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 81 of 292
Found at i:24939928 original size:62 final size:61
Alignment explanation
Indices: 24939826--24939947 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 61
24939816 TGCATTCACA
*
24939826 TTCTAATTCTGATTCTATTACCTGATACTGATTCTGATTCTG-TTACCTAATTTTGATTCTGG
1 TTCTAATTCTAATTCTATTACCTGATACTGATTCTGATTCTGATT--CTAATTTTGATTCTGG
* *
24939888 TTCTGATTCTAATTCTATTACCTGATACTGATTCTGATTCTGATTCTGATTTTGATTCTG
1 TTCTAATTCTAATTCTATTACCTGATACTGATTCTGATTCTGATTCTAATTTTGATTCTG
24939948 TCACCTGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
61 14 0.25
62 40 0.71
63 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (61 bp):
TTCTAATTCTAATTCTATTACCTGATACTGATTCTGATTCTGATTCTAATTTTGATTCTGG
Found at i:24939983 original size:43 final size:43
Alignment explanation
Indices: 24939831--24939989 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
24939821 TCACATTCTA
* * *
24939831 ATTCTGATTCT-ATTACCTGATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATT--CTGATTCTGATTTTGATTCTGTTACCTG
* * *
24939875 ATTTTGATTCTGGTTCTGATTCT-A-----ATTCTATTACCTG
1 ATTCTGATTCTGATTCTGATTCTGATTTTGATTCTGTTACCTG
* *
24939912 ATACTGATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGATTCTGATTTTGATTCTGTTACCTG
*
24939955 ATTCTGATTCTGATTCTGATTCTCATTTTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGATTTTGATTCT
24939990 AATTCTGATA
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
37 31 0.32
38 1 0.01
42 1 0.01
43 51 0.53
44 10 0.10
45 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (43 bp):
ATTCTGATTCTGATTCTGATTCTGATTTTGATTCTGTTACCTG
Found at i:24940013 original size:6 final size:6
Alignment explanation
Indices: 24939825--24939998 Score: 140
Period size: 6 Copynumber: 28.3 Consensus size: 6
24939815 TTGCATTCAC
* * *
24939825 ATTCTA ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
24939875 ATTTTG ATTCTG GTTCTG ATTCTA ATTCT- ATTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
24939924 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* * *
24939973 ATTCTC ATTTTG ATTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT
24939999 AATCTTTCTT
Statistics
Matches: 134, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
5 9 0.07
6 109 0.81
7 9 0.07
8 7 0.05
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24942311 original size:40 final size:39
Alignment explanation
Indices: 24942266--24942473 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
24942256 CGGAATACAA
*
24942266 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24942306 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24942346 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
24942386 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
24942426 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
24942466 CCGGATAT
1 CCGGATAT
24942474 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:24942406 original size:80 final size:81
Alignment explanation
Indices: 24942266--24942471 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
24942256 CGGAATACAA
* * *
24942266 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
24942330 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
24942346 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
24942409 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
24942426 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
24942472 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:24950277 original size:40 final size:39
Alignment explanation
Indices: 24950233--24950440 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
24950223 TCGAATACAA
*
24950233 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24950273 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
24950313 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
24950353 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
24950393 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
24950433 CCGGATAT
1 CCGGATAT
24950441 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:24950373 original size:80 final size:81
Alignment explanation
Indices: 24950233--24950438 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
24950223 TCGAATACAA
* * *
24950233 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
24950297 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
24950313 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
24950376 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
24950393 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
24950439 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:24955357 original size:33 final size:33
Alignment explanation
Indices: 24955312--24955401 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
24955302 CTATTTGTGT
*
24955312 TTACTGTCCCAACAGACTATCTCTGTTCTGTAC
1 TTACTATCCCAACAGACTATCTCTGTTCTGTAC
* * * *
24955345 TTACTATTCCAAC-GAGCTATTTCTGTTTTGTAT
1 TTACTATCCCAACAGA-CTATCTCTGTTCTGTAC
* *
24955378 TTACTGTCCCAACAAACTATCTCT
1 TTACTATCCCAACAGACTATCTCT
24955402 ATGGATGCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
32 2 0.04
33 43 0.93
34 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (33 bp):
TTACTATCCCAACAGACTATCTCTGTTCTGTAC
Found at i:24961796 original size:26 final size:26
Alignment explanation
Indices: 24961767--24961935 Score: 115
Period size: 26 Copynumber: 6.8 Consensus size: 26
24961757 TCCTCTCTCA
*
24961767 AGCCATATAA-CAGGAAGGTCACAAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
24961793 AGCCATTAATCGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* ***
24961819 AGCC--T-ATCAGGAAGCTTA-TTCG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * *
24961841 AGCTATATAAT-AAGAAGCTCA-TAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
24961866 AGCCA-TAATCAGGAAGTTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * *
24961891 A-ACTTTCAATCAGGAAGCTCACGAAG
1 AGCCATT-AATCAGGAAGCTCACAAAG
*
24961917 AGCCTTTAATCAGG-AGCTC
1 AGCCATTAATCAGGAAGCTC
24961936 TGAACAGCCA
Statistics
Matches: 112, Mismatches: 21, Indels: 21
0.73 0.14 0.14
Matches are distributed among these distances:
22 4 0.04
23 15 0.13
24 10 0.09
25 28 0.25
26 51 0.46
27 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:24962097 original size:65 final size:65
Alignment explanation
Indices: 24961981--24962124 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 65
24961971 TATCAAGATG
* * *
24961981 CTCACAAAGAGCTGCATTTATGTCTGTAACATATGAAGGACTACAACCGATCATAAAATATGACA
1 CTCACAAAGAGCTGCATTTATGTCTGCAACATATGAAGGACTACAACCGATCACAAAATAGGACA
* * * * * * * *
24962046 CTCACAAATAGTTGCGTTTGTGTCTGCAATATATGCAGGA-TCACAATCGATCACATAATAGGAC
1 CTCACAAAGAGCTGCATTTATGTCTGCAACATATGAAGGACT-ACAACCGATCACAAAATAGGAC
*
24962110 G
65 A
24962111 CTCACAAAGAGCTG
1 CTCACAAAGAGCTG
24962125 TGGTAATCCG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
64 1 0.02
65 63 0.98
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (65 bp):
CTCACAAAGAGCTGCATTTATGTCTGCAACATATGAAGGACTACAACCGATCACAAAATAGGACA
Found at i:24971244 original size:29 final size:29
Alignment explanation
Indices: 24971109--24971243 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
24971099 GCTTGGAAGG
24971109 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
24971138 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
24971167 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
24971196 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
24971225 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
24971244 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:24979263 original size:29 final size:29
Alignment explanation
Indices: 24979128--24979262 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
24979118 GCTTGGAAGG
24979128 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
24979157 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
24979186 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
24979215 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
24979244 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
24979263 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:24984825 original size:23 final size:24
Alignment explanation
Indices: 24984774--24984825 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
24984764 CCTTGTAATG
* *
24984774 GGAAGCTCACACAGAGCCATTTCA
1 GGAAGCTCACAAAGAGCCATATCA
*
24984798 GGAAGCTCATAAAGAGCC-TATCA
1 GGAAGCTCACAAAGAGCCATATCA
24984821 GGAAG
1 GGAAG
24984826 GTTACCGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATCA
Found at i:24984987 original size:25 final size:25
Alignment explanation
Indices: 24984959--24985007 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24984949 AAATAGCTAA
*
24984959 TTTAA-CGGAAAGTTCATGAAGAGCC
1 TTTAATCGGAAAGCTCAT-AAGAGCC
*
24984984 TTTAATCGGAATGCTCATAAGAGC
1 TTTAATCGGAAAGCTCATAAGAGC
24985008 TAAGGTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
TTTAATCGGAAAGCTCATAAGAGCC
Found at i:24992377 original size:14 final size:14
Alignment explanation
Indices: 24992360--24992390 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24992350 AGTAAAATAT
*
24992360 TTTCTTAAAAATGA
1 TTTCTGAAAAATGA
24992374 TTTCTGAAAAATGA
1 TTTCTGAAAAATGA
24992388 TTT
1 TTT
24992391 ACTTTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (14 bp):
TTTCTGAAAAATGA
Found at i:24995162 original size:31 final size:30
Alignment explanation
Indices: 24995126--24995187 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
24995116 GGAGATGGAA
*
24995126 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAACGGAAGAAAAA-AAAGCTT
*
24995157 AAAGTTGAAGAACGGAAGAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
24995187 A
1 A
24995188 CCTGGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.15
Consensus pattern (30 bp):
AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
Found at i:24995417 original size:2 final size:2
Alignment explanation
Indices: 24995410--24995449 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
24995400 TTCTAGGAAT
24995410 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
24995450 AAAGAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24997811 original size:30 final size:30
Alignment explanation
Indices: 24997775--24997834 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24997765 TTCCCAAGCC
* *
24997775 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
24997805 TAGGGGCAAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
24997835 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:25001185 original size:40 final size:40
Alignment explanation
Indices: 25001129--25001375 Score: 290
Period size: 40 Copynumber: 6.2 Consensus size: 40
25001119 CGGAATTTAA
* *
25001129 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25001169 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25001209 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25001248 CC-GAAATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25001287 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCCTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
25001327 CCGAATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25001368 CCGGATAT
1 CCGGATAT
25001376 CATTTGAATA
Statistics
Matches: 179, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.02
39 66 0.37
40 80 0.45
41 26 0.15
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25001259 original size:79 final size:79
Alignment explanation
Indices: 25001115--25001373 Score: 292
Period size: 79 Copynumber: 3.3 Consensus size: 79
25001105 GAATCACATA
* * * * **
25001115 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGG-CATAGCCCGAATATA
25001178 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* *
25001194 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGAA-ATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCATAGCCCGAATA-TAG
25001258 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * * * *
25001273 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCCTAGTCCGAATATAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG-GCATAGCCCGAATATAG
* * *
25001337 TCACTTAGCACAAAAG
65 TAAC-TCGCACAAATG
*
25001353 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAACCCGGAT
25001374 ATCATTTGAA
Statistics
Matches: 155, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
78 36 0.23
79 62 0.40
80 46 0.30
81 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCATAGCCCGAATATAGT
AACTCGCACAAATG
Found at i:25001273 original size:39 final size:39
Alignment explanation
Indices: 25001141--25001370 Score: 268
Period size: 39 Copynumber: 5.8 Consensus size: 39
25001131 GGATATAGCT
* * **
25001141 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
* *
25001181 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAGTA
*
25001221 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-AATTAGTA
25001260 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAGTA
* * *
25001299 ACTCGCACAAATGCCTTC-GGATCCTAGTCCGAATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGAAT-TAGTA
* *
25001339 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCG
25001371 GATATCATTT
Statistics
Matches: 167, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 72 0.43
40 65 0.39
41 24 0.14
42 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
Found at i:25005306 original size:15 final size:15
Alignment explanation
Indices: 25005286--25005316 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25005276 TACTTTTGAG
25005286 AAATTATATGTTGGT
1 AAATTATATGTTGGT
25005301 AAATTATATGTTGGT
1 AAATTATATGTTGGT
25005316 A
1 A
25005317 TGTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (15 bp):
AAATTATATGTTGGT
Found at i:25006145 original size:22 final size:23
Alignment explanation
Indices: 25006106--25006149 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
25006096 TGGCTGGGAA
*
25006106 GGAACGAGAGAAAAGGAAAGAAT
1 GGAAAGAGAGAAAAGGAAAGAAT
25006129 GGAAAGAGAG-AAAGGAAAGAA
1 GGAAAGAGAGAAAAGGAAAGAA
25006150 ATAAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.36, T:0.02
Consensus pattern (23 bp):
GGAAAGAGAGAAAAGGAAAGAAT
Found at i:25009584 original size:29 final size:28
Alignment explanation
Indices: 25009550--25009652 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
25009540 TACTCAATCA
*
25009550 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
25009579 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
25009608 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
25009637 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
25009653 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:25013929 original size:18 final size:19
Alignment explanation
Indices: 25013908--25013949 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25013898 AAAAGTAATT
* *
25013908 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
25013926 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
25013944 TAAAAA
1 TAAAAA
25013950 TAATAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:25013937 original size:7 final size:6
Alignment explanation
Indices: 25013917--25013957 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
25013907 TTAAAAAGAT
* *
25013917 AAATAA AGATAA AAGTAA AAATAA AAATAA AAATAA TAAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA -AAAT
25013958 GAAAGTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:25015267 original size:29 final size:30
Alignment explanation
Indices: 25015235--25015291 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
25015225 ACCATGAATA
*
25015235 TAATAAAACTAACAA-ATTCAACCAAAAAC
1 TAATAAAACTAACAAGACTCAACCAAAAAC
* *
25015264 TAATTACACTAACAAGACTCAACCAAAA
1 TAATAAAACTAACAAGACTCAACCAAAA
25015292 GCAATCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.18
Consensus pattern (30 bp):
TAATAAAACTAACAAGACTCAACCAAAAAC
Found at i:25020787 original size:40 final size:40
Alignment explanation
Indices: 25020702--25020853 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
25020692 AAATTGAATG
* * * ** *
25020702 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCACT
* * * *
25020742 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTC-ACT
*
25020782 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCACT
* *
25020822 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
25020854 ACATGCTTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 85 0.93
41 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCACT
Found at i:25020867 original size:40 final size:39
Alignment explanation
Indices: 25020743--25020869 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
25020733 CTGGAAATTT
* * *
25020743 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGCTTA
* * *
25020783 TATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C-TTA
25020823 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGCTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GCTTA
25020863 TATCCGG
1 TATCCGG
25020870 TTATATTCCG
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 68 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGCTTA
Found at i:25039037 original size:30 final size:30
Alignment explanation
Indices: 25039003--25039063 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25038993 TTCCCAAGCC
25039003 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
25039033 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
25039063 T
1 T
25039064 GAGTTAAGGA
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:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:25041073 original size:2 final size:2
Alignment explanation
Indices: 25041066--25041092 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25041056 ATGACATGTG
25041066 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 T
25041093 GACTAGTCTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25045409 original size:30 final size:30
Alignment explanation
Indices: 25045373--25045533 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
25045363 GACAAGATTG
* * * * *
25045373 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
25045403 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
25045431 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25045461 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25045491 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25045520 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25045534 GATTCACTAT
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 20 0.16
30 76 0.62
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:25045464 original size:58 final size:58
Alignment explanation
Indices: 25045373--25045533 Score: 227
Period size: 58 Copynumber: 2.8 Consensus size: 58
25045363 GACAAGATTG
* * * * * *
25045373 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAATTATATA
25045431 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTG--AATTATATA
25045491 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCG
25045534 GATTCACTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
57 2 0.02
58 41 0.44
59 20 0.21
60 31 0.33
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAATTATATA
Found at i:25053388 original size:30 final size:30
Alignment explanation
Indices: 25053352--25053507 Score: 186
Period size: 30 Copynumber: 5.5 Consensus size: 30
25053342 GACAAGATTG
* * * * *
25053352 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
25053382 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
25053410 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25053440 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25053469 GCACTAAGTGTGCGAGCTG-----TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25053494 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25053508 GATTCACTAT
Statistics
Matches: 117, Mismatches: 5, Indels: 13
0.87 0.04 0.10
Matches are distributed among these distances:
25 20 0.17
27 2 0.02
28 22 0.19
29 25 0.21
30 46 0.39
31 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:25053485 original size:59 final size:58
Alignment explanation
Indices: 25053352--25053507 Score: 189
Period size: 58 Copynumber: 2.8 Consensus size: 58
25053342 GACAAGATTG
* * * * * * *
25053352 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTGAATATATA
25053410 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTG--AATATATA
25053469 GCACTAAGTGTGCGAGCTG-----TATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCG
25053508 GATTCACTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
54 20 0.22
57 2 0.02
58 41 0.46
59 26 0.29
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGTCTGAATATATA
Found at i:25053518 original size:25 final size:25
Alignment explanation
Indices: 25053381--25053507 Score: 110
Period size: 29 Copynumber: 4.6 Consensus size: 25
25053371 AAAATTGTAC
*
25053381 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-ATG--TATAT
*
25053409 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGATG-----TATAT
*
25053439 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGATG----TATAT
*
25053468 AGCACTAAGTGTGCGAGCTGTATAT
1 AGCACTAAGTGTGCGAGATGTATAT
25053493 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25053508 GATTCACTAT
Statistics
Matches: 94, Mismatches: 2, Indels: 9
0.90 0.02 0.09
Matches are distributed among these distances:
25 20 0.21
27 2 0.02
28 17 0.18
29 28 0.30
30 27 0.29
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (25 bp):
AGCACTAAGTGTGCGAGATGTATAT
Found at i:25059584 original size:40 final size:39
Alignment explanation
Indices: 25059540--25059665 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
25059530 GGGACTCAAC
25059540 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCTCGAAAGCCTTCGGATCTTAGT
* * * *
25059580 CCGGATTTAGTAACTCGCAT-GTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGC-TCGAAAGCCTTCGGATCTTAGT
* *
25059620 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCTCGAAAGCCTTC-GGATCTTAGT
25059660 CCGGAT
1 CCGGAT
25059666 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
40 63 0.90
41 7 0.10
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCTCGAAAGCCTTCGGATCTTAGT
Found at i:25069317 original size:20 final size:20
Alignment explanation
Indices: 25069284--25069324 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25069274 AGCACATGTA
25069284 TTCATAAAAATTCAAAATTT
1 TTCATAAAAATTCAAAATTT
* * *
25069304 TTCATCAAATTTCACAATTT
1 TTCATAAAAATTCAAAATTT
25069324 T
1 T
25069325 ACATTTTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
TTCATAAAAATTCAAAATTT
Found at i:25071369 original size:39 final size:39
Alignment explanation
Indices: 25071306--25071518 Score: 223
Period size: 39 Copynumber: 5.5 Consensus size: 39
25071296 CACTGCATGA
* * * * * *
25071306 AAGTGCTATCAAGAGTACCGAAGTACAATAGAGGCATGT
1 AAGTGCAATCAGGGGTATCGAAGTACGATAGAGGCACGT
* * *
25071345 AAGTGCAATCAGGGGTATCAAAGTACAACA-AGGGCACGT
1 AAGTGCAATCAGGGGTATCGAAGTACGATAGA-GGCACGT
* * *
25071384 AATTGCAATTAGGGGTATCGAAGTACGACAG-GGCCACGT
1 AAGTGCAATCAGGGGTATCGAAGTACGATAGAGG-CACGT
* * *
25071423 AAGTGCGATCAGGGGTACCGAAGTACGATAGGGGCACGT
1 AAGTGCAATCAGGGGTATCGAAGTACGATAGAGGCACGT
* * *
25071462 AAGTGCAATTAGGGGTACCGAAGTACGATAGGGGCACGT
1 AAGTGCAATCAGGGGTATCGAAGTACGATAGAGGCACGT
*
25071501 AAGTGCGATCAGGGGTAT
1 AAGTGCAATCAGGGGTAT
25071519 AATTTTATAA
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.02
39 144 0.97
40 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.18
Consensus pattern (39 bp):
AAGTGCAATCAGGGGTATCGAAGTACGATAGAGGCACGT
Found at i:25071416 original size:19 final size:20
Alignment explanation
Indices: 25071394--25071517 Score: 98
Period size: 19 Copynumber: 6.3 Consensus size: 20
25071384 AATTGCAATT
25071394 AGGGGTATCG-AAGTACGA-C
1 AGGGGTA-CGTAAGTACGATC
** *
25071413 AGGGCCACGTAAGTGCGATC
1 AGGGGTACGTAAGTACGATC
25071433 AGGGGTACCG-AAGTACGAT-
1 AGGGGTA-CGTAAGTACGATC
* * * *
25071452 AGGGGCACGTAAGTGCAATT
1 AGGGGTACGTAAGTACGATC
25071472 AGGGGTACCG-AAGTACGAT-
1 AGGGGTA-CGTAAGTACGATC
* *
25071491 AGGGGCACGTAAGTGCGATC
1 AGGGGTACGTAAGTACGATC
25071511 AGGGGTA
1 AGGGGTA
25071518 TAATTTTATA
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
18 6 0.07
19 39 0.48
20 33 0.40
21 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.38, T:0.16
Consensus pattern (20 bp):
AGGGGTACGTAAGTACGATC
Found at i:25071446 original size:20 final size:19
Alignment explanation
Indices: 25071419--25071517 Score: 94
Period size: 20 Copynumber: 5.1 Consensus size: 19
25071409 CGACAGGGCC
25071419 ACGTAAGTGCGATCAGGGGT
1 ACGTAAGTGCGAT-AGGGGT
* *
25071439 ACCG-AAGTACGATAGGGGC
1 A-CGTAAGTGCGATAGGGGT
*
25071458 ACGTAAGTGCAATTAGGGGT
1 ACGTAAGTGCGA-TAGGGGT
* *
25071478 ACCG-AAGTACGATAGGGGC
1 A-CGTAAGTGCGATAGGGGT
25071497 ACGTAAGTGCGATCAGGGGT
1 ACGTAAGTGCGAT-AGGGGT
25071517 A
1 A
25071518 TAATTTTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
18 4 0.06
19 27 0.43
20 28 0.44
21 4 0.06
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.17
Consensus pattern (19 bp):
ACGTAAGTGCGATAGGGGT
Found at i:25071458 original size:78 final size:78
Alignment explanation
Indices: 25071320--25071517 Score: 263
Period size: 78 Copynumber: 2.5 Consensus size: 78
25071310 GCTATCAAGA
* * * * *
25071320 GTACCGAAGTACAATAGAGG-CATGTAAGTGCAATCAGGGGTATCAAAGTACAACAAGGGCACGT
1 GTACCGAAGTACGACAG-GGCCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGT
*
25071384 AATTGCAATTAGGG
65 AAGTGCAATTAGGG
* * * * *
25071398 GTATCGAAGTACGACAGGGCCACGTAAGTGCGATCAGGGGTACCGAAGTACGATAGGGGCACGTA
1 GTACCGAAGTACGACAGGGCCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGTA
25071463 AGTGCAATTAGGG
66 AGTGCAATTAGGG
* *
25071476 GTACCGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTA
1 GTACCGAAGTACGACAGGGCCACGTAAGTGCGATCAGGGGTA
25071518 TAATTTTATA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
77 2 0.02
78 103 0.98
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (78 bp):
GTACCGAAGTACGACAGGGCCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGCACGTA
AGTGCAATTAGGG
Found at i:25071515 original size:117 final size:117
Alignment explanation
Indices: 25071306--25071518 Score: 291
Period size: 117 Copynumber: 1.8 Consensus size: 117
25071296 CACTGCATGA
* * *
25071306 AAGTGCTATCAAGAGTACCGAAGTACAATAGAGGCATGTAAGTGCAATCAGGGGTATCAAAGTAC
1 AAGTGCGATCAAGAGTACCGAAGTACAATAGAGGCACGTAAGTGCAATCAGGGGTACCAAAGTAC
* *
25071371 AACAAGGGCACGTAATTGCAATTAGGGGTATCGAAGTACGACAGGGCCACGT
66 AACAAGGGCACGTAAGTGCAATCAGGGGTATCGAAGTACGACAGGGCCACGT
* * * * * *
25071423 AAGTGCGATCAGGGGTACCGAAGTACGATAGGGGCACGTAAGTGCAATTAGGGGTACCGAAGTAC
1 AAGTGCGATCAAGAGTACCGAAGTACAATAGAGGCACGTAAGTGCAATCAGGGGTACCAAAGTAC
* * * *
25071488 GATAGGGGCACGTAAGTGCGATCAGGGGTAT
66 AACAAGGGCACGTAAGTGCAATCAGGGGTAT
25071519 AATTTTATAA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 81 1.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.18
Consensus pattern (117 bp):
AAGTGCGATCAAGAGTACCGAAGTACAATAGAGGCACGTAAGTGCAATCAGGGGTACCAAAGTAC
AACAAGGGCACGTAAGTGCAATCAGGGGTATCGAAGTACGACAGGGCCACGT
Found at i:25073172 original size:15 final size:16
Alignment explanation
Indices: 25073152--25073181 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25073142 GAAAATTGCC
25073152 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
25073167 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
25073182 TGGAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:25075834 original size:40 final size:39
Alignment explanation
Indices: 25075669--25075852 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
25075659 AAATTGAATG
* * *
25075669 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
25075709 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
25075749 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
25075789 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
25075828 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
25075853 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:25075877 original size:80 final size:81
Alignment explanation
Indices: 25075709--25075897 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
25075699 GCTGGAAATT
* * * *
25075709 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
25075774 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
25075790 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
25075853 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
25075869 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
25075898 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:25083952 original size:40 final size:39
Alignment explanation
Indices: 25083787--25083970 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
25083777 AAATTGAATG
* * *
25083787 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
25083827 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
25083867 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
25083907 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
25083946 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
25083971 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:25083995 original size:80 final size:81
Alignment explanation
Indices: 25083827--25084015 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
25083817 GCTGGAAATT
* * * *
25083827 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
25083892 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
25083908 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
25083971 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
25083987 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
25084016 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:25088106 original size:15 final size:16
Alignment explanation
Indices: 25088086--25088115 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25088076 GAAAATTGCC
25088086 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
25088101 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
25088116 TGGAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:25091116 original size:40 final size:40
Alignment explanation
Indices: 25091056--25091219 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
25091046 TGGGATTTAA
* ** *
25091056 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
25091096 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
25091136 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
** * * * *
25091176 CCGGACGTAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
25091216 CCGG
1 CCGG
25091220 GTATCATTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:25091203 original size:80 final size:80
Alignment explanation
Indices: 25091056--25091219 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
25091046 TGGGATTTAA
* ** ** * *
25091056 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACGTAATAACTAGCACAAATG
*
25091121 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
** * * *
25091136 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACGTAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACGTAATAACTAGCACAAAT
25091200 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
25091216 CCGG
1 CCGG
25091220 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACGTAATAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:25095915 original size:46 final size:46
Alignment explanation
Indices: 25095865--25095987 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
25095855 CGAGGGCTAG
* * *
25095865 TGTAAGACATGTCTGGGACAAGCATCGGCCACGAGACG-TAAGCCAA
1 TGTAAGACATGTCTAGGACAAGCATCGACCACGAGAGGAT-AGCCAA
* * * *
25095911 TGTAAGACATGTCTAGGACATGCATCGACTACGAGAGGATAGTCAG
1 TGTAAGACATGTCTAGGACAAGCATCGACCACGAGAGGATAGCCAA
*
25095957 TGTAAGACCATGTCTAGGACATGGCATCGAC
1 TGTAAGA-CATGTCTAGGACA-AGCATCGAC
25095988 TTGAGATATG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 44 0.67
47 14 0.21
48 8 0.12
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (46 bp):
TGTAAGACATGTCTAGGACAAGCATCGACCACGAGAGGATAGCCAA
Found at i:25096005 original size:47 final size:47
Alignment explanation
Indices: 25095814--25096032 Score: 184
Period size: 47 Copynumber: 4.7 Consensus size: 47
25095804 TTATGAGAAT
* * * *
25095814 CAGTGCAAGACCATGTCT-GGTACATGGCATCGACATTGAGGCGA-GGGC
1 CAGTGTAAGACCATGTCTAGG-ACATGGCATCGAC-TCGA-GAGATGAGC
* * * * * *
25095862 TAGTGTAAGA-CATGTCTGGGACA-AGCATCGGCCACGAGACG-TAAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GACTCGAGA-GATGAGC
* *
25095908 CAATGTAAGA-CATGTCTAGGACAT-GCATCGACTACGAGAGGAT-AGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACT-CGAGA-GATGAGC
* *
25095954 CAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATATGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGAGATGAGC
*
25096001 CAGTGTAAGACCGTGTCTAGGACATGGCATCG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCG
25096033 GCACCTTACC
Statistics
Matches: 140, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 54 0.39
47 64 0.46
48 19 0.14
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGAGATGAGC
Found at i:25096024 original size:140 final size:141
Alignment explanation
Indices: 25095771--25096034 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 141
25095761 TGTGAGCTAG
* * * *
25095771 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAATCAGTGCAAGACCATGTCTGGTA
1 TGTAAGACATGTCTAGGACATGCATCGACCACATGAGGAGAATCAGTGCAAGACCATGTCTGGTA
* * * *
25095836 CATGGCATCGACATTGAGGCGAGGGCTAGTGTAAGACATGTCTGGGACA-AGCATCGGCCACGAG
66 CATGGCATCGACATTGAGGAGAGAGCCAGTGTAAGACATGTCTAGGACATAGCATCGGCCACGAG
25095900 ACGTAAGCCAA
131 ACGTAAGCCAA
* * * *
25095911 TGTAAGACATGTCTAGGACATGCATCGACTACGA-GAGGATAGTCAGTGTAAGACCATGTCTAGG
1 TGTAAGACATGTCTAGGACATGCATCGACCAC-ATGAGGAGAATCAGTGCAAGACCATGTCT-GG
* * *
25095975 -ACATGGCATCGAC-TTGA-GATATGAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCGGC
64 TACATGGCATCGACATTGAGGAGA-GAGCCAGTGTAAGA-CATGTCTAGGACATAGCATCGGC
25096035 ACCTTACCTT
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 2 0.02
139 16 0.15
140 75 0.72
141 11 0.11
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (141 bp):
TGTAAGACATGTCTAGGACATGCATCGACCACATGAGGAGAATCAGTGCAAGACCATGTCTGGTA
CATGGCATCGACATTGAGGAGAGAGCCAGTGTAAGACATGTCTAGGACATAGCATCGGCCACGAG
ACGTAAGCCAA
Found at i:25103464 original size:46 final size:46
Alignment explanation
Indices: 25103414--25103535 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 46
25103404 GACAAGGGCT
* * ** *
25103414 AGTGTAAGATATGTTTGGGACATGCATTGGCCACGAGACG-TAAGCC
1 AGTGTAAGACATGTTTAGGACATGCATCAGCCACGAGAGGAT-AGCC
* * *
25103460 AGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGAGGATAGTC
1 AGTGTAAGACATGTTTAGGACATGCATCAGCCACGAGAGGATAGCC
*
25103506 AGTGTAAGACCATGTTTCGGACATGGCATC
1 AGTGTAAGA-CATGTTTAGGACAT-GCATC
25103536 GGCTTAAGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 45 0.71
47 13 0.21
48 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTTTAGGACATGCATCAGCCACGAGAGGATAGCC
Found at i:25103481 original size:93 final size:92
Alignment explanation
Indices: 25103318--25103487 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 92
25103308 TCGTGTGTGA
* * *
25103318 GCTAGTGTAAGACGTGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTTAAGACCATCTCT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATGACGAGAGCCAGTTAAGACCATCTCT
*
25103383 GGGACATGGCATCGACATTGAGACAAGG
66 AGGACAT-GCATCGACATTGAGACAAGG
* ** *
25103411 GCTAGTGTAAGATATGTTTGGGACATGCATTGGCCACGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATGACG-AGAGCCAGT-TAAGACCATC
25103473 TCTAGGACATGCATC
63 TCTAGGACATGCATC
25103488 AGCTACGAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
92 5 0.08
93 54 0.82
94 7 0.11
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATGACGAGAGCCAGTTAAGACCATCTCT
AGGACATGCATCGACATTGAGACAAGG
Found at i:25111834 original size:17 final size:17
Alignment explanation
Indices: 25111812--25111846 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25111802 GTAAATACAC
25111812 TAAGTTATATAAAACTA
1 TAAGTTATATAAAACTA
25111829 TAAGTTATATAAAACTA
1 TAAGTTATATAAAACTA
25111846 T
1 T
25111847 CCTGTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
TAAGTTATATAAAACTA
Found at i:25113252 original size:20 final size:23
Alignment explanation
Indices: 25113216--25113259 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
25113206 GATATATTAG
25113216 AAATGCTAACTAAAATGT-CTTA
1 AAATGCTAACTAAAATGTACTTA
25113238 AAATG-TAAC-AAAATGTACTTA
1 AAATGCTAACTAAAATGTACTTA
25113259 A
1 A
25113260 GTGCAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATGCTAACTAAAATGTACTTA
Found at i:25120059 original size:29 final size:29
Alignment explanation
Indices: 25119973--25120071 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
25119963 AGGATTGCCT
* * *
25119973 TTGTGGCGATCTCTGTTAAAAGGAAGCCT
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
*
25120002 TTGTGGTGATCTCTATTATAAGGAAGCCC
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
* * *
25120031 TTGTGACGATCTTTATTATAAGAAAGCCC
1 TTGTGGCGATCTCTATTATAAGGAAGCCC
* *
25120060 TTCTGGTGATCT
1 TTGTGGCGATCT
25120072 GATCGACTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (29 bp):
TTGTGGCGATCTCTATTATAAGGAAGCCC
Found at i:25124636 original size:15 final size:15
Alignment explanation
Indices: 25124608--25124637 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25124598 CTTGTCATAC
25124608 CATCGTTTGGTTTTT
1 CATCGTTTGGTTTTT
25124623 CATC-TTTGGTTTTT
1 CATCGTTTGGTTTTT
25124637 C
1 C
25124638 CTTGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.60
Consensus pattern (15 bp):
CATCGTTTGGTTTTT
Found at i:25131379 original size:17 final size:17
Alignment explanation
Indices: 25131332--25131383 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
25131322 ATCCAACAAA
25131332 GCCCGGTAAATGATAAT
1 GCCCGGTAAATGATAAT
** *
25131349 GCCTGCAATAAATGATATT
1 GCC--CGGTAAATGATAAT
25131368 GCCCGGTAAATGATAA
1 GCCCGGTAAATGATAA
25131384 ATGGTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (17 bp):
GCCCGGTAAATGATAAT
Found at i:25137323 original size:29 final size:28
Alignment explanation
Indices: 25137289--25137386 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
25137279 TCTAGCGTTA
25137289 TGGCTATCTCTGTGAAAATGATGCCTTTG
1 TGGCTATCTCTGT-AAAATGATGCCTTTG
* * * *
25137318 TGGCTATCTCAGTAAAATGA-ACATTGTTA
1 TGGCTATCTCTGTAAAATGATGC-CT-TTG
* *
25137347 TGGCTATCACTGTTAAAAGGATGCCTTTG
1 TGGCTATCTCTG-TAAAATGATGCCTTTG
*
25137376 TGGTTATCTCT
1 TGGCTATCTCT
25137387 ATCAAATTGT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.02
28 8 0.15
29 35 0.66
30 8 0.15
31 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (28 bp):
TGGCTATCTCTGTAAAATGATGCCTTTG
Found at i:25137434 original size:28 final size:29
Alignment explanation
Indices: 25137402--25137462 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
25137392 ATTGTGCAAT
*
25137402 CTCTGTTA-AAGGAATGCC-TTATGGTAA-A
1 CTCTGTTATAA-G-ATGCCTTTATGGCAAGA
25137430 CTCTGTTATAAGATGCCTTTATGGCAAGA
1 CTCTGTTATAAGATGCCTTTATGGCAAGA
25137459 CTCT
1 CTCT
25137463 AAAAGGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.17
28 17 0.59
29 7 0.24
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (29 bp):
CTCTGTTATAAGATGCCTTTATGGCAAGA
Found at i:25145751 original size:106 final size:106
Alignment explanation
Indices: 25145620--25145829 Score: 357
Period size: 106 Copynumber: 2.0 Consensus size: 106
25145610 TAGGAAAAGT
*
25145620 CTGATGAGATAGCTCATTGCTATATGTTGGTAAACATGACCAACACTCAGTATAAACAAATAGAG
1 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
**
25145685 AGCTGTAAGACTGATAAAGTGATTCTAGATAAGCTAGAATC
66 AGCAATAAGACTGATAAAGTGATTCTAGATAAGCTAGAATC
* *
25145726 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCGGTATAAGCAAATAGAG
1 CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
* *
25145791 ATCAATAAGACTGCTAAAGTGATTCTAGATAAGCTAGAA
66 AGCAATAAGACTGATAAAGTGATTCTAGATAAGCTAGAA
25145830 GACATGTTCG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (106 bp):
CTGATGAGATAGCTCATTGCTATATGTTGGCAAACATGACCAACACTCAGTATAAACAAATAGAG
AGCAATAAGACTGATAAAGTGATTCTAGATAAGCTAGAATC
Found at i:25147778 original size:16 final size:17
Alignment explanation
Indices: 25147747--25147779 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25147737 AAACTCATTT
*
25147747 TTATTGTTTCTTAAAAA
1 TTATTGTATCTTAAAAA
25147764 TTATTGTAT-TTAAAAA
1 TTATTGTATCTTAAAAA
25147780 ATCCTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
TTATTGTATCTTAAAAA
Found at i:25148841 original size:37 final size:37
Alignment explanation
Indices: 25148736--25148842 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
25148726 ATTTTCTGTA
* * *
25148736 GGCATGCTTTACATGCGAATCAAAATATCAAAAATAT
1 GGCATGCTTAACATGAGAATCAAAATATCAGAAATAT
** *
25148773 TACATGCTTAACATGCA-AATCAAAATTTCAGAAATAT
1 GGCATGCTTAACATG-AGAATCAAAATATCAGAAATAT
* *
25148810 GGCATGCTTAACATGAGAATTAGAATATCAGAA
1 GGCATGCTTAACATGAGAATCAAAATATCAGAA
25148843 TAGTAACATA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.98
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (37 bp):
GGCATGCTTAACATGAGAATCAAAATATCAGAAATAT
Found at i:25150383 original size:27 final size:27
Alignment explanation
Indices: 25150345--25150398 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
25150335 AGCTGAAAAA
25150345 GGGTAAAAACCAAGTGAGTCCCTAAAT
1 GGGTAAAAACCAAGTGAGTCCCTAAAT
25150372 GGGTAAAAACCAAGTGAGTCCCTAAAT
1 GGGTAAAAACCAAGTGAGTCCCTAAAT
25150399 TGACTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGTAAAAACCAAGTGAGTCCCTAAAT
Found at i:25152745 original size:20 final size:20
Alignment explanation
Indices: 25152720--25152764 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25152710 AGGGACTAAA
* *
25152720 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
25152740 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
25152760 ATGAA
1 ATGAA
25152765 TACATGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:25157575 original size:40 final size:39
Alignment explanation
Indices: 25157410--25157593 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
25157400 AAATTGAATG
* * *
25157410 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
25157450 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
25157490 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
25157530 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
25157569 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
25157594 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:25157618 original size:80 final size:81
Alignment explanation
Indices: 25157450--25157638 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
25157440 GCTGGAAATT
* * * *
25157450 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
25157515 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
25157531 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
25157594 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
25157610 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
25157639 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:25165693 original size:40 final size:39
Alignment explanation
Indices: 25165528--25165711 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
25165518 AAATTGAATG
* * *
25165528 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
25165568 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
25165608 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
25165648 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
25165687 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
25165712 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:25165736 original size:80 final size:81
Alignment explanation
Indices: 25165568--25165756 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
25165558 GCTGGAAATT
* * * *
25165568 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
25165633 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
25165649 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
25165712 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
25165728 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
25165757 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:25172526 original size:40 final size:40
Alignment explanation
Indices: 25172471--25172657 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
25172461 ATAACCACAA
* * *
25172471 GCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
25172511 GCACAAATGCCTTCGGGTCTTAGCTCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
25172551 GCACAAATGCGTTCTGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
25172591 GCACAAATGCCTTCGGGTCTTAACCCGGATATATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
25172630 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
25172658 GTATCATTCA
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 28 0.22
40 101 0.78
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:25174498 original size:40 final size:40
Alignment explanation
Indices: 25174403--25174607 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
25174393 CGGAATACAA
* *
25174403 CCGGATATAACCACATGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
25174442 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
25174482 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
25174522 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
25174562 CCGG--ATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
25174600 CCGGATAT
1 CCGGATAT
25174608 CATTCAATTG
Statistics
Matches: 136, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
38 25 0.18
39 32 0.24
40 78 0.57
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:25174550 original size:80 final size:79
Alignment explanation
Indices: 25174403--25174568 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
25174393 CGGAATACAA
* *
25174403 CCGGATATAACCACATGCACGAATGCCTTCGGTCTTAGCCCGGATAGAACGACTTGCACAAATGC
1 CCGGATATAACAACATGCACGAATGCCTTCGGTCTTAGCCCGGATAGAACGACTAGCACAAATGC
*
25174468 CTTCGGGTATTAGC
66 CTTCGGGTATTAAC
* * * **
25174482 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACATGCACGAATGCCTTC-GGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT
*
25174545 GGCCTTCGGGTCTTAAC
64 -GCCTTCGGGTATTAAC
25174562 CCGGATA
1 CCGGATA
25174569 ATTACTAGCA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 30 0.41
80 42 0.57
81 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (79 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGTCTTAGCCCGGATAGAACGACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:25182226 original size:40 final size:40
Alignment explanation
Indices: 25182076--25182243 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
25182066 CGGAATACAA
* ** * *
25182076 CCGGATATAACCACGTGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
* ** *
25182116 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
25182156 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
25182196 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
25182236 CCGGATAT
1 CCGGATAT
25182244 CATTCAATTA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25183517 original size:18 final size:18
Alignment explanation
Indices: 25183481--25183518 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25183471 ACTTTTCTTC
*
25183481 CTTTCTTTTTATTTTTTT
1 CTTTCTTTTTATTTGTTT
25183499 CTTTCTTTGTT-TTTGTTT
1 CTTTCTTT-TTATTTGTTT
25183517 CT
1 CT
25183519 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTCTTTTTATTTGTTT
Found at i:25184239 original size:40 final size:40
Alignment explanation
Indices: 25184193--25184400 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
25184183 CGGAATACAA
* *
25184193 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
25184233 TCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
25184273 CCAGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
25184313 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
* ** * ** * *
25184353 CCAGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
25184393 CCGGATAT
1 CCGGATAT
25184401 CATTCAATTG
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.02
40 128 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:25184341 original size:80 final size:80
Alignment explanation
Indices: 25184196--25184399 Score: 223
Period size: 80 Copynumber: 2.5 Consensus size: 80
25184186 AATACAACCG
* * * *
25184196 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCTCGGATAGAACGACTTGCACAAATGCCT
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCT
*
25184261 TCGGGTATTAGCCCA
66 TCGGGTATTAACCCA
* * **
25184276 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AATGGC
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT-GC
*
25184339 CTTCGGGTCTTAACCCA
64 CTTCGGGTATTAACCCA
** * ** * *
25184356 GATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
25184400 TCATTCAATT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 98 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (80 bp):
GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCT
TCGGGTATTAACCCA
Found at i:25193646 original size:40 final size:40
Alignment explanation
Indices: 25193601--25193828 Score: 375
Period size: 40 Copynumber: 5.7 Consensus size: 40
25193591 ATAACCACAA
* *
25193601 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
25193641 GCACAAATGCCTTCTGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
25193681 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
25193721 GCACAAATGCCTTCTGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
25193761 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
25193801 GCACAAATGCCTTTGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
25193829 GTATCATTCA
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 175 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:25195933 original size:35 final size:35
Alignment explanation
Indices: 25195892--25195961 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
25195882 CCGTATACAG
25195892 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
1 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
*
25195927 GTTTGTGGTGGTATTTATTGATGATATTTTGGTTT
1 GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
25195962 ACTCTCAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.56
Consensus pattern (35 bp):
GTTTGTGGTGGTATTTATAGATGATATTTTGGTTT
Found at i:25202952 original size:43 final size:43
Alignment explanation
Indices: 25202871--25203046 Score: 259
Period size: 43 Copynumber: 4.1 Consensus size: 43
25202861 GATAAATCCC
* * * *
25202871 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
25202912 GCAGGCTTAGTGCCGGTGATGTGTATCCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
25202955 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
**
25202998 GCAGGCTTCA-TGCCGGTGATGTGTATTCTAGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
25203041 GCAGGC
1 GCAGGC
25203047 GTAATGCTGG
Statistics
Matches: 124, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 106 0.85
44 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:25205024 original size:39 final size:40
Alignment explanation
Indices: 25204981--25205065 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
25204971 TACCCTTTTA
25204981 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTC-
1 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
* *
25205020 TTCTTTTAATTACCAAATGACCAAAATGCCTTTAGGGTCT
1 TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
25205060 TTCTTT
1 TTCTTT
25205066 AAAATTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (40 bp):
TTCTTTTAATTACCAAATGACAAAAATGCCCTTAGGGTCT
Found at i:25205619 original size:20 final size:20
Alignment explanation
Indices: 25205594--25205632 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25205584 AGGGACTAAA
* *
25205594 ATGAAAACTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
25205614 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
25205633 TATAAATACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:25209697 original size:27 final size:26
Alignment explanation
Indices: 25209642--25209742 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
25209632 CTCATATCTG
* * *
25209642 TAGGCTAGTATTATTGAAATACCCTTA
1 TAGG-TAGAATTACTGAAATGCCCTTA
*
25209669 TAGCGTAGAATTACTGAAATGCCCCTA
1 TAG-GTAGAATTACTGAAATGCCCTTA
** *
25209696 TAGGATAGAATTACTGAAATGTACTTG
1 TAGG-TAGAATTACTGAAATGCCCTTA
25209723 TAGGGTAGAATTACTGAAAT
1 TA-GGTAGAATTACTGAAAT
25209743 ATCATTGGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 59 0.94
28 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (26 bp):
TAGGTAGAATTACTGAAATGCCCTTA
Found at i:25209776 original size:26 final size:27
Alignment explanation
Indices: 25209731--25209798 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
25209721 TGTAGGGTAG
*
25209731 AATTACTGAAATATCATTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
*
25209758 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
**
25209784 AATTACCAAAATACC
1 AATTACTGAAATACC
25209799 CTCTATTAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACCATTGGTTTACAA
Found at i:25209811 original size:27 final size:27
Alignment explanation
Indices: 25209766--25210078 Score: 256
Period size: 27 Copynumber: 11.6 Consensus size: 27
25209756 AAAATTACTG
* *
25209766 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGATTTGCAAAATTACCAA
* *
25209793 AATACCCTCT-ATTAGCAAAATTACAAA
1 AATACCCT-TGATTTGCAAAATTACCAA
* *
25209820 AATACCCTTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGCAAAATTACCAA
* *
25209847 AATACCCTTGATTTGTAAAATTATCAA
1 AATACCCTTGATTTGCAAAATTACCAA
* * *** *
25209874 AATACCTTTAATTTTTGAAATTATCAA
1 AATACCCTTGATTTGCAAAATTACCAA
* * * *
25209901 AATACCCTCGATTTGTAAAATTATCGA
1 AATACCCTTGATTTGCAAAATTACCAA
* * *
25209928 AATACCCTTGATTTGGAAAATTATCGA
1 AATACCCTTGATTTGCAAAATTACCAA
* * *
25209955 AATACCTTTGATTTGGAAAATTA-TAGA
1 AATACCCTTGATTTGCAAAATTACCA-A
* * *
25209982 AATACCCCTGATTTACAAAATTACAAA
1 AATACCCTTGATTTGCAAAATTACCAA
25210009 AATACCCTTGACTTT-CAAAAATTA-CAGA
1 AATACCCTTGA-TTTGC-AAAATTACCA-A
* * * *
25210037 AATACCATTGGTTTGGAAAATTACCGA
1 AATACCCTTGATTTGCAAAATTACCAA
* *
25210064 GATACCCTTGGTTTG
1 AATACCCTTGATTTG
25210079 TAGATTTACC
Statistics
Matches: 239, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.00
27 215 0.90
28 23 0.10
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AATACCCTTGATTTGCAAAATTACCAA
Found at i:25209841 original size:54 final size:54
Alignment explanation
Indices: 25209755--25210078 Score: 289
Period size: 54 Copynumber: 6.0 Consensus size: 54
25209745 CATTGGTTTA
* * * *
25209755 CAAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATACCCTCT-ATTAG
1 CAAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCT-TGATTTG
* * *
25209808 CAAAATTACAAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGATTTG
1 CAAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
* * * *** * *
25209862 TAAAATTATCA-AAATACCTTTAATTTTTGAAATTATCAAAATACCCTCGATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
* * * * *
25209916 TAAAATTATC-GAAATACCCTTGATTTGGAAAATTATCGAAATACCTTTGATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
* * * * *
25209970 GAAAATTATAGAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTT-
1 CAAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGA-TTTG
* * * * * *
25210024 CAAAAATTACAGAAATACCATTGGTTTGGAAAATTACCGAGATACCCTTGGTTTG
1 C-AAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
25210079 TAGATTTACC
Statistics
Matches: 222, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
53 10 0.05
54 168 0.76
55 44 0.20
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (54 bp):
CAAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTG
Found at i:25209879 original size:81 final size:81
Alignment explanation
Indices: 25209766--25210100 Score: 302
Period size: 81 Copynumber: 4.1 Consensus size: 81
25209756 AAAATTACTG
* * * * *
25209766 AATACCCTTGGTTT-ACAAAATTACCAAAATACCCTCT-ATTAGCAAAATTACAAAAATACCCTT
1 AATACCCTTGATTTGA-AAAATTATCAAAATA-CCTTTGATTTGGAAAATTACAAAAATACCCTT
*
25209829 GGTTTGTAAAATTACCAA
64 GATTTGTAAAATTACCAA
* * * *
25209847 AATACCCTTGATTTGTAAAATTATCAAAATACCTTTAATTTTTG-AAATTATC-AAAATACCCTC
1 AATACCCTTGATTTGAAAAATTATCAAAATACCTTTGA-TTTGGAAAATTA-CAAAAATACCCTT
* *
25209910 GATTTGTAAAATTATCGA
64 GATTTGTAAAATTACCAA
* * * * *
25209928 AATACCCTTGATTTGGAAAATTATCGAAATACCTTTGATTTGGAAAATTATAGAAATACCCCTGA
1 AATACCCTTGATTTGAAAAATTATCAAAATACCTTTGATTTGGAAAATTACAAAAATACCCTTGA
** *
25209993 TTTACAAAATTACAAA
66 TTTGTAAAATTACCAA
* * * ** *
25210009 AATACCCTTGACTTTCAAAAATTA-CAGAAATACCATTGGTTTGGAAAATTACCGAGATACCCTT
1 AATACCCTTGA-TTTGAAAAATTATCA-AAATACCTTTGATTTGGAAAATTACAAAAATACCCTT
* * *
25210073 GGTTTGTAGATTTACCAA
64 GATTTGTAAAATTACCAA
* *
25210091 TACACCCTTG
1 AATACCCTTG
25210101 TAGGGTGAAA
Statistics
Matches: 205, Mismatches: 41, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
80 8 0.04
81 133 0.65
82 64 0.31
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (81 bp):
AATACCCTTGATTTGAAAAATTATCAAAATACCTTTGATTTGGAAAATTACAAAAATACCCTTGA
TTTGTAAAATTACCAA
Found at i:25210228 original size:20 final size:20
Alignment explanation
Indices: 25210205--25210249 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25210195 GACTATGTTT
25210205 TGATTGAGAATG-TATGACTG
1 TGATTG-GAATGTTATGACTG
* *
25210225 TGATTGGACTGTTGTGACTG
1 TGATTGGAATGTTATGACTG
25210245 TGATT
1 TGATT
25210250 TGTATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (20 bp):
TGATTGGAATGTTATGACTG
Found at i:25210386 original size:41 final size:41
Alignment explanation
Indices: 25210329--25210450 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
25210319 GAAGGAAGAA
* * *
25210329 ATTGAGAATTGCATGGTTGCTTGATGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
25210370 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* * *
25210411 ATTAAGGATCGTATGGTTGCTTGAC-ATTTGTGGATCCACC
1 ATTGAGGATCGCATGGTTGCTTGACGA-TCGTGGATCCACC
25210451 TGTGGCTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 73 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:25210877 original size:22 final size:22
Alignment explanation
Indices: 25210852--25210900 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
25210842 TGCTGTGATG
*
25210852 TTTACGGCTATGTGCTGTCCTA
1 TTTACGGCGATGTGCTGTCCTA
*
25210874 TTTACGGCGATGTGCTGTCCTG
1 TTTACGGCGATGTGCTGTCCTA
25210896 TTTAC
1 TTTAC
25210901 AGCCTTGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.22, G:0.24, T:0.41
Consensus pattern (22 bp):
TTTACGGCGATGTGCTGTCCTA
Found at i:25211792 original size:13 final size:13
Alignment explanation
Indices: 25211754--25211795 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
25211744 CAAAGTTTGT
*
25211754 AAAGAAATGATGA
1 AAAGAAATGATGG
25211767 AAAGAAATGATGG
1 AAAGAAATGATGG
25211780 AAAGAAATGATGG
1 AAAGAAATGATGG
25211793 AAA
1 AAA
25211796 TCCAATGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.14
Consensus pattern (13 bp):
AAAGAAATGATGG
Found at i:25215044 original size:46 final size:45
Alignment explanation
Indices: 25214936--25215333 Score: 265
Period size: 45 Copynumber: 8.8 Consensus size: 45
25214926 GATCGGAGGG
* * * * *
25214936 TGCCATGGTGTCTTTCAACTATGGTCTTATTTATTCTCAACTTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGTGA
* *
25214981 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CATCGTGA
* * * * *
25215027 TGCCATAGTGTCTTTCAATTATTGTCTTATTCATTTTCCTTCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CATCGTGA
* *
25215073 TGCCATAGTGTCTTCCAACTATGGTCTTATTCA-TTTGATTCGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCA-TCGTGA
* * * * *** *
25215118 TGCCATAGTGTCTTTTAGCTATAGTCTTACTCGA-TAAAATTGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTTCATCGTGA
* * ** * *** *
25215163 TGCCATACTATCTTTCAGTTATGGTCTTACTTGA-TAGAATTGTGA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTTCATCGTGA
** * * * *
25215208 TGCCATAACGCCTTTCAACTATGGTCTTACTC-GTTTC-TGGT-A
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGTGA
* * *
25215250 TGGTTCCATAGTGTCTTTCAACTATCGTCTTATTTA-TTTC--CGGTATA
1 T-G--CCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATC-GT-GA
*
25215297 GTGCCATAGTGTCTTTCAACTATGGTCTTAATCATTT
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
25215334 CCTTCAAGCC
Statistics
Matches: 281, Mismatches: 58, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
42 2 0.01
43 4 0.01
44 2 0.01
45 188 0.67
46 82 0.29
47 2 0.01
48 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCATCGTGA
Found at i:25215116 original size:91 final size:91
Alignment explanation
Indices: 25214936--25215146 Score: 246
Period size: 91 Copynumber: 2.3 Consensus size: 91
25214926 GATCGGAGGG
* * * *
25214936 TGCCATGGTGTCTTTCAACTATGGTCTTATTTATTCTCAACTTGATGCCATAGTGTCTTTCAACC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTCAACATGATGCCATAGTGTCTTCCAACC
*
25215001 ATGGTCTTATTCATTTTCCATCGTGT
66 ATGGTCTTATTCATTTTCCATCGTGA
* * * ** *
25215027 TGCCATAGTGTCTTTCAATTATTGTCTTATTCATTTTCCTTCATGTTGCCATAGTGTCTTCCAAC
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCT-CAACATGATGCCATAGTGTCTTCCAAC
* *
25215092 TATGGTCTTATTCA-TTT-GATTCGTGA
65 CATGGTCTTATTCATTTTCCA-TCGTGA
* * *
25215118 TGCCATAGTGTCTTTTAGCTATAGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
25215147 CTCGATAAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 1 0.01
91 65 0.64
92 35 0.35
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.45
Consensus pattern (91 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTCAACATGATGCCATAGTGTCTTCCAACC
ATGGTCTTATTCATTTTCCATCGTGA
Found at i:25216909 original size:27 final size:27
Alignment explanation
Indices: 25216852--25216948 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 27
25216842 TAAAGGAAAA
* * * * *
25216852 CCTTTGTGGCAAAACTCTGAAGGGTAAG
1 CCTTTGTGGCAAACCTTTTAAAGG-ATG
25216880 CCTTTAG-GGCAAACCTTTTAAAGGATG
1 CCTTT-GTGGCAAACCTTTTAAAGGATG
** **
25216907 CCTTTGTGGTGAACCTTTTAAAGGACA
1 CCTTTGTGGCAAACCTTTTAAAGGATG
25216934 CCTTTGTGGCGAAAC
1 CCTTTGTGGC-AAAC
25216949 GCTGAAAGGA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 32 0.58
28 21 0.38
29 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCAAACCTTTTAAAGGATG
Found at i:25216956 original size:27 final size:27
Alignment explanation
Indices: 25216926--25216994 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
25216916 TGAACCTTTT
*
25216926 AAAGGACACCTTTGTGGCG-AAACGCTG
1 AAAGGAAACCTTTGTGG-GAAAACGCTG
*
25216953 AAAGGAAAACCTTTGTGGGAAAATGCTG
1 AAAGG-AAACCTTTGTGGGAAAACGCTG
25216981 AAAGGAAAACCTTT
1 AAAGG-AAACCTTT
25216995 ATGGCCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (27 bp):
AAAGGAAACCTTTGTGGGAAAACGCTG
Found at i:25216969 original size:28 final size:29
Alignment explanation
Indices: 25216933--25216999 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
25216923 TTTAAAGGAC
25216933 ACCTTTGTGGCG-AAACGCTGAAAGGAAA
1 ACCTTTGTGGCGAAAACGCTGAAAGGAAA
*
25216961 ACCTTTGTGG-GAAAATGCTGAAAGGAAA
1 ACCTTTGTGGCGAAAACGCTGAAAGGAAA
*
25216989 ACCTTTATGGC
1 ACCTTTGTGGC
25217000 CAGTACTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (29 bp):
ACCTTTGTGGCGAAAACGCTGAAAGGAAA
Found at i:25224253 original size:18 final size:18
Alignment explanation
Indices: 25224230--25224265 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25224220 CAATTGGAAT
25224230 GAACAAACATTAGTTAGG
1 GAACAAACATTAGTTAGG
25224248 GAACAAACATTAGTTAGG
1 GAACAAACATTAGTTAGG
25224266 TAACTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
GAACAAACATTAGTTAGG
Found at i:25225160 original size:23 final size:23
Alignment explanation
Indices: 25225136--25225186 Score: 50
Period size: 23 Copynumber: 2.1 Consensus size: 23
25225126 AAGTCTTTAA
25225136 AAAATAAATAAATCAAAAATAAAA-
1 AAAA-AAATAAAT-AAAAATAAAAT
* *
25225160 ACAAAAATAAAAATAAAATAAAAT
1 AAAAAAATAAATA-AAAATAAAAT
25225184 AAA
1 AAA
25225187 TGGACTCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
22 1 0.05
23 16 0.73
24 5 0.23
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAAAATAAATAAAAATAAAAT
Found at i:25225165 original size:6 final size:6
Alignment explanation
Indices: 25225135--25225186 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
25225125 AAAGTCTTTA
*
25225135 AAAAAT AAATAAAT CAAAAAT AAAAAC AAAAAT AAAAAT -AAAAT -AAAAT
1 AAAAAT -AA-AAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
25225184 AAA
1 AAA
25225187 TGGACTCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
5 10 0.25
6 18 0.45
7 6 0.15
8 6 0.15
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:25238453 original size:39 final size:39
Alignment explanation
Indices: 25238399--25238561 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
25238389 TGTGAATGAA
25238399 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
25238438 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* ** *
25238477 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
25238516 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
25238556 TGTGCG
1 TGTGCG
25238562 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:25238577 original size:40 final size:40
Alignment explanation
Indices: 25238416--25238591 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
25238406 ATTGTGATAT
* *** *
25238416 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
25238455 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
25238494 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
25238533 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
25238573 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25238592 AGTTTTGAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 80 0.67
40 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:25240783 original size:2 final size:2
Alignment explanation
Indices: 25240776--25240808 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25240766 TCATGACATG
25240776 TA 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 TA T
25240809 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25241595 original size:22 final size:22
Alignment explanation
Indices: 25241561--25241625 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
25241551 GCAAATACAT
25241561 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
* * *
25241583 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
* *
25241605 TTGGCGCATAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
25241626 AATAGTTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:25241824 original size:41 final size:42
Alignment explanation
Indices: 25241767--25241884 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 42
25241757 TAAAAGCCAC
*
25241767 GGTGGATCCACGGTCGTCAAGCAACCCTACGATCCTTAAT-A
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAATCA
* * * *
25241808 GGTGGATCCGCAGTCGTCAAGCAACCATGCGATCTTTAATCA
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAATCA
*
25241850 -GTGGATCCACGGTCGTCAAGCAACCATTCGATCCT
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
25241885 CAATTTCTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
41 66 0.99
42 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (42 bp):
GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAATCA
Found at i:25242182 original size:27 final size:27
Alignment explanation
Indices: 25242153--25242468 Score: 166
Period size: 27 Copynumber: 11.7 Consensus size: 27
25242143 ATCTACAAGC
* *
25242153 CAAGGGTATTTCGGTAATTTCGCAAAC
1 CAAGGGTATTTCAGTAATTTCGCAAAT
* * *
25242180 CAATGGTATTTCTGTAATTTTTG-AAAGT
1 CAAGGGTATTTCAGTAA-TTTCGCAAA-T
* * *
25242208 TAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTCGCAAAT
* *
25242235 CAGGGGTATTTCTGTAATTTAC-CAAAT
1 CAAGGGTATTTCAGTAATTT-CGCAAAT
* *
25242262 CAATGGTATTT-TGCTAAATTTC-CAAAT
1 CAAGGGTATTTCAG-T-AATTTCGCAAAT
* **
25242289 C-AGAGGTATTTTAGTAATTTTACAAAT
1 CAAG-GGTATTTCAGTAATTTCGCAAAT
* *
25242316 CGAGGGTATTTC-GATAATTTCACAAAT
1 CAAGGGTATTTCAG-TAATTTCGCAAAT
* * *
25242343 TAAGGATATTTCAGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTCGCAAAT
* * * *
25242369 CTAGGGGTATTTTAGTAATTTTGCTAAT
1 C-AAGGGTATTTCAGTAATTTCGCAAAT
* ** * * *
25242397 CAAGTGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTCGCAAAT
* * *
25242424 CAAGGCTA-TTCAGTAATTTTC-TAAAC
1 CAAGGGTATTTCAGTAA-TTTCGCAAAT
*
25242450 CAAGGATATTTCAGTAATT
1 CAAGGGTATTTCAGTAATT
25242469 CTACCATACA
Statistics
Matches: 230, Mismatches: 41, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
26 29 0.13
27 171 0.74
28 30 0.13
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTCGCAAAT
Found at i:25242326 original size:81 final size:80
Alignment explanation
Indices: 25242155--25242416 Score: 218
Period size: 81 Copynumber: 3.2 Consensus size: 80
25242145 CTACAAGCCA
* * * * ** *
25242155 AGGGTATTTCGGTAATTTCGCAAACCAATGGTATTTCTGTAATTTTTGAAAGTTA-AGGGTATTT
1 AGGGTATTTCTGTAATTTCACAAATCAATGGTATTTCTGTAAATTTCCAAA-TCAGA-GGTATTT
*
25242219 CTA-TAATTTTGTAAATC
64 -TAGTAATTTTGCAAATC
25242236 AGGGGTATTTCTGTAATTT-ACCAAATCAATGGTATTT-TGCTAAATTTCCAAATCAGAGGTATT
1 A-GGGTATTTCTGTAATTTCA-CAAATCAATGGTATTTCTG-TAAATTTCCAAATCAGAGGTATT
*
25242299 TTAGTAATTTTACAAATC
63 TTAGTAATTTTGCAAATC
* * *
25242317 GAGGGTATTTC-GATAATTTCACAAATTAA-GGATATTTCAGT-AATTTCACAAA-CTAGGGGTA
1 -AGGGTATTTCTG-TAATTTCACAAATCAATGG-TATTTCTGTAAATTTC-CAAATC-AGAGGTA
*
25242378 TTTTAGTAATTTTGCTAATC
61 TTTTAGTAATTTTGCAAATC
*
25242398 AAGTGTATTT-TGGTAATTT
1 -AGGGTATTTCT-GTAATTT
25242417 TGTAAACCAA
Statistics
Matches: 151, Mismatches: 16, Indels: 28
0.77 0.08 0.14
Matches are distributed among these distances:
80 12 0.08
81 94 0.62
82 45 0.30
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (80 bp):
AGGGTATTTCTGTAATTTCACAAATCAATGGTATTTCTGTAAATTTCCAAATCAGAGGTATTTTA
GTAATTTTGCAAATC
Found at i:25242487 original size:27 final size:27
Alignment explanation
Indices: 25242457--25242521 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
25242447 AACCAAGGAT
*
25242457 ATTTCAGTAATTCTACCATACAGGGGC
1 ATTTCAGTAATTATACCATACAGGGGC
*
25242484 ATTTCAGTAATTATACCCTACAGGGGC
1 ATTTCAGTAATTATACCATACAGGGGC
25242511 ATTTCAGTAAT
1 ATTTCAGTAAT
25242522 ACTAGTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTTCAGTAATTATACCATACAGGGGC
Found at i:25244178 original size:40 final size:40
Alignment explanation
Indices: 25244014--25244178 Score: 192
Period size: 40 Copynumber: 4.1 Consensus size: 40
25244004 CAGAGTTTAA
** * *
25244014 CCGGATATAGGT-ACTCGTTCAAATGTCTTCGGGACATAGC
1 CCGGATATA-GTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25244054 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25244094 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
25244134 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25244174 CCGGA
1 CCGGA
25244179 CATCATTCGA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 5 0.05
40 91 0.85
41 11 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25248572 original size:22 final size:22
Alignment explanation
Indices: 25248521--25248562 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25248511 GACTCAACGC
*
25248521 CGTAGACAGGACAACACATAGT
1 CGTAAACAGGACAACACATAGT
*
25248543 CGTAAACAGGACAGCACATA
1 CGTAAACAGGACAACACATA
25248563 TATGTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (22 bp):
CGTAAACAGGACAACACATAGT
Found at i:25249352 original size:27 final size:27
Alignment explanation
Indices: 25249322--25249456 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
25249312 GGTAAATCTA
* * *
25249322 CAAACCAAGGGTTTTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTG
*
25249349 CAAA-CTAATGGTATTTCTGTAATTTTTG
1 CAAATC-AAGGGTATTTCTGTAA-TTTTG
*
25249377 -AAAGTCAAGGATATTTCTGTAATTTTG
1 CAAA-TCAAGGGTATTTCTGTAATTTTG
* * * *
25249404 TAAATTAGGGGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTG
*
25249431 CAAATCAAGGGTATTTCGGTAATTTT
1 CAAATCAAGGGTATTTCTGTAATTTT
25249457 CTAAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
26 1 0.01
27 66 0.73
28 22 0.24
29 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTG
Found at i:25249417 original size:55 final size:54
Alignment explanation
Indices: 25249335--25249463 Score: 168
Period size: 55 Copynumber: 2.4 Consensus size: 54
25249325 ACCAAGGGTT
* * * **
25249335 TTTCGGTAATTTTGCAAACTAATGGTATTTCTGTAATTTTTGAAAGTCAAGGATA
1 TTTCGGTAATTTTGTAAATTAAGGGTATTTCTGTAATTTTCCAAA-TCAAGGATA
* * *
25249390 TTTCTGTAATTTTGTAAATTAGGGGTATTTCTGTAATTTTCCAAATCAAGGGTA
1 TTTCGGTAATTTTGTAAATTAAGGGTATTTCTGTAATTTTCCAAATCAAGGATA
*
25249444 TTTCGGTAATTTTCTAAATT
1 TTTCGGTAATTTTGTAAATT
25249464 TTTGCTAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
54 26 0.41
55 38 0.59
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (54 bp):
TTTCGGTAATTTTGTAAATTAAGGGTATTTCTGTAATTTTCCAAATCAAGGATA
Found at i:25260714 original size:30 final size:30
Alignment explanation
Indices: 25260678--25260737 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25260668 TTCCCGAGCC
*
25260678 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
25260708 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
25260738 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:25268194 original size:16 final size:16
Alignment explanation
Indices: 25268173--25268212 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
25268163 GAGCCTAGGG
*
25268173 GCAAAAGTGTAATTAT
1 GCAAAAGTATAATTAT
25268189 GCAAAAGTATAATTAT
1 GCAAAAGTATAATTAT
*
25268205 ACAAAAGT
1 GCAAAAGT
25268213 TTAGGGGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (16 bp):
GCAAAAGTATAATTAT
Found at i:25272855 original size:46 final size:45
Alignment explanation
Indices: 25272805--25272980 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
25272795 TGGTTGAGCA
25272805 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
25272851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
25272898 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
25272944 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25272981 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:25272961 original size:93 final size:93
Alignment explanation
Indices: 25272802--25272972 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
25272792 GGATGGTTGA
* *
25272802 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25272867 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
25272895 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25272960 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25272973 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:25275924 original size:15 final size:15
Alignment explanation
Indices: 25275904--25275958 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
25275894 GTATCTTGGG
25275904 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
25275919 TTTCTTTATTCT-GA
1 TTTCTTTATTCTGGA
*
25275933 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
25275948 TTTCTTTATTC
1 TTTCTTTATTC
25275959 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 21 0.60
16 2 0.06
ACGTcount: A:0.13, C:0.16, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:25283127 original size:23 final size:23
Alignment explanation
Indices: 25283097--25283140 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 23
25283087 TGGCCCATTT
25283097 TTAAGAAAATTT-CAC-ATTAACC
1 TTAAG-AAATTTACACTATTAACC
25283119 TTAATGAAATTTACACTATTAA
1 TTAA-GAAATTTACACTATTAA
25283141 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (23 bp):
TTAAGAAATTTACACTATTAACC
Found at i:25287177 original size:16 final size:16
Alignment explanation
Indices: 25287156--25287190 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25287146 ATGAATCGGC
* *
25287156 AAAAGCCGAAATGTCG
1 AAAAGCCAAAAAGTCG
25287172 AAAAGCCAAAAAGTCG
1 AAAAGCCAAAAAGTCG
25287188 AAA
1 AAA
25287191 TGTTGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.20, T:0.09
Consensus pattern (16 bp):
AAAAGCCAAAAAGTCG
Done.