Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 60 of 175
Found at i:17651420 original size:20 final size:20
Alignment explanation
Indices: 17651320--17651517 Score: 95
Period size: 20 Copynumber: 9.9 Consensus size: 20
17651310 TCCTTTATCA
*
17651320 GGCACCTAAGTGCAATCAGG
1 GGCACGTAAGTGCAATCAGG
** * * *
17651340 GTTACCG-AAGTACAAACAAG
1 GGCA-CGTAAGTGCAATCAGG
* * *
17651360 GACACATAAGTGCAATCAAG
1 GGCACGTAAGTGCAATCAGG
* *
17651380 GGTAC-TGAAGTACAAAT-AGG
1 GGCACGT-AAGTGC-AATCAGG
17651400 GGCACGTAAGTGCAATCAGG
1 GGCACGTAAGTGCAATCAGG
* * * *
17651420 GGTATCG-AAGTACAAACAGA
1 GGCA-CGTAAGTGCAATCAGG
**
17651440 GGCACGTAAGTGCAATCAAA
1 GGCACGTAAGTGCAATCAGG
* * *
17651460 GGTATC-AAAGTACAAAT-AGG
1 GGCA-CGTAAGTGC-AATCAGG
*
17651480 GGCACGTAAGTGTAATCAGG
1 GGCACGTAAGTGCAATCAGG
17651500 GGCA-GCTAAGTGCAATCA
1 GGCACG-TAAGTGCAATCA
17651518 TTCAATAATT
Statistics
Matches: 130, Mismatches: 35, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
19 12 0.09
20 107 0.82
21 11 0.08
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (20 bp):
GGCACGTAAGTGCAATCAGG
Found at i:17651453 original size:80 final size:80
Alignment explanation
Indices: 17651320--17651501 Score: 269
Period size: 80 Copynumber: 2.3 Consensus size: 80
17651310 TCCTTTATCA
* * *
17651320 GGCACCTAAGTGCAATCAGGGTTACCGAAGTACAAACAAGGACACATAAGTGCAATCAAGGGTA-
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAAACAAGGACACATAAGTGCAATCAAAGGTAT
*
17651384 CTGAAGTACAAATAGG
66 C-AAAGTACAAATAGG
* *
17651400 GGCACGTAAGTGCAATCAGGGGTATCGAAGTACAAACAGAGG-CACGTAAGTGCAATCAAAGGTA
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAAACA-AGGACACATAAGTGCAATCAAAGGTA
17651464 TCAAAGTACAAATAGG
65 TCAAAGTACAAATAGG
*
17651480 GGCACGTAAGTGTAATCAGGGG
1 GGCACGTAAGTGCAATCAGGGG
17651502 CAGCTAAGTG
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 89 0.96
81 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.16
Consensus pattern (80 bp):
GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAAACAAGGACACATAAGTGCAATCAAAGGTAT
CAAAGTACAAATAGG
Found at i:17658335 original size:51 final size:50
Alignment explanation
Indices: 17658220--17658402 Score: 242
Period size: 51 Copynumber: 3.6 Consensus size: 50
17658210 ATTTATTCGA
* * * *
17658220 TACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAACATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATATGACCAAACCTTCCGG
* *
17658270 TTCACGTAGTAGCCTGCACATAGTACTACACATGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACATATGACCAAA-CCTTCCGG
* * *
17658321 TACACATAGTAGCCTGCACATAGTACTACACATATGACCATTACCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACATATGACCA-AACCT-TCCGG
*
17658372 TACACGTAGTAGCCTGCACTTAGTACTACAC
1 TACACGTAGTAGCCTGCACATAGTACTACAC
17658403 CCGTGTTTAT
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
50 37 0.32
51 78 0.67
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACATATGACCAAACCTTCCGG
Found at i:17666051 original size:13 final size:13
Alignment explanation
Indices: 17666033--17666063 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17666023 AAACTGGACA
*
17666033 TTTATTTTTTTAT
1 TTTATTTTATTAT
17666046 TTTATTTTATTAT
1 TTTATTTTATTAT
17666059 TTTAT
1 TTTAT
17666064 GTATGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:17666393 original size:50 final size:49
Alignment explanation
Indices: 17666313--17666480 Score: 151
Period size: 50 Copynumber: 3.4 Consensus size: 49
17666303 AAAGTAAGAC
* *
17666313 TCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGAT
1 TCGCCATTGTGGCTTTAATATTTTCAACTGCAATGTCGGGGAAGCA-GAT
* * * * * *
17666363 TCGCTATTGTGGCTTTAATATGTTCCACTGC-ATCGCCTGGG-AGTAAGAT
1 TCGCCATTGTGGCTTTAATATTTTCAACTGCAAT-GTCGGGGAAG-CAGAT
** * * *
17666412 TCGCTGTTGTAGCTTTAAAATTTTTAACTGCAATGTCGGGGAAGCGAGAT
1 TCGCCATTGTGGCTTTAATATTTTCAACTGCAATGTCGGGGAAGC-AGAT
* *
17666462 TCACCAATGTGGCTTTAAT
1 TCGCCATTGTGGCTTTAAT
17666481 CTATTCCACG
Statistics
Matches: 90, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
49 37 0.41
50 53 0.59
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (49 bp):
TCGCCATTGTGGCTTTAATATTTTCAACTGCAATGTCGGGGAAGCAGAT
Found at i:17666577 original size:50 final size:50
Alignment explanation
Indices: 17666319--17666782 Score: 143
Period size: 50 Copynumber: 9.3 Consensus size: 50
17666309 AGACTCGCCA
* * * * * **
17666319 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTA
1 TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
* * ** * * * * *
17666369 TTGTGGCTTTAATATGTTCCACTG-CATCGCCT-GGG-AGTAAGATTCGCTG
1 TTGTGGCTTTAATCTTTTTAACTGTAAT--CTTGGGGAAGCAAGATTCACCG
* ** * * * * *
17666418 TTGTAGCTTTAAAATTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCA
1 TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
* * ** * * *** * ** *
17666468 ATGTGGCTTTAATCTATTCCAC-GTCACCGCCAGGGAAGTAAGATTTGCTG
1 TTGTGGCTTTAATCTTTTTAACTGTAATC-TTGGGGAAGCAAGATTCACCG
* * *
17666518 CTGTAGCTTTAATCTTTTTAACTGTAATTTTGGGGAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
* * ** * * * * *
17666568 ATGTGGCTTTAATCTGTTCCACTG-CATCGCCTGGGG-AGTAAGATTCGCTG
1 TTGTGGCTTTAATCTTTTTAACTGTAAT--CTTGGGGAAGCAAGATTCACCG
* * * * * *
17666618 TTGTTGCTTTAATCTTTTTATCTATAATGTCGAGGAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
* ** * *** * * *
17666668 TTGTGGCTTTAAT-TTGCTCCACTAT-ATCGCCAGGGAAGTAACACTCACCG
1 TTGTGGCTTTAATCTT-TTTAACTGTAATC-TTGGGGAAGCAAGATTCACCG
* * * * * * *
17666718 CTGTGGTTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATACACCG
1 TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
* *
17666768 TCGTGGCATTAATCT
1 TTGTGGCTTTAATCT
17666783 GCTCCACTGC
Statistics
Matches: 282, Mismatches: 117, Indels: 30
0.66 0.27 0.07
Matches are distributed among these distances:
49 46 0.16
50 222 0.79
51 14 0.05
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
TTGTGGCTTTAATCTTTTTAACTGTAATCTTGGGGAAGCAAGATTCACCG
Found at i:17667000 original size:100 final size:100
Alignment explanation
Indices: 17666324--17666990 Score: 746
Period size: 100 Copynumber: 6.7 Consensus size: 100
17666314 CGCCATTGTG
* * ** *
17666324 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTATTGTGGCTTTAATATGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
*
17666389 ACTGCATCGCCTGGG-AGTAAGATTCGCTGTTGTA
66 ACTGCATCGCCTGGGAAGTAAGATTCGCTGCTGTA
** * ** *
17666423 GCTTTAAAATTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCAATGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * *
17666488 AC-GTCACCGCCAGGGAAGTAAGATTTGCTGCTGTA
66 ACTG-CATCGCCTGGGAAGTAAGATTCGCTGCTGTA
* * * *
17666523 GCTTTAATCTTTTTAACTGTAATTTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * *
17666588 ACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTT
66 ACTGCATCGCCTGGGAAGTAAGATTCGCTGCTGTA
* ** * * *
17666623 GCTTTAATCTTTTTATCTATAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATTTGCTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
** * * * * * *
17666688 ACTATATCGCCAGGGAAGTAACACTCACCGCTGTG
66 ACTGCATCGCCTGGGAAGTAAGATTCGCTGCTGTA
* * * * * *
17666723 GTTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATACACCGTCGTGGCATTAATCTGCTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * * * *
17666788 ACTGCATTGCCAGGGAAGTAACATTTGCTGCTGTG
66 ACTGCATCGCCTGGGAAGTAAGATTCGCTGCTGTA
* ** ** * *
17666823 GCTTTAGTCTTTTTAACAACAATGTCATGGAGGCAAGATTCAACGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
* * * *
17666888 ACTGC-GCTGCTTGGGAGGTAAGATTTGCTGCTGTA
66 ACTGCATC-GCCTGGGAAGTAAGATTCGCTGCTGTA
* * *
17666923 GCTTTAATCTTTTTAACCGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
17666988 ACT
66 ACT
17666991 ACACCGCTTG
Statistics
Matches: 477, Mismatches: 87, Indels: 7
0.84 0.15 0.01
Matches are distributed among these distances:
98 1 0.00
99 67 0.14
100 408 0.86
101 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCC
ACTGCATCGCCTGGGAAGTAAGATTCGCTGCTGTA
Found at i:17667168 original size:44 final size:44
Alignment explanation
Indices: 17667120--17668054 Score: 371
Period size: 44 Copynumber: 19.9 Consensus size: 44
17667110 ATCCTCTCTA
* *
17667120 CTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* *
17667164 CTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCGATGCGATCTACTCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC--T--G--CT-C-CT
* * *** * * *
17667216 ACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTGCTCCT
* *
17667261 CTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
*
17667305 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTAATCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---TGC--TC----CT
* * *** * * *
17667358 ACTGTAA-CTTCAGAGAGATAAG--TCCTTTATTTTAATCCGCTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTGCTCCT
* * * *
17667402 CTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
*
17667446 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTAGTCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---TGC--TC----CT
* * * * *** * *
17667499 ACTGTAA-CTTTAGAGAGATAAGATCATTTATTTTAATCTGCTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* * * *
17667544 CTGTAATCTCAGGGAGATAGGATTACTGGCTTCTATCTACTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* *
17667588 CTGTAATCTCAGGGGGATAAGATTTCTGGCTTCAATCTAATGCGATCTACTCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---T--G--CT-C-CT
* * * *** * * *
17667641 ACTGTAA-CTTTAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTGCTCCT
* * *
17667686 CTATAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* **
17667730 CTGTAATCTCAGGGAAATAAGATTTTTGGCTTCAATCTGATGCAATCTACTCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---TG----CT-C-CT
* * * * *** * * *
17667783 ACTGTAA-CTTTAGAGAGATAAGATCATTTATTTTAATCTACTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* ** * * *
17667828 CTATAATCTCAGGGAGATTGGATTACTAGCTTCAATCTACTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* *
17667872 CTGTAATCTCAGGGGGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---T--G--CT-C-CT
* * *** * * *
17667925 ACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCA
1 -CTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTGCTCCT
* *
17667970 CTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
* * *
17668014 CTGTAATATCAGGGAGATAAGATTTCTAGCTTCAATCTGCT
1 CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCT
17668055 TCCTTACACT
Statistics
Matches: 656, Mismatches: 155, Indels: 160
0.68 0.16 0.16
Matches are distributed among these distances:
43 16 0.02
44 396 0.60
45 18 0.03
46 5 0.01
47 18 0.03
48 3 0.00
49 9 0.01
50 4 0.01
51 11 0.02
52 10 0.02
53 47 0.07
54 119 0.18
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTGCTCCT
Found at i:17667623 original size:142 final size:142
Alignment explanation
Indices: 17667058--17668052 Score: 1688
Period size: 142 Copynumber: 7.0 Consensus size: 142
17667048 GAGATAAGAC
* *
17667058 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCTCTCTACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
17667123 TAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
17667188 TCTAGCTTCAAT
131 TCTGGCTTCAAT
*
17667200 C-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
17667264 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
17667329 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
17667341 CTGATGCGATCTAATCTACTGTAACTTCAGAGAGATAAG-TCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
17667405 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
17667470 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
17667482 CTGATGCGATCTAGTCTACTGTAACTTTAGAGAGATAAGATCATTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * *
17667547 TAATCTCAGGGAGATAGGATTACTGGCTTCTATCTACTCCGCTGTAATCTCAGGGGGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
17667612 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
17667624 CTAATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
17667689 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAAATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
17667754 TTTGGCTTCAAT
131 TCTGGCTTCAAT
* * ** *
17667766 CTGATGCAATCTACTCTACTGTAACTTTAGAGAGATAAGATCATTTATTTTAATCTACTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * * *
17667831 TAATCTCAGGGAGATTGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGGGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
17667896 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
17667908 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
17667973 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATATCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
17668038 TCTAGCTTCAAT
131 TCTGGCTTCAAT
17668050 CTG
1 CTG
17668053 CTTCCTTACA
Statistics
Matches: 800, Mismatches: 51, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
141 272 0.34
142 528 0.66
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:17670220 original size:14 final size:15
Alignment explanation
Indices: 17670201--17670234 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17670191 TCTCATTTTC
17670201 TTTTTTCTT-TCCCT
1 TTTTTTCTTCTCCCT
*
17670215 TTTTTTCTTCTCTCT
1 TTTTTTCTTCTCCCT
17670230 TTTTT
1 TTTTT
17670235 CATTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCTTCTCCCT
Found at i:17678039 original size:51 final size:49
Alignment explanation
Indices: 17677912--17678099 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 49
17677902 TATCATTCGA
* * * * *
17677912 TACACGTAGTTGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTACC-G
* *
17677962 TTCACTTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTACCAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTACC-G
* * * * *
17678013 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTATCG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCTACCG
*
17678063 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 -TACACGTAGTAGCCTGCACATAGTACTACACACGTG
17678100 TTTATAGGCA
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 38 0.32
51 79 0.67
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTACCG
Found at i:17682323 original size:17 final size:17
Alignment explanation
Indices: 17682301--17682336 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
17682291 CTAATACAAA
17682301 AATAATTATAAA-AAAAT
1 AATAATT-TAAATAAAAT
17682318 AATAATTTAAATAAAAT
1 AATAATTTAAATAAAAT
17682335 AA
1 AA
17682337 ATTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATTTAAATAAAAT
Found at i:17691137 original size:16 final size:17
Alignment explanation
Indices: 17691112--17691146 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17691102 AGAGCTCATA
17691112 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
17691128 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
17691145 TC
1 TC
17691147 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:17701867 original size:14 final size:14
Alignment explanation
Indices: 17701844--17701899 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
17701834 AGAGCTCATA
* *
17701844 TCATCCCTCAACCC
1 TCATCTCTCATCCC
17701858 TCATCTCTCATCCTTC
1 TCATCTCTCATCC--C
*
17701874 TCATCTCTCATCTC
1 TCATCTCTCATCCC
17701888 TCATCTCTCATC
1 TCATCTCTCATC
17701900 TTCTCTCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 24 0.65
16 13 0.35
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (14 bp):
TCATCTCTCATCCC
Found at i:17701877 original size:9 final size:7
Alignment explanation
Indices: 17701857--17701915 Score: 77
Period size: 7 Copynumber: 8.4 Consensus size: 7
17701847 TCCCTCAACC
17701857 CTCATCT
1 CTCATCT
17701864 CTCATCCTT
1 CTCAT-C-T
17701873 CTCATCT
1 CTCATCT
17701880 CTCATCT
1 CTCATCT
17701887 CTCATCT
1 CTCATCT
17701894 CTCATCT
1 CTCATCT
17701901 -TC-TCT
1 CTCATCT
*
17701906 CTCAACT
1 CTCATCT
17701913 CTC
1 CTC
17701916 CTAGCTCCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
5 3 0.06
6 4 0.09
7 32 0.68
8 2 0.04
9 6 0.13
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.42
Consensus pattern (7 bp):
CTCATCT
Found at i:17701898 original size:21 final size:21
Alignment explanation
Indices: 17701857--17701915 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 21
17701847 TCCCTCAACC
17701857 CTCATCTCTCATCCTTCTCATCT
1 CTCATCTCTCAT-C-TCTCATCT
17701880 CTCATCTCTCATCTCTCATCT
1 CTCATCTCTCATCTCTCATCT
*
17701901 -TC-TCTCTCAACTCTC
1 CTCATCTCTCATCTCTC
17701916 CTAGCTCCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 8 0.23
22 1 0.03
23 12 0.34
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCATCTCTCATCTCTCATCT
Found at i:17710233 original size:136 final size:138
Alignment explanation
Indices: 17710093--17710366 Score: 410
Period size: 136 Copynumber: 2.0 Consensus size: 138
17710083 GACCGGCAGT
* * *
17710093 CGGCGCAGTGGCTGACGACTGGCTGATGCCCTAACCTTGGTCGGAGAACTAGGGAGGGGAGAGCC
1 CGGCGCAGTGGCTGACGACTGACTGATGCCCTAACCTTGGCCAGAGAACT-GGGAGGGGAGAGCC
* * * *
17710158 TTTTTTAAAAGGATTTCTG-TTTTTTTT-AAACAATGAGAAAA-TGATTTTTTTTTAATTTTTTG
65 TTTTTTAAAAGGATTTCTGTTTTTTTTTAAAACAATGAGAAAATTAAATTTTTTTAAAGTTTTTG
17710220 GCTTAAAGC
130 GCTTAAAGC
* * *
17710229 CGGCGCGGTGGCTGACGACTGACTGATTCCCTGACCTTGGCCAGAGAACTGGGAGGGGAGAGCCT
1 CGGCGCAGTGGCTGACGACTGACTGATGCCCTAACCTTGGCCAGAGAACTGGGAGGGGAGAGCCT
17710294 TTTTTAAAAGGATTTCTGTTTTTTTTTTAAAAACAATGAGAAAATTAAATTTTTTTAAAGTTTTT
66 TTTTTAAAAGGATTTCTG-TTTTTTTTT-AAAACAATGAGAAAATTAAATTTTTTTAAAGTTTTT
17710359 GGCTTAAA
129 GGCTTAAA
17710367 TAGCCTAGTG
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
135 33 0.27
136 44 0.36
137 8 0.07
139 14 0.11
140 24 0.20
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (138 bp):
CGGCGCAGTGGCTGACGACTGACTGATGCCCTAACCTTGGCCAGAGAACTGGGAGGGGAGAGCCT
TTTTTAAAAGGATTTCTGTTTTTTTTTAAAACAATGAGAAAATTAAATTTTTTTAAAGTTTTTGG
CTTAAAGC
Found at i:17710845 original size:21 final size:22
Alignment explanation
Indices: 17710820--17710861 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17710810 TTACATATAT
*
17710820 ATGT-ATATTTATTGTTTTTTC
1 ATGTAATATTTATTCTTTTTTC
17710841 ATGTACATATTTATTCTTTTT
1 ATGTA-ATATTTATTCTTTTT
17710862 AACGAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (22 bp):
ATGTAATATTTATTCTTTTTTC
Found at i:17721195 original size:100 final size:99
Alignment explanation
Indices: 17721069--17721254 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 99
17721059 AAGCCACAAT
** * * *
17721069 GGCGAATCTTGTTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGACAAATCTTGTTTC
1 GGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGAATGAAGCTACGACGACAAATCCTGTTT-
17721134 CCCAACATTGCAATTAAAAAGATTAAAGTCGCAAC
65 CCCAACATTGCAATTAAAAAGATTAAAGTCGCAAC
* * *
17721169 GGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACGGAATGAAGCTACGACGGCGAATCCTGTTTC
1 GGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGAATGAAGCTACGACGACAAATCCTGTTTC
*
17721234 CCAACATTGCAATTTAAAAGA
66 CCAACATTGCAATTAAAAAGA
17721255 CTGAAGATGG
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
99 21 0.27
100 56 0.73
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (99 bp):
GGCGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGAATGAAGCTACGACGACAAATCCTGTTTC
CCAACATTGCAATTAAAAAGATTAAAGTCGCAAC
Found at i:17721364 original size:44 final size:44
Alignment explanation
Indices: 17721267--17721387 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
17721257 GAAGATGGCG
* * *
17721267 AATCTTATCTCCCTCAAGTTGCA-ATGGAGCATATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGA-GGAGCAGATTAAAACCAAT
* * *
17721311 AATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAACCA-AT
* * *
17721355 GATCTTATCTCTCTGAATTTGCAGA-GAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGCAGAT
17721388 CGCATCTAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
43 7 0.11
44 55 0.86
45 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAACCAAT
Found at i:17721446 original size:45 final size:45
Alignment explanation
Indices: 17721395--17721518 Score: 176
Period size: 45 Copynumber: 2.8 Consensus size: 45
17721385 GATCGCATCT
* *
17721395 AGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
* * *
17721440 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTCAAGAAAGCA
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
* * *
17721485 AGTCTTATCCCCTTGAAATTGCAGTGGGGCAGAC
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGAC
17721519 TAAATAAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (45 bp):
AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
Found at i:17723263 original size:20 final size:20
Alignment explanation
Indices: 17723238--17723276 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17723228 ATTAAATAAT
17723238 GTAATTAGTTTTT-TATATAC
1 GTAATTA-TTTTTATATATAC
17723258 GTAATTATTTTTATATATA
1 GTAATTATTTTTATATATA
17723277 TATATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
GTAATTATTTTTATATATAC
Found at i:17723302 original size:20 final size:21
Alignment explanation
Indices: 17723279--17723320 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17723269 TATATATATA
17723279 TATGT-ATATTTATTATTTTT
1 TATGTAATATTTATTATTTTT
*
17723299 TATGTACATATTTATTCTTTTT
1 TATGTA-ATATTTATTATTTTT
17723321 AACGAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TATGTAATATTTATTATTTTT
Found at i:17723825 original size:27 final size:26
Alignment explanation
Indices: 17723778--17723830 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
17723768 CATTGTCATT
* *
17723778 GTTTATTTTTTTATGTTTATTAGTTTC
1 GTTTATTTATTTAGGTTTATTA-TTTC
17723805 GTTTATTTATTT-GGTTATATTATTTC
1 GTTTATTTATTTAGGTT-TATTATTTC
17723831 TATGCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.68
Consensus pattern (26 bp):
GTTTATTTATTTAGGTTTATTATTTC
Found at i:17744044 original size:27 final size:27
Alignment explanation
Indices: 17744013--17744101 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
17744003 AGAGGTTAAT
*
17744013 AAATGACTGAATTACCCCCACAGGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
** *
17744040 AAATGACCAAATTACCCTCATAGGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
* *
17744067 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACTGAATTACCCCCATAGGGTA
17744094 AAATGACT
1 AAATGACT
17744102 CTTATACACC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCATAGGGTA
Found at i:17744505 original size:28 final size:28
Alignment explanation
Indices: 17744465--17744563 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
17744455 ACTGTACTGA
* *
17744465 TACTATATTGGGCTTAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
17744493 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
17744521 TACTGTATTGGGCTAAGGCCCACATTAT
1 TACTGTATTGGGCTAAGGCCCACATTGT
17744549 TACTGTATTGGGCTA
1 TACTGTATTGGGCTA
17744564 CTGTTACTGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:17750160 original size:27 final size:27
Alignment explanation
Indices: 17750126--17750306 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
17750116 CTTGGGGTGA
*
17750126 AAAATTACTAAAATACCCTCGAAGGGT
1 AAAATTACTGAAATACCCTCGAAGGGT
17750153 AAAATTACTGAAATACCCTCGAAGGGT
1 AAAATTACTGAAATACCCTCGAAGGGT
17750180 AAAATTACTGAAATACCCTCGAAGGGT
1 AAAATTACTGAAATACCCTCGAAGGGT
* *
17750207 AAAATTATTGAAATACCCTCGAAAGGT
1 AAAATTACTGAAATACCCTCGAAGGGT
* *
17750234 AAAATTA-TCGAAATACCCTCAAAGGAT
1 AAAATTACT-GAAATACCCTCGAAGGGT
** * * **
17750261 AAAATTACCAAAATACCGTTGAAAAGT
1 AAAATTACTGAAATACCCTCGAAGGGT
* *
17750288 AAAATGACCGAAATACCCT
1 AAAATTACTGAAATACCCT
17750307 TATGGGTTGA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGAAGGGT
Found at i:17756821 original size:26 final size:24
Alignment explanation
Indices: 17756787--17756845 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 24
17756777 AATATGTATG
* * *
17756787 TTTAATAATATTGAAAATTATAATAT
1 TTTATTAATATTGAAAA--ATAAAAA
*
17756813 TTTATTAAT-TTTAAAAATAAAAA
1 TTTATTAATATTGAAAAATAAAAA
17756836 TTTATTAATA
1 TTTATTAATA
17756846 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 14 0.50
25 6 0.21
26 8 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTATTAATATTGAAAAATAAAAA
Found at i:17761119 original size:27 final size:27
Alignment explanation
Indices: 17761089--17761304 Score: 220
Period size: 27 Copynumber: 8.0 Consensus size: 27
17761079 TGAAATATTG
*
17761089 TCGAAGGGTAAAATTACCGAATTACCC
1 TCGAAGGGTAAAATTACCGAAATACCC
*
17761116 TCGAAGGGTAAAATTATCGAAATACCC
1 TCGAAGGGTAAAATTACCGAAATACCC
** **
17761143 TCGAAGGGTAAAATTACTTAAATACTG
1 TCGAAGGGTAAAATTACCGAAATACCC
* * *
17761170 TCGAAGGTTAAAATTACTGAAATAACC
1 TCGAAGGGTAAAATTACCGAAATACCC
** * *
17761197 TTAAAGGGTAAAATTATCAAAATACCC
1 TCGAAGGGTAAAATTACCGAAATACCC
* *
17761224 -CTGAAAGGTAAAATTATCGAAATACCC
1 TC-GAAGGGTAAAATTACCGAAATACCC
* * *
17761251 TAGAAGGATAAAATTACCGAAATACTC
1 TCGAAGGGTAAAATTACCGAAATACCC
* *
17761278 T-GAAAGGGTAAAATGACTGAAATACCC
1 TCG-AAGGGTAAAATTACCGAAATACCC
17761305 CTATAGCGTA
Statistics
Matches: 154, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (27 bp):
TCGAAGGGTAAAATTACCGAAATACCC
Found at i:17761206 original size:81 final size:81
Alignment explanation
Indices: 17761071--17761306 Score: 255
Period size: 81 Copynumber: 2.9 Consensus size: 81
17761061 CTTGGGCCAA
* * * * * *
17761071 AAAATAACTGAAATATTGTCGAAGGGTAAAATTACCGAATTACCCTCGAAGGGTAAAATTATCGA
1 AAAATTACTGAAATACTGTCGAAGGATAAAATTACCGAAATAACCTCAAAGGGTAAAATTATCGA
*
17761136 AATA-CCCTCGAAGGGT
66 AATACCCCT-GAAAGGT
* * * * *
17761152 AAAATTACTTAAATACTGTCGAAGGTTAAAATTACTGAAATAACCTTAAAGGGTAAAATTATCAA
1 AAAATTACTGAAATACTGTCGAAGGATAAAATTACCGAAATAACCTCAAAGGGTAAAATTATCGA
17761217 AATACCCCTGAAAGGT
66 AATACCCCTGAAAGGT
** * * *
17761233 AAAATTA-TCGAAATACCCTAGAAGGATAAAATTACCGAAAT-ACTCTGAAAGGGTAAAATGA-C
1 AAAATTACT-GAAATACTGTCGAAGGATAAAATTACCGAAATAAC-CTCAAAGGGTAAAATTATC
17761295 TGAAATACCCCT
64 -GAAATACCCCT
17761307 ATAGCGTAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.03
81 123 0.94
82 4 0.03
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (81 bp):
AAAATTACTGAAATACTGTCGAAGGATAAAATTACCGAAATAACCTCAAAGGGTAAAATTATCGA
AATACCCCTGAAAGGT
Found at i:17763868 original size:24 final size:25
Alignment explanation
Indices: 17763841--17763887 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
17763831 ACTGATCATA
*
17763841 GAGAGAATTGAGGA-AGGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
17763865 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
17763888 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:17764690 original size:27 final size:27
Alignment explanation
Indices: 17764468--17764689 Score: 320
Period size: 27 Copynumber: 8.2 Consensus size: 27
17764458 AGAGGTTAAT
*
17764468 AAATGATCGAATTAGCCCCACAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* * *
17764495 AAATGATTGAATTACCCTCATAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
*
17764522 AAATGATCGAATTACCCCCACAGTGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* *
17764549 AGATGA-CTGAATTAACCCCACAGGGTA
1 AAATGATC-GAATTACCCCCACAGGGTA
*
17764576 AAATGATCGAATTACCCCCATAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
17764603 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
*
17764630 AAATAATCGAATTACCCCCACAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* * *
17764657 AAATGACCGAATTACCCCCATAGGATA
1 AAATGATCGAATTACCCCCACAGGGTA
17764684 AAATGA
1 AAATGA
17764690 CTGTTATACC
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 171 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATGATCGAATTACCCCCACAGGGTA
Found at i:17764699 original size:27 final size:27
Alignment explanation
Indices: 17764642--17764723 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
17764632 ATAATCGAAT
* * * *
17764642 TACCCCCACAGGGTAAAATGACCG-AA
1 TACCCCCATAGGATAAAATGACTGTTA
17764668 TTACCCCCATAGGATAAAATGACTGTTA
1 -TACCCCCATAGGATAAAATGACTGTTA
*
17764696 TA-CCCC-TAGGAGATGAAATGACTGTTA
1 TACCCCCATA-G-GATAAAATGACTGTTA
17764723 T
1 T
17764724 GGCCTTATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
25 2 0.04
26 5 0.11
27 39 0.83
28 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (27 bp):
TACCCCCATAGGATAAAATGACTGTTA
Found at i:17765108 original size:28 final size:28
Alignment explanation
Indices: 17765055--17765136 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
17765045 ACTGTACTGA
*
17765055 TACTGTATTGGGAGCTAAGGCTCACATTGT
1 TACTGTATT-GG-GCTAAGGCCCACATTGT
17765085 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
17765113 TACTGTATTGGGCTAAGGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
17765137 CTATACTGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 40 0.78
29 2 0.04
30 9 0.18
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:17765159 original size:33 final size:29
Alignment explanation
Indices: 17765055--17765165 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 29
17765045 ACTGTACTGA
*
17765055 TACTGTATTGGGAGCTAAGG-CTCACATTGT
1 TACTGTATT-GG-GCTAAGGCCCCACATTGT
17765085 TACTGTATTGGGCTAAGG-CCCACATTGT
1 TACTGTATTGGGCTAAGGCCCCACATTGT
17765113 TACTGTATTGGGCTAAGGCCCACACTATACTGT
1 TACTGTATTGGGCTAAGGCCC-CAC-AT--TGT
* * *
17765146 TACTGAATAGGGCTCAGGCC
1 TACTGTATTGGGCTAAGGCC
17765166 AATACTGTCA
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
28 34 0.47
29 4 0.06
30 12 0.17
31 2 0.03
33 20 0.28
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (29 bp):
TACTGTATTGGGCTAAGGCCCCACATTGT
Found at i:17771142 original size:22 final size:21
Alignment explanation
Indices: 17771086--17771147 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
17771076 CAGTAATTAG
*
17771086 AATGGCTAAGAGCTATAAACAG
1 AATGGCTAA-AGCTATAAACAA
* * *
17771108 GATAGTTATAAGCTATAAACAA
1 AATGGCTA-AAGCTATAAACAA
*
17771130 AATGGCTACAAGCCATAA
1 AATGGCTA-AAGCTATAA
17771148 GTACAATAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (21 bp):
AATGGCTAAAGCTATAAACAA
Found at i:17771289 original size:32 final size:31
Alignment explanation
Indices: 17771189--17771306 Score: 112
Period size: 32 Copynumber: 3.7 Consensus size: 31
17771179 GTAGCAGTGA
*
17771189 TATGATCGGCACAAAGCCATCAATAACGGTAAC
1 TATGATCGGCACAAA-CCATCAATAATGGT-AC
* * * *
17771222 -ATTACCGGCACACAACCATCGATAATGGTAA
1 TATGATCGGCACA-AACCATCAATAATGGTAC
*
17771253 TATGATCGGGACAAATCCATCAATAATGGTAC
1 TATGATCGGCACAAA-CCATCAATAATGGTAC
**
17771285 TATGATTAGCACAAAGCCATCA
1 TATGATCGGCACAAA-CCATCA
17771307 GTAGCATCGC
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
31 3 0.04
32 63 0.93
33 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (31 bp):
TATGATCGGCACAAACCATCAATAATGGTAC
Found at i:17771497 original size:24 final size:23
Alignment explanation
Indices: 17771470--17771547 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
17771460 GCTCAGAATT
17771470 AGTCATTCAAATCACAGACAAATC
1 AGTCATTCAAA-CACAGACAAATC
*
17771494 AGTCATACCAAACACAGACAAATC
1 AGTCAT-TCAAACACAGACAAATC
* *
17771518 AGTCATTCAACCACAGACAAAAC
1 AGTCATTCAAACACAGACAAATC
*
17771541 AATCATT
1 AGTCATT
17771548 TAACCAAGAG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 20 0.42
24 24 0.50
25 4 0.08
ACGTcount: A:0.47, C:0.27, G:0.08, T:0.18
Consensus pattern (23 bp):
AGTCATTCAAACACAGACAAATC
Found at i:17773339 original size:20 final size:21
Alignment explanation
Indices: 17773314--17773356 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17773304 TTATTATGCT
17773314 AATTTATA-AAGAAAAAAACA
1 AATTTATATAAGAAAAAAACA
* *
17773334 AATTTATATAAGTAAATAACA
1 AATTTATATAAGAAAAAAACA
17773355 AA
1 AA
17773357 ATAATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
AATTTATATAAGAAAAAAACA
Found at i:17773719 original size:6 final size:6
Alignment explanation
Indices: 17773708--17773739 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
17773698 AAGTCCAGTT
17773708 CAGGTC CAGGTC CAGGTC CAGGTC CAGGTC CA
1 CAGGTC CAGGTC CAGGTC CAGGTC CAGGTC CA
17773740 CAAGTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.31, T:0.16
Consensus pattern (6 bp):
CAGGTC
Found at i:17792956 original size:7 final size:7
Alignment explanation
Indices: 17792944--17792968 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17792934 CTTTTTCAAG
17792944 CATCCCT
1 CATCCCT
17792951 CATCCCT
1 CATCCCT
17792958 CATCCCT
1 CATCCCT
17792965 CATC
1 CATC
17792969 TATCTCATCT
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:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (7 bp):
CATCCCT
Found at i:17802120 original size:27 final size:27
Alignment explanation
Indices: 17802068--17802936 Score: 944
Period size: 27 Copynumber: 32.4 Consensus size: 27
17802058 GGTATAACAA
*
17802068 TCATTTTACCCTAT-GGGGCATCTT-GG
1 TCATTTTACCCTATGGGGGTAT-TTCGG
* * *
17802094 TTATTTTACCCTATGGGGGCATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802121 TCATTTTACCCTATGGGGGTAATTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802148 TCATTTTTCCCTATGGGGGCATCTT-GG
1 TCATTTTACCCTATGGGGGTAT-TTCGG
* * *
17802175 TCATTTTACCCTATGAGGGTACTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802202 TCATTCTACCCTATAGGGGTAATTT-GG
1 TCATTTTACCCTATGGGGGT-ATTTCGG
**
17802229 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802256 TCATTTTACCCTAT-GGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
17802282 TCGTTCTACCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802309 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** * **
17802336 TCATTTTATCCTATAAGTGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
** * **
17802363 TCATTTTACATTATAGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
17802390 TCATTTTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802417 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
17802444 TCATTCTATCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
17802471 TCAGTTTACCCTAT-GAGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
17802497 TCGTTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
**
17802524 TCATTTTACCCTATGGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802551 TTATTTTACCCTATGGGGGCATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** *
17802578 TTATTTTACCCTATACGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802605 TCATTTTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802632 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
17802659 TCAGTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802686 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802713 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802740 TCATTCTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802767 TGATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802794 TCA--TTACACTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
17802819 TCATTCTACCCTATGGGGCTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802846 TTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * * *
17802873 TCATTCTATCCTCTGGGGATATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
17802900 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
17802927 TCATTTTACC
1 TCATTTTACC
17802937 TATTTTGGGG
Statistics
Matches: 712, Mismatches: 121, Indels: 19
0.84 0.14 0.02
Matches are distributed among these distances:
25 22 0.03
26 62 0.09
27 623 0.88
28 5 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:17807123 original size:72 final size:72
Alignment explanation
Indices: 17807006--17807150 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
17806996 TACCTATGCT
* *
17807006 TTCTTGTGCACCAAAACTATCTCTAAGATCAAAGATATGATTTTGATATCCCAAATCAGTATGGA
1 TTCTTCTGCACCAAAACTATCTCCAAGATCAAAGATATGATTTTGATATCCCAAATCAGTATGGA
*
17807071 TCAAGTA
66 CCAAGTA
* * * * * *
17807078 TTCTTCTGCGCCAAAAGTATCTCCAGGATCAAAGATATTATTTTGATATCTCGAATCAGTATGGA
1 TTCTTCTGCACCAAAACTATCTCCAAGATCAAAGATATGATTTTGATATCCCAAATCAGTATGGA
17807143 CCAAGTA
66 CCAAGTA
17807150 T
1 T
17807151 CTCTCCTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (72 bp):
TTCTTCTGCACCAAAACTATCTCCAAGATCAAAGATATGATTTTGATATCCCAAATCAGTATGGA
CCAAGTA
Found at i:17807611 original size:40 final size:40
Alignment explanation
Indices: 17807555--17807633 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
17807545 TTTTTATTTC
17807555 TAAATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTT
1 TAAATTTTTTTAATTTTAAAATACTTTTAAAATA-TTTTTT
*
17807596 TAAA-TTTTTTAATTTTAAAATATTTTTAAAATATTTTT
1 TAAATTTTTTTAATTTTAAAATACTTTTAAAATATTTTT
17807634 AAAATATTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 5 0.14
40 28 0.76
41 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (40 bp):
TAAATTTTTTTAATTTTAAAATACTTTTAAAATATTTTTT
Found at i:17807665 original size:59 final size:60
Alignment explanation
Indices: 17807568--17807692 Score: 200
Period size: 59 Copynumber: 2.1 Consensus size: 60
17807558 ATTTTTTTAA
17807568 TTTTAAAATACTTTTAAAATACTTTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTAAAATACTTTTAAAATAC--TTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAT
*
17807630 TTTTAAAATA-TTGTTAAAATAC-TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTAAAATACTT-TTAAAATACTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAT
17807689 TTTT
1 TTTT
17807693 TTAAAATTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
59 40 0.66
61 2 0.03
62 19 0.31
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (60 bp):
TTTTAAAATACTTTTAAAATACTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAT
Found at i:17807703 original size:11 final size:11
Alignment explanation
Indices: 17807568--17807692 Score: 96
Period size: 11 Copynumber: 12.4 Consensus size: 11
17807558 ATTTTTTTAA
*
17807568 TTTTAAAATAC
1 TTTTAAAATAT
17807579 TTTTAAAATACTT
1 TTTTAAAATA--T
*
17807592 TTTTTAAAT-T
1 TTTTAAAATAT
17807602 TTTT---A-A-
1 TTTTAAAATAT
17807608 TTTTAAAATAT
1 TTTTAAAATAT
17807619 TTTTAAAATAT
1 TTTTAAAATAT
17807630 TTTTAAAATAT
1 TTTTAAAATAT
* *
17807641 TGTTAAAATAC
1 TTTTAAAATAT
17807652 TTTT--AAT-T
1 TTTTAAAATAT
*
17807660 TTTT----TAA
1 TTTTAAAATAT
17807667 TTTTAAAATAT
1 TTTTAAAATAT
17807678 TTTTAAAATAT
1 TTTTAAAATAT
17807689 TTTT
1 TTTT
17807693 TTAAAATTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 26
0.73 0.06 0.20
Matches are distributed among these distances:
6 5 0.05
7 5 0.05
8 4 0.04
9 4 0.04
10 6 0.06
11 61 0.66
13 8 0.09
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:17807708 original size:14 final size:13
Alignment explanation
Indices: 17807579--17807710 Score: 68
Period size: 11 Copynumber: 10.5 Consensus size: 13
17807569 TTTAAAATAC
17807579 TTTTAAAATACTTT
1 TTTTAAAATA-TTT
* *
17807593 TTTTAAATTTTTT
1 TTTTAAAATATTT
17807606 AATTTTAAAATA--T
1 --TTTTAAAATATTT
17807619 TTTTAAAATA--T
1 TTTTAAAATATTT
17807630 TTTTAAAATA--T
1 TTTTAAAATATTT
* *
17807641 TGTTAAAATA--C
1 TTTTAAAATATTT
** *
17807652 TTTTAATTTTTTT
1 TTTTAAAATATTT
17807665 AATTTTAAAATA--T
1 --TTTTAAAATATTT
17807678 TTTTAAAATATTT
1 TTTTAAAATATTT
*
17807691 TTTTAAAATTTTT
1 TTTTAAAATATTT
17807704 GTTTTAA
1 -TTTTAA
17807711 TTTTTAAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
11 47 0.50
13 18 0.19
14 14 0.15
15 15 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:17810295 original size:17 final size:18
Alignment explanation
Indices: 17810258--17810297 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17810248 AACCCACAAA
*
17810258 TTTTTTTTATTTTTTAGT
1 TTTTTTTTATATTTTAGT
*
17810276 TTTTTTTTGTATTTTA-T
1 TTTTTTTTATATTTTAGT
17810293 TTTTT
1 TTTTT
17810298 GTACGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTTTTTATATTTTAGT
Found at i:17810692 original size:13 final size:14
Alignment explanation
Indices: 17810651--17810692 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
17810641 AATCCAAGTC
* *
17810651 AAATAAAACAATTA
1 AAATAAAATAACTA
17810665 AAAT-AAATAACTA
1 AAATAAAATAACTA
17810678 AAATAAAATAA-TA
1 AAATAAAATAACTA
17810691 AA
1 AA
17810693 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:17815344 original size:22 final size:22
Alignment explanation
Indices: 17815317--17815358 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17815307 CGGCTCAGTT
*
17815317 TTTATTTATTGAA-TTATTTAGG
1 TTTA-TTATTCAATTTATTTAGG
17815339 TTTATTATTCAATTTATTTA
1 TTTATTATTCAATTTATTTA
17815359 ATTATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTATTATTCAATTTATTTAGG
Found at i:17817459 original size:14 final size:14
Alignment explanation
Indices: 17817435--17817473 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 14
17817425 GAAGAAAGTG
17817435 TAAAAAGAAAGAAAT
1 TAAAAA-AAAGAAAT
17817450 TAAAAAAAAGAAAT
1 TAAAAAAAAGAAAT
17817464 TAAAACAAAA
1 TAAAA-AAAA
17817474 AAAGCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (14 bp):
TAAAAAAAAGAAAT
Found at i:17819705 original size:26 final size:27
Alignment explanation
Indices: 17819635--17819700 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
17819625 CACAAGTAGA
17819635 TATAAAATGACTGTTATGCCCCCACGT
1 TATAAAATGACTGTTATGCCCCCACGT
** * *
17819662 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACTGTTATGCCCCCACGT
17819689 TATAAAATGACT
1 TATAAAATGACT
17819701 ATATGATGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACGT
Found at i:17826706 original size:27 final size:27
Alignment explanation
Indices: 17826647--17826712 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
17826637 CCCAAACTGA
17826647 TATAAAATGACTGTTATGCCCTCATGC
1 TATAAAATGACTGTTATGCCCTCATGC
** *
17826674 GGTAAAATGACTGTTATGCCC-CTATGT
1 TATAAAATGACTGTTATGCCCTC-ATGC
17826701 TATAAAATGACT
1 TATAAAATGACT
17826713 ATATGTTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCTCATGC
Found at i:17831726 original size:11 final size:11
Alignment explanation
Indices: 17831710--17831734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17831700 AATAATATAA
17831710 ATTCATAAAAT
1 ATTCATAAAAT
17831721 ATTCATAAAAT
1 ATTCATAAAAT
17831732 ATT
1 ATT
17831735 TCGAAAAATT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTCATAAAAT
Found at i:17840898 original size:45 final size:44
Alignment explanation
Indices: 17840791--17840901 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 44
17840781 TCTACATTTA
*
17840791 TTTTGTTGTGTACCTACAACCATAGGCAGATTCCATCTACGACAG
1 TTTTGTTGTGTACC-ACAACCATAGGCAGATTCCACCTACGACAG
** * * * *
17840836 TCATGTTATATACCCACAACCATAGGCAGATTCCACCTGCGACAT
1 TTTTGTTGTGTA-CCACAACCATAGGCAGATTCCACCTACGACAG
*
17840881 TTTTGTTGTGCATCCACAACC
1 TTTTGTTGTGTA-CCACAACC
17840902 CTTTGACAGT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
TTTTGTTGTGTACCACAACCATAGGCAGATTCCACCTACGACAG
Found at i:17841988 original size:21 final size:21
Alignment explanation
Indices: 17841964--17842006 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17841954 ATTAAAATTG
17841964 AAATAGATATAAT-ATTACAAT
1 AAAT-GATATAATGATTACAAT
* *
17841985 AAATTATATAGTGATTACAAT
1 AAATGATATAATGATTACAAT
17842006 A
1 A
17842007 TTTGAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
AAATGATATAATGATTACAAT
Found at i:17847410 original size:49 final size:47
Alignment explanation
Indices: 17847290--17848184 Score: 1468
Period size: 47 Copynumber: 18.7 Consensus size: 47
17847280 TTAGGATTCT
* * *
17847290 ATGTGATGGATGTGCACA-TGTATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTG-AAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17847337 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17847384 ATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17847431 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
17847480 ATGGGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
17847529 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17847576 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
17847625 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
17847674 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
17847723 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17847770 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17847817 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17847864 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
17847911 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
17847960 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
17848009 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
17848056 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
17848103 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
17848150 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17848185 TCCCGAAGGG
Statistics
Matches: 815, Mismatches: 26, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
46 2 0.00
47 479 0.59
49 334 0.41
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:17847558 original size:145 final size:143
Alignment explanation
Indices: 17847290--17848184 Score: 1489
Period size: 145 Copynumber: 6.2 Consensus size: 143
17847280 TTAGGATTCT
* * *
17847290 ATGTGATGGATGTGCACA-TGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTG-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
17847354 GTGTATATATA--TGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGATA
65 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
17847417 AGGCCTAATGGCCG
130 AGGCCTAATGGCCG
* *
17847431 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGGGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17847496 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
64 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
17847561 AAGGCCTAATGGCTG
129 AAGGCCTAATGGCCG
17847576 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17847641 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
64 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
17847706 ATAAGGCCTAATGGCCG
127 ATAAGGCCTAATGGCCG
17847723 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
17847788 TG--TATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
17847851 GGCCTAATGGTCG
131 GGCCTAATGGCCG
17847864 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
17847929 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
17847994 AAGGCCTAATGGCCG
129 AAGGCCTAATGGCCG
*
17848009 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
17848074 TG--TATATATGTGATAAGTCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
17848137 GGCCGAGTGGCCA
131 GGCCTAATGGCCG
* * *
17848150 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17848185 TCCCGAAGGG
Statistics
Matches: 719, Mismatches: 24, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
140 2 0.00
141 161 0.22
143 191 0.27
145 319 0.44
147 46 0.06
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCG
Found at i:17847823 original size:22 final size:22
Alignment explanation
Indices: 17847795--17847870 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
17847785 AAGTGTATAT
17847795 ATGTGATAAGGCCTAATGGTCG
1 ATGTGATAAGGCCTAATGGTCG
* *** * **
17847817 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GTCG
17847842 ATGTGATAAGGCCTAATGGTCG
1 ATGTGATAAGGCCTAATGGTCG
17847864 ATGTGAT
1 ATGTGAT
17847871 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGTCG
Found at i:17848359 original size:37 final size:37
Alignment explanation
Indices: 17848303--17848381 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17848293 CCGAGCTCTA
* * *
17848303 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17848340 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17848377 AAGAC
1 AAGAC
17848382 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17849899 original size:40 final size:40
Alignment explanation
Indices: 17849576--17849881 Score: 504
Period size: 40 Copynumber: 7.7 Consensus size: 40
17849566 GAGAATTGAG
17849576 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
17849616 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
17849656 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
17849696 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
17849736 AGTGACATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
17849776 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** * *
17849816 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
17849856 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
17849882 AGAGTAATCA
Statistics
Matches: 248, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 248 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:17853689 original size:49 final size:49
Alignment explanation
Indices: 17853569--17854477 Score: 1461
Period size: 49 Copynumber: 18.8 Consensus size: 49
17853559 TTAGGATTCT
* *
17853569 ATGTGATGGATGTGAACA-TG--TATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17853616 ATGCGATGAATGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17853663 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17853712 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17853761 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
17853810 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
17853859 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
17853908 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
17853957 ATGTGATGAATTTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGT----GTATATATATGTGATAAGGCCTAATGGCCG
*
17854010 ATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17854059 ATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17854108 ATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
17854157 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17854206 ATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17854255 ATGTGATGAATGTGAAAGTGTATATAT-T-TGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
17854302 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGTCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
17854349 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
17854396 ATGTGATGAATGTG-AA-TGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
17854443 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
17854478 TCCCGAAGGG
Statistics
Matches: 817, Mismatches: 30, Indels: 30
0.93 0.03 0.03
Matches are distributed among these distances:
45 7 0.01
46 4 0.00
47 218 0.27
48 4 0.00
49 539 0.66
53 45 0.06
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:17854652 original size:37 final size:37
Alignment explanation
Indices: 17854596--17854674 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17854586 TCGAGCTCTA
* * *
17854596 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
17854633 AAGACCCGATAACTTCGTGTGGAGATTATGTCCTGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17854670 AAGAC
1 AAGAC
17854675 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17858821 original size:35 final size:35
Alignment explanation
Indices: 17858739--17858821 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
17858729 AGCTATAGAC
* *
17858739 AAGGCCGCTAAAACTTGCAGTGTTTATTTGAAAAA
1 AAGGCCGCTAAAGCTTGCAGCGTTTATTTGAAAAA
* *
17858774 AAGGCCGCTAAAGCTTGCGGCGTTTCTTTGAAAAA
1 AAGGCCGCTAAAGCTTGCAGCGTTTATTTGAAAAA
*
17858809 AATGCCGCTAAAG
1 AAGGCCGCTAAAG
17858822 ATCTTGACTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (35 bp):
AAGGCCGCTAAAGCTTGCAGCGTTTATTTGAAAAA
Found at i:17858878 original size:43 final size:43
Alignment explanation
Indices: 17858831--17859077 Score: 230
Period size: 43 Copynumber: 5.7 Consensus size: 43
17858821 GATCTTGACT
* * * *
17858831 TTTAGCGGTGCTTTTATAGAAAACGCCGCTA-AAGGTCGTGGTC
1 TTTAGCGGCGCTTTTTTATAAAACGCCGCTATAA-GTCGTGGCC
* * ** * *
17858874 TTTAGCGGTGCTATCATAGAAAATGCCGCTA-AATGTCGTGGCC
1 TTTAGCGGCGCTTTTTTATAAAACGCCGCTATAA-GTCGTGGCC
* * * * *
17858917 TTTAACAGCGCTTTTTTATAAAACTCCACTATAAGTCATGGCC
1 TTTAGCGGCGCTTTTTTATAAAACGCCGCTATAAGTCGTGGCC
* *
17858960 TTTAGCGGCGTTTTTTTATAAAACGCTGCTATAAGTCGTGGCC
1 TTTAGCGGCGCTTTTTTATAAAACGCCGCTATAAGTCGTGGCC
* * * * *
17859003 TTTAGCAGCACTTTTTTTATAAAACGCCGTTATAATTCGTGGTC
1 TTTAGCGGCGC-TTTTTTATAAAACGCCGCTATAAGTCGTGGCC
*
17859047 TTTAGCGGTGCTTTTTT-TACAAACGCCGCTA
1 TTTAGCGGCGCTTTTTTATA-AAACGCCGCTA
17859078 ATTTGGGCAA
Statistics
Matches: 167, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.01
43 127 0.76
44 38 0.23
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTTATAAAACGCCGCTATAAGTCGTGGCC
Found at i:17859071 original size:87 final size:86
Alignment explanation
Indices: 17858893--17859077 Score: 221
Period size: 87 Copynumber: 2.1 Consensus size: 86
17858883 GCTATCATAG
* * *
17858893 AAAATGCCGCTA-AATGTCGTGGCCTTTAACAGCGCTTTTTTATAAAACTCCACTATAAGTCATG
1 AAAACGCCGCTATAA-GTCGTGGCCTTTAACAGCACTTTTTTATAAAACGCCACTATAAGTCATG
17858957 GCCTTTAGCGGCGTTTTTTTAT
65 GCCTTTAGCGGCGTTTTTTTAT
* * ** * *
17858979 AAAACGCTGCTATAAGTCGTGGCCTTTAGCAGCACTTTTTTTATAAAACGCCGTTATAATTCGTG
1 AAAACGCCGCTATAAGTCGTGGCCTTTAACAGCAC-TTTTTTATAAAACGCCACTATAAGTCATG
* *
17859044 GTCTTTAGCGGTGCTTTTTTTA-
65 GCCTTTAGCGGCG-TTTTTTTAT
*
17859066 CAAACGCCGCTA
1 AAAACGCCGCTA
17859078 ATTTGGGCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
86 28 0.34
87 47 0.57
88 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (86 bp):
AAAACGCCGCTATAAGTCGTGGCCTTTAACAGCACTTTTTTATAAAACGCCACTATAAGTCATGG
CCTTTAGCGGCGTTTTTTTAT
Found at i:17859771 original size:13 final size:14
Alignment explanation
Indices: 17859745--17859773 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17859735 ACTAACGACA
17859745 AATTAAACCATTAT
1 AATTAAACCATTAT
17859759 AATTAAA-CATTAT
1 AATTAAACCATTAT
17859772 AA
1 AA
17859774 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:17863280 original size:27 final size:27
Alignment explanation
Indices: 17863245--17863315 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
17863235 AAATATTTAA
17863245 ACATAAAAACAGTATGCATATGGGAAAT
1 ACAT-AAAACAGTATGCATATGGGAAAT
*
17863273 A-ATTAAAACCGTATGCATATGGGAAAT
1 ACA-TAAAACAGTATGCATATGGGAAAT
*
17863300 ACATAAAATAGTATGC
1 ACATAAAACAGTATGC
17863316 CAGTACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (27 bp):
ACATAAAACAGTATGCATATGGGAAAT
Found at i:17864259 original size:20 final size:21
Alignment explanation
Indices: 17864227--17864267 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
17864217 GGAGATAATG
17864227 CATTTTAAAAAAATAAATACA
1 CATTTTAAAAAAATAAATACA
17864248 CATTTT-AAAAAATAAATACA
1 CATTTTAAAAAAATAAATACA
17864268 TCAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
CATTTTAAAAAAATAAATACA
Found at i:17864616 original size:7 final size:7
Alignment explanation
Indices: 17864602--17864645 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
17864592 TCCCCAATAT
17864602 ACCATAA
1 ACCATAA
*
17864609 ACCTTAA
1 ACCATAA
17864616 ACCATAA
1 ACCATAA
17864623 ATCC-TAA
1 A-CCATAA
*
17864630 ACCCTAA
1 ACCATAA
17864637 ACCATAA
1 ACCATAA
17864644 AC
1 AC
17864646 ATTAAACCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 2 0.06
7 28 0.88
8 2 0.06
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (7 bp):
ACCATAA
Found at i:17864723 original size:102 final size:102
Alignment explanation
Indices: 17864525--17864762 Score: 313
Period size: 102 Copynumber: 2.3 Consensus size: 102
17864515 ACTCAAAGAT
* * *
17864525 TAAATCCTAAACCTTAAACCTTAAACCCTAAACCACAAAACACCAACCACCAAACCCTAAAATCC
1 TAAACCCTAAACCATAAACATTAAACCCTAAACCACAAAACACCAACCACCAAACCCTAAAATCC
17864590 AATCCCCAATATACCATAAACCTTAAACCATAAATCC
66 AATCCCCAATATACCATAAACCTTAAACCATAAATCC
*
17864627 TAAACCCTAAACCATAAACATTAAACCCGTAAATCAC-AAA-ACCAACCACCAAAACCC-AAAAT
1 TAAACCCTAAACCATAAACATTAAACCC-TAAACCACAAAACACCAACCACC-AAACCCTAAAAT
*
17864689 TCAATCCCCAATATACCCA-AAACCCTTAAACCATAAATCC
64 CCAATCCCCAATATA-CCATAAA-CCTTAAACCATAAATCC
* * ** * *
17864729 TAAACCATAAAACACCAACCTTAAACTCTAAACC
1 TAAACCCTAAACCATAAACATTAAACCCTAAACC
17864763 GTAAACCCTA
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
101 37 0.31
102 76 0.63
103 7 0.06
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (102 bp):
TAAACCCTAAACCATAAACATTAAACCCTAAACCACAAAACACCAACCACCAAACCCTAAAATCC
AATCCCCAATATACCATAAACCTTAAACCATAAATCC
Found at i:17864725 original size:7 final size:7
Alignment explanation
Indices: 17864715--17864792 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
17864705 CCAAAACCCT
17864715 TAAACCA
1 TAAACCA
17864722 TAAATCC-
1 TAAA-CCA
17864729 TAAACCA
1 TAAACCA
*
17864736 TAAAACA
1 TAAACCA
** *
17864743 CCAACCT
1 TAAACCA
17864750 TAAACTC-
1 TAAAC-CA
*
17864757 TAAACCG
1 TAAACCA
*
17864764 TAAACCC
1 TAAACCA
17864771 TAAACCA
1 TAAACCA
*
17864778 TAATCC-
1 TAAACCA
17864784 TAAACCA
1 TAAACCA
17864791 TA
1 TA
17864793 TCTTTGGGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
6 8 0.15
7 44 0.80
8 3 0.05
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:17864734 original size:14 final size:14
Alignment explanation
Indices: 17864715--17864792 Score: 72
Period size: 14 Copynumber: 5.6 Consensus size: 14
17864705 CCAAAACCCT
17864715 TAAACCATAAATCC
1 TAAACCATAAATCC
*
17864729 TAAACCATAAAACAC
1 TAAACCATAAATC-C
* *
17864744 -CAACCTTAAA-CTC
1 TAAACCATAAATC-C
* *
17864757 TAAACCGTAAACCC
1 TAAACCATAAATCC
17864771 TAAACCAT-AATCC
1 TAAACCATAAATCC
17864784 TAAACCATA
1 TAAACCATA
17864793 TCTTTGGGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
13 14 0.27
14 36 0.69
15 2 0.04
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (14 bp):
TAAACCATAAATCC
Found at i:17864753 original size:28 final size:28
Alignment explanation
Indices: 17864707--17864792 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 28
17864697 CAATATACCC
17864707 AAAACCCTTAAACCATAAATCCTAAACCAT
1 AAAACCC--AAACCATAAATCCTAAACCAT
* *
17864737 AAAACACC-AACCTTAAA-CTCTAAACCGT
1 AAAAC-CCAAACCATAAATC-CTAAACCAT
17864765 -AAACCCTAAACCAT-AATCCTAAACCAT
1 AAAACCC-AAACCATAAATCCTAAACCAT
17864792 A
1 A
17864793 TCTTTGGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.04
27 15 0.33
28 22 0.48
30 5 0.11
31 2 0.04
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (28 bp):
AAAACCCAAACCATAAATCCTAAACCAT
Found at i:17865373 original size:114 final size:114
Alignment explanation
Indices: 17865186--17865459 Score: 377
Period size: 114 Copynumber: 2.4 Consensus size: 114
17865176 ATTTTCCAGA
* * * * * * *
17865186 AAGCGCGGCTAATGCCACTAAATCTTAAGCTAGAATGATGCGTTTTGATTAACATTTTTACGGTA
1 AAGCGCCGCTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTTGATTAACATTTTTACGGCA
*
17865251 TTTTTAGAAAAGCACTGCTAATTCTCGACATATAGCGGCATTTTTGAAT
66 TTTTTAGAAAAGCACCGCTAATTCTCGACATATAGCGGCATTTTTGAAT
* * * **
17865300 AAGTGTCGTTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTTGATTAACATTTTTGTGGCA
1 AAGCGCCGCTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTTGATTAACATTTTTACGGCA
* * * * * *
17865365 TTTTTAGAAGAGCTCCGCTAATTCTCGACCTCTAGCGGCGTTTTTGCAT
66 TTTTTAGAAAAGCACCGCTAATTCTCGACATATAGCGGCATTTTTGAAT
17865414 AAGCGCCGCTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTT
1 AAGCGCCGCTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTT
17865460 TAGAAGAGCA
Statistics
Matches: 138, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 138 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (114 bp):
AAGCGCCGCTAATGCCACTAAAGCTCAAGATAGAACGATGCATTTTGATTAACATTTTTACGGCA
TTTTTAGAAAAGCACCGCTAATTCTCGACATATAGCGGCATTTTTGAAT
Found at i:17865801 original size:40 final size:40
Alignment explanation
Indices: 17865462--17865789 Score: 494
Period size: 40 Copynumber: 8.2 Consensus size: 40
17865452 TGCATTTTTA
17865462 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
17865502 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
*
17865542 GAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
* * *
17865582 GAAGAGCATTCGTGCTAGTGATATATCCAGACTAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
* * * *
17865622 GAAGAGCATTCGTGCTAGTGATATATCCAGGTTAAATCTC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
* * * *
17865662 GAAGAGCATTCGTACTAGTGATGTATCCGGACTAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
* **
17865702 GAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
* * *
17865742 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
17865782 GAAGAGCA
1 GAAGAGCA
17865790 ATCATGCTGG
Statistics
Matches: 257, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
Found at i:17869371 original size:47 final size:47
Alignment explanation
Indices: 17869310--17870174 Score: 1397
Period size: 47 Copynumber: 18.3 Consensus size: 47
17869300 TGAAAGTATA
*
17869310 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17869357 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGTAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17869404 TATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
17869453 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17869502 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
17869549 TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
17869596 TATATATGTGATAAGGCCTAATAGCAGATGTGATGAATGCGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17869643 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
17869690 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
** * *
17869737 TATATATGTTCTAAGGCCTAATGGCCGATATGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
17869784 TATATATGTGGTAAGGCCTAATGGCCGATATGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
17869831 TATATATGTGGTAAGGCCTAATGGCCGATATGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
17869878 TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17869925 TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
17869972 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
17870019 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17870066 TATATATGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * ** * *
17870113 TATATATGTGACAGGGCCGAGTGGCTAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17870160 TATAAATGTGATAAG
1 TATATATGTGATAAG
17870175 TCCCGAAGGG
Statistics
Matches: 779, Mismatches: 37, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
47 686 0.88
49 93 0.12
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:17870362 original size:37 final size:37
Alignment explanation
Indices: 17870293--17870371 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
17870283 CCGAGCTCTA
* * * *
17870293 AAGACCCGATGACTACGCGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGCGTGGAGATTATGTCCGGGT
* *
17870330 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGCGTGGAGATTATGTCCGGGT
17870367 AAGAC
1 AAGAC
17870372 TTCGCAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCAATAACTACGCGTGGAGATTATGTCCGGGT
Found at i:17879781 original size:11 final size:11
Alignment explanation
Indices: 17879765--17879790 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17879755 AAGGGAATTT
17879765 ATTTCTTAGTA
1 ATTTCTTAGTA
17879776 ATTTCTTAGTA
1 ATTTCTTAGTA
17879787 ATTT
1 ATTT
17879791 ATTTCTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTCTTAGTA
Found at i:17881527 original size:24 final size:24
Alignment explanation
Indices: 17881495--17881543 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17881485 AATGAGCAAA
*
17881495 AGCTCTAAACTTAATTCCAAGTGG
1 AGCTCTAAACTTAAGTCCAAGTGG
*
17881519 AGCTCTAAACTTACGTCCAAGTGG
1 AGCTCTAAACTTAAGTCCAAGTGG
17881543 A
1 A
17881544 TCCTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (24 bp):
AGCTCTAAACTTAAGTCCAAGTGG
Found at i:17883311 original size:39 final size:40
Alignment explanation
Indices: 17883228--17883314 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
17883218 AAAATTATAC
*
17883228 ATATCACTAGCACGAATGCTCCTCGGGATTTAGCCCGGAT
1 ATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGAT
17883268 ATATCACTAGCACGAATGCTCCTC-GGACTTAGCCCGGAT
1 ATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGAT
17883307 ATATCACT
1 ATATCACT
17883315 CTCAATTCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 22 0.48
40 24 0.52
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
ATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGAT
Found at i:17884577 original size:37 final size:37
Alignment explanation
Indices: 17884527--17884605 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17884517 TTACTATGAA
* * * *
17884527 GTCTTACCCGGACATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17884564 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17884601 GTCTT
1 GTCTT
17884606 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17884802 original size:47 final size:47
Alignment explanation
Indices: 17884724--17885098 Score: 633
Period size: 47 Copynumber: 7.9 Consensus size: 47
17884714 CCCTTCGGGA
* * * * * *
17884724 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17884771 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATAAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17884818 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17884865 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17884912 CTTATCACATATATATACACTTTCACATTCATCAAATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17884961 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17885008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17885055 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
17885099 CGCCATACTA
Statistics
Matches: 311, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 265 0.85
49 46 0.15
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17885058 original size:190 final size:188
Alignment explanation
Indices: 17884724--17885098 Score: 642
Period size: 190 Copynumber: 2.0 Consensus size: 188
17884714 CCCTTCGGGA
** * * *
17884724 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCAAATCGGCCACTAGGCCCTATCACATATATACAC
17884789 TTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATACACTTTCACATTCATCACATC
17884854 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17884912 CTTATCACATATATATACACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCAAATCGGCCACTAGGCCCTATCACATATATAC
*
17884977 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
17885042 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
17885099 CGCCATACTA
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 10 0.06
189 1 0.01
190 164 0.94
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATTTATACACTTTCACATCCATCAAATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATAAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17888540 original size:40 final size:40
Alignment explanation
Indices: 17888500--17888725 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
17888490 TGATTACTCT
* * * *
17888500 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* ** * *
17888540 TCGAGG-TTTAGCATGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
17888580 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
17888620 TCGGGACTTACCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
17888660 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
17888700 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
17888726 CTCAATTCTC
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 163 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:17889998 original size:37 final size:37
Alignment explanation
Indices: 17889937--17890015 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
17889927 TTATTACGAA
* * *
17889937 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
17889974 GTCTTACCC-AGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGA-ACAAAATCCCCACACGAAGTCATCGG
17890011 GTCTT
1 GTCTT
17890016 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:17890212 original size:47 final size:47
Alignment explanation
Indices: 17890134--17890459 Score: 553
Period size: 47 Copynumber: 6.9 Consensus size: 47
17890124 CCCTTCGGGA
* * * * * *
17890134 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17890181 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17890228 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17890275 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17890322 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17890369 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17890416 CTTATCACAGATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
17890460 CGCCATACTA
Statistics
Matches: 265, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 265 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17893951 original size:13 final size:13
Alignment explanation
Indices: 17893935--17893998 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
17893925 TTTCAAAAAT
*
17893935 ACTTCTTAAAAGC
1 ACTTCTCAAAAGC
*
17893948 ACTTCTCAAAAGT
1 ACTTCTCAAAAGC
* * *
17893961 GCTTTTCCACAA-C
1 ACTTCT-CAAAAGC
17893974 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
17893987 ACTTTTCAAAAG
1 ACTTCTCAAAAG
17893999 TAATGAAGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
12 4 0.10
13 31 0.79
14 4 0.10
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:17894875 original size:32 final size:32
Alignment explanation
Indices: 17894837--17894898 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
17894827 CTCATTTTTT
* **
17894837 AAATAAATACCAAAAATTTATTTTAAAAATTA
1 AAATAAAAACCAAAAAAGTATTTTAAAAATTA
**
17894869 AAATAAAAATTAAAAAAGTATTTTAAAAAT
1 AAATAAAAACCAAAAAAGTATTTTAAAAAT
17894899 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (32 bp):
AAATAAAAACCAAAAAAGTATTTTAAAAATTA
Found at i:17894922 original size:8 final size:9
Alignment explanation
Indices: 17894904--17894969 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 9
17894894 AAAATATTTT
17894904 AAAATTAAA
1 AAAATTAAA
17894913 AAAATTAAAA
1 AAAATT-AAA
17894923 AAAGTATTTTAAA
1 AAA--A--TTAAA
*
17894936 AAATTTAAA
1 AAAATTAAA
17894945 TTTAAAATTAAA
1 ---AAAATTAAA
17894957 AAAATTAAA
1 AAAATTAAA
17894966 AAAA
1 AAAA
17894970 AGTATTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
9 24 0.51
10 6 0.13
12 9 0.19
13 6 0.13
14 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTAAA
Found at i:17894952 original size:86 final size:83
Alignment explanation
Indices: 17894848--17895007 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 83
17894838 AATAAATACC
*
17894848 AAAAATTTATTTTAAAAATTAAAATAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTAATTTAAAAATT--AA-AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
17894912 AAAAATTAAAAAAAGTATTTTA
63 AAAAA-TAAAAAAAGTATTTTA
*
17894934 AAAAATTTAAATTT-AAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAA
1 AAAAATTT-AATTTAAAAATTAAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
17894998 AAAATAAAAA
64 AAAATAAAAA
17895008 TATTTATTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
83 7 0.10
84 8 0.12
85 36 0.52
86 14 0.20
87 4 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (83 bp):
AAAAATTTAATTTAAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA
AATAAAAAAAGTATTTTA
Found at i:17894962 original size:44 final size:41
Alignment explanation
Indices: 17894873--17895007 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 41
17894863 AAATTAAAAT
*
17894873 AAAAATT-AAAAAAGTATTTT-AAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAATAATTTAAAATTAA
17894912 AAAAATTAAAAAAAGTATTTTAAAAAATTTAAATTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAA--T-AATTTAAAATTAA
* *
17894956 AAAAATTAAAAAAAAGTATTTT-AAAAGTATTTTAAAATTAA
1 AAAAATT-AAAAAAAGTATTTTAAAAAATAATTTAAAATTAA
17894997 AAAAA-TAAAAA
1 AAAAATTAAAAA
17895008 TATTTATTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
39 12 0.14
40 14 0.16
41 22 0.25
42 1 0.01
43 1 0.01
44 23 0.26
45 14 0.16
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAAATAATTTAAAATTAA
Found at i:17894981 original size:11 final size:11
Alignment explanation
Indices: 17894967--17894992 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17894957 AAAATTAAAA
17894967 AAAAGTATTTT
1 AAAAGTATTTT
17894978 AAAAGTATTTT
1 AAAAGTATTTT
17894989 AAAA
1 AAAA
17894993 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:17896890 original size:114 final size:113
Alignment explanation
Indices: 17896544--17896913 Score: 316
Period size: 114 Copynumber: 3.2 Consensus size: 113
17896534 TATATCAGCT
* * * **
17896544 AAGCGCCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAAAGGCGTTAGCAACG
1 AAGCGCCACAAAAATTTTAACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCG
** ** ** *
17896609 CTTACCTGAAAACGCCGCTATATCCCTCAATTAGCGGCGCTTAACTAA-A
66 CTTACCTGAAAACGCCGCTATAAACAACTTTTAGTGGCGCTT-A-TAAGA
** * * * * * * * * * * *
17896658 AAATGCCAAAAAAATTTAAACCGAAACGAAACGTTTCGTCTTGAGCTATAGCGTCGTTAGTGGCG
1 AAGCGCCACAAAAATTTTAACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCG
* * * * * * *
17896723 CTTACCCGAAAAAGCCGCTATATATCAGCTTTTAGTGGCACTTCTACTG-
66 CTTACCTGAAAACGCCGCTATA-AACAACTTTTAGTGGCGCTTATA-AGA
* *
17896772 AAGCGCCACAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCATTAGCGGCG
1 AAGCGCCACAAAAATTTTAACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCG
**
17896837 CTTATTTGAAAACGCCGCTATAGAACAACTTTTAGTGGCGCTT-TAAGGA
66 CTTACCTGAAAACGCCGCTATA-AACAACTTTTAGTGGCGCTTATAA-GA
*
17896886 AAGCGCCGC-AAAATTGTTAACCAAAACG
1 AAGCGCCACAAAAATT-TTAACCAAAACG
17896914 GCGCAGTTTT
Statistics
Matches: 194, Mismatches: 56, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
113 11 0.06
114 171 0.88
115 12 0.06
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (113 bp):
AAGCGCCACAAAAATTTTAACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCG
CTTACCTGAAAACGCCGCTATAAACAACTTTTAGTGGCGCTTATAAGA
Found at i:17897359 original size:22 final size:21
Alignment explanation
Indices: 17897334--17897377 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
17897324 TGGTGGTTGT
*
17897334 TGTTTGTGGTTTACGGGTTTAA
1 TGTTTATGGTTTA-GGGTTTAA
17897356 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTTTAGGGTTTAA
17897377 T
1 T
17897378 ATTTTCGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.52
Consensus pattern (21 bp):
TGTTTATGGTTTAGGGTTTAA
Found at i:17897387 original size:21 final size:22
Alignment explanation
Indices: 17897340--17897381 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
17897330 TTGTTGTTTG
*
17897340 TGGTTTACGGGTTTAATGTTTA
1 TGGTTTACGGGTTTAATATTTA
17897362 TGGTTTA-GGGTTTAATATTT
1 TGGTTTACGGGTTTAATATTT
17897382 TCGGTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.52
Consensus pattern (22 bp):
TGGTTTACGGGTTTAATATTTA
Found at i:17897486 original size:21 final size:21
Alignment explanation
Indices: 17897456--17897517 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
17897446 TTAATTGACG
17897456 AGTTTAGGGTTTAAGATTTAT
1 AGTTTAGGGTTTAAGATTTAT
* * *
17897477 -GATTTGGGGTTTAGGGTTTAT
1 AG-TTTAGGGTTTAAGATTTAT
17897498 AGTTTAGGGTTTAAGATTTA
1 AGTTTAGGGTTTAAGATTTA
17897518 CGGTTAAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (21 bp):
AGTTTAGGGTTTAAGATTTAT
Found at i:17897517 original size:14 final size:14
Alignment explanation
Indices: 17897458--17897522 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
17897448 AATTGACGAG
17897458 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
* * ** *
17897472 TTTATGATTTGGGG
1 TTTAGGGTTTAAGA
17897486 TTTAGGGTTTATAG-
1 TTTAGGGTTTA-AGA
17897500 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
*
17897514 TTTACGGTT
1 TTTAGGGTT
17897523 AAGGCTTACA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
13 2 0.05
14 36 0.92
15 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:17897923 original size:21 final size:20
Alignment explanation
Indices: 17897883--17897920 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17897873 AATATATTGA
*
17897883 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
17897903 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
17897921 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:17898484 original size:19 final size:19
Alignment explanation
Indices: 17898445--17898486 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17898435 CTGTCATCTC
*
17898445 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
17898464 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
17898483 CCCC
1 CCCC
17898487 CAACCCGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.45, G:0.02, T:0.24
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:17900999 original size:20 final size:20
Alignment explanation
Indices: 17900971--17901042 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
17900961 TTCTAATTAC
*
17900971 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
17900991 ATAATATTAAGATCAAATT-T
1 ATAATATTAAGAT-AACTTAT
* *
17901011 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
17901028 ATAATATTAAGATAA
1 ATAATATTAAGATAA
17901043 AATTTCTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.10
17 5 0.12
18 4 0.10
19 4 0.10
20 19 0.47
21 4 0.10
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:17901026 original size:37 final size:37
Alignment explanation
Indices: 17900982--17901093 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
17900972 TAAAATTAAG
17900982 ATAACTTATATAATATTAAGATCAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTAC
*
17901019 ATAACTTATATAATATTAAGATAAAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTAC
** * *
17901056 ATAACTTATATAATATTAATTTCTAATTTCTAAGTAC
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTAC
17901093 A
1 A
17901094 CATCAATTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.42
Consensus pattern (37 bp):
ATAACTTATATAATATTAAGATCAAATTTCTAATTAC
Found at i:17901077 original size:30 final size:30
Alignment explanation
Indices: 17901043--17901198 Score: 111
Period size: 30 Copynumber: 5.1 Consensus size: 30
17901033 ATTAAGATAA
17901043 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
* * * * *
17901073 AATTTCTAATTTC-TAAGTACACATCAATTTCT
1 AATTTCTAATTACATAACT-TATAT-AATAT-T
* * * * *
17901105 AATTT-TATATAACTTATAC-AATATTAAAATAA
1 AATTTCTA-ATTACATA-ACTTATA-TAATAT-T
*
17901137 AATTTCGAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
* *
17901167 AATTTCTCATTGCATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
17901197 AA
1 AA
17901199 GATAAAATTT
Statistics
Matches: 94, Mismatches: 23, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
29 4 0.04
30 44 0.47
31 13 0.14
32 28 0.30
33 4 0.04
34 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.44
Consensus pattern (30 bp):
AATTTCTAATTACATAACTTATATAATATT
Found at i:17901141 original size:57 final size:57
Alignment explanation
Indices: 17901043--17901271 Score: 221
Period size: 57 Copynumber: 3.9 Consensus size: 57
17901033 ATTAAGATAA
* ** ** *
17901043 AATTTCTAA--TTACATAACTTATATAATATTAATTTCTAATTTCTAAGTACACATC
1 AATTTCTAATTTTATATAACTTATATAATATTAAGATAAAATTTCTAATTACACATC
* * * *
17901098 AATTTCTAATTTTATATAACTTATACAATATTAAAATAAAATTTCGAATTACATAACTTATAT
1 AATTTCTAATTTTATATAACTTATATAATATTAAGATAAAATTTCTAATTAC---AC--AT-C
*
17901161 AATAT-TAATTTCTCATTGCATAACTTATATAATATTAAGATAAAATTTCTAATTACACATC
1 AATTTCTAATTT-T-A-T--ATAACTTATATAATATTAAGATAAAATTTCTAATTACACATC
*
17901222 AATTTCTAATTTTAGATAACTTATATAATATTAAGATAAAATTTCGTAAT
1 AATTTCTAATTTTATATAACTTATATAATATTAAGATAAAATTTC-TAAT
17901272 ACATAACTTA
Statistics
Matches: 143, Mismatches: 16, Indels: 27
0.77 0.09 0.15
Matches are distributed among these distances:
55 9 0.06
57 63 0.44
58 4 0.03
60 3 0.02
61 5 0.03
62 16 0.11
63 5 0.03
64 3 0.02
65 1 0.01
67 34 0.24
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (57 bp):
AATTTCTAATTTTATATAACTTATATAATATTAAGATAAAATTTCTAATTACACATC
Found at i:17901244 original size:124 final size:127
Alignment explanation
Indices: 17900980--17901286 Score: 424
Period size: 124 Copynumber: 2.4 Consensus size: 127
17900970 CATAAAATTA
* *
17900980 AGATAACTTATATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGATAAAA
1 AGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT---AT-AAA
** **
17901045 TTTCTAATTACATAACTTATATAATATTAATTTCTAATTTCTAAGTACACATCAATTTCTAATTT
62 TTTCTAATTACATAACTTATATAATATTAAGATAAAATTTCTAAGTACACATCAATTTCTAATTT
17901110 T
127 T
* * *
17901111 ATATAACTTATACAATATTAAAATAAAATTTCGAATTACATAACTTATATAATA-T-T-AATTTC
1 AGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTATAAATTTC
* * *
17901173 TCATTGCATAACTTATATAATATTAAGATAAAATTTCTAATTACACATCAATTTCTAATTTT
66 TAATTACATAACTTATATAATATTAAGATAAAATTTCTAAGTACACATCAATTTCTAATTTT
*
17901235 AGATAACTTATATAATATTAAGATAAAATTTCGTAA-TACATAACTTAAATAA
1 AGATAACTTATATAATATTAAGATAAAATTTCG-AATTACATAACTTATATAA
17901287 CTTACATAAT
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
124 106 0.67
125 2 0.01
126 1 0.01
130 1 0.01
131 49 0.31
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (127 bp):
AGATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTATAAATTTC
TAATTACATAACTTATATAATATTAAGATAAAATTTCTAAGTACACATCAATTTCTAATTTT
Found at i:17901306 original size:16 final size:16
Alignment explanation
Indices: 17901283--17901348 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
17901273 CATAACTTAA
17901283 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
17901299 ACAACTTATTACATAACTTAA
1 ATAAC---TTACATAA--TAC
17901320 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
17901336 ATAACTTTCATAA
1 ATAACTTACATAA
17901349 CTTACATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 18 0.45
18 8 0.20
19 8 0.20
21 6 0.15
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:17901312 original size:37 final size:37
Alignment explanation
Indices: 17901271--17901342 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
17901261 AATTTCGTAA
17901271 TACATAACTTAAATAACTTACATAATACACAACTTAT
1 TACATAACTTAAATAACTTACATAATACACAACTTAT
*
17901308 TACATAACTTAAATAACTTACATAATACATAACTT
1 TACATAACTTAAATAACTTACATAATACACAACTT
17901343 TCATAACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (37 bp):
TACATAACTTAAATAACTTACATAATACACAACTTAT
Found at i:17901336 original size:25 final size:25
Alignment explanation
Indices: 17901308--17901355 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17901298 CACAACTTAT
17901308 TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACATAA
**
17901333 TACATAACTTTCATAACTTACAT
1 TACATAACTTAAATAACTTACAT
17901356 TATTCACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (25 bp):
TACATAACTTAAATAACTTACATAA
Found at i:17901366 original size:25 final size:25
Alignment explanation
Indices: 17901320--17901367 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17901310 CATAACTTAA
*
17901320 ATAACTTACATAATACATAACTTTC
1 ATAACTTACATAATACACAACTTTC
* *
17901345 ATAACTTACATTATTCACAACTT
1 ATAACTTACATAATACACAACTT
17901368 GGCCGATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAACTTACATAATACACAACTTTC
Found at i:17901401 original size:9 final size:9
Alignment explanation
Indices: 17901387--17901468 Score: 55
Period size: 9 Copynumber: 9.1 Consensus size: 9
17901377 ATTAATATTA
17901387 TACATAACT
1 TACATAACT
17901396 TACATATATAACT
1 TAC--ATA--ACT
*
17901409 CACATAACT
1 TACATAACT
*
17901418 TACATAGCT
1 TACATAACT
*
17901427 TACAT-TC-
1 TACATAACT
*
17901434 TACACAACT
1 TACATAACT
*
17901443 TACATAACA
1 TACATAACT
17901452 TACATAA--
1 TACATAACT
17901459 TACATAACT
1 TACATAACT
17901468 T
1 T
17901469 GGTCTTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
7 11 0.19
8 2 0.04
9 33 0.58
11 6 0.11
13 5 0.09
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:17901462 original size:25 final size:25
Alignment explanation
Indices: 17901414--17901468 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17901404 TAACTCACAT
* * **
17901414 AACTTACATAGCTTACATTCTACAC
1 AACTTACATAACATACATAATACAC
*
17901439 AACTTACATAACATACATAATACAT
1 AACTTACATAACATACATAATACAC
17901464 AACTT
1 AACTT
17901469 GGTCTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTTACATAACATACATAATACAC
Found at i:17903151 original size:21 final size:21
Alignment explanation
Indices: 17903122--17903167 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
17903112 CAACAATTTA
*
17903122 AAGCTGAGGCTGAAGCGAGGG
1 AAGCGGAGGCTGAAGCGAGGG
17903143 AAGCGGAGGCTGAAGCGAGGG
1 AAGCGGAGGCTGAAGCGAGGG
17903164 AAGC
1 AAGC
17903168 AGAGCAGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.48, T:0.07
Consensus pattern (21 bp):
AAGCGGAGGCTGAAGCGAGGG
Found at i:17903667 original size:43 final size:42
Alignment explanation
Indices: 17903604--17903796 Score: 183
Period size: 43 Copynumber: 4.5 Consensus size: 42
17903594 TTAAGATCTA
* *
17903604 TAGCGGCGATTGTGGGATAAGCACCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGAACATGACCTT
* * * * * *
17903647 TAGAGGCGTTTTTGAGATAAGCGCCGCCAAAGTATATGACCTA
1 TAGCGGCGTTTGTG-GATAAGCGCCGCTAAAGAACATGACCTT
* ** * *
17903690 TACCGAAGTTTGTGGAATAAGCGCCACTAAAGAGCAT--CCTT
1 TAGCGGCGTTTGTGG-ATAAGCGCCGCTAAAGAACATGACCTT
* * *
17903731 TAGTGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTT
1 TAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGAACATGACCTT
17903774 TAGCGGCGTTTGTGGAATAAGCG
1 TAGCGGCGTTTGTGG-ATAAGCG
17903797 ACATTGTAAA
Statistics
Matches: 116, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 30 0.26
42 6 0.05
43 80 0.69
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGATAAGCGCCGCTAAAGAACATGACCTT
Found at i:17903751 original size:41 final size:42
Alignment explanation
Indices: 17903522--17903796 Score: 173
Period size: 43 Copynumber: 6.5 Consensus size: 42
17903512 CATCTATTAT
* * *
17903522 GGCGTTTTTGGAAAAAGTGCCACTAAAGAACATAACCTTTAGC
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACAT-ACCTTTAGC
* * ** * *
17903565 AGCGCTTGCAAGAA-AAGCGCCACTAAAAGTTAAGAT--CTATAGC
1 GGCGTTTG-TGGAATAAGCGCCACT-AAAG--AACATACCTTTAGC
* * * * *
17903608 GGCGATTGTGGGATAAGCACCGCTAAAGAACATGACCTTTAGA
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACAT-ACCTTTAGC
* * * * * * *
17903651 GGCGTTT-TTGAGATAAGCGCCGCCAAAGTATATGACCTATACC
1 GGCGTTTGTGGA-ATAAGCGCCACTAAAGAACAT-ACCTTTAGC
** * *
17903694 GAAGTTTGTGGAATAAGCGCCACTAAAGAGCAT-CCTTTAGT
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACATACCTTTAGC
* * * *
17903735 GGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTAGC
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACAT-ACCTTTAGC
17903778 GGCGTTTGTGGAATAAGCG
1 GGCGTTTGTGGAATAAGCG
17903797 ACATTGTAAA
Statistics
Matches: 172, Mismatches: 48, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
40 4 0.02
41 32 0.19
42 8 0.05
43 114 0.66
44 10 0.06
46 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (42 bp):
GGCGTTTGTGGAATAAGCGCCACTAAAGAACATACCTTTAGC
Found at i:17903785 original size:84 final size:85
Alignment explanation
Indices: 17903522--17903796 Score: 225
Period size: 86 Copynumber: 3.2 Consensus size: 85
17903512 CATCTATTAT
* * * * ** *
17903522 GGCGTTTTTGGAAAAAGTGCCACTAAAGAACATAACCTTTAGCA-GCGCTTGCAAGAAAAGCGCC
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACAT-ACCTTTAG-AGGCGTTTGTGAGATAAGCGCC
* * * *
17903586 ACTAAAAGTTA-A-GATCTATAGC
64 GC-CAAAG-AACATGACCTATAGC
* * * * *
17903608 GGCGATTGTGGGATAAGCACCGCTAAAGAACATGACCTTTAGAGGCGTTTTTGAGATAAGCGCCG
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACAT-ACCTTTAGAGGCGTTTGTGAGATAAGCGCCG
* * *
17903673 CCAAAGTATATGACCTATACC
65 CCAAAGAACATGACCTATAGC
** * * * *
17903694 GAAGTTTGTGGAATAAGCGCCACTAAAGAGCAT-CCTTTAGTGGCGTTTGTGGGATAAGCGTCGC
1 GGCGTTTGTGGAATAAGCGCCACTAAAGAACATACCTTTAGAGGCGTTTGTGAGATAAGCGCCGC
* * *
17903758 TAAAGAACATGAGCTTTAGC
66 CAAAGAACATGACCTATAGC
17903778 GGCGTTTGTGGAATAAGCG
1 GGCGTTTGTGGAATAAGCG
17903797 ACATTGTAAA
Statistics
Matches: 150, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
84 60 0.40
85 6 0.04
86 84 0.56
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (85 bp):
GGCGTTTGTGGAATAAGCGCCACTAAAGAACATACCTTTAGAGGCGTTTGTGAGATAAGCGCCGC
CAAAGAACATGACCTATAGC
Found at i:17908310 original size:26 final size:26
Alignment explanation
Indices: 17908277--17908333 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
17908267 TAAAGTGTTC
17908277 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
17908303 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
17908329 AAAAT
1 AAAAT
17908334 TTAGGTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
AAAATATGTAAAATTATTAAGCCAAA
Found at i:17908382 original size:28 final size:28
Alignment explanation
Indices: 17908331--17909747 Score: 1727
Period size: 28 Copynumber: 48.4 Consensus size: 28
17908321 AAGCCAAAAA
* *
17908331 AATTTAGGTTAGTTTTGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908359 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
17908388 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908416 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17908450 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* * *
17908478 AATTTAGGTAAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
17908507 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908535 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908563 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17908591 AATTTAGGCTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908619 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908647 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17908681 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17908709 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
17908738 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908766 AATTTAGGTTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908794 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17908822 AATTTAGGTTAGGGTTAGGTTAAGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17908856 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17908884 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* *
17908913 AATTTAGATTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908941 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17908969 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17908997 AATTTAGGCTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909025 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909053 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17909087 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17909115 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
17909144 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909172 AATTTAGGTTAGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909200 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909228 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17909262 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17909290 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
17909319 AATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909347 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909375 AATTTAGGTTAGGGTTAGATTAGGGTTTTTAGTT
1 AA--T---TTA-GGTTAGATTAGGGTTTTTAATT
*
17909409 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
* *
17909443 AATTTAGGTTAGATTATGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17909471 AATTTAGGTTAGGGTTAGGGTTTTAAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
* *
17909500 TATTTAGGTTAGATTAGGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17909528 AATTTAGGTTAGATTAAGGTTTTAAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909556 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909584 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
17909618 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
17909646 AATTTAGGTTAGATTAAGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
17909674 AATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
*
17909708 AATTTAGGTTAGATTAGGTTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
17909736 AATTTAGGTTAG
1 AATTTAGGTTAG
17909748 TGTTAGGTTA
Statistics
Matches: 1239, Mismatches: 89, Indels: 122
0.85 0.06 0.08
Matches are distributed among these distances:
28 797 0.64
29 176 0.14
30 17 0.01
32 17 0.01
33 3 0.00
34 229 0.18
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (28 bp):
AATTTAGGTTAGATTAGGGTTTTTAATT
Found at i:17908729 original size:175 final size:176
Alignment explanation
Indices: 17908331--17909747 Score: 1785
Period size: 175 Copynumber: 8.1 Consensus size: 176
17908321 AAGCCAAAAA
* *
17908331 AATTTAGGTTAGTTTTGGGTTTTTAATTAATTTAGGTTAGGT--TTAGGGTTTTTAATTAATTTA
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTGGTTAGGGTTTTTAATTAATTTA
* *
17908394 GGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGT
66 GGTTAGATTAGGGTTTTTAATTAA--T---TTA-GGTTAGGTTAGGGTTTTAAATTAATTTAGGT
* * * *
17908459 TAGATTAGGTTTTTTAATTAATTTAGG-TAAG---GGTTAGGGTTTTAAATT
125 TAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
* * *
17908507 AATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTA---GATTAGGGTTTTAAATTAATTTA
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTGGTTAGGGTTTTTAATTAATTTA
* * *
17908569 GGTTAGATTAGGGTTTTTAGTTAATTTAGGCTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATT
66 GGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTAAATTAATTTAGGTTAGATT
*
17908634 AGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTT
131 AGGGTTTTTAGTTAATTTAGGTTA-GGTTAGGTTAGGGTTTTTAATT
* *
17908681 AATTTAGGTTAGATTAGGTTTTTTAATTAATTTAGGTTA-G-GGTTAGGGTTTTAAATTAATTTA
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTGGTTAGGGTTTTTAATTAATTTA
* *
17908744 GGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATT
66 GGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTAAATTAATTTAGGTTAGATT
* *
17908809 AGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAAGGTTTTTAGTT
131 AGGGTTTTTAGTTAATTTAGGTTA-GGTTAGGTTAGGGTTTTTAATT
* *
17908856 AATTTAGGTTAGATTAGGTTTTTTAATTAATTTAGGTTA-G-GGTTAGGGTTTTAAATTAATTTA
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTGGTTAGGGTTTTTAATTAATTTA
* * *
17908919 GATTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATT
66 GGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTAAATTAATTTAGGTTAGATT
*
17908984 AGGGTTTTTAGTTAA--T---TTAGGCTAGGTTAGGGTTTTTAATT
131 AGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
* *
17909025 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAAT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GG-T-GGTTAGGGTTTTTAATTAAT
*
17909090 TTAGGTTAGATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA
63 TTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GGTTAGGGTTTTAAATTAATTTAGGTTA
17909155 GATTAGGGTTTTTAGTTAA--T---TTAGGTTAGGTTAGGGTTTTTAATT
127 GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
* *
17909200 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAAT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GG-T-GGTTAGGGTTTTTAATTAAT
*
17909265 TTAGGTTAGATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA
63 TTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GGTTAGGGTTTTAAATTAATTTAGGTTA
* * *
17909330 GATTAGGGTTTTAAATTAATTTAGGTTA-G--A--TTAGGGTTTTTAGTT
127 GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
*
17909375 AATTTAGGTTAGGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTA
1 AA--T---TTA-GGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GG-T-GGTTAGGGTTTTTA
* * * *
17909440 GTTAATTTAGGTTAGATTATGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTTATTT
57 ATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GGTTAGGGTTTTAAATTAATTT
* * * *
17909505 AGGTTAGATTAGGGTTTTAAATTAATTTAGGTTA-G--A--TTAAGGTTTTAAATT
121 AGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
* *
17909556 AATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAAT
1 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTA-GG-T-GGTTAGGGTTTTTAATTAAT
* * * *
17909621 TTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAAGGTTTTTAGTTAATTTAGGTTAG
63 TTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTAAATTAATTTAGGTTA-
*
17909686 GGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTA-G--A--TTAGGTTTTTTAATT
127 -G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
17909736 AATTTAGGTTAG
1 AATTTAGGTTAG
17909748 TGTTAGGTTA
Statistics
Matches: 1156, Mismatches: 54, Indels: 58
0.91 0.04 0.05
Matches are distributed among these distances:
169 110 0.10
170 8 0.01
171 2 0.00
173 2 0.00
174 126 0.11
175 640 0.55
176 40 0.03
177 3 0.00
178 1 0.00
179 2 0.00
180 56 0.05
181 166 0.14
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (176 bp):
AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTGGTTAGGGTTTTTAATTAATTTA
GGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTTTAAATTAATTTAGGTTAGATT
AGGGTTTTTAGTTAATTTAGGTTAGGTTAGGTTAGGGTTTTTAATT
Found at i:17909125 original size:406 final size:406
Alignment explanation
Indices: 17908332--17909747 Score: 1148
Period size: 406 Copynumber: 3.5 Consensus size: 406
17908322 AGCCAAAAAA
* * *
17908332 ATTTAGGTTAGTTTTGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGT
1 ATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGT
* * * *
17908397 TA--G--A--TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTA
65 TAGGGTTAGGTTAAGGTTTTTAGTTAATTTAGGTTA--G--A--TTAGGTTTTTTAATTAATTTA
* * * * *
17908456 GGTTA-GATTAGGTTTTTTAATTAATTTAGGTAAGGGTTAGGGTTTTAAATTAATTTAGGTTAGA
124 GGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA-GATTAGGGTTTTAAATTAATTTAGGTTAGA
* * * *
17908520 TTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTT
188 TTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGCTAGGTTAGGGTTT
* * * *
17908585 TTAGTTAATTTAGGCTAGGTTAGGGTTTTTAATTAATTTAGGTTA--G--A--TTAGGGTTTTTA
253 TTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTA
* * * * *
17908644 GTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGTTTTTTAAT
318 GTTAATTTAGGTTA--G--A--TTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAAT
* * *
17908708 TAATTTAGGTTAGGGTTAGGGTTTTAAATTA
377 TAATTTAGGTTA-GATTAGGGTTTTTAGTTA
* * *
17908739 ATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTT
1 ATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTT
* * *
17908804 A--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAAGGTTTTTAGTTAATTTAG
66 AGGGTTAGGTTAAGGTTTTTAGTTAATTTAGGTTA-GATTAGG-T----TTTTTAATTAATTTAG
* * * * *
17908863 GTTA-GATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGATTAGAT
125 GTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA-GATTAGGGTTTTAAATTAATTTAGGTTAGAT
* * * *
17908927 TAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTT
189 TAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGCTAGGTTAGGGTTTT
* * * *
17908992 TAGTTAATTTAGGCTAGGTTAGGGTTTTTAATTAATTTAGGTTA--G--A--TTAGGGTTTTTAG
254 TAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAG
* * * * *
17909051 TTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGTTTTTTAATT
319 TTAATTTAGGTTA--G--A--TTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATT
* * *
17909115 AATTTAGGTTAGGGTTAGGGTTTTAAATTA
378 AATTTAGGTTA-GATTAGGGTTTTTAGTTA
* * *
17909145 ATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTT
1 ATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTT
* * *
17909210 A--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAG
66 AGGGTTAGGTTAAGGTTTTTAGTTAATTTAGGTTA--G--A--TTAGGTTTTTTAATTAATTTAG
* * * *
17909269 GTTA-GATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGAT
125 GTTAGGGTTAGGGTTTTAAATTAATTTAGGTTA-GATTAGGGTTTTAAATTAATTTAGGTTAGAT
*
17909333 TAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGATTAG
189 TAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGCTA--G---G-TTAG
*
17909398 GGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTA--G--A--T
248 GGTTTTTAATTAATTTAGGTTA--G--A--TTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGT
* * * * * * * *
17909457 TATGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTTATTTAGGTTA-GATTAGGGTT
307 TAGGGTTTTTAGTTAATTTAGGTTA-GATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTT
* * *
17909521 TTAAATTAATTTAGGTTAGATTAAGGTTTTAAATTA
371 TTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTA
* * *
17909557 ATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATT
1 ATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTA--G--A--TTAGGGTTTTTAATTAATT
* * *
17909622 TAGGTTA--G--A--TTAGGGTTTTTAATTAATTTAGGTTAGATTAAGG-TTTTTAGTTAATTTA
60 TAGGTTAGGGTTAGGTTAAGGTTTTTAGTTAATTTAGGTTAGATT-AGGTTTTTTAATTAATTTA
* * * *
17909680 GGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGTTTTTTAATTAATTTAGGT
124 GGTTA--G---GGTTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGT
17909745 TAG
184 TAG
17909748 TGTTAGGTTA
Statistics
Matches: 936, Mismatches: 38, Indels: 60
0.91 0.04 0.06
Matches are distributed among these distances:
401 5 0.01
405 2 0.00
406 574 0.61
407 37 0.04
408 1 0.00
411 5 0.01
412 101 0.11
413 52 0.06
414 3 0.00
416 1 0.00
417 28 0.03
418 127 0.14
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (406 bp):
ATTTAGGTTAGGTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTT
AGGGTTAGGTTAAGGTTTTTAGTTAATTTAGGTTAGATTAGGTTTTTTAATTAATTTAGGTTAGG
GTTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTTTTAAATTAATTTAGGTTAGATTAGGGTT
TTAAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGCTAGGTTAGGGTTTTTAATTAA
TTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGGTTAGGTTAGGGTTTTTAGTTAATTT
AGGTTAGATTAGGTTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTAAATTAATTTAGGTTAGA
TTAGGGTTTTTAGTTA
Found at i:17909856 original size:26 final size:25
Alignment explanation
Indices: 17909825--17909873 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
17909815 CTTAAAACAT
17909825 TTCTATGCATATTACATCAAATAAAC
1 TTCTAT-CATATTACATCAAATAAAC
**
17909851 TTCTATTTTATTACATCAAATAA
1 TTCTATCATATTACATCAAATAA
17909874 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (25 bp):
TTCTATCATATTACATCAAATAAAC
Done.