Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 153 of 356
Found at i:49245493 original size:39 final size:40
Alignment explanation
Indices: 49245376--49245560 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
49245366 GCTACTCGTT
* *
49245376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
49245416 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
49245456 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
49245495 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
49245536 CAAA-GCCTTCTGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49245561 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49253438 original size:79 final size:82
Alignment explanation
Indices: 49253320--49253504 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
49253310 GCTACTCGTT
* * *
49253320 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49253383 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49253400 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49253463 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49253480 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49253505 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49253504 original size:40 final size:40
Alignment explanation
Indices: 49253301--49253504 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49253291 TGGAATTTAA
** *
49253301 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49253341 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49253381 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49253420 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49253460 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49253500 CCGGA
1 CCGGA
49253505 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49255351 original size:79 final size:81
Alignment explanation
Indices: 49255242--49255424 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
49255232 TACTCGTTCA
* *
49255242 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
49255305 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
49255322 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
49255385 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
49255401 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49255425 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:49255424 original size:40 final size:40
Alignment explanation
Indices: 49255221--49255424 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
49255211 CGGAATTTAA
** *
49255221 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49255261 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49255301 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49255340 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49255380 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49255420 CCGGA
1 CCGGA
49255425 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49261524 original size:40 final size:40
Alignment explanation
Indices: 49261471--49261653 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
49261461 TCGCACAGGA
* * * * *
49261471 CCTTCAGGTCTTAGCCCGGATTTGGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
49261511 CCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
49261551 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
49261591 CCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
49261631 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
49261654 CATTCAAATA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49269569 original size:40 final size:40
Alignment explanation
Indices: 49269524--49269707 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
49269514 ACTCGCACAG
* * *
49269524 GCCTTCGGGTCTTAGCCCGGTTATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
49269564 GCCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
49269604 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
49269644 GTCTTCGGATTTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
49269684 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49269708 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:49286749 original size:40 final size:40
Alignment explanation
Indices: 49286704--49286887 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
49286694 ACTCGCACAG
* * *
49286704 GCCTTCGGGTCTTAGCCCGGTTATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
49286744 GCCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
49286784 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
49286824 GTCTTCGGATTTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
49286864 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49286888 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:49288735 original size:8 final size:7
Alignment explanation
Indices: 49288703--49288744 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
49288693 GAAAATTTAA
49288703 TAAAAA-
1 TAAAAAT
*
49288709 TAACAAT
1 TAAAAAT
* *
49288716 GAAAAAA
1 TAAAAAT
49288723 TAAAAAT
1 TAAAAAT
49288730 TAAAAAT
1 TAAAAAT
49288737 TAAAAAT
1 TAAAAAT
49288744 T
1 T
49288745 CTATGTCATC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAAAAT
Found at i:49292241 original size:46 final size:46
Alignment explanation
Indices: 49292185--49292360 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
49292175 TATTTGGGCA
*
49292185 TCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
49292231 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
49292276 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
49292324 CCCGAGCTCGTTGATTTGAGTCTGATTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49292361 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49292343 original size:93 final size:93
Alignment explanation
Indices: 49292181--49292353 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
49292171 AGGATATTTG
* * * *
49292181 GGCATCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
49292246 TTGAGTCTGAGTTCGTGAAATGTAACTA
66 TTGAGTCTGAGTTCGTGAAATGTAACTA
* *
49292274 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
*
49292339 TTGAGTCTGATTTCG
66 TTGAGTCTGAGTTCG
49292354 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCTGAGTTCGTGAAATGTAACTA
Found at i:49300631 original size:89 final size:89
Alignment explanation
Indices: 49300513--49300686 Score: 296
Period size: 89 Copynumber: 2.0 Consensus size: 89
49300503 TTATTTATTT
*
49300513 AGATCAAGATAAACCACAATTGAACTTAAATCAAGGAAAAGCTGAAGCTTCGAATTAGTTCAACT
1 AGATCAAGATAAACCACAATTGAACTTAAATCAAGGAAAAGCTAAAGCTTCGAATTAGTTCAACT
*
49300578 CTACTACTACAATCCTAGTTATCG
66 CTACTACTACAACCCTAGTTATCG
* *
49300602 AGATCAAGATAAACCACAATT-AGACTTAAATCAAGGGAAAGCTAAAGCTTCGAATTAGTTCGAC
1 AGATCAAGATAAACCACAATTGA-ACTTAAATCAAGGAAAAGCTAAAGCTTCGAATTAGTTCAAC
49300666 TCTACTACTACAACCCTAGTT
65 TCTACTACTACAACCCTAGTT
49300687 GTTGAGGTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 1 0.01
89 79 0.99
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (89 bp):
AGATCAAGATAAACCACAATTGAACTTAAATCAAGGAAAAGCTAAAGCTTCGAATTAGTTCAACT
CTACTACTACAACCCTAGTTATCG
Found at i:49302035 original size:12 final size:12
Alignment explanation
Indices: 49302018--49302046 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49302008 CAATGAGTTG
49302018 CACGGCCTAGCA
1 CACGGCCTAGCA
49302030 CACGGCCTAGCA
1 CACGGCCTAGCA
49302042 CACGG
1 CACGG
49302047 GCATGTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:49306434 original size:39 final size:39
Alignment explanation
Indices: 49306380--49306505 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
49306370 TTCAGTGATG
*
49306380 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
49306419 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
49306458 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
49306497 TATTTCCGG
1 TATATCCGG
49306506 GCTAAAGTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:49306519 original size:39 final size:39
Alignment explanation
Indices: 49306380--49306523 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
49306370 TTCAGTGATG
* *
49306380 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
49306419 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
49306458 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
49306497 TATTTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
49306524 TCGAGCTAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
38 5 0.05
39 92 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:49318196 original size:27 final size:26
Alignment explanation
Indices: 49318148--49318207 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
49318138 GCGAGGCTAC
*
49318148 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49318175 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
49318201 CAGATAT
1 CAGATAT
49318208 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49328667 original size:31 final size:29
Alignment explanation
Indices: 49328627--49328693 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
49328617 ATCCCGAAAT
*
49328627 TATACATGAACTATAGTTTACTGTGCAATTG
1 TATACATGAACTATAATTT--TGTGCAATTG
* * *
49328658 TATATATGAACTTTAATTTTGTGCAATTT
1 TATACATGAACTATAATTTTGTGCAATTG
49328687 TATACAT
1 TATACAT
49328694 AAAATTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.48
31 16 0.52
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (29 bp):
TATACATGAACTATAATTTTGTGCAATTG
Found at i:49328928 original size:29 final size:31
Alignment explanation
Indices: 49328848--49328930 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
49328838 AAATCAAAAT
* * *
49328848 TAAAGTTTCAAGTATACATTTGAACCACAAT
1 TAAAGTTTCAAGTATACAATTGCACCACAAC
* * *
49328879 TAAAGTTTCACGTGTATAATTGCACCA-AAC
1 TAAAGTTTCAAGTATACAATTGCACCACAAC
*
49328909 TAAAG-TTCATGTATACAATTGC
1 TAAAGTTTCAAGTATACAATTGC
49328931 GCATTAAATC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 14 0.33
30 7 0.16
31 22 0.51
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (31 bp):
TAAAGTTTCAAGTATACAATTGCACCACAAC
Found at i:49330734 original size:720 final size:711
Alignment explanation
Indices: 49329213--49330976 Score: 2064
Period size: 720 Copynumber: 2.4 Consensus size: 711
49329203 TTACCACCCA
* * * *
49329213 AGTAACTTAAAACGTGTGATTATTCTACAATTTTGTAATATATATAAATAAAAAAATTAAACAAG
1 AGTAACTTAACACGTGTGATAATTCTACAATTTT-TTA-ATATATAAATAAAAAAATTAAACTA-
*
49329278 AAATTTTGAAATTAATTTAATATGATGTTTAATTTAATAAAACTTAATTTGGATAACAATAATAT
63 AAATTTTGAAATTAATTTAATATGAT-TTTAATTTAATAAAACATAATTTGGATAACAAT-A-AT
**** * * *
49329343 TAAAATGAAATAAAATCACAATTTTTTTGTATTTTATATTTCAAAATTTTCATGACTTTTTGGCT
125 TAAAATGAAATAAAAT-A-AA----AAAATATTTTATATTTTAGAATTTTCATGATTTTTTGGCT
* * **
49329408 CGTTTTAAGCCATCAAAACTCTATGCTCACTCAAATATTTTCTGGTTTTAAGAATATTAAATTAA
184 CGTTTTAAGCCATCAAAACTCTATGCTCATTCAAATATTTTC-CGTTTTAAGAATATTATTTTAA
* * *
49329473 AGGTAAAATGTAATTCTAAAACTAGAATATTCGTTTCATCAGAAAA-AAGTAACCAAAAGTTTTT
248 AGGT-GAATGTGATTCTAAAACTAGAA-ATTCGTTTCAT--GAAAACAA-TCACCAAAAGTTTTT
* * *
49329537 AGGAATCAAAACATTGAAAATTGTCAAAACTTGCTCAGAATTTCTAAGTTTTCTATTTCAAGTAG
308 AGGAATCAAAACATTGAAAATCGTCAAAACTTGCTCAAAATTTCTAAGTTTCCTATTTCAAGTAG
* *
49329602 GCTACTTTGGGAAATTAGTTCATCTAAGACAGAACTCAATTTGGCTAGAAAAACAAACCAATGGG
373 GCTACTTTGGGAAATTAGTTCATCTAAGACAGAACTCAATTTGGCTAGAAAAACAAACCAATAGA
**
49329667 AAGATCACATTTCATACGACAGAAATCACAGAAATCATTTAAAGTTCGACAAGAATGGGAAACAA
438 AAGATCACATTTCATA--AC---AA-CACAGAAATCATTTAAAGTTCGACAAGAATAAGAAACAA
49329732 TAGATGGTTTTAAAAAGCCTTAAATGTAGTTACCCAAATATGTTGAAAGCCTTAAGTTTGAGTTT
497 TAGATGGTTTTAAAAAGCCTTAAATGTAGTTACCCAAATATGTTGAAAGCCTTAAGTTTGAGTTT
* * * *
49329797 TCAACTTAGGTTTCAATTTAGTTTTCGATTTGGAGTTTTAGATTCGGTGTCGGTTTGGGCTTTCA
562 TCAACTTAGGTTTCAATTTAGTTTTCGATTTGGAATTTTAAATTCAGTGTCGGTTTGAGCTTTCA
** ** **
49329862 CTTTCAGTTTTGATTTTAGGGTCTGGATTTGGTTTCCATTTGAGTTTTCGATACCAAGGCATTTC
627 CACTCAGTTTCAATTTTAGGGTCTGGATTTGGTTTCCATTTGAGGCTTCGATACCAAGGCATTTC
* *
49329927 GATTGTGCAATAACCTATAG
692 GATTGTGCAAAAACCTACAG
* * * *
49329947 AGTAATTTAACACGTGTGATAATT-TTCAATTTTGTAATATATAAATAAAAAAATTGAACTAAAA
1 AGTAACTTAACACGTGTGATAATTCTACAATTTTTTAATATATAAATAAAAAAATTAAACT-AAA
49330011 ATTTTGAAATTAATTTAATATGACTTTTAATTTAATAAAACATAATTTGGATAACAATAATTCGA
65 ATTTTGAAATTAATTTAATATGA-TTTTAATTTAATAAAACATAATTTGGATAACAATAATT--A
*
49330076 AAATGAAATAAAATAAAAAAATATTTTATATTTTAGAATTTTCATGATTTTTTGGCTCATTTTAA
127 AAATGAAATAAAATAAAAAAATATTTTATATTTTAGAATTTTCATGATTTTTTGGCTCGTTTTAA
*
49330141 GCCATCAAAACTCTATACTCATTCAAATATTTTCCAGTTTTAAGAATATTATTTTAAAGGTCGAA
192 GCCATCAAAACTCTATGCTCATTCAAATATTTTCC-GTTTTAAGAATATTATTTTAAAGGT-GAA
49330206 TGTGATTCTAAAACTAGAAATTCCGTTTCATGAAAACTAATCACCAAAAGCCTAAGATTTT-GGT
255 TGTGATTCTAAAACTAGAAATT-CGTTTCATGAAAAC-AATCACCAAAAG--T----TTTTAGG-
** * * ** * * * * *
49330270 GCTTAAAATATT-ACAAATCGTCGTAATTTGCTCAAAATTTTTAGGTTTCCTGTTTCAATTAGGC
311 AATCAAAACATTGA-AAATCGTCAAAACTTGCTCAAAATTTCTAAGTTTCCTATTTCAAGTAGGC
** * * *
49330334 TACTTTGGGAGCTTAGTTCATCTAAGATAGAATTCGATTTGGCTAGAAAAACAAACCAATAGAAA
375 TACTTTGGGAAATTAGTTCATCTAAGACAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAA
* * * * *
49330399 GATCGCATTTCAT-AC-A-ACAGAAATCATTTAACGTTCGACTAGAATAAGAAATAGTAGATGGT
440 GATCACATTTCATAACAACACAGAAATCATTTAAAGTTCGACAAGAATAAGAAACAATAGATGGT
* * **
49330461 TTTAAAACA-CCTTAAATGTA-TATA-CTAAATATGTTGAAAGCCTTAAGTTTGGGTTTTTGACT
505 TTTAAAA-AGCCTTAAATGTAGT-TACCCAAATATGTTGAAAGCCTTAAGTTTGAGTTTTCAACT
* *
49330523 TAGGTTTTAGTTTAGTTTTC-AGTTTGGAATTTTAAATTCAGTGTCGGTTTGAGCTTTCACACTC
568 TAGGTTTCAATTTAGTTTTCGA-TTTGGAATTTTAAATTCAGTGTCGGTTTGAGCTTTCACACTC
* * * * **
49330587 AGTTTCAATTTT-GGGTTTTGGATTTTGTTTCTATTTGGGGCTTCGATTTCAAGGCATTTC-AGT
632 AGTTTCAATTTTAGGG-TCTGGATTTGGTTTCCATTTGAGGCTTCGATACCAAGGCATTTCGA-T
* *
49330650 TGTGCAAAAACTTACCG
695 TGTGCAAAAACCTACAG
* * *
49330667 AGTAACTTAACACGTGTTATAATTCTACAATTTTTTAATATATAAATTAAAAAATTCAACTAAAA
1 AGTAACTTAACACGTGTGATAATTCTACAATTTTTTAATATATAAATAAAAAAATTAAACTAAAA
* *
49330732 TTTTTGAAAATTAATGTAATATGATTTTAATTTAAT-AAACATAATTTAGATAACAATAAAATTA
66 -TTTTG-AAATTAATTTAATATGATTTTAATTTAATAAAACATAATTTGGATAACAAT--AATTA
* * * *
49330796 AAAAGAAATAATATAAAAAAATTGTATTTTATATTTTAGAATTTTCATGATTATTTGG-TCCGCT
127 AAATGAAATAAAATAAAAAAA---TATTTTATATTTTAGAATTTTCATGATTTTTTGGCT-CGTT
* ** * *
49330860 TTAAGCTATCAAAACTCTATGCTTGTTCAAATATTTTTCGATTTTAAGAATATTATTTTAATGGT
188 TTAAGCCATCAAAACTCTATGCTCATTCAAATATTTTCCG-TTTTAAGAATATTATTTTAAAGGT
*
49330925 GAAATGTGACTCTAAAACTAGAAAATTCGTTTCATGAAAACCAATCACCAAA
252 G-AATGTGATTCTAAAACTAG-AAATTCGTTTCATGAAAA-CAATCACCAAA
49330977 TGTAATGCCC
Statistics
Matches: 896, Mismatches: 100, Indels: 79
0.83 0.09 0.07
Matches are distributed among these distances:
719 5 0.01
720 215 0.24
721 109 0.12
722 24 0.03
723 139 0.16
724 18 0.02
725 125 0.14
726 1 0.00
727 2 0.00
729 8 0.01
730 124 0.14
731 94 0.10
732 3 0.00
733 8 0.01
734 21 0.02
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (711 bp):
AGTAACTTAACACGTGTGATAATTCTACAATTTTTTAATATATAAATAAAAAAATTAAACTAAAA
TTTTGAAATTAATTTAATATGATTTTAATTTAATAAAACATAATTTGGATAACAATAATTAAAAT
GAAATAAAATAAAAAAATATTTTATATTTTAGAATTTTCATGATTTTTTGGCTCGTTTTAAGCCA
TCAAAACTCTATGCTCATTCAAATATTTTCCGTTTTAAGAATATTATTTTAAAGGTGAATGTGAT
TCTAAAACTAGAAATTCGTTTCATGAAAACAATCACCAAAAGTTTTTAGGAATCAAAACATTGAA
AATCGTCAAAACTTGCTCAAAATTTCTAAGTTTCCTATTTCAAGTAGGCTACTTTGGGAAATTAG
TTCATCTAAGACAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATTTCATAAC
AACACAGAAATCATTTAAAGTTCGACAAGAATAAGAAACAATAGATGGTTTTAAAAAGCCTTAAA
TGTAGTTACCCAAATATGTTGAAAGCCTTAAGTTTGAGTTTTCAACTTAGGTTTCAATTTAGTTT
TCGATTTGGAATTTTAAATTCAGTGTCGGTTTGAGCTTTCACACTCAGTTTCAATTTTAGGGTCT
GGATTTGGTTTCCATTTGAGGCTTCGATACCAAGGCATTTCGATTGTGCAAAAACCTACAG
Found at i:49344184 original size:16 final size:16
Alignment explanation
Indices: 49344163--49344232 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
49344153 TTTGGTTCGC
* *
49344163 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
49344179 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
49344195 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
49344211 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
49344227 TGTAAT
1 TGTAAT
49344233 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:49344265 original size:45 final size:44
Alignment explanation
Indices: 49344211--49344305 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
49344201 GGAATAGAGG
* *
49344211 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
49344256 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
49344300 TGTAAT
1 TGTAAT
49344306 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:49344488 original size:18 final size:17
Alignment explanation
Indices: 49344467--49344501 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49344457 TTATTATTTA
*
49344467 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49344485 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49344502 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49344495 original size:28 final size:27
Alignment explanation
Indices: 49344425--49344497 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
49344415 TTTATTATCA
*
49344425 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
49344453 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
49344480 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
49344498 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:49344670 original size:47 final size:46
Alignment explanation
Indices: 49344604--49344770 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
49344594 TTAATTAAAA
*
49344604 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
49344651 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
49344696 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
49344742 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
49344771 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:49344692 original size:26 final size:28
Alignment explanation
Indices: 49344663--49344734 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
49344653 TATGAATTTG
*
49344663 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
49344689 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
49344717 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
49344735 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:49344930 original size:22 final size:22
Alignment explanation
Indices: 49344902--49344946 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49344892 ACTAAGCTTG
49344902 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
49344924 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
49344946 A
1 A
49344947 GTTAAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:49351460 original size:6 final size:6
Alignment explanation
Indices: 49351449--49351484 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
49351439 TAATTAGTTA
49351449 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
49351485 CAAAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTC
Found at i:49352833 original size:36 final size:36
Alignment explanation
Indices: 49352792--49352863 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
49352782 TTACTTGAGA
49352792 AAGGAAATCCACCATACACATTAGGACTTGAAATTT
1 AAGGAAATCCACCATACACATTAGGACTTGAAATTT
49352828 AAGGAAATCCACCATACACATTAGGACTTGAAATTT
1 AAGGAAATCCACCATACACATTAGGACTTGAAATTT
49352864 CACCACATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (36 bp):
AAGGAAATCCACCATACACATTAGGACTTGAAATTT
Found at i:49353047 original size:15 final size:15
Alignment explanation
Indices: 49353029--49353070 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
49353019 AAAGTCCAGA
49353029 ATAAGGAAATCCAAT-
1 ATAAGGAAATCC-ATG
*
49353044 ATAAAGAAATCCATG
1 ATAAGGAAATCCATG
49353059 ATAAGGAAATCC
1 ATAAGGAAATCC
49353071 CATTACAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCATG
Found at i:49361417 original size:23 final size:22
Alignment explanation
Indices: 49361366--49361417 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
49361356 CCTCGTCTTT
*
49361366 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
49361388 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
49361411 TTCTTTT
1 TTCTTTT
49361418 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:49361432 original size:18 final size:18
Alignment explanation
Indices: 49361411--49361449 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49361401 TTTCTTCAAC
* *
49361411 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
49361429 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
49361447 TTC
1 TTC
49361450 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:49367752 original size:63 final size:63
Alignment explanation
Indices: 49367661--49367795 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
49367651 CGTCTGCCTG
* * * * * * * *
49367661 TGTGGTCTTAAATTTTAAAAAGTGAGTCACACGGCCTGGACACACACTAGTGTCTCTAGCCCA
1 TGTGGTCCTAAATTGTAAAAAGTAAGTCACAAGACCTGGACACACACCAGTGTCCCTAACCCA
* * *
49367724 TGTGGTCCTATATTGTAAACAGTAAGTCACAAGACCTGGACACACGCCAGTGTCCCTAACCCA
1 TGTGGTCCTAAATTGTAAAAAGTAAGTCACAAGACCTGGACACACACCAGTGTCCCTAACCCA
*
49367787 TGTGATCCT
1 TGTGGTCCT
49367796 TATCTTGTGC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (63 bp):
TGTGGTCCTAAATTGTAAAAAGTAAGTCACAAGACCTGGACACACACCAGTGTCCCTAACCCA
Found at i:49368528 original size:27 final size:26
Alignment explanation
Indices: 49368498--49368575 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
49368488 GATTAAAACG
* *
49368498 AAGAAAAATTAAGAATTGAAAATGGAA
1 AAGAAAAATAAAGAATAGAAAATGG-A
* * *
49368525 AAGAAAAA-CAAGAAAAGAACAATAGA
1 AAGAAAAATAAAGAATAGAA-AATGGA
49368551 AAGAAAAATAAACGAATAGAAAATG
1 AAGAAAAATAAA-GAATAGAAAATG
49368576 ATGACAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 17 0.41
27 17 0.41
28 7 0.17
ACGTcount: A:0.68, C:0.04, G:0.17, T:0.12
Consensus pattern (26 bp):
AAGAAAAATAAAGAATAGAAAATGGA
Found at i:49379576 original size:11 final size:11
Alignment explanation
Indices: 49379560--49379600 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
49379550 TCACAAAATG
49379560 ATTTTGTGAAA
1 ATTTTGTGAAA
*
49379571 ATTTTGTCAAA
1 ATTTTGTGAAA
49379582 ATTTTGTTTGAAA
1 ATTTTG--TGAAA
49379595 ATTTTG
1 ATTTTG
49379601 ACGTTTGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (11 bp):
ATTTTGTGAAA
Found at i:49380740 original size:48 final size:48
Alignment explanation
Indices: 49380688--49380855 Score: 158
Period size: 48 Copynumber: 3.5 Consensus size: 48
49380678 GAGTATTGAT
* * *
49380688 ATCCCATGTAAGACCATATCTGGGATATGGCATCGACATTGATAAGAG
1 ATCCCATATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAG
* ** ** * * *
49380736 ATCCCGTATAAGATGACGTCTAGGACATGGCATCGGCA-TCAGTATGAG
1 ATCCCATATAAGACCATATCTGGGATATGGCATCGGCATTGA-TATGAG
* * * *
49380784 ATCTCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAG
1 ATCCCATATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAG
* * *
49380832 GTCCCGTATAAGACCATGTCTGGG
1 ATCCCATATAAGACCATATCTGGG
49380856 GCATGGTATC
Statistics
Matches: 90, Mismatches: 28, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
47 2 0.02
48 87 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (48 bp):
ATCCCATATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAG
Found at i:49390868 original size:26 final size:26
Alignment explanation
Indices: 49390839--49390947 Score: 68
Period size: 26 Copynumber: 4.1 Consensus size: 26
49390829 CCTTTATCCC
*
49390839 TTTTAAGATTATTTATA-ACTTA-TTTA
1 TTTTAA-ATTATATATATA-TTATTTTA
*
49390865 TTTTAAATTGTATATATATTATTTTA
1 TTTTAAATTATATATATATTATTTTA
*
49390891 TTTTAATATAAATATATGTATTATATATTTTA
1 TTTTAA-AT---TATATATA-TAT-TATTTTA
49390923 TTTT--ATTATATACT-TA-TATTTTA
1 TTTTAAATTATATA-TATATTATTTTA
49390946 TT
1 TT
49390948 ATATTACTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
23 9 0.13
25 13 0.19
26 22 0.32
27 3 0.04
29 2 0.03
30 6 0.09
31 3 0.04
32 11 0.16
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTAAATTATATATATATTATTTTA
Found at i:49391134 original size:18 final size:18
Alignment explanation
Indices: 49391088--49391135 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
49391078 ACATTATTAC
*
49391088 ATATTATTATTATCTATT
1 ATATTATTATTTTCTATT
49391106 ATA-TATATATTTTC-ATGT
1 ATATTAT-TATTTTCTAT-T
49391124 ATATTATTATTT
1 ATATTATTATTT
49391136 ACATTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 18 0.69
19 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
ATATTATTATTTTCTATT
Found at i:49391146 original size:18 final size:17
Alignment explanation
Indices: 49391088--49391142 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
49391078 ACATTATTAC
49391088 ATATTATTA-TTATCTATT
1 ATATTATTATTTA-C-ATT
*
49391106 ATA-TATATATTTTCATGT
1 ATATTAT-TATTTACAT-T
49391124 ATATTATTATTTACATT
1 ATATTATTATTTACATT
49391141 AT
1 AT
49391143 TATTTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.26
18 18 0.58
19 5 0.16
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATATTATTATTTACATT
Found at i:49395790 original size:28 final size:28
Alignment explanation
Indices: 49395727--49395852 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
49395717 ATATTAAGTC
*
49395727 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49395754 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49395782 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49395810 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49395839 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49395853 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49403718 original size:28 final size:28
Alignment explanation
Indices: 49403655--49403780 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
49403645 ATATTAAGTC
*
49403655 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49403682 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49403710 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49403738 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49403767 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49403781 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49411650 original size:28 final size:28
Alignment explanation
Indices: 49411587--49411712 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
49411577 ATATTAAGTC
*
49411587 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49411614 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
49411642 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
49411670 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
49411699 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49411713 CAATCTCATG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.24
28 49 0.54
29 19 0.21
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49418858 original size:50 final size:49
Alignment explanation
Indices: 49418733--49418921 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
49418723 TAGCCAAAGC
* * *
49418733 TATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
49418782 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
49418832 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
49418883 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
49418922 TGCGACCTCA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 41 0.34
50 46 0.38
51 35 0.29
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:49418920 original size:101 final size:99
Alignment explanation
Indices: 49418734--49418921 Score: 286
Period size: 99 Copynumber: 1.9 Consensus size: 99
49418724 AGCCAAAGCT
* * * *
49418734 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
49418799 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
49418833 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATA
49418898 GTAGCCTGCACTTAGTACTACACA
64 GTAGCCTGCACTTAGTACTACACA
49418922 TGCGACCTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 39 0.49
100 3 0.04
101 37 0.47
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:49418929 original size:101 final size:99
Alignment explanation
Indices: 49418734--49418929 Score: 284
Period size: 101 Copynumber: 2.0 Consensus size: 99
49418724 AGCCAAAGCT
* * * *
49418734 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
*
49418799 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * *
49418833 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATA
*
49418898 GTAGCCTGCACTTAGTACTACACATGCGACCT
64 GTAGCCTGCACTTAGTACTACACACGCGACCT
49418930 CACAATAGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 39 0.46
100 3 0.04
101 43 0.51
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:49420130 original size:28 final size:27
Alignment explanation
Indices: 49420075--49420159 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
49420065 AGCATGGCTG
* *
49420075 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
49420101 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
49420129 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
49420156 CCAG
1 CCAG
49420160 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.58
28 17 0.32
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:49429828 original size:21 final size:19
Alignment explanation
Indices: 49429799--49429842 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
49429789 TATTCATTTG
*
49429799 TTCATATTTCATTTGCACATA
1 TTCACATTTCATTT-C-CATA
*
49429820 TTCACATTTGATTTCCATA
1 TTCACATTTCATTTCCATA
49429839 TTCA
1 TTCA
49429843 TCACATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (19 bp):
TTCACATTTCATTTCCATA
Found at i:49430090 original size:42 final size:42
Alignment explanation
Indices: 49430005--49430121 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 42
49429995 CGAAAAGCTC
* * * * * *
49430005 ATACAATGCCAATGTCCCAGGCGTGGTCTTACATGTAATCAA
1 ATACGATGCCGATATCCCAGACTTGGTCTTACATGTAACCAA
49430047 ATATCGATGCC-ATTATCCCAGACTT-GTCTTACAT-TAAACCAA
1 ATA-CGATGCCGA-TATCCCAGACTTGGTCTTACATGT-AACCAA
*
49430089 ATACGATGCCGATGTCCCAGACTTGGTCTTACA
1 ATACGATGCCGATATCCCAGACTTGGTCTTACA
49430122 CATAAATCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 19 0.30
42 30 0.47
43 15 0.23
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATACGATGCCGATATCCCAGACTTGGTCTTACATGTAACCAA
Found at i:49430151 original size:44 final size:42
Alignment explanation
Indices: 49430062--49430163 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 42
49430052 GATGCCATTA
* * * *
49430062 TCCCAGACTT-GTCTTACATTAAACCAAATACGATGCCGATG
1 TCCCAGACTTGGTCTTACAATAAACCAAATACGATGACAACG
49430103 TCCCAGACTTGGTCTTACACATAAATCTCAAAT-CGATGACAACG
1 TCCCAGACTTGGTCTTACA-ATAAA-C-CAAATACGATGACAACG
49430147 TCCCAGA-TGTGGTCTTA
1 TCCCAGACT-TGGTCTTA
49430164 TATGATATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 10 0.19
42 8 0.15
43 5 0.10
44 24 0.46
45 5 0.10
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCCAGACTTGGTCTTACAATAAACCAAATACGATGACAACG
Found at i:49435932 original size:33 final size:34
Alignment explanation
Indices: 49435866--49435933 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
49435856 AACAGTGCAT
* * * *
49435866 ACAGTAACAGTTTGGGCCTGAGCCTTATTCAGTA
1 ACAGTAACAGTCTGGGCCTGAACCCTATACAGTA
*
49435900 ACAGT-ACAGTCTGGGCCTTAACCCTATACAGTA
1 ACAGTAACAGTCTGGGCCTGAACCCTATACAGTA
49435933 A
1 A
49435934 TGGTGTGGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTGAACCCTATACAGTA
Found at i:49436146 original size:27 final size:27
Alignment explanation
Indices: 49436116--49436172 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
49436106 AGCATAGTTG
*
49436116 CCAGAAAT-AGTAAGTGTGGCAAAGCTA
1 CCAG-AATCAGTAAGTGTGGCAAAGCCA
* * *
49436143 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAATCAGTAAGTGTGGCAAAGCCA
49436170 CCA
1 CCA
49436173 ATAACAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CCAGAATCAGTAAGTGTGGCAAAGCCA
Found at i:49436180 original size:27 final size:27
Alignment explanation
Indices: 49436124--49436180 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
49436114 TGCCAGAAAT
* * *
49436124 AGTAAGTGTGGCAAAGCTACCAGTATC
1 AGTAAGTGTGGCAAAGCCACCAATAAC
* *
49436151 AGTAATTGTGGCATAGCCACCAATAAC
1 AGTAAGTGTGGCAAAGCCACCAATAAC
49436178 AGT
1 AGT
49436181 GAATATGACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
AGTAAGTGTGGCAAAGCCACCAATAAC
Found at i:49436558 original size:27 final size:27
Alignment explanation
Indices: 49436344--49436569 Score: 265
Period size: 27 Copynumber: 8.4 Consensus size: 27
49436334 AGGGCTACTC
* * * *
49436344 GTCATTTTGCCATACAGGGGTA-TCCAA
1 GTCATTTTACCCTACAGGGGTATTAC-G
* *
49436371 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
49436398 ATCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
*
49436425 GTCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
49436452 GTCATTTTACCTTAGAAGGCTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
49436479 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
49436506 ATCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
49436533 GTTATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
49436560 GTTATTTTAC
1 GTCATTTTAC
49436570 TAATTTTGGG
Statistics
Matches: 170, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 168 0.99
28 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:49441786 original size:40 final size:40
Alignment explanation
Indices: 49441668--49441884 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
49441658 AAGCCAAGTA
* * * * *
49441668 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
49441707 CCTTCGGGACATAGCCCGG-TATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49441746 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49441786 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
49441826 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
49441866 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49441885 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 45 0.28
40 113 0.71
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49443797 original size:48 final size:48
Alignment explanation
Indices: 49443741--49444044 Score: 275
Period size: 48 Copynumber: 6.4 Consensus size: 48
49443731 TGTCATAAGC
* **
49443741 CATGGTCTTACACTAGCTCTCTTCTCAATGCTAATGCCATGTCCCAGA
1 CATGGTCTTACACTAGCTCTCTTATCAATGCCGATGCCATGTCCCAGA
*
49443789 CATGGTCTTACACTAGCTCTC--ATAATATGGCCGATGCCATGTCCCAGA
1 CATGGTCTTACACTAGCTCTCTTATCA-AT-GCCGATGCCATGTCCCAGA
* * * * * *
49443837 CATGGTCTTTCACTAGCGCACATATCAATGCCGATGTCATGTCTCAGA
1 CATGGTCTTACACTAGCTCTCTTATCAATGCCGATGCCATGTCCCAGA
* *
49443885 CATGGTCTTACACTGGCTCT-TATATC-GTGGCCGATGCCATGTCCCAGA
1 CATGGTCTTACACTAGCTCTCT-TATCAAT-GCCGATGCCATGTCCCAGA
* * *
49443933 CATGGTCTTACACT-G-GCTCATAGTCAACGCCGATGCCATGT-CCA-A
1 CATGGTCTTACACTAGCTCTCTTA-TCAATGCCGATGCCATGTCCCAGA
* ** ** * *
49443978 CCTGGTCTTACACTAGCTCTAATAT-GGTGGCCGACGCCATGTCCCAAA
1 CATGGTCTTACACTAGCTCTCTTATCAAT-GCCGATGCCATGTCCCAGA
* *
49444026 CACGGTCTTACACTCGCTC
1 CATGGTCTTACACTAGCTC
49444045 ACATATCACC
Statistics
Matches: 210, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
45 14 0.07
46 23 0.11
47 27 0.13
48 141 0.67
49 2 0.01
50 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGGTCTTACACTAGCTCTCTTATCAATGCCGATGCCATGTCCCAGA
Found at i:49443916 original size:96 final size:94
Alignment explanation
Indices: 49443741--49444052 Score: 369
Period size: 96 Copynumber: 3.3 Consensus size: 94
49443731 TGTCATAAGC
* * * * **
49443741 CATGGTCTTACACTAGCTCTCTTCTCAATGCTAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 CATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGT-CCAGACATGGTCTTACACTAGC
* *
49443806 TCTCATAATATGGCCGATGCCATGTCCCAGA
65 TCTAAT-ATGTGGCCGATGCCATGTCCCAGA
* * *
49443837 CATGGTCTTTCACTAGCGCACATATCAATGCCGATGTCATGTCTCAGACATGGTCTTACACTGGC
1 CATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTC-CAGACATGGTCTTACACTAGC
*
49443902 TCTTATATCGTGGCCGATGCCATGTCCCAGA
65 TCTAATAT-GTGGCCGATGCCATGTCCCAGA
* * *
49443933 CATGGTCTTACACT-G-GCTCATAGTCAACGCCGATGCCATGTCCA-ACCTGGTCTTACACTAGC
1 CATGGTCTTACACTAGCGCACATA-TCAATGCCGATGCCATGTCCAGACATGGTCTTACACTAGC
* *
49443995 TCTAATATGGTGGCCGACGCCATGTCCCAAA
65 TCTAATAT-GTGGCCGATGCCATGTCCCAGA
* * *
49444026 CACGGTCTTACACTCGCTCACATATCA
1 CATGGTCTTACACTAGCGCACATATCA
49444053 CCCAAATGTC
Statistics
Matches: 187, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
93 56 0.30
94 12 0.06
95 26 0.14
96 93 0.50
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCAGACATGGTCTTACACTAGCT
CTAATATGTGGCCGATGCCATGTCCCAGA
Found at i:49454026 original size:47 final size:47
Alignment explanation
Indices: 49453973--49454393 Score: 601
Period size: 47 Copynumber: 9.0 Consensus size: 47
49453963 TTAGGATTTT
*
49453973 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49454020 ATGTGATGAATGTGAGCATGCATATGTGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
49454067 ATGTGGTGAATATGAACATGCATTTATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49454114 ATGTGATGAATGTGAACATACATATATGTGATGAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* * *
49454161 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49454208 ATGTGGTGAATTTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49454255 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49454302 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49454349 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
49454394 TAGCGTGAAA
Statistics
Matches: 331, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
46 2 0.01
47 327 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49454226 original size:141 final size:141
Alignment explanation
Indices: 49453972--49454393 Score: 702
Period size: 141 Copynumber: 3.0 Consensus size: 141
49453962 TTTAGGATTT
*
49453972 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
* *
49454037 ATGCATATGTGTGAAAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATTTATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
49454102 GCCGAATGGCC
131 GCCGAATGGCC
*
49454113 TATGTGATGAATGTGAACATACATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
* * *
49454178 ATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATTTGAACATGCATATATGTGATGAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
49454243 GCCGAATGGCC
131 GCCGAATGGCC
* * *
49454254 AATGTGATAAATGTGAGCATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAG
* * *
49454318 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATGCGGTAA
65 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
*
49454383 AGCCGAATGGC
130 GGCCGAATGGC
49454394 TAGCGTGAAA
Statistics
Matches: 262, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
140 2 0.01
141 260 0.99
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:49454357 original size:25 final size:25
Alignment explanation
Indices: 49454282--49454357 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
49454272 ATGCATATAT
49454282 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
49454307 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
49454329 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
49454354 GTGA
1 GTGA
49454358 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:49454606 original size:37 final size:37
Alignment explanation
Indices: 49454556--49454670 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
49454546 GGAAATATAT
*
49454556 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49454593 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
49454630 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49454667 TCCG
1 TCCG
49454671 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49455998 original size:40 final size:40
Alignment explanation
Indices: 49455941--49456283 Score: 456
Period size: 40 Copynumber: 8.6 Consensus size: 40
49455931 GAGTGAAATG
* *
49455941 TCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
49455981 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
49456021 TCCGGACTAAGTTCCGAAGAGTATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
49456061 TCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGAAGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
49456101 TCCGGACTAAGTTCTGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
49456141 TCCAGG-CTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCC-GGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
49456181 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
** * * *
49456221 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
49456261 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
49456284 ATCATGCTGG
Statistics
Matches: 267, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.01
40 261 0.98
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:49460388 original size:47 final size:47
Alignment explanation
Indices: 49460335--49460755 Score: 610
Period size: 47 Copynumber: 9.0 Consensus size: 47
49460325 TTAGGATTTT
*
49460335 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49460382 ATGTGATGAATGTGAGCATGCATATGTGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49460429 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49460476 ATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* * *
49460523 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49460570 ATGTGGTGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49460617 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49460664 ATGTGATGAATGTGAGCATGCATATGTGTAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * ** * *
49460711 ATGTGGTGAATATGAATATGCATATATACGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
49460756 TAGTGTGAAA
Statistics
Matches: 334, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
46 2 0.01
47 330 0.99
48 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49460588 original size:141 final size:141
Alignment explanation
Indices: 49460334--49460763 Score: 702
Period size: 141 Copynumber: 3.0 Consensus size: 141
49460324 TTTAGGATTT
*
49460334 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
*
49460399 ATGCATATGTGTGAAAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
49460464 GCCGAATGGCC
131 GCCGAATGGCC
49460475 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
* * *
49460540 ATGCATATGTGTGATAAGGCCGAATGACCAATGTGGTGAATGTGAACATGCATATATGTGATGAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
49460605 GCCGAATGGCC
131 GCCGAATGGCC
* * *
49460616 AATGTGATAAATGTGAGCATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAG
* * ** *
49460680 CATGCATATGTGTAATAAGGCCGAATGGCCAATGTGGTGAATATGAATATGCATATATACGGTAA
65 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
*
49460745 AGCCGAATGG-C
130 GGCCGAATGGCC
49460756 TAGTGTGA
1 TA-TGTGA
49460764 AATATGTAGG
Statistics
Matches: 269, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
140 4 0.01
141 265 0.99
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:49460968 original size:37 final size:37
Alignment explanation
Indices: 49460918--49461032 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
49460908 GGAAATATAT
*
49460918 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49460955 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49460992 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49461029 TCCG
1 TCCG
49461033 AGCTAAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49464695 original size:12 final size:12
Alignment explanation
Indices: 49464678--49464707 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49464668 AAGCACATAG
*
49464678 CCGTGTCCTAGC
1 CCGTGTCCTACC
49464690 CCGTGTCCTACC
1 CCGTGTCCTACC
49464702 CCGTGT
1 CCGTGT
49464708 AACTCCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.43, G:0.23, T:0.27
Consensus pattern (12 bp):
CCGTGTCCTACC
Found at i:49465151 original size:25 final size:24
Alignment explanation
Indices: 49465123--49465169 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
49465113 TACCAACCAA
49465123 TACCAATC-ATATCAATACCAAAATG
1 TACCAATCAAT-TC-ATACCAAAATG
*
49465148 TACCATTCAATTCATACCAAAA
1 TACCAATCAATTCATACCAAAA
49465170 ACTCATAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (24 bp):
TACCAATCAATTCATACCAAAATG
Found at i:49481736 original size:50 final size:49
Alignment explanation
Indices: 49481586--49481789 Score: 232
Period size: 50 Copynumber: 4.1 Consensus size: 49
49481576 NNNNNNNNNN
* * *
49481586 GCTACTACGTGTACC-CAT-ATTGGTCGCATGTGTAGTACTAAGTGCAG
1 GCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTGCAG
* * * *
49481633 GCTACTATGTGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGTAG
1 GCTACTACGTGTACCAGATAA-TT-GGTCACGTGTGTAGTACTAAGTGCAG
** ** * *
49481684 GCTACTACGTGTATTAGATGGTTAGGTCATGTGTGTAGTACTTAGTGCAG
1 GCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTACTAAGTGCAG
* *
49481734 GCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCAG
1 GCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTGCAG
49481783 GCTACTA
1 GCTACTA
49481790 TGCATACCAG
Statistics
Matches: 128, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
47 14 0.11
48 2 0.02
49 30 0.23
50 45 0.35
51 37 0.29
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
GCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTGCAG
Found at i:49485573 original size:24 final size:24
Alignment explanation
Indices: 49485546--49485643 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
49485536 AAGGCTGTCA
49485546 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
49485570 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
49485594 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
49485618 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
49485643 G
1 G
49485644 AGCAGGATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49485622 original size:48 final size:48
Alignment explanation
Indices: 49485545--49485653 Score: 166
Period size: 48 Copynumber: 2.2 Consensus size: 48
49485535 AAAGGCTGTC
* * *
49485545 AGGAGAAGATTTAGGAGCTGATAAGGGAGAGGATTTAGGAGCTGAT-A
1 AGGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
49485592 AGGGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
1 A-GGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
49485641 AGGAGCAGGATTT
1 AGGAG-AGGATTT
49485654 GGCTGGCCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.02
48 46 0.82
49 9 0.16
ACGTcount: A:0.36, C:0.06, G:0.38, T:0.21
Consensus pattern (48 bp):
AGGAGAGGATTTAGGAGCTGATAAAGGAGAAGATTTAGGAGCTGATCA
Found at i:49493567 original size:48 final size:48
Alignment explanation
Indices: 49493508--49493666 Score: 192
Period size: 48 Copynumber: 3.3 Consensus size: 48
49493498 TATGTGCGCT
* *
49493508 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * ** * * *
49493556 AGTGTAAGACCATGTTTGGAATATGGCATCGGTGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* ** *
49493604 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACCTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
49493652 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
49493667 TTAAAACATG
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:49493676 original size:48 final size:47
Alignment explanation
Indices: 49493550--49493681 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 47
49493540 CCACGATATG
* **
49493550 AGAGCCAGTGTAAGACCATGTTTGGAATATGGCATCGGTGATGTTGT
1 AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGATCCTGT
* *
49493597 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CCTGT
1 -AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG--T-GATCCTGT
**
49493647 -GAGCCAGTGTAAGACCATGTTTAAAACATGGCATC
1 AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
49493682 AGCAATTCAC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 66 0.92
50 4 0.06
51 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGATCCTGT
Found at i:49493678 original size:96 final size:96
Alignment explanation
Indices: 49493508--49493681 Score: 267
Period size: 96 Copynumber: 1.8 Consensus size: 96
49493498 TATGTGCGCT
* *
49493508 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTTT
** *
49493573 GGAATATGGCATCGGTGATGTTGTGAGAGCC
66 AAAACATGGCATCGGTGATGTTGTGAGAGCC
* * * *
49493604 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACCTGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTTT
49493669 AAAACATGGCATC
66 AAAACATGGCATC
49493682 AGCAATTCAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGACATGAGAGCCAGTGTAAGACCATGTTT
AAAACATGGCATCGGTGATGTTGTGAGAGCC
Found at i:49494797 original size:39 final size:39
Alignment explanation
Indices: 49494754--49494840 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
49494744 CCAGAAATTA
49494754 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
* *
49494793 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
49494832 GCCTGCTAG
1 GCCTGCTAG
49494841 ACATTAAGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
Found at i:49496965 original size:46 final size:46
Alignment explanation
Indices: 49496915--49497084 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
49496905 TTGAGCATTC
49496915 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
49496961 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * *
49497008 AAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * *
49497054 GAGCTCATTGAGTTGATTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49497085 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 54 0.55
47 27 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:49504562 original size:46 final size:46
Alignment explanation
Indices: 49504506--49504678 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
49504496 TGGTTGAGCA
* *
49504506 TCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* * *
49504552 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T--G
* **
49504597 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
* * *
49504645 CCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49504679 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG
Found at i:49504662 original size:93 final size:93
Alignment explanation
Indices: 49504503--49504673 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
49504493 GGATGGTTGA
* *
49504503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
49504568 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCCGAGTTCGTGAAATGTAACTAG
* * * * *
49504596 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAGCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49504661 TGAGCCCGAGTTC
66 TGAGCCCGAGTTC
49504674 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAAATGTAACTAG
Found at i:49513432 original size:48 final size:47
Alignment explanation
Indices: 49513357--49513632 Score: 200
Period size: 48 Copynumber: 5.7 Consensus size: 47
49513347 TGATACGTGT
* *
49513357 GCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCACAATATGAGA
1 GCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCCACAATATGAGA
* * ** *** *
49513405 GCTAGTGTAAGACCACGTTTGGAACATGGCATTGGTGATGTTGTGAGA
1 GCTAGTGTAAGACCATGTTTGG-ACATGGCATCGGCCACAATATGAGA
* ** * ** *
49513453 GCCAGTGTAAGACCATGTCAAGGACATGGCATCAG-CATTGATATGTA-T
1 GCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCCA-CAATATG-AGA
* * *
49513501 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGA
1 GCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCCACAATATGAGA
* * * * *
49513549 GCCAGTGTAAGACCAGGTTTGGGACATGGCATCGGCCTCGACT-TGTGA
1 GCTAGTGTAAGACCATGTTT-GGACATGGCATCGGCCAC-AATATGAGA
*
49513597 GGC-AGTGTAAGACGATGTTTGGAACATGGCATCGGC
1 -GCTAGTGTAAGACCATGTTTGG-ACATGGCATCGGC
49513633 AATTCACTCT
Statistics
Matches: 181, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
47 8 0.04
48 165 0.91
49 8 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTTTGGACATGGCATCGGCCACAATATGAGA
Found at i:49513548 original size:96 final size:96
Alignment explanation
Indices: 49513448--49513629 Score: 233
Period size: 96 Copynumber: 1.9 Consensus size: 96
49513438 GGTGATGTTG
* * *
49513448 TGAGAGCCAGTGTAAGACCATGTCAAGGACATGGCATCAGCATTGA-TATGT-ATGCTAGTGTAA
1 TGAGAGCCAGTGTAAGACCAGGTCAAGGACATGGCATCAGCATCGACT-TGTGAGGC-AGTGTAA
*
49513511 GACCATGTCTGGGACATGGCATCAGCCACAACA
64 GACCATGTCTGGAACATGGCATCAGCCACAACA
*** * *
49513544 TGAGAGCCAGTGTAAGACCAGGTTTGGGACATGGCATCGGCCTCGACTTGTGAGGCAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCAGGTCAAGGACATGGCATCAGCATCGACTTGTGAGGCAGTGTAAGA
* *
49513609 CGATGTTTGGAACATGGCATC
66 CCATGTCTGGAACATGGCATC
49513630 GGCAATTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
96 69 0.95
97 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCAGGTCAAGGACATGGCATCAGCATCGACTTGTGAGGCAGTGTAAGA
CCATGTCTGGAACATGGCATCAGCCACAACA
Found at i:49513629 original size:144 final size:144
Alignment explanation
Indices: 49513347--49513614 Score: 380
Period size: 144 Copynumber: 1.9 Consensus size: 144
49513337 GACATTTGGG
* * * * *
49513347 TGATACGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCACAATATGAGAGCTAGTG
1 TGATACGTATGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACAACATGAGAGCCAGTG
* *
49513412 TAAGACCACGTTTGGAACATGGCATTGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTCAAGGA
66 TAAGACCACGTTTGGAACATGGCATCGGTGATCTTGTGAGAGCCAGTGTAAGACCATGTCAAGGA
49513477 CATGGCATCAGCAT
131 CATGGCATCAGCAT
* *
49513491 TGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTG
1 TGATACGTATGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACAACATGAGAGCCAGTG
* * *
49513556 TAAGACCAGGTTTGGGACATGGCATCGGCCTCGA-CTTGTGAG-G-CAGTGTAAGACGATGT
66 TAAGACCACGTTTGGAACATGGCATCGG--T-GATCTTGTGAGAGCCAGTGTAAGACCATGT
49513615 TTGGAACATG
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
144 98 0.90
145 1 0.01
146 8 0.07
147 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (144 bp):
TGATACGTATGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACAACATGAGAGCCAGTG
TAAGACCACGTTTGGAACATGGCATCGGTGATCTTGTGAGAGCCAGTGTAAGACCATGTCAAGGA
CATGGCATCAGCAT
Found at i:49532747 original size:30 final size:30
Alignment explanation
Indices: 49532711--49532771 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49532701 CATTTAATAC
*
49532711 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
49532741 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
49532771 A
1 A
49532772 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:49542277 original size:37 final size:37
Alignment explanation
Indices: 49542224--49542326 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
49542214 CGAATAGTCC
*
49542224 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
49542261 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
49542298 CCACACGTAGTCATCGGGTCTAACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
49542327 ATACATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.21
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:49542442 original size:48 final size:48
Alignment explanation
Indices: 49542371--49542695 Score: 533
Period size: 48 Copynumber: 6.8 Consensus size: 48
49542361 TGTTACAACA
*
49542371 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
49542419 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
49542467 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
49542515 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
49542563 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
49542611 TTCACATTCGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
49542659 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
49542696 ATTTATCTTG
Statistics
Matches: 257, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 257 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:49542488 original size:96 final size:96
Alignment explanation
Indices: 49542371--49542695 Score: 587
Period size: 96 Copynumber: 3.4 Consensus size: 96
49542361 TGTTACAACA
49542371 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
* *
49542436 GCTTTACCACATATACATATCTCATATATAT
66 GCTTTACCACATATACATATCACACATATAT
49542467 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
49542532 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
*
49542563 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
*
49542628 GCTTTACCACATACACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
* * *
49542659 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
49542696 ATTTATCTTG
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 222 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
GCTTTACCACATATACATATCACACATATAT
Found at i:49548279 original size:21 final size:22
Alignment explanation
Indices: 49548250--49548290 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49548240 AGTAAATGTT
*
49548250 ATTTATCTATCATCAAACATAC
1 ATTTATCTACCATCAAACATAC
*
49548272 ATTT-TCTACCATTAAACAT
1 ATTTATCTACCATCAAACAT
49548291 CAAAATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTTATCTACCATCAAACATAC
Found at i:49549340 original size:13 final size:13
Alignment explanation
Indices: 49549322--49549382 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
49549312 TATAACTGTT
49549322 TTCATATAATCGA
1 TTCATATAATCGA
*
49549335 TTCATATAAT-TA
1 TTCATATAATCGA
*
49549347 TTC-TATAAATCTA
1 TTCATAT-AATCGA
49549360 TTTCCATATAATCGA
1 -TT-CATATAATCGA
49549375 TTCATATA
1 TTCATATA
49549383 CCAAGTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 3 0.07
12 7 0.17
13 18 0.44
14 4 0.10
15 6 0.15
16 3 0.07
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (13 bp):
TTCATATAATCGA
Found at i:49549343 original size:40 final size:40
Alignment explanation
Indices: 49549299--49549382 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
49549289 AAACATTTTG
* *
49549299 TATAAACATT-TCATATAA-CTGTTTTCATATAATCGATTCA
1 TATAAACATTCT-ATA-AATCTATTTCCATATAATCGATTCA
**
49549339 TATAATTATTCTATAAATCTATTTCCATATAATCGATTCA
1 TATAAACATTCTATAAATCTATTTCCATATAATCGATTCA
49549379 TATA
1 TATA
49549383 CCAAGTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 2 0.05
40 35 0.92
41 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (40 bp):
TATAAACATTCTATAAATCTATTTCCATATAATCGATTCA
Found at i:49551876 original size:27 final size:27
Alignment explanation
Indices: 49551846--49552280 Score: 409
Period size: 27 Copynumber: 16.2 Consensus size: 27
49551836 AAAGTACTCC
*
49551846 TGATTTACAGAATTACTGTTTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
* * *
49551873 TGATTTTTAAAATTACCGTTTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
* *
49551900 CGATTTACAGAATTACTGTTTTACCC-
1 TGATTTATAGAATTACTGTTTTACCCT
* * *
49551926 TCAGTTTACAGAATTACCGTTTTACCCT
1 TGA-TTTATAGAATTACTGTTTTACCCT
* * *
49551954 CGATTTACAGAATTACCGTTTTACCC-
1 TGATTTATAGAATTACTGTTTTACCCT
*
49551980 TCAGTTTATAGAATTACTGTTTTACCCT
1 TGA-TTTATAGAATTACTGTTTTACCCT
* *
49552008 CGATTTATAGAATTACT-ATTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
49552034 TGATTTATAGAATTACTGTTTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
* * *
49552061 CGATTTGTAAAATTA-TCGTTTTACCCT
1 TGATTTATAGAATTACT-GTTTTACCCT
* **
49552088 CGATTTATAGAATTACCATTTTACCC-
1 TGATTTATAGAATTACTGTTTTACCCT
* * *
49552114 TCAGTTTACAGAATTACTATTTTACCCT
1 TGA-TTTATAGAATTACTGTTTTACCCT
* *
49552142 CGATTTATAGAATTACCGTTTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
* * * *
49552169 CGATTTGTAAAATTACCGTTTTACCCT
1 TGATTTATAGAATTACTGTTTTACCCT
* *
49552196 TGATTTACAGAATTACTGGTTTACCC-
1 TGATTTATAGAATTACTGTTTTACCCT
* * *
49552222 TCAGTTTACAAAATTA-TCGTTTTACCCT
1 TGA-TTTATAGAATTACT-GTTTTACCCT
** * *
49552250 CAATTTATAGAATTACCG-TTTCCCCT
1 TGATTTATAGAATTACTGTTTTACCCT
49552276 TGATT
1 TGATT
49552281 GTGAAATTAC
Statistics
Matches: 337, Mismatches: 58, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
26 41 0.12
27 292 0.87
28 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TGATTTATAGAATTACTGTTTTACCCT
Found at i:49551937 original size:81 final size:81
Alignment explanation
Indices: 49551849--49552280 Score: 481
Period size: 81 Copynumber: 5.4 Consensus size: 81
49551839 GTACTCCTGA
* * * * * *
49551849 TTTACAGAATTACTGTTTTACCCTTGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATT
49551914 ACTGTTTTACCCTCAG
66 ACTGTTTTACCCTCAG
* * * *
49551930 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAAT
1 TTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGA-TTTATAGAAT
49551994 TACTGTTTTACCCTC-G
65 TACTGTTTTACCCTCAG
* *
49552010 ATTTATAGAATTA-C-TATTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAA
1 -TTTATAGAATTACCGT-TTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAA
49552073 TTA-TCGTTTTACCCTC-G
64 TTACT-GTTTTACCCTCAG
* * * *
49552090 ATTTATAGAATTACCATTTTACCC-TCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAA
1 -TTTATAGAATTACCGTTTTACCCTTGA-TTTATAGAATTACTGTTTTACCCTCGATTTATAGAA
*
49552154 TTACCGTTTTACCCTC-G
64 TTACTGTTTTACCCTCAG
* * * * * *
49552171 ATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAA
1 -TTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGA-TTTATAGAA
*
49552235 TTA-TCGTTTTACCCTCAA
64 TTACT-GTTTTACCCTCAG
*
49552253 TTTATAGAATTACCG-TTTCCCCTTGATT
1 TTTATAGAATTACCGTTTTACCCTTGATT
49552281 GTGAAATTAC
Statistics
Matches: 307, Mismatches: 31, Indels: 27
0.84 0.08 0.07
Matches are distributed among these distances:
79 2 0.01
80 86 0.28
81 216 0.70
82 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (81 bp):
TTTATAGAATTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATT
ACTGTTTTACCCTCAG
Found at i:49551941 original size:54 final size:55
Alignment explanation
Indices: 49551847--49552270 Score: 505
Period size: 54 Copynumber: 7.9 Consensus size: 55
49551837 AAGTACTCCT
* * *
49551847 GATTTACAGAATTACTGTTTTACCCT-TGATTTTTAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
*
49551901 GATTTACAGAATTACTGTTTTACCCTCAG-TTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
* *
49551955 GATTTACAGAATTACCGTTTTACCCTCAG-TTTATAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
* * * *
49552009 GATTTATAGAATTACT-ATTTACCCT-TGATTTATAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
** * *
49552062 GATTTGTAAAATTA-TCGTTTTACCCTC-GATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACT-GTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
*
49552116 -AGTTTACAGAATTACTATTTTACCCTC-GATTTATAGAATTACCGTTTTACCCTC
1 GA-TTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
** * * * * * *
49552170 GATTTGTAAAATTACCGTTTTACCCT-TGATTTACAGAATTACTGGTTTACCCTC
1 GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
*
49552224 -AGTTTACAAAATTA-TCGTTTTACCCTCA-ATTTATAGAATTACCGTTT
1 GA-TTTACAGAATTACT-GTTTTACCCTCAGATTTATAGAATTACCGTTT
49552271 CCCCTTGATT
Statistics
Matches: 322, Mismatches: 36, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
52 2 0.01
53 47 0.15
54 270 0.84
55 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (55 bp):
GATTTACAGAATTACTGTTTTACCCTCAGATTTATAGAATTACCGTTTTACCCTC
Found at i:49552345 original size:54 final size:54
Alignment explanation
Indices: 49552285--49552480 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
49552275 TTGATTGTGA
* * ** *
49552285 AATTACTGGAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
49552339 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
49552393 AGTTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATATCTCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
49552447 AATTACCGAGATATCCTTGTAGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
49552481 ATTTTACCCC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 118 0.99
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:49552382 original size:81 final size:81
Alignment explanation
Indices: 49552294--49552478 Score: 228
Period size: 81 Copynumber: 2.3 Consensus size: 81
49552284 AAATTACTGG
* * *
49552294 AATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACC-CTTA
1 AATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCTC-TA
49552358 TAGGATAGAATTACCAA
65 TAGGATAGAATTACCAA
* * * * *
49552375 AATACCCCTGTAGGGTAGAGTTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATATCTCTGT
1 AATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCTCTAT
* *
49552440 AGGGTAGAATTACCGA
66 AGGATAGAATTACCAA
* * * *
49552456 GATATCCTTGTAGGGTAAAATTA
1 AATACCCCTGTAGGGTAGAATTA
49552479 CCATTTTACC
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 87 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (81 bp):
AATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCTCTAT
AGGATAGAATTACCAA
Found at i:49552480 original size:27 final size:27
Alignment explanation
Indices: 49552285--49552480 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
49552275 TTGATTGTGA
* * *
49552285 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
49552312 AATTTTCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
49552339 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
49552366 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
49552393 AGTTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
49552420 AAATACCGAAATA-TCTCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
* * *
49552447 AATTACCGAGATATCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
49552474 AATTACC
1 AATTACC
49552481 ATTTTACCCC
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 136 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:49552717 original size:27 final size:26
Alignment explanation
Indices: 49552679--49552761 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
49552669 CGGAGGAAGC
*
49552679 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
49552706 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
49552732 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
49552759 GTT
1 GTT
49552762 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:49552883 original size:22 final size:22
Alignment explanation
Indices: 49552849--49552907 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
49552839 CCCGTTATTA
* *
49552849 ATGGCTCTATGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
49552871 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
49552893 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
49552908 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:49553136 original size:27 final size:28
Alignment explanation
Indices: 49553075--49553140 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
49553065 GTGGGTTTGC
* *
49553075 CACATTATCTG-ATTCTGGTGGCTCTGG
1 CACAATATCTGTATTCTGGTGACTCTGG
* *
49553102 CCCAATATCTGTA-TCTGGTGACTCTGT
1 CACAATATCTGTATTCTGGTGACTCTGG
*
49553129 CACGATATCTGT
1 CACAATATCTGT
49553141 TCTAGCAGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (28 bp):
CACAATATCTGTATTCTGGTGACTCTGG
Found at i:49553272 original size:6 final size:6
Alignment explanation
Indices: 49553263--49553424 Score: 147
Period size: 6 Copynumber: 26.8 Consensus size: 6
49553253 TTGCATTCAC
* *
49553263 ATTCTG ATTCTG ATTCTG ATTCTG TTTCTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG
* *
49553311 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
49553360 ATTCTG ATTCTG -TTACTC ATAT-TG ATTCTG ATTCTA ATTTTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
49553408 ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
49553425 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 16, Indels: 26
0.75 0.09 0.15
Matches are distributed among these distances:
5 9 0.07
6 108 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:49553404 original size:30 final size:29
Alignment explanation
Indices: 49553267--49553424 Score: 173
Period size: 30 Copynumber: 5.4 Consensus size: 29
49553257 ATTCACATTC
*
49553267 TGATTCTGATTCTGATTCTGTTTCTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAAT-T
49553297 TGATTCTGATTCTGATTCTGTTAC-----
1 TGATTCTGATTCTGATTCTGTTACTAATT
*
49553321 TGATTCTGATTCTGATTCTGTCACCTAATT
1 TGATTCTGATTCTGATTCTGTTA-CTAATT
*
49553351 CTGATTCTGATTCTGATTCTGTTACTCATAT
1 -TGATTCTGATTCTGATTCTGTTACTAAT-T
* * *
49553382 TGATTCTGATTCTAATTTTGTTACTGATT
1 TGATTCTGATTCTGATTCTGTTACTAATT
*
49553411 CTGATTTTGATTCT
1 -TGATTCTGATTCT
49553425 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
24 22 0.20
25 1 0.01
29 1 0.01
30 64 0.58
31 23 0.21
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (29 bp):
TGATTCTGATTCTGATTCTGTTACTAATT
Found at i:49553406 original size:85 final size:85
Alignment explanation
Indices: 49553263--49553424 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 85
49553253 TTGCATTCAC
* *
49553263 ATTCTGATTCTGATTCTGATTCTGTTTCTAATATTGATTCTGATTCTGATTCTGTTACTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTAATTCTGTTACTGATTCT
49553328 GATTCTGATTCTGTCACCTA
66 GATTCTGATTCTGTCACCTA
* *
49553348 ATTCTGATTCTGATTCTGATTCTGTTACTCATATTGATTCTGATTCTAATTTTGTTACTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTAATTCTGTTACTGATTCT
*
49553413 GATTTTGATTCT
66 GATTCTGATTCT
49553425 CATTTTGGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTAATTCTGTTACTGATTCT
GATTCTGATTCTGTCACCTA
Found at i:49553442 original size:30 final size:30
Alignment explanation
Indices: 49553263--49553445 Score: 116
Period size: 30 Copynumber: 6.3 Consensus size: 30
49553253 TTGCATTCAC
* * * *
49553263 ATTCTGATTCTGATTCTGATTCTGTTTCTA
1 ATTCTGATTCTGATTCTAATTTTGTTACCA
* *
49553293 ATAT-TGATTCTGATTCTGATTCTGTT----
1 AT-TCTGATTCTGATTCTAATTTTGTTACCA
* * *
49553319 A--CTGATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTAATTTTGTTACC-A
* *
49553348 ATTCTGATTCTGATTCTGATTCTGTTACTC-
1 ATTCTGATTCTGATTCTAATTTTGTTAC-CA
**
49553378 ATAT-TGATTCTGATTCTAATTTTGTTACTG
1 AT-TCTGATTCTGATTCTAATTTTGTTACCA
* *
49553408 ATTCTGATTTTGATTCTCATTTTGGTT-CCA
1 ATTCTGATTCTGATTCTAATTTT-GTTACCA
49553438 ATTCTGAT
1 ATTCTGAT
49553446 AATGTTTCTT
Statistics
Matches: 130, Mismatches: 9, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
24 21 0.16
26 1 0.01
29 2 0.02
30 76 0.58
31 29 0.22
32 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTAATTTTGTTACCA
Found at i:49554397 original size:42 final size:42
Alignment explanation
Indices: 49554338--49554501 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
49554328 TTAGGGTTAC
*
49554338 TGAGATTACATGTAAGACTATATCTGGGATATGGCATCTATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCTATA
* * *
49554380 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCTATA
* * * * *
49554422 TGAGACTT-CGTGTAAGACCATAGCTGTGCTATTAGCAT-TGATA
1 TGAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCT-ATA
* *
49554465 CGAGATTACATGTAAGACCATATCTGAGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
49554502 TGGTACGGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 70 0.68
43 33 0.32
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCTATA
Found at i:49555268 original size:54 final size:54
Alignment explanation
Indices: 49555189--49555295 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
49555179 TTATTATTTT
49555189 CATGCAGACTTACTAAGCTATATAGCTTACCCCATATCTTTCCCATGTTTTATG
1 CATGCAGACTTACTAAGCTATATAGCTTACCCCATATCTTTCCCATGTTTTATG
** *
49555243 CATGCAGGTTTACTAAGCTATATAGCTTACCCCATTTCTTTCCCATGTTTTAT
1 CATGCAGACTTACTAAGCTATATAGCTTACCCCATATCTTTCCCATGTTTTAT
49555296 AGGATTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.39
Consensus pattern (54 bp):
CATGCAGACTTACTAAGCTATATAGCTTACCCCATATCTTTCCCATGTTTTATG
Found at i:49559149 original size:23 final size:22
Alignment explanation
Indices: 49559120--49559192 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
49559110 AGCTTACTAT
49559120 TTTCAGCTCATTGGAGCTTATCG
1 TTTCAGCTCATT-GAGCTTATCG
*
49559143 TTTCAGCTCGTATGAGCTTA-C-
1 TTTCAGCTCAT-TGAGCTTATCG
**
49559164 TATTCAGCTCGATAAAGCTTATCG
1 T-TTCAGCTC-ATTGAGCTTATCG
49559188 TTTCA
1 TTTCA
49559193 ACTTAGTGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 1 0.02
22 15 0.37
23 23 0.56
24 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (22 bp):
TTTCAGCTCATTGAGCTTATCG
Found at i:49559185 original size:45 final size:46
Alignment explanation
Indices: 49559102--49559192 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 46
49559092 AATATATCAA
**
49559102 CTCGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTATCGTTTCAG
1 CTCGTAAGAGCTTACTA-TTTCAGCTCATTAAAGCTTATCGTTTCAG
*
49559149 CTCGTATGAGCTTACTA-TTCAGCTCGA-TAAAGCTTATCGTTTCA
1 CTCGTAAGAGCTTACTATTTCAGCTC-ATTAAAGCTTATCGTTTCA
49559193 ACTTAGTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 23 0.57
46 1 0.03
47 16 0.40
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (46 bp):
CTCGTAAGAGCTTACTATTTCAGCTCATTAAAGCTTATCGTTTCAG
Found at i:49559240 original size:26 final size:26
Alignment explanation
Indices: 49559204--49559260 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
49559194 CTTAGTGGAA
49559204 CTTACTGTTCATTAGCTCAGGAGGAG
1 CTTACTGTTCATTAGCTCAGGAGGAG
49559230 CTTACTGTTCATTAGCTCAGGAGGAG
1 CTTACTGTTCATTAGCTCAGGAGGAG
49559256 CTTAC
1 CTTAC
49559261 CAATCATGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTACTGTTCATTAGCTCAGGAGGAG
Found at i:49559267 original size:26 final size:26
Alignment explanation
Indices: 49559212--49559267 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
49559202 AACTTACTGT
***
49559212 TCATTAGCTCAGGAGGAGCTTACTGT
1 TCATTAGCTCAGGAGGAGCTTACCAA
49559238 TCATTAGCTCAGGAGGAGCTTACCAA
1 TCATTAGCTCAGGAGGAGCTTACCAA
49559264 TCAT
1 TCAT
49559268 GACTCGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
TCATTAGCTCAGGAGGAGCTTACCAA
Found at i:49561958 original size:53 final size:54
Alignment explanation
Indices: 49561880--49562097 Score: 226
Period size: 54 Copynumber: 4.0 Consensus size: 54
49561870 TCAGGAACCT
* * * * * *
49561880 TTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
* *
49561934 TTGCCTTAT-GAACTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCC
* * * *
49561986 TTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
1 -TTTCCTTATAG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
*** * * *
49562042 TTTCCTTATAGAACTTTTCAATGCCATGCCTTGGCATGGTCTTGCATGATATCC
1 TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
49562096 TT
1 TT
49562098 ATCTTACCAA
Statistics
Matches: 139, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
52 3 0.02
53 42 0.30
54 47 0.34
55 44 0.32
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (54 bp):
TTTCCTTATAGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC
Found at i:49562090 original size:54 final size:54
Alignment explanation
Indices: 49561901--49562097 Score: 229
Period size: 55 Copynumber: 3.6 Consensus size: 54
49561891 AACTTACCAT
* * * * *
49561901 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
**
49561954 TGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGA-CATGGTCTTACATGATATCC-TTTCCTTATAG-AACTCATCAA
* * **
49562009 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTTTCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
* *
49562063 TGCCATGCCTTGGCATGGTCTTGCATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
49562098 ATCTTACCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.02
53 33 0.27
54 40 0.33
55 44 0.36
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAA
Found at i:49562354 original size:44 final size:44
Alignment explanation
Indices: 49562288--49562373 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
49562278 TATCCTTAAC
* * *
49562288 CATCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTT
1 CATCAATTCCTCATTAAATGCCATGGTA-CAACCATGGACTTTTT
* * *
49562332 CATCAATTCTTCATTCATTGCCATGGTACAACCATGGACTTT
1 CATCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTT
49562374 GAGATATCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (44 bp):
CATCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTTTT
Found at i:49568504 original size:39 final size:39
Alignment explanation
Indices: 49568461--49568538 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
49568451 TTAAACGTTG
*
49568461 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
* *
49568500 AGGTTAGCATTTGGGTTGTTCAATGTGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
49568539 TTAGGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:49570408 original size:47 final size:47
Alignment explanation
Indices: 49570317--49570955 Score: 949
Period size: 47 Copynumber: 13.6 Consensus size: 47
49570307 TAATTGAATA
*
49570317 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
*
49570365 AAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
49570412 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
49570459 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
*
49570506 AATGTAAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
49570553 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
49570600 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
49570647 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
49570694 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
49570741 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
49570788 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
49570835 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
49570882 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
**
49570929 AATGTGAA-AGTGTATAAATGTGATAAG
1 AATGTGAACA-TGTATATGTGTGATAAG
49570956 TTCCGAAGGG
Statistics
Matches: 534, Mismatches: 55, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 513 0.96
48 19 0.04
49 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:49576292 original size:30 final size:30
Alignment explanation
Indices: 49576253--49576311 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
49576243 TCCCTAACTC
* *
49576253 AAACTTTTGCAAAATTACAATTTTGCCCTT
1 AAACCTTTGCAAAATTACAATTTTCCCCTT
*
49576283 AAACCTTTGCAAAATTACGATTTTCCCCT
1 AAACCTTTGCAAAATTACAATTTTCCCCT
49576312 AGGCTCGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACCTTTGCAAAATTACAATTTTCCCCTT
Found at i:49590079 original size:20 final size:20
Alignment explanation
Indices: 49590054--49590093 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49590044 GTTAAAGTTA
*
49590054 TGAAAGATTATGGCATGTTG
1 TGAAAGATAATGGCATGTTG
*
49590074 TGAAAGATAATGGTATGTTG
1 TGAAAGATAATGGCATGTTG
49590094 CTAGTTGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (20 bp):
TGAAAGATAATGGCATGTTG
Found at i:49590761 original size:63 final size:63
Alignment explanation
Indices: 49590662--49590789 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
49590652 GTGTGTCGAA
49590662 TTGGGCTTCTGGCACTCAGGAAGTTCGACTAAGGTGTATTTGCTCAAGCTATCGATTTTTGGT
1 TTGGGCTTCTGGCACTCAGGAAGTTCGACTAAGGTGTATTTGCTCAAGCTATCGATTTTTGGT
* * *
49590725 TTGGGCTTGTGGCACTCAGGAAGTTCGACTAAGGTGTATTTGCTTAAGCTATCGGTTTTTGGT
1 TTGGGCTTCTGGCACTCAGGAAGTTCGACTAAGGTGTATTTGCTCAAGCTATCGATTTTTGGT
49590788 TT
1 TT
49590790 TTCTTTCTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (63 bp):
TTGGGCTTCTGGCACTCAGGAAGTTCGACTAAGGTGTATTTGCTCAAGCTATCGATTTTTGGT
Found at i:49592819 original size:27 final size:27
Alignment explanation
Indices: 49592726--49592820 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
49592716 GTTTACCATT
* **
49592726 TTACTGAAATACCCTCGACTTGTAAAA
1 TTACTGAAATACCCTCGATTTACAAAA
* *
49592753 TTAC-CAAACTACCCTCGATTTACAGAA
1 TTACTGAAA-TACCCTCGATTTACAAAA
*** *
49592780 TTACTGTTTTACCCTTGATTTACAAAA
1 TTACTGAAATACCCTCGATTTACAAAA
*
49592807 TTATTGAAATACCC
1 TTACTGAAATACCC
49592821 CTGTAGGGTA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
TTACTGAAATACCCTCGATTTACAAAA
Found at i:49592841 original size:27 final size:27
Alignment explanation
Indices: 49592812--49593027 Score: 299
Period size: 27 Copynumber: 8.0 Consensus size: 27
49592802 CAAAATTATT
* *
49592812 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
49592839 GAAATACCCCTATAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
49592866 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
49592893 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
49592920 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
49592947 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
49592974 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
49593001 GAGATACCCTTGT-GTGGTAAAATTACC
1 GAAATACCCCTGTAG-GGTAGAATTACC
49593028 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 166 0.99
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:49593025 original size:81 final size:80
Alignment explanation
Indices: 49592812--49593027 Score: 333
Period size: 81 Copynumber: 2.7 Consensus size: 80
49592802 CAAAATTATT
* * * *
49592812 GAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTATAAGGTAGAATTATCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT-GGGTAGAATTACCGAAATACCCTT
49592877 GTAGGGTAGAAATACC
65 GTAGGGTAGAAATACC
49592893 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT-GGGTAGAATTACCGAAATACCCTT
49592958 GTAGGGTAGAAATACC
65 GTAGGGTAGAAATACC
* * * *
49592974 GAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGTGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTG-GGTAGAATTACC
49593028 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 1 0.01
81 125 0.99
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (80 bp):
GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTGGGTAGAATTACCGAAATACCCTTG
TAGGGTAGAAATACC
Found at i:49593601 original size:22 final size:22
Alignment explanation
Indices: 49593541--49593603 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
49593531 GACAATTATT
**
49593541 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTACCAAC
49593563 CT-ATATATGGCTTTGTACCAAC
1 CTGAT-TATGGCTTTGTACCAAC
*
49593585 CTGATTATGGCTGTGTACC
1 CTGATTATGGCTTTGTACC
49593604 GTTATTGTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGTACCAAC
Found at i:49593720 original size:27 final size:26
Alignment explanation
Indices: 49593690--49593768 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
49593680 ATTCTGTTAA
* *
49593690 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
49593717 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
49593744 GTGACTCTGTCACAATATCTGTTCT
1 GTGGCTCTGCCACAATATCTGTTCT
49593769 AGCAGCGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:49593897 original size:6 final size:6
Alignment explanation
Indices: 49593888--49594012 Score: 96
Period size: 6 Copynumber: 20.3 Consensus size: 6
49593878 TTGCATTCAC
* * *
49593888 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
49593938 ATTCTG ATTCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
49593987 ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
49594013 AATGATTCTT
Statistics
Matches: 94, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:49593919 original size:25 final size:25
Alignment explanation
Indices: 49593891--49593955 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
49593881 CATTCACATT
* *
49593891 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
49593916 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
49593941 CTGATTCTAATTCTG
1 CTGATTCTGATTCTG
49593956 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:49593923 original size:31 final size:31
Alignment explanation
Indices: 49593888--49593991 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
49593878 TTGCATTCAC
*
49593888 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
49593919 ATTCTGATTCTG-TCACCTAATT--CTGATTCTA
1 ATTCTGATTCTGAT--TCT-GTTACCTGATTCTG
*
49593950 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
49593981 ATTCTGATTCT
1 ATTCTGATTCT
49593992 TATTTTGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 50 0.85
32 3 0.05
33 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Done.