Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 2 of 11
Found at i:156520 original size:13 final size:13
Alignment explanation
Indices: 156502--156527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
156492 CAATTTTTTG
156502 TGTATCGATACAT
1 TGTATCGATACAT
156515 TGTATCGATACAT
1 TGTATCGATACAT
156528 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:156539 original size:32 final size:33
Alignment explanation
Indices: 156482--156545 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
156472 TACAAGCCAA
** *
156482 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCAATACAT
156515 TGTATCGATAC-ATACTTTGTGTATCAATACA
1 TGTATCGATACAATACTTTGTGTATCAATACA
156546 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCAATACAT
Found at i:157288 original size:21 final size:21
Alignment explanation
Indices: 157247--157290 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
157237 CTCCCCTTTA
* *
157247 TCTCCCCCTTTTATTAATAAT
1 TCTCCCCCTTTAATCAATAAT
157268 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCTTTAATCAA-TAAT
157289 TC
1 TC
157291 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (21 bp):
TCTCCCCCTTTAATCAATAAT
Found at i:159106 original size:13 final size:13
Alignment explanation
Indices: 159088--159126 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
159078 ATAATCCCCC
*
159088 TGTATCGATACAG
1 TGTATCGATACAA
159101 TGTATCGATACAA
1 TGTATCGATACAA
159114 TGTATCGATACAA
1 TGTATCGATACAA
159127 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:161226 original size:15 final size:15
Alignment explanation
Indices: 161206--161237 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
161196 ATTTCGTTTG
*
161206 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
161221 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
161236 GA
1 GA
161238 ACACTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:165316 original size:13 final size:13
Alignment explanation
Indices: 165298--165323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
165288 CAATTTTTTG
165298 TGTATCGATACAT
1 TGTATCGATACAT
165311 TGTATCGATACAT
1 TGTATCGATACAT
165324 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:165335 original size:32 final size:33
Alignment explanation
Indices: 165278--165341 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
165268 TACAAGCCAA
**
165278 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
165311 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
165342 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:168947 original size:13 final size:13
Alignment explanation
Indices: 168929--168954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
168919 ACACCAAAGT
168929 ATGTATCGATACA
1 ATGTATCGATACA
168942 ATGTATCGATACA
1 ATGTATCGATACA
168955 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:168952 original size:33 final size:33
Alignment explanation
Indices: 168910--168974 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
168900 TAGCCAAACT
* *
168910 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
168943 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
168975 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:169958 original size:34 final size:35
Alignment explanation
Indices: 169920--169986 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
169910 CCTTACAACA
169920 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
169954 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
169987 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:170483 original size:13 final size:13
Alignment explanation
Indices: 170465--170490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
170455 CTATTTATGA
170465 TGTATCGATACAC
1 TGTATCGATACAC
170478 TGTATCGATACAC
1 TGTATCGATACAC
170491 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:170635 original size:22 final size:22
Alignment explanation
Indices: 170580--170635 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
170570 ACAATGACCT
170580 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
170602 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
170623 ATGAACAGTGATG
1 ATGAACAGTGATG
170636 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:170642 original size:10 final size:10
Alignment explanation
Indices: 170623--170653 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
170613 GTATCGATAC
170623 ATGAACAGTG
1 ATGAACAGTG
*
170633 ATGAATAGTG
1 ATGAACAGTG
170643 ATGAACAGTG
1 ATGAACAGTG
170653 A
1 A
170654 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:170741 original size:53 final size:53
Alignment explanation
Indices: 170677--170813 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
170667 CTACTTCCAA
170677 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
170730 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
170783 TGTATCGATACATATTTGTGTGTATTGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
170814 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 67 0.85
54 12 0.15
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:170919 original size:21 final size:21
Alignment explanation
Indices: 170893--170933 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
170883 GTCAACCTTG
170893 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
170914 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
170934 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:172493 original size:13 final size:13
Alignment explanation
Indices: 172475--172504 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
172465 CATACTGAAG
172475 CAATGTATCGATA
1 CAATGTATCGATA
172488 CAATGTATCGATA
1 CAATGTATCGATA
172501 CAAT
1 CAAT
172505 CTGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:175691 original size:34 final size:35
Alignment explanation
Indices: 175653--175719 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
175643 CCTTACAACA
175653 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
175687 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
175720 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:176196 original size:13 final size:13
Alignment explanation
Indices: 176178--176203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
176168 TGAACAGTGA
176178 TGTATCGATACAC
1 TGTATCGATACAC
176191 TGTATCGATACAC
1 TGTATCGATACAC
176204 ACAAATATGT
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:176348 original size:22 final size:22
Alignment explanation
Indices: 176293--176348 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
176283 ACAATGACCT
176293 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
176315 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
176336 ATGAACAGTGATG
1 ATGAACAGTGATG
176349 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:176355 original size:10 final size:10
Alignment explanation
Indices: 176336--176366 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
176326 GTATCGATAC
176336 ATGAACAGTG
1 ATGAACAGTG
*
176346 ATGAATAGTG
1 ATGAACAGTG
176356 ATGAACAGTG
1 ATGAACAGTG
176366 A
1 A
176367 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:176453 original size:53 final size:54
Alignment explanation
Indices: 176390--176507 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 54
176380 CTACTTCCAA
176390 TGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACATA-TTGTG
1 TGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACATATTTGTG
*
176443 TGTATCGATACAAATTTGGCTACTGCCAATGTCCTGTATCGATACATATTTGTG
1 TGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACATATTTGTG
*
176497 TGTATTGATAC
1 TGTATCGATAC
176508 TATGCAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 47 0.76
54 15 0.24
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (54 bp):
TGTATCGATACAAATTTGGCTACTGCCAATGACCTGTATCGATACATATTTGTG
Found at i:176613 original size:21 final size:21
Alignment explanation
Indices: 176587--176627 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
176577 GTCAACCTTG
176587 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATATGTATA
*
176608 TGTATTGATACAATATGTAT
1 TGTATTAATACAATATGTAT
176628 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTAATACAATATGTATA
Found at i:179499 original size:312 final size:310
Alignment explanation
Indices: 179029--179903 Score: 940
Period size: 312 Copynumber: 2.8 Consensus size: 310
179019 CTTAAACATA
* * * *
179029 AAAGTATCCCGATAACCCTAAAAGACTTAAAAGGACTACAAAAGGGGTGAACCTATCCTAAATAC
1 AAAG-ATCTCGATAACCCTAAAGGACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATAC
* * * ** * * * * *
179094 CCACCTTCGGCAGAAAAGTGAACATGGTGATGACCTAGGAGTTGGTTCTAAAATTTATGAAAACA
65 CCACCTTCGGCATAAAAGCGAACACGGTGACAACCTAGGACTTGATTTTAAAAATTATGAAAACG
* ** * ** * * ** *
179159 CTCCTACAAGTATATCTTCGACGTAAAAGTATCCCGGCAACCCTAAAAGACTTAAAAATACTCAT
130 CCCCTAGGAG-ATACCTTCGACGTAAAAGTATCTTGGTACCCCTAATGGACTTAAAAAAACTCAT
* ** * * * *
179224 AAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGAACTCGGTGATGACTTAG
194 AAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCGATGATAACCTAG
* ** *
179289 GTGTTAG-TCTT-AAAAATTATGAAAAT-GCCCAAATGG-GTATACCTTCGACGTG
259 G-ATTAGATCTTGAAAAATTACAAAAATAACCC-AA-GGAG-ATACCTTCGACGTG
* *
179341 AAAGTATCTTGGTAACCCTAAAGGACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATAC
1 AAAG-ATCTCGATAACCCTAAAGGACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATAC
* * *
179406 CCACCTTCGGCATAAAAGCAAACCCGGTGACAACCTAGGACTCGATTTTAAAAAATTATGAAAAC
65 CCACCTTCGGCATAAAAGCGAACACGGTGACAACCTAGGACTTGATTTT-AAAAATTATGAAAAC
* *
179471 GCCCCTAGGAGATACCTTCGATGTAAAAGTATCTTAGTACCCCTAATGGACTTAAAAAGAACT-A
129 GCCCCTAGGAGATACCTTCGACGTAAAAGTATCTTGGTACCCCTAATGGACTTAAAAA-AACTCA
* *
179535 T-AAAA-GGAAGTAGACCTATCCTAAATACCCACCTTTGGCATAAAAGCGGACCCGATGATAACC
193 TAAAAAGGGATG-A-ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCGATGATAACC
* * * *
179598 TAGGATTCGATTTTGAAAAATTACAAAAATAACCCTAGGAGATACCTTCGATGTG
256 TAGGATTAGATCTTGAAAAATTACAAAAATAACCCAAGGAGATACCTTCGACGTG
* * * * *
179653 AAAGATCTCGATATCCCTAATGGATTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATA
1 AAAGATCTCGATAACCCTAAAGGACTT-AAAAGGACTATAAAA-GAGGTGAACCTATCCTAAATA
* * * *
179718 CCCATCTTCAGCATAAAAGCGAACTCGGTGACAACTTAGGACTTGATTTTGAAAAATTATGAAAA
64 CCCACCTTCGGCATAAAAGCGAACACGGTGACAACCTAGGACTTGATTTT-AAAAATTATGAAAA
* * * * * *
179783 TGCCCTTAGGTGATACCTTCAACGTGAAAGTATCTTGGTACCCCTAATGGACTTAAAAAGAAC-A
128 CGCCCCTAGGAGATACCTTCGACGTAAAAGTATCTTGGTACCCCTAATGGACTTAAAAA-AACTC
* * * *
179847 AT-AAAAGGAATGAACCTATACTAAATACCCACTTTTGGCATAAAAGCGGACCCGATG
192 ATAAAAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCGATG
179904 GTTACTTAGG
Statistics
Matches: 477, Mismatches: 74, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
310 4 0.01
311 26 0.05
312 261 0.55
313 180 0.38
314 6 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (310 bp):
AAAGATCTCGATAACCCTAAAGGACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATACC
CACCTTCGGCATAAAAGCGAACACGGTGACAACCTAGGACTTGATTTTAAAAATTATGAAAACGC
CCCTAGGAGATACCTTCGACGTAAAAGTATCTTGGTACCCCTAATGGACTTAAAAAAACTCATAA
AAAGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCGATGATAACCTAGGA
TTAGATCTTGAAAAATTACAAAAATAACCCAAGGAGATACCTTCGACGTG
Found at i:179738 original size:156 final size:156
Alignment explanation
Indices: 178833--179903 Score: 789
Period size: 156 Copynumber: 6.9 Consensus size: 156
178823 CTAAGTTCAA
** * * ** * *
178833 AAAAATTACAAAAATACCCCTAGGGGATACCTTCGATGT-AGAAGTA-CCCGATACCCCTAAAGA
1 AAAAATTATGAAAATA-CCCTAGGAGATACCTTCGACGTGA-AAGTATCTTGATACCCCTAATGG
* * ** ** * *
178896 ACTTAAAAAGGATTCCAAATAGG-A-TGAACCTATCCTAAATATGCACGTTCGACATAAAAGC-A
64 ACTTAAAAAGAACTATAAA-AGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGA
* * * * * * * *
178958 GATCTGGTGACAACCTAAGACTCGGTTCTA
128 -ACCCGATGACAACCTAGGATTCGATTTTG
** ** * ** * * ** * **
178988 AAAAATTACCAAAATACCCCTATAAATATACCTTAAACATAAAAGTATCCCGATAACCCTAAAAG
1 AAAAATTATGAAAATA-CCCTA-GGAGATACCTTCGACGTGAAAGTATCTTGATACCCCTAATGG
* * * * *
179053 ACTT-AAAAGGACTACAAAAGG-GGTGAACCTATCCTAAATACCCACCTTCGGCAGAAAAGTGAA
64 ACTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAA
** * ** * *
179116 CATGGTGATGACCTAGGAGTT-GGTTCT-
129 CCCGATGACAACCTAGGA-TTCGATTTTG
* * ** * * ** ** * **
179143 AAAATTTATGAAAACACTCCTACAAGTATATCTTCGACGTAAAAGTATCCCGGCAACCCTAAAAG
1 AAAAATTATGAAAATAC-CCTAGGAG-ATACCTTCGACGTGAAAGTATCTTGATACCCCTAATGG
* * * *
179208 ACTTAAAAA-TACTCATAAAAAGGGA-TGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCG
64 ACTTAAAAAGAACT-AT-AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCG
* * ** * * * *
179271 AACTCGGTGATGACTTAGGTGTTAG-TCTT-
127 AACCCGATGACAACCTAGG-ATTCGATTTTG
* * * * *
179300 AAAAATTATGAAAATGCCCAAATGG-GTATACCTTCGACGTGAAAGTATCTTGGTAACCCTAAAG
1 AAAAATTATGAAAATACCC-TA-GGAG-ATACCTTCGACGTGAAAGTATCTTGATACCCCTAATG
* * *
179364 GACTT-AAAAGGACTATAAAA-GAGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAA
63 GACTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGA
* * *
179427 ACCCGGTGACAACCTAGGACTCGATTTTA
128 ACCCGATGACAACCTAGGATTCGATTTTG
** * *
179456 AAAAATTATGAAAACGCCCCTAGGAGATACCTTCGATGTAAAAGTATCTT-AGTACCCCTAATGG
1 AAAAATTATGAAAA-TACCCTAGGAGATACCTTCGACGTGAAAGTATCTTGA-TACCCCTAATGG
* *
179520 ACTTAAAAAGAACTATAAAAGGAAGT-AGACCTATCCTAAATACCCACCTTTGGCATAAAAGCGG
64 ACTTAAAAAGAACTATAAAAGGAAGTGA-ACCTATCCTAAATACCCACCTTCGGCATAAAAGCGA
*
179584 ACCCGATGATAACCTAGGATTCGATTTTG
128 ACCCGATGACAACCTAGGATTCGATTTTG
** * * *
179613 AAAAATTACAAAAATAACCCTAGGAGATACCTTCGATGTGAAAG-ATCTCGATATCCCTAATGGA
1 AAAAATTATGAAAAT-ACCCTAGGAGATACCTTCGACGTGAAAGTATCTTGATACCCCTAATGGA
* * *
179677 TTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCATCTTCAGCATAAAAGCGAAC
65 CTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
* * *
179742 TCGGTGACAACTTAGGACTT-GATTTTG
130 CCGATGACAACCTAGGA-TTCGATTTTG
* * * *
179769 AAAAATTATGAAAATGCCCTTAGGTGATACCTTCAACGTGAAAGTATCTTGGTACCCCTAATGGA
1 AAAAATTATGAAAATACCC-TAGGAGATACCTTCGACGTGAAAGTATCTTGATACCCCTAATGGA
* * * * *
179834 CTTAAAAAGAACAATAAAAGGAA-TGAACCTATACTAAATACCCACTTTTGGCATAAAAGCGGAC
65 CTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAAC
179898 CCGATG
130 CCGATG
179904 GTTACTTAGG
Statistics
Matches: 754, Mismatches: 130, Indels: 63
0.80 0.14 0.07
Matches are distributed among these distances:
154 6 0.01
155 177 0.23
156 288 0.38
157 282 0.37
158 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (156 bp):
AAAAATTATGAAAATACCCTAGGAGATACCTTCGACGTGAAAGTATCTTGATACCCCTAATGGAC
TTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAACC
CGATGACAACCTAGGATTCGATTTTG
Found at i:179911 original size:156 final size:155
Alignment explanation
Indices: 179052--179918 Score: 829
Period size: 157 Copynumber: 5.6 Consensus size: 155
179042 AACCCTAAAA
* * ** * *
179052 GACTT-AAAAGGACTACAAAAGGGGTGAACCTATCCTAAATACCCACCTTCGGCAGAAAAGTGAA
1 GACTTAAAAAGAACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAA
** * * * * * * ** ** *
179116 CATGGTGATGACCTAGGAGTTGGTTCT-AAAATTTATGAAAACACTCCTACAAGTATATCTTCGA
66 CCCGGTGATAACTTAGGACTTGATTTTGAAAAATTATGAAAATGC-CCTAGGAG-ATACCTTCGA
* ** * * **
179180 CGTAAAAGTATCCCGGCAACCCTAAAA
129 CGTGAAAGTATCTTGGTACCCCTAATG
* * * *
179207 GACTTAAAAA-TACTCATAAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCG
1 GACTTAAAAAGAACT-AT-AAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCG
* * ** * *
179271 AACTCGGTGATGACTTAGGTGTT-AGTCTT-AAAAATTATGAAAATGCCCAAATGG-GTATACCT
64 AACCCGGTGATAACTTAGGACTTGA-TTTTGAAAAATTATGAAAATGCCC-TA-GGAG-ATACCT
* *
179333 TCGACGTGAAAGTATCTTGGTAACCCTAAAG
125 TCGACGTGAAAGTATCTTGGTACCCCTAATG
* * *
179364 GACTT-AAAAGGACTATAAAA-GAGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAA
1 GACTTAAAAAGAACTATAAAAGGA-ATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGA
* * * * *
179427 ACCCGGTGACAACCTAGGACTCGATTTTAAAAAATTATGAAAACGCCCCTAGGAGATACCTTCGA
65 ACCCGGTGATAACTTAGGACTTGATTTTGAAAAATTATGAAAATG-CCCTAGGAGATACCTTCGA
* * *
179492 TGTAAAAGTATCTTAGTACCCCTAATG
129 CGTGAAAGTATCTTGGTACCCCTAATG
*
179519 GACTTAAAAAGAACTATAAAAGGAA-GTAGACCTATCCTAAATACCCACCTTTGGCATAAAAGCG
1 GACTTAAAAAGAACTATAAAAGGAATG-A-ACCTATCCTAAATACCCACCTTCGGCATAAAAGCG
* * * ** *
179583 GACCCGATGATAACCTAGGA-TTCGATTTTGAAAAATTACAAAAATAACCCTAGGAGATACCTTC
64 AACCCGGTGATAACTTAGGACTT-GATTTTGAAAAATTATGAAAAT-GCCCTAGGAGATACCTTC
* * * *
179647 GATGTGAAAG-ATCTCGATATCCCTAATG
127 GACGTGAAAGTATCTTGGTACCCCTAATG
* * *
179675 GATTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCCATCTTCAGCATAAAAGCGA
1 GACTTAAAAAGAACTATAAAAGGAA-TGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGA
* * * *
179740 ACTCGGTGACAACTTAGGACTTGATTTTGAAAAATTATGAAAATGCCCTTAGGTGATACCTTCAA
65 ACCCGGTGATAACTTAGGACTTGATTTTGAAAAATTATGAAAATGCCC-TAGGAGATACCTTCGA
179805 CGTGAAAGTATCTTGGTACCCCTAATG
129 CGTGAAAGTATCTTGGTACCCCTAATG
* * * * *
179832 GACTTAAAAAGAACAATAAAAGGAATGAACCTATACTAAATACCCACTTTTGGCATAAAAGCGGA
1 GACTTAAAAAGAACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAA
* * * *
179897 CCCGATGGTTACTTAGGGCTTG
66 CCCGGTGATAACTTAGGACTTG
179919 GTTTCGTAAC
Statistics
Matches: 592, Mismatches: 97, Indels: 45
0.81 0.13 0.06
Matches are distributed among these distances:
154 1 0.00
155 109 0.18
156 223 0.38
157 258 0.44
158 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (155 bp):
GACTTAAAAAGAACTATAAAAGGAATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAA
CCCGGTGATAACTTAGGACTTGATTTTGAAAAATTATGAAAATGCCCTAGGAGATACCTTCGACG
TGAAAGTATCTTGGTACCCCTAATG
Found at i:180695 original size:150 final size:149
Alignment explanation
Indices: 180413--180700 Score: 372
Period size: 150 Copynumber: 1.9 Consensus size: 149
180403 TTTCACATGT
* *
180413 TTAATTTAATTTTTCTCAAAAAGTGTCATTTCGTACTTTGATGGAAACCTACCAAAATACGAAAA
1 TTAATTTAATTTTTCTCAAAAAATGTCATTTCGTACTTTAATGGAAACCTA-CAAAATACGAAAA
* *
180478 ATTTTGAAATCTTTTAATACCCTTACGGATACACATAGGAATATAAAAGATTAAAACCGATTAAT
65 ATTTTGAAATCTTTTAATACCCCTACGGATACACATAGGAATATAAAAGATTAAAACCAATTAAT
180543 ATTTATTTTAGTGAGGGGAG
130 ATTTATTTTAGTGAGGGGAG
* *
180563 TTAATTTAATTATTTCT-AAAAAAT-T-ATTTTGTACTTTAATGGATACCTGA-AAAGATACGAA
1 TTAATTTAATT-TTTCTCAAAAAATGTCATTTCGTACTTTAATGGAAACCT-ACAAA-ATACGAA
* * *
180624 AAGTTTTTCGAAATCTTTT-ATACCCCTACGGATACCCATAGGAATATAAAAGACTTGAAAA-TA
63 AA-ATTTT-GAAATCTTTTAATACCCCTACGGATACACATAGGAATATAAAAGA-TT-AAAACCA
*
180687 ATTGATATTTATTT
124 ATTAATATTTATTT
180701 ATATTTAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
147 3 0.02
148 29 0.24
149 38 0.31
150 42 0.35
151 9 0.07
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (149 bp):
TTAATTTAATTTTTCTCAAAAAATGTCATTTCGTACTTTAATGGAAACCTACAAAATACGAAAAA
TTTTGAAATCTTTTAATACCCCTACGGATACACATAGGAATATAAAAGATTAAAACCAATTAATA
TTTATTTTAGTGAGGGGAG
Found at i:180796 original size:127 final size:127
Alignment explanation
Indices: 180566--180803 Score: 381
Period size: 127 Copynumber: 1.9 Consensus size: 127
180556 AGGGGAGTTA
* * *
180566 ATTTAATTATTTCTAAAAAATTATTTTGTACTTTAATGGATACCTGAAAAGATACGAAAAGTTTT
1 ATTTAATTATTTCTAAAAAATCATTTTGTACCTTAATGGATACCTAAAAAGATACGAAAAGTTTT
*
180631 TCGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGACTTGAAAATAATTGAT
66 TCGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGACTTGAAAATAATTGAT
*
180693 ATTTATTTATATT-TAAAAAGATCATTTTGTACCTTAATGGATACCTAAAAAGATACGAAAAGTT
1 ATTTAATTAT-TTCTAAAAA-ATCATTTTGTACCTTAATGGATACCTAAAAAGATACGAAAAGTT
* *
180757 TTT-GAAATCTTTTATACCCTTATGGATACCCATAAGAATATAAAAGA
64 TTTCGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGA
180804 TTAAAAAACA
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
127 56 0.55
128 46 0.45
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (127 bp):
ATTTAATTATTTCTAAAAAATCATTTTGTACCTTAATGGATACCTAAAAAGATACGAAAAGTTTT
TCGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGACTTGAAAATAATTGAT
Found at i:180896 original size:163 final size:163
Alignment explanation
Indices: 180692--181148 Score: 675
Period size: 163 Copynumber: 2.8 Consensus size: 163
180682 AAATAATTGA
* * * **
180692 TATTTATTTATATTT-AAAAAGATCATTTTGTACCTTAATGGATACCTAAAAAGATACGAAAAGT
1 TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGT
* * * * *
180756 TTTTGAAATCTTTTATACCCTTATGGATACCCATAAGAATATAAAAGATTAAAAAACAATTAATG
66 TTTTGAAATATTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAACAATTAATA
180821 TTTGTTGTAATTAACGAGGAGTGAATTTAATAT
131 TTTGTTGTAATTAACGAGGAGTGAATTTAATAT
*
180854 TATTTATTTATTTTTGAAAAAAATTATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGT
1 TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGT
* * **
180919 TTTTAAAATTTTTTATA-CCTCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAAT
66 TTTTGAAATATTTTATACCCT-TACGGATACCCATAGGAATATAAAAGATTTAAAAACAATTAAT
180983 ATTTGTTGTAATTAACGAGGAGTGAATTTAATAT
130 ATTTGTTGTAATTAACGAGGAGTGAATTTAATAT
* * *
181017 TATTTATTTAGTTTTGAAAAAAATCATTTCGTACATTAATGGATACCCGAAAAGATATGAAAAGT
1 TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGT
* * * * **
181082 TTTTGAACTATTTTATACCCCTACGAATACCCATGGGAATATAAAAGATTTAAAAATGATTAATA
66 TTTTGAAATATTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAACAATTAATA
181147 TT
131 TT
181149 AAAATATATA
Statistics
Matches: 268, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
162 17 0.06
163 249 0.93
164 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (163 bp):
TATTTATTTATTTTTGAAAAAAATCATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGT
TTTTGAAATATTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAACAATTAATA
TTTGTTGTAATTAACGAGGAGTGAATTTAATAT
Found at i:183014 original size:16 final size:16
Alignment explanation
Indices: 182990--183024 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
182980 TGTGGCTTTC
*
182990 TTTCTTTTTTCTTCAT
1 TTTCATTTTTCTTCAT
*
183006 TTTCATTTTTTTTCAT
1 TTTCATTTTTCTTCAT
183022 TTT
1 TTT
183025 TTGATTGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCATTTTTCTTCAT
Found at i:185861 original size:13 final size:13
Alignment explanation
Indices: 185843--185868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185833 CAATTTTTTG
185843 TGTATCGATACAT
1 TGTATCGATACAT
185856 TGTATCGATACAT
1 TGTATCGATACAT
185869 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185883 original size:32 final size:33
Alignment explanation
Indices: 185823--185886 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
185813 TACAAGCCAA
** *
185823 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
185856 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
185887 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:188437 original size:13 final size:13
Alignment explanation
Indices: 188419--188457 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
188409 ATAATCACCC
188419 TGTATCGATACAA
1 TGTATCGATACAA
188432 TGTATCGATACAA
1 TGTATCGATACAA
188445 TGTATCGATACAA
1 TGTATCGATACAA
188458 GGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:190247 original size:20 final size:20
Alignment explanation
Indices: 190224--190296 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
190214 ACAATTCAAA
190224 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
190244 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
190265 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
190285 GTATCGATACAT
1 GTATCGATACAT
190297 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:190268 original size:21 final size:21
Alignment explanation
Indices: 190242--190317 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
190232 ACATGTTGCA
190242 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
190263 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
190283 ATGTATCGATACAT-AAAAAGG
1 ATGTATCGATACATGAAAAA-G
190304 ATGTATCGATACAT
1 ATGTATCGATACAT
190318 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 14 0.31
21 30 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:190270 original size:41 final size:41
Alignment explanation
Indices: 190224--190317 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
190214 ACAATTCAAA
190224 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-GAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
190265 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
190306 GTATCGATACAT
1 GTATCGATACAT
190318 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
Found at i:190374 original size:13 final size:13
Alignment explanation
Indices: 190356--190381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
190346 TACAGCAAGT
190356 ATGTATCGATACA
1 ATGTATCGATACA
190369 ATGTATCGATACA
1 ATGTATCGATACA
190382 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:194438 original size:15 final size:15
Alignment explanation
Indices: 194418--194448 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
194408 TAAAAATGTC
*
194418 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
194433 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
194448 C
1 C
194449 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:196541 original size:20 final size:21
Alignment explanation
Indices: 196462--196540 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
196452 AATGTCCAAA
*
196462 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
196482 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
196507 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
196527 TTGTATCGATACAT
1 ATGTATCGATACAT
196541 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:196545 original size:13 final size:13
Alignment explanation
Indices: 196527--196565 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
196517 ACATTTTTCT
196527 TTGTATCGATACA
1 TTGTATCGATACA
196540 TTGTATCGATACA
1 TTGTATCGATACA
*
196553 CTGTATCGATACA
1 TTGTATCGATACA
196566 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:199035 original size:20 final size:20
Alignment explanation
Indices: 199012--199084 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
199002 ACAATTCAAA
199012 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
199032 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
199053 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
199073 GTATCGATACAT
1 GTATCGATACAT
199085 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:199056 original size:21 final size:21
Alignment explanation
Indices: 199030--199105 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
199020 ACATGTTGCA
199030 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
199051 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
199071 ATGTATCGATACAT-AAAAAGG
1 ATGTATCGATACATGAAAAA-G
199092 ATGTATCGATACAT
1 ATGTATCGATACAT
199106 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 14 0.31
21 30 0.67
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:199063 original size:41 final size:41
Alignment explanation
Indices: 199012--199105 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
199002 ACAATTCAAA
199012 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-GAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
199053 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
199094 GTATCGATACAT
1 GTATCGATACAT
199106 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
Found at i:199162 original size:13 final size:13
Alignment explanation
Indices: 199144--199169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
199134 TACAGCAAGT
199144 ATGTATCGATACA
1 ATGTATCGATACA
199157 ATGTATCGATACA
1 ATGTATCGATACA
199170 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:202388 original size:21 final size:21
Alignment explanation
Indices: 202359--202403 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
202349 AAGTTTTCAT
*
202359 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
202379 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
202401 TTT
1 TTT
202404 CATCTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:204636 original size:13 final size:13
Alignment explanation
Indices: 204618--204643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
204608 CAATTTTTTG
204618 TGTATCGATACAT
1 TGTATCGATACAT
204631 TGTATCGATACAT
1 TGTATCGATACAT
204644 ACTTAGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:209108 original size:19 final size:20
Alignment explanation
Indices: 209078--209121 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
209068 CAAGAAATTC
*
209078 TCTTCATTTTTTCTTGTTTT
1 TCTTCATTTTTTCTTCTTTT
*
209098 TCTTC-TTTTTTTTTCTTTT
1 TCTTCATTTTTTCTTCTTTT
209117 TCTTC
1 TCTTC
209122 GTGTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (20 bp):
TCTTCATTTTTTCTTCTTTT
Found at i:209368 original size:15 final size:15
Alignment explanation
Indices: 209350--209394 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
209340 ACGAAATTTT
209350 AAAATTAATATAATA
1 AAAATTAATATAATA
*
209365 AAAATTATTAATATATA
1 AAAATTAAT-ATA-ATA
*
209382 AAAATTTATATAA
1 AAAATTAATATAA
209395 ATATAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 9 0.36
16 6 0.24
17 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTAATATAATA
Found at i:209397 original size:20 final size:18
Alignment explanation
Indices: 209353--209402 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
209343 AAATTTTAAA
209353 ATTAATATAATAAAAA-TT
1 ATTAATAT-ATAAAAATTT
209371 ATTAATATATAAAAATTT
1 ATTAATATATAAAAATTT
209389 ATATAA-ATATAAAA
1 AT-TAATATATAAAA
209403 TAATTTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.23
18 20 0.67
19 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATATATAAAAATTT
Found at i:209838 original size:32 final size:32
Alignment explanation
Indices: 209787--209862 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
209777 GTATTTAATT
** * *
209787 TTTTAAGTTATTT-CTATTTAGGTTATTTTGG
1 TTTTAAGTTATTTGAAATTTAGGTCACTTTGG
*
209818 TTTT-AGATTATTTGAAATTTATGTCACTTTGG
1 TTTTAAG-TTATTTGAAATTTAGGTCACTTTGG
209850 TTTTAAGTTATTT
1 TTTTAAGTTATTT
209863 CGATCTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
30 2 0.05
31 10 0.27
32 23 0.62
33 2 0.05
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.59
Consensus pattern (32 bp):
TTTTAAGTTATTTGAAATTTAGGTCACTTTGG
Found at i:210675 original size:2 final size:2
Alignment explanation
Indices: 210665--210831 Score: 111
Period size: 2 Copynumber: 92.0 Consensus size: 2
210655 AAATTTTTTT
*
210665 TA TA T- TA TA TA TA TA TA TA T- TA TA T- TA TA TG T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
210702 TA TA TA TA TA T- TA TG T- TA TA -A TT TA AA TA T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
210739 TA -A TA TA AA TA TA TA TA TA TA AA CA -A CTA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
210779 -A TA TA -A TA -A TA TA TA TA TA GTA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
210817 TA CA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA
210832 ACATATAATA
Statistics
Matches: 132, Mismatches: 12, Indels: 42
0.71 0.06 0.23
Matches are distributed among these distances:
1 19 0.14
2 110 0.83
3 3 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:210710 original size:28 final size:28
Alignment explanation
Indices: 210669--210842 Score: 116
Period size: 25 Copynumber: 6.3 Consensus size: 28
210659 TTTTTTTATA
210669 TTAT-ATATATATATATTATATTAT-AT
1 TTATAATATATATATATTATATTATAAT
*
210695 GTTATAATATATATATATTATGTTATAAT
1 -TTATAATATATATATATTATATTATAAT
210724 TTA-AATAT-TATATATTA-A-TATAAAT
1 TTATAATATATATATATTATATTAT-AAT
* * * *
210749 ATATATATATAAACAACTATATATATAATAAT
1 TTATA-ATATATA-TA-TAT-TATATTATAAT
* *
210781 ATAATAATATATATATAGTATA-TATAA-
1 -TTATAATATATATATATTATATTATAAT
* * *
210808 -TATAATATATACATAATATA-TATAAC
1 TTATAATATATATATATTATATTATAAT
*
210834 ATATAATAT
1 TTATAATAT
210843 TTTATTTATT
Statistics
Matches: 118, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
24 3 0.03
25 27 0.23
26 10 0.08
27 21 0.18
28 27 0.23
29 7 0.06
30 5 0.04
31 3 0.03
32 10 0.08
33 5 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TTATAATATATATATATTATATTATAAT
Found at i:210736 original size:5 final size:5
Alignment explanation
Indices: 210664--210721 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
210654 TAAATTTTTT
*
210664 TTATA TTATA -TATA TATATA TTATA TTATA TGTTATA ATATA TATATA
1 TTATA TTATA TTATA T-TATA TTATA TTATA --TTATA TTATA T-TATA
*
210712 TTATG TTATA
1 TTATA TTATA
210722 ATTTAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 10 0.23
7 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:210750 original size:14 final size:14
Alignment explanation
Indices: 210741--210842 Score: 79
Period size: 14 Copynumber: 7.1 Consensus size: 14
210731 TTATATATTA
210741 ATATAAATATATAT
1 ATATAAATATATAT
*
210755 ATATAAACA-ACTAT
1 ATATAAATATA-TAT
210769 ATATATAATA-ATAT
1 ATATA-AATATATAT
210783 A-ATAATATATATAT
1 ATATAA-ATATATAT
*
210797 AGTATATATAATATAAT
1 A-TATAAAT-ATAT-AT
*
210814 ATATACATA-ATAT
1 ATATAAATATATAT
210827 ATATAACATATA-AT
1 ATATAA-ATATATAT
210841 AT
1 AT
210843 TTTATTTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
12 1 0.01
13 14 0.19
14 34 0.47
15 8 0.11
16 13 0.18
17 3 0.04
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:210839 original size:16 final size:16
Alignment explanation
Indices: 210741--210842 Score: 59
Period size: 16 Copynumber: 7.0 Consensus size: 16
210731 TTATATATTA
210741 ATATAA-ATAT-ATAT
1 ATATAACATATAATAT
210755 ATATAAACA-ACT-ATAT
1 ATAT-AACATA-TAATAT
*
210771 ATATAATAATATAATA-
1 ATATAA-CATATAATAT
* *
210787 ATAT-ATATATAGTAT
1 ATATAACATATAATAT
210802 ATAT-A-ATAT-A-AT
1 ATATAACATATAATAT
210814 ATAT-AC--ATAATAT
1 ATATAACATATAATAT
210827 ATATAACATATAATAT
1 ATATAACATATAATAT
210843 TTTATTTATT
Statistics
Matches: 71, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
11 2 0.03
12 8 0.11
13 6 0.08
14 17 0.24
15 11 0.15
16 23 0.32
17 4 0.06
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (16 bp):
ATATAACATATAATAT
Found at i:213407 original size:107 final size:108
Alignment explanation
Indices: 213192--213420 Score: 286
Period size: 107 Copynumber: 2.1 Consensus size: 108
213182 AGATAAAAAC
* *
213192 GGGTTGGAGTAT-CCCTTCGAAAACAACGGGGTTGGAGTATCCCTAATGGTGAGAAATCAATATT
1 GGGTTGGAGTATCCCCTTCGAAAACAACGGGGTTGGAGTATCCCTAATAGTGAAAAATCAATATT
* * * *
213256 TTGGAAATAAAAATAGGCTTGGAGTATCCCCTCAGAATTGACG
66 TTAGAAATAAAAACAGGCTTGGAGTATCCCCTCAGAAATAACG
* * * * *
213299 GGGTTTGTGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCT-ATAGTGAAAAATCGATGT
1 GGGTTGGAGTATCCCCTTCGAAAACAACGGGGTTGGAGTAT-CCCTAATAGTGAAAAATCAATAT
* * *
213362 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAAATAACG
65 TTTAGAAATAAAAACAGGCTTGGAGTATCCCCTCAG-AAATAACG
213406 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
213421 GATGGTGGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
106 1 0.01
107 93 0.90
108 9 0.09
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (108 bp):
GGGTTGGAGTATCCCCTTCGAAAACAACGGGGTTGGAGTATCCCTAATAGTGAAAAATCAATATT
TTAGAAATAAAAACAGGCTTGGAGTATCCCCTCAGAAATAACG
Found at i:213474 original size:78 final size:79
Alignment explanation
Indices: 213297--213610 Score: 380
Period size: 79 Copynumber: 4.0 Consensus size: 79
213287 TCAGAATTGA
* * * * * *
213297 CGGGGTTTGTGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCTATAGTGAAAAATCGATGT
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGTGAAAAATCGGTGT
*
213362 TTTAGAAATAAAAC
66 TTTAGAAATAAAAT
* * *
213376 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CGATGGTGGAAAATCGGTGT
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGTGAAAAATCGGTGT
*
213440 TTAAGAAATAAAAT
66 TTTAGAAATAAAAT
* * ** * * * *
213454 CGGGGTTAGAATATCTCCTCGAAAATAATAGGGTTGGAGTATCCTTGATGGTGAAAAATTGGTAT
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGTGAAAAATCGGTGT
213519 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * * * *
213533 TGGGGTTAGAGTATCTCTTCGAAAATAACGGTGTTGGAGTATCCTCGATAGTGGAAAAATC-GAG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGT-GAAAAATCGGTG
*
213597 TTTTAGGAATAAAA
65 TTTTAGAAATAAAA
213611 CATCAGTGAA
Statistics
Matches: 202, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 67 0.33
79 128 0.63
80 7 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGTGAAAAATCGGTGT
TTTAGAAATAAAAT
Found at i:218564 original size:89 final size:89
Alignment explanation
Indices: 218414--219108 Score: 987
Period size: 89 Copynumber: 7.8 Consensus size: 89
218404 TCTGTTGTAT
* * * * *
218414 CATTAGTCAAATATTTTCCGTCGTGTCAGAAGGAATATGATATCCACATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* * *
218479 TTGGGTTCCAAAAAATTTATTAGT
66 TCGGGTTCCAAGAAATTTATTAGG
*
218503 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATTTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
*
218568 TCGGGTTCCAAGAAATTTGTTAGG
66 TCGGGTTCCAAGAAATTTATTAGG
* * * * *
218592 CATTAGTCAAATATTTTCTGCCATGTTAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* *
218657 TTGGGTTCCAAGAAATTTATTAGT
66 TCGGGTTCCAAGAAATTTATTAGG
* *
218681 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
*
218746 TCGGGTTCCAAAAAATTTATTAGG
66 TCGGGTTCCAAGAAATTTATTAGG
* * * * * * *
218770 CATTAGTCAAATATTTTTTGCCATGTCAGAAATAATCTGATACCGGCATGTATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* *
218835 TCGAGTTCCAAGAAATTAATTAGG
66 TCGGGTTCCAAGAAATTTATTAGG
* *
218859 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* *
218924 TCGAGTTCTAAGAAATTTATTAGG
66 TCGGGTTCCAAGAAATTTATTAGG
* * * *
218948 CATTAGTCAAATATTTTCTATCGTGTCA-AAAGGAATATGATACTCGCATGCATCTATCATATCT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAA-GAATCTGATACCCGCATGCATCTATCACATCT
* *
219012 TTCGAGTTCTAAGAAATTTATTAGG
65 TTCGGGTTCCAAGAAATTTATTAGG
* * * *
219037 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATTCATCTGTTACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
219102 TCGGGTT
66 TCGGGTT
219109 AGTCAAATAT
Statistics
Matches: 545, Mismatches: 59, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
88 3 0.01
89 539 0.99
90 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (89 bp):
CATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTATCACATCTT
TCGGGTTCCAAGAAATTTATTAGG
Found at i:218894 original size:267 final size:265
Alignment explanation
Indices: 218414--219590 Score: 1437
Period size: 267 Copynumber: 4.5 Consensus size: 265
218404 TCTGTTGTAT
** * * * *
218414 CATTAGTCAAATATTTTCCGTCGTGTCAGAAGGAATATGATATCCACATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCA-AAAGAATCTGATACCCGCATGCATCTATCACATCTT
* *
218479 TTGGGTTCCAAAAAATTTATTAGTCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
65 TCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
* * * *
218544 ACCCGCATGCATTTATCACATCTTTCGGGTTCCAAGAAATTTGTTAGGCATTAGTCAAATATTTT
130 ACCCGCATGCATCTGTCACATCTTTC-AGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTT
* * * * * *
218609 CTGCCATGTTAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTTGGGTTCCAAGAAATT
194 CTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATT
*
218674 TATTAGT
259 TATTAGG
*
218681 CATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCA-AAAGAATCTGATACCCGCATGCATCTATCACATCTT
* * * *
218746 TCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTTTGCCATGTCAGAAATAATCTGAT
65 TCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
* * *
218811 ACCGGCATGTATCTGTCACATCTTTCGAGTTCCAAGAAATTAATTAGGCATTAGTCAAATATTTT
130 ACCCGCATGCATCTGTCACATCTTTC-AGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTT
* * * *
218876 CTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTCGAGTTCTAAGAAATT
194 CTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATT
218941 TATTAGG
259 TATTAGG
* * *
218948 CATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCGCATGCATCTATCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTCAAAA-GAATCTGATACCCGCATGCATCTATCACATCTT
* * * *
219013 TCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGAT
65 TCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
* *
219078 ACCCGCATTCATCTGTTACATC--T---TT-C--G----------GG--TTAGTCAAATATTTTC
130 ACCCGCATGCATCTGTCACATCTTTCAGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTTC
* * * *
219123 TGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTTGGGTTCCAAGAAATTT
195 TGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATTT
*
219188 ATTAAG
260 ATTAGG
* * * * *
219194 CATTAGTCAAATATTTTCTGTCGTGTCCATAAGAATCTGATTCCCACATGCATTTATCACATCTT
1 CATTAGTCAAATATTTTCTATCGTGT-CAAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* * * *
219259 TTGGGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
65 TCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGAT
*
219324 ACCCGCATGCATCTGTCACATCTTTCAGGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTT
130 ACCCGCATGCATCTGTCACATCTTTCA-GTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTT
* * * * *
219389 CTATCGTGTCA-AAAGGAATATGATACTCACATGCATCTGTCACATCTTTCGAGTTCTAAGAAAT
194 CTGTCGTGTCAGAAA-GAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAAT
219453 TTATTAGG
258 TTATTAGG
* * * *
219461 CATTAGTCAAATATTTTATATCGTGTCAAAAAGAATCTAATACCCGCATGCATCTGTCATATCTT
1 CATTAGTCAAATATTTTCTATCGTGTC-AAAAGAATCTGATACCCGCATGCATCTATCACATCTT
* * * * * ** * *
219526 TCAGATTCCAAGAATTTTAATTTA--TATTAACCAAATATTTTCTGTCGTATCAAAAAGAATCTG
65 TCGGGTTCCAAAAAATTT-A-TTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTG
219589 AT
128 AT
219591 CTAATAAATT
Statistics
Matches: 784, Mismatches: 99, Indels: 54
0.84 0.11 0.06
Matches are distributed among these distances:
246 213 0.27
247 4 0.01
248 3 0.00
252 2 0.00
255 1 0.00
258 1 0.00
260 1 0.00
261 2 0.00
265 3 0.00
266 7 0.01
267 543 0.69
268 1 0.00
269 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (265 bp):
CATTAGTCAAATATTTTCTATCGTGTCAAAAGAATCTGATACCCGCATGCATCTATCACATCTTT
CGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATA
CCCGCATGCATCTGTCACATCTTTCAGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTTCT
GTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATTTA
TTAGG
Found at i:219148 original size:68 final size:68
Alignment explanation
Indices: 219039--219176 Score: 224
Period size: 68 Copynumber: 2.0 Consensus size: 68
219029 TTATTAGGCA
*
219039 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCAT-TCATCTGTTACATCTTT
1 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGT-ATCTGTCACATCTTT
219103 CGGG
65 CGGG
* * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTT
1 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCACATCTTTC
219172 GGG
66 GGG
219175 TT
1 TT
219177 CCAAGAAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
68 64 0.98
69 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (68 bp):
TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCACATCTTTC
GGG
Found at i:219256 original size:157 final size:157
Alignment explanation
Indices: 218950--219265 Score: 438
Period size: 157 Copynumber: 2.0 Consensus size: 157
218940 TTATTAGGCA
*
218950 TTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCGCATGCATCTATCATATCTTTC
1 TTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACCCGCATGCATCTATCATATCTTTC
* *
219015 GAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
66 GAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
* * * *
219080 CCGCATTCATCTGTTACATCTTTCGGG
131 CCACATGCATCTATCACATCTTTCGGG
* * * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAA-GAATCTGATACCCGCATGTATCTGTCATATCTTT
1 TTAGTCAAATATTTTCTATCGTGTCA-AAAGGAATATGATACCCGCATGCATCTATCATATCTTT
* * * *
219171 TGGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTGTCGTGTCCA-TAAGAATCTGAT
65 CGAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGT-CAGAAAGAATCTGAT
* * *
219235 TCCCACATGCATTTATCACATCTTTTGGG
129 ACCCACATGCATCTATCACATCTTTCGGG
219264 TT
1 TT
219266 CTAAGAAATT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
157 134 0.96
158 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (157 bp):
TTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACCCGCATGCATCTATCATATCTTTC
GAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
CCACATGCATCTATCACATCTTTCGGG
Found at i:219258 original size:89 final size:88
Alignment explanation
Indices: 219107--219590 Score: 612
Period size: 89 Copynumber: 5.4 Consensus size: 88
219097 ATCTTTCGGG
* * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTT
1 TTAGTCAAATATTTTCTGTCGTGTCA-AAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* *
219172 GGGTTCCAAGAAATTTATTAAGCA
65 GGGTTCTAAGAAATTTATTAGGCA
* * * * * *
219196 TTAGTCAAATATTTTCTGTCGTGTCCATAAGAATCTGATTCCCACATGCATTTATCACATCTTTT
1 TTAGTCAAATATTTTCTGTCGTGT-CAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
219261 GGGTTCTAAGAAATTTATTAGGCA
65 GGGTTCTAAGAAATTTATTAGGCA
*
219285 TTAGTAAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCA-AAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
*
219350 AGGTTCTAAGAAATTTATTAGGCA
65 GGGTTCTAAGAAATTTATTAGGCA
* * * *
219374 TTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCACATGCATCTGTCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAAAA-GAATCTGATACCCGCATGCATCTGTCACATCTTTC
*
219439 GAGTTCTAAGAAATTTATTAGGCA
65 GGGTTCTAAGAAATTTATTAGGCA
* * * *
219463 TTAGTCAAATATTTTATATCGTGTCAAAAAGAATCTAATACCCGCATGCATCTGTCATATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTC-AAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* * * * *
219528 AGATTCCAAGAATTTTAATTTA--TA
65 GGGTTCTAAGAAATTT-A-TTAGGCA
** *
219552 TTAACCAAATATTTTCTGTCGTATCAAAAAGAATCTGAT
1 TTAGTCAAATATTTTCTGTCGTGTC-AAAAGAATCTGAT
219591 CTAATAAATT
Statistics
Matches: 347, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
88 5 0.01
89 332 0.96
90 7 0.02
91 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (88 bp):
TTAGTCAAATATTTTCTGTCGTGTCAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCG
GGTTCTAAGAAATTTATTAGGCA
Found at i:219297 original size:246 final size:246
Alignment explanation
Indices: 218861--219354 Score: 774
Period size: 246 Copynumber: 2.0 Consensus size: 246
218851 TAATTAGGCA
218861 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTC
1 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTC
* *
218926 GAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATAC
66 GAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATAC
* * * *
218991 TCGCATGCATCTATCATATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCT
131 CCACATGCATCTATCACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTCT
* * *
219056 ATCGTGTCAGAAAGAATCTGATACCCGCATTCATCTGTTACATCTTTCGGG
196 ATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCAGG
* * * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTT
1 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTC
* * * * *
219172 GGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTGTCGTGTCCATAA-GAATCTGATT
66 GAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGT-CAAAAGGAATATGATA
* * *
219236 CCCACATGCATTTATCACATCTTTTGGGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTC
130 CCCACATGCATCTATCACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTC
*
219301 TGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCAGG
195 TATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCAGG
219353 TT
1 TT
219355 CTAAGAAATT
Statistics
Matches: 225, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
246 221 0.98
247 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (246 bp):
TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTC
GAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATAC
CCACATGCATCTATCACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTCT
ATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCAGG
Found at i:219471 original size:424 final size:424
Alignment explanation
Indices: 218683--219527 Score: 1352
Period size: 424 Copynumber: 2.0 Consensus size: 424
218673 TTATTAGTCA
218683 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
1 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* * *
218748 GGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTTTGCCATGTCAGAAATAATCTGATAC
66 GGGTTCCAAAAAATTTATTAAGCATTAGTCAAATATTTTCTGCCATGTCAGAAAGAATCTGATAC
** * * *
218813 CGGCATGTATCTGTCACATCTTTCGAGTTCCAAGAAATTAATTAGGCATTAGTCAAATATTTTCT
131 CCACATGCATCTATCACATCTTTCGAGTTCCAAGAAATTAATTAGGCATTAGTAAAATATTTTCT
*
218878 GTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCACATCTTTCGAGTTCTAAGAAATTTA
196 GTCGTGTCAGAAAGAATCTAATACCCGCATGCATCTATCACATCTTTCGAGTTCTAAGAAATTTA
* *
218943 TTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCGCATGCATCTATCAT
261 TTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCACATGCATCTATCAC
* *
219008 ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAAT
326 ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGAAT
* * *
219073 CTGATACCCGCATTCATCTGTTACATCTTTCGGG
391 CTAATACCCGCATGCATCTGTCACATCTTTCGGG
* * * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTT
1 TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
* * * * *
219172 GGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTGTCGTGTCCA-TAAGAATCTGATT
66 GGGTTCCAAAAAATTTATTAAGCATTAGTCAAATATTTTCTGCCATGT-CAGAAAGAATCTGATA
* * * * *
219236 CCCACATGCATTTATCACATCTTTTGGGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTTC
130 CCCACATGCATCTATCACATCTTTCGAGTTCCAAGAAATTAATTAGGCATTAGTAAAATATTTTC
* *
219301 TGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC-AGGTTCTAAGAAATT
195 TGTCGTGTCAGAAAGAATCTAATACCCGCATGCATCTATCACATCTTTCGA-GTTCTAAGAAATT
*
219365 TATTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCACATGCATCTGTC
259 TATTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCACATGCATCTATC
219430 ACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGA
324 ACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGA
*
219495 ATCTAATACCCGCATGCATCTGTCATATCTTTC
389 ATCTAATACCCGCATGCATCTGTCACATCTTTC
219528 AGATTCCAAG
Statistics
Matches: 385, Mismatches: 34, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
423 1 0.00
424 382 0.99
425 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (424 bp):
TTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC
GGGTTCCAAAAAATTTATTAAGCATTAGTCAAATATTTTCTGCCATGTCAGAAAGAATCTGATAC
CCACATGCATCTATCACATCTTTCGAGTTCCAAGAAATTAATTAGGCATTAGTAAAATATTTTCT
GTCGTGTCAGAAAGAATCTAATACCCGCATGCATCTATCACATCTTTCGAGTTCTAAGAAATTTA
TTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAATATGATACTCACATGCATCTATCAC
ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGAAT
CTAATACCCGCATGCATCTGTCACATCTTTCGGG
Found at i:219563 original size:513 final size:512
Alignment explanation
Indices: 218594--219590 Score: 1475
Period size: 513 Copynumber: 1.9 Consensus size: 512
218584 TTGTTAGGCA
*
218594 TTAGTCAAATATTTTCTGCCATGTTAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTT
1 TTAGTCAAATATTTTCTGCCATGTCAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTT
218659 GGGTTCCAAGAAATTTATTAGTCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
66 GGGTTCCAAGAAATTTATTAGTCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
* * * *
218724 CCGCATGCATCTGTCACATCTTTCGGGTTCCAAAAAATTTATTAGGCATTAGTCAAATATTTTTT
131 CCACATGCATCTATCACATCTTTCGGGTTCCAAAAAATTTATTAGGCATTAGTAAAATATTTTCT
* * *
218789 GCCATGTCAGAAATAATCTGATACCGGCATGTATCTGTCACATCTTTCGAGTTCCAAGAAATTAA
196 GCCATGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATTAA
* * * *
218854 TTAGGCATTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTAATACCCGCATGTATCTATCAC
261 TTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATATAATACCCACATGCATCTATCAC
* *
218919 ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAAAAGGAAT
326 ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGAAT
* * * **
218984 ATGATACTCGCATGCATCTATCATATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAAT
391 ATAATACCCGCATGCATCTATCATATCTTTCGAGTTCCAAGAAATTTATTA-GCATTAACCAAAT
* *
219049 ATTTTCTATCGTGTCAGAAAGAATCTGATACCCGCATTCATCTGTTACATCTTTCGGG
455 ATTTTCTATCGTATCAAAAAGAATCTGATACCCGCATTCATCTGTTACATCTTTCGGG
* * * * *
219107 TTAGTCAAATATTTTCTGTCGTGTCAGAAAGAATCTGATACCCGCATGTATCTGTCATATCTTTT
1 TTAGTCAAATATTTTCTGCCATGTCAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTT
* *
219172 GGGTTCCAAGAAATTTATTAAG-CATTAGTCAAATATTTTCTGTCGTGTCCA-TAAGAATCTGAT
66 GGGTTCCAAGAAATTTATT-AGTCATTAGTCAAATATTTTCTATCGTGT-CAGAAAGAATCTGAT
* * * * *
219235 TCCCACATGCATTTATCACATCTTTTGGGTTCTAAGAAATTTATTAGGCATTAGTAAAATATTTT
129 ACCCACATGCATCTATCACATCTTTCGGGTTCCAAAAAATTTATTAGGCATTAGTAAAATATTTT
* * *
219300 CTGTCGTGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTC-AGGTTCTAAGAAAT
194 CTGCCATGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGA-GTTCCAAGAAAT
* * * *
219364 TTATTAGGCATTAGTCAAATATTTTCTATCGTGTCA-AAAGGAATATGATACTCACATGCATCTG
258 TAATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAA-GAATATAATACCCACATGCATCTA
219428 TCACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAA
322 TCACATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAA
* * * *
219493 GAATCTAATACCCGCATGCATCTGTCATATCTTTC-AGATTCCAAGAATTTTAATTTA-TATTAA
387 GAATATAATACCCGCATGCATCTATCATATCTTTCGAG-TTCCAAGAAATTT-A-TTAGCATTAA
*
219556 CCAAATATTTTCTGTCGTATCAAAAAGAATCTGAT
449 CCAAATATTTTCTATCGTATCAAAAAGAATCTGAT
219591 CTAATAAATT
Statistics
Matches: 432, Mismatches: 45, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
512 6 0.01
513 418 0.97
514 5 0.01
515 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (512 bp):
TTAGTCAAATATTTTCTGCCATGTCAAAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTT
GGGTTCCAAGAAATTTATTAGTCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATCTGATAC
CCACATGCATCTATCACATCTTTCGGGTTCCAAAAAATTTATTAGGCATTAGTAAAATATTTTCT
GCCATGTCAGAAAGAATCTGATACCCGCATGCATCTGTCACATCTTTCGAGTTCCAAGAAATTAA
TTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAAGAATATAATACCCACATGCATCTATCAC
ATCTTTCGAGTTCTAAGAAATTTATTAGGCATTAGTCAAATATTTTATATCGTGTCAAAAAGAAT
ATAATACCCGCATGCATCTATCATATCTTTCGAGTTCCAAGAAATTTATTAGCATTAACCAAATA
TTTTCTATCGTATCAAAAAGAATCTGATACCCGCATTCATCTGTTACATCTTTCGGG
Found at i:219674 original size:2 final size:2
Alignment explanation
Indices: 219669--219751 Score: 53
Period size: 2 Copynumber: 47.0 Consensus size: 2
219659 ATATATTTTT
*
219669 TA TA TA T- TA TA TA -A TA T- TA TA T- TG TA T- TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
219705 T- TA CA TA TC TA T- TA TA TA TA TT TA TA T- TA -A TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
219742 TA TA TA TA TA
1 TA TA TA TA TA
219752 AAAAACATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
1 11 0.17
2 52 0.83
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:219678 original size:7 final size:7
Alignment explanation
Indices: 219655--219748 Score: 72
Period size: 7 Copynumber: 13.4 Consensus size: 7
219645 TTCAAAAAAT
219655 TATTATA
1 TATTATA
219662 TATT-T-
1 TATTATA
219667 T-TTATA
1 TATTATA
219673 TATTATA
1 TATTATA
*
219680 TAATATTA
1 TATTA-TA
*
219688 TATTGTA
1 TATTATA
219695 TTATTATA
1 -TATTATA
*
219703 TATTACA
1 TATTATA
219710 TATCTAT-
1 TAT-TATA
219717 TA-TATA
1 TATTATA
219723 TATTTATA
1 TA-TTATA
*
219731 TTAATATA
1 -TATTATA
219739 TATTATA
1 TATTATA
219746 TAT
1 TAT
219749 ATAAAAAACA
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
4 2 0.03
5 5 0.07
6 4 0.06
7 35 0.51
8 21 0.30
9 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:219685 original size:5 final size:5
Alignment explanation
Indices: 219671--219750 Score: 60
Period size: 5 Copynumber: 16.0 Consensus size: 5
219661 ATATTTTTTA
* * * *
219671 TATAT TATAT AATAT TATAT TGTAT TAT-T ATATAT TACAT ATCTAT TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT -TATAT TATAT
219721 TATATT TATAT TA-AT ATATAT TATA- TATAT
1 TATA-T TATAT TATAT -TATAT TATAT TATAT
219751 AAAAAACATA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
4 11 0.19
5 38 0.64
6 10 0.17
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:219699 original size:41 final size:42
Alignment explanation
Indices: 219653--219748 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
219643 TTTTCAAAAA
*** *
219653 ATTATTATATATTTTTTATATATTATATA-ATATTATATT-GT
1 ATTATTATATATTACATATATATTATATATAT-TTATATTAAT
*
219694 ATTATTATATATTACATATCTATTATATATATTTATATTAAT
1 ATTATTATATATTACATATATATTATATATATTTATATTAAT
219736 ATATATTATATAT
1 AT-TATTATATAT
219749 ATAAAAAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 32 0.68
42 5 0.11
43 10 0.21
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (42 bp):
ATTATTATATATTACATATATATTATATATATTTATATTAAT
Found at i:221069 original size:3 final size:3
Alignment explanation
Indices: 221061--221093 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
221051 ATACAATATT
*
221061 ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
221094 TGGATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:226711 original size:20 final size:19
Alignment explanation
Indices: 226668--226744 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
226658 TTTTACCTAG
*
226668 ATGTATCGATACATTGA-AA
1 ATGTATCGATACATT-ATGA
226687 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* *
226707 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTATGA
*
226727 ATGTATCAATACATTATG
1 ATGTATCGATACATTATG
226745 TTTTTTTCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.37
20 30 0.61
21 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:226789 original size:50 final size:51
Alignment explanation
Indices: 226706--226841 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 51
226696 TACATGTATG
**** * * *
226706 AATGTATCGATACATTTTTCAATGTATCAATACATTATGTTTTTTTCCCCA
1 AATGTATCGATACATTGAAAAATGTATCGATACATTATATTTTTTTACCCA
*
226757 AA-GTATCGATACATTGAAAAATGTATCGATACATTCTATTTTTTTACCCA
1 AATGTATCGATACATTGAAAAATGTATCGATACATTATATTTTTTTACCCA
****
226807 AATGTATCGATACATTTTTCAATGTATCGATACAT
1 AATGTATCGATACATTGAAAAATGTATCGATACAT
226842 CTAGTTAATT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 42 0.58
51 30 0.42
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (51 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATTATATTTTTTTACCCA
Found at i:227245 original size:20 final size:20
Alignment explanation
Indices: 227220--227294 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
227210 TTTTACCTAG
227220 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
227240 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
227260 AGGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
227280 ATGGATCGATACATT
1 ATGTATCGATACATT
227295 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:228263 original size:20 final size:20
Alignment explanation
Indices: 228227--228264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
228217 AGCCTTTGAC
**
228227 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTAATATGTTT
228247 CATGCATTTTTAATATGT
1 CATGCATTTTTAATATGT
228265 CCAACATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
CATGCATTTTTAATATGTTT
Found at i:229193 original size:10 final size:10
Alignment explanation
Indices: 229178--229211 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
229168 CCACTAGGAA
229178 AAAGATTTTT
1 AAAGATTTTT
229188 AAAGATTTTT
1 AAAGATTTTT
*
229198 AAAATATTTTT
1 -AAAGATTTTT
229209 AAA
1 AAA
229212 ATGATCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (10 bp):
AAAGATTTTT
Found at i:229213 original size:11 final size:11
Alignment explanation
Indices: 229177--229212 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
229167 TCCACTAGGA
229177 AAAAGATTTTT
1 AAAAGATTTTT
229188 -AAAGATTTTT
1 AAAAGATTTTT
*
229198 AAAATATTTTT
1 AAAAGATTTTT
229209 AAAA
1 AAAA
229213 TGATCTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (11 bp):
AAAAGATTTTT
Found at i:234044 original size:167 final size:165
Alignment explanation
Indices: 233871--234264 Score: 374
Period size: 167 Copynumber: 2.4 Consensus size: 165
233861 GGATTTTTTT
* * *
233871 CTCCGTAAACT-TTTTT-GAGAGGA-TTTTCAAGGGTTTAAAATTTTTTAAATTCTTTAAATATT
1 CTCCGTAAA-TGTTTTTGGA-AGGATTTTTC-AGGGTTTAAAATTTTTAAAATTCATTAAATACT
* ** *
233933 AAAATTTAATTCA-TACTAAATTAGTTTTCAGAAATTCATTCA-TTATCATGAG-TTTTTGAATT
63 AAAATTTAA-TCACCACTAAATTAGTTAGCAAAAATTCA--CAGTTATCATGAGCTTTTT--ATT
*
233995 TTTTCCTTGAAA-TTCCCT-TACTTTTGAAATATGGAGTTTTCTA
123 TTTTCCTTGAAATTTCCCTGT--TTTCGAAATATGGAGTTTTCTA
** ** **
234038 CTCCGTAAATGTTTTTGGAAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATTAAATACTATT
1 CTCCGTAAATGTTTTTGGAAGGATTTTTCAGGGTTTAAAATTTTTAAAATTCATTAAATACTAAA
* *
234103 ATTTAATCACCATTAAATTAGTTAGCAAAAATTCACATGTTTTCATGAGCTTTTTATTTTTTCCT
66 ATTTAATCACCACTAAATTAGTTAGCAAAAATTCACA-GTTATCATGAGCTTTTTATTTTTTCCT
* *
234168 TGAAATTTTCCTGTTTTCGAAATATGGAGTTTTTTTA
130 TGAAATTTCCCTGTTTTCGAAATATGGAG-TTTTCTA
* * * ** ** *
234205 CTCCATAAATATTTTCGGGAA-GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATA
1 CTCCGTAAATGTTTT-TGGAAGGATTTTTCAGGGTTTAAAATTTTTAAAATTCATTAAATA
234265 TCATCATTTA
Statistics
Matches: 194, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
165 2 0.01
166 33 0.17
167 142 0.73
168 17 0.09
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (165 bp):
CTCCGTAAATGTTTTTGGAAGGATTTTTCAGGGTTTAAAATTTTTAAAATTCATTAAATACTAAA
ATTTAATCACCACTAAATTAGTTAGCAAAAATTCACAGTTATCATGAGCTTTTTATTTTTTCCTT
GAAATTTCCCTGTTTTCGAAATATGGAGTTTTCTA
Found at i:235021 original size:22 final size:22
Alignment explanation
Indices: 234982--235030 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
234972 TAGCTGATAG
*
234982 GAAAAAATAGACATAAAAGAAA
1 GAAAAAATAGACATAAAAAAAA
*
235004 GAAAGAAATAGAGA-AAAAAAAA
1 GAAA-AAATAGACATAAAAAAAA
235026 GAAAA
1 GAAAA
235031 TTAAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (22 bp):
GAAAAAATAGACATAAAAAAAA
Found at i:236205 original size:43 final size:43
Alignment explanation
Indices: 236144--236311 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
236134 TTAAAGGTGG
*
236144 TAAAGGTGTCAATATGCTGATTCAAGGCCAGTGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACT
* * *
236187 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACT
*
236230 TAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGTGATATTGGACT
1 T-AA-A-G-----G-TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACT
* *
236282 TAAAAGTACCAATATGCTGATTCAAGGCCA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCA
236312 ACGAAATTGG
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
43 62 0.59
44 3 0.03
45 1 0.01
46 1 0.01
50 1 0.01
51 3 0.03
52 34 0.32
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACT
Found at i:236261 original size:95 final size:95
Alignment explanation
Indices: 236098--236326 Score: 314
Period size: 95 Copynumber: 2.4 Consensus size: 95
236088 ATGAAAAGAA
* * * * * ** ** *
236098 TGCCAATATGCTAATTCAAGGCCAACGATATTTGATTTAAAGGTGGTAAAGGTGTCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAACGAAATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
*
236163 ATTCAAGGCCAGTGATATTGGACTTAAAGG
66 ATTCAAGGCCAGTGATATTGGACTTAAAAG
* * *
236193 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAACGAAATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
236258 ATTCAAGGCCAGTGATATTGGACTTAAAAG
66 ATTCAAGGCCAGTGATATTGGACTTAAAAG
* *
236288 TACCAATATGCTGATTCAAGGCCAACGAAATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAACGAAATTGGACTTA
236327 GAAGGGTTGC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
95 116 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (95 bp):
TGCCAATATGCTGATTCAAGGCCAACGAAATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
ATTCAAGGCCAGTGATATTGGACTTAAAAG
Found at i:236433 original size:34 final size:33
Alignment explanation
Indices: 236391--236818 Score: 305
Period size: 34 Copynumber: 12.8 Consensus size: 33
236381 GTGGGCTTTG
* *
236391 AAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
236423 AAAAAGG-AAAAGCTGCCACGGAGATGTGGACTT
1 -AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
**
236456 AAAAGGAAAAAGGGTGCCATTGAGTTGTGGA-TT
1 AAAAGGAAAAA-GGTGCCACAGAGTTGTGGACTT
* * *
236489 ------TAAAAGGTGCCACAAAGTTATGGACTT
1 AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
* *
236516 AAAAGGAAAAAGGGTGCCACGGAGTTGTAGACTT
1 AAAAGGAAAAA-GGTGCCACAGAGTTGTGGACTT
* **
236550 AAAAGGAAAAAAAAATGTGCCATGGAGTTGTGGACTT
1 AAAAGG----AAAAAGGTGCCACAGAGTTGTGGACTT
* *
236587 AAAAGGAAAAGGGGTGCTAC-GAAGTTGTGGACTT
1 AAAAGGAAAA-AGGTGCCACAG-AGTTGTGGACTT
236621 AAAAGG-AAAAGGTGCCACTA-AGTTGTAGG-CTTT
1 AAAAGGAAAAAGGTGCCAC-AGAGTTGT-GGAC-TT
* * *
236654 GAAAA-AAAAAAGTTGCCACAGAGTTGTGGGCTTT
1 -AAAAGGAAAAAGGTGCCACAGAGTTGTGGAC-TT
*
236688 GAAAA-GAAAAAGGTGTCACAGAGTTGT-GAGCTTT
1 -AAAAGGAAAAAGGTGCCACAGAGTTGTGGA-C-TT
* * * *
236722 GAAAAGAAAAAACGTGCCACAGAGTTATAGACTT
1 -AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
*
236756 AAAAGGAAAAAAAGGATGCCATAGAGTTGTGGACTT
1 AAAAGG--AAAAAGG-TGCCACAGAGTTGTGGACTT
*
236792 AAAAGG-AAAAGGTACCACAGAGTTGTG
1 AAAAGGAAAAAGGTGCCACAGAGTTGTG
236819 AGATTTGGGA
Statistics
Matches: 321, Mismatches: 43, Indels: 63
0.75 0.10 0.15
Matches are distributed among these distances:
26 15 0.05
27 6 0.02
32 33 0.10
33 64 0.20
34 123 0.38
35 25 0.08
36 25 0.08
37 25 0.08
38 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (33 bp):
AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
Found at i:236465 original size:32 final size:33
Alignment explanation
Indices: 236391--236465 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
236381 GTGGGCTTTG
* * * *
236391 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTA
1 AAAAGGAAAAGCTGCCACGGAGATGTGGACTTA
236424 AAAAGGAAAAGCTGCCACGGAGATGTGGACTT-
1 AAAAGGAAAAGCTGCCACGGAGATGTGGACTTA
236456 AAAAGGAAAA
1 AAAAGGAAAA
236466 AGGGTGCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
32 10 0.26
33 28 0.74
ACGTcount: A:0.43, C:0.12, G:0.31, T:0.15
Consensus pattern (33 bp):
AAAAGGAAAAGCTGCCACGGAGATGTGGACTTA
Found at i:236796 original size:103 final size:99
Alignment explanation
Indices: 236391--236818 Score: 333
Period size: 103 Copynumber: 4.3 Consensus size: 99
236381 GTGGGCTTTG
* * * * * *
236391 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGGAAAAGC-TGCCACGGAGATGTGGACT
1 AAAAGAAAAAGGTGCCACAGAGTTGT-GGCTT-AAAAGAAAAAACGTGCCACAGAGTTGTAGACT
* * *
236455 TAAAAGG-AAAAAGGGTGCCATTGAGTTGTGGA-TT
64 TAAAAGGAAAAAAAGATGCCATAGAGTTGTGGACTT
* * * ** *
236489 -----TAAAAGGTGCCACAAAGTTATGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTAGACT
1 AAAAGAAAAAGGTGCCACAGAGTTGTGG-CTTAAAA-GAAAAAACGTGCCACAGAGTTGTAGACT
* *
236549 TAAAAGGAAAAAAAAATGTGCCATGGAGTTGTGGACTT
64 TAAAAGGAAAAAAAGA--TGCCATAGAGTTGTGGACTT
* * * *
236587 AAAAGGAAAAGGGGTGCTAC-GAAGTTGTGGACTTAAAAG-GAAAAGGTGCCACTA-AGTTGTAG
1 AAAA-GAAAA-AGGTGCCACAG-AGTTGTGG-CTTAAAAGAAAAAACGTGCCAC-AGAGTTGTAG
* * * * *
236649 GCTTTGAAA--AAAAAAAGTTGCCACAGAGTTGTGGGCTTT
61 AC-TTAAAAGGAAAAAAAGATGCCATAGAGTTGTGGAC-TT
* *
236688 GAAAAGAAAAAGGTGTCACAGAGTTGTGAGCTTTGAAAAGAAAAAACGTGCCACAGAGTTATAGA
1 -AAAAGAAAAAGGTGCCACAGAGTTGTG-GC-TT-AAAAGAAAAAACGTGCCACAGAGTTGTAGA
236753 CTTAAAAGGAAAAAAAGGATGCCATAGAGTTGTGGACTT
62 CTTAAAAGGAAAAAAA-GATGCCATAGAGTTGTGGACTT
* *
236792 AAAAGGAAAAGGTACCACAGAGTTGTG
1 AAAAGAAAAAGGTGCCACAGAGTTGTG
236819 AGATTTGGGA
Statistics
Matches: 261, Mismatches: 41, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
92 6 0.02
93 26 0.10
94 24 0.09
95 5 0.02
97 16 0.06
98 2 0.01
100 29 0.11
101 11 0.04
102 22 0.08
103 63 0.24
104 18 0.07
105 39 0.15
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (99 bp):
AAAAGAAAAAGGTGCCACAGAGTTGTGGCTTAAAAGAAAAAACGTGCCACAGAGTTGTAGACTTA
AAAGGAAAAAAAGATGCCATAGAGTTGTGGACTT
Found at i:242880 original size:12 final size:12
Alignment explanation
Indices: 242865--242898 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
242855 GACTTTTTTA
242865 TTTTTCTCTCTT
1 TTTTTCTCTCTT
*
242877 TTTTTCCCTCTT
1 TTTTTCTCTCTT
*
242889 TTTTTTTCTC
1 TTTTTCTCTC
242899 CCCACTCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTCTCTT
Found at i:243694 original size:164 final size:160
Alignment explanation
Indices: 243390--243914 Score: 461
Period size: 164 Copynumber: 3.2 Consensus size: 160
243380 TAAATTGAAT
* ** * * *
243390 TTTTCAAAACTAATTTA-ATAAGAATCT-AATGACAATATTAGATGAATTATAAAAAATTT-AAA
1 TTTTCAAAACTAATTTACAT--G-ATTTAAATGATGATATTTGATGAA-TATTAAAATTTTGAAA
* * * * * *
243452 TCGAGAAAAAT-CTCCTTGAAAATATTTATGAAATGGAAAACTTGGTTTTTCAAAAACAAGAGAA
62 T-GAGAAAAATCCTCC-TGAAAACATTTATGGAATAGAAAATTTGGTTTTTCAAAAATAAGAAAA
*
243516 TTTCGAGGAAAAAATGAAAAACTTATGAAAATAAATAAAA
125 TTTC-AAGAAAAAAT-AAAAACTTATG-AAATAAA-AAAA
*
243556 TTTTCAAAACTAATTTACTATGATTTAAATGATGATATTTGATGAATATTAAAATTTTGAACTGA
1 TTTTCAAAACTAATTTAC-ATGATTTAAATGATGATATTTGATGAATATTAAAATTTTGAAATGA
*
243621 G-AAAATCCTCCTGAAAACATTTATGGAATAGAAAATTTGGTTTTTCAAAAATAGGAAAATTTCA
65 GAAAAATCCTCCTGAAAACATTTATGGAATAGAAAATTTGGTTTTTCAAAAATAAGAAAATTTCA
*
243685 AGAAAAAAATAAAAAACTCATG-------AAAA
130 AG-AAAAAAT-AAAAACTTATGAAATAAAAAAA
* *
243711 -TTTCAAAACTGATTTACAGTGATTTAAATGATGATATTTGATGAATATTTAAAATTTTGAATTG
1 TTTTCAAAACTAATTTACA-TGATTTAAATGATGATATTTGATGAATA-TTAAAATTTTGAAATG
* ** * * * * *
243775 AGAAAAACCCTTCCCCAATAACATTTATGGAATAAAAAACTCT-ATATTTCGAAAATACA-AAAA
64 AGAAAAATCC-TCCTGAA-AACATTTATGGAATAGAAAA-TTTGGTTTTTCAAAAATA-AGAAAA
*
243838 TTTCAAGAAAAAATAAAAAATTCATGAAATAAAAGAAAA
125 TTTCAAGAAAAAATAAAAACTT-ATGAAAT-AAA-AAAA
* * * *
243877 TTTTCAAAATTGATTTA-GTGAATTAAATGATGATATTT
1 TTTTCAAAACTAATTTACATGATTTAAATGATGATATTT
243915 AAAGAATTTT
Statistics
Matches: 302, Mismatches: 33, Indels: 49
0.79 0.09 0.13
Matches are distributed among these distances:
153 1 0.00
154 44 0.15
155 21 0.07
156 12 0.04
157 15 0.05
158 41 0.14
159 2 0.01
163 2 0.01
164 67 0.22
165 39 0.13
166 41 0.14
167 15 0.05
168 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (160 bp):
TTTTCAAAACTAATTTACATGATTTAAATGATGATATTTGATGAATATTAAAATTTTGAAATGAG
AAAAATCCTCCTGAAAACATTTATGGAATAGAAAATTTGGTTTTTCAAAAATAAGAAAATTTCAA
GAAAAAATAAAAACTTATGAAATAAAAAAA
Found at i:243734 original size:154 final size:158
Alignment explanation
Indices: 243552--243866 Score: 437
Period size: 154 Copynumber: 2.0 Consensus size: 158
243542 GAAAATAAAT
243552 AAAATTTTCAAAACTAATTTACTATGATTTAAATGATGATATTTGATGAATA-TTAAAATTTTGA
1 AAAATTTTCAAAACTAATTTACTATGATTTAAATGATGATATTTGATGAATATTTAAAATTTTGA
* ** * * * * **
243616 ACTGAG-AAAATCC-TCCTGAA-AACATTTATGGAATAGAAAA-TTTGGTTTTTCAAAAATAGGA
66 ACTGAGAAAAACCCTTCCCCAATAACATTTATGGAATAAAAAACTCT-ATATTTCAAAAATACAA
243677 AAATTTCAAGAAAAAAATAAAAAACTCATG
130 AAATTTCAAG-AAAAAATAAAAAACTCATG
*
243707 AAAA-TTTCAAAACTGATTTAC-AGTGATTTAAATGATGATATTTGATGAATATTTAAAATTTTG
1 AAAATTTTCAAAACTAATTTACTA-TGATTTAAATGATGATATTTGATGAATATTTAAAATTTTG
* *
243770 AATTGAGAAAAACCCTTCCCCAATAACATTTATGGAATAAAAAACTCTATATTTCGAAAATACAA
65 AACTGAGAAAAACCCTTCCCCAATAACATTTATGGAATAAAAAACTCTATATTTCAAAAATACAA
*
243835 AAATTTCAAGAAAAAATAAAAAATTCATG
130 AAATTTCAAGAAAAAATAAAAAACTCATG
243864 AAA
1 AAA
243867 TAAAAGAAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
153 1 0.01
154 44 0.31
155 21 0.15
156 6 0.04
157 26 0.18
158 41 0.29
159 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (158 bp):
AAAATTTTCAAAACTAATTTACTATGATTTAAATGATGATATTTGATGAATATTTAAAATTTTGA
ACTGAGAAAAACCCTTCCCCAATAACATTTATGGAATAAAAAACTCTATATTTCAAAAATACAAA
AATTTCAAGAAAAAATAAAAAACTCATG
Found at i:243855 original size:19 final size:19
Alignment explanation
Indices: 243833--243879 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
243823 TCGAAAATAC
243833 AAAAATTTCAAGAAA-AAA
1 AAAAATTTCAAGAAATAAA
* *
243851 TAAAAAATTCATGAAATAAA
1 -AAAAATTTCAAGAAATAAA
243871 AGAAAATTT
1 A-AAAATTT
243880 TCAAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAAATTTCAAGAAATAAA
Found at i:246431 original size:28 final size:28
Alignment explanation
Indices: 246398--246453 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
246388 TTTGGAGTTG
246398 ACATTAATCTATTTCGGTCAGTTGAGAT
1 ACATTAATCTATTTCGGTCAGTTGAGAT
246426 ACATTAATCTATTTCGGTCAGTTGAGAT
1 ACATTAATCTATTTCGGTCAGTTGAGAT
246454 TGGTCACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (28 bp):
ACATTAATCTATTTCGGTCAGTTGAGAT
Found at i:249670 original size:52 final size:52
Alignment explanation
Indices: 249600--249772 Score: 328
Period size: 52 Copynumber: 3.3 Consensus size: 52
249590 GAAAATTTAT
* *
249600 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
249652 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
249704 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
249756 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
249773 AAGCTACATT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:249868 original size:49 final size:49
Alignment explanation
Indices: 249804--250525 Score: 986
Period size: 49 Copynumber: 14.9 Consensus size: 49
249794 TAAAGGTGCC
249804 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * * * *
249853 AGGTGTCAATATGCTGATTCAAGGCCAGATATATTGGAC-T-----TAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
249896 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA-TTGAAAGATAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAAGATAA
* * * *
249945 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
249994 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * * * *
250043 AGGTGCCAATATGCTGATTCAAGGTCAGCTATATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
250092 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * * *
250141 AGGTGCCAATATGCTGATTCAAGGCCA-CTATATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
250189 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * * * *
250238 AGGTGCCAATATGCTGATTCAAGGTCAGCTATATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
250287 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-AA
250337 GGTGCCAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 ------AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * *
250392 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
*
250435 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
* * * * *
250484 AGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
250526 GAAGGGTTGC
Statistics
Matches: 593, Mismatches: 58, Indels: 44
0.85 0.08 0.06
Matches are distributed among these distances:
43 76 0.13
44 1 0.00
48 46 0.08
49 418 0.70
50 3 0.01
55 2 0.00
56 47 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
Found at i:250025 original size:98 final size:98
Alignment explanation
Indices: 249804--250525 Score: 1103
Period size: 98 Copynumber: 7.4 Consensus size: 98
249794 TAAAGGTGCC
*
249804 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGTCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
249869 ATTCAAGGCCAGATATATTGGACTT----A--A
66 ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
249896 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA-TTGAAAGATAAAGGTGCCAATATGCT
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAAGATAAAGGTGCCAATATGCT
249960 GATTCAAGGCCAGCTATATTGGACTTAAAGATGA
65 GATTCAAGGCCAGCTATATTGGACTTAAAGATGA
249994 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
250059 ATTCAAGGTCAGCTATATTGGACTTAAAGATGA
66 ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
250092 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
250157 ATTCAAGGCCA-CTATATTGGACTTAAAGATGA
66 ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
250189 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
*
250254 ATTCAAGGTCAGCTATATTGGACTTAAAGATGA
66 ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
250287 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAGGTGCCAA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-AA------AGGTGCCAA
* * * *
250352 TGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
59 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGA
* * * *
250392 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
* *
250451 AGTCAAGGCCAGCTACATTGGACTTAAAGATGA
66 ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
* * * * *
250484 AGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
250526 GAAGGGTTGC
Statistics
Matches: 596, Mismatches: 16, Indels: 34
0.92 0.02 0.05
Matches are distributed among these distances:
91 2 0.00
92 170 0.29
93 1 0.00
96 1 0.00
97 96 0.16
98 240 0.40
99 5 0.01
104 1 0.00
105 80 0.13
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTAAAGATGA
Found at i:250500 original size:92 final size:93
Alignment explanation
Indices: 250343--250530 Score: 342
Period size: 92 Copynumber: 2.0 Consensus size: 93
250333 TAAAGGTGCC
250343 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
250408 ATTCAAGGCCAGCTATATTGGACTTA-A
66 ATTCAAGGCCAGCTATATTGGACTTAGA
*
250435 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
* *
250500 ATTCAGGGCCAGCTATATTGGGCTTAGA
66 ATTCAAGGCCAGCTATATTGGACTTAGA
250528 AGG
1 AGG
250531 GTTGCCACCG
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 88 0.96
93 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (93 bp):
AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTAGA
Found at i:250569 original size:33 final size:34
Alignment explanation
Indices: 250525--250664 Score: 207
Period size: 33 Copynumber: 4.2 Consensus size: 34
250515 TATTGGGCTT
250525 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
250558 AGAATGG-TTGCCACCAACTTGGGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
250591 AGAAGGGTTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
250625 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
250658 A-AAGGGT
1 AGAAGGGT
250665 GAAAGATGCC
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.02
33 67 0.71
34 26 0.27
ACGTcount: A:0.19, C:0.16, G:0.36, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:250611 original size:67 final size:67
Alignment explanation
Indices: 250525--250664 Score: 214
Period size: 67 Copynumber: 2.1 Consensus size: 67
250515 TATTGGGCTT
250525 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGGGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTTGCCACCAACTTGGGTGGGCTT
*
250588 TGG
65 TAG
* * *
250591 AGAAGGGTTTGCCACTGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCAACTTGGGTGGGCTTT
250656 AG
66 AG
250658 A-AAGGGT
1 AGAAGGGT
250665 GAAAGATGCC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
66 15 0.22
67 53 0.78
ACGTcount: A:0.19, C:0.16, G:0.36, T:0.29
Consensus pattern (67 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCAACTTGGGTGGGCTTT
AG
Found at i:250763 original size:105 final size:106
Alignment explanation
Indices: 250646--251455 Score: 1131
Period size: 105 Copynumber: 7.8 Consensus size: 106
250636 CACCGACTTG
** * * * * *
250646 TGTGGGCTTTAGAAAGGGTGAAAGATGCCACGAAGTTGTGGAC-TT-AAAA-AGAACAA-AGTGC
1 TGTGGGCTTTA-AAA-GGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGC
* ** *
250707 CACGGAGTTGTGGGCTTTAAAAGGGAAAAAAAAGTGCCACGGAGT
64 CACGGAGTTGTGGGCTTTAAAA-AG-AAAAAGTGTGCCACAGAGT
* * *
250752 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGC-TT-AGAA-GGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
* * * *
250813 ACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
65 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
* * *
250854 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGTTGTGGGC-TT-AGAA-GGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
* * * *
250914 ACGGAGTTGTGGGC-TT-AGAAGGAAAAGAGTGCCAC-GTAAT
65 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAG-AGT
*
250954 TGTGGGCTTT-AAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
*
251018 CAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
66 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
251059 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
251123 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
66 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
251164 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
**
251228 CGGAGTTGTGGGCTTTGGAAAGAAAAAGTGTGCCACAGAGT
66 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
251269 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
251333 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
66 CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
*
251374 TGTGGGCTTTAAACAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
251439 ACGGAGTTGTGGGCTTT
65 ACGGAGTTGTGGGCTTT
251456 GAAGAAAAAA
Statistics
Matches: 658, Mismatches: 32, Indels: 27
0.92 0.04 0.04
Matches are distributed among these distances:
99 1 0.00
100 46 0.07
101 68 0.10
102 36 0.05
103 35 0.05
104 36 0.05
105 359 0.55
106 12 0.02
107 65 0.10
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (106 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCA
CGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
Found at i:251462 original size:70 final size:69
Alignment explanation
Indices: 250646--251465 Score: 956
Period size: 70 Copynumber: 11.8 Consensus size: 69
250636 CACCGACTTG
** * * *
250646 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGTTGTGGAC-TT-AA-AAAGAACAAAGTGC
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAA-AA-AGAGTGC
250707 CACGGAGT
62 CACGGAGT
* * *
250715 TGTGGGCTTTAAAAGGGAAAAAAAAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCA
1 TGTGGGCTTTAAAA-GG-AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGAGTGCCA
*
250780 CGAAGT
64 CGGAGT
* * *
250786 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGAGTGCCACG
250850 GAGT
66 GAGT
* * * *
250854 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGAGTGCCACG
250917 GAGT
66 GAGT
* * * * *
250921 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAA-AGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGAGTGCCACG
250983 GAGT
66 GAGT
* * * *
250987 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGA-AAAAAGAGTGCC
*
251052 ACAGAGT
63 ACGGAGT
*
251059 TGTGGGCTTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG--AA-GAAAAAAGAGTGCC
251122 ACGGAGT
63 ACGGAGT
* * * *
251129 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAG-GTGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGA-AAAAAGAGTGCCAC
251192 GGAGT
65 GGAGT
*
251197 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGGAA-AGAAAAAGTGTGC
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GAAGA-AAAAAGAGTGC
*
251261 CACAGAGT
62 CACGGAGT
*
251269 TGTGGGCTTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG--AA-GAAAAAAGAGTGCC
251332 ACGGAGT
63 ACGGAGT
* * * *
251339 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAAG-GTGCCA
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-GA-AGAAAAAAGAGTGCCA
251403 CGGAGT
64 CGGAGT
251409 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAA
251466 ATGTCACTGA
Statistics
Matches: 672, Mismatches: 47, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
66 20 0.03
67 104 0.15
68 140 0.21
69 47 0.07
70 171 0.25
71 69 0.10
72 119 0.18
73 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAAGAGTGCCACG
GAGT
Found at i:251489 original size:32 final size:31
Alignment explanation
Indices: 251426--251706 Score: 327
Period size: 32 Copynumber: 9.0 Consensus size: 31
251416 TTTGAAAAGG
* * *
251426 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAA-A-TGCCACTGAGTCGTGGACTTTGAA
*
251459 GAAAAAAATGTCACTGAGTCGTGGACTTTG-A
1 G-AAAAAATGCCACTGAGTCGTGGACTTTGAA
* *
251490 GACAAAATGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAA
*
251521 GGAAAAGATGCCACTGAGTCGTGGACTTTG-A
1 -GAAAAAATGCCACTGAGTCGTGGACTTTGAA
* *
251552 GACAAAATGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAA
*
251583 GGAAAAGATGCCACTGAGTCGTGGACTTTG-A
1 -GAAAAAATGCCACTGAGTCGTGGACTTTGAA
* *
251614 GACAAAATGCCACTGAGTCGTGGACTTTAAA
1 GAAAAAATGCCACTGAGTCGTGGACTTTGAA
*
251645 GGAAAAGATGCCACTGAGTCGTGGACTTTG-A
1 -GAAAAAATGCCACTGAGTCGTGGACTTTGAA
* * *
251676 GAAGAGATTGCCACTGAGTCGTGGATTTTGA
1 GAA-AAAATGCCACTGAGTCGTGGACTTTGA
251707 GAAGAGATTT
Statistics
Matches: 213, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
30 80 0.38
31 30 0.14
32 96 0.45
33 2 0.01
34 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (31 bp):
GAAAAAATGCCACTGAGTCGTGGACTTTGAA
Found at i:251540 original size:62 final size:62
Alignment explanation
Indices: 251435--251700 Score: 435
Period size: 62 Copynumber: 4.3 Consensus size: 62
251425 GGAAAAAGAG
* * * * * * *
251435 TGCCACGGAGTTGTGGGCTTTGAAGAAAAAAATGTCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
251497 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
251559 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
251621 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
251684 TGCCACTGAGTCGTGGA
1 TGCCACTGAGTCGTGGA
251701 TTTTGAGAAG
Statistics
Matches: 194, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
61 1 0.01
62 175 0.90
63 18 0.09
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:252662 original size:16 final size:16
Alignment explanation
Indices: 252643--252674 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
252633 TTTTTTTTCT
*
252643 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
252659 TTTTGTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
252675 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:252672 original size:10 final size:9
Alignment explanation
Indices: 252631--252673 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
252621 GTTTTTCCTC
252631 TCTTTTTTT
1 TCTTTTTTT
252640 TCTTTTTTT
1 TCTTTTTTT
*
252649 T-TCTTTTT
1 TCTTTTTTT
* *
252657 TGTTTTGTT
1 TCTTTTTTT
252666 TCTTTTTT
1 TCTTTTTT
252674 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:252674 original size:11 final size:10
Alignment explanation
Indices: 252633--252657 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
252623 TTTTCCTCTC
252633 TTTTTTTTCT
1 TTTTTTTTCT
252643 TTTTTTTTCT
1 TTTTTTTTCT
252653 TTTTT
1 TTTTT
252658 GTTTTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:252926 original size:13 final size:13
Alignment explanation
Indices: 252910--252983 Score: 75
Period size: 14 Copynumber: 5.6 Consensus size: 13
252900 TGCCTTTGCA
252910 TTTTTTTTGTG--
1 TTTTTTTTGTGTT
252921 TTTTTTTTGT-TT
1 TTTTTTTTGTGTT
252933 TTGTTTTTTGTTGTT
1 TT-TTTTTTG-TGTT
252948 TTTTTTTGTGTGTT
1 TTTTTTT-TGTGTT
252962 TTTTTTGTT-TGTT
1 TTTTTT-TTGTGTT
252975 TGTTTTTTT
1 T-TTTTTTT
252984 TTTCATCACC
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.18
12 2 0.04
13 14 0.25
14 22 0.40
15 7 0.13
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:252933 original size:17 final size:16
Alignment explanation
Indices: 252910--252984 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 16
252900 TGCCTTTGCA
252910 TTTTTTTTGTGTTTTT-
1 TTTTTTTTGT-TTTTTG
252926 TTTGTTTTTGTTTTTTG
1 TTT-TTTTTGTTTTTTG
*
252943 TTGTTTTTT-TTTGTGTG
1 TT-TTTTTTGTTT-TTTG
252960 TTTTTTTTGTTTGTTTG
1 TTTTTTTTGTTT-TTTG
252977 TTTTTTTT
1 TTTTTTTT
252985 TTCATCACCT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 17 0.33
17 34 0.65
18 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTG
Found at i:259930 original size:52 final size:52
Alignment explanation
Indices: 259860--260032 Score: 328
Period size: 52 Copynumber: 3.3 Consensus size: 52
259850 GAAAATTTAT
* *
259860 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
259912 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
259964 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
260016 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
260033 AAGATCAGTG
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 119 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:260045 original size:104 final size:104
Alignment explanation
Indices: 259860--260052 Score: 316
Period size: 104 Copynumber: 1.9 Consensus size: 104
259850 GAAAATTTAT
*
259860 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
***
259925 TACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
66 TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
*
259964 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
*
260029 TACA-AAGATCAGTGTATCGATACA
66 TACATAAGAT-AATGTATCGATACA
260053 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 2 0.02
104 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (104 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:260059 original size:13 final size:13
Alignment explanation
Indices: 260041--260065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
260031 CAAAGATCAG
260041 TGTATCGATACAA
1 TGTATCGATACAA
260054 TGTATCGATACA
1 TGTATCGATACA
260066 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:260147 original size:33 final size:33
Alignment explanation
Indices: 260105--260174 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
260095 GGCAGTAGCT
260105 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
260138 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
260171 TACA
1 TACA
260175 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:260148 original size:13 final size:13
Alignment explanation
Indices: 260130--260154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
260120 CAAAAAAATA
260130 TGTATCGATACAT
1 TGTATCGATACAT
260143 TGTATCGATACA
1 TGTATCGATACA
260155 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:261501 original size:149 final size:150
Alignment explanation
Indices: 261251--261530 Score: 359
Period size: 149 Copynumber: 1.9 Consensus size: 150
261241 ATATCCTAGA
* * * * * *
261251 GGACTTGGAAAAGATAAAAACAAACCCATTCATAATTCACACCTTTGGCGTAGAAGCGGACTCGA
1 GGACTTGAAAAAGATAAAAACAAACCCACTCATAATTAACACCTTTGACATAGAAGCGAACTCGA
** * *
261316 TAGTTTTATAAGGCTAGGTTTTGGGGAAAATGCTAAAATATCTCTAAGGTTTACCATCGACTTAA
66 TAGTTTTATAAGGCTAGGTTTCAGGGAAAATACTAAAATATCCCTAAGGTTTACCATCGACTTAA
261381 AAGTGCCCGATGATCGTAAG
131 AAGTGCCCGATGATCGTAAG
* * * *
261401 GGACTTGAAAAAGATAAAAACAAA-CCACTCCTAATTAATA-CTTTCGACATAGAAGCGAATTGG
1 GGACTTGAAAAAGATAAAAACAAACCCACTCATAATTAACACCTTT-GACATAGAAGCGAACTCG
* * * *
261464 GTAGTTTT-TTAGGACTAGGTTTCAGGGAAAATACTAAAATATCCCTAAGGTTTACCATTGCCTT
65 ATAGTTTTATAAGG-CTAGGTTTCAGGGAAAATACTAAAATATCCCTAAGGTTTACCATCGACTT
261528 AAA
129 AAA
261531 GTACTTGGTG
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
148 8 0.07
149 79 0.72
150 23 0.21
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (150 bp):
GGACTTGAAAAAGATAAAAACAAACCCACTCATAATTAACACCTTTGACATAGAAGCGAACTCGA
TAGTTTTATAAGGCTAGGTTTCAGGGAAAATACTAAAATATCCCTAAGGTTTACCATCGACTTAA
AAGTGCCCGATGATCGTAAG
Found at i:263368 original size:10 final size:10
Alignment explanation
Indices: 263349--263377 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
263339 TAGTTGGAAA
263349 AAAT-AAATT
1 AAATAAAATT
263358 AAATAAAATT
1 AAATAAAATT
263368 AAATAAAATT
1 AAATAAAATT
263378 TTTAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATAAAATT
Found at i:263788 original size:166 final size:165
Alignment explanation
Indices: 263469--263820 Score: 392
Period size: 166 Copynumber: 2.1 Consensus size: 165
263459 GATCAGAAGT
* * * *
263469 TGAAATAAATTAAGTTTTTTAAAAATGATTTAATGTGAATTTAATGATAATATTAGATGAATTTT
1 TGAAATAAATGAA-TTTTTCAAAAATAATTTAATGTGAATTTAATGACAATATTAGATGAATTTT
* * ** * * *
263534 AAAAATTTTAAATCGAGAAAAGTCCCTTCGAAAATATTTGGGAATAGAAAACTTAGTTTTTTAGA
65 AAAAATTTTAAACCGAGAAAAGACCC-TCGAAAATATTTACGAAGAGAAAACTTAGTATTTCAGA
* *
263599 AATAGGAGAATTTTAGAG-AAAAAAATGAAAAAATTA
129 AATAGGAGAATTTAAGAGAAAAAAAATGAAAAAATCA
263635 TGAAAATAAATGAATTTTTCAAAAATAATTTAATGTGAATTTAATGACAATATTAGATGAATTTT
1 TG-AAATAAATGAATTTTTCAAAAATAATTTAATGTGAATTTAATGACAATATTAGATGAATTTT
* *
263700 AAAAATTTTGAACCGAGAAAA-ACACC-CGAAAATATTTACGAAGGAGCAAACTCTA-TATTTCA
65 AAAAATTTTAAACCGAGAAAAGAC-CCTCGAAAATATTTACGAA-GAGAAAACT-TAGTATTTCA
* * *
263762 -AAATCATGTAG-ATTTCAAGGGAAAAAAAAATGAAAAACTCA
127 GAAAT-A-GGAGAATTT-AAGAG-AAAAAAAATGAAAAAATCA
*
263803 TGAAATAAAAGGAATTTT
1 TGAAAT-AAATGAATTTT
263821 GAAAAATTGA
Statistics
Matches: 157, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
164 18 0.11
165 18 0.11
166 79 0.50
167 14 0.09
168 28 0.18
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (165 bp):
TGAAATAAATGAATTTTTCAAAAATAATTTAATGTGAATTTAATGACAATATTAGATGAATTTTA
AAAATTTTAAACCGAGAAAAGACCCTCGAAAATATTTACGAAGAGAAAACTTAGTATTTCAGAAA
TAGGAGAATTTAAGAGAAAAAAAATGAAAAAATCA
Found at i:273710 original size:21 final size:22
Alignment explanation
Indices: 273670--273716 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
273660 CGAAATTGTT
273670 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
273692 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAGGGGGAG
273714 AAA
1 AAA
273717 AGAAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:274434 original size:20 final size:21
Alignment explanation
Indices: 274409--274463 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
274399 ATATCGATAC
**
274409 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
*
274429 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACATGAAAAG
274450 AATGTATCGATACA
1 AATGTATCGATACA
274464 GGTCATTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:274533 original size:13 final size:13
Alignment explanation
Indices: 274515--274573 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
274505 ACACACAATA
274515 TGTATCGATACAT
1 TGTATCGATACAT
274528 TGTATCGATACA-
1 TGTATCGATACAT
* *
274540 T-CA-C-A-A-AA
1 TGTATCGATACAT
274548 TGTATCGATACAT
1 TGTATCGATACAT
274561 TGTATCGATACAT
1 TGTATCGATACAT
274574 CACAAAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
7 1 0.03
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:274551 original size:33 final size:33
Alignment explanation
Indices: 274495--274595 Score: 186
Period size: 33 Copynumber: 3.1 Consensus size: 33
274485 GTAGCCAAAT
*
274495 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
274527 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
274560 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
274593 TTG
1 TTG
274596 GCTTGTAACG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 13 0.19
33 54 0.81
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:274553 original size:20 final size:20
Alignment explanation
Indices: 274528--274593 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
274518 ATCGATACAT
274528 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
274548 TGTATCGATACAT-------
1 TGTATCGATACATCACAAAA
274561 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
274581 TGTATCGATACAT
1 TGTATCGATACAT
274594 TGGCTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:277556 original size:20 final size:22
Alignment explanation
Indices: 277511--277558 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
277501 TATGGATATG
277511 TATAT-ATAATAAAATCAAAAT
1 TATATCATAATAAAATCAAAAT
* *
277532 CATATCATAA-AAAA-CAACAT
1 TATATCATAATAAAATCAAAAT
277552 TATATCA
1 TATATCA
277559 ACAAGCAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 8 0.35
22 4 0.17
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.29
Consensus pattern (22 bp):
TATATCATAATAAAATCAAAAT
Found at i:280386 original size:66 final size:66
Alignment explanation
Indices: 280311--280950 Score: 294
Period size: 71 Copynumber: 9.0 Consensus size: 66
280301 CGCTTTTCCT
* * *
280311 TTTTCTTTTCAAAGACCACATAAATTGGTGGCATCTTTTTATCC-TTTTAGTCTTCAAAGAGCAA
1 TTTT-TTTTCAAAGACCACACAAGTTGGTGGCA-CCTTTTA-CCTTTTTAGTCTTCAAAGAGCAA
*
280375 GATG
63 GACG
*
280379 TTTTTTTCTTTTCAAA-ACCCACACAAGTTGGTGAG-ACCTTTTACCTTTTTAGTCCTCAAAGAG
1 ---TTTT-TTTTCAAAGA-CCACACAAGTTGGTG-GCACCTTTTACCTTTTTAGTCTTCAAAGAG
* *
280442 CAGGATG
60 CAAGACG
* * *
280449 TTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCAGGAC
1 TTTTTTTTCAAAGACCACACAAGTTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCAAGAC
280514 G
66 G
* *
280515 TTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCATACCTTTTTATCC-TTTTAGTCCTT-AAAGA
1 TTTTTT-T-TCAAAGACCACACAAGTTGGTGGC--ACC-TTTTA-CCTTTTTAGT-CTTCAAAGA
* *
280578 GCCAGACATTT
59 GCAAGAC---G
** * * * * ** *
280589 TTTTCTTTTTGAAG-CGCACGCAAGCTAGTGGCACCCATTTTATACTTTTTTCTCTTCAAAGAGT
1 TTTT-TTTTCAAAGAC-CACACAAGTTGGTGGCA-CC-TTTTA-CCTTTTTAGTCTTCAAAGAGC
*
280653 AAGATACTTTTCCTT
61 AAG--A------C-G
* * * *
280668 TTTCTTTTTCAAAGCCCACACAAGCTACACAAGCTAGTGACATCTTTTTATCC-TTTTAGTCTTT
1 TTT-TTTTTCAAAG-----AC---C-ACACAAGTTGGTGGCA-CCTTTTA-CCTTTTTAGTC-TT
* *
280732 CAAAGAACAAGATG
53 CAAAGAGCAAGACG
* *
280746 TTTTTTTTTTTCAAAGCCCACACAAGTTGGTGACACC-TTTACCTTTTTAGTCCTT-AAAGAGCA
1 ---TTTTTTTTCAAAGACCACACAAGTTGGTGGCACCTTTTACCTTTTTAGT-CTTCAAAGAGCA
*
280809 AGACAC
62 AGAC-G
* * * *
280815 TTTTTTTTCCAAAGCCCACATAAGTTGGTGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGA
1 TTTTTTTT-CAAAGACCACACAAGTTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCAAGA
*
280880 CA
65 CG
* * *
280882 TTTTTTCTCTTAAAGCCCACACAAGTTAGTGGCACACCTTTTTATCC-TTTTAGTCCTT-AAAGA
1 TTTTTT-T-TCAAAGACCACACAAGTTGGTGG--CACC-TTTTA-CCTTTTTAGT-CTTCAAAGA
*
280945 GGAAGA
59 GCAAGA
280951 TGCACTTTTC
Statistics
Matches: 461, Mismatches: 53, Indels: 110
0.74 0.08 0.18
Matches are distributed among these distances:
65 1 0.00
66 69 0.15
67 37 0.08
68 81 0.18
69 16 0.03
70 38 0.08
71 85 0.18
72 24 0.05
73 31 0.07
74 5 0.01
75 4 0.01
79 12 0.03
80 11 0.02
81 4 0.01
85 2 0.00
86 6 0.01
87 20 0.04
88 15 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (66 bp):
TTTTTTTTCAAAGACCACACAAGTTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCAAGAC
G
Found at i:280539 original size:68 final size:69
Alignment explanation
Indices: 280310--281036 Score: 464
Period size: 68 Copynumber: 10.1 Consensus size: 69
280300 ACGCTTTTCC
* * * *
280310 TTTTTCTTTTCAAAGACCACATAAATTGGTGGCATCTTTTTATCC-TTTTAGTCTTCAAAGAGCA
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTTTATCCTTTTTAGTCTTCAAAGAGCA
* *
280374 AGATGTT
64 GGACG-T
* *
280381 TTTTTCTTTTCAAAACCCACACAAGTTGGTGAG-ACCTTTTA-CCTTTTTAGTCCTCAAAGAGCA
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTG-GCACCTTTTATCCTTTTTAGTCTTCAAAGAGCA
*
280444 GGATG-
64 GGACGT
280449 TTTTT-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA-CCTTTTTAGTCTTCAAAGAGCAGG
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTATCCTTTTTAGTCTTCAAAGAGCAGG
280512 ACGT
66 ACGT
*
280516 TTTTTCTCTTAAAGCCCACACAAGTTGGTGGCATACCTTTTTATCC-TTTTAGTCCTT-AAAGAG
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGC--ACC-TTTTATCCTTTTTAGT-CTTCAAAGAG
*
280579 CCA-GACATT
62 -CAGGAC-GT
* * * * * * **
280588 TTTTTCTTTTTGAAGCGCACGCAAGCTAGTGGCACCCATTTTATACTTTTTTCTCTTCAAAGAGT
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA-CC-TTTTATCCTTTTTAGTCTTCAAAGAG-
* * *
280653 AAGATACTTTT
62 CAG-GAC--GT
* * *
280664 CCTTTTTCTTTTTCAAAGCCCACACAAGCTACACAAGCTAGTGACATCTTTTTATCC-TTTTAGT
1 --TTTTTC-TTTT-AAAGCCCACACAAG-T--------TGGTGGCA-CCTTTTATCCTTTTTAGT
* * *
280728 CTTTCAAAGAACAAGATGT
52 C-TTCAAAGAGCAGGACGT
* *
280747 TTTTTTTTTTCAAAGCCCACACAAGTTGGTGACACC-TTTA-CCTTTTTAGTCCTT-AAAGAGCA
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTATCCTTTTTAGT-CTTCAAAGAGCA
* *
280809 AGACACT
64 GGAC-GT
** * *
280816 TTTTT-TTCCAAAGCCCACATAAGTTGGTGGCACCTTTTA-CCTTTTTAGTCCTCAAAGAGCAGG
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTATCCTTTTTAGTCTTCAAAGAGCAGG
*
280879 ACAT
66 ACGT
* *
280883 TTTTTCTCTTAAAGCCCACACAAGTTAGTGGCACACCTTTTTATCC-TTTTAGTCCTT-AAAGAG
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGG--CACC-TTTTATCCTTTTTAGT-CTTCAAAGAG
* * * *
280946 GAAGATGCA
62 CAGGACG-T
* * * * *
280955 CTTTTCTTTTTAAAGCCCACACAAGCTAGTGGCACCCGTTTTATACATTTTTA-TCCTCAAAGAG
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA-CC-TTTTAT-CCTTTTTAGTCTTCAAAGAG
* **
281019 CATGACAC
62 CAGGACGT
281027 TTTTTCTTTT
1 TTTTTCTTTT
281037 TCTTTTTCAA
Statistics
Matches: 529, Mismatches: 78, Indels: 98
0.75 0.11 0.14
Matches are distributed among these distances:
65 1 0.00
66 52 0.10
67 40 0.08
68 89 0.17
69 21 0.04
70 37 0.07
71 84 0.16
72 51 0.10
73 66 0.12
74 5 0.01
75 2 0.00
76 2 0.00
78 11 0.02
79 12 0.02
80 19 0.04
81 5 0.01
83 1 0.00
85 1 0.00
86 7 0.01
87 15 0.03
88 8 0.02
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (69 bp):
TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTATCCTTTTTAGTCTTCAAAGAGCAGG
ACGT
Found at i:281017 original size:367 final size:365
Alignment explanation
Indices: 280342--281061 Score: 1122
Period size: 367 Copynumber: 2.0 Consensus size: 365
280332 AAATTGGTGG
*
280342 CATCTTTTTATCCTTTTAGTCTTCAAAGAGCAAGATGTTTTTTTCTTTTCAAAACCCACACAAGT
1 CATCTTTTTATCCTTTTAGTCTTCAAAGAACAAGATGTTTTTTTCTTTTCAAAACCCACACAAGT
* * ** *
280407 TGGTGAGACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGATGTTTTTTTTTAAAGCCCACACAAG
66 TGGTGACACCTTTTACCTTTTTAGTCCTCAAAGAGCAAGAACTTTTTTTTCAAAGCCCACACAAG
* *
280472 TTGGTGGCACCTTTTACCTTTTTAGTCTTCAAAGAGCAGGACGTTTTTTCTCTTAAAGCCCACAC
131 TTGGTGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGACATTTTTTCTCTTAAAGCCCACAC
* * * * *
280537 AAGTTGGTGGCATACCTTTTTATCCTTTTAGTCCTTAAAGAGCCAGACATTTTTTTCTTTTTGAA
196 AAGTTAGTGGCACACCTTTTTATCCTTTTAGTCCTTAAAGAGCAAGACA-TCTTTTCTTTTTAAA
* * * * * * *
280602 GCGCACGCAAGCTAGTGGCACCCATTTTATACTTTTTTCTCTTCAAAGAGTAAGATACTTTTCCT
260 GCCCACACAAGCTAGTGGCACCCATTTTATACATTTTTATCCTCAAAGAGCAAGACACTTTTCCT
280667 TTTTCTTTTTCAAAGCCCACACAAGCTACACAAGCTAGTGA
325 TTTTCTTTTTCAAAGCCCACACAAGCTACACAAGCTAGTGA
*
280708 CATCTTTTTATCCTTTTAGTCTTTCAAAGAACAAGATGTTTTTTT-TTTTCAAAGCCCACACAAG
1 CATCTTTTTATCCTTTTAGTC-TTCAAAGAACAAGATGTTTTTTTCTTTTCAAAACCCACACAAG
* *
280772 TTGGTGACACC-TTTACCTTTTTAGTCCTTAAAGAGCAAGACACTTTTTTTTCCAAAGCCCACAT
65 TTGGTGACACCTTTTACCTTTTTAGTCCTCAAAGAGCAAGA-ACTTTTTTTT-CAAAGCCCACAC
280836 AAGTTGGTGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGACATTTTTTCTCTTAAAGCCCA
128 AAGTTGGTGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGACATTTTTTCTCTTAAAGCCCA
*
280901 CACAAGTTAGTGGCACACCTTTTTATCCTTTTAGTCCTTAAAGAGGAAGATGCA-CTTTTCTTTT
193 CACAAGTTAGTGGCACACCTTTTTATCCTTTTAGTCCTTAAAGAGCAAGA--CATCTTTTCTTTT
* *
280965 TAAAGCCCACACAAGCTAGTGGCACCCGTTTTATACATTTTTATCCTCAAAGAGCATGACACTTT
256 TAAAGCCCACACAAGCTAGTGGCACCCATTTTATACATTTTTATCCTCAAAGAGCAAGACACTTT
*
281030 TTCTTTTTCTTTTTCAAAGCCCACACAAGCTA
321 TCCTTTTTCTTTTTCAAAGCCCACACAAGCTA
281062 GTGGCACCTT
Statistics
Matches: 322, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
365 27 0.08
366 57 0.18
367 236 0.73
369 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (365 bp):
CATCTTTTTATCCTTTTAGTCTTCAAAGAACAAGATGTTTTTTTCTTTTCAAAACCCACACAAGT
TGGTGACACCTTTTACCTTTTTAGTCCTCAAAGAGCAAGAACTTTTTTTTCAAAGCCCACACAAG
TTGGTGGCACCTTTTACCTTTTTAGTCCTCAAAGAGCAGGACATTTTTTCTCTTAAAGCCCACAC
AAGTTAGTGGCACACCTTTTTATCCTTTTAGTCCTTAAAGAGCAAGACATCTTTTCTTTTTAAAG
CCCACACAAGCTAGTGGCACCCATTTTATACATTTTTATCCTCAAAGAGCAAGACACTTTTCCTT
TTTCTTTTTCAAAGCCCACACAAGCTACACAAGCTAGTGA
Found at i:281110 original size:41 final size:42
Alignment explanation
Indices: 281028--281110 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
281018 GCATGACACT
* *
281028 TTTTCTTTTTCTTTTTCAAAGCCCACACAAGCTAGTGGCACC
1 TTTTCTTTTTCTTTTTCAAAACCCACACAAGCTAGTAGCACC
* * * *
281070 TTTT-TTTTTCTTTTTCAAAACCTATACAAGTTGGTAGCACC
1 TTTTCTTTTTCTTTTTCAAAACCCACACAAGCTAGTAGCACC
281111 CTTTACCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 31 0.89
42 4 0.11
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (42 bp):
TTTTCTTTTTCTTTTTCAAAACCCACACAAGCTAGTAGCACC
Done.