Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 63 of 210
Found at i:22284666 original size:259 final size:260
Alignment explanation
Indices: 22284088--22284876 Score: 1179
Period size: 259 Copynumber: 3.0 Consensus size: 260
22284078 ATTTTTGGTC
**
22284088 CTTCCTTACATCATTCAGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
1 CTTCCTTACATCATTTGGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
*
22284153 CTGGAAACTACAA-TAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAAGACC
66 CTGGAAACTACAACAAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAA-ACC
* * * *
22284217 TCCATAGGTAGATAATATAATCGCCTATAGTGTGATAAACTCAAACATGCAATAACAACAATAAC
130 TCCATAGGCAGATAATATAATAGCCTATCGTGTGATAAACTCGAACATGCAAT-A-AACAAT---
* * *
22284282 AATATAACAGG-ATCCAACTTAAAACTGACTCAAATGTAAAGAGCATACGCAATCCCAAATTTAA
190 -AT-T-AC-GGAATCCAACTTAAAGCTGACTCGAATGTAAAGAGCATACGCAATCCCAGATTTAA
* *
22284346 CCAATGTGGG
251 CCGATGTAGG
22284356 CTTCCTTACATCATTTGGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
1 CTTCCTTACATCATTTGGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
* *
22284421 CTGGAAACTACAACAAAGGGGGAGAACTTCGGCAGGCTAAAACCAATTGGCTGCAGTAAAAACCT
66 CTGGAAACTACAACAAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAAACCT
22284486 CCATAGGCAGATAATATAATAGCCTATCGTGTGATAAACTCGAACATGCAAT-AACAATATTACG
131 CCATAGGCAGATAATATAATAGCCTATCGTGTGATAAACTCGAACATGCAATAAACAATATTACG
* * *
22284550 GAATCCAACTTAATGCTGACTCGAACGTAAAGAGCATACGCAATCCCGGATTTAACCGATGTAGG
196 GAATCCAACTTAAAGCTGACTCGAATGTAAAGAGCATACGCAATCCCAGATTTAACCGATGTAGG
*
22284615 CTTCCTTACATCATTTGGATCAACCGGTTGCAACCTGAGTTCCTCCAAATGAGCAGGCTTATCCC
1 CTTCCTTACATCATTTGGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
*
22284680 CTGAAAACTACAACAAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAAACCT
66 CTGGAAACTACAACAAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAAACCT
* *
22284745 CCATATGCAGATAATATAATAGCCTATCATGTGATAAACTCGAACATGCAATAACAACAACAACA
131 CCATAGGCAGATAATATAATAGCCTATCGTGTGATAAACTCGAACATGCAAT-------A-AACA
* * *
22284810 ATATAACGGAATCCAACTTAAAGCTGACTTGAATGTAAAGAGCATACGCAATCCCAGATTTTACC
188 ATATTACGGAATCCAACTTAAAGCTGACTCGAATGTAAAGAGCATACGCAATCCCAGATTTAACC
22284875 GA
253 GA
22284877 AGTGGGATGA
Statistics
Matches: 481, Mismatches: 29, Indels: 22
0.90 0.05 0.04
Matches are distributed among these distances:
258 2 0.00
259 233 0.48
260 1 0.00
261 2 0.00
265 6 0.01
268 193 0.40
269 44 0.09
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (260 bp):
CTTCCTTACATCATTTGGATCAACCGGTTGCAACCCGAGTTCCTCCAAATGAGCAGGCTTATCCC
CTGGAAACTACAACAAAGGGGAAGAACTTTGGCAGGCTAAAACCAATTGGCTGCAGTAAAAACCT
CCATAGGCAGATAATATAATAGCCTATCGTGTGATAAACTCGAACATGCAATAAACAATATTACG
GAATCCAACTTAAAGCTGACTCGAATGTAAAGAGCATACGCAATCCCAGATTTAACCGATGTAGG
Found at i:22285418 original size:4 final size:4
Alignment explanation
Indices: 22285409--22285448 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
22285399 ATTCGCCTTG
*
22285409 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22285449 CAGGTGCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:22290206 original size:16 final size:14
Alignment explanation
Indices: 22290175--22290208 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
22290165 TTGTTAAAAA
22290175 TTTCTTTTTCTATT
1 TTTCTTTTTCTATT
22290189 TTTCTTGTTTCGTATT
1 TTTCTT-TTTC-TATT
22290205 TTTC
1 TTTC
22290209 CAGCCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 4 0.22
16 8 0.44
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTCTTTTTCTATT
Found at i:22293323 original size:14 final size:15
Alignment explanation
Indices: 22293301--22293377 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
22293291 TCAATCAAAC
22293301 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
22293315 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
22293330 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
22293350 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
22293364 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
22293378 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:22293342 original size:20 final size:20
Alignment explanation
Indices: 22293317--22293356 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22293307 AATATTTTCC
*
22293317 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
22293337 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
22293357 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:22293362 original size:34 final size:35
Alignment explanation
Indices: 22293305--22293371 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22293295 TCAAACCCAG
*
22293305 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
22293340 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22293372 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22294430 original size:17 final size:17
Alignment explanation
Indices: 22294404--22294441 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22294394 TAAAATAGTA
*
22294404 TTTTTGAAAATAATA-AT
1 TTTTTCAAAAT-ATACAT
22294421 TTTTTCAAAATATACAT
1 TTTTTCAAAATATACAT
22294438 TTTT
1 TTTT
22294442 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTTCAAAATATACAT
Found at i:22294447 original size:17 final size:16
Alignment explanation
Indices: 22294403--22294446 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
22294393 ATAAAATAGT
22294403 ATTTTTGAAAATAATA
1 ATTTTTGAAAATAATA
*
22294419 ATTTTTTCAAAAT-ATA
1 A-TTTTTGAAAATAATA
22294435 CATTTTTGAAAA
1 -ATTTTTGAAAA
22294447 AAAAATAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTTTTGAAAATAATA
Found at i:22297902 original size:15 final size:15
Alignment explanation
Indices: 22297882--22297915 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22297872 ATTTTTAATT
22297882 AAAATGAATATTGTA
1 AAAATGAATATTGTA
* *
22297897 AAAATGAATTTTTTA
1 AAAATGAATATTGTA
22297912 AAAA
1 AAAA
22297916 CCTTAATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
AAAATGAATATTGTA
Found at i:22298388 original size:36 final size:36
Alignment explanation
Indices: 22298348--22298418 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
22298338 AGAAGATATA
* * * *
22298348 ATTATGGAATCTTAGAGTTTTAATTGTATATAGCTG
1 ATTATCGAAGCTTAGAGTTCTAATTGTATACAGCTG
*
22298384 ATTATCTAAGCTTAGAGTTCTAATTGTATACAGCT
1 ATTATCGAAGCTTAGAGTTCTAATTGTATACAGCT
22298419 TTTAATTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (36 bp):
ATTATCGAAGCTTAGAGTTCTAATTGTATACAGCTG
Found at i:22298718 original size:48 final size:48
Alignment explanation
Indices: 22298643--22298738 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
22298633 TAAGTGAATT
* *
22298643 CTGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCGCTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
22298691 CTGTTGAATCCTTTATCGCTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCGCTGCAAGTTAAGCTGACTTAGGCGTTTTTA
22298739 AGCAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCGCTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:22301870 original size:116 final size:116
Alignment explanation
Indices: 22301660--22301879 Score: 309
Period size: 116 Copynumber: 1.9 Consensus size: 116
22301650 ACTTTAGTTT
* *
22301660 GACTGATTGAAAGTTGGTTAGATATGTGGAGATTTAGTCTTTATTGTTACACAGGCATTCTTTGA
1 GACTGATTGAAAGTTGGTTAGATATATGGAAATTTAGTCTTTATTGTTACACAGGCATTCTTTGA
* * *
22301725 TTGTGTTGTTATGTATTGTTAGTGGCATATATGTCATGTCTATGTTCCTCC
66 TTGTATTGTCATGTATTGTTAGTGACATATATGTCATGTCTATGTTCCTCC
* * *
22301776 GACTGATTGAAAGTTGGTT-GTATATATGGAAATTTAGTCTTTATTG-TAGTATAGGCTTTCTTT
1 GACTGATTGAAAGTTGGTTAG-ATATATGGAAATTTAGTCTTTATTGTTA-CACAGGCATTCTTT
* * *
22301839 GATTTTATTGTCGTGTATTGTTGGTGACATATATGTCATGT
64 GATTGTATTGTCATGTATTGTTAGTGACATATATGTCATGT
22301880 TGGTGTCTCT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
115 3 0.03
116 88 0.97
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (116 bp):
GACTGATTGAAAGTTGGTTAGATATATGGAAATTTAGTCTTTATTGTTACACAGGCATTCTTTGA
TTGTATTGTCATGTATTGTTAGTGACATATATGTCATGTCTATGTTCCTCC
Found at i:22302089 original size:164 final size:163
Alignment explanation
Indices: 22301776--22302205 Score: 557
Period size: 164 Copynumber: 2.6 Consensus size: 163
22301766 ATGTTCCTCC
* * * *
22301776 GACTGATTGAAAGTTGGTTGTATATATGGAA-ATTTAGTCTTTATTGTAGTATAGGCTTTCTTTG
1 GACTGATTGAAAGTTGGTTGGATGTGT-GAAGATTTAGTCTTTATTGTAGTATAGGCATTCTTTG
* ** *
22301840 ATTTTATTGTCGTGTATTGTTGGTGACATATATGTCATGTTGGTGTCTCTCCAATGTGTCTGTGG
65 ATTTTATTGTCGTGTATTGTTGGTGGCATATATGTCATGTTCATGTCTCTCCAAAGTGTCTGT-G
* *
22301905 CTGTCTCGGGTTTTTGTTCTGTAGTACTTTAGTTT
129 CTGTCTCAGGTTTGTGTTCTGTAGTACTTTAGTTT
*
22301940 GACTGATTGAAAGTTGGTTGGATGTGTGAAGATTTAGTCTTTATTGTAGTATAGGCATTCCTTGA
1 GACTGATTGAAAGTTGGTTGGATGTGTGAAGATTTAGTCTTTATTGTAGTATAGGCATTCTTTGA
* **
22302005 TTTTATTGTTGTGTATTGTTGGTGGCATATATGTTGTGTTCATGT-TCCTCCGACAAGTCG-CTG
66 TTTTATTGTCGTGTATTGTTGGTGGCATATATGTCATGTTCATGTCT-CTCC-A-AAGT-GTCTG
* *
22302068 T-TTGTCTCAGGTTTGTGTTCTGTAGTATTTTAGTTT
127 TGCTGTCTCAGGTTTGTGTTCTGTAGTACTTTAGTTT
** * * *
22302104 GACTGATTGAAAGTCAGATGGATGTGTGAAGATTTAGTCTTTATTGCAGTATGGGCATTCTTTGA
1 GACTGATTGAAAGTTGGTTGGATGTGTGAAGATTTAGTCTTTATTGTAGTATAGGCATTCTTTGA
* *
22302169 TTTTATTGTCATGTATTGTTTGTGGCAT-TAT-TCATGT
66 TTTTATTGTCGTGTATTGTTGGTGGCATATATGTCATGT
22302206 GTCTCCAATG
Statistics
Matches: 234, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
162 4 0.02
163 7 0.03
164 214 0.91
165 1 0.00
166 7 0.03
167 1 0.00
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (163 bp):
GACTGATTGAAAGTTGGTTGGATGTGTGAAGATTTAGTCTTTATTGTAGTATAGGCATTCTTTGA
TTTTATTGTCGTGTATTGTTGGTGGCATATATGTCATGTTCATGTCTCTCCAAAGTGTCTGTGCT
GTCTCAGGTTTGTGTTCTGTAGTACTTTAGTTT
Found at i:22302612 original size:147 final size:148
Alignment explanation
Indices: 22302235--22302655 Score: 521
Period size: 147 Copynumber: 2.9 Consensus size: 148
22302225 TTGTCTCAGT
* * *
22302235 TGTCTGCAGTTATCTGGGTTAGAGTTCCATATTTCTTTAGTTTCACTGATTGGGATAATCGAGAA
1 TGTCTGCAGTTAACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAGATTGGGATAATCGA-AA
* * * * *
22302300 -ATGGGTGGTTATGTGAAGATGCAGTCTTCAATTCAGTACGGACATTCTTTGATTGTATTGTTAG
65 GATGGTTGGTTATGTGAAGATACAGTCTTTATTTCAGTACAGACATTCTTTGATTGTATTGTTAG
* * *
22302364 TGGCATATATGTTGTATTCG
130 TGGCA-ATATGTTCTATACA
* * * * *
22302384 TGT-TTCTA-TGATA-TGGGTTTGAGTTCCATATTTCTTTTGTTTCACAGATTGAGATAACCGAA
1 TGTCTGC-AGTTA-ACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAGATTGGGATAATCGAA
* *
22302446 AGATGGTTGGTTATGTGAAGATACAGTCTTTATTTCAGTACAGACATTCTTTGATTGTGTTGTTG
64 AGATGGTTGGTTATGTGAAGATACAGTCTTTATTTCAGTACAGACATTCTTTGATTGTATTGTTA
* *
22302511 GTGGC-GTGT-TTCTATGACA
129 GTGGCAATATGTTCTAT-ACA
*
22302530 TGTCTGCAGTTAACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAAATTGGGATAATCGAAAG
1 TGTCTGCAGTTAACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAGATTGGGATAATCGAAAG
** * **
22302595 ACAGTTGGTTATCTGAAGATTTAGTCTTTATTTCAGTACAGACATTCTTTGATTGTATTGT
66 ATGGTTGGTTATGTGAAGATACAGTCTTTATTTCAGTACAGACATTCTTTGATTGTATTGT
22302656 CATGTATTGT
Statistics
Matches: 233, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
145 5 0.02
146 8 0.03
147 108 0.46
148 108 0.46
149 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.42
Consensus pattern (148 bp):
TGTCTGCAGTTAACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAGATTGGGATAATCGAAAG
ATGGTTGGTTATGTGAAGATACAGTCTTTATTTCAGTACAGACATTCTTTGATTGTATTGTTAGT
GGCAATATGTTCTATACA
Found at i:22302803 original size:172 final size:171
Alignment explanation
Indices: 22302528--22302836 Score: 469
Period size: 172 Copynumber: 1.8 Consensus size: 171
22302518 GTTTCTATGA
*
22302528 CATGTCTGCAGTTAACTGGGTTTGAGTTCCATATTTCTTTAGTTTCACAAATTGGGATAATCGAA
1 CATGTCTGCAGTTAACTGGGTTTGAGTTCCATAGTTCTTTAGTTTCACAAATTGGGATAATCGAA
* * *
22302593 AGACAGTTGGTTATCTGAAGATTTAGTCTTTATTTCAGTAC-AGACATTCTTTGATTGTATTGTC
66 AGACAGTTGGATATCTGAAGATTTAGTATTTATTTCAGTACAAGA-ATTATTTGATTGTA-TGTC
22302657 ATGTATTGTTAGTGGCATACATGTTGTGTTCATGTTTCTCCTC
129 ATGTATTGTTAGTGGCATACATGTTGTGTTCATGTTTCTCCTC
* *
22302700 CATGTCTGCAGTTATCTTGGGTTTGAGTTCCATAGTTCTTTAGTTTCACAGATTGGGA-AATCGA
1 CATGTCTGCAGTTAAC-TGGGTTTGAGTTCCATAGTTCTTTAGTTTCACAAATTGGGATAATCGA
** * * * *
22302764 AAGATGGTTGGATGTTTTAAGATTTAGTATTTATTTCAGTACAAGAATTATTTGATTTTATGTCA
65 AAGACAGTTGGATATCTGAAGATTTAGTATTTATTTCAGTACAAGAATTATTTGATTGTATGTCA
22302829 TGTATTGT
130 TGTATTGT
22302837 CAATGACATT
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
171 13 0.11
172 68 0.55
173 42 0.34
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (171 bp):
CATGTCTGCAGTTAACTGGGTTTGAGTTCCATAGTTCTTTAGTTTCACAAATTGGGATAATCGAA
AGACAGTTGGATATCTGAAGATTTAGTATTTATTTCAGTACAAGAATTATTTGATTGTATGTCAT
GTATTGTTAGTGGCATACATGTTGTGTTCATGTTTCTCCTC
Found at i:22308674 original size:6 final size:6
Alignment explanation
Indices: 22308665--22308695 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22308655 AAAAACAAAA
22308665 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
22308696 CAATGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:22320429 original size:31 final size:31
Alignment explanation
Indices: 22320393--22320461 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
22320383 CTTAACAACC
22320393 CAATAACTTAAATAAAAATTTTCGAATAGTT
1 CAATAACTTAAATAAAAATTTTCGAATAGTT
* *
22320424 CAATAACTTAAATAAAATTTTTTGAATAGTT
1 CAATAACTTAAATAAAAATTTTCGAATAGTT
22320455 CAATAAC
1 CAATAAC
22320462 ATTTTGTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (31 bp):
CAATAACTTAAATAAAAATTTTCGAATAGTT
Found at i:22331750 original size:2 final size:2
Alignment explanation
Indices: 22331743--22331787 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22331733 CAAGTCACTT
22331743 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22331785 TA T
1 TA T
22331788 CTGTGAACAN
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22339130 original size:31 final size:31
Alignment explanation
Indices: 22339086--22339156 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
22339076 AAAAAACTTT
* *
22339086 AACAAGAAGTTTACCATTCCCTGCAAGCTTGG
1 AACAATAAGTTTACCATTCCCTACAAGCTT-G
*
22339118 AA-AATAAGTTTACCATTCCCTACAATCTTG
1 AACAATAAGTTTACCATTCCCTACAAGCTTG
22339148 AACAATAAG
1 AACAATAAG
22339157 CAACACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 3 0.09
31 30 0.86
32 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (31 bp):
AACAATAAGTTTACCATTCCCTACAAGCTTG
Found at i:22340067 original size:41 final size:39
Alignment explanation
Indices: 22339970--22340075 Score: 110
Period size: 37 Copynumber: 2.7 Consensus size: 39
22339960 GATAATTCAA
* *
22339970 AGTAATAAATTGACACCTAGTGTCTCATCGGTTAAACCG
1 AGTAATAAATTGACACCCAGTGTCTCATCGATTAAACCG
* * * *
22340009 A--AGTAAATT-AGCGCCCAGTGCCTCATCGAATTAATCCGG
1 AGTAATAAATTGA-CACCCAGTGTCTCATCG-ATTAAACC-G
22340048 AGTAATAAATTGACACCCAGTGTCTCAT
1 AGTAATAAATTGACACCCAGTGTCTCAT
22340076 TGACTCGAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
36 1 0.02
37 21 0.40
38 6 0.12
39 3 0.06
41 20 0.38
42 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (39 bp):
AGTAATAAATTGACACCCAGTGTCTCATCGATTAAACCG
Found at i:22340259 original size:23 final size:24
Alignment explanation
Indices: 22340233--22340279 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
22340223 ATATATATAC
22340233 AAATTCAATCA-ATA-TAAATCAAT
1 AAATTC-ATCACATACTAAATCAAT
22340256 AAATTCATCACATACTAAATCAAT
1 AAATTCATCACATACTAAATCAAT
22340280 CTATTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 9 0.41
24 9 0.41
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATTCATCACATACTAAATCAAT
Found at i:22341116 original size:25 final size:23
Alignment explanation
Indices: 22341088--22341134 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
22341078 TAACTTTTAA
22341088 CTTTTAA-TATTATAATATTATATAT
1 CTTTTAACT-TTA-AATATT-TATAT
22341113 CTTTTAACTTTAAATATTTATA
1 CTTTTAACTTTAAATATTTATA
22341135 ATATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 6 0.29
25 10 0.48
26 1 0.05
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
CTTTTAACTTTAAATATTTATAT
Found at i:22341117 original size:32 final size:32
Alignment explanation
Indices: 22341081--22341143 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
22341071 ATATACTTAA
*
22341081 CTTTTAACTTTTAATA-TTATAATATTATATAT
1 CTTTTAACTTTAAATATTTATAATA-TATATAT
22341113 CTTTTAACTTTAAATATTTATAATATATATA
1 CTTTTAACTTTAAATATTTATAATATATATA
22341144 CATTTATGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (32 bp):
CTTTTAACTTTAAATATTTATAATATATATAT
Found at i:22342798 original size:18 final size:17
Alignment explanation
Indices: 22342777--22342840 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
22342767 TTATACTTAA
*
22342777 AAAAATTTTAATATGTT
1 AAAAATTTTAATATATT
*
22342794 CAAAATTTTAATATATTT
1 AAAAATTTTAATATA-TT
* *
22342812 AAATATATTAAGTATATT
1 AAAAATTTTAA-TATATT
22342830 AAAAATTTTAA
1 AAAAATTTTAA
22342841 ATCGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.34
18 21 0.55
19 4 0.11
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (17 bp):
AAAAATTTTAATATATT
Found at i:22342897 original size:36 final size:35
Alignment explanation
Indices: 22342857--22342946 Score: 85
Period size: 36 Copynumber: 2.5 Consensus size: 35
22342847 TATACTCAAC
22342857 ATTTTCTTTAACATATTT-AAAATTTTAATATATTTA
1 ATTTT-TTTAA-ATATTTAAAAATTTTAATATATTTA
* * ***
22342893 ATTTTTTTAAGTTTTTNNNNAATTTTAATATATTTA
1 ATTTTTTTAAATATTT-AAAAATTTTAATATATTTA
*
22342929 ATTTTTTAAAAT-TTTAAA
1 ATTTTTTTAAATATTTAAA
22342947 TATATTAAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
34 4 0.09
35 8 0.19
36 31 0.72
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.57
Consensus pattern (35 bp):
ATTTTTTTAAATATTTAAAAATTTTAATATATTTA
Found at i:22343038 original size:18 final size:17
Alignment explanation
Indices: 22342992--22343030 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22342982 AAAATATGTA
* *
22342992 TTAAGTATATTAAAATT
1 TTAAATATATTAAACTT
22343009 TTAAATATATTAAACTT
1 TTAAATATATTAAACTT
22343026 TTAAA
1 TTAAA
22343031 ATTAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAAATATATTAAACTT
Found at i:22343061 original size:42 final size:41
Alignment explanation
Indices: 22342991--22343071 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
22342981 AAAAATATGT
*
22342991 ATTAAGTATATTAAAATTTTAAATATA-TTAAACTTTTAAA
1 ATTAAGTATATTAAAATTTTAAATATATTTAAAATTTTAAA
* * *
22343031 ATTAATTATACTTAACATTTTTTAATATATTTAAAATTTTA
1 ATTAAGTATA-TTAA-AATTTTAAATATATTTAAAATTTTA
22343072 GAAAACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 9 0.26
41 4 0.12
42 11 0.32
43 10 0.29
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (41 bp):
ATTAAGTATATTAAAATTTTAAATATATTTAAAATTTTAAA
Found at i:22343064 original size:19 final size:20
Alignment explanation
Indices: 22343032--22343070 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
22343022 ACTTTTAAAA
*
22343032 TTAATTATACTTAACATTTT
1 TTAATTATACTTAAAATTTT
*
22343052 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
22343071 AGAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:22344171 original size:150 final size:151
Alignment explanation
Indices: 22343888--22344189 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 151
22343878 GTAAAGTATG
22343888 AGGAAACTTTTGTACTAAAACTTTAATTATATTTTGTTTCTTCTATTTAAAAATAAATAAATTTA
1 AGGAAACTTTTGTACTAAAACTTTAATTATATTTTGTTTCTTCTATTTAAAAATAAATAAATTTA
22343953 TCATTATATATTAAATTATAAAATAATTAAATATATGTCATGACATAGTTAATAATATAACTAAA
66 TCATTATATATTAAATTATAAAATAATTAAATATATGTCATGACATAGTTAATAATATAACTAAA
22344018 CAATGACACAGGATAATTTAT
131 CAATGACACAGGATAATTTAT
22344039 AGGAAACTTTT-TACTAAAACTTTAATTATATTTTGTTTCTTCTATTTAAAAATAAATAAATTTA
1 AGGAAACTTTTGTACTAAAACTTTAATTATATTTTGTTTCTTCTATTTAAAAATAAATAAATTTA
22344103 TCATTATATATTAAATTATAAAATAATTAAATATATGTCATGACATAGTTAATAATATAACTAAA
66 TCATTATATATTAAATTATAAAATAATTAAATATATGTCATGACATAGTTAATAATATAACTAAA
22344168 CAATGACACAGGATAATTTAT
131 CAATGACACAGGATAATTTAT
22344189 A
1 A
22344190 TGTACTTCAA
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
150 140 0.93
151 11 0.07
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (151 bp):
AGGAAACTTTTGTACTAAAACTTTAATTATATTTTGTTTCTTCTATTTAAAAATAAATAAATTTA
TCATTATATATTAAATTATAAAATAATTAAATATATGTCATGACATAGTTAATAATATAACTAAA
CAATGACACAGGATAATTTAT
Found at i:22344462 original size:20 final size:21
Alignment explanation
Indices: 22344423--22344463 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22344413 AATTAAATTG
*
22344423 TTTAAAAAAACATAATATAAT
1 TTTAAAAAAACATAAAATAAT
*
22344444 TTTAAATAAA-ATAAAATAAT
1 TTTAAAAAAACATAAAATAAT
22344464 AATTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAAAACATAAAATAAT
Found at i:22352840 original size:62 final size:63
Alignment explanation
Indices: 22352763--22352893 Score: 160
Period size: 63 Copynumber: 2.1 Consensus size: 63
22352753 GCGGTCTACA
* *
22352763 AATTTTAAGATAA-TTTTGAAAGT-TGTGTCAAAGTCGGATTTA-AGTACTGATTTCTTCATGCC
1 AATTTTAAGATAATTTTTGAAAGTCAG-GTCAAAGTCGGATTTACA-TACTGATTTATTCATGCC
* * * * *
22352825 GATTTTAAGATAATTTTTGGAAGTCAGGTCGAAGTGGGATTTACATATTGATTTATTCATGCC
1 AATTTTAAGATAATTTTTGAAAGTCAGGTCAAAGTCGGATTTACATACTGATTTATTCATGCC
22352888 AATTTT
1 AATTTT
22352894 TTAAGTGCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
62 12 0.21
63 44 0.76
64 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (63 bp):
AATTTTAAGATAATTTTTGAAAGTCAGGTCAAAGTCGGATTTACATACTGATTTATTCATGCC
Found at i:22354423 original size:29 final size:29
Alignment explanation
Indices: 22354390--22354447 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
22354380 CATTCTTTAT
*
22354390 TAATTATTCAA-T-TTTACAAAATTATAAAA
1 TAATTATTAAATTATTTA-AAAATT-TAAAA
22354419 TAATTATTAAATTATTTAAAAATTTAAAA
1 TAATTATTAAATTATTTAAAAATTTAAAA
22354448 ATTTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 15 0.58
30 7 0.27
31 4 0.15
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATTATTAAATTATTTAAAAATTTAAAA
Found at i:22355563 original size:18 final size:19
Alignment explanation
Indices: 22355540--22355578 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
22355530 ATACTAATCT
22355540 AATACTAATAGAATA-GAA
1 AATACTAATAGAATAGGAA
*
22355558 AATACTAATATAATAGGAA
1 AATACTAATAGAATAGGAA
22355577 AA
1 AA
22355579 AAAAAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (19 bp):
AATACTAATAGAATAGGAA
Found at i:22355583 original size:24 final size:24
Alignment explanation
Indices: 22355538--22355583 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22355528 TAATACTAAT
* *
22355538 CTAATACTAATAGAATAGAAAATA
1 CTAATACTAATAGAAAAAAAAATA
22355562 CTAATA-TAATAGGAAAAAAAAA
1 CTAATACTAATA-GAAAAAAAAA
22355584 GAACTGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (24 bp):
CTAATACTAATAGAAAAAAAAATA
Found at i:22360453 original size:6 final size:6
Alignment explanation
Indices: 22360442--22360485 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
22360432 GACTCTGTAT
*
22360442 CTCACA CTCACA CTCACA CTCACA CCCACA CTCACA CTCA-A CTC
1 CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTCACA CTC
22360486 CGAGTAACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCACA
Found at i:22364990 original size:28 final size:28
Alignment explanation
Indices: 22364959--22365014 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
22364949 TTTATATATG
*
22364959 AAATTTTAATTTATTGTAATTATACACA
1 AAATTTTAATTTAGTGTAATTATACACA
* *
22364987 AAATTTTGATTTAGTGTGATTATACACA
1 AAATTTTAATTTAGTGTAATTATACACA
22365015 TAAAATGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (28 bp):
AAATTTTAATTTAGTGTAATTATACACA
Found at i:22399381 original size:144 final size:143
Alignment explanation
Indices: 22399161--22399446 Score: 563
Period size: 144 Copynumber: 2.0 Consensus size: 143
22399151 TTCGCATTAT
22399161 TTCATTGAAGCAAACTCATTAAGAAAATTTACACGTGGAGCTTGGTTTCAGCATTTGAGGTAGGC
1 TTCATTGAAGCAAACTCATTAAGAAAATTTACACGTGGAGCTTGGTTTCAGCATTTGAGGTAGGC
22399226 AGGCAGGCAGCCCCCAAAGCTTCATATGTTTGGTATTTTTTTTTTTGTAATTGAAGGATTGATTT
66 AGGCAGGCAGCCCCCAAAGCTTCATATGTTTGGTA-TTTTTTTTTTGTAATTGAAGGATTGATTT
22399291 TTTTTAAAAGCATA
130 TTTTTAAAAGCATA
22399305 TTCATTGAAGCAAACTCATTAAGAAAATTTACACGTGGAGCTTGGTTTCAGCATTTGAGGTAGGC
1 TTCATTGAAGCAAACTCATTAAGAAAATTTACACGTGGAGCTTGGTTTCAGCATTTGAGGTAGGC
22399370 AGGCAGGCAGCCCCCAAAGCTTCATATGTTTGGTATTTTTTTTTTGTAATTGAAGGATTGATTTT
66 AGGCAGGCAGCCCCCAAAGCTTCATATGTTTGGTATTTTTTTTTTGTAATTGAAGGATTGATTTT
22399435 TTTTAAAAGCAT
131 TTTTAAAAGCAT
22399447 CATATTCAAG
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 42 0.30
144 100 0.70
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (143 bp):
TTCATTGAAGCAAACTCATTAAGAAAATTTACACGTGGAGCTTGGTTTCAGCATTTGAGGTAGGC
AGGCAGGCAGCCCCCAAAGCTTCATATGTTTGGTATTTTTTTTTTGTAATTGAAGGATTGATTTT
TTTTAAAAGCATA
Found at i:22399623 original size:19 final size:19
Alignment explanation
Indices: 22399599--22399635 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22399589 TCTTTTTTGC
22399599 ATACTTAATAAATAAATAA
1 ATACTTAATAAATAAATAA
22399618 ATACTTAATAAATAAATA
1 ATACTTAATAAATAAATA
22399636 TTAGGTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACTTAATAAATAAATAA
Found at i:22405751 original size:6 final size:6
Alignment explanation
Indices: 22405737--22405778 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
22405727 AAAGAAAAGC
* *
22405737 GTGAAT GTGATT GTGATT GTGATT GTGATT GTGATT GCGATT
1 GTGATT GTGATT GTGATT GTGATT GTGATT GTGATT GTGATT
22405779 TACGTTGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.45
Consensus pattern (6 bp):
GTGATT
Found at i:22406622 original size:25 final size:25
Alignment explanation
Indices: 22406589--22406636 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22406579 TCCAAATTCA
*
22406589 AATTTGGTAATAATTGATTTGAATG
1 AATTGGGTAATAATTGATTTGAATG
22406614 AATTGGGTAATAATTGATTTGAA
1 AATTGGGTAATAATTGATTTGAA
22406637 CAATCTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.42
Consensus pattern (25 bp):
AATTGGGTAATAATTGATTTGAATG
Found at i:22406699 original size:19 final size:19
Alignment explanation
Indices: 22406671--22406717 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
22406661 TTTATTTTTG
*
22406671 ATATTTTTATTATTAAAT-T
1 ATATTATTA-TATTAAATAT
*
22406690 ATATTATTATATTTAATAT
1 ATATTATTATATTAAATAT
22406709 ATATTATTA
1 ATATTATTA
22406718 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTATTATATTAAATAT
Found at i:22414714 original size:21 final size:21
Alignment explanation
Indices: 22414689--22414738 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
22414679 AAAACTTTAA
* *
22414689 AAATATTATTTTTTACACAAT
1 AAATATTATTGTTTAAACAAT
*
22414710 AAATAATATTGTTTAAACAAT
1 AAATATTATTGTTTAAACAAT
22414731 AAATATTA
1 AAATATTA
22414739 AATCTATTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATTATTGTTTAAACAAT
Found at i:22426639 original size:18 final size:18
Alignment explanation
Indices: 22426616--22426666 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
22426606 GCATATTTTC
22426616 TTTTAAAAAATAACAATT
1 TTTTAAAAAATAACAATT
* *
22426634 TTTTAATACAATTA-AATT
1 TTTTAA-AAAATAACAATT
*
22426652 ATTTAAAAAATAACA
1 TTTTAAAAAATAACA
22426667 CGTTGCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 5 0.19
18 16 0.62
19 5 0.19
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAATAACAATT
Found at i:22436461 original size:17 final size:17
Alignment explanation
Indices: 22436436--22436470 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22436426 TTCTGTTCCA
* *
22436436 AAAAGCCCATTGAAATC
1 AAAACCCCATTCAAATC
22436453 AAAACCCCATTCAAATC
1 AAAACCCCATTCAAATC
22436470 A
1 A
22436471 CAGCCCAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAACCCCATTCAAATC
Found at i:22443638 original size:11 final size:11
Alignment explanation
Indices: 22443619--22443668 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
22443609 AAATGATGGC
*
22443619 AAAATAATAAT
1 AAAACAATAAT
* *
22443630 ATAACAATAGT
1 AAAACAATAAT
*
22443641 AAAACAATGAT
1 AAAACAATAAT
*
22443652 ATAACAATAAT
1 AAAACAATAAT
22443663 AAAACA
1 AAAACA
22443669 TGTAAAGAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (11 bp):
AAAACAATAAT
Found at i:22443644 original size:22 final size:22
Alignment explanation
Indices: 22443619--22443668 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
22443609 AAATGATGGC
* *
22443619 AAAATAATAATATAACAATAGT
1 AAAACAATAATATAACAATAAT
*
22443641 AAAACAATGATATAACAATAAT
1 AAAACAATAATATAACAATAAT
22443663 AAAACA
1 AAAACA
22443669 TGTAAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAACAATAATATAACAATAAT
Found at i:22447679 original size:6 final size:6
Alignment explanation
Indices: 22447668--22447703 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
22447658 AATACATATA
22447668 GATACT GATACT GATACT GATACT GATACT GATACT
1 GATACT GATACT GATACT GATACT GATACT GATACT
22447704 ATTACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
GATACT
Found at i:22449376 original size:56 final size:57
Alignment explanation
Indices: 22449257--22449378 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 57
22449247 CATAAGTGAT
*
22449257 GAAGGTTATAATTTTTTCATTAATTTTGTGTACAACCTTAAGCAAACCTCAAGCAAC
1 GAAGGTTATAATTTTTTCATTAATTTTGTGTACAACCTTAAACAAACCTCAAGCAAC
** *
22449314 -AGAGGTTATAA-TTTTTCATTAATTTTGTGTGTAACCTTAAACAAACCGT-AAGTAAC
1 GA-AGGTTATAATTTTTTCATTAATTTTGTGTACAACCTTAAACAAACC-TCAAGCAAC
22449370 GAAGGTTAT
1 GAAGGTTAT
22449379 GAAATTTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
56 47 0.81
57 11 0.19
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (57 bp):
GAAGGTTATAATTTTTTCATTAATTTTGTGTACAACCTTAAACAAACCTCAAGCAAC
Found at i:22449407 original size:7 final size:7
Alignment explanation
Indices: 22449388--22449421 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
22449378 TGAAATTTTA
22449388 AAATAAT
1 AAATAAT
22449395 -AATAAT
1 AAATAAT
22449401 AAATAAT
1 AAATAAT
22449408 AAATAAT
1 AAATAAT
22449415 AAATAAT
1 AAATAAT
22449422 TATCATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATAAT
Found at i:22451812 original size:18 final size:18
Alignment explanation
Indices: 22451786--22451826 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
22451776 TTTTATTTAT
*
22451786 TTATCTAAGTATGAAAAG
1 TTATATAAGTATGAAAAG
22451804 TTATATAAGTATGAAAAG
1 TTATATAAGTATGAAAAG
22451822 TTATA
1 TTATA
22451827 AAATTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (18 bp):
TTATATAAGTATGAAAAG
Found at i:22452277 original size:54 final size:54
Alignment explanation
Indices: 22452200--22452303 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
22452190 TTTGTTGAGG
* * *
22452200 GTTAAATTCGTTTTAGAATCAAGATTAAATTGACATAATTTATAAATGTTGATA
1 GTTAAATTCGTTTCAGAACCAAGAATAAATTGACATAATTTATAAATGTTGATA
22452254 GTTAAATTCGTTTCAGAACCAAGAATAAATTGACATAATTTATAAATGTT
1 GTTAAATTCGTTTCAGAACCAAGAATAAATTGACATAATTTATAAATGTT
22452304 AACGGTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (54 bp):
GTTAAATTCGTTTCAGAACCAAGAATAAATTGACATAATTTATAAATGTTGATA
Found at i:22462042 original size:140 final size:140
Alignment explanation
Indices: 22461790--22462069 Score: 560
Period size: 140 Copynumber: 2.0 Consensus size: 140
22461780 ATTTTTTTTT
22461790 ATCATCATCACGAGGGTGACATTAGTTCATATGAGCACAGTACGAATGGTGTTAAATATTCTTTT
1 ATCATCATCACGAGGGTGACATTAGTTCATATGAGCACAGTACGAATGGTGTTAAATATTCTTTT
22461855 TGTTTAGCGGGTTTTAGAGGTATGTGAATGAATATTTAAATAAAAATTAAATTTTTTAGAAACAG
66 TGTTTAGCGGGTTTTAGAGGTATGTGAATGAATATTTAAATAAAAATTAAATTTTTTAGAAACAG
22461920 AATTAAATTG
131 AATTAAATTG
22461930 ATCATCATCACGAGGGTGACATTAGTTCATATGAGCACAGTACGAATGGTGTTAAATATTCTTTT
1 ATCATCATCACGAGGGTGACATTAGTTCATATGAGCACAGTACGAATGGTGTTAAATATTCTTTT
22461995 TGTTTAGCGGGTTTTAGAGGTATGTGAATGAATATTTAAATAAAAATTAAATTTTTTAGAAACAG
66 TGTTTAGCGGGTTTTAGAGGTATGTGAATGAATATTTAAATAAAAATTAAATTTTTTAGAAACAG
22462060 AATTAAATTG
131 AATTAAATTG
22462070 GCAAATTTTG
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (140 bp):
ATCATCATCACGAGGGTGACATTAGTTCATATGAGCACAGTACGAATGGTGTTAAATATTCTTTT
TGTTTAGCGGGTTTTAGAGGTATGTGAATGAATATTTAAATAAAAATTAAATTTTTTAGAAACAG
AATTAAATTG
Found at i:22462872 original size:36 final size:36
Alignment explanation
Indices: 22462824--22462894 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
22462814 ATCAAAGGCT
*
22462824 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
22462860 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
22462895 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:22469798 original size:22 final size:23
Alignment explanation
Indices: 22469772--22469814 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22469762 ATTTAGAATT
*
22469772 TAAAC-TAAAATGATAAATTTTG
1 TAAACATAAAAGGATAAATTTTG
*
22469794 TAAACATTAAAGGATAAATTT
1 TAAACATAAAAGGATAAATTT
22469815 GTTGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TAAACATAAAAGGATAAATTTTG
Found at i:22470327 original size:35 final size:35
Alignment explanation
Indices: 22470278--22470347 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
22470268 ACTCAACCCT
22470278 TGCAATCGGCAGTCAGTCGCGCAACTCGCAAGCAG
1 TGCAATCGGCAGTCAGTCGCGCAACTCGCAAGCAG
* * *
22470313 TGCAATCGGTAGTCAGTTGCGCAGCTCGCAAGCAG
1 TGCAATCGGCAGTCAGTCGCGCAACTCGCAAGCAG
22470348 CAAGTTCGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.17
Consensus pattern (35 bp):
TGCAATCGGCAGTCAGTCGCGCAACTCGCAAGCAG
Found at i:22473252 original size:4 final size:4
Alignment explanation
Indices: 22473243--22473430 Score: 376
Period size: 4 Copynumber: 47.0 Consensus size: 4
22473233 GAATCCAGTT
22473243 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22473291 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22473339 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22473387 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22473431 TGAGGGAGAT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 184 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:22485404 original size:21 final size:21
Alignment explanation
Indices: 22485380--22485421 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22485370 AGAATTTCAC
22485380 GTGTCCGGTTCAG-TTCTTTTA
1 GTGTCCGGTTCAGATT-TTTTA
22485401 GTGTCCGGTTCAGATTTTTTA
1 GTGTCCGGTTCAGATTTTTTA
22485422 TGCTGCAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.12, C:0.17, G:0.24, T:0.48
Consensus pattern (21 bp):
GTGTCCGGTTCAGATTTTTTA
Found at i:22486569 original size:40 final size:40
Alignment explanation
Indices: 22486514--22486717 Score: 390
Period size: 40 Copynumber: 5.1 Consensus size: 40
22486504 TTACTGCATC
22486514 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
22486554 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
22486594 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
22486634 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
* *
22486674 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGGTGGGAGT
1 TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
22486714 TGTG
1 TGTG
22486718 ACGCACGTAG
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 162 1.00
ACGTcount: A:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (40 bp):
TGTGTTGGCTTGATTTTGGTTCTAGGAACCCGATGGGTGT
Found at i:22501822 original size:40 final size:40
Alignment explanation
Indices: 22501777--22501887 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
22501767 GTTTGGATAA
*
22501777 AAAACGCCGCTAAAGATCGAGCATTTGCGGCGCTTTATGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATGG
* *
22501817 AAAACGCCGCTAAAGATCGAGCATTAGTGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATGG
* * * *
22501857 AAAACTCCGCTAAAAAT-AAGCACTAGCGGCG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCG
22501888 TTTTCCAGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 11 0.17
40 52 0.83
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATGG
Found at i:22502421 original size:49 final size:50
Alignment explanation
Indices: 22502368--22502462 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 50
22502358 ATGTTTATTA
* * * *
22502368 TTTTGGGATTAGAGTTT-TGAGTTTAGGGTTTATGATGTA-GGTTTAGTG
1 TTTTTGGATTAGAGTTTGAGAGTTTAAGGTTTAAGATGTAGGGTTTAGTG
* * *
22502416 TTTTTGGTTTAGGGTTTGAGAGTTTAAGGTTTAAGATTTAGGGTTTA
1 TTTTTGGATTAGAGTTTGAGAGTTTAAGGTTTAAGATGTAGGGTTTA
22502463 AAGTTTGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 14 0.37
49 18 0.47
50 6 0.16
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (50 bp):
TTTTTGGATTAGAGTTTGAGAGTTTAAGGTTTAAGATGTAGGGTTTAGTG
Found at i:22502460 original size:14 final size:15
Alignment explanation
Indices: 22502422--22502468 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
22502412 AGTGTTTTTG
*
22502422 GTTTAGGGTTTGAGA
1 GTTTAGGGTTTAAGA
*
22502437 GTTTAAGGTTTAAGA
1 GTTTAGGGTTTAAGA
22502452 -TTTAGGGTTTAA-A
1 GTTTAGGGTTTAAGA
22502465 GTTT
1 GTTT
22502469 GGGCCGGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 1 0.04
14 14 0.50
15 13 0.46
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTAGGGTTTAAGA
Found at i:22504050 original size:122 final size:122
Alignment explanation
Indices: 22503820--22504064 Score: 402
Period size: 122 Copynumber: 2.0 Consensus size: 122
22503810 CAACTGCTTT
* *
22503820 CCCTGACATACAACATTAGGATTCTATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
* * *
22503885 CTTGAAAACTGGGAATCTAAGCTCAGAATTTGTGAATGGATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGAATGGATCAAGTGGCACCTCATA
* *
22503942 CCCTTACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
*
22504007 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACA-GTATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGA-ATGGATCAAGTGGCACCTCATA
22504064 C
1 C
22504065 AGCATGCATC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
122 113 0.99
123 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTCAGCATTGA
CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGAATGGATCAAGTGGCACCTCATA
Found at i:22505927 original size:15 final size:16
Alignment explanation
Indices: 22505904--22505934 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22505894 ATTTATCATA
22505904 GAAATAAAATTTATTT
1 GAAATAAAATTTATTT
22505920 GAAA-AAAATTTATTT
1 GAAATAAAATTTATTT
22505935 TTTTAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
GAAATAAAATTTATTT
Found at i:22506049 original size:43 final size:43
Alignment explanation
Indices: 22505952--22506164 Score: 243
Period size: 43 Copynumber: 5.0 Consensus size: 43
22505942 GATATGTTTT
* * * *
22505952 TAGCGGCGTTTGTGTGAAAAGTGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* *
22505994 TAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* *
22506037 TAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
22506080 TAGCGGCGTTTGTGGGATAAGCGCCGCT-AAAGATCTTGATCTG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-TCATGATCTA
* * * * * *
22506123 TAGCGACGTTTGT-GTAAAAGTGCTGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
22506165 AAGATCTTGA
Statistics
Matches: 146, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 53 0.36
43 93 0.64
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:22506102 original size:86 final size:84
Alignment explanation
Indices: 22505952--22506164 Score: 268
Period size: 85 Copynumber: 2.5 Consensus size: 84
22505942 GATATGTTTT
* * *
22505952 TAGCGGCGTTTGTGTGAAAAGTGCCGCTAAAGGTCTGTTCTATAGCTGCGTTTGTGGGAAAAGCG
1 TAGC-GCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
22506017 CCGCTAAA-AGTCATGACCTA
65 CCGCTAAAGA-TCATGACCTA
* *
22506037 TAGCAGCGTTTGTGGGAAAAGTGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGATAAGC
1 TAGC-GCGTTTGTGGGAAAAGTGCCGCTAAAGGTC-TGATCTATAGCGGCGTTTGTGGGAAAAGC
* * *
22506102 GCCGCTAAAGATCTTGATCTG
64 GCCGCTAAAGATCATGACCTA
* *
22506123 TAGCGACGTTTGT-GTAAAAGTGCTGCTAAAGGTCCTGATCTA
1 TAGCG-CGTTTGTGGGAAAAGTGCCGCTAAAGGT-CTGATCTA
22506165 AAGATCTTGA
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
85 57 0.51
86 54 0.48
87 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (84 bp):
TAGCGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
CGCTAAAGATCATGACCTA
Found at i:22506513 original size:14 final size:14
Alignment explanation
Indices: 22506494--22506533 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
22506484 TTGATTGGCA
22506494 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
22506508 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
22506522 GGAAAATGTTTT
1 GTAAAATGTTTT
22506534 ACATTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:22506555 original size:20 final size:20
Alignment explanation
Indices: 22506516--22506555 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22506506 CCGTAAAATG
**
22506516 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGACTTAC
*
22506536 ATTTCTGTAAAATGACTTAC
1 ATTTCTGGAAAATGACTTAC
22506556 TGGAAAATGT
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:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGACTTAC
Found at i:22506563 original size:35 final size:34
Alignment explanation
Indices: 22506503--22506568 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
22506493 AGTAAAATGT
*
22506503 TTTCCGTAAAATGATTTCTGGAAAATGTTTTACA
1 TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
*
22506537 TTTCTGTAAAATGACTTACTGGAAAATGTTTT
1 TTTCCGTAAAATGA-TTACTGGAAAATGTTTT
22506569 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
Found at i:22507126 original size:120 final size:120
Alignment explanation
Indices: 22506913--22507493 Score: 1162
Period size: 120 Copynumber: 4.8 Consensus size: 120
22506903 ATTGCTTTGA
22506913 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
1 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
22506978 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
66 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
22507033 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
1 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
22507098 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
66 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
22507153 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
1 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
22507218 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
66 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
22507273 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
1 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
22507338 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
66 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
22507393 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
1 CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
22507458 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTT
66 GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTT
22507494 GAAGAAGAAG
Statistics
Matches: 461, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 461 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.35
Consensus pattern (120 bp):
CTCCTAACCAATTGCTTTGACTCTCATTCCCACTTCTATTTTCAGACTGCCCTCTTCTATTATCA
GAGAACAAAAGAGAGCAATTATCAGACTGCCCTCTTCTATTTTCACCTTCTTCAT
Found at i:22507520 original size:18 final size:18
Alignment explanation
Indices: 22507494--22507538 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
22507484 CTGCCCTCTT
*
22507494 GAAGAAGAAGGGGGAAGG
1 GAAGAAGAAGGGGAAAGG
*
22507512 GAAGGAGAAGGGGAAAGG
1 GAAGAAGAAGGGGAAAGG
*
22507530 GGAGAAGAA
1 GAAGAAGAA
22507539 TGGGTCATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGGGGAAAGG
Found at i:22507803 original size:15 final size:16
Alignment explanation
Indices: 22507783--22507812 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22507773 TATAAGGGAA
22507783 TAAATATATT-TTTAT
1 TAAATATATTATTTAT
22507798 TAAATATATTATTTA
1 TAAATATATTATTTA
22507813 AATTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAAATATATTATTTAT
Found at i:22514535 original size:11 final size:11
Alignment explanation
Indices: 22514521--22514545 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22514511 AAAAAAATGT
22514521 AAATAAAAATA
1 AAATAAAAATA
22514532 AAATAAAAATA
1 AAATAAAAATA
22514543 AAA
1 AAA
22514546 ACGACACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:22515884 original size:19 final size:20
Alignment explanation
Indices: 22515860--22515898 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22515850 AGTTTATTTT
22515860 TTTCTCAAT-AAAGGGAAAG
1 TTTCTCAATAAAAGGGAAAG
22515879 TTTCTCAATAAAAGGGAAAG
1 TTTCTCAATAAAAGGGAAAG
22515899 AAAAACGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TTTCTCAATAAAAGGGAAAG
Found at i:22523441 original size:22 final size:22
Alignment explanation
Indices: 22523413--22523455 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22523403 TTTTGTTGTT
22523413 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTTTGTTATTATA
* *
22523435 TTGCTACTATTTTGTTGTTAT
1 TTGCTACCATTTTGTTATTAT
22523456 TGTTTGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTGTTATTATA
Found at i:22534834 original size:24 final size:24
Alignment explanation
Indices: 22534790--22534837 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22534780 AATAGCTCCA
* *
22534790 AAGAGCAATTAATGAGTAGCACCG
1 AAGAGCAATTAACGAGAAGCACCG
*
22534814 AAGAGCAATTAACGGGAAGCACCG
1 AAGAGCAATTAACGAGAAGCACCG
22534838 GATAGCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (24 bp):
AAGAGCAATTAACGAGAAGCACCG
Found at i:22534929 original size:26 final size:25
Alignment explanation
Indices: 22534871--22534930 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
22534861 AAGCGAGCAC
*
22534871 TAACGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTA
*
22534896 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCC-TA
22534923 TAACGGGA
1 TAACGGGA
22534931 CGTTCATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTA
Found at i:22539336 original size:23 final size:23
Alignment explanation
Indices: 22539292--22539336 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
22539282 AAGTATTTTG
* *
22539292 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
22539315 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
22539337 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:22541423 original size:21 final size:21
Alignment explanation
Indices: 22541390--22541431 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22541380 TTCTCCTTCA
* *
22541390 ACTTCCTATAATATATTATCT
1 ACTTCCTAAAATAGATTATCT
*
22541411 ACTTTCTAAAATAGATTATCT
1 ACTTCCTAAAATAGATTATCT
22541432 CATAATCTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
ACTTCCTAAAATAGATTATCT
Found at i:22543987 original size:29 final size:29
Alignment explanation
Indices: 22543949--22544020 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
22543939 AAAGATTATA
22543949 CAGTTCGATTAATTCAGTTAATGCTAGTT
1 CAGTTCGATTAATTCAGTTAATGCTAGTT
*
22543978 CAGTTCGATTAATTTAGTTAATGCTAGTT
1 CAGTTCGATTAATTCAGTTAATGCTAGTT
*
22544007 CGGTTCGATTAATT
1 CAGTTCGATTAATT
22544021 ACCGAACTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (29 bp):
CAGTTCGATTAATTCAGTTAATGCTAGTT
Found at i:22568676 original size:22 final size:22
Alignment explanation
Indices: 22568636--22568677 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22568626 GCCTTTGCAG
**
22568636 CGAAAATAATATTGGATAATGA
1 CGAAAATAATATTAAATAATGA
*
22568658 CGAAATTAATATTAAATAAT
1 CGAAAATAATATTAAATAAT
22568678 AAGCTTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (22 bp):
CGAAAATAATATTAAATAATGA
Found at i:22570901 original size:21 final size:22
Alignment explanation
Indices: 22570857--22570902 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
22570847 TTAGTGCTTG
*
22570857 AATTTTAATTAAAATATATGTTA
1 AATTTTAAGTAAAATATA-GTTA
22570880 AATTTTAAGTAAAATATA-TTA
1 AATTTTAAGTAAAATATAGTTA
22570901 AA
1 AA
22570903 AACATAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
23 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AATTTTAAGTAAAATATAGTTA
Found at i:22571854 original size:22 final size:23
Alignment explanation
Indices: 22571822--22571875 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
22571812 TATACTTAGA
* *
22571822 TGCCTATTGTTCAA-CACATCAG
1 TGCCTACTGTTAAAGCACATCAG
* *
22571844 TGCCTACTGTTAAAGCACTTCGG
1 TGCCTACTGTTAAAGCACATCAG
22571867 TGCCTACTG
1 TGCCTACTG
22571876 GTGTGGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (23 bp):
TGCCTACTGTTAAAGCACATCAG
Found at i:22579104 original size:46 final size:45
Alignment explanation
Indices: 22579052--22579191 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 45
22579042 CCCTTCTCAC
*
22579052 ATACTACACTCTTTCTCGCGTGTTCTTAGGTATTAAAAAACTTAAA
1 ATACTAC-CTCTTTCTCACGTGTTCTTAGGTATTAAAAAACTTAAA
* *
22579098 ATACTACCTTCTTTCTCACATGTTTTTAGGTATTAAAAAACTTAAA
1 ATACTACC-TCTTTCTCACGTGTTCTTAGGTATTAAAAAACTTAAA
* * * * **
22579144 ATGCCATTCTCTTTCTCACGTATTCTTAAATATTAAAAAACTTAAA
1 ATACTA-CCTCTTTCTCACGTGTTCTTAGGTATTAAAAAACTTAAA
22579190 AT
1 AT
22579192 TACTCTTTTG
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 79 0.98
47 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (45 bp):
ATACTACCTCTTTCTCACGTGTTCTTAGGTATTAAAAAACTTAAA
Found at i:22587994 original size:21 final size:23
Alignment explanation
Indices: 22587950--22587994 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
22587940 AGTGGTTGAT
*
22587950 TTTTTGAATATTTTTATTAATTA
1 TTTTTGAATATTTTTATGAATTA
*
22587973 TTTTT-AA-ATTTTTATGACTTA
1 TTTTTGAATATTTTTATGAATTA
22587994 T
1 T
22587995 ACGTGGACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTTGAATATTTTTATGAATTA
Found at i:22592425 original size:72 final size:72
Alignment explanation
Indices: 22592311--22592481 Score: 200
Period size: 72 Copynumber: 2.4 Consensus size: 72
22592301 AAAGCGCCGC
* * * * *
22592311 AAAAACCAAAGCCCAACGATGCCGTTTCTGAGCTTTTGGGGATTTAGCGACGTTTTTAATCAAGC
1 AAAAACCTAAGCCAAACGGTGCCGTTTCCGAGCTTTTGGGGATTTAGCGACGTTTTTAAGCAAGC
22592376 GCCACTA
66 GCCACTA
* * * * ** *
22592383 ATAATCCTAAGCCAAACGGTGCCGTTTCCGTAG-TTTTTGGGATTTAGCGGCGTTTTTTGGGAAG
1 AAAAACCTAAGCCAAACGGTGCCGTTTCCG-AGCTTTTGGGGATTTAGCGACGTTTTTAAGCAAG
*
22592447 CGCCGCTA
65 CGCCACTA
*
22592455 AAAAACCTAAGCCAAACGGTGTCGTTT
1 AAAAACCTAAGCCAAACGGTGCCGTTT
22592482 TCTCAGCTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 80 0.98
73 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (72 bp):
AAAAACCTAAGCCAAACGGTGCCGTTTCCGAGCTTTTGGGGATTTAGCGACGTTTTTAAGCAAGC
GCCACTA
Found at i:22593051 original size:7 final size:7
Alignment explanation
Indices: 22593041--22593094 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
22593031 GATTTAAAGT
22593041 TTAGGGG
1 TTAGGGG
*
22593048 TTAGGTG
1 TTAGGGG
* **
22593055 TTATGCT
1 TTAGGGG
22593062 TTAGGGG
1 TTAGGGG
22593069 TTAGGGG
1 TTAGGGG
22593076 TTAGGGG
1 TTAGGGG
22593083 ATTTAGGGG
1 --TTAGGGG
22593092 TTA
1 TTA
22593095 CAGTTAGGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 31 0.82
9 7 0.18
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:22593267 original size:20 final size:20
Alignment explanation
Indices: 22593244--22593292 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22593234 GTGTTAGAGA
22593244 TTGAGTTTGGGGTTTAAGGT
1 TTGAGTTTGGGGTTTAAGGT
* *
22593264 TTGAGTTTAGGGTTTTAGGGT
1 TTGAGTTT-GGGGTTTAAGGT
22593285 TT-AGTTTG
1 TTGAGTTTG
22593293 AAAATTGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 13 0.50
21 12 0.46
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (20 bp):
TTGAGTTTGGGGTTTAAGGT
Found at i:22593445 original size:7 final size:6
Alignment explanation
Indices: 22593423--22593510 Score: 68
Period size: 7 Copynumber: 13.0 Consensus size: 6
22593413 CAAAAAATAG
22593423 GGTTTA GGTTTA GGTTTA CGGTTTA GGGTTTA CGGTTTA GAGTTTA GAGTTTTA
1 GGTTTA GGTTTA GGTTTA -GGTTTA -GGTTTA -GGTTTA G-GTTTA G-G-TTTA
* *
22593477 GGTTTGG GGTTTA GGATTTA TGATTTAA GGTTTA
1 GGTTT-A GGTTTA GG-TTTA -GGTTT-A GGTTTA
22593511 TGGTATATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
6 19 0.28
7 43 0.62
8 7 0.10
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (6 bp):
GGTTTA
Found at i:22593454 original size:14 final size:14
Alignment explanation
Indices: 22593420--22593468 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
22593410 TTCCAAAAAA
22593420 TAGGGTTTA-GGTT
1 TAGGGTTTACGGTT
22593433 TA-GGTTTACGGTT
1 TAGGGTTTACGGTT
22593446 TAGGGTTTACGGTT
1 TAGGGTTTACGGTT
*
22593460 TAGAGTTTA
1 TAGGGTTTA
22593469 GAGTTTTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 6 0.18
13 8 0.24
14 19 0.58
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (14 bp):
TAGGGTTTACGGTT
Found at i:22593461 original size:21 final size:19
Alignment explanation
Indices: 22593420--22593510 Score: 83
Period size: 21 Copynumber: 4.5 Consensus size: 19
22593410 TTCCAAAAAA
22593420 TAGGGTTTAGGTTTAGGTT
1 TAGGGTTTAGGTTTAGGTT
*
22593439 TACGGTTTAGGGTTTACGGTT
1 TAGGGTTTA-GGTTTA-GGTT
*
22593460 TAGAGTTTAGAGTTTTAGGTT
1 TAGGGTTTAG-G-TTTAGGTT
* *
22593481 TGGGGTTTAGGATTTATGATT
1 TAGGGTTTAGG-TTTA-GGTT
*
22593502 TAAGGTTTA
1 TAGGGTTTA
22593511 TGGTATATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 8 0.14
20 12 0.21
21 34 0.59
22 4 0.07
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (19 bp):
TAGGGTTTAGGTTTAGGTT
Found at i:22593566 original size:15 final size:15
Alignment explanation
Indices: 22593548--22593611 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
22593538 GTTGGTTGTT
22593548 GGTTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
22593563 GG-TTTAGGGTTTAAG
1 GGTTTTAGGGTTT-AG
*
22593578 GG-TTTAGTGGCTTAG
1 GGTTTTAG-GGTTTAG
*
22593593 GATTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
22593608 GGTT
1 GGTT
22593612 AGATTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 10 0.24
15 23 0.55
16 9 0.21
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.44
Consensus pattern (15 bp):
GGTTTTAGGGTTTAG
Found at i:22593579 original size:8 final size:7
Alignment explanation
Indices: 22593551--22593611 Score: 77
Period size: 7 Copynumber: 8.3 Consensus size: 7
22593541 GGTTGTTGGT
22593551 TTTAGGG
1 TTTAGGG
22593558 TTTAGGG
1 TTTAGGG
22593565 TTTAGGG
1 TTTAGGG
22593572 TTTAAGGG
1 TTT-AGGG
22593580 TTTAGTGG
1 TTTAG-GG
* *
22593588 CTTAGGAT
1 TTTAGG-G
22593596 TTTAGGG
1 TTTAGGG
22593603 TTTAGGG
1 TTTAGGG
22593610 TT
1 TT
22593612 AGATTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 29 0.62
8 18 0.38
ACGTcount: A:0.16, C:0.02, G:0.38, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:22593667 original size:15 final size:16
Alignment explanation
Indices: 22593649--22593681 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22593639 AGATAAATAT
*
22593649 AAAATA-TTATTTCAA
1 AAAATATTTATATCAA
22593664 AAAATATTTATATCAA
1 AAAATATTTATATCAA
22593680 AA
1 AA
22593682 TGGGTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATTTATATCAA
Found at i:22594140 original size:115 final size:114
Alignment explanation
Indices: 22594011--22594250 Score: 372
Period size: 115 Copynumber: 2.1 Consensus size: 114
22594001 GGCGCTTCAG
* * ** ** *
22594011 AAAAAATGCCGCTAAAGGTCATATATTACCGGCGTTTTTTGAAGAAACGCCGTAAATTTCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
22594076 ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTT
66 ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCA-TT
* *
22594126 AAAAAACGCCGCTAAAAGTGATATGTTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
1 AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
*
22594191 ACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
66 ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
22594240 ATAAAAACGCC
1 A-AAAAACGCC
22594251 ACAAATATTT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 3 0.03
115 111 0.97
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (114 bp):
AAAAAACGCCGCTAAAAGTCATATATTACCGGCGTTTTACGAAGAAACGCCACAAATTGCCTTTA
ACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATT
Found at i:22594582 original size:261 final size:261
Alignment explanation
Indices: 22594112--22594642 Score: 875
Period size: 261 Copynumber: 2.0 Consensus size: 261
22594102 TTGTTTTCTT
* *
22594112 TTAGTGGCGCATTTAAAAAACGCCGCTAAAAGTGATATGTTACCGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATAAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
*
22594177 ACAAATTGCCTTTAACTGTGACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
66 ACAAATTGCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
* *
22594242 AAAAACGCCACAAATATTTATTACGAGCTGAGGAAACGGCGTCGTTTCCTATTTTTATTAGTGGC
131 AAAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGC
* *
22594307 GCTTTAGCTAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAAC-AGTGCCGTTTTGTCCTTGT
196 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGA-TGCCGTTTTGTCCGTGT
22594371 TA
260 TA
* * *
22594373 TTAGTGGCGCATATGAAAAACGCCGCTAAAGGTGATATATTACTGGCGTTTTACGAAGAAACGCC
1 TTAGTGGCGCATATAAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
* * * ** * *
22594438 ACAAATTTCGTTTAACTGTAACGAAGACGGTGTTGTTTTGTTTTTTTCTTTTAGTGGCGCATTTT
66 ACAAATTGCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
*
22594503 AAAAACGCCACAAATATTTACTACGAGCTGAGGAAATGGCGCCGTTTCCTATTTTTATTAGTGGC
131 AAAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGC
*
22594568 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATGACGATGCCGTTTTGTCCGTGTT
196 GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGATGCCGTTTTGTCCGTGTT
22594633 A
261 A
22594634 TTAGTGGCG
1 TTAGTGGCG
22594643 TTTTTACTCT
Statistics
Matches: 250, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
261 249 1.00
262 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (261 bp):
TTAGTGGCGCATATAAAAAACGCCGCTAAAAGTGATATATTACCGGCGTTTTACGAAGAAACGCC
ACAAATTGCCTTTAACTGTAACAAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTAT
AAAAACGCCACAAATATTTACTACGAGCTGAGGAAACGGCGCCGTTTCCTATTTTTATTAGTGGC
GCTTTAGATAAAGCGCCGCAAAAATGTTTAATGTTATCTTATAACGATGCCGTTTTGTCCGTGTT
A
Found at i:22596771 original size:9 final size:9
Alignment explanation
Indices: 22596757--22597700 Score: 390
Period size: 9 Copynumber: 103.6 Consensus size: 9
22596747 TTTAATTTAA
*
22596757 TACATAATT
1 TACATAACT
22596766 TACATAACT
1 TACATAACT
*
22596775 CACATAACT
1 TACATAACT
* *
22596784 TACAAAAGT
1 TACATAACT
* *
22596793 CACAT-ACA
1 TACATAACT
22596801 TACATAACT
1 TACATAACT
*
22596810 TA-ATAAAT
1 TACATAACT
*
22596818 GGTACATAGCT
1 --TACATAACT
*
22596829 TATATAACT
1 TACATAACT
22596838 TACATAA--
1 TACATAACT
22596845 TACATAACT
1 TACATAACT
* *
22596854 TAAATAA-A
1 TACATAACT
22596862 TACATAACT
1 TACATAACT
**
22596871 TATTTAA--
1 TACATAACT
*
22596878 TACATTACT
1 TACATAACT
22596887 TACATAATAACT
1 TAC---ATAACT
*
22596899 TACATAGCT
1 TACATAACT
*
22596908 TATATAACT
1 TACATAACT
22596917 TACATAACT
1 TACATAACT
*
22596926 TATATAACT
1 TACATAACT
22596935 TACAT-AC-
1 TACATAACT
*
22596942 TCCATAACT
1 TACATAACT
*
22596951 TACATAATT
1 TACATAACT
*
22596960 TACTTAA--
1 TACATAACT
22596967 TACATAA-T
1 TACATAACT
* *
22596975 CAACATATATT
1 -TACATA-ACT
*
22596986 ATATCTTAACT
1 -TA-CATAACT
22596997 TACATAATAACT
1 TAC---ATAACT
*
22597009 TACATAGCT
1 TACATAACT
*
22597018 TATATAACT
1 TACATAACT
22597027 TACATAACT
1 TACATAACT
*
22597036 TATATAACT
1 TACATAACT
22597045 TACAT-AC-
1 TACATAACT
*
22597052 TCCATAACT
1 TACATAACT
*
22597061 TACATAATT
1 TACATAACT
*
22597070 TACTTAA--
1 TACATAACT
22597077 TACATAA-T
1 TACATAACT
* *
22597085 CAACATATATT
1 -TACATA-ACT
*
22597096 ATATCTTAACT
1 -TA-CATAACT
22597107 TACATAATAACT
1 TAC---ATAACT
*
22597119 TACATAGCT
1 TACATAACT
*
22597128 TATATAACT
1 TACATAACT
22597137 TACATAACT
1 TACATAACT
*
22597146 TATATAACT
1 TACATAACT
22597155 TACAT-AC-
1 TACATAACT
*
22597162 TCCATAACT
1 TACATAACT
*
22597171 TACATAATT
1 TACATAACT
*
22597180 TACTTAA--
1 TACATAACT
22597187 TACATAA-T
1 TACATAACT
* *
22597195 CAACATATATT
1 -TACATA-ACT
*
22597206 ATATCTTAACT
1 -TA-CATAACT
22597217 TACATAATAACT
1 TAC---ATAACT
*
22597229 TACATAGCT
1 TACATAACT
*
22597238 TATATAACT
1 TACATAACT
22597247 TACATAACT
1 TACATAACT
*
22597256 TATATAACT
1 TACATAACT
22597265 TACAT-AC-
1 TACATAACT
*
22597272 TCCATAACT
1 TACATAACT
*
22597281 TACATAATT
1 TACATAACT
*
22597290 TACTTAA--
1 TACATAACT
22597297 TACATAA-T
1 TACATAACT
* *
22597305 CAACATATATT
1 -TACATA-ACT
*
22597316 ATATCTTAACT
1 -TA-CATAACT
22597327 TACATAATAACT
1 TAC---ATAACT
*
22597339 TACATAGCT
1 TACATAACT
*
22597348 TATATAACT
1 TACATAACT
22597357 TACATAACT
1 TACATAACT
*
22597366 TATATAACT
1 TACATAACT
22597375 TACAT-AC-
1 TACATAACT
*
22597382 TCCATAACT
1 TACATAACT
*
22597391 TACATAATT
1 TACATAACT
*
22597400 TACTTAA--
1 TACATAACT
22597407 TACATAA-T
1 TACATAACT
* *
22597415 CAACATATATT
1 -TACATA-ACT
*
22597426 ATATCTTAACT
1 -TA-CATAACT
22597437 TACATAATAACT
1 TAC---ATAACT
*
22597449 TACATAGCT
1 TACATAACT
* *
22597458 TATAATAACC
1 TA-CATAACT
22597468 TACATAACT
1 TACATAACT
22597477 TACATAACT
1 TACATAACT
22597486 TACATAA--
1 TACATAACT
22597493 TACATAACT
1 TACATAACT
*
22597502 TACATATCT
1 TACATAACT
**
22597511 TTTAT-ACTAT
1 TACATAAC--T
22597521 ATACATAACT
1 -TACATAACT
*
22597531 TACATAATT
1 TACATAACT
*
22597540 TACTTAA--
1 TACATAACT
22597547 TACATAA-T
1 TACATAACT
* *
22597555 CAACATATATT
1 -TACATA-ACT
*
22597566 ATATCTTAACT
1 -TA-CATAACT
22597577 TACATAATAACT
1 TAC---ATAACT
*
22597589 TACATAGCT
1 TACATAACT
* *
22597598 TATAATAACC
1 TA-CATAACT
22597608 TACATAACT
1 TACATAACT
22597617 TACATAACT
1 TACATAACT
22597626 TACATAA--
1 TACATAACT
22597633 TACATAACT
1 TACATAACT
*
22597642 TACATATCT
1 TACATAACT
**
22597651 TTTAT-ACTAT
1 TACATAAC--T
22597661 ATACATAACT
1 -TACATAACT
*
22597671 TACATAATT
1 TACATAACT
*
22597680 TACTTAA--
1 TACATAACT
22597687 TACATAACT
1 TACATAACT
22597696 TACAT
1 TACAT
22597701 TGAGAAAAAT
Statistics
Matches: 701, Mismatches: 148, Indels: 172
0.69 0.14 0.17
Matches are distributed among these distances:
7 87 0.12
8 38 0.05
9 428 0.61
10 36 0.05
11 34 0.05
12 78 0.11
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:22596865 original size:17 final size:16
Alignment explanation
Indices: 22596832--22596895 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
22596822 CATAGCTTAT
*
22596832 ATAACTTACATAATAC
1 ATAACTTAAATAATAC
22596848 ATAACTTAAATAAATAC
1 ATAACTTAAAT-AATAC
**
22596865 ATAACTTATTTAATAC
1 ATAACTTAAATAATAC
* *
22596881 ATTACTTACATAATA
1 ATAACTTAAATAATA
22596896 ACTTACATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 27 0.66
17 14 0.34
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAACTTAAATAATAC
Found at i:22597003 original size:110 final size:110
Alignment explanation
Indices: 22596884--22597507 Score: 1203
Period size: 110 Copynumber: 5.7 Consensus size: 110
22596874 TTAATACATT
22596884 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
1 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
22596949 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
66 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
22596994 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
1 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
22597059 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
66 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
22597104 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
1 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
22597169 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
66 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
22597214 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
1 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
22597279 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
66 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
22597324 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
1 ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
22597389 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
66 CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
* * * *
22597434 ACTTACATAATAACTTACATAGCTTATAATAACCTACATAACTTACATAACTTACATAATACATA
1 ACTTACATAATAACTTACATAGCTTAT-ATAACTTACATAACTTATATAACTTACATACTCCATA
22597499 ACTTACATA
65 ACTTACATA
22597508 TCTTTTATAC
Statistics
Matches: 509, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
110 467 0.92
111 42 0.08
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (110 bp):
ACTTACATAATAACTTACATAGCTTATATAACTTACATAACTTATATAACTTACATACTCCATAA
CTTACATAATTTACTTAATACATAATCAACATATATTATATCTTA
Found at i:22597441 original size:140 final size:138
Alignment explanation
Indices: 22597333--22597740 Score: 601
Period size: 140 Copynumber: 2.9 Consensus size: 138
22597323 AACTTACATA
* * * * *
22597333 ATAACTTACATAGCTTATATAACTTACATAACTTATATAAC-T-TAC-ATACTCCATAACTTACA
1 ATAACTTACATAACTTACATAA--TACATAACTTACATATCTTATACTATA-TACATAACTTACA
22597395 TAATTTACTTAATACATAATCAACATATATTATATCTTAACTTACATAATAACTTACATAGCTTA
63 TAATTTACTTAATACATAATCAACATATATTATATCTTAACTTACATAATAACTTACATAGCTTA
22597460 TAATAACCTAC
128 TAATAACCTAC
22597471 ATAACTTACATAACTTACATAATACATAACTTACATATCTTTTATACTATATACATAACTTACAT
1 ATAACTTACATAACTTACATAATACATAACTTACATATC--TTATACTATATACATAACTTACAT
22597536 AATTTACTTAATACATAATCAACATATATTATATCTTAACTTACATAATAACTTACATAGCTTAT
64 AATTTACTTAATACATAATCAACATATATTATATCTTAACTTACATAATAACTTACATAGCTTAT
22597601 AATAACCTAC
129 AATAACCTAC
22597611 ATAACTTACATAACTTACATAATACATAACTTACATATCTTTTATACTATATACATAACTTACAT
1 ATAACTTACATAACTTACATAATACATAACTTACATATC--TTATACTATATACATAACTTACAT
* ** * *
22597676 AATTTACTTAATACATAA-CTTACAT-TGAGAAAAATATTAACTTACATAATAACTTACATAGCT
64 AATTTACTTAATACATAATC-AACATAT-A-TTATATCTTAACTTACATAATAACTTACATAGCT
22597739 TA
126 TA
22597741 GTTATACTTA
Statistics
Matches: 252, Mismatches: 10, Indels: 13
0.92 0.04 0.05
Matches are distributed among these distances:
136 15 0.06
138 20 0.08
139 3 0.01
140 179 0.71
141 35 0.14
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (138 bp):
ATAACTTACATAACTTACATAATACATAACTTACATATCTTATACTATATACATAACTTACATAA
TTTACTTAATACATAATCAACATATATTATATCTTAACTTACATAATAACTTACATAGCTTATAA
TAACCTAC
Found at i:22597464 original size:19 final size:19
Alignment explanation
Indices: 22597440--22597492 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
22597430 CTTAACTTAC
*
22597440 ATAATAACTTACATAGCTT
1 ATAATAACTTACATAACTT
*
22597459 ATAATAACCTACATAACTT
1 ATAATAACTTACATAACTT
*
22597478 A-CATAACTTACATAA
1 ATAATAACTTACATAA
22597493 TACATAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAACTTACATAACTT
Found at i:22597604 original size:19 final size:19
Alignment explanation
Indices: 22597580--22597632 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
22597570 CTTAACTTAC
*
22597580 ATAATAACTTACATAGCTT
1 ATAATAACTTACATAACTT
*
22597599 ATAATAACCTACATAACTT
1 ATAATAACTTACATAACTT
*
22597618 A-CATAACTTACATAA
1 ATAATAACTTACATAA
22597633 TACATAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAACTTACATAACTT
Found at i:22597791 original size:9 final size:9
Alignment explanation
Indices: 22597779--22597863 Score: 84
Period size: 9 Copynumber: 9.4 Consensus size: 9
22597769 TAAAAATTAA
22597779 ATAACTTAC
1 ATAACTTAC
22597788 ATAACTTAC
1 ATAACTTAC
*
22597797 ATAAATTA-
1 ATAACTTAC
22597805 AGTAACTTAC
1 A-TAACTTAC
22597815 ATAACTTAC
1 ATAACTTAC
* *
22597824 -TAAAATTAA
1 AT-AACTTAC
**
22597833 ATAACTGGC
1 ATAACTTAC
*
22597842 GTAACTTAC
1 ATAACTTAC
22597851 ATAACTTAC
1 ATAACTTAC
22597860 ATAA
1 ATAA
22597864 ATTAAGTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
8 2 0.03
9 56 0.93
10 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:22597810 original size:27 final size:27
Alignment explanation
Indices: 22597772--22597913 Score: 107
Period size: 27 Copynumber: 5.1 Consensus size: 27
22597762 TAAATCCTAA
*
22597772 AAATTAAATAACTTACATAACTTACAT
1 AAATTAAGTAACTTACATAACTTACAT
22597799 AAATTAAGTAACTTACATAACTTAC-T
1 AAATTAAGTAACTTACATAACTTACAT
22597825 AAAATTAAATAACTGGCGTAACTTACATAACTTACAT
1 -AAA-T---TAA-----GTAACTTACATAACTTACAT
*
22597862 AAATTAAGTAAATT--A-AA-TTA-AGT
1 AAATTAAGTAACTTACATAACTTACA-T
* *
22597885 AAATTAAATAAGTTACATAACTTACAT
1 AAATTAAGTAACTTACATAACTTACAT
22597912 AA
1 AA
22597914 TATCCCTAGT
Statistics
Matches: 94, Mismatches: 4, Indels: 34
0.71 0.03 0.26
Matches are distributed among these distances:
22 1 0.01
23 16 0.17
24 2 0.02
25 2 0.02
26 3 0.03
27 39 0.41
28 2 0.02
31 3 0.03
32 3 0.03
35 1 0.01
36 21 0.22
37 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (27 bp):
AAATTAAGTAACTTACATAACTTACAT
Found at i:22597836 original size:18 final size:18
Alignment explanation
Indices: 22597771--22597838 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
22597761 CTAAATCCTA
22597771 AAAATTAAATAACTTAC-
1 AAAATTAAATAACTTACT
* * * *
22597788 ATAACTTACATAAATTAAGT
1 A-AAATTAAATAACTT-ACT
* *
22597808 -AACTTACATAACTTACT
1 AAAATTAAATAACTTACT
22597825 AAAATTAAATAACT
1 AAAATTAAATAACT
22597839 GGCGTAACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 3 0.08
18 35 0.90
19 1 0.03
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAATTAAATAACTTACT
Found at i:22597880 original size:14 final size:14
Alignment explanation
Indices: 22597861--22597897 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
22597851 ATAACTTACA
22597861 TAAATTAAGTAAAT
1 TAAATTAAGTAAAT
22597875 TAAATTAAGTAAAT
1 TAAATTAAGTAAAT
22597889 TAAA-TAAGT
1 TAAATTAAGT
22597898 TACATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (14 bp):
TAAATTAAGTAAAT
Found at i:22598118 original size:42 final size:42
Alignment explanation
Indices: 22598058--22598174 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 42
22598048 TCAAAACAGT
* *
22598058 GGCGTTTGTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTTTG-AACAAGCGCCGCTAAAGAACACTACTTTTAGA
* *
22598101 GGCGTTTTTGAACAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAACAAGCGCCGCTAAAGAACACTACTTTTAGA
**
22598143 GGCGTTTTCT-TCCAAAGCGCCGCTAAAGAACA
1 GGCGTTTT-TGAAC-AAGCGCCGCTAAAGAACA
22598175 TGAAAAAACG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 38 0.58
43 27 0.42
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
GGCGTTTTTGAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:22598886 original size:22 final size:22
Alignment explanation
Indices: 22598845--22598888 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22598835 AATTCATGAA
*
22598845 TTTTTTTTCCCTTTTCTCTCTT
1 TTTTTTTTCCCTTCTCTCTCTT
22598867 TTTTTTCTTCCCTTCT-TCTCTT
1 TTTTTT-TTCCCTTCTCTCTCTT
22598889 CTCCTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTTCCCTTCTCTCTCTT
Found at i:22612038 original size:2 final size:2
Alignment explanation
Indices: 22612031--22612055 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22612021 TATACGCATT
22612031 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 T
22612056 TATTGTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22615983 original size:20 final size:20
Alignment explanation
Indices: 22615954--22615993 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22615944 TTCACCTCAT
*
22615954 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
22615974 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
22615994 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:22627684 original size:100 final size:100
Alignment explanation
Indices: 22627284--22627694 Score: 639
Period size: 100 Copynumber: 4.1 Consensus size: 100
22627274 TTGAAAAGTA
22627284 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
*
22627349 CGACGGCGGATCTGGTTTCCCTGATATTGCAATT-
66 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTG
* *
22627383 AAAATATTGAAGCCACAGCGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
* *
22627448 CGACGGCGGATCTGGTTTCCCTGATATTGCAATTA
66 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTG
* * * *
22627483 AAAAGATTGAAGCCACAACAGCGGATTTTACTTCCTTAGTAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
*
22627548 CGACGGCGGATCTGGTTTCCCTAATATTACAATTG
66 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTG
* * *
22627583 AAAAGATTGAAGCCACAACGGCAGATCTTACTTTCCT-GACAGTGCGGTGGAACAGATTGAAGCT
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAG-CAGTGCAGTGGAACAGATTGAAGCT
* * *
22627647 ACGACGGCGGATCTAGTTTCCCTAACATTGCAGTTG
65 ACGACGGCGGATCTGGTTTCCCTAATATTGCAATTG
22627683 AACAA-ATTGAAG
1 AA-AAGATTGAAG
22627695 ATTATAGATC
Statistics
Matches: 287, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
99 98 0.34
100 187 0.65
101 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
CGACGGCGGATCTGGTTTCCCTAATATTGCAATTG
Found at i:22627686 original size:50 final size:50
Alignment explanation
Indices: 22627287--22627694 Score: 288
Period size: 50 Copynumber: 8.2 Consensus size: 50
22627277 AAAAGTAAAA
* * * *
22627287 AGATTGAAGCCACAACGGCGGATCTTACTTT-CTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACGACGGCGGATC-TAGTTTCCCTAACAGTGCAGTGGAAC
* * * * * * * *
22627337 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT-TAAA
1 AGATTGAAGCCACGACGGCGGATCTAGTTTCCCTAACAGTGCAGTGGAAC
* * * *
22627386 ATATTGAAGCCAC-AGCGGCGGATCTTACTTT-CTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACGA-CGGCGGATC-TAGTTTCCCTAACAGTGCAGTGGAAC
* * * * * * ** *
22627436 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGGATCTAGTTTCCCTAACAGTGCAGTGGAAC
* * * * * **
22627486 AGATTGAAGCCACAACAGCGGATTTTA-CTTCCTTAGTAGTGCAGTGGAAC
1 AGATTGAAGCCACGACGGCGGA-TCTAGTTTCCCTAACAGTGCAGTGGAAC
* * * * * * * *
22627536 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAATATTACAATTGAAA
1 AGATTGAAGCCACGACGGCGGATCTAGTTTCCCTAACAGTGCAGTGGAAC
* * * * *
22627586 AGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGACAGTGCGGTGGAAC
1 AGATTGAAGCCACGACGGCGGATC-TAGTTTCCCTAACAGTGCAGTGGAAC
* * *
22627636 AGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAACATTGCAGTTGAAC
1 AGATTGAAGCCACGACGGCGGATCTAGTTTCCCTAACAGTGCAGTGGAAC
*
22627686 AAATTGAAG
1 AGATTGAAG
22627695 ATTATAGATC
Statistics
Matches: 262, Mismatches: 86, Indels: 20
0.71 0.23 0.05
Matches are distributed among these distances:
48 1 0.00
49 45 0.17
50 209 0.80
51 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACGACGGCGGATCTAGTTTCCCTAACAGTGCAGTGGAAC
Found at i:22627873 original size:44 final size:45
Alignment explanation
Indices: 22627802--22627917 Score: 162
Period size: 44 Copynumber: 2.6 Consensus size: 45
22627792 TCTATCTCCC
* *
22627802 CATACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
1 CATACTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
** * *
22627847 TGTACTGG-CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCC
1 CATACTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
*
22627891 CATACTGGTGGTGAAGTAGATCGAAGA
1 CATACTGGTCGTGAAGTAGATCGAAGA
22627918 TACAAGTCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 38 0.63
45 22 0.37
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
CATACTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
Found at i:22629710 original size:2 final size:2
Alignment explanation
Indices: 22629703--22629727 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22629693 TATACGCATT
22629703 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 T
22629728 TATTGTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22644517 original size:50 final size:50
Alignment explanation
Indices: 22644442--22644537 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
22644432 CACCTTCCTT
22644442 TTTAACTCAATGTCATCCATTCCCATGAAGACGCGGGCATCAATCAGTCA
1 TTTAACTCAATGTCATCCATTCCCATGAAGACGCGGGCATCAATCAGTCA
* * * *
22644492 TTTAATTCAATGTCATCCGTTCCCATGAAGATGCGGGCATCGATCA
1 TTTAACTCAATGTCATCCATTCCCATGAAGACGCGGGCATCAATCA
22644538 TGACTGAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TTTAACTCAATGTCATCCATTCCCATGAAGACGCGGGCATCAATCAGTCA
Found at i:22649992 original size:34 final size:34
Alignment explanation
Indices: 22649949--22650121 Score: 301
Period size: 34 Copynumber: 5.1 Consensus size: 34
22649939 TAATAACAAA
* *
22649949 GTAAAAATTATCAAGGGAATTAAGGTTCAATGAT
1 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
* *
22649983 GTAAAAATTATCAAGGGAATTAAGGTTCAATGAT
1 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
22650017 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
1 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
22650051 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
1 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
*
22650085 GTAAAAATTATCAAGGGAATTAAGGTTAGATAAT
1 GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
22650119 GTA
1 GTA
22650122 CAGTAACATA
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 136 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (34 bp):
GTAAAAATTATCAAGGGAATTAAGGTTAAATAAT
Found at i:22657943 original size:39 final size:39
Alignment explanation
Indices: 22657889--22657967 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
22657879 GTATCAAGGC
22657889 ATGATGATAGGCCACAAAAGAATCAACACAAATAAATTA
1 ATGATGATAGGCCACAAAAGAATCAACACAAATAAATTA
22657928 ATGATGATAGGCCACAAAAGAATCAACACAAATAAATTA
1 ATGATGATAGGCCACAAAAGAATCAACACAAATAAATTA
22657967 A
1 A
22657968 GGACCCAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (39 bp):
ATGATGATAGGCCACAAAAGAATCAACACAAATAAATTA
Found at i:22659318 original size:2 final size:2
Alignment explanation
Indices: 22659313--22659350 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
22659303 TACATATATA
*
22659313 TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22659351 AAATTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:22663848 original size:43 final size:41
Alignment explanation
Indices: 22663790--22663892 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 41
22663780 AATATGTCAT
22663790 AATAATATCCTATAATATCCTATTAGAAATCAAATTGCTAATA
1 AATAATATCC-ATAATATCCTATTAGAAATCAAATTGCTAA-A
** *
22663833 AATAATATCTCATAATATTTTATTAGGAATCAAATTGCTAAA
1 AATAATATC-CATAATATCCTATTAGAAATCAAATTGCTAAA
22663875 AGATAATATCCCATAATA
1 A-ATAATAT-CCATAATA
22663893 ATATCCTAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
42 2 0.04
43 50 0.93
44 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.35
Consensus pattern (41 bp):
AATAATATCCATAATATCCTATTAGAAATCAAATTGCTAAA
Found at i:22668173 original size:53 final size:53
Alignment explanation
Indices: 22668114--22668219 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
22668104 AGTACTAATA
* *
22668114 AAAACATATTTAAACGATTTTGTTCAAGACCT-ACAACATTATGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGA-CTGACAACATTATGTCTTACAAAT
* *
22668167 AAAACATAATTAAATAATTTTGTTCAAGACTGACAACATTGTGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
22668220 TGAAAAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (53 bp):
AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
Found at i:22672940 original size:59 final size:61
Alignment explanation
Indices: 22672871--22672987 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
22672861 ATAACTTTAA
* **
22672871 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTATGTTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
22672930 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAATTTTGATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
22672988 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Done.