Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 58 of 103
Found at i:21965213 original size:25 final size:25
Alignment explanation
Indices: 21965144--21965270 Score: 112
Period size: 25 Copynumber: 5.1 Consensus size: 25
21965134 CACATTGTCA
* * * *
21965144 TACATATAACAGTCACGCATTGCCA
1 TACAGATAATAGTCACGCAATGCCC
*
21965169 TATAGATAATAGTCACGCAATGCCC
1 TACAGATAATAGTCACGCAATGCCC
* * *
21965194 TACAGATAACAATCACGCAATGACC
1 TACAGATAATAGTCACGCAATGCCC
* * * *
21965219 TGCATATAAT-GATCATGCAATGCCA
1 TACAGATAATAG-TCACGCAATGCCC
* *
21965244 TACAAATAATAGTAACGCAATGCCC
1 TACAGATAATAGTCACGCAATGCCC
21965269 TA
1 TA
21965271 TCAAGCAGTC
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
25 78 0.99
26 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.23
Consensus pattern (25 bp):
TACAGATAATAGTCACGCAATGCCC
Found at i:21969897 original size:13 final size:13
Alignment explanation
Indices: 21969879--21969903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21969869 TAACTATTAT
21969879 AAATATTTTTTAA
1 AAATATTTTTTAA
21969892 AAATATTTTTTA
1 AAATATTTTTTA
21969904 TTAACAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATTTTTTAA
Found at i:21975388 original size:86 final size:86
Alignment explanation
Indices: 21975216--21976132 Score: 1112
Period size: 86 Copynumber: 10.9 Consensus size: 86
21975206 CTTATAAATT
* * * * **
21975216 TTTTTATAATAGTTAAATTTGTAAACTAATAGTTGTAAAATTAATTTATATTAC-T----TATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
21975276 TGCAAACTTAAATATATAAAA
66 TGCAAACTTAAATATATAAAA
* * * * * * *
21975297 TTTTTATATCAATTGAACTAGTAAACTAACAAATGTAAAATTAATTTATATTGCCTAAACTATAA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
21975362 TGCAAACTTAAATATATAAAA
66 TGCAAACTTAAATATATAAAA
* * * *
21975383 TTTTTATATTAATTTAACTTGTAAACTAACAAATGTAAAATTAATATATAGTAC-T----TATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
21975443 TGCAAACTTAAATATATAAAA
66 TGCAAACTTAAATATATAAAA
*
21975464 TTTTTATATTAGTTGAA-TT-TAAACTAACAAATGTTAAATTAATTTATATTAC-T----TATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
*
21975522 TGCAAATTTAAATATATAAAA
66 TGCAAACTTAAATATATAAAA
* * ** * *
21975543 TTTTTATATTAGTTGAAATTGTAAAGTAACAAATGTAAAATT-ATGTTATAACACTTAAATTATG
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAAT-TTATATTACTTGAACTATG
21975607 ATGCAAACTTAAATATATAAAA
65 ATGCAAACTTAAATATATAAAA
* * *
21975629 TTTTTATATCAGTTGAATTTGTAAACTAATAAATGTAAAATTAATTTATATTAC-T----TATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
*
21975689 TGTAAACTTAAATATATAAAA
66 TGCAAACTTAAATATATAAAA
* * * * * *
21975710 TTTTTATATTAGTTGAACTTCTAAGCTAACAGATGTAAAATTAATTTATATTATTTTAACTA-AA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
**
21975774 TGCAAACTTAAATATATAATT
66 TGCAAACTTAAATATATAAAA
* * * *
21975795 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGCAAAATTAATTTATATTACTTGTATTGTGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
* *
21975860 TAG-AAATTTAAATATGTAAAA
66 T-GCAAACTTAAATATATAAAA
*
21975881 TTTTTATATT-GATTGAACTTGTAAACTAACAAATGTAAAATTAATTGATATTACTTGAACTATG
1 TTTTTATATTAG-TTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATG
* *
21975945 ATGTAAACTTAAATATATGAAA
65 ATGCAAACTTAAATATATAAAA
* *
21975967 TTTTTATATTAGTTGAACTTGTAAACTAATAAATGTAAAATTAATTTATATTAGTTGAACTATAT
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAAC----T
**
21976032 ATGATATAAACTTAAATATATAAAA
62 ATGATGCAAACTTAAATATATAAAA
* * *
21976057 TTTTTATATTAGTTGAACTTGTAAATTAACAAATGTAAAATTAATATATATTAATTGAACTATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
21976122 TGCAAACTTAA
66 TGCAAACTTAA
21976133 TAACATATCA
Statistics
Matches: 728, Mismatches: 80, Indels: 51
0.85 0.09 0.06
Matches are distributed among these distances:
79 73 0.10
80 6 0.01
81 182 0.25
82 3 0.00
85 76 0.10
86 304 0.42
87 4 0.01
90 80 0.11
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (86 bp):
TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTGAACTATGA
TGCAAACTTAAATATATAAAA
Found at i:21975671 original size:246 final size:246
Alignment explanation
Indices: 21975216--21976132 Score: 1140
Period size: 246 Copynumber: 3.6 Consensus size: 246
21975206 CTTATAAATT
* * * * **
21975216 TTTTTATAATAGTTAAATTTGTAAACTAATAGTTGTAAAATTAATTTATATTACTTATGATGCAA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTATGATGCAA
* * *
21975281 ACTTAAATATATAAAATTTTTATATCAATTGAACTAGTAAACTAACAAATGTAAAATTAATTTAT
66 ACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTAT
* * * * * *
21975346 ATTGCCTAAACTATAATGCAAACTTAAATATATAAAATTTTTATATTAATTTAACTTGTAAACTA
131 ATTACTTAAATTATGATGCAAACTTAAATATATAAAATTTTTATA-TAGTTGAACTTGTAAACTA
* *
21975411 ACAAATGTAAAATTAATATATAGTACTTATGATGCAAACTTAAATATATAAAA
195 ACAAATGTAAAATTAAT-TATATTACTTATGATGTAAACTTAAATATATAAAA
*
21975464 TTTTTATATTAGTTGAA-TT-TAAACTAACAAATGTTAAATTAATTTATATTACTTATGATGCAA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTATGATGCAA
* * *
21975527 ATTTAAATATATAAAATTTTTATATTAGTTGAAATTGTAAAGTAACAAATGTAAAATT-ATGTTA
66 ACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAAT-TTA
** *
21975591 TAACACTTAAATTATGATGCAAACTTAAATATATAAAATTTTTATATCAGTTGAATTTGTAAACT
130 TATTACTTAAATTATGATGCAAACTTAAATATATAAAATTTTTATAT-AGTTGAACTTGTAAACT
*
21975656 AATAAATGTAAAATTAATTTATATTACTTATGATGTAAACTTAAATATATAAAA
194 AACAAATGTAAAATTAA-TTATATTACTTATGATGTAAACTTAAATATATAAAA
* * * * *
21975710 TTTTTATATTAGTTGAACTTCTAAGCTAACAGATGTAAAATTAATTTATATTATTTTAACTAAAT
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTA-CTT-A-T-GAT
** *
21975775 GCAAACTTAAATATATAATTTTTTTATATTAGTTGAACTTGTAAACTAACAAATGCAAAATTAAT
62 GCAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAAT
** * * * *
21975840 TTATATTACTTGTATTGTGATAG-AAATTTAAATATGTAAAATTTTTATATTGATTGAACTTGTA
127 TTATATTACTTAAATTATGAT-GCAAACTTAAATATATAAAATTTTTATATAG-TTGAACTTGTA
*
21975904 AACTAACAAATGTAAAATTAATTGATATTACTTGAACTATGATGTAAACTTAAATATATGAAA
190 AACTAACAAATGTAAAATTAATT-ATATTAC-T----TATGATGTAAACTTAAATATATAAAA
*
21975967 TTTTTATATTAGTTGAACTTGTAAACTAATAAATGTAAAATTAATTTATATTAGTTGAACTATAT
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAA-TT-TA-TA-TT--AC--T-T
** *
21976032 ATGATATAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAATTAACAAATGTAAAA
57 ATGATGCAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAA
* * * *
21976097 TTAATATATATTAATTGAACTATGATGCAAACTTAA
122 TTAATTTATATTACTTAAATTATGATGCAAACTTAA
21976133 TAACATATCA
Statistics
Matches: 577, Mismatches: 64, Indels: 42
0.84 0.09 0.06
Matches are distributed among these distances:
245 3 0.01
246 215 0.37
247 5 0.01
248 44 0.08
249 2 0.00
250 1 0.00
251 4 0.01
252 136 0.24
253 4 0.01
257 65 0.11
258 2 0.00
259 2 0.00
260 2 0.00
261 3 0.01
262 84 0.15
263 2 0.00
264 2 0.00
265 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (246 bp):
TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATATTACTTATGATGCAA
ACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTAT
ATTACTTAAATTATGATGCAAACTTAAATATATAAAATTTTTATATAGTTGAACTTGTAAACTAA
CAAATGTAAAATTAATTATATTACTTATGATGTAAACTTAAATATATAAAA
Found at i:21975711 original size:167 final size:166
Alignment explanation
Indices: 21975216--21976132 Score: 1032
Period size: 167 Copynumber: 5.4 Consensus size: 166
21975206 CTTATAAATT
* * * * ** * *
21975216 TTTTTATAATAGTTAAATTTGTAAACTAATAGTTGTAAAATTAATT-T-ATA-TTACTTATGATG
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTATTTATAATACTTAATTATGATG
* * *
21975278 CAAACTTAAATATATAAAATTTTTATATCAATTGAACTAGTAAACTAACAAATGTAAAATTAATT
66 CAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATT
* * *
21975343 TATATTGCCTAAACTATAATGCAAACTTAAATATATAAAA
131 TATATT-ACT--A-TATGATGTAAACTTAAATATATAAAA
* * * * *
21975383 TTTTTATATTAATTTAACTTGTAAACTAACAAATGTAAAATTA-ATAT-ATA-GTACTTATGATG
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTATTTATAATACTTAATTATGATG
*
21975445 CAAACTTAAATATATAAAATTTTTATATTAGTTGAA-TT-TAAACTAACAAATGTTAAATTAATT
66 CAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATT
* *
21975508 TATATTACT-TATGATGCAAATTTAAATATATAAAA
131 TATATTACTATATGATGTAAACTTAAATATATAAAA
* * *
21975543 TTTTTATATTAGTTGAAATTGTAAAGTAACAAATGTAAAATTATGTTATAACACTTAAATTATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAT-TTATAATACTT-AATTATGA
* * *
21975608 TGCAAACTTAAATATATAAAATTTTTATATCAGTTGAATTTGTAAACTAATAAATGTAAAATTAA
64 TGCAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAA
21975673 TTTATATTACT-TATGATGTAAACTTAAATATATAAAA
129 TTTATATTACTATATGATGTAAACTTAAATATATAAAA
* * * * * * *
21975710 TTTTTATATTAGTTGAACTTCTAAGCTAACAGATGTAAAATTAATTTATATTATTTTAACTA-AA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATT-ATTTATAATA-CTTAATTATGA
** *
21975774 TGCAAACTTAAATATATAATTTTTTTATATTAGTTGAACTTGTAAACTAACAAATGCAAAATTAA
64 TGCAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAA
* * *
21975839 TTTATATTACTTGTATTG-TGATAGAAATTTAAATATGTAAAA
129 TTTATATTAC-TATA-TGATG-T--AAACTTAAATATATAAAA
* * *
21975881 TTTTTATATT-GATTGAACTTGTAAACTAACAAATGTAAAATTAATTGATATTACTTGAACTATG
1 TTTTTATATTAG-TTGAACTTGTAAACTAACAAATGTAAAATT-ATTTATAATACTT-AATTATG
* * *
21975945 ATGTAAACTTAAATATATGAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGTAAAATTA
63 ATGCAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTA
*
21976010 ATTTATATTAGTTGAACTATATATGATATAAACTTAAATATATAAAA
128 A-TT-TA-TA-TT--AC--TATATGATGTAAACTTAAATATATAAAA
* * * * *
21976057 TTTTTATATTAGTTGAACTTGTAAATTAACAAATGTAAAATTAATATATATTAATTGAACTATGA
1 TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATT-ATTTATAATACTT-AATTATGA
21976122 TGCAAACTTAA
64 TGCAAACTTAA
21976133 TAACATATCA
Statistics
Matches: 653, Mismatches: 69, Indels: 47
0.85 0.09 0.06
Matches are distributed among these distances:
160 63 0.10
162 3 0.00
163 2 0.00
164 3 0.00
165 74 0.11
166 74 0.11
167 189 0.29
168 8 0.01
169 3 0.00
170 3 0.00
171 68 0.10
172 60 0.09
173 2 0.00
174 2 0.00
175 2 0.00
176 87 0.13
177 1 0.00
178 5 0.01
179 4 0.01
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (166 bp):
TTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTATTTATAATACTTAATTATGATG
CAAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATT
TATATTACTATATGATGTAAACTTAAATATATAAAA
Found at i:21992110 original size:21 final size:22
Alignment explanation
Indices: 21992059--21992112 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
21992049 ATAAAATTTT
*
21992059 ATATTTTTGTTATGTTTAATTAA
1 ATATTTTT-TTATGTTAAATTAA
*
21992082 ATTTTTTTTTAT-TTAAATTAA
1 ATATTTTTTTATGTTAAATTAA
21992103 ATATTTTTTT
1 ATATTTTTTT
21992113 GTGACAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 17 0.61
22 4 0.14
23 7 0.25
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATATTTTTTTATGTTAAATTAA
Found at i:21994550 original size:33 final size:34
Alignment explanation
Indices: 21994486--21994551 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
21994476 GGAAATTATG
* *
21994486 TTTCATGGGACTCATTACATTTTGGGATTTGGGA
1 TTTCATGGGACTCATCACATTATGGGATTTGGGA
*
21994520 TTTCATGGGACTCATCAGA-TATGGGATTTGGG
1 TTTCATGGGACTCATCACATTATGGGATTTGGG
21994552 CTTACTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (34 bp):
TTTCATGGGACTCATCACATTATGGGATTTGGGA
Found at i:21995408 original size:20 final size:20
Alignment explanation
Indices: 21995385--21995456 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
21995375 AGTATTGTAT
21995385 AATTTAAATATTAATATTTA
1 AATTTAAATATTAATATTTA
*
21995405 AA-TT--ATATT--T-TTAA
1 AATTTAAATATTAATATTTA
* *
21995419 AAGTTAAATATTAATATTTT
1 AATTTAAATATTAATATTTA
21995439 AATTTAAATATTAATATT
1 AATTTAAATATTAATATT
21995457 CATTAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 5 0.12
15 3 0.07
17 10 0.24
19 3 0.07
20 21 0.50
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
AATTTAAATATTAATATTTA
Found at i:21996895 original size:27 final size:27
Alignment explanation
Indices: 21996865--21996917 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21996855 TATTGGGTTC
21996865 CTTGGTACAGTTGGAACAATGGAATTG
1 CTTGGTACAGTTGGAACAATGGAATTG
* *
21996892 CTTGGTCCGGTTGGAACAATGGAATT
1 CTTGGTACAGTTGGAACAATGGAATT
21996918 AGTTTCTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (27 bp):
CTTGGTACAGTTGGAACAATGGAATTG
Found at i:22003367 original size:48 final size:48
Alignment explanation
Indices: 22003253--22003537 Score: 270
Period size: 48 Copynumber: 5.9 Consensus size: 48
22003243 CAACCAATAA
* * * * * * *
22003253 GCCTAAACAAATAACATAAATAAGCTATGCCCAATATTG-TTATTCTG
1 GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
* * * * * * *
22003300 GCCTAGACAAATAGCATAAATATATTAAGCACTATATTGTTTGTTTTG
1 GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
*
22003348 GCCTAGACTAATATCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
1 GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
* * * * * *
22003396 ACCCAAACTATAATAGCATAAATAAACTAA-CTCTAATATTGTTTATTCTG
1 GCCTAGAC--TAATAGCATAAAAAAACTAAGC-CCAATATTGTTTATTTTG
* * *
22003446 GCCTAGACTAATAGTATAAAAAGACTAATCCCAATATTGTTTATTTTG
1 GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
* * * *
22003494 GCCTAGACAAACAACAT-AAAAGACTAAGCCCAATATTGTTTATT
1 GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATT
22003538 CTGACCCAGA
Statistics
Matches: 195, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
47 57 0.29
48 97 0.50
49 2 0.01
50 39 0.20
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (48 bp):
GCCTAGACTAATAGCATAAAAAAACTAAGCCCAATATTGTTTATTTTG
Found at i:22003448 original size:98 final size:96
Alignment explanation
Indices: 22003253--22003549 Score: 287
Period size: 98 Copynumber: 3.1 Consensus size: 96
22003243 CAACCAATAA
* * * * * * * * * *
22003253 GCCTAAACAAATAACATAAATAAGCTATGCCCAATATTG-TTATTCTGGCCTAGACAAATAGCAT
1 GCCTAGACTAATATCATAAAAAAACTAAGCCCAATATTGTTTATTTTGACCCAAACAAATAGCAT
* * * *
22003317 AAATATATTAAGCACTATATTGTTTGTTTTG
66 AAATAAACTAAGCACTATATTGTTTATTCTG
22003348 GCCTAGACTAATATCATAAAAAAACTAAGCCCAATATTGTTTATTTTGACCCAAACTATAATAGC
1 GCCTAGACTAATATCATAAAAAAACTAAGCCCAATATTGTTTATTTTGACCCAAAC-A-AATAGC
*
22003413 ATAAATAAACTAA-CTCTAATATTGTTTATTCTG
64 ATAAATAAACTAAGCACT-ATATTGTTTATTCTG
* * * * * * *
22003446 GCCTAGACTAATAGT-ATAAAAAGACTAATCCCAATATTGTTTATTTTGGCCTAGACAAACAACA
1 GCCTAGACTAATA-TCATAAAAAAACTAAGCCCAATATTGTTTATTTTGACCCAAACAAATAGCA
* * *
22003510 TAAA-AGACTAAGCCCAATATTGTTTATTCTG
65 TAAATAAACTAAGCACTATATTGTTTATTCTG
* *
22003541 ACCCAGACT
1 GCCTAGACT
22003550 CTTTCATCAA
Statistics
Matches: 169, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
95 61 0.36
96 23 0.14
97 5 0.03
98 79 0.47
99 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (96 bp):
GCCTAGACTAATATCATAAAAAAACTAAGCCCAATATTGTTTATTTTGACCCAAACAAATAGCAT
AAATAAACTAAGCACTATATTGTTTATTCTG
Found at i:22011964 original size:50 final size:49
Alignment explanation
Indices: 22011880--22011978 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 49
22011870 ATATATATAC
* * *
22011880 TAATGGCCTCTTTAAAATTTTTACAAGTTTTTATTTATTTTATATTTTT
1 TAATGGCCTCTTTAAAATTTATACAAGTTTTTATTTACTATATATTTTT
*
22011929 TAATGGTCC-CTTTCAAAATTTATAGAA-TTATTTATTTACTATATATTTTT
1 TAATGG-CCTCTTT-AAAATTTATACAAGTT-TTTATTTACTATATATTTTT
22011979 AATAGTTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 12 0.28
50 31 0.72
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (49 bp):
TAATGGCCTCTTTAAAATTTATACAAGTTTTTATTTACTATATATTTTT
Found at i:22016549 original size:18 final size:18
Alignment explanation
Indices: 22016526--22016565 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
22016516 CATTTAGTGG
22016526 TGTAAAATTTGATAATTA
1 TGTAAAATTTGATAATTA
22016544 TGTAAAATTTGATAATTA
1 TGTAAAATTTGATAATTA
22016562 TGTA
1 TGTA
22016566 TTTAAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TGTAAAATTTGATAATTA
Found at i:22022202 original size:16 final size:16
Alignment explanation
Indices: 22022171--22022213 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
22022161 CTTTTTCTTT
22022171 CTATTTATATTATTTAA
1 CTATTTATA-TATTTAA
22022188 CTATTTATATATTTAA
1 CTATTTATATATTTAA
*
22022204 CCA-TTATATA
1 CTATTTATATA
22022214 AAATCTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 9 0.36
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
CTATTTATATATTTAA
Found at i:22032576 original size:22 final size:22
Alignment explanation
Indices: 22032550--22032593 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22032540 TTTTAATTTC
22032550 TTTTT-ATTTTTTCTCTATTTGCA
1 TTTTTCATTTTTT-T-TATTTGCA
22032573 TTTTTCATTTTTTTTATTTGC
1 TTTTTCATTTTTTTTATTTGC
22032594 TTAATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTTCATTTTTTTTATTTGCA
Found at i:22032606 original size:24 final size:25
Alignment explanation
Indices: 22032550--22032607 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
22032540 TTTTAATTTC
22032550 TTTT-TATTTTTTCTCTATTTGCAT
1 TTTTCTATTTTTTCTCTATTTGCAT
22032574 TTTTC-ATTTTTT-T-TATTTGC-T
1 TTTTCTATTTTTTCTCTATTTGCAT
22032595 TAATTTCTATTTT
1 T--TTTCTATTTT
22032608 CATTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 5 0.17
24 16 0.53
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTCTATTTTTTCTCTATTTGCAT
Found at i:22032608 original size:131 final size:131
Alignment explanation
Indices: 22032463--22032784 Score: 610
Period size: 131 Copynumber: 2.5 Consensus size: 131
22032453 TTTTAATATT
22032463 TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTTTAATTTATTATTAAAATATTAA
1 TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTTTAATTTATTATTAAAATATTAA
22032528 TATGATTTTTTGTTTTAATTTCTTTTTATTTTTTCTCTATTTGCATTTTTCATTTTTTTTATTTG
66 TATGATTTTTTGTTTTAATTTCTTTTTATTTTTTCTCTATTTGCATTTTTCATTTTTTTTATTTG
22032593 C
131 C
22032594 TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTTTAATTTATTATTAAAATATTAA
1 TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTTTAATTTATTATTAAAATATTAA
22032659 TATGATTTTTTGTTTTAATTTCTTTTTATTTTTTCTCTATTTGCATTTTTCATTTTTTTTATTTG
66 TATGATTTTTTGTTTTAATTTCTTTTTATTTTTTCTCTATTTGCATTTTTCATTTTTTTTATTTG
22032724 C
131 C
*
22032725 TTAATTTCTATTTTCATTAACAATTTAAAATATTAATAA-TTTACTAATTTATTATTAAAA
1 TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTT--TAATTTATTATTAAAA
22032785 GAAAATACCA
Statistics
Matches: 188, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
130 3 0.02
131 169 0.90
132 16 0.09
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (131 bp):
TTAATTTCTATTTTCATTAAAAATTTAAAATATTAATAAGTTTTAATTTATTATTAAAATATTAA
TATGATTTTTTGTTTTAATTTCTTTTTATTTTTTCTCTATTTGCATTTTTCATTTTTTTTATTTG
C
Found at i:22032707 original size:22 final size:22
Alignment explanation
Indices: 22032681--22032724 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22032671 TTTTAATTTC
22032681 TTTTT-ATTTTTTCTCTATTTGCA
1 TTTTTCATTTTTT-T-TATTTGCA
22032704 TTTTTCATTTTTTTTATTTGC
1 TTTTTCATTTTTTTTATTTGC
22032725 TTAATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTTCATTTTTTTTATTTGCA
Found at i:22032737 original size:24 final size:25
Alignment explanation
Indices: 22032681--22032738 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
22032671 TTTTAATTTC
22032681 TTTT-TATTTTTTCTCTATTTGCAT
1 TTTTCTATTTTTTCTCTATTTGCAT
22032705 TTTTC-ATTTTTT-T-TATTTGC-T
1 TTTTCTATTTTTTCTCTATTTGCAT
22032726 TAATTTCTATTTT
1 T--TTTCTATTTT
22032739 CATTAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 5 0.17
24 16 0.53
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTCTATTTTTTCTCTATTTGCAT
Found at i:22032841 original size:41 final size:41
Alignment explanation
Indices: 22032795--22032880 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
22032785 GAAAATACCA
* *
22032795 ATTAAT-ATCCATTCATTATTAAT-ATTTAATAATTTTAAATT
1 ATTAATAATCCATT-AATATTAATAATTTAATAATATT-AATT
**
22032836 ATTAATAATTTATTAATATTAATAATTTAATAATATTAATT
1 ATTAATAATCCATTAATATTAATAATTTAATAATATTAATT
22032877 ATTA
1 ATTA
22032881 TCCAAATCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 22 0.56
42 17 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (41 bp):
ATTAATAATCCATTAATATTAATAATTTAATAATATTAATT
Found at i:22032842 original size:17 final size:17
Alignment explanation
Indices: 22032810--22032875 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
22032800 TATCCATTCA
*
22032810 TTATTAATATTTAATAAT
1 TTATAAATA-TTAATAAT
22032828 TT-TAAATTATTAATAAT
1 TTATAAA-TATTAATAAT
*
22032845 TTATTAATATTAATAAT
1 TTATAAATATTAATAAT
22032862 TTA-ATAATATTAAT
1 TTATA-AATATTAAT
22032876 TATTATCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 35 0.83
18 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAATATTAATAAT
Found at i:22040112 original size:81 final size:81
Alignment explanation
Indices: 22039997--22040145 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
22039987 GCAAACAACT
* * * *
22039997 TTTACTATGGATGCCTTTGTCAGATAATCTTTTGTATTTCCCGTGATTTTTGGTAAATAGCTTTT
1 TTTACTATAGATGCCTTTGGCAGAGAATCTTTTGTATTTCCCGTGATTTTTGGTAAACAGCTTTT
22040062 TACTATAGTTAGCTTG
66 TACTATAGTTAGCTTG
* ** *
22040078 TTTACTGTAGATGCCTTTGGCAGAGAATCTTTTGTATTTTTCGTGATTTTTGGTAGACAGCTTTT
1 TTTACTATAGATGCCTTTGGCAGAGAATCTTTTGTATTTCCCGTGATTTTTGGTAAACAGCTTTT
22040143 TAC
66 TAC
22040146 CGTGGATGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.48
Consensus pattern (81 bp):
TTTACTATAGATGCCTTTGGCAGAGAATCTTTTGTATTTCCCGTGATTTTTGGTAAACAGCTTTT
TACTATAGTTAGCTTG
Found at i:22041361 original size:19 final size:20
Alignment explanation
Indices: 22041333--22041372 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
22041323 CCATTTGACT
*
22041333 TATTGGAGTATGATTT-AAG
1 TATTGAAGTATGATTTGAAG
22041352 TATTGAAGTATGATTTGAAG
1 TATTGAAGTATGATTTGAAG
22041372 T
1 T
22041373 TTAGAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (20 bp):
TATTGAAGTATGATTTGAAG
Found at i:22042481 original size:13 final size:13
Alignment explanation
Indices: 22042463--22042487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22042453 GGAAAATGAG
22042463 ATTTTATAAAATA
1 ATTTTATAAAATA
22042476 ATTTTATAAAAT
1 ATTTTATAAAAT
22042488 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:22042926 original size:117 final size:117
Alignment explanation
Indices: 22042712--22042943 Score: 369
Period size: 117 Copynumber: 2.0 Consensus size: 117
22042702 TTATAAAGTA
* *
22042712 GGCACTGCAGTGACAGGGGTTCCGTGGACCAGCCTAATTAGAGGGGCACGGTTCCCAATTATTGA
1 GGCACTGCAGTGACAGGGGTTCCATGGACCAGCCTAATTAGAGGGGCACGATTCCCAATTATTGA
* *
22042777 GCTTACCTCGATTGGAGAGACGCTTAGAATAACTCCTGAGGTAGGATTTGTG
66 GCTTACCTCGATTGGAGAGACGCTAAGAATAACTCCCGAGGTAGGATTTGTG
*
22042829 GGCACTGCAGTGACGGGGGTTCCATAGG-CCAGCCTAATTAGAGGGGCACGATTCCCAATTATTG
1 GGCACTGCAGTGACAGGGGTTCCAT-GGACCAGCCTAATTAGAGGGGCACGATTCCCAATTATTG
* *
22042893 AGCTTACCTCTATTGGAGAGGCGCGTAAG-ATAACTCCCGAGGTAGGATTTG
65 AGCTTACCTCGATTGGAGAGACGC-TAAGAATAACTCCCGAGGTAGGATTTG
22042944 AGTACACTTC
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
117 101 0.95
118 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (117 bp):
GGCACTGCAGTGACAGGGGTTCCATGGACCAGCCTAATTAGAGGGGCACGATTCCCAATTATTGA
GCTTACCTCGATTGGAGAGACGCTAAGAATAACTCCCGAGGTAGGATTTGTG
Found at i:22066609 original size:2 final size:2
Alignment explanation
Indices: 22066602--22066640 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22066592 TGATTGATTT
22066602 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22066641 GTTATTGTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22067027 original size:60 final size:60
Alignment explanation
Indices: 22066959--22067118 Score: 169
Period size: 60 Copynumber: 2.7 Consensus size: 60
22066949 CCTACTGCTA
* * *
22066959 TTGAGCCTCCTTCCACTCAACCTACTACTGCTATGCCTCCCTCTATCCAAC-CCATTATTG
1 TTGAGCCTCCTTCCACTCAACCTACTACTACTATGCCTCACTCCATCCAACTCC-TTATTG
* * * * * * *
22067019 TTGAGCCTCATTCCACTCAGCCTATTACTATTATGCCTCATTCCATTCAACTTCTTATTG
1 TTGAGCCTCCTTCCACTCAACCTACTACTACTATGCCTCACTCCATCCAACTCCTTATTG
* * * * *
22067079 TTGAGCCTCCTTCCACCCAGCCTATTATTATTATGCCTCA
1 TTGAGCCTCCTTCCACTCAACCTACTACTACTATGCCTCA
22067119 TTCTATTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 85 0.99
61 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.36
Consensus pattern (60 bp):
TTGAGCCTCCTTCCACTCAACCTACTACTACTATGCCTCACTCCATCCAACTCCTTATTG
Found at i:22067057 original size:30 final size:30
Alignment explanation
Indices: 22067023--22067121 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
22067013 TTATTGTTGA
*
22067023 GCCTCATTCCACTCAGCCTATTACTATTAT
1 GCCTCATTCCACTCAGCCTATTATTATTAT
* * * * *
22067053 GCCTCATTCCATTCAACTTCTTATTGTTGA-
1 GCCTCATTCCACTCAGCCTATTATTATT-AT
* *
22067083 GCCTCCTTCCACCCAGCCTATTATTATTAT
1 GCCTCATTCCACTCAGCCTATTATTATTAT
22067113 GCCTCATTC
1 GCCTCATTC
22067122 TATTCAACTT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
29 1 0.02
30 51 0.96
31 1 0.02
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.38
Consensus pattern (30 bp):
GCCTCATTCCACTCAGCCTATTATTATTAT
Found at i:22067119 original size:60 final size:60
Alignment explanation
Indices: 22067013--22067135 Score: 210
Period size: 60 Copynumber: 2.0 Consensus size: 60
22067003 ATCCAACCCA
*
22067013 TTATTGTTGAGCCTCATTCCACTCAGCCTATTACTATTATGCCTCATTCCATTCAACTTC
1 TTATTGTTGAGCCTCATTCCACCCAGCCTATTACTATTATGCCTCATTCCATTCAACTTC
* * *
22067073 TTATTGTTGAGCCTCCTTCCACCCAGCCTATTATTATTATGCCTCATTCTATTCAACTTC
1 TTATTGTTGAGCCTCATTCCACCCAGCCTATTACTATTATGCCTCATTCCATTCAACTTC
22067133 TTA
1 TTA
22067136 CTATTAAGCC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.41
Consensus pattern (60 bp):
TTATTGTTGAGCCTCATTCCACCCAGCCTATTACTATTATGCCTCATTCCATTCAACTTC
Found at i:22067141 original size:30 final size:30
Alignment explanation
Indices: 22067023--22067146 Score: 97
Period size: 30 Copynumber: 4.1 Consensus size: 30
22067013 TTATTGTTGA
* * * *
22067023 GCCTCATTCCACTCAGCCTATTACTATTAT
1 GCCTCATTCCATTCAACTTCTTACTATTAT
* *
22067053 GCCTCATTCCATTCAACTTCTTATTGTTGA-
1 GCCTCATTCCATTCAACTTCTTACTATT-AT
* ** * * * *
22067083 GCCTCCTTCCACCCAGCCTATTATTATTAT
1 GCCTCATTCCATTCAACTTCTTACTATTAT
* *
22067113 GCCTCATTCTATTCAACTTCTTACTATTAA
1 GCCTCATTCCATTCAACTTCTTACTATTAT
22067143 GCCT
1 GCCT
22067147 TTTTTGACTT
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
29 1 0.01
30 68 0.97
31 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.40
Consensus pattern (30 bp):
GCCTCATTCCATTCAACTTCTTACTATTAT
Found at i:22067742 original size:15 final size:15
Alignment explanation
Indices: 22067724--22067752 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22067714 ATGATTACAG
22067724 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
22067739 GTAATGTGATTGCA
1 GTAATGTGATTGCA
22067753 GGAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:22068004 original size:32 final size:32
Alignment explanation
Indices: 22067968--22068054 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 32
22067958 TTTTAATGTC
*
22067968 ATATATTTTATTTTTATTTTTATTATAATATT
1 ATATATTTTATTTTTATTTTTAATATAATATT
* *
22068000 ATATATTTTATTTTCATTTCTTTAATATAATTTT
1 ATATATTTTATTTTTA-TT-TTTAATATAATATT
*
22068034 TTATATTATGTA-TTTTATTTT
1 ATATATT-T-TATTTTTATTTT
22068055 AATTTCTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 15 0.33
33 4 0.09
34 20 0.43
35 5 0.11
36 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (32 bp):
ATATATTTTATTTTTATTTTTAATATAATATT
Found at i:22068086 original size:30 final size:30
Alignment explanation
Indices: 22068050--22068108 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22068040 TATGTATTTT
*
22068050 ATTTTAATTTCT-TTTACCTATATTATATAA
1 ATTTTAATTTCTAATT-CCTATATTATATAA
*
22068080 ATTTTAATTTCTAATTCTTATATTATATA
1 ATTTTAATTTCTAATTCCTATATTATATA
22068109 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTTTAATTTCTAATTCCTATATTATATAA
Found at i:22068127 original size:15 final size:15
Alignment explanation
Indices: 22068097--22068135 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22068087 TTTCTAATTC
22068097 TTATATT-ATATATT
1 TTATATTAATATATT
* *
22068111 TTATTTTAATATTTT
1 TTATATTAATATATT
22068126 TTATATTAAT
1 TTATATTAAT
22068136 TATAACATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTAATATATT
Found at i:22069581 original size:21 final size:20
Alignment explanation
Indices: 22069557--22069601 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
22069547 TTAAAGTAAT
22069557 TTAAAATAAAATAACATAAAA
1 TTAAAATAAAATAAC-TAAAA
* *
22069578 TTAAACTAAAATAACTTAAA
1 TTAAAATAAAATAACTAAAA
22069598 TTAA
1 TTAA
22069602 CTACTTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAAATAAAATAACTAAAA
Found at i:22070775 original size:2 final size:2
Alignment explanation
Indices: 22070768--22070795 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22070758 TTACCTATTT
22070768 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22070796 ATTATCTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22070868 original size:2 final size:2
Alignment explanation
Indices: 22070861--22070886 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22070851 TACTATTTAT
22070861 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22070887 ATTATCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22070895 original size:91 final size:89
Alignment explanation
Indices: 22070741--22070918 Score: 306
Period size: 91 Copynumber: 2.0 Consensus size: 89
22070731 GTCAAAAATT
22070741 GTTAGTGTGAGTGAACATTACCTATTTTATATATATATATATATATATATATATAATTATCTCAT
1 GTTAGTGTGAGTGAACATTACCTATTTTATATATATATATATATATATATATATAATTATCTCAT
22070806 CTTTTCTATTTTTACATAAATNTTA
66 CTTTTCTATTTTTACATAAAT-TTA
22070831 GTTAGTGTGAGTGAACTAATTA-CTA-TTTATTATATATATATATATATATATATATAATTATCT
1 GTTAGTGTGAGTGAAC--ATTACCTATTTTA-TATATATATATATATATATATATATAATTATCT
22070894 CATCTTTTCTATTTTTACATAAATT
63 CATCTTTTCTATTTTTACATAAATT
22070919 GCTTTACTTC
Statistics
Matches: 85, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
90 21 0.25
91 60 0.71
92 4 0.05
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.49
Consensus pattern (89 bp):
GTTAGTGTGAGTGAACATTACCTATTTTATATATATATATATATATATATATATAATTATCTCAT
CTTTTCTATTTTTACATAAATTTA
Found at i:22071610 original size:44 final size:44
Alignment explanation
Indices: 22071545--22071731 Score: 252
Period size: 44 Copynumber: 4.3 Consensus size: 44
22071535 AGATTTCTAC
* *
22071545 ATATATTTTGTTATCTAGTTGAACTAAACTAGACTCATTTAGGT
1 ATATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGGT
* *
22071589 AGATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGAT
1 ATATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGGT
* * * * *
22071633 ATATATTTTGTTATCTAGTAGATCTCAACTAGGCTCATTTTGGT
1 ATATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGGT
* * *
22071677 ACATATTTTGGT-A-TAGTTGATCTCAACTAGACTCATTTAGGT
1 ATATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGGT
22071719 ATATATTTTGTTA
1 ATATATTTTGTTA
22071732 TTTATAATTG
Statistics
Matches: 123, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 36 0.29
44 87 0.71
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (44 bp):
ATATATTTTGTTAACTAGTTGAACTCAACTAGACTCATTTAGGT
Found at i:22071716 original size:86 final size:88
Alignment explanation
Indices: 22071545--22071732 Score: 281
Period size: 88 Copynumber: 2.2 Consensus size: 88
22071535 AGATTTCTAC
* * *
22071545 ATATATTTTGTTATCTAGTTGAACTAAACTAGACTCATTTAGGTAGATATTTTGTTAACTAGTTG
1 ATATATTTTGTTATCTAGTAGAACTAAACTAGACTCATTTAGGTACATATTTTGGTAACTAGTTG
22071610 AACTCAACTAGACTCATTTAGAT
66 AACTCAACTAGACTCATTTAGAT
* * * *
22071633 ATATATTTTGTTATCTAGTAGATCTCAACTAGGCTCATTTTGGTACATATTTTGGT-A-TAGTTG
1 ATATATTTTGTTATCTAGTAGAACTAAACTAGACTCATTTAGGTACATATTTTGGTAACTAGTTG
* *
22071696 ATCTCAACTAGACTCATTTAGGT
66 AACTCAACTAGACTCATTTAGAT
22071719 ATATATTTTGTTAT
1 ATATATTTTGTTAT
22071733 TTATAATTGA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 41 0.45
87 1 0.01
88 49 0.54
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (88 bp):
ATATATTTTGTTATCTAGTAGAACTAAACTAGACTCATTTAGGTACATATTTTGGTAACTAGTTG
AACTCAACTAGACTCATTTAGAT
Found at i:22081542 original size:2 final size:2
Alignment explanation
Indices: 22081535--22081561 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22081525 AATTTATTAG
22081535 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
22081562 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22081566 original size:2 final size:2
Alignment explanation
Indices: 22081561--22081612 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
22081551 ACACACACAC
22081561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22081603 AT AT AT AT AT
1 AT AT AT AT AT
22081613 TACCAAAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22090696 original size:2 final size:2
Alignment explanation
Indices: 22090651--22090679 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22090641 GGCTTAAATA
22090651 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22090680 TCTGATCGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22091590 original size:15 final size:16
Alignment explanation
Indices: 22091570--22091610 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
22091560 TCTTAAAAAC
*
22091570 GAGAAAATAAAA-GAA
1 GAGAAAAGAAAATGAA
22091585 GAGAAAAGAAAATGAA
1 GAGAAAAGAAAATGAA
22091601 G-GAAAAGAAA
1 GAGAAAAGAAA
22091611 GAAAGAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (16 bp):
GAGAAAAGAAAATGAA
Found at i:22091634 original size:28 final size:29
Alignment explanation
Indices: 22091579--22091634 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
22091569 CGAGAAAATA
**
22091579 AAAGAAGAGAAAAGAAAATGAAGGAAAAG
1 AAAGAAGAGAAAAGAAAATGAACCAAAAG
* *
22091608 AAAGAA-AGAATAGAACATGAACCAAAA
1 AAAGAAGAGAAAAGAAAATGAACCAAAA
22091635 ATGATATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.68, C:0.05, G:0.21, T:0.05
Consensus pattern (29 bp):
AAAGAAGAGAAAAGAAAATGAACCAAAAG
Found at i:22101326 original size:31 final size:31
Alignment explanation
Indices: 22101302--22101372 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
22101292 TAGAGCTTTA
*
22101302 TTCAATTTAGTTCTTGTATTATAGAATTTTG
1 TTCAATTTAGTTCTTATATTATAGAATTTTG
22101333 TTCAATTTAGTTCTTATATTATAGAATTTTG
1 TTCAATTTAGTTCTTATATTATAGAATTTTG
22101364 TTCAATTTA
1 TTCAATTTA
22101373 ATTTCTGTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (31 bp):
TTCAATTTAGTTCTTATATTATAGAATTTTG
Found at i:22101393 original size:31 final size:31
Alignment explanation
Indices: 22101274--22101372 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
22101264 AGAAATATCA
* * * ** *
22101274 AATTTAGTCCCTATACAATAGAGCTTTATTC
1 AATTTAGTTCTTATACTATAGAATTTTGTTC
* *
22101305 AATTTAGTTCTTGTATTATAGAATTTTGTTC
1 AATTTAGTTCTTATACTATAGAATTTTGTTC
*
22101336 AATTTAGTTCTTATATTATAGAATTTTGTTC
1 AATTTAGTTCTTATACTATAGAATTTTGTTC
22101367 AATTTA
1 AATTTA
22101373 ATTTCTGTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (31 bp):
AATTTAGTTCTTATACTATAGAATTTTGTTC
Found at i:22113767 original size:21 final size:22
Alignment explanation
Indices: 22113741--22113783 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
22113731 CTTCTTTTTT
22113741 AATTAATAAAAAATA-ATAATA
1 AATTAATAAAAAATATATAATA
*
22113762 AATTAATAAAAATTATATAATA
1 AATTAATAAAAAATATATAATA
22113784 GTAATATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAATAAAAAATATATAATA
Found at i:22113774 original size:10 final size:10
Alignment explanation
Indices: 22113741--22113781 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
22113731 CTTCTTTTTT
22113741 AATTAATAAA
1 AATTAATAAA
*
22113751 AAATAATAATA
1 AATTAATAA-A
22113762 AATTAATAAA
1 AATTAATAAA
22113772 AATTATATAA
1 AATTA-ATAA
22113782 TAGTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATTAATAAA
Found at i:22120013 original size:28 final size:29
Alignment explanation
Indices: 22119972--22120031 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
22119962 GTCTATGGGC
*
22119972 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
22120000 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
22120030 AA
1 AA
22120032 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:22123230 original size:2 final size:2
Alignment explanation
Indices: 22123223--22123268 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
22123213 ACCATATACC
*
22123223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22123265 AT AT
1 AT AT
22123269 CAATCATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22123342 original size:23 final size:23
Alignment explanation
Indices: 22123271--22123335 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
22123261 ATATATATCA
*
22123271 ATCATCATGTACACCATCCTGTC
1 ATCATCATGCACACCATCCTGTC
*
22123294 ATCATCATGCACACCATCTTGTC
1 ATCATCATGCACACCATCCTGTC
*
22123317 ATCATCATGCACATCATCC
1 ATCATCATGCACACCATCC
22123336 CATCATCCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.28, C:0.35, G:0.08, T:0.29
Consensus pattern (23 bp):
ATCATCATGCACACCATCCTGTC
Found at i:22126638 original size:15 final size:17
Alignment explanation
Indices: 22126613--22126644 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22126603 TCTTGAACCT
22126613 TTTTATTTCATT-TTTA
1 TTTTATTTCATTATTTA
22126629 TTTT-TTTCATTATTTA
1 TTTTATTTCATTATTTA
22126645 AAATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTCATTATTTA
Found at i:22127161 original size:48 final size:48
Alignment explanation
Indices: 22127058--22127165 Score: 130
Period size: 48 Copynumber: 2.2 Consensus size: 48
22127048 TTAAGTAACT
* * *
22127058 AATCATTTTAAAGTTGTGTAGCTTCATTTAGAAATAAGGAGCTCTTTC
1 AATCATTTTAAAATTATGTAGCCTCATTTAGAAATAAGGAGCTCTTTC
* *
22127106 AAGCATTTTAAAATTATGTAGCCTCATTTATAAATGAA-GAGCT-TTTC
1 AATCATTTTAAAATTATGTAGCCTCATTTAGAAAT-AAGGAGCTCTTTC
*
22127153 TGATCATTTTAAA
1 -AATCATTTTAAA
22127166 GTGGTAGTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
47 4 0.08
48 45 0.88
49 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (48 bp):
AATCATTTTAAAATTATGTAGCCTCATTTAGAAATAAGGAGCTCTTTC
Found at i:22127366 original size:48 final size:48
Alignment explanation
Indices: 22127310--22127717 Score: 367
Period size: 48 Copynumber: 8.4 Consensus size: 48
22127300 AAGAGGAGCT
* * *
22127310 TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTTGAAATGAAAAGC
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
* ** * * **
22127358 TTTTTCAATTATTTTAAAGTTGTACAGCCTTGTTTAAAGATGATGAGC
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
* * * * **
22127406 -CTTTCTAATTATTTTAAAGTTGTAGTAG-ATCTTTTAGAGATGATGAG-
1 TTTTTC-AATCATTTTAAAGTTGT-GTAGCCTCGTTTAGAGATGAAAAGC
* * *
22127453 TGTTTTCCAATCATTTTAAAGTTGTGTAGCCTTGTTTAGAGATAAAAAAC
1 T-TTTT-CAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
* * * *
22127503 TTTTCCAATTATTTTAAACTTGTGTAGCCTCGTTTAGAGAT-AAAGAGT
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAA-AGC
** * * * *
22127551 TTTTTCAATCATTTTAAAGTTAAGTAACCTCGTTTAGAAAT-AAAGGGTT
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAA-AG-C
* * **
22127600 TTTTTCAATCATTTTAAAATTATGTAGCCTCGTTTAGAGATGATGAGC
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
* * * * *
22127648 TTTTTTAATCATTTTAAAGCTGTGTAGTCTCATTTAGAGATGAAGAGC
1 TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
22127696 TTTTTCCAATCATTTTAAAGTT
1 TTTTT-CAATCATTTTAAAGTT
22127718 ACATAACCTC
Statistics
Matches: 292, Mismatches: 57, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
47 7 0.02
48 193 0.66
49 89 0.30
50 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (48 bp):
TTTTTCAATCATTTTAAAGTTGTGTAGCCTCGTTTAGAGATGAAAAGC
Found at i:22127587 original size:145 final size:145
Alignment explanation
Indices: 22127310--22127727 Score: 450
Period size: 145 Copynumber: 2.9 Consensus size: 145
22127300 AAGAGGAGCT
* *
22127310 TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTTGAAATGAAAAGCTTTTTCAATTATTTTAA
1 TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAAAGCTTTTTCAATTATTTTAA
* ** * * * ** * *
22127375 AGTTGTACAGCCTTGTTTAAAGATGATGAG-CCTTTCTAATTATTTTAAAGTTGTAGTAGA--TC
66 ACTTGTGTAGCCTCGTTTAGAGATGAAGAGTTTTTTC-AATCATTTTAAAGTT-AAGTA-ACCTC
* * * *
22127437 TTTTAGAGATGATGAGTG
128 GTTTAGAAATAAAGAGTG
* * * * * *
22127455 TTTTCCAATCATTTTAAAGTTGTGTAGCCTTGTTTAGAGATAAAAAACTTTTCCAATTATTTTAA
1 TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAAAGCTTTTTCAATTATTTTAA
*
22127520 ACTTGTGTAGCCTCGTTTAGAGATAAAGAGTTTTTTCAATCATTTTAAAGTTAAGTAACCTCGTT
66 ACTTGTGTAGCCTCGTTTAGAGATGAAGAGTTTTTTCAATCATTTTAAAGTTAAGTAACCTCGTT
* *
22127585 TAGAAATAAAGGGTT
131 TAGAAATAAAGAGTG
* ** * *
22127600 TTTTTCAATCATTTTAAAATTATGTAGCCTCGTTTAGAGATGATGAGCTTTTTTAATCATTTTAA
1 TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAAAGCTTTTTCAATTATTTTAA
* * *
22127665 AGC-TGTGTAGTCTCATTTAGAGATGAAGAGCTTTTTCCAATCATTTTAAAGTTACA-TAACCTC
66 A-CTTGTGTAGCCTCGTTTAGAGATGAAGAG-TTTTTTCAATCATTTTAAAGTTA-AGTAACCTC
22127728 ATTTTAAAAT
Statistics
Matches: 227, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
143 1 0.00
144 4 0.02
145 187 0.82
146 34 0.15
147 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.42
Consensus pattern (145 bp):
TTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAAAGCTTTTTCAATTATTTTAA
ACTTGTGTAGCCTCGTTTAGAGATGAAGAGTTTTTTCAATCATTTTAAAGTTAAGTAACCTCGTT
TAGAAATAAAGAGTG
Found at i:22127684 original size:97 final size:96
Alignment explanation
Indices: 22127305--22127718 Score: 386
Period size: 97 Copynumber: 4.3 Consensus size: 96
22127295 AAAAAAAGAG
* * * *
22127305 GAGCTTTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTTGAAATGAAAAGCTTTTTCAATTAT
1 GAGCTTTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAGAG-TTTTTCAATCAT
** * * *
22127370 TTTAAAGTTGTACAGCCTTGTTTA-AAGATGAT
65 TTTAAAGTTGTGTAGCCTCGTTTAGAA-ATAAA
* * * * * * *
22127402 GAGCCTTTCT-AATTATTTTAAAGTTGTAGTAG-ATCTTTTAGAGATGATGAGTGTTTTCCAATC
1 GAGCTTTTTTCAATCATTTTAAAGTTAT-GTAGCCTCGTTTAGAGATGAAGAGT-TTTT-CAATC
* *
22127465 ATTTTAAAGTTGTGTAGCCTTGTTTAGAGATAAA
63 ATTTTAAAGTTGTGTAGCCTCGTTTAGAAATAAA
* * * * * * *
22127499 AAAC-TTTTCCAATTATTTTAAACTTGTGTAGCCTCGTTTAGAGATAAAGAGTTTTTTCAATCAT
1 GAGCTTTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAGAG-TTTTTCAATCAT
** *
22127563 TTTAAAGTTAAGTAACCTCGTTTAGAAATAAA
65 TTTAAAGTTGTGTAGCCTCGTTTAGAAATAAA
* * * * *
22127595 GGGTTTTTTTCAATCATTTTAAAATTATGTAGCCTCGTTTAGAGATGATGAGCTTTTTTAATCAT
1 GAGCTTTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAGAG-TTTTTCAATCAT
* * * * *
22127660 TTTAAAGCTGTGTAGTCTCATTTAGAGATGAA
65 TTTAAAGTTGTGTAGCCTCGTTTAGAAATAAA
*
22127692 GAGCTTTTTCCAATCATTTTAAAGTTA
1 GAGCTTTTTTCAATCATTTTAAAGTTA
22127719 CATAACCTCA
Statistics
Matches: 255, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
95 1 0.00
96 73 0.29
97 179 0.70
98 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.42
Consensus pattern (96 bp):
GAGCTTTTTTCAATCATTTTAAAGTTATGTAGCCTCGTTTAGAGATGAAGAGTTTTTCAATCATT
TTAAAGTTGTGTAGCCTCGTTTAGAAATAAA
Found at i:22128757 original size:23 final size:24
Alignment explanation
Indices: 22128709--22128757 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
22128699 TTAGGGGTTT
**
22128709 TTCATTTACTTTTTTTTTGTTTTG
1 TTCATTTACTTTTTTTTTGTACTG
22128733 TTCA-TTACTTTTTATTTT-TACTG
1 TTCATTTACTTTTT-TTTTGTACTG
22128756 TT
1 TT
22128758 AATAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.71
Consensus pattern (24 bp):
TTCATTTACTTTTTTTTTGTACTG
Found at i:22131311 original size:28 final size:29
Alignment explanation
Indices: 22131251--22131315 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
22131241 GTAAATTTTT
**
22131251 AAAAATTACACTTTTACCCCCCGTAAAGTG
1 AAAAATTACACTTTTA-CCCCCAAAAAGTG
* *
22131281 AAAAATTACATTTTTA-CCCCAAAAATTG
1 AAAAATTACACTTTTACCCCCAAAAAGTG
22131309 AAAAATT
1 AAAAATT
22131316 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 16 0.52
30 15 0.48
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAAGTG
Found at i:22131748 original size:3 final size:3
Alignment explanation
Indices: 22131740--22131764 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22131730 TATTTGCATG
22131740 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
22131765 AAGTTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22142098 original size:19 final size:18
Alignment explanation
Indices: 22142065--22142108 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
22142055 ATTTACAATC
* *
22142065 AAAAATTATAAATATCAT
1 AAAATTTATAAATATAAT
*
22142083 AATATTTATAAAATATAAT
1 AAAATTTAT-AAATATAAT
22142102 AAAATTT
1 AAAATTT
22142109 GAAATCAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTATAAATATAAT
Found at i:22144828 original size:15 final size:15
Alignment explanation
Indices: 22144808--22144852 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
22144798 ACTTTACAAT
22144808 GTAATGTGATTGCAG
1 GTAATGTGATTGCAG
*
22144823 GTAATGTGATTGCAA
1 GTAATGTGATTGCAG
* *
22144838 GCAATATGATTGCAG
1 GTAATGTGATTGCAG
22144853 AAAAGATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (15 bp):
GTAATGTGATTGCAG
Found at i:22157597 original size:29 final size:29
Alignment explanation
Indices: 22157533--22157589 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
22157523 TGGATTTAAT
22157533 CCCTGTACAATAATTTGTAAAAATTGAGC
1 CCCTGTACAATAATTTGTAAAAATTGAGC
*
22157562 CCCTGTATAATAATTTGTAAAAATTGAG
1 CCCTGTACAATAATTTGTAAAAATTGAG
22157590 TCTTTGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (29 bp):
CCCTGTACAATAATTTGTAAAAATTGAGC
Found at i:22162652 original size:47 final size:47
Alignment explanation
Indices: 22162601--22162699 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
22162591 GGGTGACACA
22162601 TCACAATGCTAGAACCCTTTTCCTTCATCAGTATCAAAATTATATTC
1 TCACAATGCTAGAACCCTTTTCCTTCATCAGTATCAAAATTATATTC
22162648 TCACAATGCTAGAACCCTTTTCCTTCATCAGTATCAAAATTATATTC
1 TCACAATGCTAGAACCCTTTTCCTTCATCAGTATCAAAATTATATTC
22162695 TCACA
1 TCACA
22162700 CTTTGAATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (47 bp):
TCACAATGCTAGAACCCTTTTCCTTCATCAGTATCAAAATTATATTC
Found at i:22168891 original size:15 final size:15
Alignment explanation
Indices: 22168857--22168891 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22168847 AATAATTATT
*
22168857 ATATATATACTTTTA
1 ATATATATACTTTAA
*
22168872 GTATATATACTTTAA
1 ATATATATACTTTAA
22168887 ATATA
1 ATATA
22168892 AACATATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATATACTTTAA
Found at i:22169162 original size:34 final size:35
Alignment explanation
Indices: 22169121--22169194 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
22169111 TGTAATGTTG
*
22169121 TTTAAGTTGTTATTTCAG-TATTTATTTTTAATTA
1 TTTAAGTTGATATTTCAGATATTTATTTTTAATTA
* * * *
22169155 TTTAAGTTGATGTTTGAGATATTTGTTTTTTATTA
1 TTTAAGTTGATATTTCAGATATTTATTTTTAATTA
22169190 TTTAA
1 TTTAA
22169195 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.44
35 19 0.56
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.61
Consensus pattern (35 bp):
TTTAAGTTGATATTTCAGATATTTATTTTTAATTA
Found at i:22169577 original size:61 final size:61
Alignment explanation
Indices: 22169472--22169603 Score: 158
Period size: 61 Copynumber: 2.2 Consensus size: 61
22169462 CCCCACCCTC
* * *
22169472 CAAAAATTTTAAAATTTTAAAACATATCTTTATTTTTTGAAATTTTAT-ATTTTGCCTCTA
1 CAAAAATTTTAAAATTTTAAAACATACCTTTAATTTTTGAAATTTTATAATTTTACCTCTA
* *** *
22169532 CAAAAATTTTAAAATTTTTATATTGTACCTTTAATTTTTGGAATTTTATAATTTTACCTCTA
1 CAAAAATTTTAAAA-TTTTAAAACATACCTTTAATTTTTGAAATTTTATAATTTTACCTCTA
* *
22169594 TAATAATTTT
1 CAAAAATTTT
22169604 TTGTTTGGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 14 0.23
61 27 0.45
62 19 0.32
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (61 bp):
CAAAAATTTTAAAATTTTAAAACATACCTTTAATTTTTGAAATTTTATAATTTTACCTCTA
Found at i:22171919 original size:20 final size:22
Alignment explanation
Indices: 22171896--22171943 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
22171886 AAAAATTTAA
*
22171896 TTATAATGAA-TATAATT-TTT
1 TTATAATAAATTATAATTATTT
*
22171916 TTATAATAAATTATGATTATTT
1 TTATAATAAATTATAATTATTT
22171938 TTATAA
1 TTATAA
22171944 AAGGGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TTATAATAAATTATAATTATTT
Found at i:22180717 original size:59 final size:59
Alignment explanation
Indices: 22180538--22181308 Score: 635
Period size: 59 Copynumber: 13.1 Consensus size: 59
22180528 CGATTTAAGC
* * * * * * *
22180538 AATTGAAGTTCCTAAACTTAATTTAGGTTTGACCTATCTCAAAAAAGGTTCAATTTAAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTT-AAA
* ** * * * * * * *
22180598 AATTTTAGAATTCCTAGACTAAATCTACGTTCGTCCTATCTCAAAATAAGTCCAACTTAAA
1 AA-TTGA-AATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * * * **
22180659 AATTGATATTTCTAGACTTGATCCAAGTTCGACCCATATCAAAACATGTTTGATTTAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * * * **
22180718 AATTGAAATTCTTAAACTTAATCTAAGTTCGACCTATATC-AAATAGGCTCAACGTAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * *
22180776 AATTGAAATTTCTAGACTTAATCTAGGTTTGACCTATATCAAAACTGGTTCGATTTAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * * * *
22180835 AATTAAAATTTCTAAACTTGACCTAAGCTT-GACCTATATCAGAACAGGATCAATTTAAAA
1 AATTGAAATTCCTAGACTTGATCT-AGGTTCGACCTATATCAAAACAGGTTCAATTT-AAA
* * **
22180895 AATCTTAGAATTCCTAGA-TTGAATCTAGGTTCGACCTATCTCAAAGTAGGTTCAATTT-AA
1 AAT-TGA-AATTCCTAGACTTG-ATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
** * *
22180955 AATTGAAATTTTTAGACTTGATCTAGATTCGACTTATATCAAAACAGGTTCAATTT-AA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * **
22181013 AATTGAAATTCCTAGACTTGA-CTTAGGCTCTACCTAAATCAAAACAAGTTTGATTTAAA
1 AATTGAAATTCCTAGACTTGATC-TAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * * * *
22181072 AATTGAAATTCCTAAACTTGACCTAGGCTAGA-CTTTATCAAAACAAGTTCGATTTAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * *
22181130 AATTGAAATTCCTAAACTTGA-CTTAGGCTCAACCTATATCAAAATAGGTTCAATTTAAA
1 AATTGAAATTCCTAGACTTGATC-TAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * *
22181189 AATTGAAATTCCTAGACTTGACCTAGGCTT-GA-CTATGTTAAAACAGGTTCGATTTAAA
1 AATTGAAATTCCTAGACTTGATCTAGG-TTCGACCTATATCAAAACAGGTTCAATTTAAA
* * * * * * * *
22181247 ACTTGAAATTCCAAAATTTAATCTAGGTTCGACCTATCTCAAAACAAGTTCGATTTAAA
1 AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
22181306 AAT
1 AAT
22181309 CTCTAATGCC
Statistics
Matches: 573, Mismatches: 119, Indels: 39
0.78 0.16 0.05
Matches are distributed among these distances:
57 4 0.01
58 227 0.40
59 231 0.40
60 23 0.04
61 17 0.03
62 71 0.12
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (59 bp):
AATTGAAATTCCTAGACTTGATCTAGGTTCGACCTATATCAAAACAGGTTCAATTTAAA
Found at i:22181149 original size:117 final size:118
Alignment explanation
Indices: 22180538--22181308 Score: 608
Period size: 117 Copynumber: 6.5 Consensus size: 118
22180528 CGATTTAAGC
* * * * * * * *
22180538 AATTGAAGTTCCTAAACTT-AATTTAGGTTTGACCTATCTCAAAAAAGGTTCAATTTAAAAAATT
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTT-AAAAA-T
* * ** * * * * * * * * *
22180602 TTAGAATTCCTAGACTAAATCTACGTTCGTCCTATCTCAAAATAAGTCCAACTTAAA
64 TGA-AATTCCTAAACTTGACCTAGGCTCG-ACTATATCAAAACAGGTTCAATTTAAA
* * * * * * * *
22180659 AATTGATATTTCTAGACTTG-ATCCAAGTTCGACCCATATCAAAACATGTTTGATTTAAAAATTG
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAATTG
* * * * * * * **
22180723 AAATTCTTAAACTTAATCTAAGTTCGACCTATATC-AAATAGGCTCAACGTAAA
66 AAATTCCTAAACTTGACCTAGGCTCGA-CTATATCAAAACAGGTTCAATTTAAA
* * * * *
22180776 AATTGAAATTTCTAGACTT-AATCTAGGTTTGACCTATATCAAAACTGGTTCGATTTAAAAATTA
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAATTG
* * * * *
22180840 AAATTTCTAAACTTGACCTAAGCTTGACCTATATCAGAACAGGATCAATTTAAAA
66 AAATTCCTAAACTTGACCTAGGCTCGA-CTATATCAAAACAGGTTCAATTT-AAA
* * * ** *
22180895 AATCTTAGAATTCCTAGA-TTGAATCTAGGTTCGACCTATCTCAAAGTAGGTTCAATTT-AAAAT
1 AAT-TGA-AATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAAT
** * * **
22180958 TGAAATTTTTAGACTTGATCTAGATTCGACTTATATCAAAACAGGTTCAATTT-AA
64 TGAAATTCCTAAACTTGACCTAGGCTCGAC-TATATCAAAACAGGTTCAATTTAAA
* * * * *
22181013 AATTGAAATTCCTAGACTTGACT-TAGGCTCTACCTAAATCAAAACAAGTTTGATTTAAAAATTG
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAATTG
* * * *
22181077 AAATTCCTAAACTTGACCTAGGCTAGACTTTATCAAAACAAGTTCGATTTAAA
66 AAATTCCTAAACTTGACCTAGGCTCGACTATATCAAAACAGGTTCAATTTAAA
* * * * *
22181130 AATTGAAATTCCTAAACTTGACT-TAGGCTCAACCTATATCAAAATAGGTTCAATTTAAAAATTG
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAATTG
* * * * *
22181194 AAATTCCTAGACTTGACCTAGGCTTGACTATGTTAAAACAGGTTCGATTTAAA
66 AAATTCCTAAACTTGACCTAGGCTCGACTATATCAAAACAGGTTCAATTTAAA
* * * * * * *
22181247 ACTTGAAATTCC-AAAATTTAATCTAGGTTCGACCTATCTCAAAACAAGTTCGATTTAAAAAT
1 AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAAT
22181309 CTCTAATGCC
Statistics
Matches: 530, Mismatches: 107, Indels: 30
0.79 0.16 0.04
Matches are distributed among these distances:
116 60 0.11
117 282 0.53
118 42 0.08
119 10 0.02
120 55 0.10
121 81 0.15
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (118 bp):
AATTGAAATTCCTAGACTTGAATCTAGGCTCGACCTATATCAAAACAGGTTCGATTTAAAAATTG
AAATTCCTAAACTTGACCTAGGCTCGACTATATCAAAACAGGTTCAATTTAAA
Found at i:22181862 original size:22 final size:22
Alignment explanation
Indices: 22181837--22181881 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22181827 GCTTAATTAG
*
22181837 TTCATTTCC-TTACCAATCATCA
1 TTCATTTCCATGA-CAATCATCA
22181859 TTCATTTCCATGACAATCATCA
1 TTCATTTCCATGACAATCATCA
22181881 T
1 T
22181882 GTGGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.40
Consensus pattern (22 bp):
TTCATTTCCATGACAATCATCA
Found at i:22183259 original size:30 final size:30
Alignment explanation
Indices: 22183223--22183283 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
22183213 CTATTTGTTT
*
22183223 TTTTTTCTTTT-TTTTGTTATTTTTTTATTG
1 TTTTTTCTTTTCTTTGGTT-TTTTTTTATTG
*
22183253 TTTTTTCTTTTCTTTGGTTTTTTTTTTTTG
1 TTTTTTCTTTTCTTTGGTTTTTTTTTATTG
22183283 T
1 T
22183284 GTTTAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (30 bp):
TTTTTTCTTTTCTTTGGTTTTTTTTTATTG
Found at i:22185150 original size:15 final size:16
Alignment explanation
Indices: 22185120--22185152 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22185110 AACTATCATC
*
22185120 AAGAAATATGAAAAAG
1 AAGAAATATAAAAAAG
22185136 AAGAAATA-AAAAAAG
1 AAGAAATATAAAAAAG
22185151 AA
1 AA
22185153 CTCAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (16 bp):
AAGAAATATAAAAAAG
Found at i:22187109 original size:18 final size:17
Alignment explanation
Indices: 22187088--22187121 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22187078 TATTATTTCT
*
22187088 TTTTTCCTTTCTATTTTG
1 TTTTTCATTT-TATTTTG
22187106 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
22187122 CTATCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTATTTTG
Found at i:22191968 original size:22 final size:22
Alignment explanation
Indices: 22191940--22192002 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
22191930 GATTGGTATC
22191940 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
22191962 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
*
22191984 AGAGTTTTTGGTTTTAAAG
1 AGAGCTTTTGGTTTTAAAG
22192003 TGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (22 bp):
AGAGCTTTTGGTTTTAAAGATA
Found at i:22197578 original size:28 final size:29
Alignment explanation
Indices: 22197537--22197596 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
22197527 GTCTATGGGC
*
22197537 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
22197565 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
22197595 AA
1 AA
22197597 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:22211149 original size:2 final size:2
Alignment explanation
Indices: 22211142--22211188 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
22211132 GTTGCATGAA
*
22211142 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22211184 AT AT A
1 AT AT A
22211189 AAGGATCTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22223154 original size:36 final size:36
Alignment explanation
Indices: 22223114--22223182 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
22223104 TACAATGTAT
* * *
22223114 TGCCTTATATGGATCAAGGACAATCTTTCAATATAA
1 TGCCTTATATAGATCAAGGACAACCTTCCAATATAA
* *
22223150 TGCCTTTTATAGATCAAGTACAACCTTCCAATA
1 TGCCTTATATAGATCAAGGACAACCTTCCAATA
22223183 CACTGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (36 bp):
TGCCTTATATAGATCAAGGACAACCTTCCAATATAA
Found at i:22223194 original size:36 final size:36
Alignment explanation
Indices: 22223114--22223194 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
22223104 TACAATGTAT
* * * * *
22223114 TGCCTTATATGGATCAAGGACAATCTTTCAATATAA
1 TGCCTTTTATAGATCAAGGACAACCTTCCAATACAA
* *
22223150 TGCCTTTTATAGATCAAGTACAACCTTCCAATACAC
1 TGCCTTTTATAGATCAAGGACAACCTTCCAATACAA
*
22223186 TGCTTTTTA
1 TGCCTTTTA
22223195 GGAATCAAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (36 bp):
TGCCTTTTATAGATCAAGGACAACCTTCCAATACAA
Found at i:22224127 original size:12 final size:12
Alignment explanation
Indices: 22224110--22224135 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22224100 CAAGCATTTG
22224110 ATACACACACAC
1 ATACACACACAC
22224122 ATACACACACAC
1 ATACACACACAC
22224134 AT
1 AT
22224136 CAACGAGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (12 bp):
ATACACACACAC
Found at i:22225948 original size:33 final size:33
Alignment explanation
Indices: 22225906--22225977 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
22225896 TAATCTAGAA
22225906 ACTTTCGAAATTTATTCGCTTTTGACTATAACT
1 ACTTTCGAAATTTATTCGCTTTTGACTATAACT
*
22225939 ACTTTCGAAATTTATTCGCTTTTGACTATAGCT
1 ACTTTCGAAATTTATTCGCTTTTGACTATAACT
22225972 ACTTTC
1 ACTTTC
22225978 TCTCTTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (33 bp):
ACTTTCGAAATTTATTCGCTTTTGACTATAACT
Found at i:22227925 original size:21 final size:21
Alignment explanation
Indices: 22227869--22227918 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
22227859 AAAGAGAGAA
22227869 GTTGATGGCAGGGTCTATAGG
1 GTTGATGGCAGGGTCTATAGG
*
22227890 GTTGATGGCAGGGTCTATGGG
1 GTTGATGGCAGGGTCTATAGG
22227911 GTTGATGG
1 GTTGATGG
22227919 GTGGGTCAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.08, G:0.46, T:0.30
Consensus pattern (21 bp):
GTTGATGGCAGGGTCTATAGG
Found at i:22234043 original size:13 final size:13
Alignment explanation
Indices: 22234025--22234049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22234015 GGAGAAATTG
22234025 TGATTTTATAAAA
1 TGATTTTATAAAA
22234038 TGATTTTATAAA
1 TGATTTTATAAA
22234050 TTTTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:22236627 original size:36 final size:36
Alignment explanation
Indices: 22236565--22236656 Score: 130
Period size: 36 Copynumber: 2.6 Consensus size: 36
22236555 ATGTACTACT
* * *
22236565 TTTTTTGGGTCAAGCACAACCTTTCAATACAATGCC
1 TTTTATGGATCAAGCACAACCATTCAATACAATGCC
* * *
22236601 TTTTATGGATCAAGCACAATCATTCAATACATTGTC
1 TTTTATGGATCAAGCACAACCATTCAATACAATGCC
22236637 TTTTATGGATCAAGCACAAC
1 TTTTATGGATCAAGCACAAC
22236657 ATATCTACCT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (36 bp):
TTTTATGGATCAAGCACAACCATTCAATACAATGCC
Found at i:22239456 original size:15 final size:14
Alignment explanation
Indices: 22239418--22239456 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
22239408 TATTCAAATT
*
22239418 AAAATAGAAAATCA
1 AAAATAAAAAATCA
22239432 AAAA-AAAAAATCA
1 AAAATAAAAAATCA
22239445 CAAAATAAAAAA
1 -AAAATAAAAAA
22239457 AAAACAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 8 0.36
14 8 0.36
15 6 0.27
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAATAAAAAATCA
Found at i:22248331 original size:25 final size:25
Alignment explanation
Indices: 22248296--22248347 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
22248286 AATGTTATTC
*
22248296 ACTTCTCTCTAACATTCCAACAAAA
1 ACTTCTATCTAACATTCCAACAAAA
22248321 ACTTCTATCTAACATTCCAACAAAA
1 ACTTCTATCTAACATTCCAACAAAA
22248346 AC
1 AC
22248348 CAATTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (25 bp):
ACTTCTATCTAACATTCCAACAAAA
Found at i:22252301 original size:124 final size:123
Alignment explanation
Indices: 22252161--22252413 Score: 368
Period size: 124 Copynumber: 2.0 Consensus size: 123
22252151 TAAAAATGAC
22252161 AAAAATACCCTAATTTAAAAGGTATTTTTGTTGAAACTTAAGGGTATTTTTGT-TATTTTGTTGC
1 AAAAATACCCTAATTTAAAAGGTATTTTTGTTGAAACTTAAGGGTATTTTTGTAT-TTTTGTTGC
* * * * * *
22252225 CTGACATTAATTTCATAACATCCTA-ATGAGAGAATGAAGCCTCAAGGTG-CAAAAAAA
65 CTGACATTAATTTAATAACACCCTAGATGACAAAAGGAAACCTCAAGGTGACAAAAAAA
*
22252282 AAAAATAACCCTCATATTTAAAAGGTATTTTTGTTGAAACTTAAGGGTTTTTTTGTATTTTTGTT
1 AAAAAT-ACCCT-A-ATTTAAAAGGTATTTTTGTTGAAACTTAAGGGTATTTTTGTATTTTTGTT
*
22252347 GTCTGACATTAATTTAATAACACCCTATGATGACAAAAGGAAACCTCAAGGTGACAAAAAAA
63 GCCTGACATTAATTTAATAACACCCTA-GATGACAAAAGGAAACCTCAAGGTGACAAAAAAA
22252409 AAAAA
1 AAAAA
22252414 AAAATCACAG
Statistics
Matches: 117, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
121 6 0.05
122 5 0.04
123 1 0.01
124 71 0.61
125 1 0.01
126 20 0.17
127 13 0.11
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (123 bp):
AAAAATACCCTAATTTAAAAGGTATTTTTGTTGAAACTTAAGGGTATTTTTGTATTTTTGTTGCC
TGACATTAATTTAATAACACCCTAGATGACAAAAGGAAACCTCAAGGTGACAAAAAAA
Found at i:22253724 original size:11 final size:11
Alignment explanation
Indices: 22253708--22253742 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22253698 AGGAATTTCT
*
22253708 AGGAAATACAA
1 AGGAAATAAAA
*
22253719 AGGAAAGAAAA
1 AGGAAATAAAA
22253730 AGGAAATAAAA
1 AGGAAATAAAA
22253741 AG
1 AG
22253743 ATGAACCATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.06
Consensus pattern (11 bp):
AGGAAATAAAA
Found at i:22262614 original size:24 final size:24
Alignment explanation
Indices: 22262587--22262687 Score: 98
Period size: 24 Copynumber: 3.9 Consensus size: 24
22262577 GATGAATGGT
22262587 AGAGCGGCGGAGAGAAAGAGGGGA
1 AGAGCGGCGGAGAGAAAGAGGGGA
22262611 AGAGCGG-GGAAGAGAAAGAGGGGAAGAGAGGA
1 AGAGCGGCGG-AGAG-AA-A---G-AG-G-GGA
22262643 AGAGCGGCGGAGAGAAAGAGGGGA
1 AGAGCGGCGGAGAGAAAGAGGGGA
*
22262667 AGAGCGGCTGAGAG-AAGAGGG
1 AGAGCGGCGGAGAGAAAGAGGG
22262688 AAAGGAGGAT
Statistics
Matches: 66, Mismatches: 1, Indels: 21
0.75 0.01 0.24
Matches are distributed among these distances:
23 9 0.14
24 27 0.41
25 3 0.05
26 3 0.05
27 1 0.02
29 1 0.02
30 3 0.05
31 3 0.05
32 14 0.21
33 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.53, T:0.01
Consensus pattern (24 bp):
AGAGCGGCGGAGAGAAAGAGGGGA
Found at i:22262638 original size:32 final size:32
Alignment explanation
Indices: 22262602--22262670 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
22262592 GGCGGAGAGA
*
22262602 AAGAGGGGAAGAGCGG-GGAAGAGAAAGAGGGG
1 AAGAGAGGAAGAGCGGCGG-AGAGAAAGAGGGG
22262634 AAGAGAGGAAGAGCGGCGGAGAGAAAGAGGGG
1 AAGAGAGGAAGAGCGGCGGAGAGAAAGAGGGG
22262666 AAGAG
1 AAGAG
22262671 CGGCTGAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.94
33 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.54, T:0.00
Consensus pattern (32 bp):
AAGAGAGGAAGAGCGGCGGAGAGAAAGAGGGG
Found at i:22262640 original size:16 final size:16
Alignment explanation
Indices: 22262621--22262670 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
22262611 AGAGCGGGGA
22262621 AGAGAAAGAGGGGAAG
1 AGAGAAAGAGGGGAAG
* * **
22262637 AGAGGAAGAGCGGCGG
1 AGAGAAAGAGGGGAAG
22262653 AGAGAAAGAGGGGAAG
1 AGAGAAAGAGGGGAAG
22262669 AG
1 AG
22262671 CGGCTGAGAG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAGGGGAAG
Found at i:22262681 original size:56 final size:54
Alignment explanation
Indices: 22262587--22262696 Score: 168
Period size: 56 Copynumber: 2.0 Consensus size: 54
22262577 GATGAATGGT
*
22262587 AGAGCGGCGGAGAGAAAGAGGGGAAGAGCGGGGAAGAGAAAGAGGGGAAGAGAGGA
1 AGAGCGGCGGAGAGAAAGAGGGGAAGAGCGGGGAAGAG-AAGAGGGAAAG-GAGGA
*
22262643 AGAGCGGCGGAGAGAAAGAGGGGAAGAGCGGCTG-AGAGAAGAGGGAAAGGAGGA
1 AGAGCGGCGGAGAGAAAGAGGGGAAGAGCGG-GGAAGAGAAGAGGGAAAGGAGGA
22262697 TGAGAGAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
54 5 0.10
55 10 0.20
56 35 0.69
57 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.53, T:0.01
Consensus pattern (54 bp):
AGAGCGGCGGAGAGAAAGAGGGGAAGAGCGGGGAAGAGAAGAGGGAAAGGAGGA
Found at i:22262700 original size:22 final size:23
Alignment explanation
Indices: 22262652--22262703 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22262642 AAGAGCGGCG
* * *
22262652 GAGAGAAAGAGGGGAAGAGCGGCT
1 GAGAG-AAGAGGGAAAGAGAGGAT
22262676 GAGAGAAGAGGGAAAG-GAGGAT
1 GAGAGAAGAGGGAAAGAGAGGAT
22262698 GAGAGA
1 GAGAGA
22262704 GAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.40
23 10 0.40
24 5 0.20
ACGTcount: A:0.42, C:0.04, G:0.50, T:0.04
Consensus pattern (23 bp):
GAGAGAAGAGGGAAAGAGAGGAT
Found at i:22274456 original size:15 final size:15
Alignment explanation
Indices: 22274432--22274461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22274422 ATCCTCTAAC
22274432 GTATAGATGTCATAT
1 GTATAGATGTCATAT
*
22274447 GTATATATGTCATAT
1 GTATAGATGTCATAT
22274462 CTTTCATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (15 bp):
GTATAGATGTCATAT
Found at i:22277429 original size:12 final size:12
Alignment explanation
Indices: 22277412--22277451 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
22277402 TGTATTATTA
22277412 ATTTCTTCACGT
1 ATTTCTTCACGT
*
22277424 ATTTCTCCACGT
1 ATTTCTTCACGT
* *
22277436 ATTTCCTCACAT
1 ATTTCTTCACGT
22277448 ATTT
1 ATTT
22277452 TTGCATGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (12 bp):
ATTTCTTCACGT
Found at i:22279358 original size:74 final size:74
Alignment explanation
Indices: 22279222--22279424 Score: 185
Period size: 74 Copynumber: 2.8 Consensus size: 74
22279212 GCCGGTCCAT
* * * *
22279222 AAACAGAAAAGACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGTGTTCGCTGCTAGAAACT
1 AAACAGAAAAGACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTACCAGAAACT
22279287 TTAATCAGA
66 TTAATCAGA
** * * *
22279296 AAACA-AAGAAGACTTAGTTGACCAATAAGCATGGTTAGTCGACTAAGTGCTCATTACCAGAAAC
1 AAACAGAA-AAGACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTACCAGAAAC
*** **
22279360 TAGGATTGGA
65 TTTAATCAGA
* * * * * * * *
22279370 AGACAAAAAAGACTTAGTCGACTAAGAAGTAT-ATTAGTCAACTAAGAGCACACTA
1 AAACAGAAAAGACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTA
22279425 TTTAAAAATT
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
73 20 0.19
74 81 0.79
75 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (74 bp):
AAACAGAAAAGACTTAGTCAACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTACCAGAAACT
TTAATCAGA
Found at i:22279800 original size:7 final size:7
Alignment explanation
Indices: 22279786--22279817 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22279776 GTTAGTTTGA
22279786 TTGGGTT
1 TTGGGTT
*
22279793 TAGGGTT
1 TTGGGTT
22279800 TTGGGTT
1 TTGGGTT
22279807 TTGGGTT
1 TTGGGTT
22279814 TTGG
1 TTGG
22279818 TTGATCTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (7 bp):
TTGGGTT
Found at i:22280906 original size:18 final size:17
Alignment explanation
Indices: 22280883--22280922 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
22280873 CTTAAAGAAG
22280883 AAGAAGAAAAAGACAAGA
1 AAGAAGAAAAAGA-AAGA
*
22280901 AAGAAGCAAAAGAAAGA
1 AAGAAGAAAAAGAAAGA
22280918 AAGAA
1 AAGAA
22280923 AAGCATTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAGAAAGA
Found at i:22287417 original size:23 final size:23
Alignment explanation
Indices: 22287391--22287435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22287381 AGGGGAAAGG
22287391 GAAAGTAGAAA-AAATTTAGGGGA
1 GAAAGTA-AAAGAAATTTAGGGGA
*
22287414 GAAAGTAAAAGTAATTTAGGGG
1 GAAAGTAAAAGAAATTTAGGGG
22287436 TAATTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (23 bp):
GAAAGTAAAAGAAATTTAGGGGA
Found at i:22288250 original size:73 final size:74
Alignment explanation
Indices: 22288173--22288345 Score: 224
Period size: 73 Copynumber: 2.4 Consensus size: 74
22288163 GACTGTGTAG
* * * * *
22288173 ACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTGCCAGAAACTTCAATTAGAA-ACAGAGAAG
1 ACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTGCCAAAAACTGCAATTAAAAGACAAAAAAG
22288237 ACTTAGTCA
66 ACTTAGTCA
* * **
22288246 ACCAAGAAGCATGGTTAGTCGACTAAGTGCTCACTGTCAAAAACTGGGATTAAAAGACAAAAAAG
1 ACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTGCCAAAAACTGCAATTAAAAGACAAAAAAG
*
22288311 ACTTAGTCG
66 ACTTAGTCA
* *
22288320 ACAAAGAAGTAT-GTTAGTCAACTAAG
1 ACCAAGAAGCATGGTTAGTCAACTAAG
22288346 AGCACATTGT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 61 0.71
74 25 0.29
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (74 bp):
ACCAAGAAGCATGGTTAGTCAACTAAGTGCTCACTGCCAAAAACTGCAATTAAAAGACAAAAAAG
ACTTAGTCA
Found at i:22290990 original size:14 final size:14
Alignment explanation
Indices: 22290968--22291002 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22290958 ATTTTTATTG
*
22290968 TATATATGTAATCA
1 TATAAATGTAATCA
22290982 TATAAATGTAATCA
1 TATAAATGTAATCA
22290996 TATAAAT
1 TATAAAT
22291003 AAAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (14 bp):
TATAAATGTAATCA
Found at i:22291287 original size:23 final size:24
Alignment explanation
Indices: 22291243--22291287 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
22291233 AATTATTTTT
* *
22291243 CGTTGAAAATTTCTAATGGAAATC
1 CGTTCAAAATTTCTAATAGAAATC
*
22291267 CGTTCAAAA-TTCTATTAGAAA
1 CGTTCAAAATTTCTAATAGAAA
22291288 GTCTGGTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
CGTTCAAAATTTCTAATAGAAATC
Found at i:22295458 original size:19 final size:20
Alignment explanation
Indices: 22295429--22295468 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
22295419 TCACTTCTAA
22295429 ACTTCAAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
22295449 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
22295468 A
1 A
22295469 AGTCAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:22304804 original size:21 final size:22
Alignment explanation
Indices: 22304780--22304822 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22304770 TTTAAAACAA
*
22304780 CTTTAAAA-TAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
*
22304801 CTTTAAAACCAAAGGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
22304823 ACCAATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:22312041 original size:38 final size:38
Alignment explanation
Indices: 22311999--22312074 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
22311989 TGCCAATAAT
* *
22311999 GTGCGTTATGGGAGAGCACACG-TCGATAATATATGCCA
1 GTGCGGTATGGAAGAGCACACGAT-GATAATATATGCCA
* *
22312037 GTGCGGTATGGAAGAGCACATGATGATGATATATGCCA
1 GTGCGGTATGGAAGAGCACACGATGATAATATATGCCA
22312075 TGTGTGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (38 bp):
GTGCGGTATGGAAGAGCACACGATGATAATATATGCCA
Found at i:22313030 original size:2 final size:2
Alignment explanation
Indices: 22313023--22313051 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22313013 TGATTTCATC
22313023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22313052 GCCATGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22313719 original size:31 final size:31
Alignment explanation
Indices: 22313639--22313722 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
22313629 GAAAAAAAGA
* * * *
22313639 GAAAAAAGTTGAGAGACTAAATTACAAATAT
1 GAAAAAATTTGAAAGACCAAATAACAAATAT
* *
22313670 GAAAAAGTTTGGAAGACCAAATAACAAATAT
1 GAAAAAATTTGAAAGACCAAATAACAAATAT
*
22313701 TAAAAAATTT-AAAGGACCAAAT
1 GAAAAAATTTGAAA-GACCAAAT
22313723 TGTAAATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.21
Consensus pattern (31 bp):
GAAAAAATTTGAAAGACCAAATAACAAATAT
Found at i:22317853 original size:25 final size:25
Alignment explanation
Indices: 22317817--22317876 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
22317807 TTAAATATCT
* *
22317817 AATAAA-AGTAATCTTTATGCAATA
1 AATAAACATTAATCTTTATACAATA
* *
22317841 AATAAACATTAATTTTTATATAATA
1 AATAAACATTAATCTTTATACAATA
22317866 AATAAACATTA
1 AATAAACATTA
22317877 GTTTCAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (25 bp):
AATAAACATTAATCTTTATACAATA
Found at i:22320822 original size:85 final size:85
Alignment explanation
Indices: 22320540--22320801 Score: 384
Period size: 85 Copynumber: 3.1 Consensus size: 85
22320530 AAAAAAAAAA
* * ** **
22320540 ATTAATACCCAAATATTAATTC-TAATCCTTAATTCTAGCATATTGCCAATCATTTTAATTGAAA
1 ATTAATTCCCAAACA-TAATTCTTAATGTTTAATTCTAGCATATTGCCAATCATTTTAATTGATT
22320604 ATCCAAACAATAATTCTAAAC
65 ATCCAAACAATAATTCTAAAC
* *
22320625 ATTAATTCCCAAACATAATTCTTAATGTTTAATTCTACCATATTGCTAATCATTTTAATT-ATAT
1 ATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTGCCAATCATTTTAATTGAT-T
22320689 ATCCAAACAATAATTCTAAAC
65 ATCCAAACAATAATTCTAAAC
*
22320710 ATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTGCACAAATCATTTCAATTGAT
1 ATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTGC-C-AATCATTTTAATTGAT
*
22320775 TATCCAAACTATAATTCTAAAC
64 TATCCAAACAATAATTCTAAAC
22320797 ATTAA
1 ATTAA
22320802 GCTCTTTGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
84 7 0.04
85 113 0.71
87 38 0.24
88 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (85 bp):
ATTAATTCCCAAACATAATTCTTAATGTTTAATTCTAGCATATTGCCAATCATTTTAATTGATTA
TCCAAACAATAATTCTAAAC
Found at i:22322442 original size:42 final size:42
Alignment explanation
Indices: 22322383--22322505 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
22322373 GGGATAATTT
*
22322383 TGACCTAGCCATGTGCGGTGTAGGAGTGCACATGAGTTGTGC
1 TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGTTGTGC
* **
22322425 TGACCCAGCCATGTGCGGTGTATGAGTGCACATGAACTGTGC
1 TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGTTGTGC
* * *
22322467 TGACCCGGCTATGTGCGGTGT-GGTAGTGCACATAAGTTG
1 TGACCCAGCCATGTGCGGTGTAGG-AGTGCACATGAGTTG
22322506 AGACAGAGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 69 0.99
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (42 bp):
TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGTTGTGC
Found at i:22332540 original size:42 final size:42
Alignment explanation
Indices: 22332442--22332559 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
22332432 GTGATAATTT
* *
22332442 TGACCCAGCCATGTGCGGTGTAGAAGTGTACATGAGCTGTGC
1 TGACCCAACCATGTGCGGTGTAGAAGTGCACATGAGCTGTGC
* *
22332484 TGACCCAACCATGTGCGGTGTATG-AGTGCACATGAGTTGTGT
1 TGACCCAACCATGTGCGGTGTA-GAAGTGCACATGAGCTGTGC
*** * * *
22332526 TGACCTGGCTATGTGCGGTGTGGTAGTGCACATG
1 TGACCCAACCATGTGCGGTGTAGAAGTGCACATG
22332560 TCAAGCCCGA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.27
Consensus pattern (42 bp):
TGACCCAACCATGTGCGGTGTAGAAGTGCACATGAGCTGTGC
Found at i:22337219 original size:12 final size:13
Alignment explanation
Indices: 22337172--22337240 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 13
22337162 CTCAAAAGCC
22337172 AAGAAGGAAGAAA
1 AAGAAGGAAGAAA
* *
22337185 ACGAAGAAAGGAAA
1 AAGAAGGAA-GAAA
22337199 AGAGAAAGGAA-AAA
1 A-AG-AAGGAAGAAA
22337213 AAGAAGGAA-AAA
1 AAGAAGGAAGAAA
* *
22337225 AAAAAGGAGGAAA
1 AAGAAGGAAGAAA
22337238 AAG
1 AAG
22337241 GAAAAGGGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
12 16 0.36
13 14 0.31
14 9 0.20
15 1 0.02
16 5 0.11
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (13 bp):
AAGAAGGAAGAAA
Found at i:22337247 original size:16 final size:15
Alignment explanation
Indices: 22337208--22337239 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22337198 AAGAGAAAGG
*
22337208 AAAAAAAGAAGGAAA
1 AAAAAAAGGAGGAAA
22337223 AAAAAAAGGAGGAAA
1 AAAAAAAGGAGGAAA
22337238 AA
1 AA
22337240 GGAAAAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAAAGGAGGAAA
Found at i:22337428 original size:19 final size:17
Alignment explanation
Indices: 22337414--22337453 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22337404 GGAAGAGAAT
*
22337414 AAAGAAAGAAAAAGAGA
1 AAAGAAAAAAAAAGAGA
22337431 AAAGAAAAAAAAAG-GA
1 AAAGAAAAAAAAAGAGA
22337447 AAGAGAA
1 AA-AGAA
22337454 TCGGTTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAGA
Found at i:22337732 original size:16 final size:18
Alignment explanation
Indices: 22337711--22337747 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22337701 TTATTTTGAT
22337711 TAATTTCT-GT-TAATTA
1 TAATTTCTAGTATAATTA
*
22337727 TAATTTTTAGTATAATTA
1 TAATTTCTAGTATAATTA
22337745 TAA
1 TAA
22337748 ATTAACGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATTTCTAGTATAATTA
Found at i:22346723 original size:21 final size:21
Alignment explanation
Indices: 22346687--22346737 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
22346677 ATATGTTGAA
22346687 TAGTT-AA-TTTAAGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
22346706 TAGTTAAATTTTATGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
22346727 TATTTTAAATT
1 TA-GTTAAATT
22346738 ACTTTAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (21 bp):
TAGTTAAATTTTAAGTTATTT
Found at i:22355245 original size:2 final size:2
Alignment explanation
Indices: 22355229--22355264 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22355219 ACCATATACC
* *
22355229 AT AT AT GT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22355265 CAATCATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22355352 original size:42 final size:42
Alignment explanation
Indices: 22355305--22355506 Score: 242
Period size: 42 Copynumber: 4.8 Consensus size: 42
22355295 CATCTCATAT
* * * * * *
22355305 GCAACGTCTTATGCGTACTCCCACTCGCATATAGTCAGGTCA
1 GCAACGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
* * *
22355347 GCAACGGCTTATGTGCACTCTCACTCACACATAGTTGGGTCA
1 GCAACGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
* * * *
22355389 ACAACGGCTTATGTGCACTCCCATTCACACATAGCCGGGTCA
1 GCAACGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
* *
22355431 GCAACGACTTATGTGCACTCCTACTCGCACATAGTCGGGTCA
1 GCAACGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
* * *
22355473 GCAACGACTTATGTGCACTTCTACTCGCACATAG
1 GCAACGACTTATGTGCACTCCCACTCACACATAG
22355507 CTGGGTCCAC
Statistics
Matches: 140, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 140 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (42 bp):
GCAACGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
Found at i:22358855 original size:2 final size:2
Alignment explanation
Indices: 22358848--22358951 Score: 106
Period size: 2 Copynumber: 52.5 Consensus size: 2
22358838 ATTATGTTGG
*
22358848 TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
22358890 TG T- TG TG TNA T- TA TG T- TGG TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
22358931 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
22358952 GTTGTGCATG
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
1 3 0.03
2 84 0.94
3 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22358933 original size:61 final size:60
Alignment explanation
Indices: 22358838--22358957 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 60
22358828 GCACTACTAC
22358838 ATTATGTTGGTATATATATAGATATATATATATATATATATATATATATATATGTTGTGT
1 ATTATGTTGGTATATATATAGATATATATATATATATATATATATATATATATGTTGTGT
22358898 NATTATGTTGGTATATATATAGATATATATATATATATATATATATATATATATGTTGTG
1 -ATTATGTTGGTATATATATAGATATATATATATATATATATATATATATATATGTTGTG
22358958 CATGATGGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.49
Consensus pattern (60 bp):
ATTATGTTGGTATATATATAGATATATATATATATATATATATATATATATATGTTGTGT
Done.