Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 165 of 295
Found at i:51949543 original size:40 final size:40
Alignment explanation
Indices: 51949482--51949733 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
51949472 CATTTGAATG
* *
51949482 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
51949522 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
51949562 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
51949602 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
51949642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
51949682 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
51949722 ATATCC-GGCTAA
1 ATATCCGGGCTAA
51949734 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.04
40 182 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:51951324 original size:40 final size:40
Alignment explanation
Indices: 51951136--51951312 Score: 255
Period size: 40 Copynumber: 4.4 Consensus size: 40
51951126 TCCGACTGGA
*
51951136 CTAAGTGCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
* * * *
51951176 CTAAATCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGA
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
* *
51951216 CTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
* * *
51951256 CTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATATCCGGG
1 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
*
51951296 CTAGGTCCCGAAGAGCA
1 CTAAGTCCCGAAGAGCA
51951313 ATCATGCTGG
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
Found at i:51954960 original size:47 final size:47
Alignment explanation
Indices: 51954908--51955646 Score: 1138
Period size: 47 Copynumber: 15.5 Consensus size: 47
51954898 GATAATTGTG
* *
51954908 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
51954955 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955002 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955051 ATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955100 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51955147 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955196 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
51955243 ATGTGAAAGTGTATATATGTGATGAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
51955290 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51955337 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955386 ATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* **
51955435 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
51955482 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955531 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
51955578 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
51955625 ATGTGAAAGTGTATAAATGTGA
1 ATGTGAAAGTGTATATATGTGA
51955647 AAAGTCCCGA
Statistics
Matches: 646, Mismatches: 37, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 369 0.57
49 275 0.43
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:51954978 original size:96 final size:94
Alignment explanation
Indices: 51954908--51955646 Score: 1084
Period size: 96 Copynumber: 7.7 Consensus size: 94
51954898 GATAATTGTG
51954908 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
51954973 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* *
51955002 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAGGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
51955067 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
51955100 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
51955165 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
51955196 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
51955261 GTGATGAGGTCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
51955290 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
51955355 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
51955386 ATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* **
51955451 ATGTGATAAGGCCTAATAGTTGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
51955482 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
51955547 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * * *
51955578 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAATGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
51955642 TGTGA
65 TGTGA
51955647 AAAGTCCCGA
Statistics
Matches: 600, Mismatches: 36, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
93 2 0.00
94 144 0.24
95 4 0.01
96 361 0.60
97 4 0.01
98 85 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:51955502 original size:335 final size:335
Alignment explanation
Indices: 51954908--51955646 Score: 1318
Period size: 335 Copynumber: 2.2 Consensus size: 335
51954898 GATAATTGTG
* *
51954908 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
51954973 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
* *
51955038 GCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
131 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATG
51955103 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
196 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
51955168 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
261 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
51955233 GATGTGATGA
326 GATGTGATGA
* *
51955243 ATGTGAAAGTGTATATATGTGATGAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
51955308 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
51955373 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATG
131 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATG
**
51955438 TGAAAGTGTATATATGTGATAAGGCCTAATAGTTGATGTGATGAATGTGAAAGTGTATATATATG
196 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
51955503 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
261 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
51955568 GATGTGATGA
326 GATGTGATGA
* * * * * * *
51955578 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
51955642 TGTGA
65 TGTGA
51955647 AAAGTCCCGA
Statistics
Matches: 386, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
334 2 0.01
335 384 0.99
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (335 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATG
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
GATGTGATGA
Found at i:51959177 original size:50 final size:50
Alignment explanation
Indices: 51959100--51959241 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
51959090 ATCCGTTGTG
* * * *
51959100 AGTCACGTGTGTAGTATTAAGTACAGGCTACTACGTGTATCAGATGGTTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
* * * *
51959150 AGTCACGTGTGTAGTACTGAGTGCAGGCTACTATGTTTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
* * * * * * *
51959200 GGTCGCATTTGCAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
51959242 AAGAGTTTCG
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
Found at i:51962670 original size:40 final size:40
Alignment explanation
Indices: 51962599--51963182 Score: 938
Period size: 40 Copynumber: 14.6 Consensus size: 40
51962589 CAAGCTCAAT
* * * * *
51962599 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51962639 TGCCTTCGGGTCTTAGCCCGAATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
51962679 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
51962719 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51962759 TGCCTTCGGGTCTTATCCCGGATATATAAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51962799 TGCCTTCGGGTCTTATCCCGGATATATAAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51962839 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51962879 TGCCTTCGGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51962919 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51962959 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51962999 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51963039 TACCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51963079 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51963119 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
51963159 TGCCTTCGGGTCTTAG-CCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
51963183 CATTCAAATG
Statistics
Matches: 507, Mismatches: 35, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 10 0.02
40 496 0.98
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:51970289 original size:40 final size:40
Alignment explanation
Indices: 51970244--51970947 Score: 1133
Period size: 40 Copynumber: 17.6 Consensus size: 40
51970234 CAAGCTCAAT
* * * * *
51970244 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970284 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
51970324 TGCCTTCGGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
51970364 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGTACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51970404 TGCCTTCGGGTCTTATCCCGGATATATCAATTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51970444 TGCCTTCGGGTCTTATCCCGGATATATAAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970484 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51970524 TGCCTTCGGGTCTTATCCCGGATTTATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970564 TGCCTTCGGGTCTTAGCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970604 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970644 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970684 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970724 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970764 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
51970804 TACCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970844 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
51970884 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
51970924 TGCCTTCGGGTCTTAG-CCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
51970948 CATTCAAATG
Statistics
Matches: 621, Mismatches: 41, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 10 0.02
40 610 0.98
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:51992186 original size:15 final size:14
Alignment explanation
Indices: 51992166--51992215 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 14
51992156 GAATAGACAT
51992166 AAATAAATAAATAAA
1 AAATAAATAAA-AAA
*
51992181 AAATAAATAAAGAA
1 AAATAAATAAAAAA
* *
51992195 AAATAAA-CAAACA
1 AAATAAATAAAAAA
51992208 AAATAAAT
1 AAATAAAT
51992216 TGGTAAACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 10 0.33
14 9 0.30
15 11 0.37
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAA
Found at i:51992198 original size:14 final size:13
Alignment explanation
Indices: 51992166--51992215 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
51992156 GAATAGACAT
51992166 AAATAAATAAATAAA
1 AAATAAAT-AA-AAA
51992181 AAATAAATAAAGAA
1 AAATAAATAAA-AA
* *
51992195 AAATAAACAAACA
1 AAATAAATAAAAA
51992208 AAATAAAT
1 AAATAAAT
51992216 TGGTAAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 9 0.29
14 14 0.45
15 8 0.26
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (13 bp):
AAATAAATAAAAA
Found at i:51993718 original size:55 final size:53
Alignment explanation
Indices: 51993631--51993864 Score: 212
Period size: 55 Copynumber: 4.4 Consensus size: 53
51993621 ATTAGGGTTT
* *
51993631 AAGGATACCATGTAAGACCATACCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * * *
51993686 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGG-C
* * * * *
51993742 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
51993794 AAGGATACCATGTAAGACCATGTCAAGACATGGGAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGAATTGGTAAGTTTCTAAGGC
*
51993843 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
51993865 AAAAGTCATG
Statistics
Matches: 146, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
49 21 0.14
52 7 0.05
53 36 0.25
54 14 0.10
55 64 0.44
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:51993837 original size:108 final size:110
Alignment explanation
Indices: 51993638--51993838 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
51993628 TTTAAGGATA
* *
51993638 CCATGTAAGACCATACCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
51993703 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* * * *
51993748 CCATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATACCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
51993810 ACCATGTCAAGACATGGGAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
51993839 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 6 0.07
110 25 0.31
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:52001307 original size:55 final size:53
Alignment explanation
Indices: 52001225--52001478 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
52001215 ATTAGGGTTT
52001225 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* ** * * * *
52001280 AAGGAAATAATGTAAGACCATGTCAAGACATGGCATTGATAGGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
52001335 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
52001388 AAGGATACCATGTAAGACC-TGTCAAAACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* ** * *
52001436 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
52001479 GTACCCACAT
Statistics
Matches: 162, Mismatches: 30, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
48 18 0.11
49 19 0.12
51 2 0.01
52 22 0.14
53 25 0.15
54 7 0.04
55 65 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:52001691 original size:16 final size:16
Alignment explanation
Indices: 52001670--52001700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52001660 ATAAATTTGA
52001670 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52001686 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52001701 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52003832 original size:11 final size:11
Alignment explanation
Indices: 52003819--52003866 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
52003809 AACTACCTGA
52003819 AAACAAAATAA-
1 AAACAAAA-AAT
*
52003830 AAACTA-AAAT
1 AAACAAAAAAT
*
52003840 AAACTAAAAAT
1 AAACAAAAAAT
52003851 AAACAAAAAAT
1 AAACAAAAAAT
52003862 AAACA
1 AAACA
52003867 TGAAAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 24 0.73
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.12
Consensus pattern (11 bp):
AAACAAAAAAT
Found at i:52016190 original size:27 final size:27
Alignment explanation
Indices: 52016117--52016197 Score: 135
Period size: 28 Copynumber: 3.0 Consensus size: 27
52016107 GTCATGCATA
*
52016117 TCATAGGGGTATATCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCATTTTACC
52016144 TCATAAGGGGTATAACAGTCATTTTACC
1 TCAT-AGGGGTATAACAGTCATTTTACC
*
52016172 TCATAGTGGTATAACAGTCATTTTAC
1 TCATAGGGGTATAACAGTCATTTTAC
52016198 TAAATTGGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
27 25 0.49
28 26 0.51
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCATTTTACC
Found at i:52023622 original size:28 final size:27
Alignment explanation
Indices: 52023556--52023735 Score: 279
Period size: 28 Copynumber: 6.6 Consensus size: 27
52023546 TTATTAAGTC
* * *
52023556 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
52023583 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAGTC-AACT
52023611 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
52023638 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
52023666 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
52023694 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
52023721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52023736 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:52023640 original size:55 final size:55
Alignment explanation
Indices: 52023556--52023735 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
52023546 TTATTAAGTC
* * * *
52023556 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAATT
*
52023611 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAATT
52023666 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAATT
52023721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52023736 GCACAATTTA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 91 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAATT
Found at i:52023676 original size:83 final size:82
Alignment explanation
Indices: 52023556--52023735 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
52023546 TTATTAAGTC
* * *
52023556 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
52023621 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
52023638 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
52023703 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
52023721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52023736 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 20 0.22
83 71 0.78
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:52025602 original size:27 final size:27
Alignment explanation
Indices: 52025564--52025643 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
52025554 GTCATACATG
* *
52025564 TCATAAGGGTATATCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCATTTTACC
52025591 TCATAGGGGTATAACAGTCATTTTACC
1 TCATAGGGGTATAACAGTCATTTTACC
*
52025618 TCATAGGGGTATAACATTCATTTTAC
1 TCATAGGGGTATAACAGTCATTTTAC
52025644 TAAATTAGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCATTTTACC
Found at i:52027945 original size:43 final size:42
Alignment explanation
Indices: 52027897--52028061 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
52027887 TTTCGATATG
52027897 TGATTTCATGTAAGACCATGTCTGGGTCGTTGGCATCGATTT
1 TGATTTCATGTAAGACCATGTCTGGGTCGTTGGCATCGATTT
* * * * * *
52027939 GAGATTTACGTGTAAGACCATGTCTAGGACATCGGCATCG-TATT
1 -TGATTT-CATGTAAGACCATGTCTGGGTCGTTGGCATCGAT-TT
* * * * *
52027983 TGATTTCGTGTAAGACCCTTTCTGGGATAG-TGGCATCTATATT
1 TGATTTCATGTAAGACCATGTCTGGG-TCGTTGGCATCGAT-TT
* *
52028026 TGATTACATGTAAGACCACGTCTGGGGT-GTTGGCAT
1 TGATTTCATGTAAGACCATGTCT-GGGTCGTTGGCAT
52028062 TGTACCAGCT
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 24 0.25
43 40 0.42
44 32 0.33
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGTCGTTGGCATCGATTT
Found at i:52039129 original size:82 final size:82
Alignment explanation
Indices: 52038992--52039154 Score: 326
Period size: 82 Copynumber: 2.0 Consensus size: 82
52038982 AATATTCCGG
52038992 GAACATATTGTGACTTTGTTTAAAGTATGATAATGTATTTTTTATTAATATTTACATACTTACTT
1 GAACATATTGTGACTTTGTTTAAAGTATGATAATGTATTTTTTATTAATATTTACATACTTACTT
52039057 ACTAAGCTATAATTCTA
66 ACTAAGCTATAATTCTA
52039074 GAACATATTGTGACTTTGTTTAAAGTATGATAATGTATTTTTTATTAATATTTACATACTTACTT
1 GAACATATTGTGACTTTGTTTAAAGTATGATAATGTATTTTTTATTAATATTTACATACTTACTT
52039139 ACTAAGCTATAATTCT
66 ACTAAGCTATAATTCT
52039155 TACTCCCTTC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (82 bp):
GAACATATTGTGACTTTGTTTAAAGTATGATAATGTATTTTTTATTAATATTTACATACTTACTT
ACTAAGCTATAATTCTA
Found at i:52044483 original size:47 final size:47
Alignment explanation
Indices: 52044421--52044538 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
52044411 TGCCACTAAG
* *
52044421 ACAAGGATACTATGTAAGACCATGTTTGGAACATGACATTTGGTAAA
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGATAAA
* * *
52044468 ACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGATAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGATAAA
* *
52044515 ATAAGGATATCATGTAAGACCATG
1 ACAAGGATACCATGTAAGACCATG
52044539 CCAAGGCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGATAAA
Found at i:52044581 original size:54 final size:54
Alignment explanation
Indices: 52044523--52044699 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 54
52044513 AGATAAGGAT
*
52044523 ATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGTA
1 ATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGTA
* * *
52044577 ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGACAAAGGT-
1 ATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC-AAGGTA
* * * *
52044632 -CCATGTAAGACCATGCCAAGGTATGGCTTTGGTGAGTTC-ATAAGGCAAGG-A
1 ATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGTA
*
52044683 TATCACGTAAGACCATG
1 -ATCATGTAAGACCATG
52044700 TCAGGACATG
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
51 4 0.04
52 6 0.06
53 14 0.13
54 68 0.65
55 8 0.08
56 5 0.05
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
ATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGTA
Found at i:52054632 original size:47 final size:47
Alignment explanation
Indices: 52054551--52054897 Score: 498
Period size: 47 Copynumber: 7.4 Consensus size: 47
52054541 AATGTGAAAG
*
52054551 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
52054599 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
52054646 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAATTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
52054693 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTAAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
52054740 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
52054787 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
52054834 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
52054880 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
52054898 TCCCGAAGGG
Statistics
Matches: 272, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 259 0.95
48 12 0.04
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:52064878 original size:29 final size:29
Alignment explanation
Indices: 52064845--52064918 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
52064835 GTTGTGAGAT
* *
52064845 TGGCACTAGGTGTGTGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGTG-ACTTGAAAGTACA
* * *
52064874 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGTGACTTGAAAGTACA
52064903 TGGCACTAAGTGTGTG
1 TGGCACTAAGTGTGTG
52064919 CGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGTGACTTGAAAGTACA
Found at i:52071131 original size:46 final size:46
Alignment explanation
Indices: 52071064--52071192 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
52071054 TGTAACCCGC
* * * *
52071064 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
52071110 CCATAAGTGAACTCGGACTCAACTGAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
52071156 CCATAAGTGAACTCGGACTCAAGTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52071193 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52073624 original size:30 final size:30
Alignment explanation
Indices: 52073580--52073668 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
52073570 CAAAGATAAT
52073580 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
52073609 GAGAAACCCAGAATAAAGAAATCCAAAATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * * *
52073639 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52073669 CGATATTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 7 0.14
30 43 0.86
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:52073628 original size:15 final size:15
Alignment explanation
Indices: 52073580--52073659 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
52073570 CAAAGATAAT
*
52073580 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52073594 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52073609 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
52073624 AAGAAATCCAAAATA
1 AAGAAATCCAGAATA
* *
52073639 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52073654 AAGAAA
1 AAGAAA
52073660 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52073668 original size:15 final size:15
Alignment explanation
Indices: 52073591--52073668 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
52073581 AGAAAACCGA
52073591 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52073606 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
52073620 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
* *
52073636 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAAG
*
52073651 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52073666 ATA
1 ATA
52073669 CGATATTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52076483 original size:46 final size:46
Alignment explanation
Indices: 52076416--52076591 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
52076406 TGTAACCCGC
* * *
52076416 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
52076462 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* * *
52076512 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
52076555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52076592 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 62 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:52076552 original size:93 final size:93
Alignment explanation
Indices: 52076424--52076594 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
52076414 GCCCATAAGT
* * *
52076424 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52076489 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
52076517 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52076582 CGAGTTCGGATGC
66 CGAGTTCAGATGC
52076595 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:52078772 original size:40 final size:40
Alignment explanation
Indices: 52078723--52078863 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 40
52078713 CGGATGTAAC
52078723 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * ** *
52078763 AACCCGCACGAATACCTTTTGGACTTAACCCAGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
52078803 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
52078843 AACTAGCAC-AATTGCCTTCGG
1 AACCAGCACGAA-TGCCTTCGG
52078864 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 2 0.02
40 86 0.98
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:52088742 original size:45 final size:44
Alignment explanation
Indices: 52088598--52088756 Score: 173
Period size: 45 Copynumber: 3.7 Consensus size: 44
52088588 ATATTGTACA
* * *
52088598 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAC-ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATATCG
* * * * *
52088641 ATTCCACTATCCCAGACAAGGTCTTACAC-AAATCA-AATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATATCG
*
52088682 ATGCCAATGTACCAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATATCG
* **
52088727 ATGCTAATGTCCCAGATGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
52088757 AGAACACATG
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.28
42 13 0.14
43 23 0.25
44 3 0.03
45 28 0.30
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATATCG
Found at i:52098306 original size:89 final size:89
Alignment explanation
Indices: 52098184--52098359 Score: 316
Period size: 89 Copynumber: 2.0 Consensus size: 89
52098174 GGGTAATTTG
52098184 TAAACCGCCCTAAATGTGTGTTTATGGATTGATTTGAGTGATTTGGTGAATAAAAGAGTTAAATT
1 TAAACCGCCCTAAATGTGTGTTTATGGATTGATTTGAGTGATTTGGTGAATAAAAGAGTTAAATT
*
52098249 TGATTTTATATAGATCAAGAAATT
66 TGAATTTATATAGATCAAGAAATT
* * *
52098273 TAAACTGCCCTAAATGTGTGTTTGTGGATTGATTTGAGTGATTTGGTGAATAAAATAGTTAAATT
1 TAAACCGCCCTAAATGTGTGTTTATGGATTGATTTGAGTGATTTGGTGAATAAAAGAGTTAAATT
52098338 TGAATTTATATAGATCAAGAAA
66 TGAATTTATATAGATCAAGAAA
52098360 CAAAGAAAAC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (89 bp):
TAAACCGCCCTAAATGTGTGTTTATGGATTGATTTGAGTGATTTGGTGAATAAAAGAGTTAAATT
TGAATTTATATAGATCAAGAAATT
Found at i:52098754 original size:43 final size:42
Alignment explanation
Indices: 52098643--52098755 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
52098633 GTGATTTATG
* *
52098643 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCA
* *
52098685 TGTAAGACC-CTATCTAGGACTG-TGGCATCGATATTTG-TTTACA
1 TGTAAGACCAC-GTCTGGGA-TGTTGGCATCG-TATTTGATTT-CA
52098728 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
52098756 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.02
42 28 0.47
43 29 0.49
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCA
Found at i:52103400 original size:15 final size:15
Alignment explanation
Indices: 52103362--52103427 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
52103352 ATTTCACTAT
52103362 AGTTTCATAATCTATA
1 AGTTTCATAATCTA-A
52103378 TA-TTTCATAATCTAA
1 -AGTTTCATAATCTAA
* *
52103393 AGTTTCATAGTCTAT
1 AGTTTCATAATCTAA
*
52103408 AGTTTCACAATCTAA
1 AGTTTCATAATCTAA
52103423 AGTTT
1 AGTTT
52103428 TAGTATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
14 1 0.02
15 29 0.67
16 12 0.28
17 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (15 bp):
AGTTTCATAATCTAA
Found at i:52103420 original size:30 final size:31
Alignment explanation
Indices: 52103362--52103427 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
52103352 ATTTCACTAT
*
52103362 AGTTTCATAATCTATATATTTCATAATCTAA
1 AGTTTCATAATCTATATATTTCACAATCTAA
* *
52103393 AGTTTCATAGTCTATA-GTTTCACAATCTAA
1 AGTTTCATAATCTATATATTTCACAATCTAA
52103423 AGTTT
1 AGTTT
52103428 TAGTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTCATAATCTATATATTTCACAATCTAA
Found at i:52121891 original size:40 final size:40
Alignment explanation
Indices: 52121836--52122070 Score: 391
Period size: 40 Copynumber: 5.9 Consensus size: 40
52121826 GGATATAGCT
*
52121836 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
52121876 ACTCACACAATTGCCTTCGGGACTTAGCCCGGTTATAGAA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
52121916 ACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
52121956 ACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
52121996 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
52122036 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
52122071 CAATCCGAAT
Statistics
Matches: 184, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.07
40 171 0.93
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:52128649 original size:23 final size:23
Alignment explanation
Indices: 52128619--52128665 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
52128609 AGCTTCCGAT
*
52128619 AATCTATAAAACAAAGGAAAGTA
1 AATCTATAAAACAAAAGAAAGTA
52128642 AATCTATAAAACAAAAGAAAGTA
1 AATCTATAAAACAAAAGAAAGTA
52128665 A
1 A
52128666 CCACGTAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.17
Consensus pattern (23 bp):
AATCTATAAAACAAAAGAAAGTA
Found at i:52131246 original size:48 final size:48
Alignment explanation
Indices: 52131137--52131463 Score: 390
Period size: 48 Copynumber: 6.8 Consensus size: 48
52131127 TTAGGTTCCT
* * * * * * *
52131137 GTGTAAGACCATGTCTAGAACATAGCATCGGCGATGATATGTATG-CA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
* * *
52131184 GTGTAAGACCATGTCTGGGACATGGCAACGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
*
52131232 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
* * * *
52131280 ATGTAAGACCATGACTGGGACATGGCAT-A-TGCAATGATGTATGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTG--ATGATATATGTGCCA
* *** *
52131328 ATGTAAGACCATGTCTGGGACATGGCATCAACAATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
* *
52131376 GTGTAAGACCATGTTTGGCACATGGCATCAGTGATGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
* * *
52131424 GTGTAAGACCATGTCTAGGACATGGAATCGGTGATGATAT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
52131464 GTGGATTCAT
Statistics
Matches: 246, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
46 2 0.01
47 40 0.16
48 203 0.83
49 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATATGTGCCA
Found at i:52136954 original size:43 final size:42
Alignment explanation
Indices: 52136907--52137073 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 42
52136897 GTTATCGAGA
*
52136907 TGTGATTACATGTAAGACCATGTCTGGGACATCGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACAT-GGCATTGTAT
* * *
52136950 TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTAT
* * * **
52136993 TATGATTTCATGTAAGACCCTGTCTGGGACAGTGGCGCTG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTAT
* * *
52137035 ATGTGATAACATGTAAGACCATATCTGGGATATGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATGGCATT
52137074 ATTCACTCTT
Statistics
Matches: 101, Mismatches: 21, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
42 7 0.07
43 93 0.92
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATGGCATTGTAT
Found at i:52144647 original size:42 final size:43
Alignment explanation
Indices: 52144600--52144702 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
52144590 TAATCGAGAA
52144600 GTGATTACATGTAAGACCATCT-TGGGACATTGGCATTGTATT
1 GTGATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATT
* *
52144642 GTGATTACATGTAAGACCATGTCTGGGGCATTGGCATTGTATT
1 GTGATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATT
* * *
52144685 ATGATTTCGTGTAAGACC
1 GTGATTACATGTAAGACC
52144703 CTGTGTAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 21 0.38
43 34 0.62
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATT
Found at i:52146308 original size:17 final size:18
Alignment explanation
Indices: 52146281--52146339 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
52146271 GCAGTAATAG
* *
52146281 TAAATAATGCAGTAA-CG
1 TAAACAATGCAGTAACCA
*
52146298 TAAACAGTGCAGTAACCA
1 TAAACAATGCAGTAACCA
52146316 TAAACAATGCAGT-ACCAA
1 TAAACAATGCAGTAACC-A
52146334 TAAACA
1 TAAACA
52146340 GTATGCAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (18 bp):
TAAACAATGCAGTAACCA
Found at i:52146783 original size:26 final size:27
Alignment explanation
Indices: 52146681--52146794 Score: 167
Period size: 27 Copynumber: 4.3 Consensus size: 27
52146671 ATCTTACCAA
* *
52146681 CATTTTACCCCATAAGGGCAAAACAAT
1 CATTTTACCCCATAAGGGCAAAATAGT
52146708 CATTTTACCCCATAAGGGCAAAATAGT
1 CATTTTACCCCATAAGGGCAAAATAGT
* *
52146735 CATTTTATCACATAAGGGCAAAATAGT
1 CATTTTACCCCATAAGGGCAAAATAGT
*
52146762 CATTTTA-CCCATAAGGGAAAAATAGT
1 CATTTTACCCCATAAGGGCAAAATAGT
*
52146788 TATTTTA
1 CATTTTA
52146795 TCGATTAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 23 0.29
27 57 0.71
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (27 bp):
CATTTTACCCCATAAGGGCAAAATAGT
Found at i:52151460 original size:46 final size:43
Alignment explanation
Indices: 52151326--52151499 Score: 150
Period size: 46 Copynumber: 3.8 Consensus size: 43
52151316 CATTATGAGA
* * * *
52151326 GCCAGTGTAAGACCATGTCTGGGAAATGGCATTGGCATTGAGACGAGT
1 GCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGAC--GT
* * * *
52151374 GCTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCGAGACGT
1 GCCAATGTAAGACATGTCTGGGACATGCATC-GGCTCGAGACGT
*
52151418 AAGCCAATGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
1 --GCCAATGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGT
* *
52151464 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGC
52151500 ACAGATATGC
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.11
45 17 0.16
46 53 0.50
47 15 0.14
48 10 0.09
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (43 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGT
Found at i:52159089 original size:46 final size:46
Alignment explanation
Indices: 52158943--52159164 Score: 193
Period size: 46 Copynumber: 4.8 Consensus size: 46
52158933 TCACTTGTGT
* ** *
52158943 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGA
* * **
52158989 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGACGA
* * **
52159037 GTGCTAGTGTAAGACATGTTTGGGACATGCATCAACCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACG-A
* * * *
52159084 -AGCTAGTGTAAGACATATCTGGAACATGCATTGG-CT-ACGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGA
*
52159126 TGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
52159165 ATAGATATGC
Statistics
Matches: 139, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 13 0.09
45 14 0.10
46 58 0.42
47 28 0.20
48 23 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGA
Found at i:52160408 original size:20 final size:21
Alignment explanation
Indices: 52160370--52160408 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52160360 TTAAAATGGG
52160370 CACACAGGCGTGTTGCCCTTC
1 CACACAGGCGTGTTGCCCTTC
*
52160391 CACACTGGCGTG-TGCCCT
1 CACACAGGCGTGTTGCCCT
52160409 GTTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACAGGCGTGTTGCCCTTC
Found at i:52167387 original size:48 final size:48
Alignment explanation
Indices: 52167329--52167431 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
52167319 TCTCTAATCG
* * *
52167329 TTGACTGTTACTGAATAATAAAGATTAATTGATCGCTACTAAAAAATA
1 TTGATTGTTACTGAATAATAAAGATAAATTGATCGATACTAAAAAATA
* ** * * *
52167377 TTGATTGTTACTGAATGATATTGATAAATTGATTGATATTGAAAAATA
1 TTGATTGTTACTGAATAATAAAGATAAATTGATCGATACTAAAAAATA
52167425 TTGATTG
1 TTGATTG
52167432 ATATTGAGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.39
Consensus pattern (48 bp):
TTGATTGTTACTGAATAATAAAGATAAATTGATCGATACTAAAAAATA
Found at i:52167408 original size:28 final size:28
Alignment explanation
Indices: 52167376--52167429 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
52167366 ACTAAAAAAT
* **
52167376 ATTGATTGTTACTGAATGATATTGATAA
1 ATTGATTGATACTGAAAAATATTGATAA
*
52167404 ATTGATTGATATTGAAAAATATTGAT
1 ATTGATTGATACTGAAAAATATTGAT
52167430 TGATATTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (28 bp):
ATTGATTGATACTGAAAAATATTGATAA
Found at i:52167429 original size:20 final size:19
Alignment explanation
Indices: 52167392--52167438 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
52167382 TGTTACTGAA
*
52167392 TGATATTG-ATAAATTGAT
1 TGATATTGAAAAAATTGAT
52167410 TGATATTGAAAAATATTGAT
1 TGATATTGAAAAA-ATTGAT
52167430 TGATATTGA
1 TGATATTGA
52167439 GCTTGGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (19 bp):
TGATATTGAAAAAATTGAT
Found at i:52167435 original size:10 final size:10
Alignment explanation
Indices: 52167374--52167438 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 10
52167364 CTACTAAAAA
52167374 ATATTGATTG
1 ATATTGATTG
* * *
52167384 TTACTGAATG
1 ATATTGATTG
52167394 ATATTGA-T-
1 ATATTGATTG
*
52167402 AAATTGATTG
1 ATATTGATTG
***
52167412 ATATTGAAAA
1 ATATTGATTG
52167422 ATATTGATTG
1 ATATTGATTG
52167432 ATATTGA
1 ATATTGA
52167439 GCTTGGAATA
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 32 0.80
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (10 bp):
ATATTGATTG
Found at i:52169121 original size:18 final size:19
Alignment explanation
Indices: 52169100--52169135 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52169090 AGAAGAATAC
*
52169100 AAAGATTAAGAAA-GAAAG
1 AAAGATAAAGAAATGAAAG
52169118 AAAGATAAAGAAATGAAA
1 AAAGATAAAGAAATGAAA
52169136 AGAAGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAGATAAAGAAATGAAAG
Found at i:52170234 original size:22 final size:23
Alignment explanation
Indices: 52170188--52170239 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
52170178 TTTTTTTCAC
52170188 TATT-TTGCTACATTTTTACTAT
1 TATTGTTGCTACATTTTTACTAT
* *
52170210 TA-TGTTGCTAC-TATTTTATTGT
1 TATTGTTGCTACAT-TTTTACTAT
52170232 TATTGTTG
1 TATTGTTG
52170240 GATATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.60
Consensus pattern (23 bp):
TATTGTTGCTACATTTTTACTAT
Found at i:52170919 original size:15 final size:15
Alignment explanation
Indices: 52170899--52170933 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52170889 ATTCATGTTA
52170899 TTTATTTTATAATTT
1 TTTATTTTATAATTT
* *
52170914 TTTATTTTTTTATTT
1 TTTATTTTATAATTT
52170929 TTTAT
1 TTTAT
52170934 CATGAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTATAATTT
Found at i:52172350 original size:15 final size:15
Alignment explanation
Indices: 52172330--52172358 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52172320 TGAAGCTCCA
52172330 TCGACGCCTTCGCCT
1 TCGACGCCTTCGCCT
52172345 TCGACGCCTTCGCC
1 TCGACGCCTTCGCC
52172359 CTCTAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.48, G:0.21, T:0.24
Consensus pattern (15 bp):
TCGACGCCTTCGCCT
Found at i:52174986 original size:39 final size:40
Alignment explanation
Indices: 52174865--52175058 Score: 205
Period size: 40 Copynumber: 4.8 Consensus size: 40
52174855 GGATATAGCT
* * *
52174865 ACTCGCTCAAATGCCTTCGGGACATAGCCCAG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
52174905 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52174945 ACTCGCTCCAATGCCTTCAGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
52174984 ACTCGCACAAATGCCTTC-GAATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
52175024 ACTTAGCACAAAAGCCTTCGGGACTTAACCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
52175059 ATCATTCGAA
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 67 0.52
41 26 0.20
42 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:52175016 original size:79 final size:80
Alignment explanation
Indices: 52174839--52175022 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
52174829 GAATCACATA
* * * *
52174839 CCTTCGGAATTTAA-TCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCAGTTATA
1 CCTTCGGAACTTAACCCGGATATAG-TAACTCGCTCAAATGCCTTCAGGACATAGCCCAGATATA
52174902 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * *
52174918 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCTCCAATGCCTTCAGG-CTTAGCCCGGA-ATTA
1 CCTTCGGAACTTAACCCGGATATAGTAACTCGCTCAAATGCCTTCAGGACATAGCCCAGATA-TA
52174981 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
**
52174997 CCTTC-GAATCTTAGTCCGGATATAGT
1 CCTTCGGAA-CTTAACCCGGATATAGT
52175023 CACTTAGCAC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 27 0.31
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTCGCTCAAATGCCTTCAGGACATAGCCCAGATATAG
TAACTCGCACAAATG
Found at i:52178343 original size:12 final size:12
Alignment explanation
Indices: 52178328--52178367 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
52178318 TATTAAGAAT
52178328 TTTATTAAATTA
1 TTTATTAAATTA
52178340 TTTATT--ATT-
1 TTTATTAAATTA
52178349 TTTATTAAATTA
1 TTTATTAAATTA
52178361 TTT-TTAA
1 TTTATTAA
52178368 TAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
11 7 0.28
12 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTATTAAATTA
Found at i:52178374 original size:17 final size:14
Alignment explanation
Indices: 52178343--52178384 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
52178333 TAAATTATTT
52178343 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
52178357 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
* *
52178370 ATAAATTTTATTAA
1 ATTATTTTTATTAA
52178384 A
1 A
52178385 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:52185404 original size:38 final size:38
Alignment explanation
Indices: 52185311--52185461 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
52185301 CGGCATCGTG
* * *
52185311 GAATGGTTATCTACTAGCTCTA-TAGAGTAA-ACCATGA
1 GAATGGTTATCTACTGGCTCTACGA-AGCAACACCATGA
* *
52185348 GAATAGTTATCTATTGGCTCTACGAAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* *
52185386 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* * * * *
52185424 AAATGATTATCTATTGCCTCTACGAAGCGACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
52185462 AAATAGTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.24
38 73 0.76
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (38 bp):
GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
Found at i:52185445 original size:76 final size:75
Alignment explanation
Indices: 52185311--52185461 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 75
52185301 CGGCATCGTG
* * * * *
52185311 GAATGGTTATCTACTAGCTCTATAGAGTAAACCATGAGAATAGTTATCTATTGGCTCTACGAAGC
1 GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
52185376 AACACCATGA
66 AACACCATGA
* *
52185386 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGAAAAT-GATTATCTATTGCCTCTACGAA
1 GAATGGTTAACTACTAGCTCTACAGAGCAA-ACCATGAAAATAG-TTATCTATTGCCTCTACGAA
*
52185450 GCGACACCATGA
64 GCAACACCATGA
52185462 AAATAGTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 26 0.39
76 40 0.61
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
AACACCATGA
Found at i:52186731 original size:38 final size:38
Alignment explanation
Indices: 52186638--52186788 Score: 164
Period size: 38 Copynumber: 4.0 Consensus size: 38
52186628 CGGCATCGTG
* * *
52186638 GAATGGTTATCTACTAGCTCTA-TAGAGTAA-ACCATGA
1 GAATGGTTATCTACTGGCTCTACGA-AGCAACACCATGA
* *
52186675 GAATAGTTATCTATTGGCTCTACGAAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* *
52186713 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* * * *
52186751 AAATGATTATCTATTGCCTCTACGAAG-AGACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCA-ACACCATGA
52186789 AAATAGTTTA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
37 24 0.25
38 72 0.75
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (38 bp):
GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
Found at i:52186772 original size:76 final size:75
Alignment explanation
Indices: 52186638--52186788 Score: 198
Period size: 76 Copynumber: 2.0 Consensus size: 75
52186628 CGGCATCGTG
* * * * *
52186638 GAATGGTTATCTACTAGCTCTATAGAGTAAACCATGAGAATAGTTATCTATTGGCTCTACGAAGC
1 GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAG-
52186703 A-ACACCATGA
65 AGACACCATGA
* *
52186713 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGAAAAT-GATTATCTATTGCCTCTACGAA
1 GAATGGTTAACTACTAGCTCTACAGAGCAA-ACCATGAAAATAG-TTATCTATTGCCTCTACGAA
52186777 GAGACACCATGA
64 GAGACACCATGA
52186789 AAATAGTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 27 0.41
76 39 0.59
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGA
GACACCATGA
Found at i:52188057 original size:38 final size:38
Alignment explanation
Indices: 52187964--52188114 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
52187954 CGGCATCGTG
* * *
52187964 GAATGGTTATCTACTAGCTCTA-TAGAGTAA-ACCATGA
1 GAATGGTTATCTACTGGCTCTACGA-AGCAACACCATGA
* *
52188001 GAATAGTTATCTATTGGCTCTACGAAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* *
52188039 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* * * * *
52188077 AAATGATTATCTATTGCCTCTACGAAGCGACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
52188115 AAATAGTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.24
38 73 0.76
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (38 bp):
GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
Found at i:52188098 original size:76 final size:75
Alignment explanation
Indices: 52187964--52188114 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 75
52187954 CGGCATCGTG
* * * * *
52187964 GAATGGTTATCTACTAGCTCTATAGAGTAAACCATGAGAATAGTTATCTATTGGCTCTACGAAGC
1 GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
52188029 AACACCATGA
66 AACACCATGA
* *
52188039 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGAAAAT-GATTATCTATTGCCTCTACGAA
1 GAATGGTTAACTACTAGCTCTACAGAGCAA-ACCATGAAAATAG-TTATCTATTGCCTCTACGAA
*
52188103 GCGACACCATGA
64 GCAACACCATGA
52188115 AAATAGTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 26 0.39
76 40 0.61
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
AACACCATGA
Found at i:52189384 original size:38 final size:38
Alignment explanation
Indices: 52189291--52189441 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
52189281 CGGCATCGTG
* * *
52189291 GAATGGTTATCTACTAGCTCTA-TAGAGTAA-ACCATGA
1 GAATGGTTATCTACTGGCTCTACGA-AGCAACACCATGA
* *
52189328 GAATAGTTATCTATTGGCTCTACGAAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* *
52189366 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* * * * *
52189404 AAATGATTATCTATTGCCTCTACGAAGCGACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
52189442 AAATAGTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.24
38 73 0.76
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (38 bp):
GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
Found at i:52189425 original size:76 final size:75
Alignment explanation
Indices: 52189291--52189441 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 75
52189281 CGGCATCGTG
* * * * *
52189291 GAATGGTTATCTACTAGCTCTATAGAGTAAACCATGAGAATAGTTATCTATTGGCTCTACGAAGC
1 GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
52189356 AACACCATGA
66 AACACCATGA
* *
52189366 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGAAAAT-GATTATCTATTGCCTCTACGAA
1 GAATGGTTAACTACTAGCTCTACAGAGCAA-ACCATGAAAATAG-TTATCTATTGCCTCTACGAA
*
52189430 GCGACACCATGA
64 GCAACACCATGA
52189442 AAATAGTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 26 0.39
76 40 0.61
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (75 bp):
GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAAAATAGTTATCTATTGCCTCTACGAAGC
AACACCATGA
Found at i:52190710 original size:38 final size:38
Alignment explanation
Indices: 52190617--52190767 Score: 180
Period size: 38 Copynumber: 4.0 Consensus size: 38
52190607 CGGCATCGTG
* * *
52190617 GAATGGTTATCTACTAGCTCTA-TAGAGTAA-ACCATGA
1 GAATGGTTATCTACTGGCTCTACGA-AGCAACACCATGA
* *
52190654 GAATAGTTATCTATTGGCTCTACGAAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* *
52190692 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
* * * *
52190730 GAATGATTATCTATTGCCTCTACGAAGCGACACCATGA
1 GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
52190768 AAATAGTTTA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
37 23 0.24
38 74 0.76
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (38 bp):
GAATGGTTATCTACTGGCTCTACGAAGCAACACCATGA
Found at i:52190744 original size:76 final size:75
Alignment explanation
Indices: 52190617--52190767 Score: 214
Period size: 76 Copynumber: 2.0 Consensus size: 75
52190607 CGGCATCGTG
* * * *
52190617 GAATGGTTATCTACTAGCTCTATAGAGTAAACCATGAGAATAGTTATCTATTGGCTCTACGAAGC
1 GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAGAATAGTTATCTATTGCCTCTACGAAGC
52190682 AACACCATGA
66 AACACCATGA
* *
52190692 GAATGGTTAACTACTGGCTCTACGGAGCAACACCATGAGAAT-GATTATCTATTGCCTCTACGAA
1 GAATGGTTAACTACTAGCTCTACAGAGCAA-ACCATGAGAATAG-TTATCTATTGCCTCTACGAA
*
52190756 GCGACACCATGA
64 GCAACACCATGA
52190768 AAATAGTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 26 0.39
76 41 0.61
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (75 bp):
GAATGGTTAACTACTAGCTCTACAGAGCAAACCATGAGAATAGTTATCTATTGCCTCTACGAAGC
AACACCATGA
Found at i:52196731 original size:49 final size:50
Alignment explanation
Indices: 52196651--52196883 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
52196641 ATCTATTGTG
*
52196651 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * *
52196701 -GGTCGCATGTGTAATACTAAGTGCATGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
52196751 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
52196801 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
52196851 -GGTCGCATGTGTAGTACTAAGTGCAGTCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
52196884 TGCGTACCAG
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 70 0.45
50 48 0.31
51 36 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:52196788 original size:28 final size:28
Alignment explanation
Indices: 52196756--52196839 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
52196746 AACTTCGATC
52196756 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
52196784 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
52196806 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
52196834 ACGTGT
1 ACGTGT
52196840 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:52200328 original size:40 final size:40
Alignment explanation
Indices: 52200272--52200489 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
52200262 CGGATGATAA
* *
52200272 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
52200312 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52200352 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
52200392 CCGGGCTAGGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52200432 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
52200472 TC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
52200490 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52203830 original size:68 final size:68
Alignment explanation
Indices: 52203715--52203903 Score: 227
Period size: 68 Copynumber: 2.8 Consensus size: 68
52203705 ATGGGAAATT
* * * * * *
52203715 ATGACACCATATTGTGTAAGACCATAGCTGGGTTAGGGCAACATATGAAGTTCACTAAGACAGTA
1 ATGACACCATATTGTGTAAGACCATAGCTAGGCTATGGCAACATATGAAGTCCACCAAGAAAGTA
52203780 AAC
66 AAC
* * * *
52203783 ATGACACCATATTGTGTAAGACTATAG-TAGAGCTATGACAACCTATGAAATCCACCAAGAAAGT
1 ATGACACCATATTGTGTAAGACCATAGCTAG-GCTATGGCAACATATGAAGTCCACCAAGAAAGT
52203847 AAAC
65 AAAC
* * * * *
52203851 ATAACATCATATAGTGTAAGACCATAGTTAGGCTCTGGCAACATATGAAGTCC
1 ATGACACCATATTGTGTAAGACCATAGCTAGGCTATGGCAACATATGAAGTCC
52203904 GCCAGGACAG
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
67 2 0.02
68 96 0.95
69 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (68 bp):
ATGACACCATATTGTGTAAGACCATAGCTAGGCTATGGCAACATATGAAGTCCACCAAGAAAGTA
AAC
Found at i:52206076 original size:5 final size:5
Alignment explanation
Indices: 52206066--52206097 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
52206056 CGAGTAAAAA
52206066 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
52206098 GGTTGGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:52206770 original size:13 final size:15
Alignment explanation
Indices: 52206740--52206771 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
52206730 GAAATTTTTG
52206740 AAATGTATGTACTAT
1 AAATGTATGTACTAT
52206755 AAATGTA-GTA-TAT
1 AAATGTATGTACTAT
52206768 AAAT
1 AAAT
52206772 TTCAGCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (15 bp):
AAATGTATGTACTAT
Found at i:52216367 original size:9 final size:9
Alignment explanation
Indices: 52216350--52216446 Score: 58
Period size: 9 Copynumber: 10.7 Consensus size: 9
52216340 AATATGGTAA
52216350 AATAAATAT
1 AATAAATAT
*
52216359 AATATATAT
1 AATAAATAT
* *
52216368 AGTAAAAAT
1 AATAAATAT
*
52216377 GTATAACATAT
1 -AATAA-ATAT
52216388 AATAAA-AT
1 AATAAATAT
*
52216396 -ATAAACAT
1 AATAAATAT
52216404 AATAGAATA-
1 AATA-AATAT
52216413 AATAATATAT
1 AATAA-ATAT
* *
52216423 ATTAAAAAT
1 AATAAATAT
52216432 -ATAACATAT
1 AATAA-ATAT
52216441 AATAAA
1 AATAAA
52216447 ATTTATAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
7 5 0.08
8 8 0.12
9 32 0.48
10 18 0.27
11 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AATAAATAT
Found at i:52216404 original size:18 final size:19
Alignment explanation
Indices: 52216372--52216454 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 19
52216362 ATATATAGTA
*
52216372 AAAATGTATAACATATAAT
1 AAAATATATAACATATAAT
52216391 AAAATATA-AAC--ATAAT
1 AAAATATATAACATATAAT
* * * *
52216407 AGAATAAATAATATATATT
1 AAAATATATAACATATAAT
52216426 AAAA-ATATAACATATAAT
1 AAAATATATAACATATAAT
*
52216444 AAAATTTATAA
1 AAAATATATAA
52216455 AGATGTATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
16 11 0.22
17 2 0.04
18 18 0.36
19 19 0.38
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATATATAACATATAAT
Found at i:52218092 original size:44 final size:44
Alignment explanation
Indices: 52218044--52218800 Score: 679
Period size: 44 Copynumber: 17.2 Consensus size: 44
52218034 ACTCAGGAAT
** * * * * * *
52218044 GCCAAATCTATTATTTTCGATCTGCTCTTTAACAATATAAAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218088 GCCAAATCTGCTATCTTCGATCTGCTTTTTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218132 GCCAAATCTGCTATATTCGATCTGCTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
52218176 GCCAAATTTTCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218220 ACCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
52218264 GCCAAATCTGCTATCATCGATCTACTCTCTGACAATGCAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
52218308 GCCAGATCTGCTATCTTTGATTTGCTCTTTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
52218352 GCCAAATTTGCTATCATT-GATCTGCTCTTTGACAATATAGAGAC
1 GCCAAATCTGCTATC-TTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218396 GCCAAATCTGATATCTTCGATCTGCTCTCTGACCATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *** ** *
52218440 GTCAAATCCATTATCTTCGATCTATTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * ** *
52218484 GCCAAATCTGTTATCTTTGATCTGCTC-CTTGTA-AACGCA-AGGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAATACAGA-GAC
* * * * * * * *
52218528 ACCAAA--T-C-ATCTTGGATCTACTTCGATGTGAAAACATCCGA-AG
1 GCCAAATCTGCTATCTTCGATCTGC-TC--TCTGACAATA-CAGAGAC
** * * * * * * * **
52218571 GTTAGATTTACTATGTCTTCGATCTACTCTCCGTCGACTATGGAGAC
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGAC
* * * * *
52218618 GCTAAATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218661 GCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
52218705 ACCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
52218749 ACCAAATCTGATATCTTCGATCTGTTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
52218793 GCCCAATC
1 GCCAAATC
52218801 ATCTTGGATC
Statistics
Matches: 581, Mismatches: 111, Indels: 42
0.79 0.15 0.06
Matches are distributed among these distances:
40 11 0.02
41 2 0.00
42 2 0.00
43 28 0.05
44 504 0.87
45 5 0.01
46 6 0.01
47 10 0.02
48 2 0.00
49 11 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:52233155 original size:47 final size:48
Alignment explanation
Indices: 52233086--52233190 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 48
52233076 AAAGGTTGTC
* * *
52233086 AGGAGAAGATTTAAGAGCTGATAAGGGAGAGGATTTAGGAGCTGAT-A
1 AGGAGAGGATTTAAGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
** *
52233133 AGGAGAGGATTTCGGAGCTGATAAAGGAGAAGATTTAGGAGTTGATCA
1 AGGAGAGGATTTAAGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
52233181 AGGAGCAGGA
1 AGGAG-AGGA
52233191 GTTGGCCGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 40 0.80
48 6 0.12
49 4 0.08
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (48 bp):
AGGAGAGGATTTAAGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
Found at i:52233184 original size:24 final size:23
Alignment explanation
Indices: 52233086--52233185 Score: 128
Period size: 24 Copynumber: 4.2 Consensus size: 23
52233076 AAAGGTTGTC
*
52233086 AGGAGAAGATTTAAGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
*
52233109 AGGGAGAGGATTTAGGAGCTGATA
1 A-GGAGAAGATTTAGGAGCTGATA
* *
52233133 AGGAGAGGATTTCGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGAT-A
*
52233157 AGGAGAAGATTTAGGAGTTGATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
52233181 AGGAG
1 AGGAG
52233186 CAGGAGTTGG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
23 21 0.31
24 47 0.69
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:52234541 original size:22 final size:22
Alignment explanation
Indices: 52234503--52234544 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52234493 CATGTTGGAC
*
52234503 TGTTATTATTTACTGCATGCCA
1 TGTTATTATTGACTGCATGCCA
52234525 TGTTATTATCTGA-TGCATGC
1 TGTTATTAT-TGACTGCATGC
52234545 GACTGGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (22 bp):
TGTTATTATTGACTGCATGCCA
Found at i:52238019 original size:38 final size:38
Alignment explanation
Indices: 52237938--52238135 Score: 297
Period size: 38 Copynumber: 5.2 Consensus size: 38
52237928 ACAGGCTATA
* * * *
52237938 TGCTGGAAATATATCCGGGTTAAAATCCCGCAGGCTTCA
1 TGCTGGTATTATATCTGGGTT-AAATCCCGCAGGCTTCG
*
52237977 TGCTGGTATTATATCTGGGTTAAAACCCGCAGGCTTCG
1 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
* *
52238015 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTCG
1 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
52238053 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
* * *
52238091 TGCTGGTATTATATCTGGGTTAAATCCCGCAAGTTTTG
1 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
52238129 TGCTGGT
1 TGCTGGT
52238136 GACTGGATTC
Statistics
Matches: 146, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 128 0.88
39 18 0.12
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCTTCG
Found at i:52244473 original size:38 final size:37
Alignment explanation
Indices: 52244371--52244528 Score: 183
Period size: 38 Copynumber: 4.1 Consensus size: 37
52244361 ATTTGATGTG
* * * * *
52244371 TATCCGGGCTTAAAGACCCTCAGGCTATATGCTGGAAATA
1 TATCCGGG-TTAAA-TCCCACAGGCT-TGTGCTGGTATTA
*
52244411 TATCCGGGTTAAAATCCTACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTT-AAATCCCACAGGCTT-GTGCTGGTATTA
*
52244450 TATCTGGGTTAAATCCCACAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGGC-TTGTGCTGGTATTA
52244488 TATCCGGGTTAAATCCCACAGGCCTT-TGCTGGTATTA
1 TATCCGGGTTAAATCCCACAGG-CTTGTGCTGGTATTA
52244525 TATC
1 TATC
52244529 TGAGCTTAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
37 15 0.14
38 48 0.46
39 31 0.30
40 11 0.10
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (37 bp):
TATCCGGGTTAAATCCCACAGGCTTGTGCTGGTATTA
Found at i:52244554 original size:77 final size:76
Alignment explanation
Indices: 52244377--52244543 Score: 203
Period size: 77 Copynumber: 2.2 Consensus size: 76
52244367 TGTGTATCCG
* * * * * *
52244377 GGCTTAAAGACCCTCAGGCTATATGCTGGAAATATATCCGGGTTAAAATCCTACAGGCTTCGTGC
1 GGCTTAAA-TCCCACAGGCTTTGTGCTGGTAATATATCCGGGTTAAAATCCCACAGGCTTC-TGC
52244442 TGGTATTATATCT
64 TGGTATTATATCT
* *
52244455 GGGTTAAATCCCACAGGCTTTGTGCTGGTATTATATCCGGGTT-AAATCCCACAGGCCTT-TGCT
1 GGCTTAAATCCCACAGGCTTTGTGCTGGTAATATATCCGGGTTAAAATCCCACAGG-CTTCTGCT
52244518 GGTATTATATCT
65 GGTATTATATCT
52244530 GAGCTTAAAGTCCC
1 G-GCTTAAA-TCCC
52244544 GTAGGTTTTG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
75 17 0.22
76 17 0.22
77 36 0.47
78 7 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (76 bp):
GGCTTAAATCCCACAGGCTTTGTGCTGGTAATATATCCGGGTTAAAATCCCACAGGCTTCTGCTG
GTATTATATCT
Found at i:52244560 original size:77 final size:76
Alignment explanation
Indices: 52244409--52244560 Score: 200
Period size: 77 Copynumber: 2.0 Consensus size: 76
52244399 ATGCTGGAAA
* *
52244409 TATATCCGGGTTAAAATCCTACAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCACAGGCT
1 TATATCCGGGTTAAAATCCCACAGGCTTC-TGCTGGTATTATATCTGGCTTAAATCCCACAGGCT
*
52244474 TTGTGCTGGTAT
65 TTGTACTGGTAT
**
52244486 TATATCCGGGTT-AAATCCCACAGGCCTT-TGCTGGTATTATATCTGAGCTTAAAGTCCCGTAGG
1 TATATCCGGGTTAAAATCCCACAGG-CTTCTGCTGGTATTATATCTG-GCTTAAA-TCCCACAGG
*
52244549 TTTTGTACTGGT
63 CTTTGTACTGGT
52244561 GATTGGATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
75 17 0.26
76 17 0.26
77 32 0.48
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (76 bp):
TATATCCGGGTTAAAATCCCACAGGCTTCTGCTGGTATTATATCTGGCTTAAATCCCACAGGCTT
TGTACTGGTAT
Found at i:52249453 original size:20 final size:18
Alignment explanation
Indices: 52249419--52249514 Score: 65
Period size: 18 Copynumber: 5.2 Consensus size: 18
52249409 ATGGTAAAAT
* *
52249419 AAATATAATATATATAGTAA
1 AAATATAA-ACATATAAT-A
52249439 AAATATATAACATATAATA
1 AAATATA-AACATATAATA
52249458 AAATATAAACA-A-AATA
1 AAATATAAACATATAATA
* * *
52249474 GAATGA-ATAATATATATTA
1 AAAT-ATA-AACATATAATA
52249493 AAA-ATATAACATATAATA
1 AAATATA-AACATATAATA
52249511 AAAT
1 AAAT
52249515 TTATAAAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
16 8 0.13
17 6 0.10
18 19 0.31
19 13 0.21
20 14 0.23
21 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATATAAACATATAATA
Found at i:52249495 original size:55 final size:53
Alignment explanation
Indices: 52249421--52249544 Score: 157
Period size: 53 Copynumber: 2.3 Consensus size: 53
52249411 GGTAAAATAA
*
52249421 ATATAAT-ATATATAGTAAAAATATATAACATATAATAAAATATAAACAAAATAG-
1 ATATAATAATATATATTAAAAA-ATATAACATATAATAAAATATAAA-AAAAT-GT
* *
52249475 A-ATGAATAATATATATT-AAAAATATAACATATAATAAAATTTATAAAAATGT
1 ATAT-AATAATATATATTAAAAAATATAACATATAATAAAATATAAAAAAATGT
52249527 ATATAATAATATATATTA
1 ATATAATAATATATATTA
52249545 TTTTATATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
51 1 0.02
52 19 0.31
53 26 0.42
54 8 0.13
55 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (53 bp):
ATATAATAATATATATTAAAAAATATAACATATAATAAAATATAAAAAAATGT
Found at i:52253842 original size:49 final size:49
Alignment explanation
Indices: 52253778--52253963 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
52253768 GCCGAAGCTA
* * *
52253778 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGTGACCAATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAG
* *
52253827 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACTA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATAG
** * *
52253877 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAG
* *
52253925 TTTTCGAGTACGCATAGTAGCCTG-ACTTAGTACTACACA
1 -TCT-G-GTACACATAGTAGCCTGCACTTAGTACTACACA
52253964 TGCGACCTCA
Statistics
Matches: 117, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 40 0.34
50 56 0.48
51 18 0.15
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAG
Found at i:52253862 original size:26 final size:26
Alignment explanation
Indices: 52253832--52253912 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
52253822 AATAGTCTGG
52253832 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* *
52253858 TACAC--ACGT-GACCT-CAC-TATCTAA
1 TACACGTA-GTAG-CCTGCACTTA-GTAC
52253882 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
52253908 TACAC
1 TACAC
52253913 ACGTGATCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
23 2 0.05
24 12 0.28
25 10 0.23
26 17 0.40
27 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:52261731 original size:15 final size:15
Alignment explanation
Indices: 52261711--52261750 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
52261701 CTATCTTCTA
52261711 TCCTCAACTCAAATT
1 TCCTCAACTCAAATT
52261726 TCCTCAACTCAAATT
1 TCCTCAACTCAAATT
52261741 TCCTC-ACTCA
1 TCCTCAACTCA
52261751 TTTTCACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.30, C:0.38, G:0.00, T:0.33
Consensus pattern (15 bp):
TCCTCAACTCAAATT
Found at i:52263024 original size:21 final size:21
Alignment explanation
Indices: 52262977--52263024 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
52262967 AAATTAAAGA
* *
52262977 TCACATATAATTTCTATGGGC
1 TCACATATAATCTCTACGGGC
* *
52262998 TTACATATAATCTCTACGTGC
1 TCACATATAATCTCTACGGGC
52263019 TCACAT
1 TCACAT
52263025 TACAATTCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (21 bp):
TCACATATAATCTCTACGGGC
Found at i:52265255 original size:28 final size:28
Alignment explanation
Indices: 52265215--52265269 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
52265205 AGCATGCAGT
* ** *
52265215 AACAGTCTAGGCCTTAGCCCTATACAGA
1 AACAGTATAGGCCCAAGCCCAATACAGA
*
52265243 AACAGTATGGGCCCAAGCCCAATACAG
1 AACAGTATAGGCCCAAGCCCAATACAG
52265270 TATCAGTACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (28 bp):
AACAGTATAGGCCCAAGCCCAATACAGA
Found at i:52265498 original size:27 final size:27
Alignment explanation
Indices: 52265437--52265513 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
52265427 CCAGAAACAT
* * *
52265437 TGAATGTGGCAAAGGCACCAGTATCAG
1 TGAATGTGGCATAGCCACCAGTATCAA
52265464 T-AATTGTGGCATAGCCACCAGTATCAA
1 TGAA-TGTGGCATAGCCACCAGTATCAA
* *
52265491 TGAATGTGACATAGTCACCAGTA
1 TGAATGTGGCATAGCCACCAGTA
52265514 CAGTACTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 39 0.91
28 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
TGAATGTGGCATAGCCACCAGTATCAA
Found at i:52265712 original size:26 final size:26
Alignment explanation
Indices: 52265655--52265714 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
52265645 GGGCATACTT
52265655 ATCATTTTACCCTACAAGGGCATTAC
1 ATCATTTTACCCTACAAGGGCATTAC
* *
52265681 AGTCATTTTACCCTATAAGGG-ATTATG
1 A-TCATTTTACCCTACAAGGGCATTA-C
52265708 ATCATTT
1 ATCATTT
52265715 CTATCCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (26 bp):
ATCATTTTACCCTACAAGGGCATTAC
Found at i:52268966 original size:26 final size:26
Alignment explanation
Indices: 52268935--52268995 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
52268925 ATAAGAACCA
*
52268935 TAATCAGGAAGTTCACAAAGA-ACTTT
1 TAATCAGGAAGCTCACAAAGAGA-TTT
*
52268961 TAATCAGGAAGCTCACGAAGAGATTT
1 TAATCAGGAAGCTCACAAAGAGATTT
52268987 TAATCAGGA
1 TAATCAGGA
52268996 GCTTCAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAGATTT
Found at i:52272095 original size:41 final size:40
Alignment explanation
Indices: 52272038--52272117 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
52272028 AGGTTTTTAC
*
52272038 ACACGGGCTAGGACACGGGCGTGT-CATGGCCGTGTGAAGG
1 ACACGGGCAAGGACACGGGCGTGTCCA-GGCCGTGTGAAGG
*
52272078 ACACGGGCCAAGGACACGGGTGTGTGCCAGGCCGTGTGAA
1 ACACGGG-CAAGGACACGGGCGTGT-CCAGGCCGTGTGAA
52272118 AACCCCTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 7 0.20
41 15 0.43
42 11 0.31
43 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.41, T:0.14
Consensus pattern (40 bp):
ACACGGGCAAGGACACGGGCGTGTCCAGGCCGTGTGAAGG
Found at i:52272261 original size:21 final size:20
Alignment explanation
Indices: 52272236--52272275 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
52272226 GTTGAAATGG
*
52272236 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
52272257 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
52272276 ATTTCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:52275564 original size:37 final size:37
Alignment explanation
Indices: 52275523--52275679 Score: 208
Period size: 37 Copynumber: 4.2 Consensus size: 37
52275513 GGTAGGTTAA
52275523 CTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAG
1 CTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAG
* * *
52275560 CTCTTATGAGCATTTGGCGTGTTATCAGGTGGATTAG
1 CTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAG
* *
52275597 CTCTTATGAGCATTTGGCATGTTATTGGA-TGGATTAT
1 CTCTTATGAGCATTTGGCATGTTA-TGAAGTGGATTAG
* * ** *
52275634 CTCTTATGAGCATTTGGCGTTTTATTCAGTGGTTTAG
1 CTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAG
52275671 CTCTTATGA
1 CTCTTATGA
52275680 TTGATTGGCG
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
36 2 0.02
37 101 0.97
38 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.41
Consensus pattern (37 bp):
CTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAG
Found at i:52275688 original size:74 final size:74
Alignment explanation
Indices: 52275497--52275679 Score: 246
Period size: 74 Copynumber: 2.5 Consensus size: 74
52275487 ATACTCCCTG
* * * *
52275497 ATTTGGTGTGATATCGGGTAGG-TTAACTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAGC
1 ATTTGGCGTGTTATCAGGT-GGATTAGCTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAGC
52275561 TCTTATGAGC
65 TCTTATGAGC
* *
52275571 ATTTGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCATGTTATTGGA-TGGATTATC
1 ATTTGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCATGTTA-TGAAGTGGATTAGC
52275635 TCTTATGAGC
65 TCTTATGAGC
* *
52275645 ATTTGGCGTTTTATTCA-GTGGTTTAGCTCTTATGA
1 ATTTGGCGTGTTA-TCAGGTGGATTAGCTCTTATGA
52275680 TTGATTGGCG
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
73 2 0.02
74 90 0.92
75 6 0.06
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (74 bp):
ATTTGGCGTGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCATGTTATGAAGTGGATTAGCT
CTTATGAGC
Found at i:52278527 original size:47 final size:47
Alignment explanation
Indices: 52278455--52278679 Score: 303
Period size: 47 Copynumber: 4.8 Consensus size: 47
52278445 ATGTATCATA
* * *
52278455 AGCCAGTGTAAGA-CATGTTTTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATG-TCTGGGACATGGCATCGACT-TGAGATG-TG
*
52278502 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
* * * * *
52278549 AGTCAGTGTATGACCATGTTTGGGACATGGCTTCGATTTGAGATGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
* *
52278596 AGCCAATGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
52278643 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
52278680 ACTTTACCTA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 145 0.92
48 12 0.08
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTG
Found at i:52281153 original size:26 final size:26
Alignment explanation
Indices: 52281104--52281154 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
52281094 AATGGTAGTT
*
52281104 AAATGTTAAATTTATATGTTGTTATG
1 AAATGTTAAATTTATATGTGGTTATG
52281130 AAATGTTAGAATTTATAT-TGGTTAT
1 AAATGTTA-AATTTATATGTGGTTAT
52281155 TACTAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (26 bp):
AAATGTTAAATTTATATGTGGTTATG
Found at i:52289482 original size:26 final size:25
Alignment explanation
Indices: 52289433--52289485 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
52289423 AATGGTAGTT
52289433 AAATGTTAAATTTATATGATGTTATG
1 AAATGTTAAATTTATATGA-GTTATG
52289459 AAATGTTAGAATTTATATTG-GTTATG
1 AAATGTTA-AATTTATA-TGAGTTATG
52289485 A
1 A
52289486 CTAAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.60
27 8 0.32
28 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (25 bp):
AAATGTTAAATTTATATGAGTTATG
Found at i:52295800 original size:25 final size:25
Alignment explanation
Indices: 52295766--52295815 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52295756 CTGTTGAAGC
52295766 TGTGATGGGTCAAAGAAGAAACAAA
1 TGTGATGGGTCAAAGAAGAAACAAA
52295791 TGTGATGGGTCAAAGAAGAAACAAA
1 TGTGATGGGTCAAAGAAGAAACAAA
52295816 GTGTTTCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (25 bp):
TGTGATGGGTCAAAGAAGAAACAAA
Found at i:52297801 original size:47 final size:47
Alignment explanation
Indices: 52297732--52297854 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
52297722 ATCCATAAGT
* *
52297732 GAACTCAGACTCAACTTAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
52297779 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
52297826 GAGCTCGGACTCAACTCAACGAGCTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
52297855 ACTCAAATAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52307581 original size:16 final size:16
Alignment explanation
Indices: 52307560--52307614 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
52307550 TGAATTACTT
52307560 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
52307576 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
52307592 AATACAGCTCTATTCC
1 ATTACAGCTCTATTCC
52307608 ATTACAG
1 ATTACAG
52307615 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:52312124 original size:122 final size:123
Alignment explanation
Indices: 52311907--52312152 Score: 422
Period size: 122 Copynumber: 2.0 Consensus size: 123
52311897 AAATGATACA
* * *
52311907 ATAAAAATAGATATGGAAGGTTAGTTCACTCTTTCTCCAAGGTTTTACCTGGATTGAAACATACT
1 ATAAAAAAAGATATGGAAGGTTAGTTCACTCTTTCTCCAAGGTTTTACCCGGATTAAAACATACT
*
52311972 CTAAAATATCAAAACTTCCTCCCAACCATAATTCCAAGAAGACAA-CTTTAATCTTAT
66 CTAAAATATCAAAACTTCCTCCCAACCATAATTCCAAGAAGACAACCTTAAATCTTAT
* *
52312029 ATAAAAAAATATATGGAAGGTTAGTTCACTCTTTCTCTAAGGTTTTACCCGGATTAAAACATACT
1 ATAAAAAAAGATATGGAAGGTTAGTTCACTCTTTCTCCAAGGTTTTACCCGGATTAAAACATACT
*
52312094 CTAAAATATCAAAATTTCCTCCCAACCATAATTCCAAGAAGACAACCTTAAATCTTAT
66 CTAAAATATCAAAACTTCCTCCCAACCATAATTCCAAGAAGACAACCTTAAATCTTAT
52312152 A
1 A
52312153 GAGTATCTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
122 104 0.90
123 12 0.10
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (123 bp):
ATAAAAAAAGATATGGAAGGTTAGTTCACTCTTTCTCCAAGGTTTTACCCGGATTAAAACATACT
CTAAAATATCAAAACTTCCTCCCAACCATAATTCCAAGAAGACAACCTTAAATCTTAT
Found at i:52314213 original size:102 final size:103
Alignment explanation
Indices: 52314084--52314770 Score: 352
Period size: 104 Copynumber: 6.5 Consensus size: 103
52314074 TTTGAAAGTA
* *
52314084 ATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTTAGTGTTTTATGAATTA
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTTATG-ATTA
*
52314149 ATATTAATGTAAA-ATTT-TTTTAAAAAAAATTATAGTT
65 ATATGAATGTAAATATTTATTTTAAAAAAAATTATAGTT
* * **
52314186 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTCAGTTTAGTGTTTTGTGATTTT
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTTATGATTAA
* * ** **
52314251 TATGAATGTAAATTTTTTATTTTTAATTATTTTATAGTT
66 TATGAATGTAAA-TATTTATTTTAAAAAAAATTATAGTT
* * * * * **
52314290 ATTCTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTGTTTAGTTTAGTTTTTTGTGATTTT
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTTATGATTAA
* ** * * **
52314355 TCATGAATGTAATTATTTTTTTTGTATTTTTAAAATTATTTGAAAGAC
66 T-ATGAATGTAA--A----TATT-TA-TTTTAAAAAAAATT-ATAGTT
* * * * * * * *
52314403 ATTTTGATAGTAATTTATGGTTAGGTTATAAATTGTTTGTATTTAATTTAATGTTTATTGTGATT
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTG-TT-TTATGA-T
** * * ** ** * *
52314468 TTTTATGAATGTAAAATTTTTTGTTTTTTTTAATTATTTGAAAGTT
63 TAATATGAATGT-AAA--TATT-TATTTTAAAAAAAATT-ATAGTT
* * * * * *
52314514 ATTTTATTAGTAATTTCTGATTAGGTTATAAATTATTTGTATTTAGTTTA-TTTTATTGTGATT-
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTT-TTATGATTA
** * ** ** *
52314577 -T-TTTAT-T-AAT-TTAATTTTTTAAATTATTTTGAAGTT
65 ATATGAATGTAAATATTTATTTTAAAAAAAATTAT--AGTT
* * * *
52314613 ATTTTGTTAGTAATTTATTATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTAATGTGACC
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTT--TATGA-T
** * * * * ** ** *
52314678 TGTTATAAATGTAATTTTTTGTGTTTTTTAAATTATTTTAAAGTT
63 TAATATGAATGTAA--ATAT-T-TATTTTAAAAAAAATTATAGTT
*
52314723 ATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTT-TGTTTAGTTTA
1 ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTA
52314771 ATGTGTATTG
Statistics
Matches: 479, Mismatches: 74, Indels: 58
0.78 0.12 0.09
Matches are distributed among these distances:
98 11 0.02
99 53 0.11
100 4 0.01
101 19 0.04
102 59 0.12
103 3 0.01
104 78 0.16
105 16 0.03
106 2 0.00
107 2 0.00
108 13 0.03
109 13 0.03
110 44 0.09
111 64 0.13
112 26 0.05
113 48 0.10
114 3 0.01
115 14 0.03
116 7 0.01
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (103 bp):
ATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTTATGATTAA
TATGAATGTAAATATTTATTTTAAAAAAAATTATAGTT
Found at i:52314549 original size:45 final size:45
Alignment explanation
Indices: 52314499--52314651 Score: 121
Period size: 45 Copynumber: 3.2 Consensus size: 45
52314489 TGTTTTTTTT
* *
52314499 AATTATTTGAAAGTTATTTTATTAGTAATTTCTGATTAGGTTATA
1 AATTATTTGAAAGTTATTTTATTAGTAATTTATTATTAGGTTATA
* * ** *
52314544 AATTATTTGTATTTAGTTTATTTTATT-GTGATTTTTTATTAATTTAATTTTTTA
1 AATTATTTG-A--AAG-TTATTTTATTAGT-A--ATTTATT-A-TT-AGGTTATA
*
52314598 AATTATTTTG-AAGTTATTTTGTTAGTAATTTATTATTAGGTTATA
1 AATTA-TTTGAAAGTTATTTTATTAGTAATTTATTATTAGGTTATA
52314643 AATTATTTG
1 AATTATTTG
52314652 TGTTTAGTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
44 4 0.05
45 19 0.23
46 3 0.04
47 1 0.01
48 10 0.12
49 11 0.13
50 10 0.12
51 8 0.10
52 1 0.01
53 2 0.02
54 10 0.12
55 4 0.05
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (45 bp):
AATTATTTGAAAGTTATTTTATTAGTAATTTATTATTAGGTTATA
Found at i:52314579 original size:224 final size:218
Alignment explanation
Indices: 52314057--52314817 Score: 738
Period size: 210 Copynumber: 3.5 Consensus size: 218
52314047 TTTTTATAAA
* * *
52314057 TGTTATTTTTTAAATTATTTGAAAGTAATTTTGTTAATAATTTATGATTAGGTTATAAATTGTTT
1 TGTT-TTTTTT-AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTT
* * * ** * **
52314122 GTATTTAGTTTAGTGTT-TTATGAATTAATATTAATGTAA--AATTTTTTT-A-----AAAAAAA
63 GTGTTTAGTTTA-TTTTATTGTG-ATTTTTA-TAATGTAATTATTTTTTTTGATTTTTAAAATTA
* ** * *
52314178 TTAT--AGTTATTTTGTTAATAATTTATGATTAGGTTATAAATTATTTGTGTTCAGTTTAGTG-T
125 TTTTGAAGACATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTT
52314240 T-TTGTGATTTTTATGAATGTAAA--TTT
190 TATTGTGATTTTTATGAATGTAAATTTTT
* * *
52314266 T-TTATTTTTAATTATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGT
1 TGTTTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAA-TTTTTGT
52314330 GTTTAGTTTAGTTTT-TTGTGATTTTTCATGAATGTAATTATTTTTTTTGTATTTTTAAAATTA-
65 GTTTAGTTTA-TTTTATTGTGATTTTT-AT-AATGTAATTATTTTTTTTG-ATTTTTAAAATTAT
* * * * * *
52314393 TTTGAAAGACATTTTGATAGTAATTTATGGTTAGGTTATAAATTGTTTGTATTTAATTTAATGTT
126 TTTG-AAGACATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTT
52314458 TATTGTGATTTTTTATGAATGTAAAATTTTT
190 TATTGTGA-TTTTTATGAATGT-AAATTTTT
* * *
52314489 TGTTTTTTTTAATTATTTGAAAGTTATTTTATTAGTAATTTCTGATTAGGTTATAAATTATTTGT
1 TGTTTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTTGT
* * *
52314554 ATTTAGTTTATTTTATTGTGATTTTT-T-AT-T-A--A-----TTTAATTTTTTAAATTATTTTG
65 GTTTAGTTTATTTTATTGTGATTTTTATAATGTAATTATTTTTTTTGATTTTTAAAATTATTTTG
** * *
52314608 AAGTTATTTTGTTAGTAATTTATTATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTAATG
130 AAGACATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTATTG
* * *
52314673 TGACCTGTTATAAATGT-AATTTTT
195 TGA-TTTTTATGAATGTAAATTTTT
*
52314697 TGTGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTT-T
1 TGT-TTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTGT
*
52314761 GTTTAGTTTAATGTGTATTGTGATTTGTTATAATGTAATTTTATTTGTTTTTGATTT
65 GTTTAGTTT-AT-TTTATTGTGATTT-TTATAATGTAA--TTATTT-TTTTTGATTT
52314818 ATTTGATAAT
Statistics
Matches: 454, Mismatches: 55, Indels: 71
0.78 0.09 0.12
Matches are distributed among these distances:
205 5 0.01
206 72 0.16
207 16 0.04
208 25 0.06
209 65 0.14
210 83 0.18
211 8 0.02
212 2 0.00
213 1 0.00
214 3 0.01
215 5 0.01
216 1 0.00
217 47 0.10
218 4 0.01
219 7 0.02
220 15 0.03
221 3 0.01
222 1 0.00
223 10 0.02
224 81 0.18
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.57
Consensus pattern (218 bp):
TGTTTTTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTGTG
TTTAGTTTATTTTATTGTGATTTTTATAATGTAATTATTTTTTTTGATTTTTAAAATTATTTTGA
AGACATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGT
GATTTTTATGAATGTAAATTTTT
Found at i:52314596 original size:99 final size:100
Alignment explanation
Indices: 52314492--52314802 Score: 353
Period size: 99 Copynumber: 3.0 Consensus size: 100
52314482 AATTTTTTGT
* * *
52314492 TTTTTTTAATTATTTGAAAGTTATTTTATTAGTAATTTCTGATTAGGTTATAAATTATTTGTATT
1 TTTTTTTAATTATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
52314557 TAGTTTAT-TTTATTGTGATTTTTTATTAATTTAA
66 TAGTTTATGTTTATTGTGATTTTTTATTAATTTAA
* *
52314591 TTTTTTAAATTATTTTG-AAGTTATTTTGTTAGTAATTTATTATTAGGTTATAAATTATTTGTGT
1 TTTTTTTAATTA-TTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGT
* ** **
52314655 TTAGTTTAGTGTTTAATGTGACCTGTTATAAATGTAATTTTTTG
65 TTAGTTTA-TGTTTATTGTGA--T-TT-TTTAT-TAA--TTTAA
*
52314699 TGTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTT-TG
1 T-TTTTTT-AATTATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTG
* * *
52314762 TTTAGTTTAATGTGTATTGTGATTTGTTA-TAATGTAA
64 TTTAGTTT-ATGTTTATTGTGATTTTTTATTAATTTAA
52314799 TTTT
1 TTTT
52314803 ATTTGTTTTT
Statistics
Matches: 177, Mismatches: 21, Indels: 28
0.78 0.09 0.12
Matches are distributed among these distances:
99 65 0.37
100 8 0.05
101 9 0.05
102 3 0.02
103 1 0.01
104 3 0.02
105 5 0.03
106 4 0.02
108 24 0.14
109 12 0.07
110 43 0.24
ACGTcount: A:0.27, C:0.01, G:0.13, T:0.59
Consensus pattern (100 bp):
TTTTTTTAATTATTTGAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTT
TAGTTTATGTTTATTGTGATTTTTTATTAATTTAA
Found at i:52314705 original size:110 final size:107
Alignment explanation
Indices: 52314591--52314812 Score: 338
Period size: 110 Copynumber: 2.0 Consensus size: 107
52314581 ATTAATTTAA
* *
52314591 TTTTTTAAATTATTTTGAAGTTATTTTGTTAGTAATTTATTATTAGGTTATAAATTATTTGTGTT
1 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTT-TGTT
* *
52314656 TAGTTTAGTGTTTAATGTGACCTGTTATAAATGTAATTTT-TTGTG
64 TAGTTTAATGTGTAATGTGACCTGTTAT-AATGTAATTTTATT-TG
52314701 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTTTA
1 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTTTA
* **
52314766 GTTTAATGTGTATTGTGATTTGTTATAATGTAATTTTATTTG
66 GTTTAATGTGTAATGTGACCTGTTATAATGTAATTTTATTTG
52314808 TTTTT
1 TTTTT
52314813 GATTTATTTG
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
107 18 0.17
108 29 0.28
109 3 0.03
110 54 0.52
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.59
Consensus pattern (107 bp):
TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTTTA
GTTTAATGTGTAATGTGACCTGTTATAATGTAATTTTATTTG
Found at i:52317929 original size:15 final size:15
Alignment explanation
Indices: 52317909--52317940 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52317899 TATAGGATTG
*
52317909 AATGAAAAGGAAGTA
1 AATGAAAAAGAAGTA
52317924 AATGAAAAAGAAGTA
1 AATGAAAAAGAAGTA
52317939 AA
1 AA
52317941 CTTGTAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (15 bp):
AATGAAAAAGAAGTA
Found at i:52336360 original size:40 final size:40
Alignment explanation
Indices: 52336250--52336448 Score: 244
Period size: 40 Copynumber: 5.0 Consensus size: 40
52336240 GATGATAACT
* * * * *
52336250 GGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCC
* *
52336290 GGGCTAAG-CCCGAAGGCAATT-GTGCAAGTTATTATATCC
1 GGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCC
52336329 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
* *
52336369 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
* *
52336409 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCC
52336449 AGTTGAATTC
Statistics
Matches: 141, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.23
40 108 0.77
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
Found at i:52339388 original size:15 final size:15
Alignment explanation
Indices: 52339340--52339423 Score: 68
Period size: 15 Copynumber: 5.7 Consensus size: 15
52339330 CAAAGATAAC
*
52339340 AAGAAAACT-GAATA
1 AAGAAACCTAGAATA
*
52339354 AAGAAATCCAAG-ATA
1 AAGAAA-CCTAGAATA
*
52339369 GAGAAACCTAGAATA
1 AAGAAACCTAGAATA
52339384 AAGAAATCC-AGAATA
1 AAGAAA-CCTAGAATA
* *
52339399 AAGAGATCC-AGGATA
1 AAGA-AACCTAGAATA
52339414 AAGAAACCTA
1 AAGAAACCTA
52339424 AGATACGATA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
14 13 0.23
15 39 0.70
16 4 0.07
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAACCTAGAATA
Found at i:52339415 original size:30 final size:30
Alignment explanation
Indices: 52339340--52339428 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
52339330 CAAAGATAAC
*
52339340 AAGAAAACT-GAATAAAGAAATCCAAGATA
1 AAGAAACCTAGAATAAAGAAATCCAAGATA
*
52339369 GAGAAACCTAGAATAAAGAAATCC-AGAATA
1 AAGAAACCTAGAATAAAGAAATCCAAG-ATA
* *
52339399 AAGAGATCC-AGGATAAAGAAA-CCTAAGATA
1 AAGA-AACCTAGAATAAAGAAATCC-AAGATA
52339429 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
29 11 0.22
30 34 0.68
31 5 0.10
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.13
Consensus pattern (30 bp):
AAGAAACCTAGAATAAAGAAATCCAAGATA
Found at i:52342413 original size:46 final size:45
Alignment explanation
Indices: 52342346--52342520 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52342336 TGTAACCCGC
*
52342346 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * *
52342392 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* *** * * *
52342438 ACATCTCTCGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
*
52342485 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
52342521 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:52342462 original size:93 final size:93
Alignment explanation
Indices: 52342354--52342525 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
52342344 GCCCATAAGT
* * * * *
52342354 GAACTCGGACTCAACTCAACGAGGTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
52342419 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
52342447 GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
52342512 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52342526 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52342976 original size:30 final size:30
Alignment explanation
Indices: 52342942--52342998 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
52342932 CCAAAATCAT
52342942 ATTTTGGCAAAATTACAATTTTGCCCCTAA
1 ATTTTGGCAAAATTACAATTTTGCCCCTAA
* * * *
52342972 ATTTTTGCATATTTACACTTTTGCCCC
1 ATTTTGGCAAAATTACAATTTTGCCCC
52342999 AAAGCTCGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (30 bp):
ATTTTGGCAAAATTACAATTTTGCCCCTAA
Found at i:52345357 original size:40 final size:40
Alignment explanation
Indices: 52345249--52345447 Score: 253
Period size: 40 Copynumber: 5.0 Consensus size: 40
52345239 GATGATAATT
* * *
52345249 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCC
* *
52345289 GGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATATCT
1 GGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCC
*
52345328 GGGCTAAGTCCCGAAGGCATTCGTACGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
* *
52345368 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
* *
52345408 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCC
52345448 AGTCAAGCTA
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 34 0.24
40 106 0.76
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
Done.