAT
1 --TGCTTCACTAC-TCTTCGGTGAAGGCTTAAGAT
70342 TGACTTGCCC
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
34 63 0.41
35 64 0.42
36 27 0.18
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (34 bp):
TGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
Found at i:70254 original size:35 final size:34
Alignment explanation
Indices: 70135--70341 Score: 263
Period size: 34 Copynumber: 6.0 Consensus size: 34
70125 ATGGATGGAT
*
70135 TTGCTTTACTACTCTTCGGTGAAGGCTTAAGATG
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
* * *
70169 GTGCTTCACTACTCCTCTGTGAAGGCTTAAGATG
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
* *
70203 GTGCTTCACTACTCTTCTGTGAAGGCTTAAGATG
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
*
70237 ATTGCTTCACTATTCTTCGGTGAAGGCTTAAGATG
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
* *
70272 ATTGCTTCACTTCTCTCCGGTGAAGGCTTAAGATGG
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT-G
* *
70308 TTTGATTCACT-CATCTTTGGTGAAGGCTTAAGAT
1 -TTGCTTCACTAC-TCTTCGGTGAAGGCTTAAGAT
70342 TGACTTGCCC
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
34 63 0.41
35 63 0.41
36 29 0.19
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (34 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
Found at i:70343 original size:103 final size:103
Alignment explanation
Indices: 70135--70341 Score: 285
Period size: 103 Copynumber: 2.0 Consensus size: 103
70125 ATGGATGGAT
* *
70135 TTGCTTTACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCTGTGAAGGCTTAAG
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCGGTGAAGGCTTAAG
*
70200 ATGGTGCTTCACTACTCTTCTGTGAAGGCTTAAGATGA
66 ATGGTGATTCACTACTCTTCTGTGAAGGCTTAAGATGA
* * *
70238 TTGCTTCACTATTCTTCGGTGAAGGCTTAAGATGATTGCTTCACTTCT-CTCCGGTGAAGGCTTA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-GTGCTTCACTACTCCT-CGGTGAAGGCTTA
70302 AGATGGTTTGATTCACT-CATCTT-TGGTGAAGGCTTAAGAT
64 AGATGG--TGATTCACTAC-TCTTCT-GTGAAGGCTTAAGAT
70342 TGACTTGCCC
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
103 34 0.37
104 29 0.32
105 2 0.02
106 27 0.29
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (103 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTGCTTCACTACTCCTCGGTGAAGGCTTAAG
ATGGTGATTCACTACTCTTCTGTGAAGGCTTAAGATGA
Found at i:75070 original size:55 final size:55
Alignment explanation
Indices: 74997--75125 Score: 224
Period size: 55 Copynumber: 2.3 Consensus size: 55
74987 CTTCAAACTC
* *
74997 CATTCATTGGATGGCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
1 CATTCATTTGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
75052 CATTCATTTGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
1 CATTCATTTGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
75107 CATTC-TTTGGATGTCCTTC
1 CATTCATTT-GATGTCCTTC
75126 CTGAATCATT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
54 3 0.04
55 68 0.96
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (55 bp):
CATTCATTTGATGTCCTTCTTCATGAATCGTTCTTCAATCAGGTTCAAATTTCTT
Found at i:76123 original size:25 final size:23
Alignment explanation
Indices: 76073--76149 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 23
76063 AAGTATTTTC
* *
76073 TTTCAAAATTTTATTACTTATAAT
1 TTTCATAATTTTATTA-TTATTAT
76097 TTTCATAATATTTATTATATATTAT
1 TTTCATAAT-TTTATTAT-TATTAT
*
76122 TTTTATTAATGTTT-TTATT-TTAT
1 TTTCA-TAAT-TTTATTATTATTAT
76145 TTTCA
1 TTTCA
76150 AGTATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.18
24 10 0.22
25 20 0.44
26 7 0.16
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (23 bp):
TTTCATAATTTTATTATTATTAT
Found at i:86755 original size:17 final size:17
Alignment explanation
Indices: 86733--86771 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
86723 ATATTATGCT
86733 TGAAAAAAAAATG-AAAA
1 TGAAAAAAAAA-GAAAAA
*
86750 TGAAAAAGAAAGAAAAA
1 TGAAAAAAAAAGAAAAA
86767 TGAAA
1 TGAAA
86772 TGAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (17 bp):
TGAAAAAAAAAGAAAAA
Found at i:86779 original size:23 final size:23
Alignment explanation
Indices: 86734--86778 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
86724 TATTATGCTT
86734 GAAAAAAAAATGAAAATGAAAAA
1 GAAAAAAAAATGAAAATGAAAAA
*
86757 GAAAGAAAAATG-AAATGAAAAA
1 GAAAAAAAAATGAAAATGAAAAA
86779 AATATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.09
Consensus pattern (23 bp):
GAAAAAAAAATGAAAATGAAAAA
Found at i:87166 original size:18 final size:18
Alignment explanation
Indices: 87143--87177 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87133 TTATCTTATT
87143 GAAATTCAATTTATTTTC
1 GAAATTCAATTTATTTTC
*
87161 GAAATTTAATTTATTTT
1 GAAATTCAATTTATTTT
87178 TTCACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (18 bp):
GAAATTCAATTTATTTTC
Found at i:88791 original size:122 final size:122
Alignment explanation
Indices: 88573--89148 Score: 843
Period size: 122 Copynumber: 4.7 Consensus size: 122
88563 CACTCGATAG
* *
88573 ATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATA
* * * *
88638 ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCAAATAAAGAGATAAATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCAAAGAAAGAGATAGATCAGC
* * *
88696 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCTTCTGAAGATGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* *
88761 TGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCAAAGAAAGAGATAGATCAGC
* *
88818 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAGGAAGTTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
88883 TGAGAAGAACTTGTTCAACCTTTTG-TATGACTCTATCACAGAAGGAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCT-CGACTCTATCAAAGAAAGAGATAGATCAGC
* ** * *
88940 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGATGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
89005 ATGAGAAGAGCTTGTTCAACC-TTTGAAT-GACTCTATCATAGAAGGAAATAGATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTTG-CTCGACTCTATCAAAGAAAGAGATAGATCAGC
*
89062 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAA
1 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
89127 TGAGAATAACTTGTTCAACCTT
66 TGAGAAGAACTTGTTCAACCTT
89149 GCTTTAATTC
Statistics
Matches: 415, Mismatches: 33, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
121 64 0.15
122 244 0.59
123 106 0.26
124 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCAAAGAAAGAGATAGATCAGC
Found at i:88899 original size:244 final size:240
Alignment explanation
Indices: 88348--89148 Score: 950
Period size: 244 Copynumber: 3.4 Consensus size: 240
88338 CACTCGATGG
* * *
88348 ATCAGCATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * *
88413 ATAAGAATAATTTGTTCAACCTTTTGCTCGAATTC-ATC-ACT---AGATGAAT---CATC--AT
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCG-ATTCTATCAAATAAGAGATAAATCAGCATCAAAT
* * * *
88468 TGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
130 TTCCAGAGAAAGTTCATAATGAGAAGAACTCTTCTGAAG-ATGAAGAAGAAGTTCATAATGAGAA
* * *
88533 GAACTTGTTCAACCTTTTTCTTGAATTC-ATC------ACTCGAT-AG-
194 GAACTTGTTCAACCTTTTGC-TG-ATTCTATCAAGAAGAATAGATCAGC
*
88573 ATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
88638 ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCAAATAAAGAGATAAATCAGCATCAAAA
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCAAAT-AAGAGATAAATCAGCATC-AAA
**
88703 TTTCCAGA-AGTGTTCATAATGAGAAGAACTCTTCTGAAGATGAAGAAGAAGTTCATAATGAGAA
129 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCTTCTGAAGATGAAGAAGAAGTTCATAATGAGAA
*
88767 GAATTTGTTCAACCTTTTGCTCGATTCTATCAAAGAAAGAGATAGATCAGC
194 GAACTTGTTCAACCTTTTGCT-GATTCTATC-AAG-AAGA-ATAGATCAGC
* * *
88818 ATCAAAATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAGGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * *
88882 ATGAGAAGAACTTGTTCAACCTTTTG-TATGACTCTATCACAGAAGGAGATAGATCAGCATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCT-CGATTCTATCAAATAA-GAGATAAATCAGCATCAA-
*
88946 TTTTCCAGAGAAAGTTCATAATGAGAAGAACT-TATCTGAAGATGAAGAAGAAGTTCATAATGAG
128 ATTTCCAGAGAAAGTTCATAATGAGAAGAACTCT-TCTGAAGATGAAGAAGAAGTTCATAATGAG
* * *
89010 AAGAGCTTGTTCAACC-TTTGAATGACTCTATCATAGAAGGAAATAGATCAGC
192 AAGAACTTGTTCAACCTTTTG-CTGATTCTATCA-AGAA-G-AATAGATCAGC
* *
89062 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
89126 ATGAGAATAACTTGTTCAACCTT
66 ATGAGAAGAACTTGTTCAACCTT
89149 GCTTTAATTC
Statistics
Matches: 505, Mismatches: 37, Indels: 49
0.85 0.06 0.08
Matches are distributed among these distances:
224 4 0.01
225 94 0.19
226 2 0.00
230 7 0.01
233 9 0.02
234 46 0.09
235 27 0.05
236 8 0.02
242 1 0.00
243 12 0.02
244 186 0.37
245 109 0.22
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (240 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCAAATAAGAGATAAATCAGCATCAAATT
TCCAGAGAAAGTTCATAATGAGAAGAACTCTTCTGAAGATGAAGAAGAAGTTCATAATGAGAAGA
ACTTGTTCAACCTTTTGCTGATTCTATCAAGAAGAATAGATCAGC
Found at i:89611 original size:21 final size:21
Alignment explanation
Indices: 89581--89663 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
89571 TTAATTTTAT
*
89581 AGGCCCAGATCTAGAACCCGG
1 AGGCCCAGATCTAGAACCCGA
*
89602 AGGCCTAGATCTAGAACCCGA
1 AGGCCCAGATCTAGAACCCGA
* *
89623 AGGCCCAGATCCAAAACCCAGA
1 AGGCCCAGATCTAGAACCC-GA
*
89645 A-GCCCAGATCCA-AACCCGA
1 AGGCCCAGATCTAGAACCCGA
89664 CCTAACACCA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.04
20 5 0.09
21 46 0.82
22 3 0.05
ACGTcount: A:0.35, C:0.35, G:0.22, T:0.08
Consensus pattern (21 bp):
AGGCCCAGATCTAGAACCCGA
Found at i:91952 original size:2 final size:2
Alignment explanation
Indices: 91945--91970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
91935 AAAAATAAAG
91945 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
91971 TTTCTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93446 original size:16 final size:17
Alignment explanation
Indices: 93427--93458 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
93417 TAAAAAAGGA
93427 GAATAAAA-GAAAAAAC
1 GAATAAAAGGAAAAAAC
93443 GAATAAAAGGAAAAAA
1 GAATAAAAGGAAAAAA
93459 TATTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (17 bp):
GAATAAAAGGAAAAAAC
Found at i:93525 original size:3 final size:3
Alignment explanation
Indices: 93517--93558 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
93507 GAAATGAAAG
93517 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
93559 GTTAAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94818 original size:19 final size:20
Alignment explanation
Indices: 94796--94839 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
94786 AATAAATTTA
*
94796 AAAAATAAGAAT-AATAAAT
1 AAAAATAACAATAAATAAAT
*
94815 AAAAATAACAATAAATGAAT
1 AAAAATAACAATAAATAAAT
94835 AAAAA
1 AAAAA
94840 CATTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAATAACAATAAATAAAT
Found at i:94819 original size:20 final size:21
Alignment explanation
Indices: 94785--94839 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
94775 AAATAAATGA
*
94785 AAATAAATTTAAAAAATAAGAAT
1 AAATAAA--TAAAAAATAACAAT
94808 -AATAAAT-AAAAATAACAAT
1 AAATAAATAAAAAATAACAAT
*
94827 AAATGAATAAAAA
1 AAATAAATAAAAA
94840 CATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 11 0.39
20 7 0.25
21 4 0.14
22 6 0.21
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATAAATAAAAAATAACAAT
Found at i:94902 original size:33 final size:31
Alignment explanation
Indices: 94842--94948 Score: 85
Period size: 33 Copynumber: 3.3 Consensus size: 31
94832 AATAAAAACA
*
94842 TTTTT-AAAAAAATT-ATATACTATATATATG
1 TTTTTAAAAAAAATTAAAATA-TATATATATG
94872 TTTTTAAAAAAAATTAAAATCATATAATATATG
1 TTTTTAAAAAAAATTAAAAT-ATAT-ATATATG
* * **
94905 TCTTCAAATAATATTTTAAAATTATATATATAT-
1 TTTTTAAA-AA-AAATTAAAA-TATATATATATG
94938 TTTTCTAAAAA
1 TTTT-TAAAAA
94949 TATTTTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
30 5 0.08
31 9 0.15
32 6 0.10
33 19 0.31
34 11 0.18
35 11 0.18
36 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAAAAATTAAAATATATATATATG
Found at i:94924 original size:35 final size:34
Alignment explanation
Indices: 94865--95124 Score: 164
Period size: 34 Copynumber: 7.5 Consensus size: 34
94855 TATATACTAT
* **
94865 ATATATGTTTTTAAAAA-AAATTAAAATCATATA
1 ATATATGTTTTCAAAAATATTTTAAAATCATATA
* *
94898 ATATATGTCTTCAAATAATATTTTAAAATTATAT-
1 ATATATGTTTTCAAA-AATATTTTAAAATCATATA
*
94932 ATATAT-TTTTCTAAAAATATTTTCAAAATCAAATA
1 ATATATGTTTTC-AAAAATATTTT-AAAATCATATA
* *
94967 TTATATAGTTTTC-AAAATATTTTAAAAACTATATA
1 ATATAT-GTTTTCAAAAATATTTTAAAATC-ATATA
*
95002 TTATATACAT-TTTTC-AAAATATTTTTAAAAACCATAT-
1 --ATAT--ATGTTTTCAAAAATA-TTTT-AAAATCATATA
*
95039 ATATATATTTT-AAAAATATTTTCAGAAA-C-TATA
1 ATATATGTTTTCAAAAATATTTT-A-AAATCATATA
* * * *
95072 TTATATATTTCCAAAATATTTTTTTAAAAT-ATATAA
1 ATATATGTTTTCAAAA-A-TATTTTAAAATCATAT-A
95108 TATATATGTTTTCAAAA
1 -ATATATGTTTTCAAAA
95125 TGTTTTTTTA
Statistics
Matches: 182, Mismatches: 20, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
32 3 0.02
33 42 0.23
34 44 0.24
35 40 0.22
36 6 0.03
37 32 0.18
38 8 0.04
39 7 0.04
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (34 bp):
ATATATGTTTTCAAAAATATTTTAAAATCATATA
Found at i:95024 original size:37 final size:36
Alignment explanation
Indices: 94914--95224 Score: 208
Period size: 37 Copynumber: 8.8 Consensus size: 36
94904 GTCTTCAAAT
94914 AATATTTT-AAAA-T-TATA-TATAT-ATTTTTCTAAA
1 AATATTTTAAAAACTATATATTATATAATTTTTC--AA
* * *
94947 AATATTTTCAAAA-TCAAATATTATAT-AGTTTTCAA
1 AATATTTTAAAAACT-ATATATTATATAATTTTTCAA
94982 AATATTTTAAAAACTATATATTATATACATTTTTCAA
1 AATATTTTAAAAACTATATATTATATA-ATTTTTCAA
* *
95019 AATATTTTTAAAAACCATATA-TATAT-A-TTTTAAA
1 AATA-TTTTAAAAACTATATATTATATAATTTTTCAA
* *
95053 AATATTTTCAGAAAC--TATATTATAT-A-TTTCCAA
1 AATATTTT-AAAAACTATATATTATATAATTTTTCAA
* *
95086 AATATTTTTTTAAAA-TATATAATATAT-ATGTTTTCAA
1 AATA--TTTTAAAAACTATATATTATATAAT-TTTTCAA
* ** *
95123 AATGTTTTTTTAAACTATATATTATAT-TTATTTTCAA
1 AAT-ATTTTAAAAACTATATATTATATAAT-TTTTCAA
* * *
95160 AATGTTTTAAATACT-TATAATATATAAATGTTTTCAA
1 AATATTTTAAAAACTATATATTATAT-AAT-TTTTCAA
* *
95197 ACATGTTTTCAAAACTATATATTATATA
1 A-ATATTTTAAAAACTATATATTATATA
95225 TATATATTCA
Statistics
Matches: 227, Mismatches: 29, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
32 4 0.02
33 27 0.12
34 23 0.10
35 48 0.21
36 20 0.09
37 68 0.30
38 28 0.12
39 9 0.04
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (36 bp):
AATATTTTAAAAACTATATATTATATAATTTTTCAA
Found at i:95044 original size:72 final size:72
Alignment explanation
Indices: 94887--95237 Score: 266
Period size: 74 Copynumber: 4.9 Consensus size: 72
94877 AAAAAAAATT
* *
94887 AAAATCATATA-ATATATGTCTTCAAATAATATTTT-AAAA-T-TATA-TATATAT-TTTTCTAA
1 AAAACCATATATATATATGTTTTC-AA-AATATTTTAAAAACTATATATTATATATATTTTC-AA
*
94946 AA-ATATTTTC
63 AATAT-TTTTA
* * *
94956 AAAATCAAATAT-TATATAGTTTTCAAAATATTTTAAAAACTATATATTATATACATTTTTCAAA
1 AAAACCATATATATATAT-GTTTTCAAAATATTTTAAAAACTATATATTATATATA-TTTTCAAA
95020 ATATTTTTA
64 ATATTTTTA
* * *
95029 AAAACCATATATATATA--TTTTAAAAATATTTTCAGAAAC--TATA-T-TATATATTTCCAAAA
1 AAAACCATATATATATATGTTTTCAAAATATTTT-AAAAACTATATATTATATATATTTTCAAAA
*
95088 TATTTTTTT
65 TA-TTTTTA
* * ** *
95097 AAAA-TATATAATATATATGTTTTCAAAATGTTTTTTTAAACTATATATTATATTTATTTTCAAA
1 AAAACCATAT-ATATATATGTTTTCAAAAT-ATTTTAAAAACTATATATTATATATATTTTCAAA
*
95161 AT-GTTTTA
64 ATATTTTTA
* * * * *
95169 AATACTTATAATATATAAATGTTTTCAAACATGTTTTCAAAACTATATATTATATATATATATTC
1 AAAAC-CAT-ATATATATATGTTTTCAAA-ATATTTTAAAAACTATATATTATATATAT-T-TTC
95234 AAAA
61 AAAA
95238 ACCACTTGCA
Statistics
Matches: 230, Mismatches: 26, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
67 14 0.06
68 29 0.13
69 22 0.10
70 23 0.10
71 22 0.10
72 22 0.10
73 19 0.08
74 67 0.29
75 5 0.02
76 7 0.03
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (72 bp):
AAAACCATATATATATATGTTTTCAAAATATTTTAAAAACTATATATTATATATATTTTCAAAAT
ATTTTTA
Found at i:95131 original size:35 final size:35
Alignment explanation
Indices: 94863--95225 Score: 193
Period size: 37 Copynumber: 10.2 Consensus size: 35
94853 ATTATATACT
* ***
94863 ATATATATGTTTTTAAAA-AAAATTAAAATCATAT-
1 ATATATATGTTTTCAAAATATTTTTAAAAT-ATATA
*
94897 A-ATATATGTCTTC-AAATAATATTTTAAAAT-TAT-
1 ATATATATGTTTTCAAAAT-AT-TTTTAAAATATATA
* *
94930 ATATATAT-TTTTCTAAAAATATTTTCAAAATCAAATA
1 ATATATATGTTTTC--AAAATATTTTTAAAAT-ATATA
* *
94967 TTATATA-GTTTTCAAAATATTTTAAAAACTATATA
1 ATATATATGTTTTCAAAATATTTTTAAAA-TATATA
* *
95002 TTATATACAT-TTTTCAAAATATTTTTAAAA-ACCAT-
1 --ATATATATGTTTTCAAAATATTTTTAAAATA-TATA
* * *
95037 ATATATATATTTTAAAAATATTTTCAGAAACTATAT-
1 ATATATATGTTTTCAAAATATTTTTA-AAA-TATATA
*
95073 -TATATA--TTTCCAAAATATTTTTTTAAAATATATA
1 ATATATATGTTTTCAAAATA--TTTTTAAAATATATA
* *
95107 ATATATATGTTTTCAAAATGTTTTTTTAAACTATATA
1 ATATATATGTTTTCAAAA--TATTTTTAAAATATATA
* * * *
95144 TTATATTTATTTTCAAAAT-GTTTT-AAATACTTATA
1 ATATATATGTTTTCAAAATATTTTTAAAATA--TATA
* *
95179 ATATATAAATGTTTTCAAACATGTTTTCAAAACTATATA
1 ATATAT--ATGTTTTCAAA-ATATTTTTAAAA-TATATA
*
95218 TTATATAT
1 ATATATAT
95226 ATATATTCAA
Statistics
Matches: 257, Mismatches: 36, Indels: 69
0.71 0.10 0.19
Matches are distributed among these distances:
32 3 0.01
33 43 0.17
34 38 0.15
35 58 0.23
36 11 0.04
37 84 0.33
38 2 0.01
39 13 0.05
40 3 0.01
41 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (35 bp):
ATATATATGTTTTCAAAATATTTTTAAAATATATA
Found at i:96486 original size:20 final size:19
Alignment explanation
Indices: 96435--96491 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
96425 AACCAATAAT
96435 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
96454 GATGAAAAAAAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
96475 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
96492 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 12 0.39
21 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:96805 original size:24 final size:25
Alignment explanation
Indices: 96778--96838 Score: 88
Period size: 24 Copynumber: 2.4 Consensus size: 25
96768 ACACAAAGGA
96778 AAATAAATAAAATATATA-ATAAAT
1 AAATAAATAAAATATATACATAAAT
*
96802 AAATAAATAAAATATATACATATAT
1 AAATAAATAAAATATATACATAAAT
96827 ACATATAAATAA
1 A-A-ATAAATAA
96839 TAAGGGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 18 0.55
25 6 0.18
26 1 0.03
27 8 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATAAATAAAATATATACATAAAT
Found at i:96811 original size:15 final size:15
Alignment explanation
Indices: 96684--96811 Score: 50
Period size: 15 Copynumber: 8.3 Consensus size: 15
96674 TAGTAATAAT
96684 AATAATAAATAAATGA
1 AATAATAAATAAAT-A
96700 AA-AATAAATATACATA
1 AATAATAAATA-A-ATA
* * *
96716 TAATATTAACTAAAAA
1 -AATAATAAATAAATA
* * * *
96732 AATAGTAATTATAGA
1 AATAATAAATAAATA
96747 AAT-ATAAA-ATAATA
1 AATAATAAATA-AATA
* **
96761 TAAT-ATAACACAAAGG
1 -AATAATAA-ATAAATA
96777 AA-AATAAATAAAATA
1 AATAATAAAT-AAATA
*
96792 TATAATAAATAAATA
1 AATAATAAATAAATA
96807 AATAA
1 AATAA
96812 AATATATACA
Statistics
Matches: 83, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
13 1 0.01
14 6 0.07
15 48 0.58
16 16 0.19
17 6 0.07
18 6 0.07
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:97326 original size:37 final size:37
Alignment explanation
Indices: 97233--97330 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 37
97223 ATGCTTGTGG
* * * *
97233 ATCCTATCTTTAGGAGTTTAAATAATAATAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAATAAAACTCT
*
97270 ATCCTATTTTTAGGAGTTTGAATCATAGA-AAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATA-ATAAAACTCT
97307 ATCCTATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTGAATC
97331 CTAGTAGGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAATAAAACTCT
Found at i:98268 original size:106 final size:106
Alignment explanation
Indices: 98087--99362 Score: 1987
Period size: 106 Copynumber: 12.0 Consensus size: 106
98077 GAATTGTTCC
* * * * *
98087 GAGTCCAATATCCTCCG-TCGTGAAGTCGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * ** *
98151 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTATTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * * * *
98193 GAGTCCAATATACTTTGTTGTCAAGTTGAAATTGGCTCCGAAATTGGAAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
98258 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
98299 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
98364 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
98405 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
98470 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
98511 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
98576 CCAGTGATCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
98617 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
98682 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
98723 GAGTCCAATATTCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
98788 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
98829 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
98894 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
98935 GAGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
99000 CCTGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
99041 GAGTCCAATATCATTCGCTTTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
99106 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
99147 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
99212 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
99253 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATTTGGGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
99318 CTAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
99359 GAGT
1 GAGT
99363 GGCACGATAT
Statistics
Matches: 1080, Mismatches: 89, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 1079 1.00
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:100333 original size:22 final size:22
Alignment explanation
Indices: 100307--100362 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
100297 TTGTGTTTGG
100307 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
100329 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
100351 TCAAAGGTTTGA
1 TCAAAGGTTTGA
100363 TGGGGTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:100984 original size:16 final size:16
Alignment explanation
Indices: 100955--101020 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
100945 TCCATATGCT
* *
100955 TTTTTGTCCCTTTTTC
1 TTTTTGTTCTTTTTTC
100971 TTTTTGTTC---TTT-
1 TTTTTGTTCTTTTTTC
100983 TTTTTGTTCTTTTTTGC
1 TTTTTGTTCTTTTTT-C
* *
101000 TTCTT-TTCTTTTTTG
1 TTTTTGTTCTTTTTTC
101015 TTTTTG
1 TTTTTG
101021 CCCTTTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
12 9 0.22
13 3 0.08
15 7 0.17
16 17 0.43
17 4 0.10
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTTGTTCTTTTTTC
Found at i:100985 original size:28 final size:28
Alignment explanation
Indices: 100954--101013 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
100944 TTCCATATGC
*
100954 TTTTTTGTCCCTTTTT-CTTTTTGTTCTT
1 TTTTTTGTCCCTTTTTGCTTCTT-TTCTT
* *
100982 TTTTTTGTTCTTTTTTGCTTCTTTTCTT
1 TTTTTTGTCCCTTTTTGCTTCTTTTCTT
101010 TTTT
1 TTTT
101014 GTTTTTGCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (28 bp):
TTTTTTGTCCCTTTTTGCTTCTTTTCTT
Found at i:100986 original size:12 final size:12
Alignment explanation
Indices: 100971--100997 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
100961 TCCCTTTTTC
100971 TTTTTGTTCTTT
1 TTTTTGTTCTTT
100983 TTTTTGTTCTTT
1 TTTTTGTTCTTT
100995 TTT
1 TTT
100998 GCTTCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTGTTCTTT
Found at i:101003 original size:23 final size:22
Alignment explanation
Indices: 100965--101019 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
100955 TTTTTGTCCC
100965 TTTTTC-TTTTTGTTCTTTT-T
1 TTTTTCTTTTTTGTTCTTTTCT
100985 TTTGTTCTTTTTTGCTTCTTTTCT
1 TTT-TTCTTTTTTG-TTCTTTTCT
*
101009 TTTTTGTTTTT
1 TTTTTCTTTTT
101020 GCCCTTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 6 0.20
23 14 0.47
24 4 0.13
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTTGTTCTTTTCT
Found at i:105600 original size:20 final size:19
Alignment explanation
Indices: 105550--105605 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
105540 AACCAATAAT
105550 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
105569 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
105589 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
105606 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:105719 original size:22 final size:19
Alignment explanation
Indices: 105687--105786 Score: 66
Period size: 21 Copynumber: 5.1 Consensus size: 19
105677 GCAAAGAAAC
*
105687 TAAAAATATAATGAAAATAAA
1 TAAATATATAAT-AAAAT-AA
105708 TAAATAGTATAAATAAAATAA
1 TAAATA-TAT-AATAAAATAA
*
105729 TAAATATAT-AT-ATATAAA
1 TAAATATATAATAAAAT-AA
*
105747 TAAA-ATATAA-AAAAT-G
1 TAAATATATAATAAAATAA
105763 TAAATAGTAATAATAATAATAA
1 TAAATA-T-ATAATAA-AATAA
105785 TA
1 TA
105787 TGAAAAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
16 4 0.06
17 8 0.13
18 13 0.21
19 4 0.06
20 5 0.08
21 16 0.25
22 10 0.16
23 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
TAAATATATAATAAAATAA
Found at i:105756 original size:25 final size:25
Alignment explanation
Indices: 105702--105761 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
105692 ATATAATGAA
105702 AATAAATAAATAGTATAAATAAAAT
1 AATAAATAAATAGTATAAATAAAAT
105727 AATAAATATATATA-TATAAATAAAAT
1 AATAAATA-A-ATAGTATAAATAAAAT
105753 -ATAAA-AAAT
1 AATAAATAAAT
105762 GTAAATAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 1 0.03
25 13 0.39
26 13 0.39
27 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAAATAAATAGTATAAATAAAAT
Found at i:105761 original size:35 final size:34
Alignment explanation
Indices: 105702--105796 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 34
105692 ATATAATGAA
105702 AATAAATAAATAGTATAAATAAAATAATAAATA-TATAT
1 AATAAATAAA-A-TAT-AA-AAAATAATAAATAGTA-AT
*
105740 ATATAAATAAAATATAAAAAAT-GTAAATAGTAAT
1 A-ATAAATAAAATATAAAAAATAATAAATAGTAAT
*
105774 AAT-AATAATAATATGAAAAATAA
1 AATAAATAA-AATATAAAAAATAA
105797 ATATACATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
32 5 0.10
33 13 0.26
34 9 0.18
35 7 0.14
36 2 0.04
37 3 0.06
38 2 0.04
39 9 0.18
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (34 bp):
AATAAATAAAATATAAAAAATAATAAATAGTAAT
Found at i:105799 original size:22 final size:22
Alignment explanation
Indices: 105774--105850 Score: 52
Period size: 24 Copynumber: 3.5 Consensus size: 22
105764 AAATAGTAAT
105774 AATAATAATAATATGAAAAATA
1 AATAATAATAATATGAAAAATA
* * *
105796 AATATACATATAATATTAACTAA-A
1 AATA-ATA-ATAATATGAA-AAATA
* * *
105820 AATAGTAATCATA-GAAATATA
1 AATAATAATAATATGAAAAATA
105841 AATAA-AATAA
1 AATAATAATAA
105851 AGTAAGAATA
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
20 5 0.12
21 7 0.17
22 9 0.22
23 3 0.08
24 14 0.35
25 2 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
AATAATAATAATATGAAAAATA
Found at i:105901 original size:14 final size:14
Alignment explanation
Indices: 105879--105927 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 14
105869 TAACGTTAGG
*
105879 AAAATATAGTAAAA
1 AAAACATAGTAAAA
105893 AAAACATAGTAAATAA
1 AAAACATAGT-AA-AA
105909 ATAAACATAGATAAAA
1 A-AAACATAG-TAAAA
105925 AAA
1 AAA
105928 TAATAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.30
15 4 0.13
16 6 0.20
17 10 0.33
18 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAACATAGTAAAA
Found at i:105916 original size:17 final size:18
Alignment explanation
Indices: 105889--105930 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
105879 AAAATATAGT
105889 AAAAA-AAACATAG-TAA
1 AAAAATAAACATAGATAA
*
105905 ATAAATAAACATAGATAA
1 AAAAATAAACATAGATAA
105923 AAAAATAA
1 AAAAATAA
105931 TAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAATAAACATAGATAA
Found at i:106523 original size:37 final size:37
Alignment explanation
Indices: 106430--106531 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
106420 ATGTTTGTGG
* * ** * *
106430 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
106467 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
106504 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
106532 TAGGACAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:114000 original size:21 final size:20
Alignment explanation
Indices: 113969--114017 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
113959 TATACTTGAA
113969 AAAAAACAAAAGAAAAAAAGG
1 AAAAAA-AAAAGAAAAAAAGG
*
113990 AGAAAAAAAAAGGAAAAAAGG
1 A-AAAAAAAAAGAAAAAAAGG
114011 AAAAAAA
1 AAAAAAA
114018 TTGAACCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAAAGG
Found at i:116401 original size:114 final size:114
Alignment explanation
Indices: 116200--116423 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
116190 GTGCCACGTT
116200 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
116265 GTTTGGTATGAACCCCAAAACCAATCATT-AAATTTAAAAGATGAATTTG
66 GTTCGGTATGAACCCCAAAACCAATCATTGAAA-TTAAAAGATGAATTTG
116314 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
116379 GTTCGGTA-GAAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 GTTCGGTATG-AACCCCAAAACCAATCATTGAAATTAAAAGATGAA
116424 CTGCATGATC
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
113 1 0.01
114 102 0.97
115 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTCGGTATGAACCCCAAAACCAATCATTGAAATTAAAAGATGAATTTG
Found at i:117606 original size:44 final size:45
Alignment explanation
Indices: 117520--117606 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
117510 ACAAGAATTG
*
117520 AATGTTGGAGCATGCTGAAAACCTTTTTTTCAATCAGAATCAGCAA
1 AATGATGGAGCATGCTGAAAACC-TTTTTTCAATCAGAATCAGCAA
* *
117566 AATGATGGGGCATGCTGAAAGCC-TTTTTCAATCAGAATCAG
1 AATGATGGAGCATGCTGAAAACCTTTTTTCAATCAGAATCAG
117607 TAATATCCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 18 0.47
46 20 0.53
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
AATGATGGAGCATGCTGAAAACCTTTTTTCAATCAGAATCAGCAA
Found at i:118982 original size:22 final size:22
Alignment explanation
Indices: 118938--118992 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
118928 ATCTACACTC
*
118938 TTCAAAGATGATAGATTTCCTT
1 TTCAAAGATGACAGATTTCCTT
*
118960 TTTAAAGATGACAGA-TTCTCTT
1 TTCAAAGATGACAGATTTC-CTT
*
118982 TTCAAATATGA
1 TTCAAAGATGA
118993 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGACAGATTTCCTT
Found at i:119596 original size:110 final size:113
Alignment explanation
Indices: 119400--119689 Score: 342
Period size: 110 Copynumber: 2.6 Consensus size: 113
119390 GATTCAAATC
* * *
119400 CATCACTTGATGGATCAACATTTCCAGTTAGAGTTCATAATGTGAAGAACTCATATGAAGAAGGA
1 CATCACTTGATGGATCAACATTGCCAGTAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
119465 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
* * *
119513 CATCA-TTCGATGGATCAACGTTGCCAG-AAG-GTTCATAATGAGAAGAACTTATCTGAAG-AGG
1 CATCACTT-GATGGATCAACATTGCCAGTAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGG
* * * *
119574 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTTG-ACT
65 AAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
** * * * * * * *
119622 CTAT-AGATCAT-CATTAACATTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
1 C-ATCACTTGATGGATCAACATTGCCAGTAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGG
119685 AAGAA
65 AAGAA
119690 CTTATTCAAC
Statistics
Matches: 152, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
108 11 0.07
109 8 0.05
110 75 0.49
111 32 0.21
112 4 0.03
113 22 0.14
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCACTTGATGGATCAACATTGCCAGTAAGAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCGAATT
Found at i:119862 original size:113 final size:113
Alignment explanation
Indices: 119683--120460 Score: 1144
Period size: 113 Copynumber: 6.9 Consensus size: 113
119673 ATCTGAAGAA
* * * * * * * *
119683 AGAAGAACTTATTCAACTTTTTGATTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
* *
119748 TCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATA
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
119796 AGAAGAGCTTGTTTAACCTTTTGCTCGAATCCATCACTCGATGGATCAGTTTTTCCAAAGAAAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
* *
119861 TCATAATAAGAAGAACTCAACTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
119909 AGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
*
119974 TCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
120022 AGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTTCAGAGATAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
*
120087 TCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
120135 AGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
120200 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
** * * * * * * * *
120248 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTCGATGGATCATCATTACCAG-GTAGAG
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAG-ATAG
*
120312 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATG
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * * * * *
120361 AGAAAAACTTGTTCAACTTTTTGCTTGAATTCGTCACTTGATGGATCAACATTTCCAGAGAGAGT
1 AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
*
120426 TCATAATGAGAAGAACTCATCTGAAGAATGAAGAA
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
120461 CTTGCTCAAT
Statistics
Matches: 618, Mismatches: 45, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
112 1 0.00
113 616 1.00
114 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (113 bp):
AGAAGAGCTTGTTCAACCTTTTGCTCGAATCCATCACTCGATGGATCAGCTTTTCCAGAGATAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:120864 original size:19 final size:18
Alignment explanation
Indices: 120842--120890 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
120832 ATTATTTTAA
* *
120842 TATTATTATTATATTATAT
1 TATTATTATTAAATAAT-T
*
120861 TATTATTAAATAAATAATT
1 TATTATT-ATTAAATAATT
120880 TATTATTATTA
1 TATTATTATTA
120891 CAGGCCCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTATTATTAAATAATT
Found at i:120888 original size:3 final size:3
Alignment explanation
Indices: 120809--120868 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
120799 TTGTTTTTAT
* * *
120809 TTA TTA TTA TTG TT- TTT TTA TATA TTA TT- TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
120853 -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
120869 AATAAATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 8 0.17
3 37 0.77
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:122136 original size:21 final size:20
Alignment explanation
Indices: 122107--122146 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
122097 TTATTTATAG
122107 TTTTAATTTCATTATTATTT
1 TTTTAATTTCATTATTATTT
*
122127 TTTTATATTTTATTATTATT
1 TTTTA-ATTTCATTATTATT
122147 ATTATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTAATTTCATTATTATTT
Found at i:123586 original size:12 final size:12
Alignment explanation
Indices: 123569--123594 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
123559 GTTTGAACTA
123569 GAGTTCGAGTTT
1 GAGTTCGAGTTT
123581 GAGTTCGAGTTT
1 GAGTTCGAGTTT
123593 GA
1 GA
123595 ACCGATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.35, T:0.38
Consensus pattern (12 bp):
GAGTTCGAGTTT
Found at i:132682 original size:7 final size:7
Alignment explanation
Indices: 132672--132721 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
132662 TGTCCATTGT
132672 GGAAGCA
1 GGAAGCA
132679 GGAAGCA
1 GGAAGCA
132686 GGAAGCA
1 GGAAGCA
*
132693 GCAAGCA
1 GGAAGCA
132700 GGAAGCA
1 GGAAGCA
132707 GGAAGCA
1 GGAAGCA
132714 GGAAGCA
1 GGAAGCA
132721 G
1 G
132722 CAAATTTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.42, C:0.16, G:0.42, T:0.00
Consensus pattern (7 bp):
GGAAGCA
Found at i:138239 original size:6 final size:6
Alignment explanation
Indices: 138228--138503 Score: 501
Period size: 6 Copynumber: 47.0 Consensus size: 6
138218 AAGCCACCTC
138228 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
138276 TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
138321 -ATACA TATACA TATACA CATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
138366 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
138414 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
138462 TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA
138504 GACATCATCA
Statistics
Matches: 262, Mismatches: 2, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
4 12 0.05
6 250 0.95
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:140101 original size:11 final size:11
Alignment explanation
Indices: 140087--140142 Score: 52
Period size: 9 Copynumber: 5.5 Consensus size: 11
140077 GAACCGGAAG
140087 AACCGGCTGAA
1 AACCGGCTGAA
140098 AACCGG--GAA
1 AACCGGCTGAA
*
140107 AACCAGGGTG--
1 AACC-GGCTGAA
140117 AACCGGCTGAA
1 AACCGGCTGAA
140128 AACCGGC--AA
1 AACCGGCTGAA
140137 AACCGG
1 AACCGG
140143 TTTGAACCGC
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
9 19 0.49
10 6 0.15
11 13 0.33
12 1 0.03
ACGTcount: A:0.38, C:0.27, G:0.30, T:0.05
Consensus pattern (11 bp):
AACCGGCTGAA
Found at i:140369 original size:24 final size:25
Alignment explanation
Indices: 140333--140379 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
140323 GAACTCAAAA
*
140333 AAAATTAGAAGTTCGATTGAAGCCT
1 AAAATTAGAAGTTCAATTGAAGCCT
*
140358 AAAATTTG-AGTTCAATTGAAGC
1 AAAATTAGAAGTTCAATTGAAGC
140380 GAAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (25 bp):
AAAATTAGAAGTTCAATTGAAGCCT
Found at i:140902 original size:10 final size:10
Alignment explanation
Indices: 140887--140916 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
140877 GGTTCAACTG
140887 CGGTTGAACC
1 CGGTTGAACC
140897 CGGTTGAACC
1 CGGTTGAACC
140907 CGGTTGAACC
1 CGGTTGAACC
140917 AGTGAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (10 bp):
CGGTTGAACC
Found at i:147700 original size:17 final size:17
Alignment explanation
Indices: 147680--147728 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
147670 ATAATTATAT
*
147680 TTTACCAATAAAGCCAC
1 TTTATCAATAAAGCCAC
* *
147697 TTTATCAATAAAGTCGC
1 TTTATCAATAAAGCCAC
147714 TTTATCAATAAAGCC
1 TTTATCAATAAAGCC
147729 GCAATAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (17 bp):
TTTATCAATAAAGCCAC
Found at i:157376 original size:13 final size:13
Alignment explanation
Indices: 157358--157382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157348 AACTTCCCTA
157358 CAAAAACAAAAAT
1 CAAAAACAAAAAT
157371 CAAAAACAAAAA
1 CAAAAACAAAAA
157383 GTCTTGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.16, G:0.00, T:0.04
Consensus pattern (13 bp):
CAAAAACAAAAAT
Found at i:158916 original size:17 final size:18
Alignment explanation
Indices: 158894--158930 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
158884 TATTAACTAA
158894 AAATTATTT-AAAAATTT
1 AAATTATTTGAAAAATTT
*
158911 AAATTATTTGATAAATTT
1 AAATTATTTGAAAAATTT
158929 AA
1 AA
158931 TGAGTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATTATTTGAAAAATTT
Found at i:158979 original size:37 final size:31
Alignment explanation
Indices: 158910--158973 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
158900 TTTAAAAATT
158910 TAAATTATTTGATAAATTTAATGAGTATATA
1 TAAATTATTTGATAAATTTAATGAGTATATA
*
158941 TAAATTATTTGATAAATTTAATGAGAATATA
1 TAAATTATTTGATAAATTTAATGAGTATATA
158972 TA
1 TA
158974 TATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (31 bp):
TAAATTATTTGATAAATTTAATGAGTATATA
Found at i:159156 original size:2 final size:2
Alignment explanation
Indices: 159145--159229 Score: 163
Period size: 2 Copynumber: 43.0 Consensus size: 2
159135 GTATTATCTA
159145 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159186 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
159228 AT
1 AT
159230 TTGTTAACTT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 81 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:175163 original size:21 final size:21
Alignment explanation
Indices: 175137--175201 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
175127 CGGAGTGTGG
*
175137 CGGCGGACGGTGGTCGGAAGA
1 CGGCGGACGGTGGTCGGAGGA
175158 CGGCGGACGGTGGTCGGAGGA
1 CGGCGGACGGTGGTCGGAGGA
*
175179 CGACGGACGGTGGTCGGAGGA
1 CGGCGGACGGTGGTCGGAGGA
175200 CG
1 CG
175202 ACAAGCGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.17, C:0.20, G:0.54, T:0.09
Consensus pattern (21 bp):
CGGCGGACGGTGGTCGGAGGA
Found at i:177131 original size:20 final size:20
Alignment explanation
Indices: 177108--177149 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
177098 TTGTTTAGTT
* *
177108 TTTAAATTGTTCATATTTTG
1 TTTAAATTGTTAATATTGTG
*
177128 TTTAAATTTTTAATATTGTG
1 TTTAAATTGTTAATATTGTG
177148 TT
1 TT
177150 CAACAGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTAAATTGTTAATATTGTG
Found at i:177210 original size:30 final size:29
Alignment explanation
Indices: 177166--177223 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
177156 GGTTGGAGTT
*
177166 AGAAAAATTATTTTGGGTGTTAAATTTAG
1 AGAAAAATTATTTTGGGTGTCAAATTTAG
*
177195 AGAAAATTTAATTTTGGGTGTCAAATTTA
1 AGAAAAATT-ATTTTGGGTGTCAAATTTA
177224 TAAAATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (29 bp):
AGAAAAATTATTTTGGGTGTCAAATTTAG
Found at i:178761 original size:21 final size:19
Alignment explanation
Indices: 178708--178745 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
178698 TGATTCAATC
178708 AGTATCGATACCGATGATGT
1 AGTATCGATACC-ATGATGT
*
178728 AGTATCAATACCATGATG
1 AGTATCGATACCATGATG
178746 AGGGGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (19 bp):
AGTATCGATACCATGATGT
Found at i:178923 original size:95 final size:95
Alignment explanation
Indices: 178748--178923 Score: 221
Period size: 95 Copynumber: 1.9 Consensus size: 95
178738 CCATGATGAG
* * * * * *
178748 GGGTATCGATACCACGGAACATCGAATCTAATTTTGGTATCGATATCGGTAAGGGGTATCGGTAC
1 GGGTATCGATACCACGGAACATCGAACCTAATTTTGGTATCAATACCCGTAAGAGGTATCGATAC
* * *
178813 CATATTAGGGTAGTATTGATACCATGGTAA
66 CATAGTAGAGAAGTATTGATACCATGGTAA
*
178843 GGGTATCGATACCA-GGCAACATCGAACCTATTTTTGGTATCAATACCCG-AATGAGGTATCGAT
1 GGGTATCGATACCACGG-AACATCGAACCTAATTTTGGTATCAATACCCGTAA-GAGGTATCGAT
*
178906 ACCATAGTATAGAAGTAT
64 ACCATAGTAGAGAAGTAT
178924 CGGTACTAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 4 0.06
95 64 0.94
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (95 bp):
GGGTATCGATACCACGGAACATCGAACCTAATTTTGGTATCAATACCCGTAAGAGGTATCGATAC
CATAGTAGAGAAGTATTGATACCATGGTAA
Found at i:179360 original size:56 final size:56
Alignment explanation
Indices: 179270--180287 Score: 1435
Period size: 56 Copynumber: 18.3 Consensus size: 56
179260 ATTACCAAAT
* * ***
179270 AGGCACTATGTGTGCAAAACCACGGAATTGATCATGAGTTGATGAATAATAATACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
*
179326 GGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* * * * * *
179382 TGACACTATGTGTACAAAACCACGGAATTCATCACGAGTTGATGAATAACAGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179438 GGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGTTGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179494 AGGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCGTA-T
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179549 A-G-A-GATGTGTGCAAAACCA-AGAAATTCATCATGAGTTGATGAATAACCGTATA
1 AGGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTTGATGAATAACCGTACA
* * **
179602 AGGCACTATGTGTGCAAAATCGCAGAATTCATCATGAGTTGATGAATAATTGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179658 GGGAACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* * * * *
179714 GGGAACTATGTGTGCAAATCCACGGAATTCATCATGACTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
*
179770 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCATACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179826 AGGCACTATATGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179882 TA-GCATTATGTGTGCAAAACCAC-GAAATTCATCATGAGTTGATGAATAACCGTATA
1 -AGGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTTGATGAATAACCGTACA
* *
179938 AGGCACTATGTGTGCAAAACCGCAGAATTCATCATGAGTTGATGAATAATCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
179994 GGGCACTATGTATGCAAAACCACA-AATTCATCATGAGTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* * * * * *
180049 GGGCACTATTTGTGCAAATCCACGGAATTCGTCATGACTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* * *
180105 AGGCATTATGTGTGAAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
180161 AGGCACTATGTGTGCAAAACCACAAAATTCATCATGAGTTGATGAATAACCATACA
1 AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* * * *
180217 AGGCACTATGTGT-AAAAATCCACAAAATTCATCATGACTTGATGAATAACCGTATA
1 AGGCACTATGTGTGCAAAA-CCACAGAATTCATCATGAGTTGATGAATAACCGTACA
* *
180273 A-GAACTATGGGTGCA
1 AGGCACTATGTGTGCA
180288 TCTTAATAAA
Statistics
Matches: 862, Mismatches: 87, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
51 1 0.00
52 44 0.05
53 2 0.00
54 2 0.00
55 66 0.08
56 743 0.86
57 4 0.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (56 bp):
AGGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACA
Found at i:187551 original size:21 final size:21
Alignment explanation
Indices: 187525--187640 Score: 67
Period size: 21 Copynumber: 5.3 Consensus size: 21
187515 GTCGAGGGTT
187525 TTATGTGGTACTTCGGGACAA
1 TTATGTGGTACTTCGGGACAA
*
187546 TTATGTGGT-CATTCGGGATAA
1 TTATGTGGTAC-TTCGGGACAA
* ** * *
187567 ATATGTGACACTTTGATG-CAAA
1 TTATGTGGTACTTCG-GGAC-AA
*
187589 CCTATGTGGTACTTCGGTG-CAAA
1 -TTATGTGGTACTTCGG-GAC-AA
* *
187612 CCTATGTGGTCCTTCGGGACAA
1 -TTATGTGGTACTTCGGGACAA
187634 TTATGTG
1 TTATGTG
187641 ACACTTTGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 33 0.45
22 7 0.09
23 33 0.45
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (21 bp):
TTATGTGGTACTTCGGGACAA
Found at i:187602 original size:23 final size:23
Alignment explanation
Indices: 187576--187627 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
187566 AATATGTGAC
*
187576 ACTTTGATGCAAACCTATGTGGT
1 ACTTCGATGCAAACCTATGTGGT
*
187599 ACTTCGGTGCAAACCTATGTGGT
1 ACTTCGATGCAAACCTATGTGGT
*
187622 CCTTCG
1 ACTTCG
187628 GGACAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
ACTTCGATGCAAACCTATGTGGT
Found at i:187628 original size:23 final size:23
Alignment explanation
Indices: 187583--187628 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
187573 GACACTTTGA
187583 TGCAAACCTATGTGGTACTTCGG
1 TGCAAACCTATGTGGTACTTCGG
*
187606 TGCAAACCTATGTGGTCCTTCGG
1 TGCAAACCTATGTGGTACTTCGG
187629 GACAATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (23 bp):
TGCAAACCTATGTGGTACTTCGG
Found at i:187639 original size:67 final size:65
Alignment explanation
Indices: 187526--187655 Score: 190
Period size: 67 Copynumber: 2.0 Consensus size: 65
187516 TCGAGGGTTT
* *
187526 TATGTGGTACTTCGGGACAATTATGTGGTCATTCGGGATAAATATGTGACACTTTGATGCAAACC
1 TATGTGGTACTTCGGGACAACTATGTGGTCATTCGGGACAAATATGTGACACTTTGATGCAAACC
* *
187591 TATGTGGTACTTCGGTG-CAAACCTATGTGGTCCTTCGGGACAATTATGTGACACTTTGATGCAA
1 TATGTGGTACTTCGG-GAC-AA-CTATGTGGTCATTCGGGACAAATATGTGACACTTTGATGCAA
187655 A
63 A
187656 TTACGAGCTG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
65 16 0.28
66 3 0.05
67 39 0.67
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (65 bp):
TATGTGGTACTTCGGGACAACTATGTGGTCATTCGGGACAAATATGTGACACTTTGATGCAAACC
Found at i:209477 original size:21 final size:21
Alignment explanation
Indices: 209451--209490 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
209441 CCCCCTTTGA
*
209451 AGGGGAACCGATTCCCCCCAT
1 AGGGGAACCGATACCCCCCAT
*
209472 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
209491 TGGGGTTCTG
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:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAT
Found at i:211143 original size:12 final size:12
Alignment explanation
Indices: 211126--211151 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
211116 TGAGCCTGAA
211126 CAGCCCGAGGAG
1 CAGCCCGAGGAG
211138 CAGCCCGAGGAG
1 CAGCCCGAGGAG
211150 CA
1 CA
211152 ATCACAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.38, T:0.00
Consensus pattern (12 bp):
CAGCCCGAGGAG
Done.