Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 144 of 292
Found at i:42808177 original size:12 final size:12
Alignment explanation
Indices: 42808160--42808185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42808150 CATTTAATAC
42808160 TTATTTTTATAT
1 TTATTTTTATAT
42808172 TTATTTTTATAT
1 TTATTTTTATAT
42808184 TT
1 TT
42808186 TTGATTTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTTATAT
Found at i:42808408 original size:2 final size:2
Alignment explanation
Indices: 42808401--42808443 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
42808391 TAAACCTATT
42808401 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42808443 T
1 T
42808444 TTGTGTGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42811303 original size:40 final size:40
Alignment explanation
Indices: 42811258--42811424 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42811248 CGGAATATAA
42811258 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
42811298 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
42811338 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42811378 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42811417 CCGGATAT
1 CCGGATAT
42811425 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42811408 original size:80 final size:79
Alignment explanation
Indices: 42811258--42811424 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
42811248 CGGAATATAA
* *
42811258 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
42811323 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
42811338 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
42811400 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
42811417 CCGGATAT
1 CCGGATAT
42811425 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:42812272 original size:17 final size:19
Alignment explanation
Indices: 42812249--42812294 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
42812239 AAGAAGCATG
42812249 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
42812267 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
42812285 AATCATGCTC
1 AATCATGCTC
42812295 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:42819314 original size:40 final size:40
Alignment explanation
Indices: 42819269--42819435 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42819259 CGGAATATAA
42819269 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
42819309 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
42819349 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42819389 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42819428 CCGGATAT
1 CCGGATAT
42819436 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42819419 original size:80 final size:79
Alignment explanation
Indices: 42819269--42819435 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
42819259 CGGAATATAA
* *
42819269 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
42819334 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
42819349 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
42819411 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
42819428 CCGGATAT
1 CCGGATAT
42819436 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:42820283 original size:17 final size:19
Alignment explanation
Indices: 42820260--42820305 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
42820250 AAGAAGCATG
42820260 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
42820278 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
42820296 AATCATGCTC
1 AATCATGCTC
42820306 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:42829769 original size:9 final size:9
Alignment explanation
Indices: 42829755--42829780 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
42829745 ATGGCGGATG
42829755 CTTTGGCTA
1 CTTTGGCTA
42829764 CTTTGGCTA
1 CTTTGGCTA
42829773 CTTTGGCT
1 CTTTGGCT
42829781 TCCATGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (9 bp):
CTTTGGCTA
Found at i:42829961 original size:20 final size:20
Alignment explanation
Indices: 42829936--42829975 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
42829926 GTAAGTACCC
*
42829936 TGATAAAAGGACGTTGAGAA
1 TGATAAAAGGACGTTAAGAA
42829956 TGATAAAAGGACGTTAAGAA
1 TGATAAAAGGACGTTAAGAA
42829976 GACTAGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.20
Consensus pattern (20 bp):
TGATAAAAGGACGTTAAGAA
Found at i:42832715 original size:89 final size:92
Alignment explanation
Indices: 42832607--42832777 Score: 224
Period size: 92 Copynumber: 1.9 Consensus size: 92
42832597 TACCCAAATA
* * ** * *
42832607 TTATCTCTCTGAAGTTACAGTGGAGCA-G-ACTAAAGATA-GCAGA-TCTTATCTCCCTGAAGTT
1 TTATCTCTCTGAACTTACAGTAGAGCAGGAAAAAAAAATACGCA-ATTCTTAACTCCCTGAAGTT
*
42832668 GCAGTGGAGTAGATCGAAACTATAATCC
65 CCAGTGGAGTAGATCGAAACTATAATCC
* *
42832696 TTATCTTTCTGAACTTACAGTAGAGCAGGAAAAAAAAATACGCAATTCTTAACTCCTTGAAGTTC
1 TTATCTCTCTGAACTTACAGTAGAGCAGGAAAAAAAAATACGCAATTCTTAACTCCCTGAAGTTC
42832761 CAGTGGAGTAGATCGAA
66 CAGTGGAGTAGATCGAA
42832778 GTTACAAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
89 24 0.35
90 1 0.01
91 8 0.12
92 36 0.52
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (92 bp):
TTATCTCTCTGAACTTACAGTAGAGCAGGAAAAAAAAATACGCAATTCTTAACTCCCTGAAGTTC
CAGTGGAGTAGATCGAAACTATAATCC
Found at i:42836663 original size:29 final size:29
Alignment explanation
Indices: 42836554--42836644 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 29
42836544 GTTATTTCTG
* *
42836554 AAAGAAAGTC-TTTATAGTGATCTCTGTTA
1 AAAGAAAG-CATTTATGGCGATCTCTGTTA
42836583 AAAGAAAGCATTTATGGCGATCTCTGTTA
1 AAAGAAAGCATTTATGGCGATCTCTGTTA
* *
42836612 AAAGAAAGCATTTGTGACGATCTCTGTTA
1 AAAGAAAGCATTTATGGCGATCTCTGTTA
42836641 AAAG
1 AAAG
42836645 GATCCCTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
28 1 0.02
29 56 0.98
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (29 bp):
AAAGAAAGCATTTATGGCGATCTCTGTTA
Found at i:42838089 original size:46 final size:46
Alignment explanation
Indices: 42837981--42838109 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 46
42837971 ACATTATTAG
* * *
42837981 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAG
1 AGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAA
* * *
42838029 GGCTAGTATAAGACATGTCTGGGACATGCATCGGCCTCGAGAC-ATA
1 AGCCAGTATAAGACATGTCTGGGACATGCATCGGCATCGAGACGA-A
* * * *
42838075 AGCCAGTTTCAGACATGTTTGAGACATGCATCGGC
1 AGCCAGTATAAGACATGTCTGGGACATGCATCGGC
42838110 TACGAGATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 43 0.63
47 14 0.21
48 10 0.15
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
AGCCAGTATAAGACATGTCTGGGACATGCATCGGCATCGAGACGAA
Found at i:42839378 original size:21 final size:21
Alignment explanation
Indices: 42839349--42839388 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42839339 TTGAATTGGC
*
42839349 CACATGGGCGTGTGCCCCTTT
1 CACACGGGCGTGTGCCCCTTT
42839370 CACACGGGCGTGTGCCCCT
1 CACACGGGCGTGTGCCCCT
42839389 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCCTTT
Found at i:42845243 original size:40 final size:40
Alignment explanation
Indices: 42845218--42845365 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
42845208 AGTGATTCGT
*
42845218 ACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGC
1 ACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGC
* * * * *
42845258 ACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGC
1 ACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGC
* * *
42845298 ACAAATGCCTTCGAGAATT-GACCCGGATTTAGTCACTTAGC
1 ACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGC
* *
42845339 ACAAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAATGCCTTCGGGAATTAGCCCGGA
42845366 CACCATTCGA
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
40 62 0.70
41 25 0.28
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
ACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGC
Found at i:42845284 original size:80 final size:81
Alignment explanation
Indices: 42845199--42845364 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 81
42845189 TGGGACATTT
* * * * * * *
42845199 CCCGGTTATAGTGATTCGTACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTGA-CCCGGATTTAGTAACTTAGCACAA
*
42845262 ATGCCTTCGGGACTTAA
65 AAGCCTTCGGGACTTAA
* * *
42845279 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAGTCACTTAGCACAAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAGTAACTTAGCACAAA
*
42845344 AGCCTTCGGGACTTAG
66 AGCCTTCGGGACTTAA
42845360 CCCGG
1 CCCGG
42845365 ACACCATTCG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 45 0.62
81 27 0.38
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (81 bp):
CCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAATTGACCCGGATTTAGTAACTTAGCACAAA
AGCCTTCGGGACTTAA
Found at i:42853240 original size:40 final size:40
Alignment explanation
Indices: 42853170--42853347 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
42853160 GCTCGATTGT
* * *
42853170 CTTCGGG-A-TAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGAATTAGCCCGGATT-TAGTAACTCGCACAAATGC
*
42853208 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
42853248 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
42853288 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
42853329 CTTCGGGACTTAGCCCGGA
1 CTTCGGGAATTAGCCCGGA
42853348 CACCATTCGA
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 7 0.06
39 1 0.01
40 80 0.68
41 28 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:42853295 original size:80 final size:81
Alignment explanation
Indices: 42853196--42853346 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 81
42853186 TTATAGTGAT
* * * *
42853196 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTT
42853259 AACCCGGTTTTGGTAAC
65 AACCCGGTTTTGGTAAC
*
42853276 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
42853341 GCCCGG
66 ACCCGG
42853347 ACACCATTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 36 0.57
81 27 0.43
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGGTAAC
Found at i:42864351 original size:93 final size:93
Alignment explanation
Indices: 42864239--42864409 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
42864229 GCCCCTAAGT
* *
42864239 GAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42864304 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
42864332 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42864397 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42864410 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42864406 original size:46 final size:46
Alignment explanation
Indices: 42864234--42864406 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
42864224 AACCCGCCCC
* * * * *
42864234 TAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
42864280 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
42864328 TCA-CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
42864373 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
42864407 TGCTCAACCA
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
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:42868994 original size:37 final size:37
Alignment explanation
Indices: 42868941--42869062 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
42868931 TATAAAAGAA
* * * *
42868941 GTCTTACCCAGACATAATCTCCATATGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
42868978 GTGTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
42869015 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
42869052 GTCTCACCCGG
1 GTCTTACCCGG
42869063 AACATATTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:42869219 original size:49 final size:49
Alignment explanation
Indices: 42869164--42869260 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
42869154 TTTTACATTA
42869164 GCCATTAGGCCTTATCACATATACATACACTTTCACATCCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATCCACCACATCG
*
42869213 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATCCACCACATC
42869261 ATACATACAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.07, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATCCACCACATCG
Found at i:42869264 original size:28 final size:28
Alignment explanation
Indices: 42869228--42869288 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
42869218 TAGGCCTTAT
42869228 CACAT-ATACATACACTTTCACATTCAC
1 CACATCATACATACACTTTCACATTCAC
42869255 CACATCATACATACACTTTCACATTCAC
1 CACATCATACATACACTTTCACATTCAC
42869283 CACATC
1 CACATC
42869289 GGCCATTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (28 bp):
CACATCATACATACACTTTCACATTCAC
Found at i:42875800 original size:46 final size:45
Alignment explanation
Indices: 42875733--42875902 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
42875723 AACCCGCCCC
*
42875733 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * *
42875779 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA
**** * *
42875825 TTTCAGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
42875871 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
42875903 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 93 0.93
47 2 0.02
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:42875851 original size:92 final size:91
Alignment explanation
Indices: 42875738--42875906 Score: 293
Period size: 92 Copynumber: 1.8 Consensus size: 91
42875728 GCCCCTAAGT
* *
42875738 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42875803 CGAGTTCGGATGCCTAGTTACATTTCA
66 CGAGTTC-GATGCCTAGTTACATTTCA
* *
42875830 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42875895 CGAGTTCGATGC
66 CGAGTTCGATGC
42875907 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 5 0.07
92 68 0.93
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGATGCCTAGTTACATTTCA
Found at i:42881134 original size:39 final size:39
Alignment explanation
Indices: 42881091--42881269 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
42881081 TAATGGAGAA
42881091 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
42881130 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
42881169 TTATATCCGAGCTAGGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
42881208 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTACTGTTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
42881247 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
42881270 CATGCTTTGT
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 108 0.84
40 21 0.16
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:42891026 original size:23 final size:23
Alignment explanation
Indices: 42891000--42891053 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
42890990 TCTGGATTTA
42891000 ATTTGATTGCATCTCCTTTAGGG
1 ATTTGATTGCATCTCCTTTAGGG
42891023 ATTTGATTGCATCTCCTTTAGGG
1 ATTTGATTGCATCTCCTTTAGGG
42891046 ATTTGATT
1 ATTTGATT
42891054 ACTACTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (23 bp):
ATTTGATTGCATCTCCTTTAGGG
Found at i:42891053 original size:28 final size:27
Alignment explanation
Indices: 42890993--42891053 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 27
42890983 TTTTGTTTCT
*
42890993 GGATTTAATTTGATTGCATCTCCTTTA
1 GGATTTGATTTGATTGCATCTCCTTTA
42891020 GG----GATTTGATTGCATCTCCTTTA
1 GGATTTGATTTGATTGCATCTCCTTTA
42891043 GGGATTTGATT
1 -GGATTTGATT
42891054 ACTACTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
23 20 0.71
24 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.20, C:0.13, G:0.21, T:0.46
Consensus pattern (27 bp):
GGATTTGATTTGATTGCATCTCCTTTA
Found at i:42892775 original size:17 final size:18
Alignment explanation
Indices: 42892742--42892775 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42892732 ATCAAGTCAA
*
42892742 CCATTCCTCCCACAACCT
1 CCATTCCTCCAACAACCT
42892760 CCATTCC-CCAACAACC
1 CCATTCCTCCAACAACC
42892776 ATCCTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.56, G:0.00, T:0.18
Consensus pattern (18 bp):
CCATTCCTCCAACAACCT
Found at i:42895352 original size:16 final size:16
Alignment explanation
Indices: 42895331--42895361 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42895321 TGAGCCTTCC
42895331 ATCAGCTTCAATGTTA
1 ATCAGCTTCAATGTTA
42895347 ATCAGCTTCAATGTT
1 ATCAGCTTCAATGTT
42895362 GCATTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
ATCAGCTTCAATGTTA
Found at i:42895549 original size:20 final size:20
Alignment explanation
Indices: 42895512--42895549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42895502 TCTGTAATAA
**
42895512 TTTGTGTAATTAGGCAATGT
1 TTTGTGTAATTACACAATGT
42895532 TTTGTGTAATTACACAAT
1 TTTGTGTAATTACACAAT
42895550 ACATTACGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (20 bp):
TTTGTGTAATTACACAATGT
Found at i:42895583 original size:60 final size:59
Alignment explanation
Indices: 42895425--42895641 Score: 258
Period size: 60 Copynumber: 3.7 Consensus size: 59
42895415 GCAATTTGTG
* ** * *
42895425 TTACACAAAACTTTATTAGATTTGTAATAATTTGTGTAATAAGGCAATG--TTGTGTAA
1 TTACACAAAACATTACGATATTTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * *
42895482 TTACACAAAACTTTATGAGATCTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
1 TTACACAAAACATTACGATATTTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * *
42895541 TTACACAATACATTACGAATATTTGTAACAATTTGTGCAATTAGGTAATGTTTTGTGTAA
1 TTACACAAAACATTACG-ATATTTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * *
42895601 TTATACAAAACATTACCATAGTTGTAATAATTTGTATAATT
1 TTACACAAAACATTACGATATTTGTAATAATTTGTGTAATT
42895642 GAGTATGTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
57 46 0.33
59 42 0.30
60 51 0.37
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (59 bp):
TTACACAAAACATTACGATATTTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
Found at i:42896440 original size:74 final size:74
Alignment explanation
Indices: 42896349--42896491 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 74
42896339 ATGCAACATA
* * **
42896349 TTTACTTCACATCAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCATTAACAATGTC
1 TTTACTTCAAATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCACAAACAATGTC
42896414 TATATGGCC
66 TATATGGCC
* * *
42896423 TTTACTTCAAATAAAATGATGTTTTTAACAGGAAACTTGACATTTCAAATTTCACAAACAATGTT
1 TTTACTTCAAATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCACAAACAATGTC
42896488 TATA
66 TATA
42896492 CAGCCAACTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (74 bp):
TTTACTTCAAATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCACAAACAATGTC
TATATGGCC
Found at i:42900308 original size:91 final size:91
Alignment explanation
Indices: 42900199--42900381 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
42900189 CCATAAAGAT
42900199 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
*
42900264 GCGTAAGATTTTGCATAAAAAAGTTA
66 GCGTAAAATTTTGCATAAAAAAGTTA
42900290 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
42900355 GCGTAAAATTTTGCATAAAAAAGTTA
66 GCGTAAAATTTTGCATAAAAAAGTTA
42900381 T
1 T
42900382 TATAGAAATT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (91 bp):
TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
GCGTAAAATTTTGCATAAAAAAGTTA
Found at i:42901145 original size:3 final size:3
Alignment explanation
Indices: 42901137--42901184 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
42901127 TGATTTGAAG
42901137 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42901185 GATCATGATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:42906026 original size:40 final size:40
Alignment explanation
Indices: 42905962--42906037 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
42905952 TATACATATA
*
42905962 TAGCCAAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCAAAGCTATCTCCAACCGCACACCAAGTGCCACATT
* * * *
42906002 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCA
1 TAGCCAAAGCTATCTCCAACCGCACACCAAGTGCCA
42906038 TTTTTTTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (40 bp):
TAGCCAAAGCTATCTCCAACCGCACACCAAGTGCCACATT
Found at i:42909616 original size:42 final size:41
Alignment explanation
Indices: 42909570--42909840 Score: 175
Period size: 48 Copynumber: 6.2 Consensus size: 41
42909560 TCCAACTATA
*
42909570 GTCTTACACAAAGTCTCACATCGATGCCATGTCCCAGACATG
1 GTCTTACACAAA-TCTCACATCGATGCCATATCCCAGACATG
* * * ** * *
42909612 GTCTTATAGAAAT-TACATATCGATGCCGCATCCCAAACACG
1 GTCTTACACAAATCT-CACATCGATGCCATATCCCAGACATG
* * * * * *
42909653 GTCTTACATGAAATCTCATACCGAAGCCTTATCCCAGATATG
1 GTCTTACA-CAAATCTCACATCGATGCCATATCCCAGACATG
* *
42909695 GTCTTACATATAATCTCATACCGATGCCGATGCCATATCCCAGATATG
1 GTCTTACACA-AATCTC--A-C-AT--CGATGCCATATCCCAGACATG
* *
42909743 GTCTTACACAAGATCTCATATCGATGCTGATGCCATATCCCAAATATG
1 GTCTTACACAA-ATCTC--A-C-AT-C-GATGCCATATCCCAGACATG
* * * *
42909791 GTCTTACACAGGATCTCATATCGATGCCATGTCCCAGGCATG
1 GTCTTACACA-AATCTCACATCGATGCCATATCCCAGACATG
42909833 GTCTTACA
1 GTCTTACA
42909841 TGTATCACAA
Statistics
Matches: 185, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.01
41 29 0.16
42 72 0.39
43 2 0.01
44 3 0.02
46 2 0.01
47 2 0.01
48 74 0.40
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (41 bp):
GTCTTACACAAATCTCACATCGATGCCATATCCCAGACATG
Found at i:42909646 original size:41 final size:42
Alignment explanation
Indices: 42909601--42909723 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
42909591 CGATGCCATG
* * *
42909601 TCCCAGACATGGTCTTATA-GAAAT-TACATATCGATGCCGCA
1 TCCCAGACATGGTCTTACATGAAATCT-CATACCGAAGCCGCA
* * **
42909642 TCCCAAACACGGTCTTACATGAAATCTCATACCGAAGCCTTA
1 TCCCAGACATGGTCTTACATGAAATCTCATACCGAAGCCGCA
* *
42909684 TCCCAGATATGGTCTTACAT-ATAATCTCATACCGATGCCG
1 TCCCAGACATGGTCTTACATGA-AATCTCATACCGAAGCCG
42909724 ATGCCATATC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 17 0.25
42 49 0.73
43 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCTCATACCGAAGCCGCA
Found at i:42909759 original size:48 final size:48
Alignment explanation
Indices: 42909673--42909818 Score: 213
Period size: 48 Copynumber: 3.0 Consensus size: 48
42909663 AAATCTCATA
* * * *
42909673 CCGAAGCCTTATCCCAGATATGGTCTTACATATA-ATCTCATACCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACA-AGATCTCATATCGATG
42909721 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
* * *
42909769 CTGATGCCATATCCCAAATATGGTCTTACACAGGATCTCATATCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
42909817 CC
1 CC
42909819 ATGTCCCAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.01
48 88 0.99
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
Found at i:42909900 original size:37 final size:37
Alignment explanation
Indices: 42909812--42910096 Score: 357
Period size: 37 Copynumber: 7.8 Consensus size: 37
42909802 GATCTCATAT
42909812 CGATGCCAT-GTCCCAGGC-ATGGTCTTACATGT-ATCA
1 CGATGCCATAG-CCCA-GCTATGGTCTTACATGTCATCA
* *
42909848 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
*
42909885 CGATGCCATAGCCCAGCTATGGTCTTACACGT-ATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
*
42909921 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* * * **
42909958 CGATGCCATAGTCCAACTATGGTATTACACAT-ATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* *
42909994 CAATGCCATAGCCCAGCTATGGTTTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* * * *
42910031 CGATACCAAAGCCCAGCTATGGTCTTACACG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTC-ATCA
*
42910068 CGATGCCATAGCCCAGCAATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
42910097 CATACCACAT
Statistics
Matches: 215, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.01
36 90 0.42
37 123 0.57
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
Found at i:42909908 original size:73 final size:73
Alignment explanation
Indices: 42909812--42910096 Score: 421
Period size: 73 Copynumber: 3.9 Consensus size: 73
42909802 GATCTCATAT
*
42909812 CGATGCCAT-GTCCCAGGC-ATGGTCTTACATGTATCACAATGCCATAGCCCAGCTATGGTCTTA
1 CGATGCCATAG-CCCA-GCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTA
*
42909875 CATGTCATTA
64 CATGTCATCA
42909885 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
42909950 TGTCATCA
66 TGTCATCA
* * * * *
42909958 CGATGCCATAGTCCAACTATGGTATTACACATATCACAATGCCATAGCCCAGCTATGGTTTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
42910023 TGTCATCA
66 TGTCATCA
* * * * *
42910031 CGATACCAAAGCCCAGCTATGGTCTTACACGCTATTACGATGCCATAGCCCAGCAATGGTCTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACG-TATCACAATGCCATAGCCCAGCTATGGTCTTAC
42910096 A
65 A
42910097 CATACCACAT
Statistics
Matches: 192, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
72 2 0.01
73 159 0.83
74 31 0.16
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (73 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
TGTCATCA
Found at i:42910097 original size:110 final size:108
Alignment explanation
Indices: 42909830--42910105 Score: 363
Period size: 110 Copynumber: 2.5 Consensus size: 108
42909820 TGTCCCAGGC
* ** * *
42909830 ATGGTCTTACATGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTCATTACGATGCCATA
1 ATGGTCTTACATGTATCACGATGCCATAGCCCAGCTATGGTCTTACACAT-ATCACAATGCCATA
* *
42909895 GCCCAGCTATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
65 GCCCAGCTATGGTCTTACACGTATCACAATACCAAAGCCCAGCT
* * *
42909939 ATGGTCTTACATGTCATCACGATGCCATAGTCCAACTATGGTATTACACATATCACAATGCCATA
1 ATGGTCTTACATGT-ATCACGATGCCATAGCCCAGCTATGGTCTTACACATATCACAATGCCATA
* * *
42910004 GCCCAGCTATGGTTTTACATGTCATCACGATACCAAAGCCCAGCT
65 GCCCAGCTATGGTCTTACACGT-ATCACAATACCAAAGCCCAGCT
* * * *
42910049 ATGGTCTTACACGCTATTACGATGCCATAGCCCAGCAATGGTCTTACACATACCACA
1 ATGGTCTTACATG-TATCACGATGCCATAGCCCAGCTATGGTCTTACACATATCACA
42910106 TGTATTACCA
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 46 0.32
110 97 0.67
111 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (108 bp):
ATGGTCTTACATGTATCACGATGCCATAGCCCAGCTATGGTCTTACACATATCACAATGCCATAG
CCCAGCTATGGTCTTACACGTATCACAATACCAAAGCCCAGCT
Found at i:42913137 original size:21 final size:17
Alignment explanation
Indices: 42913097--42913133 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
42913087 TATCTCAATC
42913097 TATATAATATAAAAATT
1 TATATAATATAAAAATT
*
42913114 TATATAATATCAAAATT
1 TATATAATATAAAAATT
42913131 TAT
1 TAT
42913134 TTATTTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAATATAAAAATT
Found at i:42914270 original size:6 final size:7
Alignment explanation
Indices: 42914249--42914273 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42914239 AGGAATGAAG
42914249 AAAGAAA
1 AAAGAAA
42914256 AAAGAAA
1 AAAGAAA
42914263 AAAGAAA
1 AAAGAAA
42914270 AAAG
1 AAAG
42914274 CCTTAAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:42916738 original size:38 final size:38
Alignment explanation
Indices: 42916646--42916721 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
42916636 TTGGCATAAG
42916646 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
42916684 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
42916722 GTTTATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (38 bp):
TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
Found at i:42919785 original size:21 final size:20
Alignment explanation
Indices: 42919754--42919817 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
42919744 GAGTTACACG
* *
42919754 GCCTGTTCACATGGCCGTGT
1 GCCTCTTCACACGGCCGTGT
*
42919774 -CCTTGCTTCACACGGGCGTGT
1 GCC-T-CTTCACACGGCCGTGT
42919795 GCCTCTGTCACACGGCCGTGT
1 GCCTCT-TCACACGGCCGTGT
42919816 GC
1 GC
42919818 TACCCTTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 2 0.06
20 3 0.08
21 29 0.81
22 2 0.06
ACGTcount: A:0.09, C:0.34, G:0.30, T:0.27
Consensus pattern (20 bp):
GCCTCTTCACACGGCCGTGT
Found at i:42930695 original size:16 final size:16
Alignment explanation
Indices: 42930670--42930703 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
42930660 TTGGATATAA
42930670 ATTAAAATTAATT-AT
1 ATTAAAATTAATTCAT
42930685 ATTACAAATTAATTCAT
1 ATTA-AAATTAATTCAT
42930702 AT
1 AT
42930704 AATTTTGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAATTAATTCAT
Found at i:42932368 original size:31 final size:30
Alignment explanation
Indices: 42932328--42932413 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
42932318 TCAATCTCAG
*
42932328 CATAT-ACTGGACCGAAGCCGTTACATTATT
1 CATATCACTGG-CCGAAGCCTTTACATTATT
* **
42932358 CATATCACTGGGCCGAAGCTTTTTTATTATT
1 CATATCACT-GGCCGAAGCCTTTACATTATT
42932389 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACT-GGCCGAAGCCTTTAC
42932414 TGTAACAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.11
31 39 0.85
32 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTACATTATT
Found at i:42932690 original size:25 final size:25
Alignment explanation
Indices: 42932624--42932701 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
42932614 GCCTAGCCTC
*
42932624 TTTTAATAACTGGGGCAAAAGCCCT
1 TTTTGATAACTGGGGCAAAAGCCCT
*
42932649 TTTTGATAAATTGGGGCAAAAGCCCT
1 TTTTGAT-AACTGGGGCAAAAGCCCT
* *
42932675 TTTCTG-TAACTAGGGC-ATAGCCCT
1 TTT-TGATAACTGGGGCAAAAGCCCT
42932699 TTT
1 TTT
42932702 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.22
25 13 0.28
26 21 0.46
27 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTGATAACTGGGGCAAAAGCCCT
Found at i:42935348 original size:17 final size:19
Alignment explanation
Indices: 42935326--42935439 Score: 134
Period size: 17 Copynumber: 6.4 Consensus size: 19
42935316 ATGGAAATAT
42935326 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
42935343 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
42935362 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
42935379 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
42935396 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
*
42935414 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
42935433 AATCTTA
1 AATCTTA
42935440 GAAGATATGA
Statistics
Matches: 91, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
17 39 0.43
18 17 0.19
19 35 0.38
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:42935448 original size:17 final size:19
Alignment explanation
Indices: 42935334--42935441 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
42935324 ATAATCTTCA
42935334 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42935353 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42935372 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42935389 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42935406 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
42935424 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
42935442 AGATATGATT
Statistics
Matches: 86, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 33 0.38
18 16 0.19
19 37 0.43
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:42939430 original size:26 final size:26
Alignment explanation
Indices: 42939387--42939451 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
42939377 ACTTCTATTT
** *
42939387 CAAAAAAAAAAAGGAAAAAGAAAAGA
1 CAAAAAAAAAAATAAAAAAGAAAAAA
* *
42939413 CAAAGAAAAAAATAAAAAATAAAAAA
1 CAAAAAAAAAAATAAAAAAGAAAAAA
*
42939439 TAAAAAAAAAAAT
1 CAAAAAAAAAAAT
42939452 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (26 bp):
CAAAAAAAAAAATAAAAAAGAAAAAA
Found at i:42939431 original size:7 final size:7
Alignment explanation
Indices: 42939419--42939450 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
42939409 AAGACAAAGA
42939419 AAAAAAT
1 AAAAAAT
42939426 AAAAAAT
1 AAAAAAT
42939433 AAAAAAT
1 AAAAAAT
42939440 AAAAAA-
1 AAAAAAT
42939446 AAAAA
1 AAAAA
42939451 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:42939436 original size:12 final size:12
Alignment explanation
Indices: 42939388--42939451 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 12
42939378 CTTCTATTTC
*
42939388 AAAAAAAAAAAGG
1 AAAAAAAAAAA-T
* *
42939401 AAAAAGAAAAGAC
1 AAAAA-AAAAAAT
*
42939414 AAAGAAAAAAAT
1 AAAAAAAAAAAT
42939426 AAAAAATAAAAAAT
1 -AAAAA-AAAAAAT
42939440 AAAAAAAAAAAT
1 AAAAAAAAAAAT
42939452 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 12 0.29
13 18 0.43
14 12 0.29
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:42939936 original size:16 final size:16
Alignment explanation
Indices: 42939915--42939948 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
42939905 TTACTCTGGA
42939915 AATGATATTTCGAGAG
1 AATGATATTTCGAGAG
42939931 AATGATATTTCGAGAG
1 AATGATATTTCGAGAG
42939947 AA
1 AA
42939949 ATAAGGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (16 bp):
AATGATATTTCGAGAG
Found at i:42940284 original size:44 final size:44
Alignment explanation
Indices: 42940225--42940523 Score: 335
Period size: 44 Copynumber: 6.8 Consensus size: 44
42940215 GATCCAAGAT
* * *
42940225 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
42940269 GATTTGGCATCTCTGTATTGGT-AGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGATAACA
* * *
42940313 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACT
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG--ATAACA
* * * * *
42940359 GATTTGGCTTTCACGTGT-TTACGT-TGA-AGCAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATT--GTCAGAGAGCAGATCGAAGATAACA
* *
42940400 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
* *
42940444 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
*
42940488 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
42940524 GGACATAGCT
Statistics
Matches: 216, Mismatches: 24, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.01
39 5 0.02
40 16 0.07
41 8 0.04
43 1 0.00
44 147 0.68
45 4 0.02
46 13 0.06
47 15 0.07
48 4 0.02
49 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
Found at i:42940429 original size:87 final size:87
Alignment explanation
Indices: 42940208--42940874 Score: 728
Period size: 87 Copynumber: 7.6 Consensus size: 87
42940198 ATATTTACAC
* * * *
42940208 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG--AT-GACAG
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAG-CTG
* * *
42940270 ATTTGGC-ATCTC-TGTATT-GGT
65 ATTTGGCTTTCACGTGT-TTACGT
* * * *
42940291 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATA
1 TGA-AGCAAATCTAAGAT----GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATA
*
42940356 ACTGATTTGGCTTTCACGTGTTTACGT
61 GCTGATTTGGCTTTCACGTGTTTACGT
* * * * * *
42940383 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAG--ATAGCAGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* * * *
42940446 TTTGGC-ATCTC-TGTATT-GGC
66 TTTGGCTTTCACGTGT-TTACGT
* * * * *
42940466 AGAGAG-AAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAGGACAT
1 TGA-AGCAA-ATCTAAGAT----GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
*
42940530 AGCTAATTTGGCTTTCACGTGTTTACGT
60 AGCTGATTTGGCTTTCACGTGTTTACGT
42940558 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* **
42940623 ATTGGCTTTCAATTGTTTACGT
66 TTTGGCTTTCACGTGTTTACGT
* * * * *
42940645 TAAAGCAAATCTAAGATGATTTGGCGTCTCTATGTTGGCAGGGAGTAGATCGAGGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
*
42940710 TTTGGTTTTCACGTGTTTACGT
66 TTTGGCTTTCACGTGTTTACGT
* *
42940732 TGAAGCAAATCTAAGATGATTTGACGTCTTTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* *
42940797 TTTGGCTTTAACGTGTTTATGT
66 TTTGGCTTTCACGTGTTTACGT
* * *
42940819 TGAAGCAAATCTAAGATGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
42940875 TAACAGATTT
Statistics
Matches: 495, Mismatches: 65, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
83 10 0.02
84 28 0.06
85 12 0.02
87 304 0.61
88 71 0.14
90 23 0.05
91 32 0.06
92 15 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (87 bp):
TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
TTTGGCTTTCACGTGTTTACGT
Found at i:42940499 original size:175 final size:176
Alignment explanation
Indices: 42940208--42940802 Score: 773
Period size: 175 Copynumber: 3.4 Consensus size: 176
42940198 ATATTTACAC
* *
42940208 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG-AT-GACAGA
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGAATAG-CAGA
* *
42940271 TTTGGCATCTCTGTATTGGTAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCA
65 TTTGGCATCTCTGTATTGGCAGAGAGAAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCA
* *
42940336 GGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGT
130 GGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
* * * *
42940383 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAG-ATAGCAGAT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGAATAGCAGAT
42940447 TTGGCATCTCTGTATTGGCAGAGAGAAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAG
66 TTGGCATCTCTGTATTGGCAGAGAGAAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAG
* *
42940512 AGAGCAGATCGAGGACATAGCTAATTTGGCTTTCACGTGTTTACGT
131 GGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
* *
42940558 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA-ATAGCAGA
* * * * * * * *
42940623 ATTGGC-TTTCAATTGT-TT-AC-GTTAAAGCAA-ATCTAAGAT----GATTTGGCGTCTCTATG
65 TTTGGCATCTC---TGTATTGGCAG--AGAG-AAGATCGAAGATAACAGATTTGGCATCTCTGTA
* *
42940679 TTGGCAGGGAGTAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTTTACGT
124 TTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
* * * *
42940732 TGAAGCAAATCTAAGATGATTTGACGTCTTTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA-ATAGCAGA
42940797 TTTGGC
65 TTTGGC
42940803 TTTAACGTGT
Statistics
Matches: 380, Mismatches: 31, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
174 131 0.34
175 213 0.56
176 5 0.01
177 13 0.03
178 13 0.03
179 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (176 bp):
TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGAATAGCAGAT
TTGGCATCTCTGTATTGGCAGAGAGAAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAG
GGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
Found at i:42940743 original size:174 final size:174
Alignment explanation
Indices: 42940208--42940871 Score: 705
Period size: 175 Copynumber: 3.8 Consensus size: 174
42940198 ATATTTACAC
* * * *
42940208 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG--AT-GACAG
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAG-CTG
* * * *
42940270 ATTTGGC-ATC--TCTGTATT--GGTAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTA
65 ATTTGGCTTTCAAT-TGT-TTACGTTA-A-AGCAAATCTAAGAT----GATTTGGCATCTCTGTA
* *
42940330 TTGGCAGGGAGCAGATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGT
122 TTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
* * * * * *
42940383 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAG--ATAGCAGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* * * *
42940446 TTTGGC-ATC--TCTGTATTGGCAG--AGAG-AAGATCGAAGATAACAGATTTGGCATCTCTGTA
66 TTTGGCTTTCAAT-TGT-TT-AC-GTTAAAGCAA-ATCTAAGAT----GATTTGGCATCTCTGTA
* *
42940505 TTGGCAGAGAGCAGATCGAGGACATAGCTAATTTGGCTTTCACGTGTTTACGT
122 TTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
42940558 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* * * *
42940623 ATTGGCTTTCAATTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCGTCTCTATGTTGGCAGGG
66 TTTGGCTTTCAATTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGGG
* *
42940688 AGTAGATCGAGGACATAGCTGATTTGGTTTTCACGTGTTTACGT
131 AGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
* *
42940732 TGAAGCAAATCTAAGATGATTTGACGTCTTTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
* * * ** * *
42940797 TTTGGCTTT-AACGTGTTTATGTTGAAGCAAATCTAAGATGATTTGGTGTCTCTGTATTGTCAGA
66 TTTGGCTTTCAA-TTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGG
42940861 GAGCAGATCGA
130 GAGCAGATCGA
42940872 AGATAACAGA
Statistics
Matches: 434, Mismatches: 40, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
173 2 0.00
174 189 0.44
175 205 0.47
176 2 0.00
177 14 0.03
178 15 0.03
179 6 0.01
180 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (174 bp):
TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGA
TTTGGCTTTCAATTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGGG
AGCAGATCGAGGACATAGCTGATTTGGCTTTCACGTGTTTACGT
Found at i:42941206 original size:78 final size:78
Alignment explanation
Indices: 42941100--42941394 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
42941090 AGAAGAAACA
* * * * *
42941100 GATTTGACATCTCCATATTCGACAGAGAGCAGATCGAAGAAATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
42941165 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
42941178 GATTTGGCATCTCTATATTAGACGGAGAGCAGATTGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
42941243 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * * *
42941256 GATTTGGCATCTTTGTATTAGATGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
42941320 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
42941334 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
42941395 GTGTTTACAT
Statistics
Matches: 194, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 192 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:42941532 original size:45 final size:45
Alignment explanation
Indices: 42941427--42941562 Score: 229
Period size: 45 Copynumber: 3.0 Consensus size: 45
42941417 AAAATGACAA
* *
42941427 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
*
42941471 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
*
42941516 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
42941561 AT
1 AT
42941563 GTCACCTTTC
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
44 37 0.43
45 49 0.57
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAG
Found at i:42941590 original size:89 final size:89
Alignment explanation
Indices: 42941334--42941597 Score: 223
Period size: 89 Copynumber: 2.9 Consensus size: 89
42941324 GATCCAAGAT
* * *
42941334 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACC-TTCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAGCAGATCTAACCTTTC-TGAG
* * * * *
42941398 TTTACA-TCGAAGCCGATCCAAAATGACA
63 -TTGCAGT-GAAGCAGATCGAAGATAACA
* ** * ** * *
42941426 AATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTA-TT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTAACCTTTCTG-AGTT
* *
42941489 AG-ACGGGGAGCAGATCGAAGATAACA
65 -GCA-GTGAAGCAGATCGAAGATAACA
* * *
42941515 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGATGTCACCTTTCTGAGTTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTAACCTTTCTGAGTTG
*
42941580 CAGTGAAGCAGATTGAAG
66 CAGTGAAGCAGATCGAAG
42941598 CCGTCAAGAG
Statistics
Matches: 134, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
88 3 0.02
89 78 0.58
90 20 0.15
91 1 0.01
92 32 0.24
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (89 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTAACCTTTCTGAGTTG
CAGTGAAGCAGATCGAAGATAACA
Found at i:42941928 original size:17 final size:18
Alignment explanation
Indices: 42941917--42942028 Score: 137
Period size: 17 Copynumber: 6.3 Consensus size: 18
42941907 ATCTTCAATA
42941917 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATA-G
42941936 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATA-G
42941955 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATA-G
42941972 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATA-G
42941989 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATA-G
42942007 ATATGCAATCTTAGA-AG
1 ATATGCAATCTTAGATAG
42942024 ATATG
1 ATATG
42942029 ATTTTGTAAT
Statistics
Matches: 90, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
17 39 0.43
18 17 0.19
19 34 0.38
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATATGCAATCTTAGATAG
Found at i:42941941 original size:19 final size:19
Alignment explanation
Indices: 42941917--42942021 Score: 175
Period size: 19 Copynumber: 5.8 Consensus size: 19
42941907 ATCTTCAATA
42941917 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
42941936 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
42941955 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
42941972 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
42941989 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
42942007 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
42942022 AGATATGATT
Statistics
Matches: 83, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 33 0.40
18 16 0.19
19 34 0.41
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:42944493 original size:25 final size:25
Alignment explanation
Indices: 42944464--42944523 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
42944454 TTAATTAATA
42944464 TAAAATATTAATAATTCAAT-AAAT
1 TAAAATATTAATAATTCAATAAAAT
*
42944488 TGAAAA-ATTAGATAATTGAATAAAAT
1 T-AAAATATTA-ATAATTCAATAAAAT
42944514 TAAAAT-TTAA
1 TAAAATATTAA
42944524 GAGAAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 6 0.19
25 20 0.65
26 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
TAAAATATTAATAATTCAATAAAAT
Found at i:42947559 original size:40 final size:40
Alignment explanation
Indices: 42947514--42947680 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
42947504 CGGAATATAA
42947514 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42947554 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42947594 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
42947634 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42947673 CCGGATAT
1 CCGGATAT
42947681 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42947664 original size:80 final size:79
Alignment explanation
Indices: 42947530--42947678 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
42947520 ATAATCACGT
* *
42947530 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
42947595 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
42947610 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
42947673 CCGGAT
64 CCGGAT
42947679 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:42955562 original size:40 final size:40
Alignment explanation
Indices: 42955517--42955683 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
42955507 CGGAATATAA
42955517 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42955557 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42955597 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
42955637 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42955676 CCGGATAT
1 CCGGATAT
42955684 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42955667 original size:80 final size:79
Alignment explanation
Indices: 42955533--42955681 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
42955523 ATAATCACGT
* *
42955533 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
42955598 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
42955613 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
42955676 CCGGAT
64 CCGGAT
42955682 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:42961881 original size:41 final size:40
Alignment explanation
Indices: 42961754--42961898 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
42961744 CTCGCACAAG
* * * *
42961754 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
42961794 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
42961834 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
42961875 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42961899 GTAACACCCC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:42963306 original size:40 final size:40
Alignment explanation
Indices: 42963261--42963428 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42963251 CGGAATATAA
42963261 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42963301 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
42963341 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
42963381 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42963421 CCGGATAT
1 CCGGATAT
42963429 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42968273 original size:19 final size:19
Alignment explanation
Indices: 42968251--42968289 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42968241 CATAAAATTA
42968251 ATTTTTCTAAAATATT-TTT
1 ATTTTTC-AAAATATTATTT
*
42968270 ATTTTTCGAAATATTATTT
1 ATTTTTCAAAATATTATTT
42968289 A
1 A
42968290 CCAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTTCAAAATATTATTT
Found at i:42970894 original size:8 final size:8
Alignment explanation
Indices: 42970881--42970910 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
42970871 AAACTCCTAA
42970881 CCTTAAAT
1 CCTTAAAT
42970889 CCTTAAAT
1 CCTTAAAT
42970897 CCTTAAA-
1 CCTTAAAT
42970904 CCTTAAA
1 CCTTAAA
42970911 CCCAAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (8 bp):
CCTTAAAT
Found at i:42970902 original size:16 final size:15
Alignment explanation
Indices: 42970879--42970912 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42970869 CCAAACTCCT
42970879 AACCTTAAATCCTTA
1 AACCTTAAATCCTTA
42970894 AATCCTTAAA-CCTTA
1 AA-CCTTAAATCCTTA
42970909 AACC
1 AACC
42970913 CAAATCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.11
15 9 0.50
16 7 0.39
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
AACCTTAAATCCTTA
Found at i:42970909 original size:7 final size:7
Alignment explanation
Indices: 42970879--42970912 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
42970869 CCAAACTCCT
42970879 AACCTTA
1 AACCTTA
42970886 AATCCTTA
1 AA-CCTTA
42970894 AATCCTTA
1 AA-CCTTA
42970902 AACCTTA
1 AACCTTA
42970909 AACC
1 AACC
42970913 CAAATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
AACCTTA
Found at i:42970950 original size:57 final size:57
Alignment explanation
Indices: 42970840--42970971 Score: 137
Period size: 57 Copynumber: 2.4 Consensus size: 57
42970830 AATTTCGAAC
* * * * *
42970840 CCTTGAACCTTAAA-CAAGAATCTTGAAGCCCAAACTCCTAACCTTAAATCCTTAAAT
1 CCTTAAACCTTAAACCCA-AATCTTGAAGCCCAAACTCATAACCTCAAACCCTTAAAT
**
42970897 CCTTAAACCTTAAACCCAAATCTTG-AGCCCCAAACTCATATTCTCAAACCCTTAAAT
1 CCTTAAACCTTAAACCCAAATCTTGAAG-CCCAAACTCATAACCTCAAACCCTTAAAT
* *
42970954 CC-AAAACC-CAAACCCAAA
1 CCTTAAACCTTAAACCCAAA
42970972 CCTTAATCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
55 9 0.14
56 7 0.11
57 46 0.72
58 2 0.03
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.23
Consensus pattern (57 bp):
CCTTAAACCTTAAACCCAAATCTTGAAGCCCAAACTCATAACCTCAAACCCTTAAAT
Found at i:42971600 original size:2 final size:2
Alignment explanation
Indices: 42971595--42971625 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42971585 TACATGTGTG
42971595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42971626 GCAATTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42973438 original size:40 final size:40
Alignment explanation
Indices: 42973342--42973520 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
42973332 CGAATGATGT
* * * * *
42973342 CCGGGCTAAGTCCCGAAGGCTTTTGTTCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
42973383 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
42973423 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
42973463 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
42973503 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
42973521 ACAATCGAGC
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
40 91 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:42973476 original size:80 final size:80
Alignment explanation
Indices: 42973342--42973560 Score: 228
Period size: 80 Copynumber: 2.7 Consensus size: 80
42973332 CGAATGATGT
* * * * *
42973342 CCGGGCTAAGTCCCGAAGGCTTTTGTTCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
42973407 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* *
42973423 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATT
* *
42973487 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * * * * *
42973503 CCGGGCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCCGGTTAAATT-CCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAATTCCCGAAGG
42973561 TACGTGATTC
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.07
80 83 0.72
81 24 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:42973541 original size:40 final size:40
Alignment explanation
Indices: 42973393--42973546 Score: 141
Period size: 40 Copynumber: 3.9 Consensus size: 40
42973383 CCGGGTCAAT
* * * * * * *
42973393 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
42973433 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
42973473 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
42973513 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
42973547 TTAAATTCCG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 89 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:42976343 original size:13 final size:13
Alignment explanation
Indices: 42976327--42976380 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
42976317 AAAGAGAAAC
42976327 AAAAAAGAA-AATG
1 AAAAAAGAAGAA-G
42976340 AAAACGAAGAAGAAG
1 AAAA--AAGAAGAAG
42976355 AAAAAAGAAGAAG
1 AAAAAAGAAGAAG
*
42976368 AAGAAAGAA-AAG
1 AAAAAAGAAGAAG
42976380 A
1 A
42976381 TTAAAAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 4 0.11
13 21 0.57
15 10 0.27
16 2 0.05
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAGAAG
Found at i:42976364 original size:16 final size:16
Alignment explanation
Indices: 42976340--42976373 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42976330 AAAGAAAATG
*
42976340 AAAACGAAGAAGAAGA
1 AAAAAGAAGAAGAAGA
42976356 AAAAAGAAGAAGAAGA
1 AAAAAGAAGAAGAAGA
42976372 AA
1 AA
42976374 GAAAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGAAGAAGA
Found at i:42981877 original size:28 final size:28
Alignment explanation
Indices: 42981837--42981939 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
42981827 CCCTTTAGGT
* * *
42981837 CCAATCTCATTCATATGGCCCATCGGGC
1 CCAATCACTTTCATATGGCCCATCAGGC
*
42981865 CCAATCACTTTCATATGGCCTATCAGGC
1 CCAATCACTTTCATATGGCCCATCAGGC
* *
42981893 CCAATCACTTTCGTATGGCCCATCAAGC
1 CCAATCACTTTCATATGGCCCATCAGGC
42981921 CCAATCACTTTCATATGGC
1 CCAATCACTTTCATATGGC
42981940 TTGTAATAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (28 bp):
CCAATCACTTTCATATGGCCCATCAGGC
Found at i:42982787 original size:30 final size:30
Alignment explanation
Indices: 42982753--42982813 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42982743 TTCCCGAGCC
*
42982753 TAGGGGCGAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
42982783 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
42982813 T
1 T
42982814 TAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:42985757 original size:16 final size:16
Alignment explanation
Indices: 42985736--42985766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42985726 CAAACTTCCG
42985736 GCTTTTCGGAATTTCT
1 GCTTTTCGGAATTTCT
*
42985752 GCTTTTCGGTATTTC
1 GCTTTTCGGAATTTC
42985767 GAGATTTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (16 bp):
GCTTTTCGGAATTTCT
Found at i:42989523 original size:28 final size:28
Alignment explanation
Indices: 42989490--42989586 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
42989480 TATGGCCCAT
*
42989490 AATCAGTTTCATATGGCCTATCAGGCCC
1 AATCACTTTCATATGGCCTATCAGGCCC
* * *
42989518 AATCAGTTTCATATGGCCCATCAGTCCC
1 AATCACTTTCATATGGCCTATCAGGCCC
42989546 AATCACTTTCATATGGCTCGT-T-AGGCCC
1 AATCACTTTCATATGGC-C-TATCAGGCCC
42989574 AATCACTTTCATA
1 AATCACTTTCATA
42989587 GTCATGCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
28 60 0.97
29 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (28 bp):
AATCACTTTCATATGGCCTATCAGGCCC
Found at i:42991958 original size:40 final size:40
Alignment explanation
Indices: 42991911--42992094 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
42991901 GCTATTCATT
* *
42991911 CAAATGCCTTCGGGACGTAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
42991951 TAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
42991991 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
42992030 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
42992071 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
42992095 ACATCATTTG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 75 0.62
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:42992025 original size:79 final size:82
Alignment explanation
Indices: 42991911--42992095 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
42991901 GCTATTCATT
* * * *
42991911 CAAATGCCTTCGGGACGTAGCCCGG-TTATAATAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
42991974 GGATTTAGTAAC-CCGCA
65 GGATATAGTAACTCAGCA
* **
42991991 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
42992054 GATATAGTCACTTAGCA
66 GATATAGTAACTCAGCA
42992071 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42992096 CATCATTTGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAATAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTCAGCA
Found at i:43007802 original size:68 final size:67
Alignment explanation
Indices: 43007730--43007879 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
43007720 CATCATGTGT
* * * *
43007730 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
43007792 ATGTAG
62 ATGTAG
** * *
43007798 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
43007863 AG
66 AG
43007865 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
43007880 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:43007835 original size:64 final size:64
Alignment explanation
Indices: 43007754--43007937 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
43007744 AGACATTATG
* *
43007754 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
43007818 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
43007883 AA
63 AA
* * * *
43007885 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
43007938 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:43010173 original size:46 final size:45
Alignment explanation
Indices: 43010083--43010205 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
43010073 TATGTGTGCT
* *
43010083 AGTGTAAGACATGTCTGGGACATGCATCAGCCAAAGTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCAAAGTACAAGAGCC
* * * *
43010129 AGTGTAAGACATGTCTGGGACATGCATCGGTATTGAG-ACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA--AAGTACAAGAGCC
*
43010175 AGTGTAAGACATGTCTGGGACATACATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
43010206 CTCGCGACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 2 0.03
46 63 0.94
47 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCAAAGTACAAGAGCC
Found at i:43015282 original size:48 final size:48
Alignment explanation
Indices: 43015184--43015282 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 48
43015174 TGTCATTAGG
* * * * *
43015184 GATACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGA
1 GATACACTGAGTTGGCTTCAGACCATGATATTGGCACTTAGGGTACGA
* *
43015232 GATACACTGAGTTGGCTTCAGACCATGATATTGGCACTTAGTGTATGA
1 GATACACTGAGTTGGCTTCAGACCATGATATTGGCACTTAGGGTACGA
43015280 GAT
1 GAT
43015283 TCCCGAGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
GATACACTGAGTTGGCTTCAGACCATGATATTGGCACTTAGGGTACGA
Found at i:43019766 original size:42 final size:43
Alignment explanation
Indices: 43019659--43019766 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
43019649 ATACCAATGC
* * *
43019659 CATATCCTAGATATGGTCTTACATGTGATCTCTTATCGATACT
1 CATATCCCAGATATGGTCTTACATGAGATCTCATATCGATACT
* * * *
43019702 AATAGCCCAGCTATGGTCTTACATGA-AGTCTCATATCGAT-GT
1 CATATCCCAGATATGGTCTTACATGAGA-TCTCATATCGATACT
*
43019744 CATATCCCAGATATGCTCTTACA
1 CATATCCCAGATATGGTCTTACA
43019767 CGTAATCTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 21 0.40
43 32 0.60
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACATGAGATCTCATATCGATACT
Found at i:43026608 original size:40 final size:40
Alignment explanation
Indices: 43026549--43026735 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
43026539 CATTGGAATG
* * * *
43026549 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
43026589 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
43026629 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * * *
43026669 AAATCTGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
43026709 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
43026736 CGAGCGAGTC
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:43026651 original size:80 final size:80
Alignment explanation
Indices: 43026549--43026702 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
43026539 CATTGGAATG
* * ** *
43026549 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
43026614 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * * *
43026629 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCTGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
43026694 ATCGTGCGA
66 ATCGTGCGA
43026703 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:43026717 original size:80 final size:80
Alignment explanation
Indices: 43026553--43026735 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
43026543 GGAATGATAT
* ** * *
43026553 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
43026618 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * * *
43026633 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCTGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
43026698 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
43026713 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
43026736 CGAGCGAGTC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:43031366 original size:20 final size:21
Alignment explanation
Indices: 43031326--43031373 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
43031316 ATATATGTAT
* *
43031326 TTAATTATTAATAGATTTTTA
1 TTAATTATTAAAAGATATTTA
43031347 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
43031367 TTAATTA
1 TTAATTA
43031374 AATAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:43032319 original size:16 final size:16
Alignment explanation
Indices: 43032300--43032334 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43032290 GTTATGAATT
43032300 TATTGAATTA-ATATTA
1 TATTGAATTATAT-TTA
43032316 TATTGAATTATATTTA
1 TATTGAATTATATTTA
43032332 TAT
1 TAT
43032335 ATATTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
TATTGAATTATATTTA
Found at i:43032337 original size:2 final size:2
Alignment explanation
Indices: 43032324--43032361 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
43032314 TATATTGAAT
* *
43032324 TA TA TT TA TA TA TA T- TA TA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43032362 GTGTGTGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:43038262 original size:2 final size:2
Alignment explanation
Indices: 43038257--43038282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43038247 TATGTGTGTG
43038257 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
43038283 AAGCAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43040552 original size:9 final size:9
Alignment explanation
Indices: 43040521--43040551 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
43040511 AGACTAAATG
43040521 TTTTTCTTT
1 TTTTTCTTT
43040530 TTTTTCTTT
1 TTTTTCTTT
43040539 TTTTT-TTT
1 TTTTTCTTT
43040547 TTTTT
1 TTTTT
43040552 TGCACTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:43043487 original size:22 final size:22
Alignment explanation
Indices: 43043462--43043520 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
43043452 ATGCATCTAA
*
43043462 TATAATTTCTACAATTTTAATT
1 TATAATTTCTATAATTTTAATT
*
43043484 TATAAATTCT-TAATTTTAATT
1 TATAATTTCTATAATTTTAATT
43043505 TATAATTTCTATAATT
1 TATAATTTCTATAATT
43043521 AGGCAACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
TATAATTTCTATAATTTTAATT
Found at i:43043641 original size:16 final size:15
Alignment explanation
Indices: 43043611--43043650 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
43043601 AATAAATCAT
*
43043611 TAAAAATTTATAAAA
1 TAAAAATTTAAAAAA
43043626 TAAAAATATTAAAAAA
1 TAAAAAT-TTAAAAAA
43043642 TAATAAATT
1 TAA-AAATT
43043651 GATTCAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATTTAAAAAA
Found at i:43043809 original size:2 final size:2
Alignment explanation
Indices: 43043802--43043828 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43043792 ATTAAATTTA
43043802 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
43043829 ATAGGCCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43045025 original size:9 final size:9
Alignment explanation
Indices: 43045003--43045037 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
43044993 TTCTCTCGAT
43045003 TCTCTCGAAC
1 TCTCTC-AAC
*
43045013 TCTCTCAAG
1 TCTCTCAAC
43045022 TCTCTCAAC
1 TCTCTCAAC
43045031 TCTCTCA
1 TCTCTCA
43045038 TTTTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.20, C:0.40, G:0.06, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:43050729 original size:40 final size:40
Alignment explanation
Indices: 43050655--43050900 Score: 370
Period size: 40 Copynumber: 6.2 Consensus size: 40
43050645 AACCCAAGTA
* * *
43050655 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
43050694 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* *
43050734 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
43050774 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* * *
43050814 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* * *
43050854 CCTTCGGGATTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
43050894 CCTTCGG
1 CCTTCGG
43050901 ATCTTAGTCC
Statistics
Matches: 191, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.07
40 176 0.92
41 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:43050907 original size:80 final size:80
Alignment explanation
Indices: 43050655--43050900 Score: 422
Period size: 80 Copynumber: 3.1 Consensus size: 80
43050645 AACCCAAGTA
* * *
43050655 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
43050719 TCACTAGCACAAATG
66 TCACTAGCACAAATG
43050734 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
43050799 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * * *
43050814 CCTTCGAGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGATTTAGCCCAGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
43050879 TCACTAGCACAAATG
66 TCACTAGCACAAATG
43050894 CCTTCGG
1 CCTTCGG
43050901 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
79 13 0.08
80 145 0.92
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TCACTAGCACAAATG
Found at i:43051437 original size:2 final size:2
Alignment explanation
Indices: 43051430--43051461 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
43051420 CACTATACGC
*
43051430 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43051462 TCTCTAGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43052306 original size:13 final size:13
Alignment explanation
Indices: 43052288--43052313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43052278 TATTTTATTT
43052288 TTAACATAAAATA
1 TTAACATAAAATA
43052301 TTAACATAAAATA
1 TTAACATAAAATA
43052314 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:43060055 original size:44 final size:44
Alignment explanation
Indices: 43059990--43060115 Score: 216
Period size: 44 Copynumber: 2.9 Consensus size: 44
43059980 CAGTATTCGG
*
43059990 TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATAATTTGC
1 TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATAATTTGA
* * *
43060034 TGGTACAAAATTAGTTGAAAGCTCTAAAAGAGCTAATTATTTGA
1 TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATAATTTGA
43060078 TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATA
1 TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATA
43060116 TATCAATATC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.28
Consensus pattern (44 bp):
TAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATAATTTGA
Found at i:43067268 original size:49 final size:47
Alignment explanation
Indices: 43067208--43067375 Score: 158
Period size: 49 Copynumber: 3.5 Consensus size: 47
43067198 TCAATATAAA
* * *
43067208 ACCTGTCTGGGACGTGGCATCGACACCGATAGATGAGAGCCATTGTAAG
1 ACCTGTCTGGGACATGGCATCGAC-CAGAT-GATGAGAGCCAGTGTAAG
* * * * * *
43067257 ACCTGTTTGGGACATGGCATCGGCCTTGATGTATGAAAGTCAGTGTAGG
1 ACCTGTCTGGGACATGGCATCGACC-AGATG-ATGAGAGCCAGTGTAAG
* *
43067306 ACCTGTCTGGGACATGGCATCGACTTAGAT-ATGTGAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGAC-CAGATGATGAGAGCCAGTGTAAG
* *
43067353 ACCATGTTTGGAACATGGCATCG
1 ACC-TGTCTGGGACATGGCATCG
43067376 GCATCGTACC
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
47 16 0.16
48 19 0.20
49 62 0.64
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (47 bp):
ACCTGTCTGGGACATGGCATCGACCAGATGATGAGAGCCAGTGTAAG
Found at i:43071326 original size:12 final size:12
Alignment explanation
Indices: 43071309--43071363 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 12
43071299 TGTTGAATTT
43071309 TAATTAATTTTA
1 TAATTAATTTTA
43071321 TAATTAACTGAATTT-
1 TAATTAA-T---TTTA
43071336 TAATTAATTTTA
1 TAATTAATTTTA
43071348 TAATTAATTTTGA
1 TAATTAATTTT-A
43071361 TAA
1 TAA
43071364 ATTTTGGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.08
12 18 0.49
13 5 0.14
14 1 0.03
15 7 0.19
16 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (12 bp):
TAATTAATTTTA
Found at i:43071332 original size:27 final size:27
Alignment explanation
Indices: 43071302--43071354 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
43071292 ATGAACATGT
43071302 TGAATTTTAATTAATTTTATAATTAAC
1 TGAATTTTAATTAATTTTATAATTAAC
43071329 TGAATTTTAATTAATTTTATAATTAA
1 TGAATTTTAATTAATTTTATAATTAA
43071355 TTTTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
TGAATTTTAATTAATTTTATAATTAAC
Found at i:43071499 original size:16 final size:16
Alignment explanation
Indices: 43071473--43071506 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43071463 GTCCAAAATT
43071473 ATATGAATTAATTCTTA
1 ATATGAATTAATT-TTA
43071490 ATAT-AATTAATTTTA
1 ATATGAATTAATTTTA
43071505 AT
1 AT
43071507 TTATATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATGAATTAATTTTA
Found at i:43079939 original size:40 final size:40
Alignment explanation
Indices: 43079811--43079941 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
43079801 TATGCTGGAA
* * * *
43079811 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
43079851 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
43079891 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
43079931 ATTATATCCGG
1 ATTATATCCGG
43079942 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:43087858 original size:40 final size:40
Alignment explanation
Indices: 43087773--43087923 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
43087763 AATTGAATGA
* * *
43087773 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
43087813 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
43087854 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
43087893 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
43087924 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:43087937 original size:40 final size:40
Alignment explanation
Indices: 43087809--43087939 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
43087799 TATGCTGGAA
* * *
43087809 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
43087849 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
43087889 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
43087929 ATTATATCCGG
1 ATTATATCCGG
43087940 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:43090539 original size:40 final size:38
Alignment explanation
Indices: 43090495--43090597 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 38
43090485 GATTTGTACA
*
43090495 AATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCAC
1 AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTAGCAC
*
43090534 GAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCAC
1 -AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTAGCAC
*
43090574 AATTGCCTTCGGGTCTTAACCCGG
1 AA-TGCCTTCGGGTCTTAGCCCGG
43090598 TTATAATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 52 0.91
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGTCTTAGCCCGGATGAAGCACTAGCAC
Found at i:43099464 original size:2 final size:2
Alignment explanation
Indices: 43099457--43099498 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
43099447 GCTTCGCCAC
43099457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43099499 CTGTTCTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43099547 original size:27 final size:26
Alignment explanation
Indices: 43099495--43099554 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
43099485 ATATATATAT
*
43099495 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
43099521 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
43099548 ATATCTG
1 ATATCTG
43099555 GAAGTCTCGT
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:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Done.