Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 60 of 208
Found at i:22789540 original size:43 final size:43
Alignment explanation
Indices: 22789479--22789567 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
22789469 TTTTTCTTAT
22789479 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
1 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
*
22789522 TTTGATGGCATTATATATGAACTGTGGGAGTAGCATTTAAAAA
1 TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
22789565 TTT
1 TTT
22789568 CTTTTCTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (43 bp):
TTTGATGGCATTATATATGAACTATGGGAGTAGCATTTAAAAA
Found at i:22793196 original size:836 final size:823
Alignment explanation
Indices: 22791568--22793221 Score: 2519
Period size: 836 Copynumber: 2.0 Consensus size: 823
22791558 GAAAAATCGA
22791568 AAGGTGATTCTTTTATGATTTTTATTTTTTATTCTTTGAATCTGTTTTTTTTTTACTTATAAAAA
1 AAGGTGATTCTTTTATGATTTTTATTTTTTATTCTTTGAATC-GTTTTTTTTTTACTTATAAAAA
* ** *
22791633 ACAAAAAGAAAAAGAAAAAACTGACCTGGCACTTGGCCTTCCACGATCGCGGGAGGTGAAGCTTC
65 ACAAAAAGAAAAAGAAAAAACTGACCTGGCACTTGGCCTTCCACGATCGCAGGAAATGAAGCTTA
* *
22791698 CGTCACCAAAAAGGAAAGAAAATCGAAAGGTTTTCTCTATTTCTAGAAGGCCGGGTTTTGGCTTT
130 CGTCACCAAAAAGGAAAGAAAACCGAAAGGTTTTCTCTATTTCTAGAAGGCCAGGTTTTGGCTTT
* * * *
22791763 GGCATTTTTTACTCCAAAATTGGGGTTCCGTGTTAAAAAGGAATAAAATGGGAATTTTTGAGTCT
195 GGCATTTTTGACTCCAAAATCGGGGTTCCGCGTTAAAAAGGAATAAAATGAGAATTTTTGAGTCT
* * *
22791828 TTCCAGCCACCGTGGACGGCGGCGCCATTGCCGGTGACCGGCGGCCGTCACGGTGGCCTGACGAC
260 TTCCAGCCACCGTGGACGGCGGCGCCATTGCCGGTGACCGACCGCCGTCACGGTGGCCCGACGAC
** * *
22791893 CGGAGTAGTTGTGTTGTTTCAGAGAAAAACAAGGGGGACTTTCAGTTTTTTTTTAAAAAAAGGCA
325 CGGAGTAGGGGTGTTGTTTCAGAGAAAAACAAGAGGGACTTTCAG--TTTTTTAAAAAAAAGGCA
* * *
22791958 GAAATGAGCTTTTTTTTAAAAAAAATTAGATTAAATAAGCGTATGAAACGACAACGTTTTGGGCC
388 AAAATGAGCTTTTTTTTAAAAAAAATTAGATTAAATAAGCGTATGAAACCACAACGTGTTGGGCC
* * *
22792023 AGTGCTCATAGACGCCAAAACGACATCATTTTGATGCAAACCCGATCTGACTCGACCTGACCCGG
453 AGTGCTCATAGACGCCAAAACGACATCATTTTGACGCAAACCCGATCTGACCCGACCTAACCCGG
* *
22792088 TAGATCTACGTGTTTTCTTTTAGATGGTTTATTTGCGTTTTCAATCCTTCCACCTTTTATTTATT
518 TAGATCCACGTGTTTTCTTTTAGATGGTTTATTTGCGTTTTCAATCCTTCCACCTTTTACTTATT
22792153 TTTTAATCTAATCCTATCTTTTTTTTGTATTTAAAATTTTACCATACAATTTTATCTTTGTTTTA
583 TTTTAATCTAATCCTATCTTTTTTTTGTATTTAAAATTTTACCATACAATTTTATCTTTGTTTTA
* * *
22792218 TTTTGTTCCCATGAGAAATGGTGCGCATAAGGACAAGGAATATTTTCCTGTTTCGTCCTTCTCTT
648 TTTTGTCCCCATGAGAAACGGTGCGCATAAGGACAAGGAATATTTTCCTATTTCGTCCTTCTCTT
* *
22792283 TCATTCGTGTGTTGCAATTTAGTCTCATATTCTGTTTTTATCCCGATTTCTCCCCTAAAATTTTA
713 TCATTCATGTGTTGCAATTTAGTCCCATATTCTGTTTTTATCCCGATTTCTCCCCTAAAATTTTA
*
22792348 TTTAAGTTTCAATTTAGTCCTTTTTATATAGTTTCGACTATATAAT
778 TTTAAGTTTCAATTTAGTCCTTATTATATAGTTTCGACTATATAAT
22792394 AAGGTGATTCTTTTATGATTTTTATTTTTTTATTCTTTGAATC-TTTTTTTTTTACTTATAAAAA
1 AAGGTGATTCTTTTATGATTTTTA-TTTTTTATTCTTTGAATCGTTTTTTTTTTACTTATAAAAA
* *
22792458 ACAGAAATAAAAAGAAAAGAAAAAGGAAAAACTGACCTGGCGCTTGGCCTTCCAC-AGTCGCAGG
65 AC----------A-AAAAGAAAAAGAAAAAACTGACCTGGCACTTGGCCTTCCACGA-TCGCAGG
* * * * * *
22792522 AAATGAAGCTTATGTTACCAAAAGGGAAAGATAACCGAAATGTTTTCTCTATTTCTAGAAGGTCA
118 AAATGAAGCTTACGTCACCAAAAAGGAAAGAAAACCGAAAGGTTTTCTCTATTTCTAGAAGGCCA
*
22792587 GGTTTTGGCTTTGGCATTTTTGACTCTAAAATCGGGGTTCCGCGTTAAAAAGGAATAAAATGAGA
183 GGTTTTGGCTTTGGCATTTTTGACTCCAAAATCGGGGTTCCGCGTTAAAAAGGAATAAAATGAGA
* * * * * * *
22792652 ATTTTTGGGTCTTTTCGGCCACTGTGGATGGCGGCGCCGTTGCCGGTGACTGACCGCCGTCACGG
248 ATTTTTGAGTCTTTCCAGCCACCGTGGACGGCGGCGCCATTGCCGGTGACCGACCGCCGTCACGG
22792717 TGGCCCGAC-AGCCGGAGTAGGGGTGTTGTTTCAGAGAAAAACAAGAGGGACTTTCAG-TTTTTA
313 TGGCCCGACGA-CCGGAGTAGGGGTGTTGTTTCAGAGAAAAACAAGAGGGACTTTCAGTTTTTTA
* * *
22792780 AAAAAAAGGCAAAAATGAGTTTTTTTTTTTAAAAAAGTTAGATTAAATAAGCGTATGAAACCACA
377 AAAAAAAGGCAAAAATGAG-CTTTTTTTTAAAAAAAATTAGATTAAATAAGCGTATGAAACCACA
* * * * *
22792845 GCGTGTTGGGCTAGTGCTCATAGACGCCAAAACGGCATCGTTTTGACGCGAACCCGATCCT-ACC
441 ACGTGTTGGGCCAGTGCTCATAGACGCCAAAACGACATCATTTTGACGCAAACCCGAT-CTGACC
* *
22792909 CGACCTAACCCGGTAGATCCGCGTGTTTTCTTTTATATGGTTTATTTGCGTTTTCAATCCTTCCA
505 CGACCTAACCCGGTAGATCCACGTGTTTTCTTTTAGATGGTTTATTTGCGTTTTCAATCCTTCCA
22792974 CCTTTTACTTATTTTTTAATCTAATCCTATCTATTTTTTTGTATTTAAAATTTTACCATACAATT
570 CCTTTTACTTATTTTTTAATCTAATCCTATCT-TTTTTTTGTATTTAAAATTTTACCATACAATT
*
22793039 TTATCTTTGTTTTATTTTGGTCCCCATGAGGAACGGTGCGCATAAGGAC-AGAGAATATTTTCCT
634 TTATCTTTGTTTTATTTT-GTCCCCATGAGAAACGGTGCGCATAAGGACAAG-GAATATTTTCCT
* * *
22793103 ATTTCGTCCTTCTCTTTCATTCATGTGTTGCAATTTATTCCCATATTTTGTTTTTATCTCGATTT
697 ATTTCGTCCTTCTCTTTCATTCATGTGTTGCAATTTAGTCCCATATTCTGTTTTTATCCCGATTT
22793168 CTCCCCTAAAATTTTATTTAAGTTTCAATTTAGTCCTTATTATATAGTTTCGAC
762 CTCCCCTAAAATTTTATTTAAGTTTCAATTTAGTCCTTATTATATAGTTTCGAC
22793222 CCTTCCTAGA
Statistics
Matches: 748, Mismatches: 61, Indels: 28
0.89 0.07 0.03
Matches are distributed among these distances:
825 23 0.03
826 24 0.03
827 18 0.02
833 23 0.03
834 186 0.25
835 57 0.08
836 417 0.56
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (823 bp):
AAGGTGATTCTTTTATGATTTTTATTTTTTATTCTTTGAATCGTTTTTTTTTTACTTATAAAAAA
CAAAAAGAAAAAGAAAAAACTGACCTGGCACTTGGCCTTCCACGATCGCAGGAAATGAAGCTTAC
GTCACCAAAAAGGAAAGAAAACCGAAAGGTTTTCTCTATTTCTAGAAGGCCAGGTTTTGGCTTTG
GCATTTTTGACTCCAAAATCGGGGTTCCGCGTTAAAAAGGAATAAAATGAGAATTTTTGAGTCTT
TCCAGCCACCGTGGACGGCGGCGCCATTGCCGGTGACCGACCGCCGTCACGGTGGCCCGACGACC
GGAGTAGGGGTGTTGTTTCAGAGAAAAACAAGAGGGACTTTCAGTTTTTTAAAAAAAAGGCAAAA
ATGAGCTTTTTTTTAAAAAAAATTAGATTAAATAAGCGTATGAAACCACAACGTGTTGGGCCAGT
GCTCATAGACGCCAAAACGACATCATTTTGACGCAAACCCGATCTGACCCGACCTAACCCGGTAG
ATCCACGTGTTTTCTTTTAGATGGTTTATTTGCGTTTTCAATCCTTCCACCTTTTACTTATTTTT
TAATCTAATCCTATCTTTTTTTTGTATTTAAAATTTTACCATACAATTTTATCTTTGTTTTATTT
TGTCCCCATGAGAAACGGTGCGCATAAGGACAAGGAATATTTTCCTATTTCGTCCTTCTCTTTCA
TTCATGTGTTGCAATTTAGTCCCATATTCTGTTTTTATCCCGATTTCTCCCCTAAAATTTTATTT
AAGTTTCAATTTAGTCCTTATTATATAGTTTCGACTATATAAT
Found at i:22793593 original size:17 final size:17
Alignment explanation
Indices: 22793573--22793609 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22793563 TTTTTATTCC
22793573 TATGA-TATGATTATTAT
1 TATGATTAT-ATTATTAT
22793590 TATGATTATATTATTAT
1 TATGATTATATTATTAT
22793607 TAT
1 TAT
22793610 TGTAGTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (17 bp):
TATGATTATATTATTAT
Found at i:22795214 original size:6 final size:6
Alignment explanation
Indices: 22795203--22795243 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
22795193 ATTTTATGTT
22795203 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA T-CAAA T-CAAA T
1 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA T
22795244 AACTCATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (6 bp):
TCCAAA
Found at i:22795753 original size:30 final size:31
Alignment explanation
Indices: 22795693--22795772 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
22795683 CATAAAATAC
* *
22795693 TTTAAA-AACTTAA-AT-ATAAAAAATGGTA
1 TTTAAATAATTTAATATAATAAAAAATGATA
22795721 TTTAAATAATTTAATATAATAAAAAAT-ATA
1 TTTAAATAATTTAATATAATAAAAAATGATA
*
22795751 TTTAAATAATTTAGTATAATAA
1 TTTAAATAATTTAATATAATAA
22795773 TACATAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 6 0.13
29 6 0.13
30 25 0.54
31 9 0.20
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAAAAAATGATA
Found at i:22796158 original size:30 final size:31
Alignment explanation
Indices: 22796122--22796269 Score: 193
Period size: 30 Copynumber: 5.0 Consensus size: 31
22796112 AATTTTTTTG
*
22796122 CATTTTGACTCCTAAACTTTTCT-AAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
*
22796152 CATTTTGACCTCTAAACTTTT-TCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
**
22796182 CATTTCAACCCCTAAACTTTT-T--AAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
22796210 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
* *
22796240 CATTTTAACTCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
22796270 TAATTTTGCC
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 22 0.21
29 1 0.01
30 79 0.75
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (31 bp):
CATTTTGACCCCTAAACTTTTCTCAAAATTA
Found at i:22796219 original size:58 final size:60
Alignment explanation
Indices: 22796132--22796269 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 60
22796122 CATTTTGACT
* *
22796132 CCTAAACTTTTCTAAAATTACATTTTGACCTCTAAACTTTTTCAAAATTACATTTCAACC
1 CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
* *
22796192 CCTAAACTTTT-T-AAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACT
1 CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
22796250 CCTAAAC-TTTCTCAAAATTA
1 CCTAAACTTTTCT-AAAATTA
22796270 TAATTTTGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
57 3 0.04
58 50 0.70
59 1 0.01
60 17 0.24
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.40
Consensus pattern (60 bp):
CCTAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACC
Found at i:22796291 original size:88 final size:88
Alignment explanation
Indices: 22796122--22796291 Score: 220
Period size: 88 Copynumber: 1.9 Consensus size: 88
22796112 AATTTTTTTG
* * * *
22796122 CATTTTGACTCCTAAACTTTTCTAAAATTACATTTTGACCTCTAAACTTTTTCAAAATTACATTT
1 CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCTCTAAACTTTCTCAAAATTAAATTT
* *
22796187 CAACCCCTAAACTTTTTAAATTA
66 CAACCCCAAAAATTTTTAAATTA
22796210 CATTTTGACCCCTAAAC-TTTCTCAAAATTACATTTTAA-CTCCTAAACTTTCTCAAAATTATAA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTACATTTTAACCT-CTAAACTTTCTCAAAATTA-AA
**
22796273 TTT-TGCCCCAAAAATTTTT
63 TTTCAACCCCAAAAATTTTT
22796292 CTGCGTTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
87 7 0.10
88 60 0.85
89 4 0.06
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.41
Consensus pattern (88 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTAACCTCTAAACTTTCTCAAAATTAAATTT
CAACCCCAAAAATTTTTAAATTA
Found at i:22796502 original size:27 final size:27
Alignment explanation
Indices: 22796472--22796525 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22796462 AAGGGGAGCA
*
22796472 AAAAAAAAGAAAGAAAAAAACAGCAGC
1 AAAAAAAAGAAAAAAAAAAACAGCAGC
* **
22796499 AAAAACACTAAAAAAAAAAACAGCAGC
1 AAAAAAAAGAAAAAAAAAAACAGCAGC
22796526 CACACCACCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.72, C:0.15, G:0.11, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAAAACAGCAGC
Found at i:22796803 original size:32 final size:32
Alignment explanation
Indices: 22796767--22796827 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
22796757 AAAAAGCAAA
* *
22796767 AAAAAAAGAGAAAGAAACAAGAAGCAAAAGAG
1 AAAAAAAGAGAAAGAAAAAAGAAGAAAAAGAG
22796799 AAAAAAAGAGAAAGAAAAAAGAAGAAAAA
1 AAAAAAAGAGAAAGAAAAAAGAAGAAAAA
22796828 TGGGTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (32 bp):
AAAAAAAGAGAAAGAAAAAAGAAGAAAAAGAG
Found at i:22796807 original size:10 final size:10
Alignment explanation
Indices: 22796767--22796827 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
22796757 AAAAAGCAAA
22796767 AAAAAAAGAG
1 AAAAAAAGAG
22796777 AAAGAAACA-AG
1 AAA-AAA-AGAG
*
22796788 AAGCAAAAGAG
1 AA-AAAAAGAG
22796799 AAAAAAAGAG
1 AAAAAAAGAG
*
22796809 AAAGAAAAAAG
1 AAA-AAAAGAG
22796820 AAGAAAAA
1 AA-AAAAA
22796828 TGGGTGAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
10 14 0.33
11 26 0.62
12 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:22796812 original size:16 final size:15
Alignment explanation
Indices: 22796766--22796823 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
22796756 CAAAAAGCAA
22796766 AAAAAAAAGAGAAAG
1 AAAAAAAAGAGAAAG
*
22796781 AAACAAGAAGCA-AAAG
1 AAA-AAAAAG-AGAAAG
22796797 AGAAAAAAAGAGAAAG
1 A-AAAAAAAGAGAAAG
22796813 AAAAAAGAAGA
1 AAAAAA-AAGA
22796824 AAAATGGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 9 0.25
16 24 0.67
17 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGAAAG
Found at i:22796937 original size:4 final size:4
Alignment explanation
Indices: 22796928--22797001 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
22796918 GGCTGATCGG
* *
22796928 GAAA GAAA GAAA AAAGA GAAA GAAAA GAGAA GAAA GAAA G-AA G-AA GGAA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
* *
22796977 GAAGA AAAA GAAA GAAA AAAA GAAA
1 GAA-A GAAA GAAA GAAA GAAA GAAA
22797002 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
3 6 0.10
4 38 0.66
5 14 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:22796949 original size:13 final size:13
Alignment explanation
Indices: 22796931--22797001 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
22796921 TGATCGGGAA
22796931 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
*
22796944 AGAAAGAAAAGAG
1 AGAAAGAAAAAAG
*
22796957 AAGAAAGAAAGAAG
1 -AGAAAGAAAAAAG
*
22796971 AAGGAAGAAGAAAA-
1 -AGAAAGAA-AAAAG
22796985 AGAAAGAAAAAA-
1 AGAAAGAAAAAAG
22796997 AGAAA
1 AGAAA
22797002 AATAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
12 9 0.18
13 19 0.38
14 19 0.38
15 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:22796958 original size:7 final size:7
Alignment explanation
Indices: 22796928--22797018 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
22796918 GGCTGATCGG
22796928 GAAAGAAA
1 GAAA-AAA
22796936 GAAAAAA
1 GAAAAAA
*
22796943 G-AGAAA
1 GAAAAAA
*
22796949 GAAAAGA
1 GAAAAAA
*
22796956 GAAGAAA
1 GAAAAAA
*
22796963 GAAAGAA
1 GAAAAAA
**
22796970 GAAGGAA
1 GAAAAAA
*
22796977 GAAGAAA
1 GAAAAAA
*
22796984 -AAGAAA
1 GAAAAAA
22796990 GAAAAAAA
1 G-AAAAAA
22796998 GAAAAATA
1 GAAAAA-A
22797006 -AAAAAA
1 GAAAAAA
*
22797012 TAAAAAA
1 GAAAAAA
22797019 AACAGCAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
6 12 0.18
7 45 0.66
8 11 0.16
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:22796965 original size:18 final size:18
Alignment explanation
Indices: 22796944--22797001 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
22796934 AAGAAAAAAG
22796944 AGAAAGAAAAGAGAAGAA
1 AGAAAGAAAAGAGAAGAA
22796962 AGAAAGAAGAAG-GAAG-A
1 AGAAAGAA-AAGAGAAGAA
* *
22796979 AGAAAAAGAAAGA-AAAAA
1 AGAAAGA-AAAGAGAAGAA
22796997 AGAAA
1 AGAAA
22797002 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.35
18 19 0.56
19 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAAGAGAAGAA
Found at i:22796966 original size:31 final size:31
Alignment explanation
Indices: 22796928--22797003 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
22796918 GGCTGATCGG
22796928 GAAAGAAAGAAAAAAG-AGAA-AGAAAAGAGAA
1 GAAAGAAAGAAAAAAGAAGAAGA-AAAAGA-AA
* *
22796959 GAAAGAAAGAAGAAGGAAGAAGAAAAAGAAA
1 GAAAGAAAGAAAAAAGAAGAAGAAAAAGAAA
*
22796990 GAAAAAAAGAAAAA
1 GAAAGAAAGAAAAA
22797004 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 28 0.72
32 10 0.26
33 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (31 bp):
GAAAGAAAGAAAAAAGAAGAAGAAAAAGAAA
Found at i:22797002 original size:18 final size:18
Alignment explanation
Indices: 22796929--22797020 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 18
22796919 GCTGATCGGG
*
22796929 AAAGAAAG-AAAAAAGAG
1 AAAGAAAGAAAAAAAGAA
*
22796946 AAAGAAAAGAGAAGAAAGAA
1 AAAG-AAAGA-AAAAAAGAA
* *
22796966 AGAAG-AAG-GAAGAAGAA
1 A-AAGAAAGAAAAAAAGAA
22796983 AAAGAAAGAAAAAAAGAA
1 AAAGAAAGAAAAAAAGAA
*
22797001 AAATAAA-AAAATAAA-AA
1 AAAGAAAGAAAA-AAAGAA
22797018 AAA
1 AAA
22797021 CAGCAAGCCA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.05
17 23 0.38
18 20 0.33
19 3 0.05
20 8 0.13
21 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (18 bp):
AAAGAAAGAAAAAAAGAA
Found at i:22797017 original size:6 final size:6
Alignment explanation
Indices: 22796929--22797009 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
22796919 GCTGATCGGG
* * *
22796929 AAAGAA AGA-AA AAAGAG AAAGAA AAGAGAA GAAAG-- AAAGAA GAAGGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA -AAAGAA AAAGAA -AAAGAA
* *
22796977 GAAGAA AAAGAA AGAA-AA AAAGAA AAATAA AAA
1 AAAGAA AAAGAA A-AAGAA AAAGAA AAAGAA AAA
22797010 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
4 4 0.07
5 6 0.10
6 33 0.57
7 13 0.22
8 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:22797657 original size:18 final size:20
Alignment explanation
Indices: 22797626--22797668 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
22797616 CTCGTGTTTC
22797626 AAAAATTTTGAGTTTT-AAA
1 AAAAATTTTGAGTTTTCAAA
22797645 AAAAATTTT-AGTTTTCAAA
1 AAAAATTTTGAGTTTTCAAA
22797664 AAAAA
1 AAAAA
22797669 ATTCTCGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAAATTTTGAGTTTTCAAA
Found at i:22797704 original size:56 final size:56
Alignment explanation
Indices: 22797610--22797724 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 56
22797600 TTTTTTTAAG
* * *
22797610 AAAATTCTCGTGTTTCAAAAATTTTGAGTTTTAAAAAAAATTTTAGT-TTTCAAAAA
1 AAAATTCTCGCGTTTCAAAAATCTTCAGTTTTAAAAAAAATTTTAGTGTTT-AAAAA
* * * *
22797666 AAAATTCTCGCGTTTCACAAATCTTCATGTTTT-CAAAAACTTTTCGTGTTTAAAAA
1 AAAATTCTCGCGTTTCAAAAATCTTCA-GTTTTAAAAAAAATTTTAGTGTTTAAAAA
22797722 AAA
1 AAA
22797725 CCGTGTTTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 42 0.84
57 8 0.16
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (56 bp):
AAAATTCTCGCGTTTCAAAAATCTTCAGTTTTAAAAAAAATTTTAGTGTTTAAAAA
Found at i:22797816 original size:51 final size:51
Alignment explanation
Indices: 22797677--22797824 Score: 140
Period size: 52 Copynumber: 2.9 Consensus size: 51
22797667 AAATTCTCGC
* * *
22797677 GTTTCACAAATCTTCATGTTTTCAAAAACTTTTCGT-GTTTAAAAAAAACCGT
1 GTTTCA-AAATTTTCATATTTTCAAAAA-TTTTCGTATTTTAAAAAAAACCGT
* * * * **
22797729 GTTTCAAAAATTTTCATTTTTTTAAAATTTTTTCGTATTTTCAAAAATCCCGT
1 GTTTC-AAAATTTTCATATTTTCAAAA-ATTTTCGTATTTTAAAAAAAACCGT
*
22797782 GTTTC-AAATTTTCGTATTTTCAAAAATTTCTCGTA-TTTAAAAA
1 GTTTCAAAATTTTCATATTTTCAAAAATTT-TCGTATTTTAAAAA
22797825 TTTTTTCACT
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
50 10 0.13
51 22 0.28
52 29 0.37
53 18 0.23
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (51 bp):
GTTTCAAAATTTTCATATTTTCAAAAATTTTCGTATTTTAAAAAAAACCGT
Found at i:22797823 original size:17 final size:18
Alignment explanation
Indices: 22797730--22797828 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 18
22797720 AAAAACCGTG
* *
22797730 TTTCAAAAATTTTCATTT
1 TTTCAAAAATTTTCGTAT
* *
22797748 TTTTAAAATTTTTTCGTAT
1 TTTCAAAA-ATTTTCGTAT
** *
22797767 TTTCAAAAA-TCCCGT-G
1 TTTCAAAAATTTTCGTAT
22797783 TTTC--AAATTTTCGTAT
1 TTTCAAAAATTTTCGTAT
22797799 TTTCAAAAATTTCTCGTA-
1 TTTCAAAAATTT-TCGTAT
22797817 TTT-AAAAATTTT
1 TTTCAAAAATTTT
22797829 TTCACTTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
14 3 0.05
15 4 0.06
16 9 0.14
17 12 0.19
18 16 0.25
19 19 0.30
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTAT
Found at i:22797946 original size:20 final size:21
Alignment explanation
Indices: 22797921--22797962 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
22797911 TCGTGTTTGT
*
22797921 AAAATTCTCGCG-TTTTAAAA
1 AAAATTATCGCGTTTTTAAAA
*
22797941 AAAATTATCGTGTTTTTAAAA
1 AAAATTATCGCGTTTTTAAAA
22797962 A
1 A
22797963 TTATCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAATTATCGCGTTTTTAAAA
Found at i:22797982 original size:18 final size:18
Alignment explanation
Indices: 22797940--22798009 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
22797930 GCGTTTTAAA
*
22797940 AAAAATTATCGTGTTTTT
1 AAAAATTATCGTGTTTTC
22797958 AAAAATTATCGTGTTTTC
1 AAAAATTATCGTGTTTTC
* * *
22797976 AACAATTCTCGCG-TTTC
1 AAAAATTATCGTGTTTTC
* * *
22797993 ACAAATTTTCGTATTTT
1 AAAAATTATCGTGTTTT
22798010 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 12 0.29
18 30 0.71
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTATCGTGTTTTC
Found at i:22798078 original size:17 final size:17
Alignment explanation
Indices: 22798028--22798252 Score: 210
Period size: 17 Copynumber: 12.9 Consensus size: 17
22798018 TAGAAAAAGA
*
22798028 AAAAATCTTCTCGTGTTTC
1 AAAAAT-TT-TCGTGTTTT
*
22798047 AAAAA-TGTCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
22798063 AAAAATTTTCGCGTTTCT
1 AAAAATTTTCGTGTTT-T
22798081 -AAAA-TTTCTGTGTTTT
1 AAAAATTTTC-GTGTTTT
* *
22798097 AAAAAAATTTCGTGTTTCA
1 -AAAAATTTTCGTGTTT-T
22798116 AAAAATTTT-GTGTTTT
1 AAAAATTTTCGTGTTTT
22798132 AAAAATTTTCGTGTTTCT
1 AAAAATTTTCGTGTTT-T
*
22798150 -AAAATTTCCGTGTTTT
1 AAAAATTTTCGTGTTTT
*
22798166 AAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
22798183 CAAAAATTTTCGTGTTTTT
1 -AAAAATTTTCGTG-TTTT
* *
22798202 AAGAATTTTCGTGTCTCT
1 AAAAATTTTCGTGT-TTT
*
22798220 -AAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
22798236 AAAAAAATTTTCGTGTT
1 --AAAAATTTTCGTGTT
22798253 CTCAAAAATA
Statistics
Matches: 172, Mismatches: 18, Indels: 32
0.77 0.08 0.14
Matches are distributed among these distances:
16 30 0.17
17 70 0.41
18 46 0.27
19 26 0.15
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTT
Found at i:22798102 original size:35 final size:34
Alignment explanation
Indices: 22798028--22798261 Score: 251
Period size: 35 Copynumber: 6.7 Consensus size: 34
22798018 TAGAAAAAGA
*
22798028 AAAAATCTTCTCGTGTTTCAAAAATGTC-GTGTTTT
1 AAAAAT-TT-TCGTGTTTCAAAAATTTCTGTGTTTT
* *
22798063 AAAAATTTTCGCGTTTCTAAAATTTCTGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
*
22798097 AAAAAAATTTCGTGTTTCAAAAAATTT-TGTGTTTT
1 -AAAAATTTTCGTGTTTC-AAAAATTTCTGTGTTTT
* *
22798132 AAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
*
22798166 AAAAATTCTCGTGTTTTCAAAAATTT-TCGTGTTTTT
1 AAAAATTTTCGTG-TTTCAAAAATTTCT-GTG-TTTT
* * *
22798202 AAGAATTTTCGTGTCTCTAAAA-TTCTCGTGTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTCT-GTGTTTT
22798236 AAAAAAATTTTCGTGTTCTCAAAAAT
1 --AAAAATTTTCGTGTT-TCAAAAAT
22798262 AAAAATTGTT
Statistics
Matches: 168, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
33 22 0.13
34 50 0.30
35 55 0.33
36 35 0.21
37 6 0.04
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAATTTCTGTGTTTT
Found at i:22798129 original size:69 final size:68
Alignment explanation
Indices: 22798038--22798261 Score: 301
Period size: 69 Copynumber: 3.2 Consensus size: 68
22798028 AAAAATCTTC
* * *
22798038 TCGTGTTTCAAAAATGTCGTGTTTTAAAAATTTTCGCGTTTCTAAAATTTCTGTGTTTTAAAAAA
1 TCGTGTTTCAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAAA
22798103 ATT
66 ATT
*
22798106 TCGTGTTTCAAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCCGTGTTTT--AAA
1 TCGTGTTTC-AAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAA
22798169 AATT
65 AATT
* *
22798173 CTCGTGTTTTCAAAAATTTTCGTGTTTTTAAGAATTTTCGTGTCTCTAAAA-TTCTCGTGTTTTA
1 -TCGTG-TTTCAAAAATTTT-GTG-TTTTAAAAATTTTCGTGTTTCTAAAATTTCT-GTGTTTTA
22798237 AAAAAATTT
61 AAAAAA-TT
22798246 TCGTGTTCTCAAAAAT
1 TCGTGTT-TCAAAAAT
22798262 AAAAATTGTT
Statistics
Matches: 139, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
67 7 0.05
68 23 0.17
69 56 0.40
70 31 0.22
71 2 0.01
72 18 0.13
73 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (68 bp):
TCGTGTTTCAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCTAAAATTTCTGTGTTTTAAAAAA
ATT
Found at i:22801301 original size:18 final size:18
Alignment explanation
Indices: 22801258--22801304 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
22801248 TGTAATTTTT
*
22801258 ATAATTGGGTTGGGTTGG
1 ATAATTGGGTTGGGTTGA
*
22801276 GTAATTGGGTTGGGTTGA
1 ATAATTGGGTTGGGTTGA
*
22801294 ATACTTGGGTT
1 ATAATTGGGTT
22801305 TGGATTGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (18 bp):
ATAATTGGGTTGGGTTGA
Found at i:22806059 original size:21 final size:21
Alignment explanation
Indices: 22806013--22806068 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
22806003 CCCTTAAGGA
22806013 TTAAACAAAAGCTCAAAAGAG
1 TTAAACAAAAGCTCAAAAGAG
* * *
22806034 CTAAACGAAAA-CTCATATGAG
1 TTAAAC-AAAAGCTCAAAAGAG
* *
22806055 TTAAATAGAAGCTC
1 TTAAACAAAAGCTC
22806069 GTGAGAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (21 bp):
TTAAACAAAAGCTCAAAAGAG
Found at i:22809556 original size:34 final size:35
Alignment explanation
Indices: 22809517--22809582 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
22809507 TAGATATATA
* *
22809517 ATTTTTATATTTGAA-ATAAAT-TTTCATAAAAAAT
1 ATTTTTATATCT-AATATAAATATTACATAAAAAAT
22809551 ATTTTTATATCTAATATAAATATTACATAAAA
1 ATTTTTATATCTAATATAAATATTACATAAAA
22809583 TACATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 2 0.07
34 17 0.61
35 9 0.32
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (35 bp):
ATTTTTATATCTAATATAAATATTACATAAAAAAT
Found at i:22810826 original size:17 final size:17
Alignment explanation
Indices: 22810795--22810842 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
22810785 GAATTTAGAA
*
22810795 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
22810811 GAATTTTGTGATTTAGT
1 GAATTTTGTGATTTAGT
*
22810828 GAATTTTGCGATTTA
1 GAATTTTGTGATTTA
22810843 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:22811276 original size:9 final size:9
Alignment explanation
Indices: 22811259--22811295 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22811249 TGAGTTTTTG
22811259 AATTCGAAT
1 AATTCGAAT
*
22811268 AACTCGAAT
1 AATTCGAAT
22811277 AATTCGAAT
1 AATTCGAAT
22811286 AATTCGAAT
1 AATTCGAAT
22811295 A
1 A
22811296 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22811707 original size:19 final size:16
Alignment explanation
Indices: 22811663--22811707 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
22811653 ACTTTCCCTT
22811663 AAACTTTTATTCCCCA
1 AAACTTTTATTCCCCA
22811679 AAACTTTTTATTTTCCCCCA
1 AAAC-TTTTA--TT-CCCCA
22811699 AAACTTTTA
1 AAACTTTTA
22811708 CTTCTCACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
19 7 0.28
20 9 0.36
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (16 bp):
AAACTTTTATTCCCCA
Found at i:22812222 original size:5 final size:5
Alignment explanation
Indices: 22812212--22812242 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22812202 GAACAAATAT
22812212 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
22812243 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:22812342 original size:5 final size:5
Alignment explanation
Indices: 22812332--22812357 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22812322 CTCGAAAATT
22812332 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
22812358 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:22813395 original size:46 final size:46
Alignment explanation
Indices: 22813328--22813509 Score: 305
Period size: 46 Copynumber: 4.0 Consensus size: 46
22813318 CATGGCAAAG
* *
22813328 TGTGAAACGTAGGTATGGTATTTC-AGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TAAAGAAAACCATACTGAGT
22813374 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
22813420 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
*
22813466 TGTGAAAAGTAGGTATGGTATTTCCG-TGAAGAAAACCATACTGA
1 TGTGAAAAGTAGGTATGGTATTT-CGATAAAGAAAACCATACTGA
22813510 ATTATAGCAA
Statistics
Matches: 131, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
46 128 0.98
47 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
Found at i:22820079 original size:26 final size:26
Alignment explanation
Indices: 22820057--22820141 Score: 116
Period size: 26 Copynumber: 3.3 Consensus size: 26
22820047 ACAATTATTG
* *
22820057 AAATACCCTCAATGGTTAAATTACAA
1 AAATACCCTCAATGGGTAAATTACCA
*
22820083 AAATACCCTTAATGGGTAAATTACCA
1 AAATACCCTCAATGGGTAAATTACCA
* * *
22820109 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCAATGGGTAAATTACCA
22820135 AAATACC
1 AAATACC
22820142 TTCGAAAGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (26 bp):
AAATACCCTCAATGGGTAAATTACCA
Found at i:22820152 original size:26 final size:26
Alignment explanation
Indices: 22820057--22820152 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
22820047 ACAATTATTG
* *
22820057 AAATACCCTC-AATGGTTAAATTACAA
1 AAATACCCTCGAAAGG-TAAATTACCA
* *
22820083 AAATACCCT-TAATGGGTAAATTACCA
1 AAATACCCTCGAA-AGGTAAATTACCA
** * *
22820109 AAATACCCTCGATGGGTAAATTATCG
1 AAATACCCTCGAAAGGTAAATTACCA
*
22820135 AAATACCTTCGAAAGGTA
1 AAATACCCTCGAAAGGTA
22820153 GAATGACCGT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 55 0.95
27 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (26 bp):
AAATACCCTCGAAAGGTAAATTACCA
Found at i:22823677 original size:5 final size:5
Alignment explanation
Indices: 22823667--22823693 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22823657 TAATTTGATG
22823667 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
22823694 ACAAAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:22829191 original size:17 final size:17
Alignment explanation
Indices: 22829169--22829213 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
22829159 TTTTAATAAT
* *
22829169 TATTTTTATTTTTTGTG
1 TATTTTAATTTTTTATG
22829186 TATTTTAATTTTTTATG
1 TATTTTAATTTTTTATG
22829203 TATTTTAATTT
1 TATTTTAATTT
22829214 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (17 bp):
TATTTTAATTTTTTATG
Found at i:22833440 original size:2 final size:2
Alignment explanation
Indices: 22833433--22833469 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
22833423 TATTTGCTGG
* *
22833433 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22833470 GTTAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:22836776 original size:14 final size:14
Alignment explanation
Indices: 22836754--22836796 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
22836744 TGAATAAAGG
* *
22836754 AATACTATAATACT
1 AATAATATAATAAT
22836768 AATAATATAATAAT
1 AATAATATAATAAT
*
22836782 AATAAGATTAATAAT
1 AATAATA-TAATAAT
22836797 CACGTCATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:22837031 original size:4 final size:4
Alignment explanation
Indices: 22837022--22837063 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
22837012 ATAAAAATAA
* *
22837022 AAAT AAAT AAGT -AAT AAAT GAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
22837064 ATTTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 2 0.06
4 31 0.94
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:22838752 original size:42 final size:42
Alignment explanation
Indices: 22838693--22838776 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
22838683 CTATATACAC
* * * *
22838693 CACACGGCTGGGACACATGCCCGTGTCCTTGTACGTGTGGTT
1 CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
* *
22838735 CACACGGCCTAGG-CACATGTCTATGTCCTTGCACGTATGGTT
1 CACACGG-CTAGGACACATGCCCATGTCCTTGCACGTATGGTT
22838777 TTAAAGCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (42 bp):
CACACGGCTAGGACACATGCCCATGTCCTTGCACGTATGGTT
Found at i:22840366 original size:3 final size:3
Alignment explanation
Indices: 22840358--22840442 Score: 75
Period size: 3 Copynumber: 27.3 Consensus size: 3
22840348 ATATATAAGT
* * *
22840358 ATA ATA ATA TTA ATA TGTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
22840404 ATA CAGTA ATA ATA ACA ATA ATA ATA ATTA AT- ATA ATA A
1 ATA -A-TA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
22840443 AATTAATGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.06
3 51 0.76
4 10 0.15
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22840374 original size:34 final size:28
Alignment explanation
Indices: 22840346--22840442 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 28
22840336 ATATGCGTAT
*
22840346 ATATATATAAGTATAATAATATTAATATGTA
1 ATATA-ATAA-TA-AATAATACTAATATGTA
*
22840377 ATATAATAATAAATAATACTAATA-ATA
1 ATATAATAATAAATAATACTAATATGTA
* *
22840404 ATACAGTAATAAT-AACAATAATAATAAT-TA
1 AT--A-TAATAATAAATAATACTAAT-ATGTA
22840434 ATATAATAA
1 ATATAATAA
22840443 AATTAATGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
27 10 0.18
28 13 0.23
29 13 0.23
30 16 0.28
31 5 0.09
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (28 bp):
ATATAATAATAAATAATACTAATATGTA
Found at i:22840448 original size:14 final size:15
Alignment explanation
Indices: 22840421--22840458 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
22840411 AATAATAACA
22840421 ATAATAATAATTAAT-
1 ATAATAA-AATTAATG
22840436 ATAATAAAATTAATG
1 ATAATAAAATTAATG
22840451 AT-ATAAAA
1 ATAATAAAA
22840459 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATAAAATTAATG
Found at i:22841011 original size:21 final size:21
Alignment explanation
Indices: 22840978--22841029 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
22840968 ATTTTTTTAC
*
22840978 AAAAAAAACAACAG-AAAAATG
1 AAAAAAAA-AACAGTAAAAAGG
22840999 AAAACAAAAAACAGTAAAAAGG
1 AAAA-AAAAAACAGTAAAAAGG
22841021 AAAAAAAAA
1 AAAAAAAAA
22841030 TGGAGAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAGTAAAAAGG
Found at i:22842224 original size:100 final size:100
Alignment explanation
Indices: 22841926--22843067 Score: 1624
Period size: 100 Copynumber: 11.4 Consensus size: 100
22841916 CCAATTACAA
* * * * * * * * ** *
22841926 TGTCGAGGAAACAAGATCCGCCATCGT-AGCTTCAACCTGTTCAACTGCACCGCTAAAGAAATAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* *
22841990 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTGC
65 GATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* ** * *
22842026 TGTCGGGGAAATCAGATCCGTTGTTGTGACTTCAATCATGCTCTACTGCATCGCCAGGGAAGTAA
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATC-TGCTCCACTGCACCGCCAGGGAAGTAA
* *
22842091 GATATGCCATTGTGGCTTCAATCTTTTTAATTGCGC
65 GATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * * * * *
22842127 TGTTGGGGAAACCAGATCCGTCGTTGTGAATTCAATCTGCTCCGCTGCACCACTAGGAAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842192 ATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
*
22842227 TGTCGGGGAAACTAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842292 ATCTGCCGTTGTGGCTTCAATCCTTTTAATTACGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* ** * * *
22842327 TGTCGGGGAAACTAGATCCGTTGTCGTGACTTCAATCTGCTCCACTACACCGCCAGAGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842392 ATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
** * *
22842427 TGTCGGGGAAACCAGATCCGTTGTTGTGACTTCAATCTGCTCCACTACACCGCCAGAGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842492 ATCTGCCGTTGTGGCTTTAATCTTTTAAATTGCGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
*
22842527 TGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842592 ATCTGCCGTTGTGGCTTCAATCCTTTTAAATTGTGC
66 ATCTGCCGTTGTGGCTTCAAT-CTTTTTAATTGCGC
* * * *
22842628 TGTCGAGGAAACCAGATCTGCCGATGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
22842693 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
22842728 TGTCGAGGAAACCAGATTCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
22842793 AT-TCGTCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCT-GCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* *
22842828 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
22842893 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
* * * *
22842928 TGTCAGGGAAACCAGATCCGTCGTTGTGACTTCAATTTGCTCCGCTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
22842993 ATCTGCCGTTGTGGCTTCAATC-TTTTAATTGTGC
66 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
*
22843027 TGTCGGGGAAACCAGATCCGCCGTTGTGACCTCAATCTGCT
1 TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCT
22843068 TCGCTACAAC
Statistics
Matches: 940, Mismatches: 97, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
99 48 0.05
100 713 0.76
101 179 0.19
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
Found at i:22842682 original size:401 final size:398
Alignment explanation
Indices: 22841918--22843067 Score: 1701
Period size: 401 Copynumber: 2.9 Consensus size: 398
22841908 CAATTTATCC
* * * * * * * *
22841918 AATTACAATGTCGAGGAAACAAGATCCGCCATCGT-AGCTTCAACCTGTTCAACTGCACCGCTAA
1 AATTACACTGTCGAGGAAACCAGATCCGCCGTCGTGA-CTTCAATCTGCTCCACTGCACCGCCAG
* * * *
22841982 AGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGTGCTGTCGGGGAAATCAGATCCGT
65 AGAAGTAAGAT-CTCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGT
* * * *
22842047 TGTTGTGACTTCAATCATGCTCTACTGCATCGCCAGGGAAGTAAGATATGCCATTGTGGCTTCAA
129 TGTTGTGACTTCAATC-TGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAA
*
22842112 TCTTTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTGTGAATTCAATCTGCTCCGCTGCAC
193 TCTTTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCGCTGCAC
* * * * * * *
22842177 CACTAGGAAAGTAAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGAAACTAG
258 CGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATC-TTTTAATTGTGCTGTCGGGGAAACCAG
* *
22842242 ATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGC
322 ATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGC
22842307 TTCAATCCTTTT
387 TTCAATCCTTTT
* * * ** *
22842319 AATTACGCTGTCGGGGAAACTAGATCCGTTGTCGTGACTTCAATCTGCTCCACTACACCGCCAGA
1 AATTACACTGTCGAGGAAACCAGATCCGCCGTCGTGACTTCAATCTGCTCCACTGCACCGCCAGA
*
22842384 GAAGTAAGATCTACCGTTGTGGCTTCAATCTTTTAAATTGCGCTGTCGGGGAAACCAGATCCGTT
66 GAAGTAAGATCT-CCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTT
* * *
22842449 GTTGTGACTTCAATCTGCTCCACTACACCGCCAGAGAAGTAAGATCTGCCGTTGTGGCTTTAATC
130 GTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATC
* * *
22842514 TTTTAAATTGCGCTGTTGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCG
195 TTTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCGCTGCACCG
*
22842579 CCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAATTGTGCTGTCGAGGAAACCAGA
260 CCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAT-CTTTT-AATTGTGCTGTCGGGGAAACCAGA
* *
22842644 TCTGCCGATGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCT
323 TCCGCCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCT
*
22842709 TCAATCTTTTT
388 TCAATCCTTTT
* * * *
22842720 AATTGCACTGTCGAGGAAACCAGATTCGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGG
1 AATTACACTGTCGAGGAAACCAGATCCGCCGTCGTGACTTCAATCTGCTCCACTGCACCGCCAGA
*
22842785 GAAGTAAGAT-TCGTCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGC
66 GAAGTAAGATCTC--CGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGT
* * * *
22842849 CGTTGTGACTTCAATCTGCTCCGCTGCACCACCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAAT
129 TGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAT
** *
22842914 CTTTTTAATTGCGCTGTCAGGGAAACCAGATCCGTCGTTGTGACTTCAATTTGCTCCGCTGCACC
194 CTTTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCGCTGCACC
22842979 GCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGTGCTGTCGGGGAAACCAGAT
259 GCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGTGCTGTCGGGGAAACCAGAT
*
22843044 CCGCCGTTGTGACCTCAATCTGCT
324 CCGCCGTTGTGACTTCAATCTGCT
22843068 TCGCTACAAC
Statistics
Matches: 672, Mismatches: 71, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
399 46 0.07
400 144 0.21
401 481 0.72
402 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (398 bp):
AATTACACTGTCGAGGAAACCAGATCCGCCGTCGTGACTTCAATCTGCTCCACTGCACCGCCAGA
GAAGTAAGATCTCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCCGTTG
TTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCT
TTTTAATTGCGCTGTTGGGGAAACCAGATCCGTCGTTGTGACTTCAATCTGCTCCGCTGCACCGC
CAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAATTGTGCTGTCGGGGAAACCAGATCC
GCCGTTGTGACTTCAATCTGCTCCACTACACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCA
ATCCTTTT
Found at i:22844384 original size:15 final size:15
Alignment explanation
Indices: 22844364--22844410 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22844354 CCCTAGCCTC
22844364 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
*
22844379 TCCA-TTTTCCATTTT
1 TCCATTTTTAC-TTTT
* *
22844394 TCTATTTTTATTTTT
1 TCCATTTTTACTTTT
22844409 TC
1 TC
22844411 ACATCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.19
15 17 0.65
16 4 0.15
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:22849323 original size:3 final size:3
Alignment explanation
Indices: 22849315--22849399 Score: 75
Period size: 3 Copynumber: 27.3 Consensus size: 3
22849305 ATATAAAAGT
* * *
22849315 ATA ATA ATA TTA ATA TGTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
*
22849361 ATA CAGTA ATA ATA ACA ATA ATA ATA ATTA AT- ATA ATA A
1 ATA -A-TA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
22849400 AATTAATGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.06
3 51 0.76
4 10 0.15
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22849405 original size:14 final size:15
Alignment explanation
Indices: 22849378--22849415 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
22849368 AATAATAACA
22849378 ATAATAATAATTAAT-
1 ATAATAA-AATTAATG
22849393 ATAATAAAATTAATG
1 ATAATAAAATTAATG
22849408 AT-ATAAAA
1 ATAATAAAA
22849416 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATAATAAAATTAATG
Found at i:22849970 original size:21 final size:21
Alignment explanation
Indices: 22849937--22849988 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
22849927 TATTTTTTAC
*
22849937 AAAAAAAACAACAG-AAAAATG
1 AAAAAAAA-AACAGTAAAAAGG
22849958 AAAACAAAAAACAGTAAAAAGG
1 AAAA-AAAAAACAGTAAAAAGG
22849980 AAAAAAAAA
1 AAAAAAAAA
22849989 TGGAGAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAACAGTAAAAAGG
Found at i:22853505 original size:50 final size:52
Alignment explanation
Indices: 22853377--22853507 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 52
22853367 GGGATAAGAT
* * *
22853377 CCCATGTAAGACCATGTCTAGGATATGGCGTTGGCACCGAGATGAGAGATCC
1 CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
* * * *
22853429 CCCA--TAAGACCATGTCTGCGACATGGCATGGGCACCGATATGAGA-A-CT
1 CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
* * *
22853477 CCTATGTAAGACCATATTTGGGATATGGCAT
1 CCCATGTAAGACCATGTCTGGGATATGGCAT
22853508 TGGTAGTACA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
48 4 0.06
49 1 0.02
50 56 0.86
52 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (52 bp):
CCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATGAGAGATCC
Found at i:22859783 original size:15 final size:15
Alignment explanation
Indices: 22859750--22859792 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22859740 GTTAAAAATA
22859750 TAAAATATAAAATTC
1 TAAAATATAAAATTC
* * *
22859765 TAAAATATATATTTT
1 TAAAATATAAAATTC
22859780 TAAAA-ATAAAATT
1 TAAAATATAAAATT
22859793 ATTATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATATAAAATTC
Found at i:22860152 original size:21 final size:21
Alignment explanation
Indices: 22860097--22860152 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
22860087 ACATGGATGG
* *
22860097 TCAACAATGGTCCACGGTCGA
1 TCAACAATGGTCAACAGTCGA
* * *
22860118 TCAAC-GTCGATCAACAGTCTA
1 TCAACAAT-GGTCAACAGTCGA
22860139 TCAACAATGGTCAA
1 TCAACAATGGTCAA
22860153 TGTCGGTCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
TCAACAATGGTCAACAGTCGA
Found at i:22860939 original size:28 final size:27
Alignment explanation
Indices: 22860893--22860969 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
22860883 AAAAATTTTA
*
22860893 TATTTATATTTTTTGAATTTTTAATAAT
1 TATTTATATTTTAT-AATTTTTAATAAT
* *
22860921 TATTTATATTTTAATAATTTCTATTAAT
1 TATTTATATTTT-ATAATTTTTAATAAT
*
22860949 T-TTGTA-ATTTTATGATTTTTA
1 TATT-TATATTTTATAATTTTTA
22860970 GAAATATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 8 0.19
27 7 0.17
28 26 0.62
29 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTATATTTTATAATTTTTAATAAT
Found at i:22861014 original size:20 final size:20
Alignment explanation
Indices: 22860963--22861014 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
22860953 TAATTTTATG
*
22860963 ATTTTTAGA-AATATTTAAT
1 ATTTTTAAATAATATTTAAT
* * **
22860982 AATATTATTTAATATTTAAT
1 ATTTTTAAATAATATTTAAT
22861002 ATTTTTAAATAAT
1 ATTTTTAAATAAT
22861015 TGCTAATAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTAAATAATATTTAAT
Found at i:22861164 original size:20 final size:21
Alignment explanation
Indices: 22861131--22861170 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22861121 TAAAATAAAA
22861131 TTTTAGAAAATTTTATTAATT
1 TTTTAGAAAATTTTATTAATT
* *
22861152 TTTTA-AAATTTTTGTTAAT
1 TTTTAGAAAATTTTATTAAT
22861171 GTGACATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTAGAAAATTTTATTAATT
Found at i:22867316 original size:22 final size:22
Alignment explanation
Indices: 22867288--22867329 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22867278 TATATTAAAC
*
22867288 CATGTATTTATTTGATTGATGA
1 CATGTATTTATTTAATTGATGA
22867310 CATGTATTTATTTAATTGAT
1 CATGTATTTATTTAATTGAT
22867330 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
CATGTATTTATTTAATTGATGA
Found at i:22873157 original size:2 final size:2
Alignment explanation
Indices: 22873150--22873179 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22873140 TGCACCCATA
22873150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22873180 CAACCACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22873353 original size:41 final size:41
Alignment explanation
Indices: 22873308--22873409 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
22873298 ACTGGCAATT
* * *
22873308 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
*
22873349 AGCCTGCTAGACGTATAGTCAGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
22873390 AGCCTGCTAGACGTAAAGTC
1 AGCCTGCTAGACGTAAAGTC
22873410 TGAATTATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCAGAAACATTTCACCGGCATCA
Found at i:22892430 original size:44 final size:45
Alignment explanation
Indices: 22892366--22892897 Score: 554
Period size: 44 Copynumber: 12.1 Consensus size: 45
22892356 TCATTAAAGT
* * *
22892366 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATG-TAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAA-GATAGC
* * *
22892410 AGATCCTATCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
22892454 AGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * * *
22892498 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAAAAC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
22892542 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATG-TAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAA-GATAGC
* * *
22892586 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
22892629 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
22892674 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * *
22892718 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGA-AGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
22892761 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
22892805 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
* * * *
22892848 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
22892893 AGATC
1 AGATC
22892898 GACAATGGCG
Statistics
Matches: 395, Mismatches: 77, Indels: 31
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.00
43 81 0.21
44 280 0.71
45 33 0.08
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAGC
Found at i:22906042 original size:46 final size:44
Alignment explanation
Indices: 22905887--22906042 Score: 147
Period size: 44 Copynumber: 3.5 Consensus size: 44
22905877 ATATTGGTAG
* * * *
22905887 GAAGTGGATCGAAGATGCAGATCTTGTCTTCC-ATA-CTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATTTGG-CGC
* * * *
22905930 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTT-GCGT
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCTGTATTTGGCGC
* *
22905974 GAAGTAGATCGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGC
1 GAAGTAGATCGAAGA-TGCAGATCTTGTCTTCCTGTATTTGGC-GC
*
22906020 GAAGAAGATCGAAGATGGCAGAT
1 GAAGTAGATCGAAGAT-GCAGAT
22906043 TTACCTCCCT
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
43 14 0.16
44 49 0.54
45 6 0.07
46 21 0.23
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGATGCAGATCTTGTCTTCCTGTATTTGGCGC
Found at i:22906474 original size:1 final size:1
Alignment explanation
Indices: 22906468--22906529 Score: 124
Period size: 1 Copynumber: 62.0 Consensus size: 1
22906458 AACAAAACAT
22906468 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
22906530 ACAAAAGGCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:22914304 original size:20 final size:20
Alignment explanation
Indices: 22914267--22914306 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22914257 AATATGGGTA
* *
22914267 AATTATATAGATAGTCATTT
1 AATTATATAAAAAGTCATTT
*
22914287 AATTATATAAAAATTCATTT
1 AATTATATAAAAAGTCATTT
22914307 TAGGCACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
AATTATATAAAAAGTCATTT
Found at i:22923553 original size:11 final size:11
Alignment explanation
Indices: 22923537--22923561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22923527 TTACTTTATG
22923537 AATGCCAGAGA
1 AATGCCAGAGA
22923548 AATGCCAGAGA
1 AATGCCAGAGA
22923559 AAT
1 AAT
22923562 TTTCCACGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (11 bp):
AATGCCAGAGA
Found at i:22926905 original size:23 final size:24
Alignment explanation
Indices: 22926864--22926909 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
22926854 ATTATATATT
22926864 AAATATATATTTTTATTTTTAATC
1 AAATATATATTTTTATTTTTAATC
*
22926888 AAATATAT-TTTTTGTTTTTAAT
1 AAATATATATTTTTATTTTTAAT
22926910 TTAGATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATTTTTATTTTTAATC
Found at i:22930607 original size:10 final size:10
Alignment explanation
Indices: 22930594--22930622 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
22930584 TTTCTGCTTG
22930594 TTTATTTTAT
1 TTTATTTTAT
22930604 TTTATTTTA-
1 TTTATTTTAT
22930613 TTTATTTTAT
1 TTTATTTTAT
22930623 CTTTTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:22930618 original size:4 final size:5
Alignment explanation
Indices: 22930594--22930622 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22930584 TTTCTGCTTG
22930594 TTTAT TTTAT TTTAT TTTA- TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
22930623 CTTTTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:22933011 original size:49 final size:49
Alignment explanation
Indices: 22932945--22933088 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
22932935 ATGTGAACAT
* *
22932945 GTGATTATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
22932995 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
22933044 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
22933089 AGAAAACGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 83 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:22936286 original size:46 final size:45
Alignment explanation
Indices: 22936219--22936590 Score: 460
Period size: 46 Copynumber: 8.6 Consensus size: 45
22936209 TTTGAGTACT
*
22936219 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
22936265 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
22936311 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
22936347 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
22936393 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
22936429 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
22936475 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACCCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
22936521 TCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
22936566 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
22936591 ATCATATGTA
Statistics
Matches: 290, Mismatches: 16, Indels: 43
0.83 0.05 0.12
Matches are distributed among these distances:
36 58 0.20
37 2 0.01
38 1 0.00
39 2 0.01
40 5 0.02
41 1 0.00
42 6 0.02
43 14 0.05
44 6 0.02
45 20 0.07
46 175 0.60
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:22936342 original size:36 final size:36
Alignment explanation
Indices: 22936301--22936455 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
22936291 GGTAGCATTA
22936301 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
22936337 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
22936382 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
22936419 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
22936455 G
1 G
22936456 GTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:22936348 original size:82 final size:81
Alignment explanation
Indices: 22936255--22936590 Score: 460
Period size: 82 Copynumber: 4.0 Consensus size: 81
22936245 GGTAGCATTA
*
22936255 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
22936320 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
22936337 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
22936402 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
22936419 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
22936484 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
* *
22936504 AGCCTTAGCTACCCTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
22936569 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
22936590 G
1 G
22936591 ATCATATGTA
Statistics
Matches: 229, Mismatches: 14, Indels: 19
0.87 0.05 0.07
Matches are distributed among these distances:
82 153 0.67
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 19 0.08
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:22936583 original size:128 final size:126
Alignment explanation
Indices: 22936219--22936590 Score: 440
Period size: 128 Copynumber: 2.9 Consensus size: 126
22936209 TTTGAGTACT
* *
22936219 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
22936284 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTA
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
22936347 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
22936412 GATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGATAA---GT-G-C-TA-C-
22936468 ACTCTTA
122 A--CTTA
* * * * *
22936475 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACCCTTATCTGATAAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
22936540 GATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
22936591 ATCATATGTA
Statistics
Matches: 210, Mismatches: 14, Indels: 37
0.80 0.05 0.14
Matches are distributed among these distances:
117 1 0.00
118 25 0.12
120 1 0.00
121 2 0.01
122 3 0.01
123 1 0.00
124 4 0.02
125 3 0.01
126 1 0.00
128 134 0.64
131 3 0.01
132 4 0.02
133 2 0.01
135 10 0.05
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (126 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:22939444 original size:29 final size:29
Alignment explanation
Indices: 22939376--22939470 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
22939366 ATTATCATTG
* * * *
22939376 CACTATGACCCTTAAACTTTTTGAAATTT
1 CACTTTGACCCCTAAACTTTTTAAAATTA
* *
22939405 CACTTTAACCCCTCAACTTTTTAAAATTA
1 CACTTTGACCCCTAAACTTTTTAAAATTA
* * *
22939434 CATTTTGACCCCAAAATTTTCTTAAAATTA
1 CACTTTGACCCCTAAACTTT-TTAAAATTA
22939464 CACTTTG
1 CACTTTG
22939471 GCCCAAAAAG
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 38 0.72
30 15 0.28
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
CACTTTGACCCCTAAACTTTTTAAAATTA
Found at i:22939461 original size:30 final size:31
Alignment explanation
Indices: 22939425--22939484 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22939415 CCTCAACTTT
* *
22939425 TTAAAATTACATTTTGACCCCAAAA-TTTTC
1 TTAAAATTACACTTTGACCCAAAAAGTTTTC
*
22939455 TTAAAATTACACTTTGGCCCAAAAAGTTTT
1 TTAAAATTACACTTTGACCCAAAAAGTTTT
22939485 GCTGTGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (31 bp):
TTAAAATTACACTTTGACCCAAAAAGTTTTC
Found at i:22939952 original size:3 final size:3
Alignment explanation
Indices: 22939944--22940050 Score: 78
Period size: 3 Copynumber: 35.0 Consensus size: 3
22939934 GGGGCTGAAC
* * * *
22939944 GAA GAA GAA -AG GAA AAA GAA GAA GAA AAA AAA GAAA GAA -AA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
*
22939987 GAA GAA GAA GAAA GAA AAA G-A GAAA GAAA GAA GGAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA G-AA G-AA GAA -GAA GAA GAA GAA GAA
*
22940035 GAA GAAA GAA AAA GAA
1 GAA G-AA GAA GAA GAA
22940051 AAAAGAAAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 7 0.08
3 61 0.71
4 18 0.21
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22939981 original size:13 final size:13
Alignment explanation
Indices: 22939948--22940068 Score: 81
Period size: 13 Copynumber: 9.2 Consensus size: 13
22939938 CTGAACGAAG
*
22939948 AAGAAAGGAAAAAG
1 AAGAAA-GAAAAAA
22939962 AAG-AAGAAAAAA
1 AAGAAAGAAAAAA
22939974 AAGAAAGAAAAAA
1 AAGAAAGAAAAAA
*
22939987 GAAG-AAGAAGAAAG
1 -AAGAAAGAA-AAAA
*
22940001 AA-AAAGAGAAAGA
1 AAGAAAGA-AAAAA
* * *
22940014 AAGAAGGAAGAAG
1 AAGAAAGAAAAAA
*
22940027 AAG-AAGAAGAAGA
1 AAGAAAGAA-AAAA
22940040 AAGAAA-AAGAAAA
1 AAGAAAGAA-AAAA
*
22940053 AAGAAAGAGAAAA
1 AAGAAAGAAAAAA
22940066 AAG
1 AAG
22940069 GAAAAAAATA
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
12 13 0.15
13 54 0.64
14 17 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAA
Found at i:22940013 original size:36 final size:34
Alignment explanation
Indices: 22939945--22940060 Score: 121
Period size: 36 Copynumber: 3.3 Consensus size: 34
22939935 GGGCTGAACG
* *
22939945 AAGAAGAAAGGAAAAAGAAGAAG-AAAA-AAAAGA
1 AAGAA-AAAAGAAGAAGAAGAAGAAAAAGAAAAGA
22939978 AAGAAAAAAGAAGAAGAAGAAAGAAAAAGAGAAAGA
1 AAGAAAAAAGAAGAAGAAG-AAGAAAAAGA-AAAGA
**
22940014 AAGAAGGAAGAAGAAGAAGAAGAAGAAAGAAAAAGA
1 AAGAAAAAAGAAGAAGAAGAAGAA-AAAG-AAAAGA
22940050 AA-AAAGAAAGA
1 AAGAAA-AAAGA
22940061 GAAAAAAGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
32 12 0.17
33 8 0.11
34 4 0.06
35 8 0.11
36 37 0.53
37 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (34 bp):
AAGAAAAAAGAAGAAGAAGAAGAAAAAGAAAAGA
Found at i:22940051 original size:6 final size:6
Alignment explanation
Indices: 22939945--22940066 Score: 86
Period size: 6 Copynumber: 19.3 Consensus size: 6
22939935 GGGCTGAACG
* * *
22939945 AAGAAGA AAGGAAA AAGAAG AAGAAA AAAAAGA AAGAAAA AAGAAG AAGAAGA
1 AAGAA-A AA-GAAA AAGAAA AAGAAA AAGAA-A AAG-AAA AAGAAA AAGAA-A
* * * *
22939998 AAGAAA AAGAGA AAG--A AAGAAGG AAGAAG AAGAAG AAGAAGA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA AAGAA-A AAGAAA
*
22940046 AAGAAAA AAGAAA GAGAAA AA
1 AAG-AAA AAGAAA AAGAAA AA
22940067 AGGAAAAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.04
6 53 0.56
7 33 0.35
8 5 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:22940073 original size:26 final size:27
Alignment explanation
Indices: 22939948--22940067 Score: 110
Period size: 26 Copynumber: 4.6 Consensus size: 27
22939938 CTGAACGAAG
22939948 AAGAAAG-GAAAAAGAAGAAGAA-AAAA
1 AAGAAAGAGAAAAA-AAGAAGAAGAAAA
*
22939974 AAGAAAGA-AAAAAGAAGAAGAAGAAAG
1 AAGAAAGAGAAAAA-AAGAAGAAGAAAA
* *
22940001 AA-AAAGAGAAAGAAAGAAGGAAG-AAG
1 AAGAAAGAGAAAAAAAGAA-GAAGAAAA
* *
22940027 AAG-AAGA-AGAAGAAAGAAAAAGAAAA
1 AAGAAAGAGA-AAAAAAGAAGAAGAAAA
22940053 AAGAAAGAGAAAAAA
1 AAGAAAGAGAAAAAA
22940068 GGAAAAAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
25 4 0.05
26 54 0.68
27 21 0.26
28 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (27 bp):
AAGAAAGAGAAAAAAAGAAGAAGAAAA
Found at i:22940511 original size:5 final size:5
Alignment explanation
Indices: 22940501--22940544 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
22940491 TTTAAGTATT
22940501 TTTTA TTTTA TATTTA TGTTT- TTTTAA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTT-A TTTTA TTTTA TTTTA TT
22940545 CATTAAATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
4 3 0.09
5 20 0.57
6 12 0.34
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:22940525 original size:16 final size:17
Alignment explanation
Indices: 22940501--22940543 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
22940491 TTTAAGTATT
22940501 TTTTATTTTATA-TTTA
1 TTTTATTTTATATTTTA
22940517 TGTTT-TTTTA-ATTTTA
1 T-TTTATTTTATATTTTA
22940533 TTTTATTTTAT
1 TTTTATTTTAT
22940544 TCATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 4 0.17
16 16 0.70
17 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATATTTTA
Found at i:22940525 original size:21 final size:21
Alignment explanation
Indices: 22940490--22940538 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
22940480 TATTGCATAT
*
22940490 TTTTAAGTATTTTTT-ATTTTA
1 TTTTATGT-TTTTTTAATTTTA
22940511 TATTTATGTTTTTTTAATTTTA
1 T-TTTATGTTTTTTTAATTTTA
22940533 TTTTAT
1 TTTTAT
22940539 TTTATTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTATGTTTTTTTAATTTTA
Found at i:22940876 original size:15 final size:15
Alignment explanation
Indices: 22940849--22940881 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
22940839 AAAGAAAGAA
22940849 AAATTTTGTG-TTTC
1 AAATTTTGTGTTTTC
22940863 AAATTTTCGTGTTTTC
1 AAATTTT-GTGTTTTC
22940879 AAA
1 AAA
22940882 AATTACTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (15 bp):
AAATTTTGTGTTTTC
Found at i:22940985 original size:21 final size:21
Alignment explanation
Indices: 22940923--22940986 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
22940913 TCGCATTTTC
* *
22940923 AAAAGTCT-TCGTGTTTCAAA
1 AAAAATCTCTCGTATTTCAAA
* * * *
22940943 AAAAATTTCGCGTTTTTAAAA
1 AAAAATCTCTCGTATTTCAAA
22940964 AAAAATCTCTCGTATTTCAAA
1 AAAAATCTCTCGTATTTCAAA
22940985 AA
1 AA
22940987 TTGTCGCGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAAATCTCTCGTATTTCAAA
Found at i:22941004 original size:19 final size:18
Alignment explanation
Indices: 22940941--22941128 Score: 66
Period size: 18 Copynumber: 10.4 Consensus size: 18
22940931 TCGTGTTTCA
22940941 AAAAAAATTTCGCGTTTTT
1 AAAAAAATTTCGCG-TTTT
* *
22940960 AAAAAAAAATCTCTCGTATTT
1 --AAAAAAATTTCGCGT-TTT
*
22940981 -CAAAAATTGTCGCGTTTT
1 AAAAAAATT-TCGCGTTTT
**
22940999 AAAAAAATTTCTTGTTTT
1 AAAAAAATTTCGCGTTTT
* * * *
22941017 -CAATAA-TTCTCTTGTTT
1 AAAAAAATTTCGCGT-TTT
* * * *
22941034 CACAAATTTTCGTGTTTT
1 AAAAAAATTTCGCGTTTT
* *
22941052 -AAAAATTTTCGTGTTTT
1 AAAAAAATTTCGCGTTTT
* *
22941069 CAAAAAATTTACCCTGTTTT
1 AAAAAAATTT-CGC-GTTTT
* * *
22941089 -CAAAAA-TTCTCGTGTT
1 AAAAAAATTTCGCGTTTT
*
22941105 -AAAAAATTTCGTGTTTT
1 AAAAAAATTTCGCGTTTT
22941122 AAAAAAA
1 AAAAAAA
22941129 AATCGTGTTT
Statistics
Matches: 126, Mismatches: 30, Indels: 25
0.70 0.17 0.14
Matches are distributed among these distances:
16 14 0.11
17 32 0.25
18 37 0.29
19 22 0.17
20 6 0.05
21 15 0.12
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (18 bp):
AAAAAAATTTCGCGTTTT
Found at i:22941108 original size:53 final size:53
Alignment explanation
Indices: 22941031--22941185 Score: 161
Period size: 53 Copynumber: 2.9 Consensus size: 53
22941021 AATTCTCTTG
* * **
22941031 TTTCACAAATTTTCGTGTTTTAAAAATTTTCGTGTTTTCAAAAAATTTACCCTGT
1 TTTCAAAAATTATCGTG-TTTAAAAATTTTCGTGTTTTCAAAAAA-AAACCCTGT
* * * *
22941086 TTTCAAAAATTCTCGTG-TTAAAAAATTTCGTGTTTT-AAAAAAAAATCGTGT
1 TTTCAAAAATTATCGTGTTTAAAAATTTTCGTGTTTTCAAAAAAAAACCCTGT
* * *
22941137 TTTCAAAAAAGTTATTGTGTTTCAAAATTCTCGTGTTTTCAAAAAAAAA
1 TTTC-AAAAA-TTATCGTGTTTAAAAATTTTCGTGTTTTCAAAAAAAAA
22941186 ATCTCGAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
51 9 0.11
52 11 0.13
53 24 0.29
54 16 0.19
55 24 0.29
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (53 bp):
TTTCAAAAATTATCGTGTTTAAAAATTTTCGTGTTTTCAAAAAAAAACCCTGT
Found at i:22941116 original size:15 final size:16
Alignment explanation
Indices: 22941090--22941119 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22941080 CCCTGTTTTC
22941090 AAAAATTCTCGTGTTA
1 AAAAATTCTCGTGTTA
22941106 AAAAATT-TCGTGTT
1 AAAAATTCTCGTGTT
22941120 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (16 bp):
AAAAATTCTCGTGTTA
Found at i:22941123 original size:17 final size:17
Alignment explanation
Indices: 22940982--22941182 Score: 122
Period size: 18 Copynumber: 11.3 Consensus size: 17
22940972 CTCGTATTTC
*
22940982 AAAAATTGTCGCGTTTTAA
1 AAAAATT-TCGTGTTTT-A
* *
22941001 AAAAATTTCTTGTTTTC
1 AAAAATTTCGTGTTTTA
* * *
22941018 AATAATTCTCTTGTTTCA
1 AAAAATT-TCGTGTTTTA
* *
22941036 CAAATTTTCGTGTTTTA
1 AAAAATTTCGTGTTTTA
*
22941053 AAAATTTTCGTGTTTTCA
1 AAAAATTTCGTGTTTT-A
* *
22941071 AAAAATTTACCCTGTTTTC
1 AAAAATTT--CGTGTTTTA
22941090 AAAAATTCTCGTG--TTA
1 AAAAATT-TCGTGTTTTA
22941106 AAAAATTTCGTGTTTTAA
1 AAAAATTTCGTGTTTT-A
**
22941124 AAAAAAATCGTGTTTTCA
1 AAAAATTTCGTGTTTT-A
*
22941142 AAAAAGTTATTGTG-TTT-
1 AAAAA-TT-TCGTGTTTTA
*
22941159 CAAAATTCTCGTGTTTTCA
1 AAAAATT-TCGTGTTTT-A
22941178 AAAAA
1 AAAAA
22941183 AAAATCTCGA
Statistics
Matches: 142, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
15 5 0.04
16 15 0.11
17 38 0.27
18 51 0.36
19 21 0.15
20 12 0.08
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTA
Found at i:22941181 original size:18 final size:18
Alignment explanation
Indices: 22940964--22941181 Score: 141
Period size: 17 Copynumber: 12.3 Consensus size: 18
22940954 GTTTTTAAAA
*
22940964 AAAAATCTCTCGT-ATTTC
1 AAAAAT-TCTCGTGTTTTC
* * *
22940982 AAAAATTGTCGCGTTTTAA
1 AAAAATTCTCGTGTTTT-C
*
22941001 AAAAATT-TCTTGTTTTC
1 AAAAATTCTCGTGTTTTC
* *
22941018 AATAATTCTCTTG-TTTC
1 AAAAATTCTCGTGTTTTC
* *
22941035 ACAAATTTTCGTGTTTT-
1 AAAAATTCTCGTGTTTTC
*
22941052 AAAAATTTTCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
*
22941070 AAAAAATT-TACCCTGTTTTC
1 -AAAAATTCT--CGTGTTTTC
*
22941090 AAAAATTCTCGTG--TTA
1 AAAAATTCTCGTGTTTTC
*
22941106 AAAAATT-TCGTGTTTTA
1 AAAAATTCTCGTGTTTTC
***
22941123 AAAAAAAATCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
* *
22941141 AAAAAAGTTATTGTG-TTTC
1 -AAAAA-TTCTCGTGTTTTC
22941160 -AAAATTCTCGTGTTTTC
1 AAAAATTCTCGTGTTTTC
22941177 AAAAA
1 AAAAA
22941182 AAAAATCTCG
Statistics
Matches: 160, Mismatches: 24, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.03
16 15 0.09
17 55 0.34
18 41 0.26
19 30 0.19
20 14 0.09
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAAATTCTCGTGTTTTC
Found at i:22942617 original size:7 final size:7
Alignment explanation
Indices: 22942607--22942631 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22942597 TTTACTTTTC
22942607 TATTATT
1 TATTATT
22942614 TATTATT
1 TATTATT
22942621 TATTATT
1 TATTATT
22942628 TATT
1 TATT
22942632 TCATAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTATT
Found at i:22954918 original size:27 final size:27
Alignment explanation
Indices: 22954871--22954927 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
22954861 TGATAGTATG
* *
22954871 AAATATTTTTAAATTTAAAAAAATAAA
1 AAATATTTTTAAAATTAAAAAAAGAAA
*
22954898 AAATATTTTTAAAAATT-AAAATAGAAA
1 AAATATTTTT-AAAATTAAAAAAAGAAA
22954925 AAA
1 AAA
22954928 ATAGAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
AAATATTTTTAAAATTAAAAAAAGAAA
Found at i:22955128 original size:18 final size:18
Alignment explanation
Indices: 22955105--22955166 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
22955095 GAAAATGAAT
22955105 TATAAAACGAATATGGAA
1 TATAAAACGAATATGGAA
** *
22955123 TATAAAAAAAAAAAT-GAA
1 TAT-AAAACGAATATGGAA
22955141 TTATAAAACGAATATGGAA
1 -TATAAAACGAATATGGAA
22955160 TATAAAA
1 TATAAAA
22955167 AAAAAAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (18 bp):
TATAAAACGAATATGGAA
Found at i:22955130 original size:19 final size:19
Alignment explanation
Indices: 22955108--22955167 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
22955098 AATGAATTAT
22955108 AAAACGAATATGGAATATA
1 AAAACGAATATGGAATATA
** *
22955127 AAAAAAAAAAT-GAAT-TA
1 AAAACGAATATGGAATATA
22955144 TAAAACGAATATGGAATATA
1 -AAAACGAATATGGAATATA
22955164 AAAA
1 AAAA
22955168 AAAAAATTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 2 0.06
18 12 0.38
19 16 0.50
20 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (19 bp):
AAAACGAATATGGAATATA
Found at i:22955146 original size:37 final size:37
Alignment explanation
Indices: 22955096--22955174 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
22955086 ACAAGCTTTG
22955096 AAAATGAATTATAAAACGAATATGGAATATAAAAAAA
1 AAAATGAATTATAAAACGAATATGGAATATAAAAAAA
22955133 AAAATGAATTATAAAACGAATATGGAATATAAAAAAA
1 AAAATGAATTATAAAACGAATATGGAATATAAAAAAA
22955170 AAAAT
1 AAAAT
22955175 TGATGTGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.22
Consensus pattern (37 bp):
AAAATGAATTATAAAACGAATATGGAATATAAAAAAA
Found at i:22956421 original size:3 final size:3
Alignment explanation
Indices: 22956413--22956450 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22956403 ATCACATGTT
22956413 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22956451 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22956568 original size:72 final size:72
Alignment explanation
Indices: 22956451--22956619 Score: 338
Period size: 72 Copynumber: 2.3 Consensus size: 72
22956441 TATTATTATT
22956451 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
22956516 TTTTAAG
66 TTTTAAG
22956523 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
22956588 TTTTAAG
66 TTTTAAG
22956595 TGGATGTAATGATGTAACTTAGTTG
1 TGGATGTAATGATGTAACTTAGTTG
22956620 GAAGTGGATG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:22956634 original size:29 final size:29
Alignment explanation
Indices: 22956592--22956648 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
22956582 GATTTATTTT
22956592 AAGTGGATGTAATGATGTAACTTAGTTGG
1 AAGTGGATGTAATGATGTAACTTAGTTGG
22956621 AAGTGGATGTAATGATGTAACTTAGTTG
1 AAGTGGATGTAATGATGTAACTTAGTTG
22956649 TATTCCAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.35
Consensus pattern (29 bp):
AAGTGGATGTAATGATGTAACTTAGTTGG
Found at i:22956695 original size:101 final size:101
Alignment explanation
Indices: 22956520--22956720 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
22956510 GATTTATTTT
22956520 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
1 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
*
22956585 TTATTTTAAGTGGATGTAATGATGTAACTTAGTTGG
66 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTGG
22956621 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
1 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
22956686 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTG
66 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTG
22956721 TATTCCAACT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.40
Consensus pattern (101 bp):
AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
TTATTTTAAGTGGATGTAATGATGAAACTTAGTTGG
Found at i:22960962 original size:3 final size:3
Alignment explanation
Indices: 22960954--22961015 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
22960944 ATCACATGTT
22960954 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22961002 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
22961016 TGGATGTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22961133 original size:72 final size:72
Alignment explanation
Indices: 22961016--22961184 Score: 338
Period size: 72 Copynumber: 2.3 Consensus size: 72
22961006 TATTATTATT
22961016 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
22961081 TTTTAAG
66 TTTTAAG
22961088 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
22961153 TTTTAAG
66 TTTTAAG
22961160 TGGATGTAATGATGTAACTTAGTTG
1 TGGATGTAATGATGTAACTTAGTTG
22961185 GAAGTGGATG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:22961199 original size:29 final size:29
Alignment explanation
Indices: 22961157--22961213 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
22961147 GATTTATTTT
22961157 AAGTGGATGTAATGATGTAACTTAGTTGG
1 AAGTGGATGTAATGATGTAACTTAGTTGG
22961186 AAGTGGATGTAATGATGTAACTTAGTTG
1 AAGTGGATGTAATGATGTAACTTAGTTG
22961214 TATTCCAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.35
Consensus pattern (29 bp):
AAGTGGATGTAATGATGTAACTTAGTTGG
Found at i:22961260 original size:101 final size:101
Alignment explanation
Indices: 22961085--22961285 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
22961075 GATTTATTTT
22961085 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
1 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
*
22961150 TTATTTTAAGTGGATGTAATGATGTAACTTAGTTGG
66 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTGG
22961186 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
1 AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
22961251 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTG
66 TTATTTTAAGTGGATGTAATGATGAAACTTAGTTG
22961286 TATTCCAACT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.40
Consensus pattern (101 bp):
AAGTGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGAT
TTATTTTAAGTGGATGTAATGATGAAACTTAGTTGG
Found at i:22961551 original size:136 final size:136
Alignment explanation
Indices: 22961369--22961641 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
22961359 TTCAATCAAG
22961369 ATTTCATCCATATACTCTCTATTTTAGCTTTGCTTAAAATTTATTTCATTTTTCTTCTTTGTTTC
1 ATTTCATCCATATACTCTCTATTTTAGCTTTGCTTAAAATTTATTTCATTTTTCTTCTTTGTTTC
22961434 TGCCGCAAGTCTCGATTCTTGCTCGGCAAGCTTTTTGTTGAACCTTGCTATTTGTTGCACTTAGC
66 TGCCGCAAGTCTCGATTCTTGCTCGGCAAGCTTTTTGTTGAACCTTGCTATTTGTTGCACTTAGC
22961499 TCCAAC
131 TCCAAC
22961505 ATTTCATCCATATACTCTCTATTTTAGCTTTGCTTAAAATTTATTTCATTTTTCTTCTTTGTTTC
1 ATTTCATCCATATACTCTCTATTTTAGCTTTGCTTAAAATTTATTTCATTTTTCTTCTTTGTTTC
22961570 TGCCGCAAGTCTCGATTCTTGCTCGGCAAGCTTTTTGTTGAACCTTGCTATTTGTTGCACTTAGC
66 TGCCGCAAGTCTCGATTCTTGCTCGGCAAGCTTTTTGTTGAACCTTGCTATTTGTTGCACTTAGC
22961635 TCCAAC
131 TCCAAC
22961641 A
1 A
22961642 GCAGTTCATA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (136 bp):
ATTTCATCCATATACTCTCTATTTTAGCTTTGCTTAAAATTTATTTCATTTTTCTTCTTTGTTTC
TGCCGCAAGTCTCGATTCTTGCTCGGCAAGCTTTTTGTTGAACCTTGCTATTTGTTGCACTTAGC
TCCAAC
Found at i:22965181 original size:9 final size:9
Alignment explanation
Indices: 22965167--22965197 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22965157 GTTAAACGAA
22965167 TCGAGTTAT
1 TCGAGTTAT
*
22965176 TCGAGTTAA
1 TCGAGTTAT
22965185 TCGAGTTAT
1 TCGAGTTAT
22965194 TCGA
1 TCGA
22965198 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22965268 original size:9 final size:9
Alignment explanation
Indices: 22965251--22965287 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22965241 TAAGTTTTCG
22965251 AATTCGAAT
1 AATTCGAAT
*
22965260 AACTCGAAT
1 AATTCGAAT
22965269 AATTCGAAT
1 AATTCGAAT
22965278 AATTCGAAT
1 AATTCGAAT
22965287 A
1 A
22965288 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22965571 original size:7 final size:7
Alignment explanation
Indices: 22965559--22965591 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
22965549 TCCCTTTCCA
22965559 TCCCACC
1 TCCCACC
22965566 TCCCACC
1 TCCCACC
22965573 TCCCACC
1 TCCCACC
22965580 TCCCACC
1 TCCCACC
22965587 TCCCA
1 TCCCA
22965592 TCTACTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:22972135 original size:18 final size:18
Alignment explanation
Indices: 22972081--22972145 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 18
22972071 TTAATTTTTA
22972081 TGAAT-TTTTTATTGAATTT
1 TGAATATTTTTA-T-AATTT
* * *
22972100 TG-ATTTTTTTGTACTTT
1 TGAATATTTTTATAATTT
22972117 TGAATATTTTTATAATTTT
1 TGAATATTTTTATAA-TTT
22972136 TGAATCATTT
1 TGAAT-ATTT
22972146 GTTTACGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.16
18 12 0.32
19 15 0.41
20 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (18 bp):
TGAATATTTTTATAATTT
Found at i:22979325 original size:16 final size:16
Alignment explanation
Indices: 22979299--22979340 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22979289 CAATTGGTTC
* *
22979299 GCTGTATTAGATTAGA
1 GCTGTAATAGAATAGA
*
22979315 GGTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
22979331 GCTGTAATAG
1 GCTGTAATAG
22979341 CAAATCAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.31
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:22979580 original size:25 final size:25
Alignment explanation
Indices: 22979548--22979602 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
22979538 TAATTTAATC
*
22979548 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
22979572 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
22979597 ATATAT
1 ATATAT
22979603 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:22980812 original size:36 final size:37
Alignment explanation
Indices: 22980768--22980853 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 37
22980758 AAGAAACGGG
* *
22980768 GGGAGCAAATCGGCAGAAAAGAAAAGAAAATAAAC-T
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
22980804 GGGAGCAAATCGGCAGAAAAGAAAAGCAAAGAAACAA
1 GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
*
22980841 GGAAGCAAATCGG
1 GGGAGCAAATCGG
22980854 ATGAAGGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 33 0.73
37 12 0.27
ACGTcount: A:0.53, C:0.13, G:0.28, T:0.06
Consensus pattern (37 bp):
GGGAGCAAATCGGCAGAAAAGAAAAGAAAAGAAACAA
Found at i:22981651 original size:7 final size:7
Alignment explanation
Indices: 22981639--22981665 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22981629 TCAATATTTT
22981639 TTTAAAA
1 TTTAAAA
22981646 TTTAAAA
1 TTTAAAA
22981653 TTTAAAA
1 TTTAAAA
22981660 TTTAAA
1 TTTAAA
22981666 TATATCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTTAAAA
Found at i:22982758 original size:20 final size:21
Alignment explanation
Indices: 22982728--22982772 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
22982718 TTTCTTCTTT
*
22982728 TTTTGTTATATAAATTTTTTA
1 TTTTGTTATATAAATTTTCTA
*
22982749 TTTT-TTATATTAATTTTCTA
1 TTTTGTTATATAAATTTTCTA
22982769 TTTT
1 TTTT
22982773 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTGTTATATAAATTTTCTA
Found at i:22994942 original size:16 final size:15
Alignment explanation
Indices: 22994921--22994970 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 15
22994911 AAAGATTGTT
22994921 AAAACTCTTATAAAAG
1 AAAACTCTTA-AAAAG
*
22994937 AAAACTC--AAAGAG
1 AAAACTCTTAAAAAG
*
22994950 -AAATTCTTAAAAAG
1 AAAACTCTTAAAAAG
22994964 AAAACTC
1 AAAACTC
22994971 AAAAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 6 0.22
15 5 0.19
16 7 0.26
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (15 bp):
AAAACTCTTAAAAAG
Found at i:22999116 original size:15 final size:15
Alignment explanation
Indices: 22999084--22999131 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
22999074 AAATTTTATA
*
22999084 ACTTAAA-TTT-AGT
1 ACTTAAATTTTCAAT
22999097 ACTTAAATTTTCAAT
1 ACTTAAATTTTCAAT
* *
22999112 ACTTAATTTTTCAAC
1 ACTTAAATTTTCAAT
22999127 ACTTA
1 ACTTA
22999132 CTTTTTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 20 0.67
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.46
Consensus pattern (15 bp):
ACTTAAATTTTCAAT
Found at i:22999136 original size:15 final size:15
Alignment explanation
Indices: 22999097--22999137 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22999087 TAAATTTAGT
* *
22999097 ACTTAAATTTTCAAT
1 ACTTAATTTTTCAAC
22999112 ACTTAATTTTTCAAC
1 ACTTAATTTTTCAAC
*
22999127 ACTTACTTTTT
1 ACTTAATTTTT
22999138 TGGCACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Done.