Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 66 of 410
Found at i:18426659 original size:41 final size:41
Alignment explanation
Indices: 18426609--18426766 Score: 244
Period size: 41 Copynumber: 3.8 Consensus size: 41
18426599 TTCAATCAAT
*
18426609 TCCACTGAAACTTCAAGGAGATCCGCTGTAGCTTCGATTAA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCGATTAA
*
18426650 TCCACTGAAACTTCAAGGAGATTTGCTGTAGCTTCGATTAA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCGATTAA
* * *
18426691 TCTACTGAAACTTCAAGGAGGTCTGCTGTAGCTTCGATCAA
1 TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCGATTAA
* *
18426732 TTCCACTGAAACTTCAAGGAGATCTCCTGTGGCTT
1 -TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTT
18426767 TTAACTACTC
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 76 0.72
42 30 0.28
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
TCCACTGAAACTTCAAGGAGATCTGCTGTAGCTTCGATTAA
Found at i:18426916 original size:42 final size:44
Alignment explanation
Indices: 18426809--18426928 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 44
18426799 TATTTGATTT
* * *
18426809 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
** * * *
18426853 TTGATCTGTTTCCCTACTGCTTAGGGGTTT-A-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-TGTAAACA
18426895 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
18426929 TTTGAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.46
43 7 0.11
44 26 0.43
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (44 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
Found at i:18426980 original size:86 final size:86
Alignment explanation
Indices: 18426808--18427019 Score: 232
Period size: 86 Copynumber: 2.5 Consensus size: 86
18426798 ATATTTGATT
** *
18426808 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGATCTGTTTCCCTACTGC
1 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAAAT-ATTGAGCTGTTTCCCTACTGC
** * *
18426873 TTAGGGGTTTAGATCTGTAAAC
65 TTAGGGAATAAGATCTATAAAC
* * * *
18426895 -TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGAAA-ATTTG-GCTTTTTACCCTATTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAAATA-TTGAGCTGTTT-CCCTACTG
*
18426957 CTTAGGGCAATAATATCTATAAAC
64 CTTAGGG-AATAAGATCTATAAAC
* * *
18426981 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTTG
1 TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
18427020 GTGGTTTGAA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
84 6 0.06
85 17 0.16
86 48 0.46
87 33 0.32
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (86 bp):
TTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGAAATATTGAGCTGTTTCCCTACTGCT
TAGGGAATAAGATCTATAAAC
Found at i:18427225 original size:43 final size:44
Alignment explanation
Indices: 18427164--18427271 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
18427154 TTCTTTGATC
* * * * *
18427164 TGTTTCCCTACTGTTTAGGGTGAT-AAGATCTGTAAATTCGACT
1 TGTTACCCTACTGCTTAGGGGGATAAAGACCTGTAAATTCAACT
* * * * *
18427207 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCTTTGAATTCAATT
1 TGTTACCCTACTGCTTAGGGGGATAAAGACCTGTAAATTCAACT
18427251 TGTTACCCTACTGCTTAGGGG
1 TGTTACCCTACTGCTTAGGGG
18427272 TTTAAGGTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 20 0.37
44 34 0.63
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGATAAAGACCTGTAAATTCAACT
Found at i:18427376 original size:43 final size:44
Alignment explanation
Indices: 18427290--18427384 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
18427280 CTGTACATTT
* *
18427290 AGTCTGCTCCACTGCGACTTCAAGGAGATGAGACTTGTAACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
* * *
18427334 AGTCTGCTCCACTGC-ACTTCAGGGAGATAAGGCTAGTGACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
*
18427377 AATCTGCT
1 AGTCTGCT
18427385 TCGCTGAGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 30 0.67
44 15 0.33
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
Found at i:18444816 original size:30 final size:29
Alignment explanation
Indices: 18444722--18444823 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18444712 TATAGTGAAT
* * *
18444722 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18444751 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18444779 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18444809 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18444824 CAATCTTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:18447354 original size:26 final size:26
Alignment explanation
Indices: 18447325--18447406 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
18447315 TGATACAAAT
18447325 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18447351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18447377 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18447403 TGAT
1 TGAT
18447407 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18457326 original size:20 final size:20
Alignment explanation
Indices: 18457301--18457339 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18457291 TTAAAAAGGT
* *
18457301 AAATAAAGATAAAAGTAAAC
1 AAATAAAAATAAAAATAAAC
18457321 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
18457340 GTAAAGTCTT
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:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAC
Found at i:18459114 original size:40 final size:39
Alignment explanation
Indices: 18459023--18459173 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
18459013 ATCACGATTT
*
18459023 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
18459063 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * * ** *
18459103 GCACAATTGCCTTCGGATCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
18459143 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
18459174 TCAATCAATT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:18471288 original size:24 final size:24
Alignment explanation
Indices: 18471261--18471351 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
18471251 GCTGGAAATA
18471261 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
18471285 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
18471309 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
18471333 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
18471352 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:18471365 original size:48 final size:48
Alignment explanation
Indices: 18471260--18471373 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
18471250 TGCTGGAAAT
* * **
18471260 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
18471308 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
18471357 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
18471374 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:18479148 original size:24 final size:24
Alignment explanation
Indices: 18479121--18479234 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
18479111 GCTGGAAATA
18479121 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
18479145 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
18479169 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
18479193 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
18479217 TATGGCACTATG-GTGCGA
1 TATGGCACTATGTGTGCGA
18479235 ACATAATAAG
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.07
24 82 0.93
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:18483296 original size:47 final size:47
Alignment explanation
Indices: 18483245--18483539 Score: 475
Period size: 47 Copynumber: 6.3 Consensus size: 47
18483235 TACATGATAG
18483245 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
18483292 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
18483339 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAACGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
18483386 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
18483433 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
18483480 TATATGTGATAGGGCCGAGTGGCCAACGTGAT-AGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATGTGAAAGTGTA
*
18483527 TAAATGTGATAAG
1 TATATGTGATAAG
18483540 TCCCAAAGGG
Statistics
Matches: 228, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 227 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:18485018 original size:40 final size:40
Alignment explanation
Indices: 18484952--18486741 Score: 2816
Period size: 40 Copynumber: 44.8 Consensus size: 40
18484942 GAGAATTGAG
* *
18484952 AGTGATATATCC-GAGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGA-CTAAGTTCCGAAGAGCATTCGTGCT
*
18484992 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485032 AGTGATGTATCCGGACTAAATTCCGAAGATCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485072 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485112 AGTGATGTATCCGGACTAAGTTCCGAAAAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485152 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
18485192 AGTGATGTATCCGAACTAAATTTCGAAGAGCAGTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485232 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18485272 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485312 AGTGATGTATCCGAACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485352 AGTGATGTAACCAGG-CTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485392 AGTGATGTATCCGGACAAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485432 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18485472 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18485512 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485552 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18485592 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485632 AGTGATGTAACCGGACTAAGTTTCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485672 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485712 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18485752 AGTGATGTATCCGGGCT-AGGTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
18485791 AGTGATGTATCCGAACTAAATTTCGAAGAGCAGTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485831 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18485871 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485911 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18485951 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18485991 AGTGATGTAACCGGACTAAATTCCGAAGATCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486031 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18486071 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18486111 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * ** *
18486151 AGTGATGTATCCGAACTAAATTTTGAAGAGCAGTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486191 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18486231 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486271 AGTGATGTATCCGAACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486311 AGTGATGTAACCAGG-CTAAG-TCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18486350 AGTGATGTATCCGGACAAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486390 AGTGATGTATCCGGACTAAATTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18486430 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
18486470 AGTGATGTATCCGCACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
18486510 AGGGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
18486550 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18486590 AGTGATGTAACCGGACTAAGTTTCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18486630 AGTGATGTAACCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
18486670 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
18486710 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
18486742 ATCATGCTGG
Statistics
Matches: 1618, Mismatches: 125, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
38 2 0.00
39 70 0.04
40 1542 0.95
41 4 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:18490297 original size:47 final size:47
Alignment explanation
Indices: 18490246--18490636 Score: 586
Period size: 47 Copynumber: 8.3 Consensus size: 47
18490236 TACATGATAG
18490246 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
* * *
18490295 TATATGTGATAAGGCCTAATGGCCAACGTGATAAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
18490342 TATATGTGATAAGGCCTAATGGCCAACGTGATAAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
18490389 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
18490436 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAACGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
18490483 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
18490530 TATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
18490577 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
18490624 TGA-ATGTGATAAG
1 T-ATATGTGATAAG
18490637 TCCCAAAGGG
Statistics
Matches: 316, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 273 0.86
48 1 0.00
49 42 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:18490489 original size:25 final size:24
Alignment explanation
Indices: 18490414--18490586 Score: 67
Period size: 25 Copynumber: 7.3 Consensus size: 24
18490404 CTAATGGCCG
*
18490414 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCG-AAGTGTATAT
* ***
18490439 ATGTGAT-AAGGCCGAA-TGGCCA-
1 ATGTGATGAATG-CGAAGTGTATAT
18490461 ATGTGATGAATGCGAACGTGTATAT
1 ATGTGATGAATGCGAA-GTGTATAT
* * * **
18490486 ATGTGAT-AAGGCCTAA-TG-GTCG
1 ATGTGATGAATG-CGAAGTGTATAT
*
18490508 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCG-AAGTGTATAT
* ***
18490533 ATGTGAT-AAGGCCGAA-TGGCCA-
1 ATGTGATGAATG-CGAAGTGTATAT
* *
18490555 ATGCGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCG-AAGTGTATAT
18490580 ATGTGAT
1 ATGTGAT
18490587 AGGGCCGAGT
Statistics
Matches: 101, Mismatches: 32, Indels: 30
0.62 0.20 0.18
Matches are distributed among these distances:
22 26 0.26
23 21 0.21
24 21 0.21
25 33 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (24 bp):
ATGTGATGAATGCGAAGTGTATAT
Found at i:18492992 original size:16 final size:15
Alignment explanation
Indices: 18492968--18492998 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18492958 AAAATAGTAA
18492968 TTAAATAAATAAAAC
1 TTAAATAAATAAAAC
18492983 TTAAACTAAATAAAAC
1 TTAAA-TAAATAAAAC
18492999 AAAATGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAATAAATAAAAC
Found at i:18507682 original size:55 final size:54
Alignment explanation
Indices: 18507561--18507856 Score: 359
Period size: 55 Copynumber: 5.5 Consensus size: 54
18507551 ATAAGGATAT
* * * * *
18507561 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGC-AAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-TAC
* *
18507615 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTAC
* *
18507670 CATGTAAGACCATGCCAAGGCATGGCATTGTTGAGTTC-ATAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-TAC
* *
18507723 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTAC
* * * * *
18507778 CATGTAAGACCATGCCAAGGCATGGCTTTGGTGAGTTC-ATAA-GTAAAGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTAC
* *
18507830 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
18507857 ATGGTAATTC
Statistics
Matches: 210, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
52 34 0.16
53 47 0.22
54 36 0.17
55 85 0.40
56 8 0.04
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTAC
Found at i:18507751 original size:108 final size:108
Alignment explanation
Indices: 18507561--18507856 Score: 486
Period size: 108 Copynumber: 2.7 Consensus size: 108
18507551 ATAAGGATAT
* * * *
18507561 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTC-ATAAGGCAAGGATACCATGTAAGACC
18507626 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
*
18507670 CATGTAAGACCATGCCAAGGCATGGCATTGTTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
18507735 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * * * *
18507778 CATGTAAGACCATGCCAAGGCATGGCTTTGGTGAGTTCATAA-GTAAAGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
18507842 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
18507857 ATGGTAATTC
Statistics
Matches: 177, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
107 34 0.19
108 108 0.61
109 35 0.20
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:18513988 original size:55 final size:55
Alignment explanation
Indices: 18513854--18514117 Score: 247
Period size: 55 Copynumber: 4.9 Consensus size: 55
18513844 ATAAGGATAT
* ** * ** *
18513854 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGTAAA-GAAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGGCAAAGGTCAC
* ** * *
18513908 CATGTATGGTCATGTCC-AGACATGGCATTGATGAGCTACTAGAAGGCAAAGGTCA-
1 CATGTAAGACCATG-CCAAGGCATGGCATTGATGAG-TACTATAAGGCAAAGGTCAC
* * *
18513963 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAA-GCCAAGGAT-AC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGGCAAAGG-TCAC
* * * *
18514016 CATGTAAGACCAAGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTC-C
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAG-TACTATAAGGCAAAGGTCAC
* *
18514071 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGGCAA
18514118 GGATACCACG
Statistics
Matches: 168, Mismatches: 32, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
52 7 0.04
53 43 0.26
54 35 0.21
55 76 0.45
56 7 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTACTATAAGGCAAAGGTCAC
Found at i:18514056 original size:108 final size:108
Alignment explanation
Indices: 18513854--18514132 Score: 387
Period size: 108 Copynumber: 2.6 Consensus size: 108
18513844 ATAAGGATAT
* * * * * * * * **
18513854 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGTAAAGAAATCATGTATGGTC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGATACCATGTAAGACC
* * *
18513919 ATGTCCAGACATGGCATTGATGAGCTACTAGAAGGCAAAGGTCA
65 AAGTCAAGACATGGCATTGATGAGCTACTAGAAGGAAAAGGTCA
*
18513963 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGCCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
* * *
18514028 AGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 AGTCAAGACATGGCATTGATGAGCTACTAGAAGGAAAAGGTCA
*
18514071 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGA
18514133 GTAATCCAAA
Statistics
Matches: 151, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 118 0.78
109 33 0.22
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCA
AGTCAAGACATGGCATTGATGAGCTACTAGAAGGAAAAGGTCA
Found at i:18521248 original size:44 final size:43
Alignment explanation
Indices: 18521183--18521269 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
18521173 GCAGCCTGCT
*
18521183 TCAGTTAAAAGCATAAATGTTTTGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAGCATAAATGTTTCGCTCATCGGACTATTTCAAA
* *
18521226 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
1 TCAGTT-AAAAGCATAAATGTTTCGCTCATCGGACTATTTCAAA
18521270 CAACAGGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 6 0.15
44 34 0.85
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (43 bp):
TCAGTTAAAAGCATAAATGTTTCGCTCATCGGACTATTTCAAA
Found at i:18529104 original size:40 final size:40
Alignment explanation
Indices: 18528931--18529156 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
18528921 GCTACTCGTT
* *
18528931 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
** *
18528971 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
18529011 CAAATGCCTTCGGATCTTAGTCCGTATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* *
18529051 CGAATGCCTTCGGATATTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
18529091 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
18529132 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
18529157 CATCATTCGA
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.91
41 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:18537156 original size:40 final size:39
Alignment explanation
Indices: 18537119--18537341 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 39
18537109 GCTACTCGTT
*
18537119 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
18537159 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
18537199 CAAATGCCTTCGG-CTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
18537237 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
18537277 C-AATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18537317 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
18537342 CATCATTCGA
Statistics
Matches: 169, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
38 36 0.21
39 33 0.20
40 93 0.55
41 7 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18537248 original size:78 final size:79
Alignment explanation
Indices: 18537119--18537341 Score: 303
Period size: 78 Copynumber: 2.8 Consensus size: 79
18537109 GCTACTCGTT
* * *
18537119 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
18537183 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
*
18537199 CAAATGCCTTCGG-CTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGACTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
18537262 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * *
18537277 C-AATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
18537340 GA
64 GA
18537342 CATCATTCGA
Statistics
Matches: 129, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
77 14 0.11
78 55 0.43
79 38 0.29
80 22 0.17
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:18542954 original size:60 final size:57
Alignment explanation
Indices: 18542859--18542978 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 57
18542849 AAGACTTGCA
18542859 CACTCTTCTTCAGTTCGAGATTTGGCGATCATGTCGTCGACATAGACTTCAATTTCTTTATG
1 CACTCTTCTTCAG-TCGAGATTTGGCGATCATGTCGTCGACATAGA----AATTTCTTTATG
18542921 CACTCTTCTTCA-TCGAGATTTGGCGATCATGTCGTCGACATAGAAATTTCTTTATG
1 CACTCTTCTTCAGTCGAGATTTGGCGATCATGTCGTCGACATAGAAATTTCTTTATG
18542977 CA
1 CA
18542979 TCATCATAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
56 14 0.24
60 32 0.55
62 12 0.21
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (57 bp):
CACTCTTCTTCAGTCGAGATTTGGCGATCATGTCGTCGACATAGAAATTTCTTTATG
Found at i:18552486 original size:35 final size:35
Alignment explanation
Indices: 18552440--18552510 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
18552430 CCAAAATGAC
18552440 GTCGTTTTGGGGGCCTACATAAGTCAATTTTTTTG
1 GTCGTTTTGGGGGCCTACATAAGTCAATTTTTTTG
*
18552475 GTCGTTTTGGGGGCCTATATAAGTCAATTTTTTTG
1 GTCGTTTTGGGGGCCTACATAAGTCAATTTTTTTG
18552510 G
1 G
18552511 AAAAAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.44
Consensus pattern (35 bp):
GTCGTTTTGGGGGCCTACATAAGTCAATTTTTTTG
Found at i:18553216 original size:24 final size:23
Alignment explanation
Indices: 18553183--18553228 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
18553173 GGGTCTGGGT
*
18553183 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTAGGTTTAGGGGTT-TTGGC
*
18553207 TTAGTGGGTTTAGGGGTTTTGG
1 TTAGTAGGTTTAGGGGTTTTGG
18553229 GCCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
TTAGTAGGTTTAGGGGTTTTGGC
Found at i:18555941 original size:33 final size:34
Alignment explanation
Indices: 18555887--18555969 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
18555877 GACATAAAGC
* *
18555887 TTAAC-TTATAATTCAATAATTTAGATTTAATAG
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
18555920 TTAACTTTATAATTTAA-AATTTAGATTTAATAA
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
* * *
18555953 TGAACTTCATAGTTTAA
1 TTAACTTTATAATTTAA
18555970 GTATTAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 34 0.77
34 10 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
TTAACTTTATAATTTAATAATTTAGATTTAATAA
Found at i:18556686 original size:23 final size:24
Alignment explanation
Indices: 18556641--18556686 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
18556631 ATTATTTATA
18556641 AACATGTTTAATTATATGTTCATG
1 AACATGTTTAATTATATGTTCATG
*
18556665 AACATGTTTATTTA-ATGTTCAT
1 AACATGTTTAATTATATGTTCAT
18556687 TTAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (24 bp):
AACATGTTTAATTATATGTTCATG
Found at i:18566283 original size:18 final size:17
Alignment explanation
Indices: 18566241--18566303 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
18566231 TCTGCGAACC
*
18566241 GCGAGCTCACCAAATGT
1 GCGAGCTCACCAAAAGT
*
18566258 GTGAGCTCACCAAAAGAT
1 GCGAGCTCACCAAAAG-T
* *
18566276 GCGAGCTCACCAAGACT
1 GCGAGCTCACCAAAAGT
*
18566293 GTGAGCTCACC
1 GCGAGCTCACC
18566304 TGTAACACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 25 0.64
18 14 0.36
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (17 bp):
GCGAGCTCACCAAAAGT
Found at i:18567845 original size:40 final size:40
Alignment explanation
Indices: 18567762--18567847 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
18567752 ATCTCAGTCT
* * *
18567762 CGCACACTAAGTGCCATATATAACTGAAGTTATTCCGATA
1 CGCACACTAAGTGCCATATATAACCGAAGCTATTCCGAAA
* *
18567802 CGCACACTAAGTGCTATATATAGCCGAAGCTA-TCTCGAAA
1 CGCACACTAAGTGCCATATATAACCGAAGCTATTC-CGAAA
18567842 CGCACA
1 CGCACA
18567848 TTAAATGACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAACCGAAGCTATTCCGAAA
Found at i:18569041 original size:18 final size:18
Alignment explanation
Indices: 18569015--18569049 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18569005 GCGAACTGCG
*
18569015 AAATGCGAGCTCACCAAA
1 AAATACGAGCTCACCAAA
18569033 AAATACGAGCTCACCAA
1 AAATACGAGCTCACCAA
18569050 GATCGTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.29, G:0.14, T:0.11
Consensus pattern (18 bp):
AAATACGAGCTCACCAAA
Found at i:18569061 original size:17 final size:16
Alignment explanation
Indices: 18569039--18569098 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
18569029 CAAAAAATAC
18569039 GAGCTCACCAAGATCGT
1 GAGCTCACCAAGAT-GT
*
18569056 GAGCTCACCAACATTGT
1 GAGCTCACCAAGA-TGT
* *
18569073 GAGCTTACCAAGCATGA
1 GAGCTCACCAAG-ATGT
18569090 GAGCTCACC
1 GAGCTCACC
18569099 TGTGAGCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 34 0.94
18 2 0.06
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (16 bp):
GAGCTCACCAAGATGT
Found at i:18588647 original size:93 final size:93
Alignment explanation
Indices: 18588535--18588705 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
18588525 GCCCATAAGT
* *
18588535 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18588600 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18588628 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18588693 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18588706 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18588721 original size:46 final size:46
Alignment explanation
Indices: 18588527--18588707 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
18588517 TGTAACCCGC
* * *
18588527 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18588573 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18588623 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
18588666 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
18588708 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18591126 original size:30 final size:30
Alignment explanation
Indices: 18591082--18591170 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
18591072 CAAAGATAAC
18591082 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
18591111 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
18591141 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
18591171 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:18591130 original size:15 final size:15
Alignment explanation
Indices: 18591082--18591161 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
18591072 CAAAGATAAC
*
18591082 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18591096 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18591111 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
18591126 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18591141 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18591156 AAGAAA
1 AAGAAA
18591162 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18591170 original size:15 final size:15
Alignment explanation
Indices: 18591093--18591170 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
18591083 AGAAAACCGA
18591093 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
18591108 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
18591122 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18591137 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18591153 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18591168 ATA
1 ATA
18591171 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18594197 original size:93 final size:93
Alignment explanation
Indices: 18594085--18594255 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
18594075 GCCCATAAGT
* *
18594085 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18594150 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18594178 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18594243 CGAGTTCGGATGC
66 CGAGTTCGGATGC
18594256 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18594271 original size:46 final size:46
Alignment explanation
Indices: 18594077--18594257 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
18594067 TGTAACCCGC
* * *
18594077 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18594123 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18594173 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
18594216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
18594258 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18597023 original size:17 final size:17
Alignment explanation
Indices: 18597001--18597079 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
18596991 AACTGTGAAC
18597001 TGCGAGCTCACCAA-AT
1 TGCGAGCTCACCAACAT
*
18597017 GTGCGAGCTCACCAAGAT
1 -TGCGAGCTCACCAACAT
* *
18597035 CGCGAGCTCACCAACAC
1 TGCGAGCTCACCAACAT
18597052 TGCGAGCTCACCAAGCA-
1 TGCGAGCTCACCAA-CAT
*
18597069 TGAGAGCTCAC
1 TGCGAGCTCAC
18597080 TTTCAAGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
17 51 0.93
18 4 0.07
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (17 bp):
TGCGAGCTCACCAACAT
Found at i:18597045 original size:34 final size:34
Alignment explanation
Indices: 18597001--18597079 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 34
18596991 AACTGTGAAC
*
18597001 TGCGAGCTCACCAA-ATGTGCGAGCTCACCAAG-A
1 TGCGAGCTCACCAACA-CTGCGAGCTCACCAAGCA
18597034 TCGCGAGCTCACCAACACTGCGAGCTCACCAAGCA
1 T-GCGAGCTCACCAACACTGCGAGCTCACCAAGCA
*
18597069 TGAGAGCTCAC
1 TGCGAGCTCAC
18597080 TTTCAAGATC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
33 1 0.02
34 37 0.90
35 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (34 bp):
TGCGAGCTCACCAACACTGCGAGCTCACCAAGCA
Found at i:18614558 original size:43 final size:43
Alignment explanation
Indices: 18614453--18614619 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
18614443 CGTACAATGG
** * * * * * *
18614453 CAACGTCCCAGATGTGGTCTTACATGTAACCACATGTCGAAGC
1 CAACGTCCCAGACATGGTCTTACACGAAATCACATATTGATGC
* *
18614496 C-ACTGTCTCAGACAGGGTCTTACACG-AATCACA-ATTACGATGC
1 CAAC-GTCCCAGACATGGTCTTACACGAAATCACATATT--GATGC
* * *
18614539 CAATGTCCCATACATGGTCTTACTCGAAATCACATATTGATGC
1 CAACGTCCCAGACATGGTCTTACACGAAATCACATATTGATGC
* * *
18614582 CAACGTCCCAGACGTCGTCTTACATGAGAA-CACATATT
1 CAACGTCCCAGACATGGTCTTACACGA-AATCACATATT
18614620 AGAAATCCTA
Statistics
Matches: 97, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 75 0.77
44 10 0.10
45 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
CAACGTCCCAGACATGGTCTTACACGAAATCACATATTGATGC
Found at i:18616785 original size:93 final size:93
Alignment explanation
Indices: 18616626--18616797 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18616616 CGCCCATAAG
* * * *
18616626 CGAACTCGGACTCAACTCAACTAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18616691 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
18616719 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18616784 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18616798 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18616787 original size:46 final size:46
Alignment explanation
Indices: 18616619--18616794 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
18616609 TGTAACCCGC
* * * * *
18616619 CCATAAGCGAACTCGGACTCAACTCAACTAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
18616665 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
18616715 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
18616758 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18616795 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:18616813 original size:46 final size:46
Alignment explanation
Indices: 18616670--18616806 Score: 133
Period size: 47 Copynumber: 3.0 Consensus size: 46
18616660 CGCATCCATG
18616670 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCTC
* * * *
18616718 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA--TA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTC
18616763 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
18616807 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
44 7 0.10
45 3 0.04
46 28 0.38
47 30 0.41
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTC
Found at i:18618920 original size:43 final size:43
Alignment explanation
Indices: 18618859--18618944 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
18618849 TAGGAATGAG
*
18618859 TAGATCCTATGTCTATTAGTGTAGTATAAGGTACATTATAGAT
1 TAGATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
18618902 TAGATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
1 TAGATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
18618945 AAAGAACGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (43 bp):
TAGATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
Found at i:18623419 original size:40 final size:40
Alignment explanation
Indices: 18623293--18623442 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 40
18623283 CACGATTTGG
* * * * * *
18623293 ACAAATGCCTTTGGGTCTTAGCCCGGATTTAACAACTTGC
1 ACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTAGC
18623333 ACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTAGC
1 AC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTAGC
* * **
18623373 ACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCAGC
1 ACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-AGC
* * *
18623413 ATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 ACAATTGCCTTCGGGTCTTAGCCCGGATAT
18623443 CATTCAATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 88 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (40 bp):
ACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTAGC
Found at i:18638015 original size:19 final size:19
Alignment explanation
Indices: 18637991--18638041 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
18637981 ACTATCATGA
18637991 AGAGAACAAAGACGTCCAT
1 AGAGAACAAAGACGTCCAT
*
18638010 AGAGAACAAAGATGTCCAT
1 AGAGAACAAAGACGTCCAT
*
18638029 -GAAGAACGAAGAC
1 AG-AGAACAAAGAC
18638042 TATGGATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.49, C:0.18, G:0.24, T:0.10
Consensus pattern (19 bp):
AGAGAACAAAGACGTCCAT
Found at i:18640762 original size:6 final size:6
Alignment explanation
Indices: 18640744--18640782 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
18640734 CTCCTATCTT
* * *
18640744 TTTTTA TTCTTA TTTTTA TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
18640783 CAATTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:18640788 original size:24 final size:23
Alignment explanation
Indices: 18640743--18640802 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
18640733 CCTCCTATCT
**
18640743 TTTTTTATTCTTATTTTTATTTT-
1 TTTTTTATT-TTATTTCAATTTTA
18640766 TCTTTTTATTTTCATTTCAATTTTA
1 T-TTTTTATTTT-ATTTCAATTTTA
18640791 TTATTTTATTTT
1 TT-TTTTATTTT
18640803 GAAAGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 3 0.10
24 18 0.58
25 10 0.32
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTATTTCAATTTTA
Found at i:18646154 original size:21 final size:20
Alignment explanation
Indices: 18646130--18646168 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18646120 GTGTAAATGT
18646130 AGTAACATAATTGTCATTTTA
1 AGTAACATAA-TGTCATTTTA
**
18646151 AGTAATTTAATGTCATTT
1 AGTAACATAATGTCATTT
18646169 ATATGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
AGTAACATAATGTCATTTTA
Found at i:18665040 original size:27 final size:27
Alignment explanation
Indices: 18664983--18665042 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
18664973 ATACATATCA
*
18664983 TAGGGGCATATAAGTCATTTTACCATG
1 TAGGGGCATATAAGTCATTTTACAATG
* *
18665010 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATAAGTCATTTTA-CAATG
18665037 TAGGGG
1 TAGGGG
18665043 GTCTAAGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATAAGTCATTTTACAATG
Found at i:18669171 original size:32 final size:32
Alignment explanation
Indices: 18669099--18669160 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
18669089 GATGGCATTG
* *
18669099 TAACTGATATTGGTTTTGATATGGGCTAGGCC
1 TAACTGATATTGATTTTGAGATGGGCTAGGCC
18669131 TAACTGATATTGATTTTGAGATGGGCTAGG
1 TAACTGATATTGATTTTGAGATGGGCTAGG
18669161 GCCAATTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (32 bp):
TAACTGATATTGATTTTGAGATGGGCTAGGCC
Found at i:18670897 original size:6 final size:6
Alignment explanation
Indices: 18670867--18671059 Score: 94
Period size: 6 Copynumber: 31.3 Consensus size: 6
18670857 AAGAAACATT
* * * *
18670867 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
18670914 GTGGCAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * * *
18670965 ATCAGT ATCAGGTA A-CATAA AT-AGA ATTAGA ACCAGA ATCAAA ATTAGGTA
1 ATCAGA ATCA-G-A ATCA-GA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
18671016 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
18671060 GTGAACGCAA
Statistics
Matches: 140, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
5 11 0.08
6 109 0.78
7 13 0.09
8 7 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:18670923 original size:19 final size:17
Alignment explanation
Indices: 18670898--18670969 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 17
18670888 AGAATTAGAA
18670898 TCAGAATCAAAATCAGG
1 TCAGAATCAAAATCAGG
*
18670915 TGGCAGAATCAAAATCAGAA
1 T--CAGAATCAAAATCAG-G
* *
18670935 TCAGAATCAGAATTAGG
1 TCAGAATCAAAATCAGG
18670952 TAACAGAATCAAAATCAG
1 T--CAGAATCAAAATCAG
18670970 TATCAGGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 28 0.64
20 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (17 bp):
TCAGAATCAAAATCAGG
Found at i:18670958 original size:25 final size:25
Alignment explanation
Indices: 18670930--18671059 Score: 108
Period size: 25 Copynumber: 5.7 Consensus size: 25
18670920 GAATCAAAAT
18670930 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
* * *
18670955 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
18670980 C---AT-A-AAT-AGAATTA-G-AA
1 CAGAATCAGAATCAGAATTAGGTAA
18670997 CCAGAATCA-A-----AATTAGGTAA
1 -CAGAATCAGAATCAGAATTAGGTAA
* *
18671017 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
18671042 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
18671060 GTGAACGCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
17 2 0.02
18 7 0.08
19 14 0.17
20 6 0.07
21 3 0.04
22 4 0.05
25 48 0.57
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:18670959 original size:37 final size:37
Alignment explanation
Indices: 18670894--18670975 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
18670884 AATGAGAATT
**
18670894 AGAATCAGAATCAAAATCAGGTGGCAGAATCAAAATC
1 AGAATCAGAATCAAAATCAGGTAACAGAATCAAAATC
* *
18670931 AGAATCAGAATCAGAATTAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAAAATCAGGTAACAGAATCAAAATC
*
18670968 AGTATCAG
1 AGAATCAG
18670976 GTAACATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAAAATCAGGTAACAGAATCAAAATC
Found at i:18670976 original size:62 final size:62
Alignment explanation
Indices: 18670894--18671059 Score: 226
Period size: 62 Copynumber: 2.7 Consensus size: 62
18670884 AATGAGAATT
** ** * *
18670894 AGAATCAGAATCAAAATCAGGTGGCAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAAAATTAGGTAAC
* * * *
18670956 AGAATCAAAATCAGTATCAGGTAACATAAAT-AGAATTAGAACCAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACA-GAATCAGAATCAGAATCAGAATCAAAATTAGGTAAC
18671018 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
18671060 GTGAACGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
61 3 0.03
62 82 0.93
63 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAAAATTAGGTAAC
Found at i:18671504 original size:27 final size:27
Alignment explanation
Indices: 18671474--18671779 Score: 280
Period size: 27 Copynumber: 11.3 Consensus size: 27
18671464 GGGGTAAAAT
* *
18671474 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
18671501 GGTAATTCTACCTTAC-AGGAGTATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * *
18671528 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
18671555 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
18671582 AGTAATTCTACTCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * *
18671609 ATTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
18671636 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
18671663 GATAATTCTACTCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
18671690 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
18671717 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
18671744 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
18671771 GGTAATTTT
1 GGTAATTTT
18671780 GTAAATCGAG
Statistics
Matches: 231, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 13 0.06
27 206 0.89
28 12 0.05
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:18671534 original size:54 final size:53
Alignment explanation
Indices: 18671475--18671777 Score: 322
Period size: 54 Copynumber: 5.6 Consensus size: 53
18671465 GGGTAAAATG
* * *
18671475 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTTA
* * * * *
18671529 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTTA
* * * *** *
18671583 GTAATTCTACTCTACAGGGGTATTTTATTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTTA
* *
18671637 GT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACTCTACAGGGGTATTTTA
1 GTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTTA
* * * *
18671691 GTAATTTTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTTA
**
18671744 GGCATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GTAATTT-TACCCTACAAGGGTATTTCGGTAATT
18671778 TTGTAAATCG
Statistics
Matches: 208, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
53 12 0.06
54 188 0.90
55 8 0.04
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (53 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTTA
Found at i:18671599 original size:81 final size:81
Alignment explanation
Indices: 18671478--18671769 Score: 435
Period size: 81 Copynumber: 3.6 Consensus size: 81
18671468 TAAAATGGTA
* * *
18671478 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTAC-CTTACAGGAGTATTTTAGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTC-TACAGGGGTATTTTAGTAATTCTACCC
*
18671541 TATAGGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
* *
18671558 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACTCTACAGGGGTATTTTATTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGGGTATTTTAGTAATTCTACCCT
*
18671623 ACAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* *
18671639 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACTCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGGGTATTTTAGTAATTCTACCCT
*
18671704 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCGGT
* * * *
18671720 ATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGGGTATTT
18671770 CGGTAATTTT
Statistics
Matches: 192, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
80 4 0.02
81 187 0.97
82 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:18671791 original size:27 final size:27
Alignment explanation
Indices: 18671759--18672154 Score: 338
Period size: 27 Copynumber: 14.7 Consensus size: 27
18671749 TTCTACCCTA
* **
18671759 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **** **
18671786 CGAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
18671813 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** **
18671840 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
18671867 CGAGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
18671894 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
18671920 CTAGGGGTATTTTGATAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
18671948 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
18671974 CTAGGGGTATTTTGGTAATTTTATAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
18672002 CAAGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
18672028 CTAGGGGTA-TTTGGTAATTTTGTAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
18672055 CAAGGGTATTTTAGTAA-TTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
18672081 CAGGGGTATTTTGGTGATTTTATAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
18672107 CTAAGGGTATTTTAGTAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
18672134 CTAGGGGTATTTTGGTAATTT
1 C-AAGGGTATTTTGGTAATTT
18672155 GGTAAACTAA
Statistics
Matches: 311, Mismatches: 49, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
26 45 0.14
27 264 0.85
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:18671955 original size:81 final size:80
Alignment explanation
Indices: 18671816--18672154 Score: 373
Period size: 81 Copynumber: 4.2 Consensus size: 80
18671806 TGTAAATCAA
* ** ** ***
18671816 GGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGATAATTTTACAAACCAG-GGGTATTTT
18671879 AGTAATTTTACAAATCAG
64 AGTAATTTTACAAA-CAG
* *
18671897 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAG
18671962 TAATTTTACAAACTAG
66 TAATTTTACAAAC-AG
* * * *
18671978 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT-AGTAATTTTACAAACTAGGGGTA-TTTG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGA-TAATTTTACAAACCAGGGGTATTTTA
** *
18672041 GTAATTTTGTAAACCAA
65 GTAATTTTACAAA-CAG
* * * * * *
18672058 GGGTATTTTAGTAA-TTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAG
18672122 TAATTTTACAAACTAG
66 TAATTTTACAAAC-AG
18672138 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
18672155 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
79 38 0.17
80 59 0.27
81 121 0.55
82 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAG
TAATTTTACAAACAG
Found at i:18672163 original size:27 final size:27
Alignment explanation
Indices: 18671870--18672154 Score: 387
Period size: 27 Copynumber: 10.6 Consensus size: 27
18671860 TACAGGTCGA
*
18671870 GGGTATTTTAGTAATTTTACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
18671897 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
18671924 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18671951 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
18671978 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
18672005 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
18672032 GGGTA-TTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
18672058 GGGTATTTTAGTAA-TTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
18672084 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
18672111 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18672138 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
18672155 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 42 0.19
27 181 0.81
28 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:18672170 original size:53 final size:54
Alignment explanation
Indices: 18671816--18672154 Score: 441
Period size: 54 Copynumber: 6.3 Consensus size: 54
18671806 TGTAAATCAA
* * ** * * * ** *
18671816 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * * *
18671869 AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * *
18671924 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
18671978 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
18672032 GGGTA-TTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAA-TTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
18672084 GGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
18672138 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
18672155 GGTAAACTAA
Statistics
Matches: 257, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
52 16 0.06
53 66 0.26
54 172 0.67
55 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:18675389 original size:20 final size:21
Alignment explanation
Indices: 18675364--18675405 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
18675354 TTCTCCTAAC
18675364 CAATTGATTCACTTTCC-TTT
1 CAATTGATTCACTTTCCATTT
18675384 CAATTGATTCACTTTCCATTT
1 CAATTGATTCACTTTCCATTT
18675405 C
1 C
18675406 TTAACCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.48
Consensus pattern (21 bp):
CAATTGATTCACTTTCCATTT
Found at i:18676597 original size:31 final size:32
Alignment explanation
Indices: 18676546--18676615 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 32
18676536 AATTGAAATA
* *
18676546 GGCTAGGCCTAACTGATATTGGTTCTGATATG
1 GGCTAGGCCTAACTGATATTGATTCTGAGATG
18676578 GGCTAGGCCTAA-TGATATTGATTCTGAGATG
1 GGCTAGGCCTAACTGATATTGATTCTGAGATG
18676609 GGCTAGG
1 GGCTAGG
18676616 TCCAATTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (32 bp):
GGCTAGGCCTAACTGATATTGATTCTGAGATG
Found at i:18679304 original size:46 final size:46
Alignment explanation
Indices: 18679250--18679373 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
18679240 TTTGGGCATC
* * *
18679250 CGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCT
18679295 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCT
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCT
* * *
18679342 CGAGCTCTTTGAGTTGAGTCTGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18679374 GGGGTGGGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 68 0.96
47 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCT
Found at i:18681588 original size:24 final size:24
Alignment explanation
Indices: 18681556--18681665 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
18681546 TCTTACTCAT
*
18681556 TCGCACACATAGTGCCACGT-TTCC
1 TCGCACACATAGTGCCACGTAAT-C
* *
18681580 TCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * *
18681604 TTGCACACATAGTGCCACGTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
* * * *
18681629 TTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
*
18681653 TCTCACACATAGT
1 TCGCACACATAGT
18681666 ACTGAAATTT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
24 48 0.70
25 21 0.30
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:18685191 original size:28 final size:27
Alignment explanation
Indices: 18685128--18685197 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
18685118 ATAGTGAGTC
18685128 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
18685155 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
18685183 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18685198 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:18691916 original size:201 final size:201
Alignment explanation
Indices: 18691571--18691973 Score: 797
Period size: 201 Copynumber: 2.0 Consensus size: 201
18691561 TTCAAATGAA
18691571 ATCAAATACAACACATTTTGAATTCTGTAAAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAG
1 ATCAAATACAACACATTTTGAATTCTGTAAAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAG
18691636 ATTAGTCAAATAGTGAAACAAGGGAAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCAAA
66 ATTAGTCAAATAGTGAAACAAGGGAAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCAAA
18691701 AATTCTGAAAATTTTATGGATGGAAGATTTATGAGTCTATATTCAGGGAAAATTAACGGAAATTG
131 AATTCTGAAAATTTTATGGATGGAAGATTTATGAGTCTATATTCAGGGAAAATTAACGGAAATTG
18691766 ATTTGG
196 ATTTGG
18691772 ATCAAATACAACACATTTTGAATTCTGTAAAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAG
1 ATCAAATACAACACATTTTGAATTCTGTAAAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAG
*
18691837 ATTAGTCAAATAGTGAAACAGGGGAAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCAAA
66 ATTAGTCAAATAGTGAAACAAGGGAAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCAAA
18691902 AATTCTGAAAATTTTATGGATGGAAGATTTATGAGTCTATATTCAGGGAAAATTAACGGAAATTG
131 AATTCTGAAAATTTTATGGATGGAAGATTTATGAGTCTATATTCAGGGAAAATTAACGGAAATTG
18691967 ATTTGG
196 ATTTGG
18691973 A
1 A
18691974 GTTTTTTAGC
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (201 bp):
ATCAAATACAACACATTTTGAATTCTGTAAAATGAGAAATTTGATTCGTAGTGAAGAGTGGTCAG
ATTAGTCAAATAGTGAAACAAGGGAAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCAAA
AATTCTGAAAATTTTATGGATGGAAGATTTATGAGTCTATATTCAGGGAAAATTAACGGAAATTG
ATTTGG
Found at i:18692422 original size:47 final size:47
Alignment explanation
Indices: 18692369--18692559 Score: 292
Period size: 47 Copynumber: 4.1 Consensus size: 47
18692359 TTAGGATTTT
* *
18692369 ATGTGATGAATGTGAACATTCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
18692416 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
18692463 ATGTGATGAATGTGAACATGCGTATGTATGATAAGGCCAAATGGCCA
1 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
18692510 ATGTGATGAATATGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
18692557 ATG
1 ATG
18692560 CGAAACGTGT
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:18692516 original size:22 final size:22
Alignment explanation
Indices: 18692442--18692516 Score: 53
Period size: 24 Copynumber: 3.3 Consensus size: 22
18692432 CATGCGTATG
*
18692442 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCAAATGGCCAA
* ** **
18692464 TGTGATGAATGTGAACAT-GCGTA
1 TGTGAT-AAGGCCAA-ATGGCCAA
18692487 TGTATGATAAGGCCAAATGGCCAA
1 TG--TGATAAGGCCAAATGGCCAA
18692511 TGTGAT
1 TGTGAT
18692517 GAATATGAAC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 10 0.27
23 11 0.30
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCAAATGGCCAA
Found at i:18692599 original size:46 final size:46
Alignment explanation
Indices: 18692533--18692623 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
18692523 GAACATGTAT
* * *
18692533 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * * *
18692579 ATATGTGGTAAAGCTAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
18692624 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:18699747 original size:46 final size:46
Alignment explanation
Indices: 18699572--18699747 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
18699562 TGTAACCCGC
* * * *
18699572 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
18699618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
18699668 CTC-T---CGAAGTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
18699711 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18699748 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 62 0.57
47 27 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:18699766 original size:46 final size:46
Alignment explanation
Indices: 18699623--18699766 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 46
18699613 CGCATCCATA
*
18699623 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * * *
18699672 --CGAAGTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
18699716 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
18699762 AGTGA
1 AGTGA
18699767 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:18702220 original size:14 final size:14
Alignment explanation
Indices: 18702180--18702221 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
18702170 AATCCATTTG
18702180 TATCTCATTTCTTT-
1 TATCTC-TTTCTTTA
18702194 TAT-TCTATTCTTTA
1 TATCTCT-TTCTTTA
18702208 TATCTCTTTCTTTA
1 TATCTCTTTCTTTA
18702222 ACATTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 8 0.32
14 13 0.52
15 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (14 bp):
TATCTCTTTCTTTA
Found at i:18706125 original size:20 final size:20
Alignment explanation
Indices: 18706086--18706125 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18706076 AAACTTCTTC
* *
18706086 ACTTACTCACTTATTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18706106 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18706126 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18706498 original size:55 final size:53
Alignment explanation
Indices: 18706376--18706507 Score: 176
Period size: 55 Copynumber: 2.5 Consensus size: 53
18706366 TTACCATTTT
*
18706376 CATGTCTTGACATGGTCTTACATGGTATCCTTGCATTATGAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCACCAATGC
* * * * *
18706429 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGCATTAT-G-AACTCACCAATGC
18706484 CATGTCTTGACATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
18706508 ATTTCCTTGC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 32 0.47
54 1 0.01
55 33 0.49
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCACCAATGC
Found at i:18706518 original size:55 final size:52
Alignment explanation
Indices: 18706376--18706571 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 52
18706366 TTACCATTTT
*
18706376 CATGTCTTGACATGGTCTTACATGGTATCCTTGCATTATGAACTCACCAATGC
1 CATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCACCAATGC
* * * * *
18706429 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AACTCACCAATGC
* * *
18706484 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTTC
1 CATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA-CTCACCAA-TGC
**
18706539 CATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 CATGTCTTGA-CATGGTCTTACAT-GTATCCTTG
18706572 AACCATAATG
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 10 0.08
55 68 0.58
56 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
CATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAACTCACCAATGC
Found at i:18718848 original size:19 final size:19
Alignment explanation
Indices: 18718806--18718846 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
18718796 AGAAAAAGTG
18718806 AAAAGTAAGAACGAGAAGA
1 AAAAGTAAGAACGAGAAGA
18718825 AAAAGTACAGAAC-A-AAGA
1 AAAAGTA-AGAACGAGAAGA
18718843 AAAA
1 AAAA
18718847 AGCATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGTAAGAACGAGAAGA
Found at i:18720162 original size:6 final size:6
Alignment explanation
Indices: 18720146--18720202 Score: 66
Period size: 6 Copynumber: 9.7 Consensus size: 6
18720136 GAAAAGTCTT
*
18720146 TAAAAA T-AAAA TAAAAA TAAAAA TAAAAA T-AAAG TGAAAAA TAAAAGA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAA-A
18720194 T-AAAA TAAA
1 TAAAAA TAAA
18720203 TGGACTCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 11 0.25
6 27 0.61
7 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:18720199 original size:24 final size:23
Alignment explanation
Indices: 18720146--18720202 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
18720136 GAAAAGTCTT
18720146 TAAAAATAAAATAAAAATAAAAA
1 TAAAAATAAAATAAAAATAAAAA
*
18720169 TAAAAATAAAGTGAAAAATAAAAGA
1 TAAAAATAAAAT-AAAAATAAAA-A
18720194 T-AAAATAAA
1 TAAAAATAAA
18720203 TGGACTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 11 0.35
24 18 0.58
25 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (23 bp):
TAAAAATAAAATAAAAATAAAAA
Found at i:18721782 original size:19 final size:19
Alignment explanation
Indices: 18721758--18721809 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 19
18721748 AATCATAATA
18721758 AATAACAAATATAATGAAG
1 AATAACAAATATAATGAAG
18721777 AATAACAGTAATAATAATGAAG
1 AATAACA--AAT-ATAATGAAG
* *
18721799 ACTAATAAATA
1 AATAACAAATA
18721810 AATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 3 0.11
22 14 0.50
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.23
Consensus pattern (19 bp):
AATAACAAATATAATGAAG
Found at i:18723465 original size:10 final size:10
Alignment explanation
Indices: 18723450--18723475 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18723440 TGGCTACTTC
18723450 GGGCCGCGAT
1 GGGCCGCGAT
18723460 GGGCCGCGAT
1 GGGCCGCGAT
18723470 GGGCCG
1 GGGCCG
18723476 AAAAGGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.31, G:0.54, T:0.08
Consensus pattern (10 bp):
GGGCCGCGAT
Found at i:18723717 original size:27 final size:27
Alignment explanation
Indices: 18723687--18723944 Score: 338
Period size: 27 Copynumber: 9.6 Consensus size: 27
18723677 TAGTTTACCG
18723687 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* **
18723714 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAA
18723741 AATTACC-AAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
18723767 AATTACTAAAATACCCCTTGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
18723794 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * * *
18723821 AATTACCAAAATACCCTTAGTGTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
18723848 AATTACCAAAATACCCATGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
18723875 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* ** *
18723902 AATTACCAAAATACCTCTAATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
**
18723929 AATTACTGAAATACCC
1 AATTACCAAAATACCC
18723945 TCGACCTTTA
Statistics
Matches: 200, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.11
27 178 0.89
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:18723958 original size:27 final size:27
Alignment explanation
Indices: 18723869--18724001 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 27
18723859 TACCCATGGT
** * *
18723869 TTGTAAAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACTGAAATACCCTCGA-C
** * *
18723896 TTGTAAAATTACCAAAATA-CCTCTAAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
18723923 TTGTGAAATTACTGAAATACCCTCGACC
1 TTGTAAAATTACTGAAATACCCTCGA-C
*
18723951 TT-TAAAATTATTGAAATA-CCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
18723976 TTGTAAAATTAC-CAAAGTACCCTCGA
1 TTGTAAAATTACTGAAA-TACCCTCGA
18724002 TTTATAGAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
25 6 0.07
26 18 0.20
27 58 0.65
28 7 0.08
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:18723968 original size:81 final size:81
Alignment explanation
Indices: 18723687--18723998 Score: 249
Period size: 81 Copynumber: 3.9 Consensus size: 81
18723677 TAGTTTACCG
* ** * * **
18723687 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACC-AAA
1 AATTACCAAAATACCCATGCCTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
* ** * *
18723751 TACCCCTGGTTTGTAA
66 TACCCTTAATGTATAA
* * * * * *
18723767 AATTACTAAAATACCCCTTG-TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AATTACCAAAATA-CCCATGCCTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
18723831 ATACCCTTAGTGTATAA
65 ATACCCTTAATGTATAA
**
18723848 AATTACCAAAATACCCATGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCATGCCTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
* * *
18723913 TA-CCTCTAATTTGTGA
66 TACCCT-TAATGTATAA
** *** * * *
18723929 AATTACTGAAATACCC-TCGACCTT-TAAAATTATTGAAATACCTCGA-CTTGTAAAATTACCAA
1 AATTACCAAAATACCCAT-G-CCTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
18723991 AGTACCCT
64 AATACCCT
18723999 CGATTTATAG
Statistics
Matches: 194, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
80 75 0.39
81 117 0.60
82 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCATGCCTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
TACCCTTAATGTATAA
Found at i:18724012 original size:27 final size:27
Alignment explanation
Indices: 18723993--18724321 Score: 399
Period size: 27 Copynumber: 12.2 Consensus size: 27
18723983 ATTACCAAAG
* * *
18723993 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
18724020 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
18724047 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
18724074 TACCCTCAATTTAAAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * **
18724101 TACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
18724128 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
**
18724155 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
18724182 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
18724209 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
18724236 TACCCTCAATTTA-AAGAATTACTATTT
1 TACCCTCGATTTACAA-AATTACCATTT
* * *
18724263 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
18724290 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
18724317 TACCC
1 TACCC
18724322 CTAGGGTGTT
Statistics
Matches: 267, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 265 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:18724013 original size:53 final size:53
Alignment explanation
Indices: 18723687--18724015 Score: 156
Period size: 54 Copynumber: 6.1 Consensus size: 53
18723677 TAGTTTACCG
* *** * * *
18723687 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG-GTTTACAA
1 AATTACCAAAATACCTCTAACTTGTAAAATTACC-AAATACCCTCGACTTTA-TA
* *** * *
18723741 AATTACC-AAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTTG--TTTATAA
1 AATTACCAAAATACCTCTAACTTGTAAAATTAC-CAAATA-CCCTCGACTTTAT-A
* * *** * * *
18723794 AATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-TAGTGTATAA
1 AATTACCAAAATACCTCTAACTTGTAAAATTACC-AAATACCCTCGACTTTAT-A
*** * * *
18723848 AATTACCAAAATACC-CATGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCTC-TAACTTGTAAAATTACC-AAATACCCTCGACTTTAT-A
* * *
18723902 AATTACCAAAATACCTCTAATTTGTGAAATTACTGAAATACCCTCGACCTTTA-A
1 AATTACCAAAATACCTCTAACTTGTAAAATTAC-CAAATACCCTCGA-CTTTATA
*** *
18723956 AATTATTGAAATACCTC-GACTTGTAAAATTACCAAAGTACCCTCGA-TTTATA
1 AATTACCAAAATACCTCTAACTTGTAAAATTACCAAA-TACCCTCGACTTTATA
18724008 GAATTACC
1 -AATTACC
18724016 GTTTTACCCT
Statistics
Matches: 234, Mismatches: 25, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
51 4 0.02
52 4 0.02
53 72 0.31
54 148 0.63
55 3 0.01
56 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCTCTAACTTGTAAAATTACCAAATACCCTCGACTTTATA
Found at i:18724041 original size:54 final size:54
Alignment explanation
Indices: 18723993--18724321 Score: 453
Period size: 54 Copynumber: 6.1 Consensus size: 54
18723983 ATTACCAAAG
* *
18723993 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * * * *
18724047 TACCCTCAATTTACAAAATTACTGTTTTACCCTCAATTTAAAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
18724101 TACTCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * *
18724155 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
18724209 TATCCTCGATTTACAGAATTACCATTTTACCCTCAATTTA-AAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAA-AATTACCATTT
* *
18724263 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
18724317 TACCC
1 TACCC
18724322 CTAGGGTGTT
Statistics
Matches: 244, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 240 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
Found at i:18724602 original size:27 final size:26
Alignment explanation
Indices: 18724558--18724609 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18724548 CTCGCTGCAA
*
18724558 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
18724585 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
18724610 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:18724763 original size:31 final size:31
Alignment explanation
Indices: 18724728--18724806 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
18724718 TTGCATTCAC
* *
18724728 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* * *
18724759 ATTCTGATTCTAATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
18724790 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
18724807 AGTTTTCATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:18724767 original size:6 final size:6
Alignment explanation
Indices: 18724728--18724806 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
18724718 TTGCATTCAC
* * * *
18724728 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
18724777 -TCACCTG ATTCTG ATTTTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
18724807 AGTTTTCATA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
5 3 0.05
6 45 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:18728294 original size:123 final size:123
Alignment explanation
Indices: 18728075--18728413 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
18728065 GAATTATGTG
*
18728075 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
18728140 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
18728198 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
18728263 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
18728321 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
18728386 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
18728414 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:18728488 original size:40 final size:39
Alignment explanation
Indices: 18728382--18728624 Score: 283
Period size: 40 Copynumber: 6.1 Consensus size: 39
18728372 TGAATGATAC
* * * *
18728382 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGT-GTTATAT
* * * * *
18728422 CCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTG-TTATAT
18728461 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAG-TGTTATAT
18728501 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAG-TGTTATAT
18728541 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGT-GTTATAT
* * * **
18728581 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGT-GTTATAT
18728621 CCGG
1 CCGG
18728625 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
39 32 0.18
40 146 0.81
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTGTTATAT
Found at i:18735708 original size:123 final size:123
Alignment explanation
Indices: 18735489--18735827 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
18735479 GAATTATGTG
*
18735489 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
18735554 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
18735612 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
18735677 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
18735735 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
18735800 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
18735828 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:18735851 original size:40 final size:40
Alignment explanation
Indices: 18735796--18735940 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
18735786 TGAATGATAC
* * *
18735796 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
* * * *
18735836 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
* * **
18735876 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
*
18735916 CCGGGCTAATACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTG
18735941 CATTCGTGCG
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTATAT
Found at i:18737860 original size:561 final size:562
Alignment explanation
Indices: 18736798--18737912 Score: 2088
Period size: 561 Copynumber: 2.0 Consensus size: 562
18736788 CGAACCTTGA
18736798 TGGATCTATTTTCATATGAAAGTAACGAAACGATCATATGATCAGTTTACTAAGAGATATTAAAG
1 TGGATCTATTTTCATATGAAAGTAACGAAACGATCATATGATCAGTTTACTAAGAGATATTAAAG
18736863 TTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATCTCCTGTCTTGACTTTGAAAATTTACCACAA
66 TTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATCTCCTGTCTTGACTTTGAAAATTTACCACAA
*
18736928 ATTATCCAGAAGGAATTAGAAGTCATTCCTTATATGTAAAGATTCCTTTTTGAGTCTAGTTTCAT
131 ATTATCCAGAAGGAATTAGAAGTCATGCCTTATATGTAAAGATTCCTTTTTGAGTCTAGTTTCAT
* **
18736993 TAGAAACAAACGGAATCAGCATTGAAGCCTTGTACAGGGAGATATTCCAGTTGTAACGCGCGAAG
196 TAGAAACAAACGGAATCAGCATTGAAGCCTTGTACAAGGAGATATTCCAGTTGTAACGCAAGAAG
18737058 GTCAGTGTAGTCGACCCCTGTAACATGGGTGAATTTAACTAATAAACTGTACCAATTGGCCCGAC
261 GTCAGTGTAGTCGACCCCTGTAACATGGGTGAATTTAACTAATAAACTGTACCAATTGGCCCGAC
18737123 AAAAAATTCTAGAAATAAATCCAGGGATGTATATATGAGTCTAAATTCAGGGAAAATTTACAGAA
326 AAAAAATTCTAGAAATAAATCCAGGGATGTATATATGAGTCTAAATTCAGGGAAAATTTACAGAA
18737188 TCAGTTTCCGAGTTTTGTAACTCGAGATATGCCTTTTAAGGCGACAGTGACGCAGTTTTCCAGCT
391 TCAGTTTCCGAGTTTTGTAACTCGAGATATGCCTTTTAAGGCGACAGTGACGCAGTTTTCCAGCT
*
18737253 TGCCTGGAAATGTCAAATTGGTCGGTGCTATAAGTGGGTTTGGCTTGTTAACCTCTCGTGTCCGA
456 TGCCTGGAAATGTCAAATTGGTCGGTGCTATAAGTGGGTTTGGCTTGTTAACCCCTCGTGTCCGA
18737318 CACCGGAAACGGGCTCGGG-TTCGGGGTGTTACAATTTTATG
521 CACCGGAAACGGGCTCGGGTTTCGGGGTGTTACAATTTTATG
18737359 TGGATCTATTTTCATATGAAAGTAACGAAACGATCATATGATCAGTTTACTAAGAGATATTAAAG
1 TGGATCTATTTTCATATGAAAGTAACGAAACGATCATATGATCAGTTTACTAAGAGATATTAAAG
18737424 TTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATCTCCTGTCTTGACTTTGAAAATTTACCACAA
66 TTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATCTCCTGTCTTGACTTTGAAAATTTACCACAA
*
18737489 ATTATCCAGAAGGAATTAGAAGTCATGCCTTATATGTACAGATTCCTTTTTGAGTCTAGTTTCAT
131 ATTATCCAGAAGGAATTAGAAGTCATGCCTTATATGTAAAGATTCCTTTTTGAGTCTAGTTTCAT
** *
18737554 TAGAAACAAACGTCATCAGCATTGAAGCCTTTTACAAGGAGATATTCCAGTTGTAACGCAAGAAG
196 TAGAAACAAACGGAATCAGCATTGAAGCCTTGTACAAGGAGATATTCCAGTTGTAACGCAAGAAG
*
18737619 GTCAGTGTAGTCGACCCCTGTAACATGGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGAC
261 GTCAGTGTAGTCGACCCCTGTAACATGGGTGAATTTAACTAATAAACTGTACCAATTGGCCCGAC
* *
18737684 CAAAAATTCTAGAAATAAATCCAGGGATGTATATATGAGTCTAAATTCAGGGAAAATTTACGGAA
326 AAAAAATTCTAGAAATAAATCCAGGGATGTATATATGAGTCTAAATTCAGGGAAAATTTACAGAA
* *
18737749 TCAGTTTCCGAGTTTTGTAACTCGAGATATGCCTTTTGAGGCGACAGTGATGCAGTTTTCCAGCT
391 TCAGTTTCCGAGTTTTGTAACTCGAGATATGCCTTTTAAGGCGACAGTGACGCAGTTTTCCAGCT
18737814 TGCCTGGAAATGTCAAATTGGTCGGTGCTATAAGTGGGTTTGGCTTGTTAACCCCTCGTGTCCGA
456 TGCCTGGAAATGTCAAATTGGTCGGTGCTATAAGTGGGTTTGGCTTGTTAACCCCTCGTGTCCGA
*
18737879 CACCGGCAACGGGCTCGGGTTTCGGGGTGTTACA
521 CACCGGAAACGGGCTCGGGTTTCGGGGTGTTACA
18737913 TCAACTTTAT
Statistics
Matches: 538, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
561 524 0.97
562 14 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (562 bp):
TGGATCTATTTTCATATGAAAGTAACGAAACGATCATATGATCAGTTTACTAAGAGATATTAAAG
TTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATCTCCTGTCTTGACTTTGAAAATTTACCACAA
ATTATCCAGAAGGAATTAGAAGTCATGCCTTATATGTAAAGATTCCTTTTTGAGTCTAGTTTCAT
TAGAAACAAACGGAATCAGCATTGAAGCCTTGTACAAGGAGATATTCCAGTTGTAACGCAAGAAG
GTCAGTGTAGTCGACCCCTGTAACATGGGTGAATTTAACTAATAAACTGTACCAATTGGCCCGAC
AAAAAATTCTAGAAATAAATCCAGGGATGTATATATGAGTCTAAATTCAGGGAAAATTTACAGAA
TCAGTTTCCGAGTTTTGTAACTCGAGATATGCCTTTTAAGGCGACAGTGACGCAGTTTTCCAGCT
TGCCTGGAAATGTCAAATTGGTCGGTGCTATAAGTGGGTTTGGCTTGTTAACCCCTCGTGTCCGA
CACCGGAAACGGGCTCGGGTTTCGGGGTGTTACAATTTTATG
Found at i:18755543 original size:46 final size:46
Alignment explanation
Indices: 18755490--18755665 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18755480 TATTTGGGCA
18755490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18755536 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18755581 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18755629 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18755666 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18755645 original size:93 final size:93
Alignment explanation
Indices: 18755486--18755658 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
18755476 GGGATATTTG
* *
18755486 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18755551 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
18755579 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18755644 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18755659 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18764300 original size:23 final size:24
Alignment explanation
Indices: 18764270--18764323 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
18764260 AGGAAAGCCT
18764270 CATT-CTATTG-TCATACCCATGC
1 CATTACTATTGCTCATACCCATGC
* *
18764292 CATTACTA-TGCTCATTCTCATGC
1 CATTACTATTGCTCATACCCATGC
*
18764315 TATTACTAT
1 CATTACTAT
18764324 GCTAATGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (24 bp):
CATTACTATTGCTCATACCCATGC
Found at i:18765686 original size:6 final size:6
Alignment explanation
Indices: 18765677--18765734 Score: 79
Period size: 6 Copynumber: 10.3 Consensus size: 6
18765667 GATGATGATG
*
18765677 TTTAAT TTTA-T TTTATT TTTATT TTTA-- TTT-TT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
18765721 TTTATT TTTATT TT
1 TTTATT TTTATT TT
18765735 ATGTTTTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
4 3 0.06
5 8 0.17
6 37 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:18765713 original size:21 final size:21
Alignment explanation
Indices: 18765681--18765729 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
18765671 ATGATGTTTA
18765681 ATTTTATTTTATTTTTATTTTT
1 ATTTT-TTTTATTTTTATTTTT
18765703 ATTTTTTTTATTTTTATTTTT
1 ATTTTTTTTATTTTTATTTTT
18765724 ATTTTT
1 ATTTTT
18765730 ATTTTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (21 bp):
ATTTTTTTTATTTTTATTTTT
Found at i:18765721 original size:32 final size:32
Alignment explanation
Indices: 18765677--18765747 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
18765667 GATGATGATG
* *
18765677 TTTAATTTTA-TTTTATTTTTATTTTTATTTTT
1 TTTATTTTTATTTTTATTTTTA-TTTTATGTTT
18765709 TTTATTTTTATTTTTATTTTTATTTTATGTTT
1 TTTATTTTTATTTTTATTTTTATTTTATGTTT
*
18765741 TTAATTT
1 TTTATTT
18765748 CACCTTTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.80
Consensus pattern (32 bp):
TTTATTTTTATTTTTATTTTTATTTTATGTTT
Found at i:18765725 original size:27 final size:26
Alignment explanation
Indices: 18765682--18765734 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
18765672 TGATGTTTAA
18765682 TTTTATTTTATTTTTATTTTTATTTT
1 TTTTATTTTATTTTTATTTTTATTTT
18765708 TTTTATTTTTATTTTTATTTTTATTTT
1 TTTTA-TTTTATTTTTATTTTTATTTT
18765735 ATGTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (26 bp):
TTTTATTTTATTTTTATTTTTATTTT
Found at i:18765741 original size:12 final size:11
Alignment explanation
Indices: 18765677--18765741 Score: 80
Period size: 11 Copynumber: 5.8 Consensus size: 11
18765667 GATGATGATG
*
18765677 TTTAATTTTAT
1 TTTATTTTTAT
18765688 TTTATTTTTAT
1 TTTATTTTTAT
18765699 TTT-TATTTT-T
1 TTTAT-TTTTAT
18765709 TTTATTTTTATT
1 TTTATTTTTA-T
18765721 TTTATTTTTAT
1 TTTATTTTTAT
18765732 TTTATGTTTT
1 TTTAT-TTTT
18765742 TAATTTCACC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
10 9 0.19
11 24 0.50
12 15 0.31
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:18769319 original size:15 final size:17
Alignment explanation
Indices: 18769288--18769319 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18769278 ATGGTTCCCT
18769288 GCATAATAAAATATAAC
1 GCATAATAAAATATAAC
18769305 GCATAA-AAAAT-TAAC
1 GCATAATAAAATATAAC
18769320 ATGAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (17 bp):
GCATAATAAAATATAAC
Found at i:18771483 original size:50 final size:50
Alignment explanation
Indices: 18771416--18771706 Score: 343
Period size: 50 Copynumber: 5.8 Consensus size: 50
18771406 CGATAATATG
*
18771416 ATCGGCACAAAGCCATCGATAATAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
*
18771466 ATCAGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* * * *
18771516 ATCGGCACAAAGTCATTGATAACAGATCGGCACATAGCCGTCATTATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* *
18771566 ATCGGCACAAAGCCATCGATAACAGATCGGCAGAAAG-CATTCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCA-TCAATATCAT
* * * * * * * *
18771616 ATCGGTACAAAGCCATCAATAACATACCAGCATGA-AGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCA-CATAGCCATCAATATCAT
* * * * * * *
18771666 ATTGGCACAAAGCCTTCAATAGCATATCAGCACAAAGCCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCAT
18771707 AATCAGAATA
Statistics
Matches: 210, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
49 2 0.01
50 205 0.98
51 3 0.01
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:18771641 original size:25 final size:25
Alignment explanation
Indices: 18771416--18771706 Score: 269
Period size: 25 Copynumber: 11.6 Consensus size: 25
18771406 CGATAATATG
* * *
18771416 ATCGGCACAAAGCCATCGATAATAG
1 ATCGGCACAAAGCCATCAATAACAT
* *
18771441 ATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
18771466 ATCAGCACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* *
18771491 ATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* ** *
18771516 ATCGGCACAAAGTCATTGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* * * *
18771541 ATCGGCACATAGCCGTCATTATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* *
18771566 ATCGGCACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* *
18771591 ATCGGCAGAAAG-CATTCAATATCAT
1 ATCGGCACAAAGCCA-TCAATAACAT
*
18771616 ATCGGTACAAAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCAATAACAT
* * ** * *
18771641 ACCAGCATGAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
18771666 ATTGGCACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
*
18771691 ATCAGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
18771707 AATCAGAATA
Statistics
Matches: 207, Mismatches: 57, Indels: 4
0.77 0.21 0.01
Matches are distributed among these distances:
24 2 0.01
25 203 0.98
26 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATAACAT
Found at i:18771917 original size:41 final size:41
Alignment explanation
Indices: 18771856--18771975 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
18771846 AAGCCACCGG
*
18771856 TGGATCCAC-GATCGTCAAGCAACCATGCGATCCTTAATCGA
1 TGGATCCACAG-TCGTCAAGCAACCATGCGATCCTCAATCGA
* * *
18771897 TGGATCCATAGTCGTTAAGCAACCATGCGATCCTCAATCGG
1 TGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCGA
* * * *
18771938 TGGATCCACGGTTGTCAAGCAACCATACGATTCTCAAT
1 TGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAAT
18771976 TTCTTCCTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
TGGATCCACAGTCGTCAAGCAACCATGCGATCCTCAATCGA
Found at i:18772268 original size:27 final size:27
Alignment explanation
Indices: 18772234--18772466 Score: 184
Period size: 27 Copynumber: 8.6 Consensus size: 27
18772224 GGTAAATCTA
*
18772234 CAAACCAAGGGTATTTCGATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
** * * *
18772261 CAAGCCAATGGTATTTCTATAATTTTT
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
18772288 TAAAGTTAAGGGTATTTTTG-TAATTTTG
1 CAAA-TCAAGGGTA-TTTCGATAATTTTG
* * * *
18772316 TAAATCGAGGGTATTTTTG-TAATTTTC
1 CAAATCAAGGGTA-TTTCGATAATTTTG
* *
18772343 CAAATCAAGGGTATTTTGATAATTTTC
1 CAAATCAAGGGTATTTCGATAATTTTG
* * * *
18772370 CAAATTAGGGGTATTTTGATAATTTTA
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
18772397 CAAATCGAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
18772424 TAAACCAAGGGTA-TTCAATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
18772450 TAAACCAAGGGTATTTC
1 CAAATCAAGGGTATTTC
18772467 AATTATTCTA
Statistics
Matches: 171, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 29 0.17
27 122 0.71
28 17 0.10
29 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTG
Found at i:18772412 original size:81 final size:82
Alignment explanation
Indices: 18772213--18772448 Score: 237
Period size: 82 Copynumber: 2.9 Consensus size: 82
18772203 TTCAACCTAC
* * * * * * * * * *
18772213 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAGCCAATGGTATTTC
1 AAGGGTATTTTTGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTCCAAACCAAGGGTATTTC
**
18772278 TATAATTTTTTAAAGTT
66 TATAATTTTCCAAAGTT
** ** *
18772295 AAGGGTATTTTTGTAATTTTGTAAATCGAGGGTATTTTTGTAATTTTCCAAATCAAGGGTATTT-
1 AAGGGTATTTTTGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTCCAAACCAAGGGTATTTC
18772359 TGATAATTTTCCAAA-TT
66 T-ATAATTTTCCAAAGTT
* **
18772376 AGGGGTA-TTTTGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTA-TT
1 AAGGGTATTTTTG-TAATTTTACAAATCGAGGGTATTTCGGTAATTTTCCAAACCAAGGGTATTT
*
18772439 CAATAATTTT
65 CTATAATTTT
18772449 GTAAACCAAG
Statistics
Matches: 125, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
80 15 0.12
81 50 0.40
82 60 0.48
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (82 bp):
AAGGGTATTTTTGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTCCAAACCAAGGGTATTTC
TATAATTTTCCAAAGTT
Found at i:18772500 original size:26 final size:27
Alignment explanation
Indices: 18772455--18772537 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
18772445 TTTTGTAAAC
* * *
18772455 CAAGGGTATTTCAATTATTCTACCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
*
18772482 TAA-GGCATTTCAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
* * *
18772508 CAAGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGCATTTCAGTAATTCTACCCTA
18772535 CAA
1 CAA
18772538 TATGAGATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATTCTACCCTA
Found at i:18778533 original size:40 final size:40
Alignment explanation
Indices: 18778488--18778654 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
18778478 CGGAATATAA
*
18778488 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
18778528 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18778568 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
18778608 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18778647 CCGGATAT
1 CCGGATAT
18778655 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18781034 original size:20 final size:20
Alignment explanation
Indices: 18781006--18781066 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 20
18780996 GCCTTATTAG
*
18781006 AATATCACAGAGGCTAACAA
1 AATACCACAGAGGCTAACAA
* * *
18781026 AATACCACAAAGGCCATATCAG
1 AATACCACAGAGG-C-TAACAA
18781048 AATACCACAGAGGCTAACA
1 AATACCACAGAGGCTAACA
18781067 GAATGTCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 15 0.45
21 2 0.06
22 16 0.48
ACGTcount: A:0.48, C:0.25, G:0.15, T:0.13
Consensus pattern (20 bp):
AATACCACAGAGGCTAACAA
Found at i:18781054 original size:22 final size:21
Alignment explanation
Indices: 18780981--18781079 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 21
18780971 CAAAAGCTAG
*
18780981 CAGAATGCCACAAAGGCCTTAT
1 CAGAATACCACAAAGGCC-TAT
* * * *
18781003 TAGAATATCACAGAGG-CTAA
1 CAGAATACCACAAAGGCCTAT
*
18781023 CAAAATACCACAAAGGCCATAT
1 CAGAATACCACAAAGGCC-TAT
* *
18781045 CAGAATACCACAGAGG-CTAA
1 CAGAATACCACAAAGGCCTAT
**
18781065 CAGAATGTCACAAAG
1 CAGAATACCACAAAG
18781080 ATCAAAATAC
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
20 28 0.47
21 3 0.05
22 28 0.47
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.15
Consensus pattern (21 bp):
CAGAATACCACAAAGGCCTAT
Found at i:18781076 original size:20 final size:20
Alignment explanation
Indices: 18781004--18781070 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
18780994 AGGCCTTATT
*
18781004 AGAATATCACAGAGGCTAAC
1 AGAATACCACAGAGGCTAAC
* * *
18781024 AAAATACCACAAAGGCCATATC
1 AGAATACCACAGAGG-C-TAAC
18781046 AGAATACCACAGAGGCTAAC
1 AGAATACCACAGAGGCTAAC
18781066 AGAAT
1 AGAAT
18781071 GTCACAAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 20 0.53
21 2 0.05
22 16 0.42
ACGTcount: A:0.48, C:0.22, G:0.16, T:0.13
Consensus pattern (20 bp):
AGAATACCACAGAGGCTAAC
Done.