Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 66 of 163
Found at i:17081479 original size:12 final size:11
Alignment explanation
Indices: 17081364--17081480 Score: 60
Period size: 11 Copynumber: 11.4 Consensus size: 11
17081354 ATTGTATACA
17081364 ATTTTTAATAAT
1 ATTTTTAA-AAT
17081376 -TTTTT-AAAT
1 ATTTTTAAAAT
17081385 A-TTTT-AAAT
1 ATTTTTAAAAT
17081394 A-TTTT-AAAT
1 ATTTTTAAAAT
*
17081403 ATTTTTTAAAT
1 ATTTTTAAAAT
17081414 A-TTTTAAATAT
1 ATTTTTAAA-AT
* *
17081425 TTTTTTATAAT
1 ATTTTTAAAAT
*
17081436 -TTTTTATAACT
1 ATTTTTA-AAAT
* *
17081447 -TCTTT-ACA-
1 ATTTTTAAAAT
17081455 A-TTTTAAAAT
1 ATTTTTAAAAT
17081465 ATTTTTAACAAT
1 ATTTTTAA-AAT
17081477 ATTT
1 ATTT
17081481 AATAATCATT
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
8 3 0.04
9 24 0.29
10 18 0.21
11 26 0.31
12 13 0.15
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:17081517 original size:10 final size:10
Alignment explanation
Indices: 17081360--17081542 Score: 56
Period size: 10 Copynumber: 18.2 Consensus size: 10
17081350 ATTAATTGTA
17081360 TACAATTTTT
1 TACAATTTTT
* *
17081370 AATAATTTTT
1 TACAATTTTT
*
17081380 TA-AATATTT
1 TACAATTTTT
*
17081389 TA-AATATTT
1 TACAATTTTT
*
17081398 TAAATATTTTT
1 TACA-ATTTTT
*
17081409 TA-AATATTT
1 TACAATTTTT
*
17081418 TAAATATTTTTT
1 TACA-A-TTTTT
*
17081430 TATAATTTTT
1 TACAATTTTT
* *
17081440 TATAACTTCTT
1 TACAA-TTTTT
17081451 TACAA--TTT
1 TACAATTTTT
*
17081459 TAAAATATTTT
1 TACAAT-TTTT
*
17081470 TAACAATATTT
1 T-ACAATTTTT
* * **
17081481 AATAATCATT
1 TACAATTTTT
*
17081491 TACAA-TATT
1 TACAATTTTT
**
17081500 TATTATTTTT
1 TACAATTTTT
17081510 TACAA-TTTT
1 TACAATTTTT
*
17081519 TAAATATTTTTT
1 TACA-A-TTTTT
*
17081531 TACAACTTTT
1 TACAATTTTT
17081541 TA
1 TA
17081543 ATATTTTAAT
Statistics
Matches: 130, Mismatches: 29, Indels: 28
0.70 0.16 0.15
Matches are distributed among these distances:
8 6 0.05
9 37 0.28
10 44 0.34
11 25 0.19
12 18 0.14
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.57
Consensus pattern (10 bp):
TACAATTTTT
Found at i:17081530 original size:20 final size:20
Alignment explanation
Indices: 17081376--17081579 Score: 133
Period size: 20 Copynumber: 10.3 Consensus size: 20
17081366 TTTTAATAAT
17081376 TTTTTAAATA--TTTTA-AA
1 TTTTTAAATATTTTTTACAA
17081393 TATTTTAAATATTTTTTA-AA
1 T-TTTTAAATATTTTTTACAA
*
17081413 TATTTTAAATATTTTTTTATAA
1 T-TTTTAAATA-TTTTTTACAA
* *
17081435 TTTTTTATAA-CTTCTTTACAA
1 -TTTTTA-AATATTTTTTACAA
* *
17081456 TTTTAAAATATTTTTAACAA
1 TTTTTAAATATTTTTTACAA
* **
17081476 TATTT-AATAATCATTTACAA
1 TTTTTAAAT-ATTTTTTACAA
* *
17081496 TATTT-ATTATTTTTTACAA
1 TTTTTAAATATTTTTTACAA
17081515 TTTTTAAATATTTTTTTACAA
1 TTTTTAAATA-TTTTTTACAA
*
17081536 CTTTTT-AATATTTTAATA-AA
1 -TTTTTAAATATTTT-TTACAA
* *
17081556 --GTTAAATTTTTTTTACAA
1 TTTTTAAATATTTTTTACAA
17081574 TTTTTA
1 TTTTTA
17081580 TATAATTTAA
Statistics
Matches: 148, Mismatches: 22, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
17 5 0.03
18 18 0.12
19 18 0.12
20 61 0.41
21 31 0.21
22 12 0.08
23 3 0.02
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAAATATTTTTTACAA
Found at i:17082311 original size:15 final size:15
Alignment explanation
Indices: 17082291--17082319 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17082281 AGATATAGTA
17082291 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
17082306 AAATATTTAAAAAA
1 AAATATTTAAAAAA
17082320 CAAGAGACAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:17082841 original size:162 final size:162
Alignment explanation
Indices: 17082397--17085699 Score: 3616
Period size: 162 Copynumber: 20.7 Consensus size: 162
17082387 AACTTTACAG
* * *
17082397 GAATTTATTTA-ATTAAACATAAACTTTAAATTTATCAATTCAAATATGATAGTATATTAATAAG
1 GAATTTATTTAGA-TAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAG
* ** * * * * *
17082461 AAAGTATAGAAATAATGACATATTCGTGATAAAACGTGGGAATTTATTTAGTTAAATATAAAAGT
65 AAGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATT
* * * * * ** * *
17082526 TATCAACTCAATTTAAAT-TTGATAACCTAATGCACG-
130 TGTAAACT-TA-TCAACTCAAG-T-A-CAAAAGCACGC
* * * *
17082562 GAAAATTATTTA-ATAAAACATAAATTTTAAACTTATCCATTCAAATATGATAGCATATTAATAA
1 G-AATTTATTTAGAT-AAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAA
* * * * * * * ** * * *
17082626 GAAGACATAGAAATAATGGCATATTTGTGATAAAACACGAAAATTTATTTAGTTCAATATAAAAA
64 GAAGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAAT
* *
17082691 TTGTAAACTTATCAACTCAAGTACAAAAGCGCGT
129 TTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * *
17082725 GAATTTATTTAGTTAAACAAAAACTTTAAATTTAACAATTGAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * *
17082790 AGACGTAAAAATAATGACATGTTCGTTATAAAGCGTGCGAATTTGTTTAGTTAAATATAATATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* *
17082855 GTAAACTTATCAACTCAAGTACAGAAGCACAC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* *
17082887 AAATTTATTTAGATAAACATTAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * *
17082952 AGGCGT--AGA-AAT---AT-TT-GTGATAAAGCGCGGGAATTTATTTAGTTCAATATAAAAATT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
*
17083009 GTAAACTTATCAACTCAAGTACAAAAGCACAC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17083041 GAATTTATTTAGTTTAACAAAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * * * *
17083106 AGACGTAAAAATAATGTCATATTCGTTATAAAGTGTGAGAATTTGTTTAGTTAAATACAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
17083171 GTAAACTTATCAACTCAAGTACAAAAGCACGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17083203 GAATTTATTTAGATAAACATTAACTTTAAACTTAACAATTCAAATATGAGAGCATATTAGTAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * *
17083268 AGTCGTAGAAATAATGACATATTCATGGTAAAGCGTGGGAATTTGTTTAGTTAAATATAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
*
17083333 GCAAACTTATCAACTCAAGTACAAAAGCACGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* *
17083365 GAATATATTTAGATAAACATAAACTTTAAACTTAATAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * *
17083430 AGGCGT--AAA-AAT---AT-TT-ATGATAAAGTGCGAGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * *
17083487 GTAAACTTATCAATTCAAATACAAAAGCA-GAA
131 GTAAACTTATCAACTCAAGTACAAAAGCACG-C
* * **
17083519 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAATATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
*
17083584 AGGCGTAAAAATAATGTCATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * *
17083649 GTAAACTTATCAATTCAAGTACAAAAACATGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* ** *
17083681 AAATTTATTTAGATAAACATATGCTTTAAACTTAACTATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * *
17083746 AGGCGTAGAAATAATGACATATTCGTGATAAAGTGCGGGAGTTTGTTTAGTTAAATATAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * *
17083811 GTAAACTTATCAACTTAAGTGCAAAAGCACGT
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* **
17083843 GAATTTATTTAGATCAACATCCACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * *
17083908 AGGCGT--AGA-AAT---AT-TT-ATGATAAAGCACGAGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
** *
17083965 GTAAACTTATCAA-TACAAGTACAAAAATAGGC
131 GTAAACTTATCAACT-CAAGTACAAAAGCACGC
* * ** *
17083997 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAATATATTAATAAGC
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* *** * *
17084062 AGGCGTAAAAATAATGTCATATTAAAGATAAAGCACGAGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * *
17084127 GTAAACTTATCAATTTAAGTACAAAAGCAAGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17084159 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTTAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * *** *
17084224 AAGCGT--AGA-AAT---AT-TT-GAGATAAAGCGCAACAATTTGTTTAGTTAAATATAAAACTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* *
17084281 GTAAACTTATCAATTCAAGTACAACAA-CAGGC
131 GTAAACTTATCAACTCAAGTACAA-AAGCACGC
* * * * * ** *
17084313 AAATTTATTTAGATAAATATAATCTTTAAATTTTACAATTCAAATATGATAATATATTAATATGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* *
17084378 AGGTGTAAAAATAATGACATACTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * **
17084443 ATAAACTTATCAATTCAAGTACAAAAGCGTGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17084475 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGAGAGCATTTTAGTAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * *
17084540 AGGCATAGAAATAATGACATATTCGTGATAAAGTGCGGGAATTTGTTTAGTTAAATATAAAGTTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
17084605 GTAAACTTATCAACTCAAGTACAAAAGCACGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * * * * *
17084637 GAATTTATTTAGATAAGCATTAACTTTAAAATTAACAGTTTAACTATGATAGCATATTAGTAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
** * **
17084702 AGATGT--AAA-AAT---AT-TT-ATGATAAAGCGCGAAAATTTGTTTAG--------------T
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * * *
17084745 -TAAACTTATCAATTCAAATGCAAAAGCAGGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * * * **
17084776 AAATTTATTTAGCTAAACATAAGCTTTAAGCTTAACAATTCAAATACGATAATATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* ** * * *
17084841 AGGCATAAAAATAATGTTATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAATTTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* *
17084906 GTAAACTTATCAATTCAAGTACAAAAGCATGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* ** * *
17084938 AAATTTATTTAGATAAACATATGCTTTAAACTTAACTATTTAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * *
17085003 AGGCGTATAAATAATGACATATTTGTGATAAAGCGCGAGAATTTATTTAGTTAAGTATAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
*
17085068 GTAAACTTATCAACTCAAGTACAAAAGGACGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17085100 GAATTTACTTAGATCAACATCAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* ** * *
17085165 AGGC------AT-A-GAAATATTTATGATAAAACGCGGGAATTTATTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * *
17085222 GTAAACTTATCAATTCAAGTACAAAATCAAGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * **
17085254 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTCTAATATGATAATATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * *** * *
17085319 AGGCCTAAAAATAATGTCATATTAAAGATAAAGCACGGGGATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
* * **
17085384 GTAAACTTAACAATTCAAGTACAAAAGCGTGC
131 GTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * * ** * * * * *
17085416 AAATTTATTTAGTTAAATAGATGCTTCAAACTTACCTATTCAAATATGATATCATATTTATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * * * *
17085481 AGGCGTAGAAATAATGACATGTTTGTAATAAAAGTGTGAGAATTTGTTCAGTTAAATATAAAA-T
66 AGGCGTAAAAATAATGACATATTCGTGAT-AAAGCGCGGGAATTTGTTTAGTTAAATATAAAATT
* * ***
17085545 TGTTAAACTCATCAACTCAAGTACGAAAGGGTGC
130 TG-TAAACTTATCAACTCAAGTACAAAAGCACGC
* *
17085579 GAATTTATTTAGATAAACATAAACTTTAAACTTAGCAATTCAAATATGAGAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * *
17085644 AGACGTAAAAATAATTACATATTTGTGATAAAGCGTGAGAATTTATTTAGTTAAAT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAAT
17085700 CAAGTACAAA
Statistics
Matches: 2679, Mismatches: 383, Indels: 155
0.83 0.12 0.05
Matches are distributed among these distances:
139 81 0.03
140 1 0.00
141 3 0.00
142 3 0.00
145 2 0.00
146 2 0.00
147 22 0.01
153 2 0.00
154 658 0.25
155 13 0.00
156 21 0.01
157 12 0.00
159 15 0.01
160 22 0.01
161 11 0.00
162 1551 0.58
163 135 0.05
164 5 0.00
165 4 0.00
166 116 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (162 bp):
GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
GTAAACTTATCAACTCAAGTACAAAAGCACGC
Found at i:17083062 original size:316 final size:316
Alignment explanation
Indices: 17082397--17085699 Score: 3560
Period size: 316 Copynumber: 10.4 Consensus size: 316
17082387 AACTTTACAG
* * *
17082397 GAATTTATTTA-ATTAAACATAAACTTTAAATTTATCAATTCAAATATGATAGTATATTAATAAG
1 GAATTTATTTAGA-TAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAG
* ** * * * * * *
17082461 AAAGTATAGAAATAATGACATATTCGTGATAAAACGTGGGAATTTATTTAGTTAAATATAAAAGT
65 AAGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATT
* * * * ** * * * * * *
17082526 TATCAACTCAATTTAAATTTGA-TAACCTAATGCACGGAAAATTATTTA-ATAAAACATAAATTT
130 TGTAAACT---TATCAATTCAAGT-A-CAAAAGCACGCAAATTTATTTAGAT-AAACATTAACTT
* * * *
17082589 TAAACTTATCCATTCAAATATGATAGCATATTAATAAGAAGACATAGAAATAATGGCATATTTGT
189 TAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAG----AA----ATATTTGT
* * ** * * *
17082654 GATAAAACACGAAAATTTATTTAGTTCAATATAAAAATTGTAAACTTATCAACTCAAGTACAAAA
246 GATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAA
* *
17082719 GCGCGT
311 GCACGC
* * * *
17082725 GAATTTATTTAGTTAAACAAAAACTTTAAATTTAACAATTGAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * *
17082790 AGACGTAAAAATAATGACATGTTCGTTATAAAGCGTGCGAATTTGTTTAGTTAAATATAATATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* * *
17082855 GTAAACTTATCAACTCAAGTACAGAAGCACACAAATTTATTTAGATAAACATTAACTTTAAACTT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACTT
17082920 AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGAA
196 AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGAA
* * * *
17082985 TTTATTTAGTTCAATATAAAAATTGTAAACTTATCAACTCAAGTACAAAAGCACAC
261 TTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* * *
17083041 GAATTTATTTAGTTTAACAAAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * * * *
17083106 AGACGTAAAAATAATGTCATATTCGTTATAAAGTGTGAGAATTTGTTTAGTTAAATACAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* *
17083171 GTAAACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACTT
* * * * *
17083236 AACAATTCAAATATGAGAGCATATTAGTAAGAAGTCGTAGAAATAATGACATATTCATGGTAAAG
196 AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAG--A-AAT---AT-TT-GTGATAAAG
* * *
17083301 CGTGGGAATTTGTTTAGTTAAATATAACATTTGCAAACTTATCAACTCAAGTACAAAAGCACGC
253 CGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* *
17083365 GAATATATTTAGATAAACATAAACTTTAAACTTAATAATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* *
17083430 AGGCGT--AAA-AAT---AT-TT-ATGATAAAGTGCGAGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* *
17083487 GTAAACTTATCAATTCAAATACAAAAGCA-GAAAAATTTATTTAGATAAACA-TAAGCTTTAAAC
131 GTAAACTTATCAATTCAAGTACAAAAGCACG-CAAATTTATTTAGATAAACATTAA-CTTTAAAC
** *
17083550 TTAACAATTCAAATATGATAATATATTAATAAGAAGGCGTAAAAATAATGTCATATTCGTGATAA
194 TTAACAATTCAAATATGATAGCATATTAATAAGAAGGCGT--AGA-AA--T-AT-TT-GTGATAA
* * *
17083615 AGCGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAATTCAAGTACAAAAACATG
251 AGCGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACG
17083680 C
316 C
* ** *
17083681 AAATTTATTTAGATAAACATATGCTTTAAACTTAACTATTCAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * *
17083746 AGGCGTAGAAATAATGACATATTCGTGATAAAGTGCGGGAGTTTGTTTAGTTAAATATAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* ** * **
17083811 GTAAACTTATCAACTT-AAGTGCAAAAGCACGTGAATTTATTTAGATCAACATCCACTTTAAACT
131 GTAAACTTATCAA-TTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACT
* * *
17083875 TAACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTATGATAAAGCACGAGA
195 TAACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGA
** *
17083940 ATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAA-TACAAGTACAAAAATAGGC
260 ATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACT-CAAGTACAAAAGCACGC
* * ** *
17083997 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAATATATTAATAAGC
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* *** *
17084062 AGGCGTAAAAATAATGTCATATTAAAGATAAAGCACGAGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* *
17084127 GTAAACTTATCAATTTAAGTACAAAAGCAAGCAAATTTATTTAGATAAACA-TAAGCTTTAAACT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAA-CTTTAAACT
* * * ***
17084191 TAACAATTTAAATATGATAGCATATTAATAAGAAAGCGTAGAAATATTTGAGATAAAGCGCAACA
195 TAACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGA
* * *
17084256 ATTTGTTTAGTTAAATATAAAACTTGTAAACTTATCAATTCAAGTACAACAA-CAGGC
260 ATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAA-AAGCACGC
* * * * * ** *
17084313 AAATTTATTTAGATAAATATAATCTTTAAATTTTACAATTCAAATATGATAATATATTAATATGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * *
17084378 AGGTGTAAAAATAATGACATACTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* ** * *
17084443 ATAAACTTATCAATTCAAGTACAAAAGCGTGCGAATTTATTTAGATAAACATAAACTTTAAACTT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACTT
* * * *
17084508 AACAATTCAAATATGAGAGCATTTTAGTAAGAAGGCATAGAAATAATGACATATTCGTGATAAAG
196 AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAG--A-AAT---AT-TT-GTGATAAAG
* *
17084573 TGCGGGAATTTGTTTAGTTAAATATAAAGTTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
253 CGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * * * * *
17084637 GAATTTATTTAGATAAGCATTAACTTTAAAATTAACAGTTTAACTATGATAGCATATTAGTAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
** * *
17084702 AGATGT--AAA-AAT---AT-TT-ATGATAAAGCGCGAAAATTTGTTTAG--------------T
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* * * * *
17084745 -TAAACTTATCAATTCAAATGCAAAAGCAGGCAAATTTATTTAGCTAAACA-TAAGCTTTAAGCT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAA-CTTTAAACT
* ** * *
17084808 TAACAATTCAAATACGATAATATATTAATAAGAAGGCATAAAAATAATGTTATATTTGTGATAAA
195 TAACAATTCAAATATGATAGCATATTAATAAGAAGGCGT----AGAA----ATATTTGTGATAAA
* * * *
17084873 GCACGGGAATTTGTTTAGTTAAATATAAATTTTGTAAACTTATCAATTCAAGTACAAAAGCATGC
252 GCGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* ** * *
17084938 AAATTTATTTAGATAAACATATGCTTTAAACTTAACTATTTAAATATGATAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * *
17085003 AGGCGTATAAATAATGACATATTTGTGATAAAGCGCGAGAATTTATTTAGTTAAGTATAACATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* * * * * *
17085068 GTAAACTTATCAACTCAAGTACAAAAGGACGCGAATTTACTTAGATCAACATCAACTTTAAACTT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACTT
* * *
17085133 AACAATTCAAATATGATAGCATATTAATAAGAAGGCATAGAAATATTTATGATAAAACGCGGGAA
196 AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGAA
* * * *
17085198 TTTATTTAGTTAAATATAAAATTTGTAAACTTATCAATTCAAGTACAAAATCAAGC
261 TTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
* * * **
17085254 AAATTTATTTAGATAAACATAAGCTTTAAACTTAACAATTCTAATATGATAATATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * *** * * *
17085319 AGGCCTAAAAATAATGTCATATTAAAGATAAAGCACGGGGATTTGTTTAGTTAAATATAAAATTT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
* ** * * * * *
17085384 GTAAACTTAACAATTCAAGTACAAAAGCGTGCAAATTTATTTAGTTAAATA-GATGCTTCAAACT
131 GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTA-ACTTTAAACT
* * * * *
17085448 TACCTATTCAAATATGATATCATATTTATAAGAAGGCGTAGAAATAATGACATGTTTGTAATAAA
195 TAACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAG--A-AAT---A--TTTGTGAT-AA
* * * * * * ***
17085513 AGTGTGAGAATTTGTTCAGTTAAATATAAAA-TTGTTAAACTCATCAACTCAAGTACGAAAGGGT
251 AGCGCGGGAATTTGTTTAGTTAAATATAAAATTTG-TAAACTTATCAACTCAAGTACAAAAGCAC
17085577 GC
315 GC
* *
17085579 GAATTTATTTAGATAAACATAAACTTTAAACTTAGCAATTCAAATATGAGAGCATATTAATAAGA
1 GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
* * * * *
17085644 AGACGTAAAAATAATTACATATTTGTGATAAAGCGTGAGAATTTATTTAGTTAAAT
66 AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAAT
17085700 CAAGTACAAA
Statistics
Matches: 2555, Mismatches: 333, Indels: 177
0.83 0.11 0.06
Matches are distributed among these distances:
300 2 0.00
301 212 0.08
302 4 0.00
303 6 0.00
304 3 0.00
305 1 0.00
306 2 0.00
307 2 0.00
308 2 0.00
309 23 0.01
315 9 0.00
316 1396 0.55
317 10 0.00
318 14 0.01
319 13 0.01
320 5 0.00
321 8 0.00
322 15 0.01
323 9 0.00
324 533 0.21
325 168 0.07
326 1 0.00
328 117 0.05
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (316 bp):
GAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGA
AGGCGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTT
GTAAACTTATCAATTCAAGTACAAAAGCACGCAAATTTATTTAGATAAACATTAACTTTAAACTT
AACAATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATATTTGTGATAAAGCGCGGGAA
TTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGC
Found at i:17083312 original size:478 final size:476
Alignment explanation
Indices: 17082567--17085699 Score: 3677
Period size: 478 Copynumber: 6.6 Consensus size: 476
17082557 GCACGGAAAA
** * * *
17082567 TTATTTA-ATAAAACATAAATTTTAAACTTATCCATTCAAATATGATAGCATATTAATAAGAAGA
1 TTATTTAGAT-AAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGG
* * * * * * * * * *
17082631 CATAGAAATAATGGCATATTTGTGATAAAACACGAAAATTTATTTAGTTCAATATAAAAATTGTA
65 CGTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTA
* * * ** *
17082696 AACTTATCAACTCAAGTACAAAAGCGCGTGAATTTATTTAGTTAAACAAAAACTTTAAATTTAAC
130 AACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAAC
* * * * *
17082761 AATTGAAATATGATAGCATATTAATAAGAAGACGTAAAAATAATGACATGTTCGTTATAAAGCGT
195 AATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAAT-ACAT-TTCATGATAAAGCGC
* * * *
17082826 GCGAATTTGTTTAGTTAAATATAATATTTGTAAACTTATCAACTCAAGTACAGAAGCACACAAAT
258 GAGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAAT
*
17082891 TTATTTAGATAAACATTAA-CTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGG
323 TTATTTAGATAAACA-TAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGG
* * * * *
17082955 CGTAGAAATATTTGTGATAAAGCGCGGGAATTTATTTAGTTCAATATAAAAATTGTAAACTTATC
387 CGTAAAAATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATC
* ** *
17083020 AACTCAAGTACAAAAGCACACGAAT
452 AATTCAAGTACAAAAGCATGCAAAT
* * * * *
17083045 TTATTTAGTTTAACAAAAACTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGAC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* * * * * *
17083110 GTAAAAATAATGTCATATTCGTTATAAAGTGTGAGAATTTGTTTAGTTAAATACAACATTTGTAA
66 GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
17083175 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAACA
131 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAACA
* * * * *
17083240 ATTCAAATATGAGAGCATATTAGTAAGAAGTCGTAGAAATAATGACATATTCATGGTAAAGCGTG
196 ATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAAT-ACAT-TTCATGATAAAGCGCG
* * * * *
17083305 GGAATTTGTTTAGTTAAATATAACATTTGCAAACTTATCAACTCAAGTACAAAAGCACGCGAATA
259 AGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAATT
* * *
17083370 TATTTAGATAAACATAAACTTTAAACTTAATAATTCAAATATGATAGCATATTAATAAGAAGGCG
324 TATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGGCG
* ** *
17083435 TAAAAATATTTATGATAAAGTGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAA
389 TAAAAATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAA
* *
17083500 TTCAAATACAAAAGCA-GAAAAAT
454 TTCAAGTACAAAAGCATG-CAAAT
**
17083523 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAATATATTAATAAGAAGGC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* *
17083588 GTAAAAATAATGTCATATTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTTGTAA
66 GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
* * * * *
17083653 ACTTATCAATTCAAGTACAAAAACATGCAAATTTATTTAGATAAACA-TATGCTTTAAACTTAAC
131 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTA-ACTTTAAACTTAAC
* * * *
17083717 TATTCAAATATGATAGCATATTAATAAGAAGGCGTAGAAATAATGACATATTCGTGATAAAGTGC
195 AATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAAT-ACAT-TTCATGATAAAGCGC
* * * * * **
17083782 GGGAGTTTGTTTAGTTAAATATAACATTTGTAAACTTATCAACTTAAGTGCAAAAGCACGTGAAT
258 GAGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAAT
* * *
17083847 TTATTTAGATCAACATCCA-CTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGG
323 TTATTTAGATAAACAT-AAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGG
* * *
17083911 CGTAGAAATATTTATGATAAAGCACGAGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATC
387 CGTAAAAATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATC
* ** *
17083976 AATACAAGTACAAAAATAGGCAAAT
452 AATTCAAGTACAAAAGCATGCAAAT
** *
17084001 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAATATATTAATAAGCAGGC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* *** *
17084066 GTAAAAATAATGTCATATTAAAGATAAAGCACGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
66 GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
* * * *
17084131 ACTTATCAATTTAAGTACAAAAGCAAGCAAATTTATTTAGATAAACA-TAAGCTTTAAACTTAAC
131 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAA-CTTTAAACTTAAC
* * *
17084195 AATTTAAATATGATAGCATATTAATAAGAA-AGCGTAG--A-AAT--ATTTGA-GATAAAGCGCA
195 AATTCAAATATGATAGCATATTAATAAGAAGA-CGTAGAAATAATACATTTCATGATAAAGCGCG
* * * *
17084253 ACAATTTGTTTAGTTAAATATAAAACTTGTAAACTTATCAATTCAAGTACAACAA-CAGGCAAAT
259 AGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAA-AAGCACGCAAAT
* * * * * * *
17084317 TTATTTAGATAAATATAATCTTTAAATTTTACAATTCAAATATGATAATATATTAATATGAAGGT
323 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGGC
* *
17084382 GTAAAAATAATGACATACTCGTGATAAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTTATAA
388 GTAAAAAT-AT----T--T-GTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAA
* *
17084447 ACTTATCAATTCAAGTACAAAAGCGTGCGAAT
445 ACTTATCAATTCAAGTACAAAAGCATGCAAAT
* * * *
17084479 TTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAATATGAGAGCATTTTAGTAAGAAGGC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* * * * *
17084544 ATAGAAATAATGACATATTCGTGATAAAGTGCGGGAATTTGTTTAGTTAAATATAAAGTTTGTAA
66 GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
* *
17084609 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAGCATTAACTTTAAAATTAACA
131 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAACA
* * * * * *
17084674 GTTTAACTATGATAGCATATTAGTAAGAAGATGT--AAA-AAT--ATTT-ATGATAAAGCGCGAA
196 ATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAATACATTTCATGATAAAGCGCGAG
* * * *
17084733 AATTTGTTTAG--------------T-TAAACTTATCAATTCAAATGCAAAAGCAGGCAAATTTA
261 AATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAATTTA
* * * * *
17084783 TTTAGCTAAACATAAGCTTTAAGCTTAACAATTCAAATACGATAATATATTAATAAGAAGGCATA
326 TTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGGCGT-
*
17084848 AAAATAATGTTATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAATTTTGTAAACT
390 --AA-AA----ATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACT
17084913 TATCAATTCAAGTACAAAAGCATGCAAAT
448 TATCAATTCAAGTACAAAAGCATGCAAAT
* * *
17084942 TTATTTAGATAAACATATGCTTTAAACTTAACTATTTAAATATGATAGCATATTAATAAGAAGGC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* * * * *
17085007 GTATAAATAATGACATATTTGTGATAAAGCGCGAGAATTTATTTAGTTAAGTATAACATTTGTAA
66 GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
* * * *
17085072 ACTTATCAACTCAAGTACAAAAGGACGCGAATTTACTTAGATCAACATCAACTTTAAACTTAACA
131 ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAACA
* * * *
17085137 ATTCAAATATGATAGCATATTAATAAGAAGGCATAG--A-AAT--ATTT-ATGATAAAACGCGGG
196 ATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAATACATTTCATGATAAAGCGCGAG
* * * *
17085196 AATTTATTTAGTTAAATATAAAATTTGTAAACTTATCAATTCAAGTACAAAATCAAGCAAATTTA
261 AATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAATTTA
* * *
17085261 TTTAGATAAACATAAGCTTTAAACTTAACAATTCTAATATGATAATATATTAATAAGAAGGCCTA
326 TTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGGCGTA
* *
17085326 AAAATAATGTCATATTAAAGATAAAGCACGGGGATTTGTTTAGTTAAATATAAAATTTGTAAACT
391 AAAAT-AT-T--T-GT---GATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACT
* *
17085391 TAACAATTCAAGTACAAAAGCGTGCAAAT
448 TATCAATTCAAGTACAAAAGCATGCAAAT
* * * * * * * * *
17085420 TTATTTAGTTAAATAGATGCTTCAAACTTACCTATTCAAATATGATATCATATTTATAAGAAGGC
1 TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
* * * * * * *
17085485 GTAGAAATAATGACATGTTTGTAATAAAAGTGTGAGAATTTGTTCAGTTAAATATAAAA-TTGTT
66 GTAAAAATAATGACATATTCGTGAT-AAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTG-T
* * *** * *
17085549 AAACTCATCAACTCAAGTACGAAAGGGTGCGAATTTATTTAGATAAACATAAACTTTAAACTTAG
129 AAACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAA
* * **
17085614 CAATTCAAATATGAGAGCATATTAATAAGAAGACGTAAAAATAATTACATATTTGTGATAAAGCG
194 CAATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAA-TACAT-TTCATGATAAAGCG
* *
17085679 TGAGAATTTATTTAGTTAAAT
257 CGAGAATTTGTTTAGTTAAAT
17085700 CAAGTACAAA
Statistics
Matches: 2315, Mismatches: 273, Indels: 125
0.85 0.10 0.05
Matches are distributed among these distances:
462 2 0.00
463 389 0.17
464 2 0.00
466 3 0.00
467 2 0.00
469 1 0.00
470 124 0.05
471 10 0.00
472 3 0.00
474 3 0.00
475 7 0.00
476 1 0.00
477 8 0.00
478 1598 0.69
479 126 0.05
481 1 0.00
482 2 0.00
483 1 0.00
485 2 0.00
486 2 0.00
487 28 0.01
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (476 bp):
TTATTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAGCATATTAATAAGAAGGC
GTAAAAATAATGACATATTCGTGATAAAGCGCGAGAATTTGTTTAGTTAAATATAAAATTTGTAA
ACTTATCAACTCAAGTACAAAAGCACGCGAATTTATTTAGATAAACATTAACTTTAAACTTAACA
ATTCAAATATGATAGCATATTAATAAGAAGACGTAGAAATAATACATTTCATGATAAAGCGCGAG
AATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAACTCAAGTACAAAAGCACGCAAATTTA
TTTAGATAAACATAAGCTTTAAACTTAACAATTCAAATATGATAACATATTAATAAGAAGGCGTA
AAAATATTTGTGATAAAGCACGGGAATTTGTTTAGTTAAATATAAAATTTGTAAACTTATCAATT
CAAGTACAAAAGCATGCAAAT
Found at i:17084486 original size:59 final size:57
Alignment explanation
Indices: 17084407--17084517 Score: 141
Period size: 59 Copynumber: 1.9 Consensus size: 57
17084397 TACTCGTGAT
* * * * * *
17084407 AAAGCGCGGGAATTTGTTTAGTTAAATATAAAATTTATAAACTTATCAATTCAAGTACA
1 AAAGCGCGCGAATTTATTTAGATAAACAT-AAACTT-TAAACTTAACAATTCAAGTACA
*
17084466 AAAGCGTGCGAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAA
1 AAAGCGCGCGAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAA
17084518 ATATGAGAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 16 0.36
58 5 0.11
59 24 0.53
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (57 bp):
AAAGCGCGCGAATTTATTTAGATAAACATAAACTTTAAACTTAACAATTCAAGTACA
Found at i:17085810 original size:138 final size:138
Alignment explanation
Indices: 17085580--17085837 Score: 362
Period size: 138 Copynumber: 1.9 Consensus size: 138
17085570 AAAGGGTGCG
17085580 AATTTATTTAGATAAACATAAACTTTAAACTTAGCAATTCAAATATGAGAGCATATTAATAAGAA
1 AATTTATTTAGATAAACATAAACTTTAAACTTAGCAATTCAAATATGAGAGCATATTAATAAGAA
* * *
17085645 GACGTAAAAATAATTACATATTTGTGATAAAGCG-TGAGAATTTATTTAGTTAAATCAAGTACAA
66 GACGTAAAAATAATGACATATTCGTGATAAAGCGCTG-GAACTTATTTAGTTAAATCAAGTACAA
17085709 AAGCTCGCA
130 AAGCTCGCA
** * *
17085718 AATTTATTTAGATAAACA-AATGTTTTAAACTTAGCAATTCAAATATGATA-CAATATTAATACG
1 AATTTATTTAGATAAACATAA-ACTTTAAACTTAGCAATTCAAATATGAGAGC-ATATTAATAAG
* * *
17085781 AAG-TGTTAGAAATAATGACATATTCGTGATAAAGCGCTGGAACTTGTTTAGTTAAAT
64 AAGACG-TAAAAATAATGACATATTCGTGATAAAGCGCTGGAACTTATTTAGTTAAAT
17085838 ATAAAATTTG
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
137 4 0.04
138 100 0.94
139 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (138 bp):
AATTTATTTAGATAAACATAAACTTTAAACTTAGCAATTCAAATATGAGAGCATATTAATAAGAA
GACGTAAAAATAATGACATATTCGTGATAAAGCGCTGGAACTTATTTAGTTAAATCAAGTACAAA
AGCTCGCA
Found at i:17088590 original size:247 final size:249
Alignment explanation
Indices: 17087799--17089384 Score: 1811
Period size: 247 Copynumber: 6.4 Consensus size: 249
17087789 TATTTATTTT
** * * *
17087799 ATTTTTTAAATAATATTTGCAAGTGTTCGGCAAAAAATCATTCTATCATATTTAACTTTTCTTTT
1 ATTTTTTTTATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTT
** * * * **
17087864 AACAATATCAGCATGTGTTCGACGAAAAATT-TTTCAACTGTATTGCAGTTATGATCGGTATTGA
66 AACAATATTGGCACGTGTCCGAC-AAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGA
* * * *
17087928 ACTACTTCTTTACATTACATGTCTGTGTTTCTAAATATGTCCTAATCATATTTTG-CCCAAATTT
130 ACTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTT
* ** * *
17087992 A-ATTTTTTCACAATGTCTGCGTGTGTTTGACAAAGATTTATTTTATTGTGTTTA
195 ACAGTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
* * * * * *
17088046 A-ATCTTTT-TAATTTGGTTGCATGTATTCGACAAAAAATCATTCTATCATGTTTAACTTTCCTT
1 ATTTTTTTTATAATAT--TTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTT
* * ** * * * **
17088109 TTAACAATATTGACTCGTGTCTTACCAAAATTCATTCAATTGTATTGTAGTTATGATCGGTATTG
64 TTAACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTG
* * * * *
17088174 AACTACTTCTTTATATGACGTGTTTGTGTTACTAAATATGTCCTACTCATATTTTG-TCCACGTT
129 AACTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATT
* * *
17088238 TACAGTTTTTCACAATGTCTGCATGTGTCCGACAAAGATTTAATTTGTTGTGTTTA
194 TACAGTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
* * * * * * * *
17088294 ACTTTTTCTATTATGTTTTCACGTATTCGACAAAAAATCATTCTACCATGTTTAATTTTTCTTTT
1 ATTTTTTTTATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTT
* *
17088359 AACAATATTGGCACGTGTCCGACAAAAATTCATTCAATTGTATTGCAATTATGATCGACATTGAA
66 AACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAA
* * * *
17088424 CTACTTCTTTAAATGACGTGTCTATGTTTCT-AATATGTCCTAATCATATTTTGAT-CGCGTTTA
131 CTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTTA
* * *
17088487 CAGTTTTCCACAATGTCTGCATGTGTCTGAAAAAGATTTATTTTGTTGTGTTTA
196 CAGTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
* * *
17088541 ATTTTTTTTATAATATTTGCACGTGTCCGACAAAAAATCATTGTACCATGTTTAACTTTTCTTTT
1 ATTTTTTTTATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTT
** * *
17088606 AACAATATTTACACGTGTCCGACAAAAATTCATTTAACTGTATTGTAGTTATGATCGACATTGAA
66 AACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAA
* * * * * *
17088671 CTATTTCTTTATATGACGTGTCAGTGTTTCTAAATATATTCTAATCATATTTTG-TCCACGTTTA
131 CTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTTA
* * * * *
17088735 TAGATTTTCACAATGACTACGTGTGTCCGACAAAGATTTATTTTGTTGTGTTT-
196 CAGTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
* * * * * *
17088788 ATCTTTTCTATAATGTTTGCACGTGTTCGACAAAAAATCATTCTACCATGTTTAACATTCCTTTT
1 ATTTTTTTTATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTT
** * * * * *
17088853 AACAATATCCGCACGTGTCTGGCAAAAATTCATTCAACTGTATTGTAGTTATGAGCGACATTAAA
66 AACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAA
**
17088918 CTACTTCTTTAGTTGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTT-ATCCACATTTA
131 CTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTTA
* * ** *
17088982 -ATTTTTTTTCACAATGTCTGTGTGTGTCCGAAAATTATATATTTTGTTGTGTTTA
196 CA--GTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
**
17089037 ATTTTTTAAATAATATTTGCACGTGTTCCG-CAAAAAATCATTCTATCATGTTTAACTTTTCTTT
1 ATTTTTTTTATAATATTTGCACGTGTT-CGACAAAAAATCATTCTATCATGTTTAACTTTTCTTT
* * * * *
17089101 TAACAATATTTGCACATGTCCGACAAAAATTCGTTCAATTGTATTGCAGTTATGATTGACATTGA
65 TAACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGA
* * *
17089166 AGTACTTCTTTACATGACATGTTTGTGTTTCTAAATATGTCCTAATCATATTTT-ATCCACATTT
130 ACTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTT
* * * * * * ** * *
17089230 ACATTTTTTCACGATGTTTGCGCGTGTTCTACAAAA-ATCGATTCTGTTGTGATT-
195 ACAGTTTTTCACAATGTCTGCGTGTGTCCGA-AAAAGATTTATTTTGTTGTGTTTA
* * * * **
17089284 ATTTATTTTTAATAATGTTTGCAAGTGTTCGACAAAAATTCATTCTATCACGTTTAGGTTTTCTT
1 ATTT-TTTTT-ATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTT
* * *
17089349 CTAACAATATCT-GCACGTGTCTGACAAAACTTCATT
64 TTAACAATAT-TGGCACGTGTCCGACAAAAATTCATT
17089385 GAGCAGGACA
Statistics
Matches: 1145, Mismatches: 174, Indels: 38
0.84 0.13 0.03
Matches are distributed among these distances:
245 5 0.00
246 10 0.01
247 542 0.47
248 331 0.29
249 249 0.22
250 8 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (249 bp):
ATTTTTTTTATAATATTTGCACGTGTTCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTT
AACAATATTGGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAA
CTACTTCTTTACATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCCACATTTA
CAGTTTTTCACAATGTCTGCGTGTGTCCGAAAAAGATTTATTTTGTTGTGTTTA
Found at i:17088615 original size:57 final size:54
Alignment explanation
Indices: 17088535--17088639 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 54
17088525 TATTTTGTTG
* *
17088535 TGTTTAATTTTTTTTATAATATTTGCACGTGTCCGACAAAAAATCATTGTACCA
1 TGTTTAATTTTTTTTACAATATTTACACGTGTCCGACAAAAAATCATTGTACCA
*
17088589 TGTTTAACTTTTCTTTTAACAATATTTACACGTGTCCGACAAAAATTCATT
1 TGTTTAA-TTTT-TTTT-ACAATATTTACACGTGTCCGACAAAAAATCATT
17088640 TAACTGTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 7 0.16
55 4 0.09
56 4 0.09
57 30 0.67
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (54 bp):
TGTTTAATTTTTTTTACAATATTTACACGTGTCCGACAAAAAATCATTGTACCA
Found at i:17088762 original size:495 final size:494
Alignment explanation
Indices: 17087808--17089384 Score: 1908
Period size: 495 Copynumber: 3.2 Consensus size: 494
17087798 TATTTTTTAA
* * * * * *
17087808 ATAATATTTGCAAGTGTTCGGCAAAAAATCATTCTATCATATTTAACTTTTCTTTTAACAATATC
1 ATAATGTTTGCACGTATTCGACAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAACAATATC
* * * **
17087873 AGCATGTGTTCGACGAAAAATT-TTTCAACTGTATTGCAGTTATGATCGGTATTGAACTACTTCT
66 AGCACGTGTCCGAC-AAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAACTACTTCT
* * * ** *
17087937 TTACATTACATGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGCCCAAATTTAATTTTTTCA
130 TTAAATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCACATTTAATTTTTTCA
* * * * * *
17088002 CAATGTCTGCGTGTGTTTGACAAAGATTTATTTTATTGTGTTTAA-ATCTTTT-TAATTTGGTTG
195 CAATGTCTGCGTGTGTCTGAAAAAGATTTATTTTGTTGTGTTTAATTTTTTTTATAATAT--TTG
* * * * * *
17088065 CATGTATTCGACAAAAAATCATTCTATCATGTTTAACTTTCCTTTTAACAATATTGACTCGTGTC
258 CACGTGTCCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTTAACAATATTTACACGTGTC
** * **
17088130 TTACCAAAATTCATTCAATTGTATTGTAGTTATGATCGGTATTGAACTACTTCTTTATATGACGT
323 CGACAAAAATTCATTCAATTGTATTGTAGTTATGATCGACATTGAACTACTTCTTTATATGACGT
* * * * *
17088195 GTTTGTGTTACTAAATATGTCCTACTCATATTTTGTCCACGTTTACAGTTTTTCACAATGTCTGC
388 GTTTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACGTTTACAGATTTTCACAATGACTAC
17088260 ATGTGTCCGACAAAGATTTAATTTGTTGTGTTTAACTTTTTCT
453 ATGTGTCCGACAAAGATTTAATTTGTTGTGTTTAAC-TTTTCT
* * * *
17088303 ATTATGTTTTCACGTATTCGACAAAAAATCATTCTACCATGTTTAATTTTTCTTTTAACAATATT
1 ATAATGTTTGCACGTATTCGACAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAACAATATC
* * *
17088368 GGCACGTGTCCGACAAAAATTCATTCAATTGTATTGCAATTATGATCGACATTGAACTACTTCTT
66 AGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAACTACTTCTT
* * * * *
17088433 TAAATGACGTGTCTATGTTTCT-AATATGTCCTAATCATATTTTGATCGCGTTTACAGTTTTCCA
131 TAAATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCACATTTA-ATTTTTTCA
*
17088497 CAATGTCTGCATGTGTCTGAAAAAGATTTATTTTGTTGTGTTTAATTTTTTTTATAATATTTGCA
195 CAATGTCTGCGTGTGTCTGAAAAAGATTTATTTTGTTGTGTTTAATTTTTTTTATAATATTTGCA
* *
17088562 CGTGTCCGACAAAAAATCATTGTACCATGTTTAACTTTTCTTTTAACAATATTTACACGTGTCCG
260 CGTGTCCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTTAACAATATTTACACGTGTCCG
* * *
17088627 ACAAAAATTCATTTAACTGTATTGTAGTTATGATCGACATTGAACTATTTCTTTATATGACGTGT
325 ACAAAAATTCATTCAATTGTATTGTAGTTATGATCGACATTGAACTACTTCTTTATATGACGTGT
** * * * *
17088692 CAGTGTTTCTAAATATATTCTAATCATATTTTGTCCACGTTTATAGATTTTCACAATGACTACGT
390 TTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACGTTTACAGATTTTCACAATGACTACAT
* *
17088757 GTGTCCGACAAAGATTTATTTTGTTGTGTTTATCTTTTCT
455 GTGTCCGACAAAGATTTAATTTGTTGTGTTTAACTTTTCT
* * *
17088797 ATAATGTTTGCACGTGTTCGACAAAAAATCATTCTACCATGTTTAACATTCCTTTTAACAATATC
1 ATAATGTTTGCACGTATTCGACAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAACAATATC
* * * * * *
17088862 CGCACGTGTCTGGCAAAAATTCATTCAACTGTATTGTAGTTATGAGCGACATTAAACTACTTCTT
66 AGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAACTACTTCTT
**
17088927 TAGTTGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTT-ATCCACATTTAATTTTTTTT
131 TAAATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGAT-CACATTTAA--TTTTTT
* * ** * **
17088991 CACAATGTCTGTGTGTGTCCGAAAATTATATATTTTGTTGTGTTTAATTTTTTAAATAATATTTG
193 CACAATGTCTGCGTGTGTCTGAAAAAGATTTATTTTGTTGTGTTTAATTTTTTTTATAATATTTG
* *
17089056 CACGTGTTCCG-CAAAAAATCATTCTATCATGTTTAACTTTTCTTTTAACAATATTTGCACATGT
258 CACGTG-TCCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTTAACAATATTTACACGTGT
* * * * * *
17089120 CCGACAAAAATTCGTTCAATTGTATTGCAGTTATGATTGACATTGAAGTACTTCTTTACATGACA
322 CCGACAAAAATTCATTCAATTGTATTGTAGTTATGATCGACATTGAACTACTTCTTTATATGACG
* * ** * ** *
17089185 TGTTTGTGTTTCTAAATATGTCCTAATCATATTTTATCCACATTTACATTTTTTCACGATGTTTG
387 TGTTTGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACGTTTACAGATTTTCACAATGACTA
** * * * ** * ** *
17089250 CGCGTGTTCTACAAA-AATCGATTCTGTTGTGATTATTTATTTTT
452 CATGTGTCCGACAAAGATTTAATT-TGTTGTGTTTAACT-TTTCT
* * * * * ** *
17089294 AATAATGTTTGCAAGTGTTCGACAAAAATTCATTCTATCACGTTTAGGTTTTCTTCTAACAATAT
1 -ATAATGTTTGCACGTATTCGACAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAACAATAT
* * *
17089359 CTGCACGTGTCTGACAAAACTTCATT
65 CAGCACGTGTCCGACAAAAATTCATT
17089385 GAGCAGGACA
Statistics
Matches: 927, Mismatches: 143, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
494 177 0.19
495 406 0.44
496 253 0.27
497 13 0.01
498 78 0.08
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (494 bp):
ATAATGTTTGCACGTATTCGACAAAAAATCATTCTACCATGTTTAACTTTTCTTTTAACAATATC
AGCACGTGTCCGACAAAAATTCATTCAACTGTATTGCAGTTATGATCGACATTGAACTACTTCTT
TAAATGACGTGTCTGTGTTTCTAAATATGTCCTAATCATATTTTGATCACATTTAATTTTTTCAC
AATGTCTGCGTGTGTCTGAAAAAGATTTATTTTGTTGTGTTTAATTTTTTTTATAATATTTGCAC
GTGTCCGACAAAAAATCATTCTATCATGTTTAACTTTTCTTTTAACAATATTTACACGTGTCCGA
CAAAAATTCATTCAATTGTATTGTAGTTATGATCGACATTGAACTACTTCTTTATATGACGTGTT
TGTGTTTCTAAATATGTCCTAATCATATTTTGTCCACGTTTACAGATTTTCACAATGACTACATG
TGTCCGACAAAGATTTAATTTGTTGTGTTTAACTTTTCT
Found at i:17091366 original size:24 final size:24
Alignment explanation
Indices: 17091338--17091412 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
17091328 AGAAATAATC
* * *
17091338 TTTCAGTTAAATTCTGTTTAATTA
1 TTTCAATTAAACTCTGTTTATTTA
* *
17091362 TTTCAAATAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTA
17091386 TTTCAATTAAACTCTGTTTATTTA
1 TTTCAATTAAACTCTGTTTATTTA
17091410 TTT
1 TTT
17091413 GAGTCAAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTA
Found at i:17091421 original size:24 final size:24
Alignment explanation
Indices: 17091350--17091424 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
17091340 TCAGTTAAAT
*
17091350 TCTGTTTAATTATTTCAAAT-AAAC
1 TCTGTTTATTTATTTC-AATCAAAC
* *
17091374 TCTGTTTATTTGTTTCAATTAAAC
1 TCTGTTTATTTATTTCAATCAAAC
* *
17091398 TCTGTTTATTTATTTGAGTCAAAC
1 TCTGTTTATTTATTTCAATCAAAC
17091422 TCT
1 TCT
17091425 TATTAGTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (24 bp):
TCTGTTTATTTATTTCAATCAAAC
Found at i:17093293 original size:19 final size:19
Alignment explanation
Indices: 17093269--17093307 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17093259 ATAGTTTGAG
17093269 ATGCTTCAATTAGAAATTT
1 ATGCTTCAATTAGAAATTT
*
17093288 ATGCTTCAGTTAGAAATTT
1 ATGCTTCAATTAGAAATTT
17093307 A
1 A
17093308 GTCTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGCTTCAATTAGAAATTT
Found at i:17095866 original size:67 final size:67
Alignment explanation
Indices: 17095756--17095908 Score: 189
Period size: 67 Copynumber: 2.3 Consensus size: 67
17095746 AGTTATTTGA
* * * * * * *
17095756 GTTAGCCGAGTTAAGCTCGTAACTCCGGAATAGTTCGCAGACTTACGTTCCCAATTGATGATTAA
1 GTTAGCTGAGTTAAGCTTGCAACTCCGAAATAGCTCGCAGACTTACATTCCCAACTGATGATTAA
17095821 AG
66 AG
* ** * * *
17095823 GTTAGCTGAGTTAAGCTTGCAACTCTGAAATAGCTCGTGGACTTACATTTCCAGCTGATGATTCA
1 GTTAGCTGAGTTAAGCTTGCAACTCCGAAATAGCTCGCAGACTTACATTCCCAACTGATGATTAA
17095888 AG
66 AG
17095890 GTTAGCTGAGTTAAGCTTG
1 GTTAGCTGAGTTAAGCTTG
17095909 TAATATAAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (67 bp):
GTTAGCTGAGTTAAGCTTGCAACTCCGAAATAGCTCGCAGACTTACATTCCCAACTGATGATTAA
AG
Found at i:17114346 original size:22 final size:23
Alignment explanation
Indices: 17114308--17114350 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
17114298 TTTTTCTCTT
*
17114308 TTTCTTAGGTTTTAGTTATTTTC
1 TTTCTTAAGTTTTAGTTATTTTC
17114331 TTTCTTAAG-TTTAGTTATTT
1 TTTCTTAAGTTTTAGTTATTT
17114351 CATTTTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (23 bp):
TTTCTTAAGTTTTAGTTATTTTC
Found at i:17122143 original size:4 final size:4
Alignment explanation
Indices: 17122134--17122191 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
17122124 AATTGATCTG
* *
17122134 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAG AAAT AGAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
17122182 AAAT AAAT AA
1 AAAT AAAT AA
17122192 TTGTTAGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:17123126 original size:26 final size:26
Alignment explanation
Indices: 17123081--17123133 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17123071 CACTTAGGAA
*
17123081 TGTCGCTACATGAACATGTCCAGAAT
1 TGTCGCTACATGAACATGTCAAGAAT
* **
17123107 TGTCGCTGCATGAATGTGTCAAGAAT
1 TGTCGCTACATGAACATGTCAAGAAT
17123133 T
1 T
17123134 ATGCCTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
TGTCGCTACATGAACATGTCAAGAAT
Found at i:17126274 original size:17 final size:17
Alignment explanation
Indices: 17126254--17126317 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
17126244 ATTGTCACCA
17126254 CATTTCCTTTGTCACTG
1 CATTTCCTTTGTCACTG
***
17126271 CATTTTAATTGTCACTG
1 CATTTCCTTTGTCACTG
* * * *
17126288 CATTTGCGTTATCATTG
1 CATTTCCTTTGTCACTG
17126305 CATTTCCATTTGT
1 CATTTCC-TTTGT
17126318 TAATGCATTG
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
17 32 0.91
18 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.48
Consensus pattern (17 bp):
CATTTCCTTTGTCACTG
Found at i:17126307 original size:34 final size:34
Alignment explanation
Indices: 17126240--17126309 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
17126230 GTAGCTGTAA
* *
17126240 TTTAATTGTCACCACATTTCCTTTGTCACTGCAT
1 TTTAATTGTCACCACATTTCCGTTATCACTGCAT
** * *
17126274 TTTAATTGTCACTGCATTTGCGTTATCATTGCAT
1 TTTAATTGTCACCACATTTCCGTTATCACTGCAT
17126308 TT
1 TT
17126310 CCATTTGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTAATTGTCACCACATTTCCGTTATCACTGCAT
Found at i:17152362 original size:155 final size:156
Alignment explanation
Indices: 17152132--17152421 Score: 483
Period size: 155 Copynumber: 1.9 Consensus size: 156
17152122 ATTTCATTTA
* * *
17152132 ATACTCACGATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGATCCATATACTCATGATGA
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATCCATATACTCACGATAA
* * * *
17152197 CACATAGTCATCGGACCTTATAATCCGT-AAGGATTCATATACTCACGATGACACATAGTCATCG
66 CACATAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAATCATCG
17152261 GACCTCATAATCCGTAAAGGATTCAT
131 GACCTCATAATCCGTAAAGGATTCAT
* *
17152287 ATACTCACGATGACACATAGTCATCAGACCTCATAATCTGTAAAGGATTCATATACTCACGATAA
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATCCATATACTCACGATAA
*
17152352 CACATAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAATCATTG
66 CACATAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAATCATCG
17152417 GACCT
131 GACCT
17152422 TTACATTTAC
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
155 85 0.69
156 39 0.31
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (156 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATCCATATACTCACGATAA
CACATAGTCATCAGACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAATCATCG
GACCTCATAATCCGTAAAGGATTCAT
Found at i:17152421 original size:52 final size:52
Alignment explanation
Indices: 17152132--17152414 Score: 469
Period size: 52 Copynumber: 5.5 Consensus size: 52
17152122 ATTTCATTTA
* *
17152132 ATACTCACGATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGATCCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* * *
17152184 ATACTCATGATGACACATAGTCATCGGACCTTATAATCCGT-AAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
17152235 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
17152287 ATACTCACGATGACACATAGTCATCAGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
17152339 ATACTCACGATAACACATAGTCATCAGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
*
17152391 ATACTCACGATGACACATAATCAT
1 ATACTCACGATGACACATAGTCAT
17152415 TGGACCTTTA
Statistics
Matches: 216, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
51 48 0.22
52 168 0.78
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:17154066 original size:21 final size:21
Alignment explanation
Indices: 17154040--17154092 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17154030 AATAGTGCAG
*
17154040 ACTTCTACCGGTACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* * *
17154061 AGTTCTACTGATATAAGTGAC
1 ACTTCTACCGATACAAGTGAC
*
17154082 TCTTCTACCGA
1 ACTTCTACCGA
17154093 AACATGTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:17154933 original size:52 final size:51
Alignment explanation
Indices: 17154850--17155031 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 51
17154840 ATTTCATTTA
* * * * *
17154850 ATACTCACGATGACATATAGTCATCGGACCTCTTAATCCGTAAATGAATCAT
1 ATACTCACAATGACACATAGTCATCGAACCTCATAATCCTTAAA-GAATCAT
* * * *
17154902 ATGCTCACGATGACACATAGTCATCGAACCTCATAATTCTTAAAGGATTCAT
1 ATACTCACAATGACACATAGTCATCGAACCTCATAATCCTTAAA-GAATCAT
* * *
17154954 ATACTCATAATGACACGTAGTCATC-AGACCTCATAATCTTTAAAGAATTCAT
1 ATACTCACAATGACACATAGTCATCGA-ACCTCATAATCCTTAAAGAA-TCAT
* *
17155006 ATACTCACAATAAAACATAGTCATCG
1 ATACTCACAATGACACATAGTCATCG
17155032 GACTTATTTC
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 3 0.03
52 105 0.97
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.29
Consensus pattern (51 bp):
ATACTCACAATGACACATAGTCATCGAACCTCATAATCCTTAAAGAATCAT
Found at i:17175246 original size:52 final size:52
Alignment explanation
Indices: 17175186--17175372 Score: 295
Period size: 52 Copynumber: 3.6 Consensus size: 52
17175176 ATTTCATTTA
* *
17175186 ATACTCACGATGACACATAGTCATCGGACCTCGTAATCCGTAAAGAAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
*
17175238 ATACTCACGATGACACATAGTTATCGGACCTCATAATCCGTAAA-AGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGA-ATTCAT
* * *
17175290 ATACTCATGATGACACGTAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
*
17175342 ATACTCACGATAACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
17175373 ATTTCATTTA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
51 1 0.01
52 122 0.99
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGAATTCAT
Found at i:17176249 original size:51 final size:51
Alignment explanation
Indices: 17176175--17176277 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
17176165 GTTGTTATGA
* *
17176175 TTTTAGGTTAAAATATCATTTCCTTTACATTTACTATTTTACCCTTTTAAT
1 TTTTAGGTTAAAAAATAATTTCCTTTACATTTACTATTTTACCCTTTTAAT
17176226 TTTTAGGTTAAAAAATAATTTCCTTTACATTTACTATTTTACCCTTTTAAT
1 TTTTAGGTTAAAAAATAATTTCCTTTACATTTACTATTTTACCCTTTTAAT
17176277 T
1 T
17176278 AACAAGTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.52
Consensus pattern (51 bp):
TTTTAGGTTAAAAAATAATTTCCTTTACATTTACTATTTTACCCTTTTAAT
Found at i:17178753 original size:26 final size:27
Alignment explanation
Indices: 17178693--17178774 Score: 98
Period size: 26 Copynumber: 3.1 Consensus size: 27
17178683 TACTCTTAAT
* *
17178693 TCTA-GCTCGATAAGAGCGTAAACTTTG
1 TCTAGGCTCGATATGAGC-TAAACTCTG
17178720 TCTAGGCTCGA-ATGAGCTAAACTCTG
1 TCTAGGCTCGATATGAGCTAAACTCTG
* *
17178746 TTTGGGCTC-ATATGAGCTAAACTCTG
1 TCTAGGCTCGATATGAGCTAAACTCTG
17178772 TCT
1 TCT
17178775 GGTCTTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.02
26 32 0.67
27 9 0.19
28 6 0.12
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (27 bp):
TCTAGGCTCGATATGAGCTAAACTCTG
Found at i:17178801 original size:26 final size:26
Alignment explanation
Indices: 17178748--17178821 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
17178738 AAACTCTGTT
* * * * *
17178748 TGGGCTCATATGAGCTAAACTCTGTC
1 TGGGCTCAAATGAGTTAAATTTTATC
* * *
17178774 TGGTCTTAAATGTGTTAAATTTTATC
1 TGGGCTCAAATGAGTTAAATTTTATC
17178800 TGGGCTCAAATGAGTTAAATTT
1 TGGGCTCAAATGAGTTAAATTT
17178822 CTGTATCGAC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (26 bp):
TGGGCTCAAATGAGTTAAATTTTATC
Found at i:17187281 original size:26 final size:26
Alignment explanation
Indices: 17187252--17187403 Score: 187
Period size: 26 Copynumber: 5.8 Consensus size: 26
17187242 GTAAATTGTG
* *
17187252 TCTGGGCTCGAACGAGCTAAACTTTA
1 TCTGGGCTCGAATGAGCTAAACTCTA
* *
17187278 TCTGGACTCGTATGAGCTAAACTCTA
1 TCTGGGCTCGAATGAGCTAAACTCTA
*
17187304 TCTGGGCTCGAATGAGCTAAACTCTG
1 TCTGGGCTCGAATGAGCTAAACTCTA
* *
17187330 TCTGGGCTCGAATAAGCTAAACTCTG
1 TCTGGGCTCGAATGAGCTAAACTCTA
** * *
17187356 TCTGGGCTCTTATGAGCTAAACTTTGT
1 TCTGGGCTCGAATGAGCTAAACTCT-A
*
17187383 TCTGGGCTCGAATGAGATAAA
1 TCTGGGCTCGAATGAGCTAAA
17187404 TTTCTGTATT
Statistics
Matches: 109, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 91 0.83
27 18 0.17
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (26 bp):
TCTGGGCTCGAATGAGCTAAACTCTA
Found at i:17191818 original size:46 final size:45
Alignment explanation
Indices: 17191699--17191818 Score: 114
Period size: 48 Copynumber: 2.6 Consensus size: 45
17191689 TATCATCCAT
** * * *
17191699 ATATTCACCAATTTGCAACTTATGCAGAATCTGGGAACCTAAACAC
1 ATATTCACCAATTCACAAC-TATGCAGAAGCAGAGAACCTAAACAC
* * * *
17191745 ATTTATTCACCAGTTCATAACCTATGCAGGAGCAGAGAACCTAAACTC
1 A--TATTCACCAATTCACAA-CTATGCAGAAGCAGAGAACCTAAACAC
17191793 ATATTCACCAATTCACAACTAATGCA
1 ATATTCACCAATTCACAACT-ATGCA
17191819 TTAACTAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.03
46 21 0.36
48 35 0.59
49 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.26
Consensus pattern (45 bp):
ATATTCACCAATTCACAACTATGCAGAAGCAGAGAACCTAAACAC
Found at i:17195020 original size:12 final size:12
Alignment explanation
Indices: 17195003--17195037 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17194993 GATTGATCGA
*
17195003 TGCCACATGGGT
1 TGCCACACGGGT
17195015 TGCCACACGGGT
1 TGCCACACGGGT
17195027 TGCCACACGGG
1 TGCCACACGGG
17195038 CGTGTGGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (12 bp):
TGCCACACGGGT
Found at i:17202866 original size:28 final size:28
Alignment explanation
Indices: 17202826--17202881 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
17202816 TCAGTCTAGT
17202826 TTTTGTTTCTTTTTTCTTCATGACATAC
1 TTTTGTTTCTTTTTTCTTCATGACATAC
17202854 TTTTGTTTCTTTTTTCTTCATGACATAC
1 TTTTGTTTCTTTTTTCTTCATGACATAC
17202882 GTTCAGCCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.07, T:0.61
Consensus pattern (28 bp):
TTTTGTTTCTTTTTTCTTCATGACATAC
Found at i:17206050 original size:20 final size:19
Alignment explanation
Indices: 17206021--17206112 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 19
17206011 ATTTAAAAAT
*
17206021 CAAGTTAAAATGATTTTAAA
1 CAAGTCAAAAT-ATTTTAAA
* *
17206041 CAAGTCAAAATAATTTGAAT
1 CAAGTCAAAAT-ATTTTAAA
17206061 CAAGTCAAAATCATTTT-AA
1 CAAGTCAAAAT-ATTTTAAA
**
17206080 CACTTCAAAATATTTTTCAAA
1 CAAGTCAAAATA-TTTT-AAA
17206101 CAAGTCAAAATA
1 CAAGTCAAAATA
17206113 GCTCCAAGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
18 1 0.02
19 14 0.24
20 31 0.53
21 12 0.21
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.32
Consensus pattern (19 bp):
CAAGTCAAAATATTTTAAA
Found at i:17206105 original size:40 final size:40
Alignment explanation
Indices: 17206021--17206111 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
17206011 ATTTAAAAAT
* * * *
17206021 CAAGTTAAAATGATTTTAAACAAGTCAAAATAATTTGAAT
1 CAAGTCAAAATCATTTTAAACAAGTCAAAATAATTTCAAA
** *
17206061 CAAGTCAAAATCATTTT-AACACTTCAAAATATTTTTCAAA
1 CAAGTCAAAATCATTTTAAACAAGTCAAAATA-ATTTCAAA
17206101 CAAGTCAAAAT
1 CAAGTCAAAAT
17206112 AGCTCCAAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 12 0.28
40 31 0.72
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (40 bp):
CAAGTCAAAATCATTTTAAACAAGTCAAAATAATTTCAAA
Found at i:17206192 original size:21 final size:21
Alignment explanation
Indices: 17206174--17206214 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17206164 ATTTAACACT
17206174 TCAAAAT-CATTTTCAAACAAG
1 TCAAAATGC-TTTTCAAACAAG
17206195 TCAAAATGCTTTTCAAACAA
1 TCAAAATGCTTTTCAAACAA
17206215 TTTAATCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (21 bp):
TCAAAATGCTTTTCAAACAAG
Found at i:17208469 original size:35 final size:36
Alignment explanation
Indices: 17208388--17208471 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 36
17208378 TGTCGTTCCA
* * * *
17208388 CATGTTAAGCATGTTATTATTTTGATTTTTTATTCG
1 CATGTTAAGCATGTCATTATTTTGATTTCTGATACG
17208424 CATGTTAAGCATGTCATTATTTTGA-TTCTGATACG
1 CATGTTAAGCATGTCATTATTTTGATTTCTGATACG
*
17208459 CATGTAAAGCATG
1 CATGTTAAGCATG
17208472 CCACTGTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 19 0.44
36 24 0.56
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (36 bp):
CATGTTAAGCATGTCATTATTTTGATTTCTGATACG
Found at i:17211468 original size:10 final size:10
Alignment explanation
Indices: 17211453--17211497 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
17211443 TCTTTTATAA
17211453 TTTTTATACT
1 TTTTTATACT
17211463 TTTTTATAC-
1 TTTTTATACT
17211472 TTTTTAT--T
1 TTTTTATACT
* *
17211480 TTTTTAAAAT
1 TTTTTATACT
17211490 TTTTTATA
1 TTTTTATA
17211498 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 6 0.20
9 7 0.23
10 17 0.57
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATACT
Found at i:17211469 original size:19 final size:17
Alignment explanation
Indices: 17211445--17211493 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
17211435 TTGAAAAATC
17211445 TTTTATAATTTTTATACTT
1 TTTTATAATTTTTAT--TT
*
17211464 TTTTATACTTTTTATTT
1 TTTTATAATTTTTATTT
*
17211481 TTTTAAAATTTTT
1 TTTTATAATTTTT
17211494 TATATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATAATTTTTATTT
Found at i:17211500 original size:9 final size:9
Alignment explanation
Indices: 17211445--17211500 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
17211435 TTGAAAAATC
*
17211445 TTTTATAAT
1 TTTTATATT
17211454 TTTTATACTT
1 TTTTATA-TT
*
17211464 TTTTATACT
1 TTTTATATT
17211473 TTTTAT-TT
1 TTTTATATT
*
17211481 TTTTAAAATT
1 TTTT-ATATT
17211491 TTTTATATT
1 TTTTATATT
17211500 T
1 T
17211501 AAAAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.13
9 20 0.51
10 14 0.36
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:17213687 original size:18 final size:16
Alignment explanation
Indices: 17213650--17213692 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
17213640 TTTTCAAGTT
17213650 TGTAATGTTTTATATTA
1 TGTAAT-TTTTATATTA
*
17213667 TGTTATTTTTATATATAA
1 TGTAATTTTTATAT-T-A
17213685 TGTAATTT
1 TGTAATTT
17213693 ATAACAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (16 bp):
TGTAATTTTTATATTA
Found at i:17216855 original size:16 final size:18
Alignment explanation
Indices: 17216831--17216868 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
17216821 CTAACATTTA
*
17216831 TTTATTAAA-ATAATAAT
1 TTTATTAAATAAAATAAT
17216848 TTTA-TAAATAAAATAAT
1 TTTATTAAATAAAATAAT
17216865 TTTA
1 TTTA
17216869 AGGGAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTATTAAATAAAATAAT
Found at i:17217792 original size:22 final size:22
Alignment explanation
Indices: 17217761--17217803 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17217751 CAACGTATGA
**
17217761 GTGATCAAAATATTAAATTTTT
1 GTGATCAAAATAGAAAATTTTT
*
17217783 GTGATTAAAATAGAAAATTTT
1 GTGATCAAAATAGAAAATTTT
17217804 AAACTTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
GTGATCAAAATAGAAAATTTTT
Found at i:17221442 original size:24 final size:27
Alignment explanation
Indices: 17221388--17221439 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
17221378 CCACTAGCTC
17221388 TCTTCAACTTTTTTTACTTTCCCTTTT
1 TCTTCAACTTTTTTTACTTTCCCTTTT
17221415 TCTTCAA-TTTTTTTACTTT-CCTTTT
1 TCTTCAACTTTTTTTACTTTCCCTTTT
17221440 CTTTTTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
26 12 0.48
27 7 0.28
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (27 bp):
TCTTCAACTTTTTTTACTTTCCCTTTT
Found at i:17223192 original size:32 final size:32
Alignment explanation
Indices: 17223139--17223214 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
17223129 CAACCATTTA
*
17223139 AATATCCAACAAGCTTGAAACATAATAAATTC
1 AATATCCAACAAGCTTAAAACATAATAAATTC
* *
17223171 AATATCCAATAA-CTTTAAAACATAATAATTTC
1 AATATCCAACAAGC-TTAAAACATAATAAATTC
* *
17223203 AAAATCTAACAA
1 AATATCCAACAA
17223215 AATAATTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
AATATCCAACAAGCTTAAAACATAATAAATTC
Found at i:17227027 original size:25 final size:23
Alignment explanation
Indices: 17226999--17227045 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
17226989 AGTTGGATCT
17226999 GAATTAAATTCTAAAAAGATAATTG
1 GAATTAAA-TCTAAAAA-ATAATTG
*
17227024 GAATTAAATCTAAACAATAATT
1 GAATTAAATCTAAAAAATAATT
17227046 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (23 bp):
GAATTAAATCTAAAAAATAATTG
Found at i:17228348 original size:21 final size:20
Alignment explanation
Indices: 17228324--17228363 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17228314 AAAAACAATT
17228324 ACATAAATATTAAAAGCCCAA
1 ACATAAATATTAAAA-CCCAA
* *
17228345 ACATAATTCTTAAAACCCA
1 ACATAAATATTAAAACCCA
17228364 CAATTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.23
Consensus pattern (20 bp):
ACATAAATATTAAAACCCAA
Found at i:17228379 original size:14 final size:14
Alignment explanation
Indices: 17228343--17228388 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
17228333 TTAAAAGCCC
*
17228343 AAACATAATTCTTA
1 AAACACAATTCTTA
17228357 AAACCCACAATTCTTA
1 AAA--CACAATTCTTA
*
17228373 AAACACAATTATTA
1 AAACACAATTCTTA
17228387 AA
1 AA
17228389 GCCCGATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
16 13 0.46
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (14 bp):
AAACACAATTCTTA
Found at i:17230246 original size:15 final size:15
Alignment explanation
Indices: 17230218--17230257 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
17230208 TGCAAAGTTG
*
17230218 TAAAATAAATTAAAC
1 TAAAATAAAATAAAC
17230233 -AAATATAAAATAAAC
1 TAAA-ATAAAATAAAC
17230248 TAAAATAAAA
1 TAAAATAAAA
17230258 ACAGATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAATAAAATAAAC
Found at i:17232112 original size:22 final size:25
Alignment explanation
Indices: 17232066--17232113 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
17232056 TTTATTTGAT
17232066 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAACAAATTAA
17232091 AATAT-TTTTGA-ATAA-AAATTAA
1 AATATGTTTTGATATAACAAATTAA
17232113 A
1 A
17232114 GTTGAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 6 0.26
25 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AATATGTTTTGATATAACAAATTAA
Found at i:17232243 original size:20 final size:19
Alignment explanation
Indices: 17232218--17232275 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
17232208 TCAATATTTA
17232218 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
*
17232238 AATCAAG-TAAGAATTTTTC
1 AATCAAGTTAA-AATGTTTC
*
17232257 AATCAAAGTTAAATTGTTT
1 AATC-AAGTTAAAATGTTT
17232276 TTAAAACAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.34
20 18 0.56
21 3 0.09
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:17239966 original size:15 final size:15
Alignment explanation
Indices: 17239942--17239972 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17239932 AAAACTTTTA
17239942 ATATTATTTCCAAGT
1 ATATTATTTCCAAGT
*
17239957 ATATTTTTTCCAAGT
1 ATATTATTTCCAAGT
17239972 A
1 A
17239973 AGTAAAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (15 bp):
ATATTATTTCCAAGT
Found at i:17240352 original size:17 final size:18
Alignment explanation
Indices: 17240332--17240366 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17240322 AAAATAATAA
17240332 AAAAT-AAAAAACAAAAT
1 AAAATAAAAAAACAAAAT
17240349 AAAATAAAAAAACAAAAT
1 AAAATAAAAAAACAAAAT
17240367 TGGGTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAATAAAAAAACAAAAT
Found at i:17240913 original size:50 final size:49
Alignment explanation
Indices: 17240837--17241057 Score: 156
Period size: 50 Copynumber: 4.4 Consensus size: 49
17240827 CCCTCTATAA
* * * * *
17240837 CTTTAGGGGTATAGGATTTGCTCTTGTAGCTTTAATTTTCCCTTTTCTAG
1 CTTTAGGAGTATAAGATTCGCCCTTGTAGCTTTAATTTTCCCTCTTC-AG
* * * * *
17240887 CTTTAGGAGTATAAGATTCACCCTTGTGGCTTCAATCTGTCCCTCTACAG
1 CTTTAGGAGTATAAGATTCGCCCTTGTAGCTTTAAT-TTTCCCTCTTCAG
* * * * * *
17240937 CATTAGGTGTATGAGATTCGCCATTG-CGTCTTTAATTTGCCCCTCTTCCAG
1 CTTTAGGAGTATAAGATTCGCCCTTGTAG-CTTTAATTT-TCCCTCTT-CAG
* ** * * *
17240988 CTTCAGGAGTATAAGATTCGCCCTTACAGCTTCAATTTGCCCCTCTACAG
1 CTTTAGGAGTATAAGATTCGCCCTTGTAGCTTTAATTT-TCCCTCTTCAG
* * *
17241038 CTTTAAGTGTATGAGATTCG
1 CTTTAGGAGTATAAGATTCG
17241058 TCATTGCGGC
Statistics
Matches: 133, Mismatches: 33, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
49 2 0.02
50 83 0.62
51 47 0.35
52 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (49 bp):
CTTTAGGAGTATAAGATTCGCCCTTGTAGCTTTAATTTTCCCTCTTCAG
Found at i:17241002 original size:101 final size:100
Alignment explanation
Indices: 17240865--17241107 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 100
17240855 TGCTCTTGTA
* * * *** *
17240865 GCTTTAATTTTCCCTTTTCTAGCTTTAGGAGTATAAGATTCACCCTTGTGGCTTCAATCTGTCCC
1 GCTTTAATTTCCCCTCTTCCAGCTTTAGGAGTATAAGATTCACCCTTACAGCTTCAATCTGCCCC
*
17240930 TCTACAGCATTAGGTGTATGAGATTCGCCATTGCG
66 TCTACAGCATTAAGTGTATGAGATTCGCCATTGCG
* * * *
17240965 TCTTTAATTTGCCCCTCTTCCAGCTTCAGGAGTATAAGATTCGCCCTTACAGCTTCAATTTGCCC
1 GCTTTAATTT-CCCCTCTTCCAGCTTTAGGAGTATAAGATTCACCCTTACAGCTTCAATCTGCCC
* *
17241030 CTCTACAGCTTTAAGTGTATGAGATTCGTCATTGCG
65 CTCTACAGCATTAAGTGTATGAGATTCGCCATTGCG
* * *
17241066 GCTTCAATCTACCCCTC--CACAGCTTTAGGGGTATAAGATTCA
1 GCTTTAAT-TTCCCCTCTTC-CAGCTTTAGGAGTATAAGATTCA
17241108 TTGTTTTGTC
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 1 0.01
100 29 0.24
101 89 0.74
102 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (100 bp):
GCTTTAATTTCCCCTCTTCCAGCTTTAGGAGTATAAGATTCACCCTTACAGCTTCAATCTGCCCC
TCTACAGCATTAAGTGTATGAGATTCGCCATTGCG
Found at i:17241070 original size:50 final size:50
Alignment explanation
Indices: 17240885--17241106 Score: 228
Period size: 50 Copynumber: 4.4 Consensus size: 50
17240875 TCCCTTTTCT
* * * * *
17240885 AGCTTTAGGAGTATAAGATTCACCCTTGTGGCTTCAATCTGTCCCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCTCTAC
* * * * * *
17240935 AGCATTAGGTGTATGAGATTCGCCATTGCGTCTTTAATTTGCCCCTCTTCC
1 AGCTTTAGGTGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCTC-TAC
* * * * * *
17240986 AGCTTCAGGAGTATAAGATTCGCCCTTACAGCTTCAATTTGCCCCTCTAC
1 AGCTTTAGGTGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCTCTAC
* * * * *
17241036 AGCTTTAAGTGTATGAGATTCGTCATTGCGGCTTCAATCTACCCCTCCAC
1 AGCTTTAGGTGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCTCTAC
*
17241086 AGCTTTAGGGGTATAAGATTC
1 AGCTTTAGGTGTATAAGATTC
17241107 ATTGTTTTGT
Statistics
Matches: 136, Mismatches: 35, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
50 96 0.71
51 40 0.29
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (50 bp):
AGCTTTAGGTGTATAAGATTCGCCATTGCGGCTTCAATCTGCCCCTCTAC
Found at i:17253244 original size:26 final size:26
Alignment explanation
Indices: 17253215--17253271 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
17253205 TATTTAAAAC
17253215 TTCAAAAGGATATTGAATTATCCCGG
1 TTCAAAAGGATATTGAATTATCCCGG
*
17253241 TTCAAAAGGATATTGAATTATCCTGG
1 TTCAAAAGGATATTGAATTATCCCGG
17253267 TTCAA
1 TTCAA
17253272 GAGAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (26 bp):
TTCAAAAGGATATTGAATTATCCCGG
Found at i:17256099 original size:34 final size:34
Alignment explanation
Indices: 17256056--17256141 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
17256046 GACTAAATTT
*
17256056 TCGAATTTTCGAATTTTTATAACATTGTTCTATA
1 TCGAATTTTCGGATTTTTATAACATTGTTCTATA
*
17256090 TCGAATTTTCGGATTTTTATAACATTGTTTTATA
1 TCGAATTTTCGGATTTTTATAACATTGTTCTATA
17256124 TCGAATTTTCGGATTTTT
1 TCGAATTTTCGGATTTTT
17256142 CGGTGTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (34 bp):
TCGAATTTTCGGATTTTTATAACATTGTTCTATA
Found at i:17268650 original size:5 final size:5
Alignment explanation
Indices: 17268636--17268670 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
17268626 CAAAATAGGT
17268636 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
17268671 TGCCACCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:17268728 original size:34 final size:34
Alignment explanation
Indices: 17268688--17268760 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
17268678 TTGTTTTTAT
17268688 TTTATCACTTATTTCTTAAATTTTCAATTAATTA
1 TTTATCACTTATTTCTTAAATTTTCAATTAATTA
17268722 TTTATCACTTATTTCTTAAATTTTCAATTAATTA
1 TTTATCACTTATTTCTTAAATTTTCAATTAATTA
17268756 TTTAT
1 TTTAT
17268761 TAATTTAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (34 bp):
TTTATCACTTATTTCTTAAATTTTCAATTAATTA
Found at i:17287090 original size:90 final size:87
Alignment explanation
Indices: 17286974--17287500 Score: 386
Period size: 89 Copynumber: 5.8 Consensus size: 87
17286964 TTGTTTATAT
* * * *
17286974 TCACTTGGATATTTGAACTTTTACAATGCATTGAAAAGACCCTCAAACTTTTTCAAAAATAAACT
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAACTTTTTCAAAAA-AAAC-
* *
17287039 GATTAAGCCCCTATATTTTTTTTAC
64 AATTAAG-CCCTATATTTTTTTCAC
* * *
17287064 TCACTTGGGTACTTGAACTTTCACAATGCA-TAAGAAATACCTTCAAATTTTTTCAAAAAAAGA-
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAA-AAAGACCCTCAAACTTTTTCAAAAAAA-AC
* * *
17287127 AACTAAGCCCT-TATTTTTTGCAG
64 AATTAAGCCCTATATTTTTTTCAC
* * * * * * **
17287150 TCAATTTGGTACTTGAACTTTCAAAATGCATCAAAAAGGCCCTCAAAC-GTTAAAAAAAAAAGCA
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAACTTTTTCAAAAAAAA-CA
* *
17287214 ATTAAGCTC-ATGCTTTTGTTTGCAC
65 ATTAAGCCCTAT-ATTTT-TTT-CAC
* * * * * *
17287239 TCACTTGGATACTTAAACTTTCACAAT-AAATAAAAAAACCCTCAAACTTTTTCAAAAAAAGCAA
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAACTTTTTCAAAAAAAACAA
* * *
17287303 TTAAGCCCTTGCTTTTTTTTTAAC
66 TTAAGCCC-T-ATATTTTTTTCAC
* * *
17287327 TCACTTGGGTATTTGAACTTTCACAATGCATCAAAAAGACCCTCAAACATTTTTTGTTTTAAAAA
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAAC------T-TTTT---CA
* *
17287392 AAAAAGAAGCAATTAAGCCAT-TGCTTTTGTTTGCAC
56 AAAAA-AA-CAATTAAGCCCTAT-ATTTT-TTT-CAC
* * * * *
17287428 TCACTTGGATACTTGAAGTTTCACAATACATTAAAAAGACTCTCAAAATTTTT-AAAAAAAATCA
1 TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAACTTTTTCAAAAAAAA-CA
17287492 ATTAAGCCC
65 ATTAAGCCC
17287501 CTACAATAAC
Statistics
Matches: 341, Mismatches: 67, Indels: 59
0.73 0.14 0.13
Matches are distributed among these distances:
84 1 0.00
85 9 0.03
86 55 0.16
87 10 0.03
88 58 0.17
89 68 0.20
90 60 0.18
91 1 0.00
94 4 0.01
95 2 0.01
96 4 0.01
98 1 0.00
99 10 0.03
100 5 0.01
101 53 0.16
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (87 bp):
TCACTTGGGTACTTGAACTTTCACAATGCATTAAAAAGACCCTCAAACTTTTTCAAAAAAAACAA
TTAAGCCCTATATTTTTTTCAC
Found at i:17287296 original size:88 final size:87
Alignment explanation
Indices: 17286912--17287499 Score: 385
Period size: 88 Copynumber: 6.6 Consensus size: 87
17286902 ACTTGGGTTT
* * * * **
17286912 ACAATGCATCAAAAAGACTCTCAAAC--TTT-AAAAAAA--AATTGAACCCTTGCTTTTGTTTAT
1 ACAATGAAT-AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATT-AAGCCATGCTTTTGTTTGC
* * *
17286972 ATTCACTTGGATATTTGAACTTTT
64 ACTCACTTGGATACTTGAACTTTC
* * * *
17286996 ACAATGCATTGAAAAGACCCTCAAACTTTTTCAAAAATAAA-CTGATTAAGCCCCTAT-ATTTT-
1 ACAATG-AATAAAAAGACCCTCAAACTTTTT-AAAAA-AAAGC-AATTAAG--CC-ATGCTTTTG
* *
17287058 TTT-TACTCACTTGGGTACTTGAACTTTC
59 TTTGCACTCACTTGGATACTTGAACTTTC
* * * * * * * *
17287086 ACAATGCATAAGAAATACCTTCAAATTTTTTCAAAAAAAGAAACTAAGCC---CTTATTTTTTGC
1 ACAATGAATAA-AAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCATGCTT-TTGTTTGC
* *
17287148 AGTCAATTTGG-TACTTGAACTTTC
64 ACTC-ACTTGGATACTTGAACTTTC
* * * * **
17287172 AAAATGCATCAAAAAGGCCCTCAAACGTTAAAAAAAAAAGCAATTAAGCTCATGCTTTTGTTTGC
1 ACAATGAAT-AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGC-CATGCTTTTGTTTGC
*
17287237 ACTCACTTGGATACTTAAACTTTC
64 ACTCACTTGGATACTTGAACTTTC
* * * * * **
17287261 ACAATAAATAAAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTAA
1 ACAATGAATAAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAG-CCATGCTTTTGTTTGCA
* *
17287326 CTCACTTGGGTATTTGAACTTTC
65 CTCACTTGGATACTTGAACTTTC
*
17287349 ACAATGCATCAAAAAGACCCTCAAACATTTTTTGTTTTAAAAAAAAAAGAAGCAATTAAGCCATT
1 ACAATGAAT-AAAAAGACCCTCAAAC------T-TTTT----AAAAAA-AAGCAATTAAGCCA-T
*
17287414 GCTTTTGTTTGCACTCACTTGGATACTTGAAGTTTC
52 GCTTTTGTTTGCACTCACTTGGATACTTGAACTTTC
* * *
17287450 ACAAT-ACATTAAAAAGACTCTCAAAATTTTTAAAAAAAATCAATTAAGCC
1 ACAATGA-A-TAAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCC
17287500 CCTACAATAA
Statistics
Matches: 392, Mismatches: 72, Indels: 75
0.73 0.13 0.14
Matches are distributed among these distances:
83 2 0.01
84 22 0.06
85 4 0.01
86 56 0.14
87 8 0.02
88 88 0.22
89 65 0.17
90 54 0.14
91 6 0.02
92 6 0.02
93 1 0.00
94 4 0.01
95 2 0.01
96 4 0.01
100 7 0.02
101 62 0.16
102 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (87 bp):
ACAATGAATAAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCATGCTTTTGTTTGCAC
TCACTTGGATACTTGAACTTTC
Found at i:17287473 original size:101 final size:99
Alignment explanation
Indices: 17287292--17287480 Score: 270
Period size: 101 Copynumber: 1.9 Consensus size: 99
17287282 AAACTTTTTC
* * * * * *
17287292 AAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTAACTCACTTGGGTATTTGAACTTTCACAATGCA
1 AAAAAAAGCAATTAAGCCATTGCTTTTGTTTGAACTCACTTGGATACTTGAACTTTCACAATACA
17287357 TCAAAAAGACCCTCAAACATTTTTTGTTTTAAAAA
66 TCAAAAAGACCCTCAAA-ATTTTTTGTTTTAAAAA
* *
17287392 AAAAAGAAGCAATTAAGCCATTGCTTTTGTTTGCACTCACTTGGATACTTGAAGTTTCACAATAC
1 AAAAA-AAGCAATTAAGCCATTGCTTTTGTTTGAACTCACTTGGATACTTGAACTTTCACAATAC
* *
17287457 ATTAAAAAGACTCTCAAAATTTTT
65 ATCAAAAAGACCCTCAAAATTTTT
17287481 AAAAAAAATC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 11 0.14
101 67 0.86
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (99 bp):
AAAAAAAGCAATTAAGCCATTGCTTTTGTTTGAACTCACTTGGATACTTGAACTTTCACAATACA
TCAAAAAGACCCTCAAAATTTTTTGTTTTAAAAA
Found at i:17290551 original size:86 final size:86
Alignment explanation
Indices: 17290460--17290926 Score: 449
Period size: 86 Copynumber: 5.3 Consensus size: 86
17290450 TTACACCTAC
* * * * *
17290460 TTTTTTTGCACACACTTGGGTACTTGAACTTTCACAATCCATCAAAAATACCCTTAAACTTTTCA
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCAT-AAAAAAACCCTCAAACTTTTCA
* *
17290525 AAAAAAGTAACTAAGCCCCTGTTT
65 AAAAAAGCAATTAAGCCCCTG--T
* * *
17290549 TTTTTTTGCACCCAATTGGGTATTTGAACTTTCAAAATGCATAAAAAAAGGCCCTCAAACTTTTT
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCATAAAAAAA--CCCTCAAAC-TTTT
* **
17290614 CAAAAAAAAAAGTAATTAAGCTTCTGCT
63 C---AAAAAAAGCAATTAAGCCCCTG-T
* ** * *
17290642 TTTGTTTATACTCATTTGGGTACTTGAACTTTCACAATGCATCAAAAACACCCTCAAAC-TTT-A
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCAT-AAAAAAACCCTCAAACTTTTCA
* *
17290705 AAAAAAACAATTAAGCCCCTGC
65 AAAAAAGCAATTAAGCCCCTGT
* * *
17290727 TTTTTTTGCGCTCACTTGGGTACTTGAACTTTCACAATGCATAAAAAAAACCTCAAACTTTTTCA
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCATAAAAAAACCCTCAAAC-TTTTCA
* * *
17290792 CAAAATGCAATTAAGCCCCT-A
65 AAAAAAGCAATTAAGCCCCTGT
* * * * * *
17290813 CTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAAGACCTTAATATTTTTC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCATAAAAAAA-CCCTCAA-ACTTTTC
* * * *
17290878 GAAAAAAGAAATTAAGTCCCT-A
64 AAAAAAAGCAATTAAGCCCCTGT
17290900 TTTTTTT-CACTCAATTGGGTACTTGAA
1 TTTTTTTGCACTCAATTGGGTACTTGAA
17290927 TCGTCCTTAA
Statistics
Matches: 317, Mismatches: 49, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
84 14 0.04
85 37 0.12
86 84 0.26
87 52 0.16
88 7 0.02
89 37 0.12
90 11 0.03
91 5 0.02
92 9 0.03
93 36 0.11
94 25 0.08
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (86 bp):
TTTTTTTGCACTCAATTGGGTACTTGAACTTTCACAATGCATAAAAAAACCCTCAAACTTTTCAA
AAAAAGCAATTAAGCCCCTGT
Found at i:17291038 original size:18 final size:19
Alignment explanation
Indices: 17291005--17291062 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
17290995 ATGATAAAAA
17291005 AATAAAAATCAATAAA-ATT
1 AATAAAAAT-AATAAATATT
*
17291024 -ATAAAAATAATTAAATTTT
1 AATAAAAATAA-TAAATATT
*
17291043 AATAAAAATATAAAAATATT
1 AATAAAAATA-ATAAATATT
17291063 TAAAATTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 12 0.38
19 2 0.06
20 15 0.47
21 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAAATAATAAATATT
Found at i:17291039 original size:17 final size:18
Alignment explanation
Indices: 17291006--17291040 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17290996 TGATAAAAAA
17291006 ATAAAAATCAATAAAATT
1 ATAAAAATCAATAAAATT
*
17291024 ATAAAAAT-AATTAAATT
1 ATAAAAATCAATAAAATT
17291041 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAATCAATAAAATT
Found at i:17291412 original size:8 final size:8
Alignment explanation
Indices: 17291412--17291439 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17291402 TTTATAATTT
17291412 TTTTATGA
1 TTTTATGA
17291420 TTTTATGA
1 TTTTATGA
17291428 TTTTATGA
1 TTTTATGA
17291436 TTTT
1 TTTT
17291440 TTTCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (8 bp):
TTTTATGA
Found at i:17291422 original size:20 final size:20
Alignment explanation
Indices: 17291371--17291423 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
17291361 TTAAAAGAAC
17291371 TTTTTATGCA-TTTTACAATT
1 TTTTTATG-ATTTTTACAATT
* ** *
17291391 CTTTTACAATTTTTATAATT
1 TTTTTATGATTTTTACAATT
17291411 TTTTTATGATTTT
1 TTTTTATGATTTT
17291424 ATGATTTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTTATGATTTTTACAATT
Found at i:17291460 original size:29 final size:28
Alignment explanation
Indices: 17291399--17291462 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
17291389 TTCTTTTACA
*
17291399 ATTTTTATAATTTTTTTATGATTTTATG
1 ATTTTTATAATTTTTTTATAATTTTATG
* *
17291427 A-TTTTATGATTTTTTTCTAAATTTTTAT-
1 ATTTTTATAATTTTTTTAT-AA-TTTTATG
17291455 ATTTTTAT
1 ATTTTTAT
17291463 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.50
28 3 0.10
29 12 0.40
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (28 bp):
ATTTTTATAATTTTTTTATAATTTTATG
Found at i:17291466 original size:19 final size:19
Alignment explanation
Indices: 17291428--17291489 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
17291418 GATTTTATGA
*
17291428 TTTTATGATTTTTTTCTAAAT
1 TTTTAT-ATTTTTAT-TAAAT
*
17291449 TTTTATATTTTTATTAAAA
1 TTTTATATTTTTATTAAAT
* *
17291468 TTTAATAGCTTTTA-TAAAT
1 TTTTATA-TTTTTATTAAAT
17291487 TTT
1 TTT
17291490 ATTGATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 17 0.49
20 12 0.34
21 6 0.17
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATATTTTTATTAAAT
Found at i:17292380 original size:26 final size:26
Alignment explanation
Indices: 17292337--17292400 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
17292327 TTTACCCCCA
* **
17292337 ATAAAAATTTGATGATTTTATCCCTG
1 ATAAAATTTTGACAATTTTATCCCTG
* * *
17292363 GTAAAATTTTGACAATTTTGTCCTTG
1 ATAAAATTTTGACAATTTTATCCCTG
*
17292389 ATAACATTTTGA
1 ATAAAATTTTGA
17292401 GAAAATATGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (26 bp):
ATAAAATTTTGACAATTTTATCCCTG
Found at i:17295074 original size:24 final size:24
Alignment explanation
Indices: 17295038--17295084 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17295028 ATAGCCTGAT
*
17295038 TAGTAGTGATATATGATCTTTGAA
1 TAGTAGTGATATATGATCCTTGAA
*
17295062 TAGTAGTGCTATATGATCCTTGA
1 TAGTAGTGATATATGATCCTTGA
17295085 CTATATAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (24 bp):
TAGTAGTGATATATGATCCTTGAA
Found at i:17296545 original size:30 final size:32
Alignment explanation
Indices: 17296477--17296538 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
17296467 ATCTGTCAAC
* *
17296477 ACTATTAACAGTGTTATCAGTCAGCAGTTAAT
1 ACTATTAACAGTGTTAACAGTCAGCAATTAAT
*
17296509 ACTATTAACATTG-TAACAGT-AGCAATTAAT
1 ACTATTAACAGTGTTAACAGTCAGCAATTAAT
17296539 GTTATTAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 9 0.33
31 6 0.22
32 12 0.44
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (32 bp):
ACTATTAACAGTGTTAACAGTCAGCAATTAAT
Found at i:17305787 original size:24 final size:24
Alignment explanation
Indices: 17305753--17305800 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17305743 ATGGATGTTC
* *
17305753 AACCTTTCATCTTCCTTGACCTTT
1 AACCTTCCATCTTCCTTAACCTTT
*
17305777 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTTCCTTAACCTTT
17305801 CATATTCTTG
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:0.19, C:0.33, G:0.02, T:0.46
Consensus pattern (24 bp):
AACCTTCCATCTTCCTTAACCTTT
Found at i:17305793 original size:17 final size:17
Alignment explanation
Indices: 17305773--17305814 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17305763 CTTCCTTGAC
*
17305773 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
17305790 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
17305807 CTTGTAAC
1 CTT-TAAC
17305815 TACTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:17310485 original size:41 final size:41
Alignment explanation
Indices: 17310428--17310520 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
17310418 TTATTCGTAG
*
17310428 AAAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AAAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGATGACT
* *
17310469 AGAATTCTTG-CTAAGGTGGAGATTTTTAGAATTGGATGACT
1 AAAATTCTTGTC-AAGGTGGAGATTGTTAGAATTGGATGACT
*
17310510 AAAATTTTTGT
1 AAAATTCTTGT
17310521 TAAAATAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 1 0.02
41 44 0.98
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (41 bp):
AAAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGATGACT
Found at i:17323418 original size:3 final size:3
Alignment explanation
Indices: 17323410--17323453 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
17323400 TGAATTCTAA
17323410 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17323454 AGAAATGGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17323611 original size:11 final size:11
Alignment explanation
Indices: 17323595--17323625 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
17323585 AGTTGGAAGC
17323595 TTTGCTTTGTA
1 TTTGCTTTGTA
17323606 TTTGCTTTGTA
1 TTTGCTTTGTA
17323617 TTTGCTTTG
1 TTTGCTTTG
17323626 AGCTGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.06, C:0.10, G:0.19, T:0.65
Consensus pattern (11 bp):
TTTGCTTTGTA
Found at i:17324469 original size:23 final size:21
Alignment explanation
Indices: 17324442--17324500 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
17324432 GAAATAAAAT
17324442 TTTGAATATTTTAAACAATTAA
1 TTTGAATATTTTAAA-AATTAA
* * *
17324464 TATTGATTATCTGTAAAATTTAA
1 T-TTGAATAT-TTTAAAAATTAA
*
17324487 TTTGAATATATTAA
1 TTTGAATATTTTAA
17324501 TTATATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.10
22 8 0.28
23 13 0.45
24 5 0.17
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTGAATATTTTAAAAATTAA
Found at i:17325299 original size:209 final size:202
Alignment explanation
Indices: 17324944--17325327 Score: 617
Period size: 209 Copynumber: 1.9 Consensus size: 202
17324934 ATAACCCCTT
* * *
17324944 CTAATTCTTAAATAAGAGGATAAATATTTTCAATATTTTTATTTTAATAGTTAAAAATATTTATT
1 CTAATCCTTAAATAAGAAGATAAATATTTTCAATATTTTTATTTTAATAGCTAAAAATATTTATT
*
17325009 ATATTTGAAATTAATATAAAATTAGTTTATATTTTTTTTCTTTTTTGATATATATTTTAAAATTT
66 ATATTTGAAATTAATATAAAATTAGTTTATATTTTTTTTCTTTTTTGATATATATGTTAAAATTT
17325074 TTAAGTATTTCTTTTCTTAAGTAAAAATTTTAAATAAAATTATTACAATTTTTTTATACAATGTC
131 TTAAGTATTTCTTTTCTTAAGTAAAAATTTTAAATAAAATTATTACAATTTTTTTATACAATGTC
17325139 TAAAATC
196 TAAAATC
* *
17325146 CTAATCCTTAAATAGGAATATAAATATTTTCAATA-TTTTATTTTAATAGCTAAAAATATTTATT
1 CTAATCCTTAAATAAGAAGATAAATATTTTCAATATTTTTATTTTAATAGCTAAAAATATTTATT
*
17325210 ATATTTGAAATTAATATACAATTAGTTTATAAAAAATAATTTTTTTCCTTTTTTGATATATATGT
66 ATATTTGAAATTAATATAAAATTAGTTTAT-----AT--TTTTTTT-CTTTTTTGATATATATGT
*
17325275 TAAAATTTTTAAGTATTTCTTTTCTTAAGTAAAAATTTTAAATAAATTTATTA
123 TAAAATTTTTAAGTATTTCTTTTCTTAAGTAAAAATTTTAAATAAAATTATTA
17325328 ATTTTAATAT
Statistics
Matches: 166, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
201 57 0.34
202 31 0.19
206 2 0.01
208 7 0.04
209 69 0.42
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (202 bp):
CTAATCCTTAAATAAGAAGATAAATATTTTCAATATTTTTATTTTAATAGCTAAAAATATTTATT
ATATTTGAAATTAATATAAAATTAGTTTATATTTTTTTTCTTTTTTGATATATATGTTAAAATTT
TTAAGTATTTCTTTTCTTAAGTAAAAATTTTAAATAAAATTATTACAATTTTTTTATACAATGTC
TAAAATC
Found at i:17335214 original size:40 final size:40
Alignment explanation
Indices: 17335159--17335314 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
17335149 CGTTTGACAA
*
17335159 AGTTCAAGCTACGGCTTAGCAGGCAATGAGCCGGTGATAG
1 AGTTCAAGCTACGGCTTAGCAGGCTATGAGCCGGTGATAG
*
17335199 AGTTCAAGCTACGGCTTATCAGGCTATGAGCCGGTGATAG
1 AGTTCAAGCTACGGCTTAGCAGGCTATGAGCCGGTGATAG
* * * *
17335239 AGTTCAAACTACGACTTAGTAGGCTATAAGCCGGTGATAG
1 AGTTCAAGCTACGGCTTAGCAGGCTATGAGCCGGTGATAG
** *
17335279 -GAAACAAGCTACGGCTTAGCAGGCTATGAGTCGGTG
1 AG-TTCAAGCTACGGCTTAGCAGGCTATGAGCCGGTG
17335315 TTAAAACTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 100 0.99
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (40 bp):
AGTTCAAGCTACGGCTTAGCAGGCTATGAGCCGGTGATAG
Found at i:17337109 original size:18 final size:18
Alignment explanation
Indices: 17337086--17337124 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
17337076 AAAAGAAAAC
17337086 AAAGAGTCCCTTCTCAAG
1 AAAGAGTCCCTTCTCAAG
17337104 AAAGAGTCCCTTCTCAAG
1 AAAGAGTCCCTTCTCAAG
17337122 AAA
1 AAA
17337125 CCCTTTCGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (18 bp):
AAAGAGTCCCTTCTCAAG
Found at i:17338645 original size:61 final size:61
Alignment explanation
Indices: 17338547--17338675 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 61
17338537 ACCCTCAAAC
* * ** * * *
17338547 TGAGCCTCATCTCTACTAACCTCCGTGCGCTCTAAATAGACCTCCAAATCAAAGATGAATT
1 TGAGCCCCATCTCCACTAACCTCCGCACGCTCCAAATAAACCTCCAAATCAAAGACGAATT
17338608 TGAGCCCCATCTCCACTAACCTCCGCACGCTCCAAATAAACCTCCAAATCAAAGACGAATT
1 TGAGCCCCATCTCCACTAACCTCCGCACGCTCCAAATAAACCTCCAAATCAAAGACGAATT
*
17338669 TAAGCCC
1 TGAGCCC
17338676 AACCTTGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.22
Consensus pattern (61 bp):
TGAGCCCCATCTCCACTAACCTCCGCACGCTCCAAATAAACCTCCAAATCAAAGACGAATT
Found at i:17343016 original size:22 final size:23
Alignment explanation
Indices: 17342991--17343037 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
17342981 GAATTAGGTA
*
17342991 ATGTCATTATAAT-ATTAAATAT
1 ATGTCAATATAATAATTAAATAT
* *
17343013 ATGTCAATGTAATAATTATATAT
1 ATGTCAATATAATAATTAAATAT
17343036 AT
1 AT
17343038 CAAAGCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (23 bp):
ATGTCAATATAATAATTAAATAT
Found at i:17344769 original size:26 final size:26
Alignment explanation
Indices: 17344706--17344807 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 26
17344696 ATTCTGGGTG
* * * *
17344706 CAATTCTGGGCATGCTCATACAACGA
1 CAATTCTGGACATGTTCATGCAGCGA
* * * *
17344732 CAACTCTAGACATGTTCATGTAGCTA
1 CAATTCTGGACATGTTCATGCAGCGA
* * **
17344758 TAATTCTGGACAAGTTTTTGCAGCGA
1 CAATTCTGGACATGTTCATGCAGCGA
*
17344784 CAATTCTGGACATGCTCATGCAGC
1 CAATTCTGGACATGTTCATGCAGC
17344808 AACATTAGTA
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
CAATTCTGGACATGTTCATGCAGCGA
Found at i:17345871 original size:17 final size:17
Alignment explanation
Indices: 17345846--17345918 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 17
17345836 TACAATAACA
*
17345846 AATGGAAATGTAATGAC
1 AATGCAAATGTAATGAC
* *
17345863 AATGCAAATGCAGTGAC
1 AATGCAAATGTAATGAC
** *
17345880 AATTAAAATGTAATAAC
1 AATGCAAATGTAATGAC
** *
17345897 AATGGGAATGTGATGAC
1 AATGCAAATGTAATGAC
17345914 AATGC
1 AATGC
17345919 TTACTAATAG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (17 bp):
AATGCAAATGTAATGAC
Found at i:17350727 original size:17 final size:17
Alignment explanation
Indices: 17350702--17350773 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
17350692 TACAATAAAA
17350702 AATGAAAATGCAATGAC
1 AATGAAAATGCAATGAC
* *
17350719 AATGCAAATGCAGTGAC
1 AATGAAAATGCAATGAC
* *
17350736 AATTAAAATGTAATGAC
1 AATGAAAATGCAATGAC
* **
17350753 AATGAGAATGTGATGAC
1 AATGAAAATGCAATGAC
17350770 AATG
1 AATG
17350774 CTTACTAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:17358177 original size:62 final size:62
Alignment explanation
Indices: 17358080--17358216 Score: 256
Period size: 62 Copynumber: 2.2 Consensus size: 62
17358070 TATATATATA
17358080 AATTTTCAGAATTTAGAATTACTGACATTAAAGAAAATTGTTAAGTGCAAATAAGAATAATG
1 AATTTTCAGAATTTAGAATTACTGACATTAAAGAAAATTGTTAAGTGCAAATAAGAATAATG
17358142 AATTTTCAGAATTTAGAATTACTGACATTAAAGAAAATTGTTAAGTGCAAATAAGAATAATG
1 AATTTTCAGAATTTAGAATTACTGACATTAAAGAAAATTGTTAAGTGCAAATAAGAATAATG
* *
17358204 AAATTTAAGAATT
1 AATTTTCAGAATT
17358217 AATTGGATAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (62 bp):
AATTTTCAGAATTTAGAATTACTGACATTAAAGAAAATTGTTAAGTGCAAATAAGAATAATG
Found at i:17359038 original size:80 final size:80
Alignment explanation
Indices: 17358899--17359272 Score: 482
Period size: 80 Copynumber: 4.7 Consensus size: 80
17358889 CAGTTTAACT
* * *
17358899 AACTAGAGCTAGGCTCACTTTCGCAGTATATCCGCTAGGCACTGGGTGTC-GAAATTTGACGGAT
1 AACTAGAGCTGGGCTCACTTTCGCGGTATATCCGCTAGGCACTGGGTGTCAGGAA-TTGACGGAT
* *
17358963 ATTTGTTAGCTAATCC
65 ATTTGTTGGTTAATCC
* * * * *
17358979 AACTAGAGTTGGGCTCACTTTCGTGGTATATCTGCTAGGCATTGGGTGCCAGGAATTGACGGATA
1 AACTAGAGCTGGGCTCACTTTCGCGGTATATCCGCTAGGCACTGGGTGTCAGGAATTGACGGATA
17359044 TTTGTTGGTTAATCC
66 TTTGTTGGTTAATCC
* * * *
17359059 AACTAGAGCTAGGCTCACTTTCGCGGTATATTCGCTAGGCACTGGGTGCCAGGAATTGATGGATA
1 AACTAGAGCTGGGCTCACTTTCGCGGTATATCCGCTAGGCACTGGGTGTCAGGAATTGACGGATA
17359124 TTTGTTGGTTAATCC
66 TTTGTTGGTTAATCC
* * * * * * *
17359139 AACTAGAGTTGGGCTCACTTTTGCAGTTTATCCGCTAGGCACTGGGTGTCAAGATTTGACGGTTA
1 AACTAGAGCTGGGCTCACTTTCGCGGTATATCCGCTAGGCACTGGGTGTCAGGAATTGACGGATA
*
17359204 TTTGTTGGTTAGTCC
66 TTTGTTGGTTAATCC
* * * *
17359219 AACTAGAGCTGGGTTCACTTTTGCGGTTTA-CCAGCTAGGCATTGGGTGTCAGGA
1 AACTAGAGCTGGGCTCACTTTCGCGGTATATCC-GCTAGGCACTGGGTGTCAGGA
17359273 TCATCGGTTT
Statistics
Matches: 258, Mismatches: 34, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
79 2 0.01
80 253 0.98
81 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (80 bp):
AACTAGAGCTGGGCTCACTTTCGCGGTATATCCGCTAGGCACTGGGTGTCAGGAATTGACGGATA
TTTGTTGGTTAATCC
Found at i:17362666 original size:31 final size:31
Alignment explanation
Indices: 17362628--17362689 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17362618 TGTATGTATG
17362628 ATTAGTGCATGTTAAGTTTTAACATATTTCA
1 ATTAGTGCATGTTAAGTTTTAACATATTTCA
17362659 ATTAGTGCATGTTAAGTTTTAACATATTTCA
1 ATTAGTGCATGTTAAGTTTTAACATATTTCA
17362690 TTTTCATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTAGTGCATGTTAAGTTTTAACATATTTCA
Found at i:17365570 original size:67 final size:67
Alignment explanation
Indices: 17365487--17365616 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
17365477 AAATTTCAAA
*
17365487 GATGAGAAATATTTAGCTCTTGATCAAAAATCAATTGCAATGGGGAGTATTTAAAACTTATTGTC
1 GATGAGAAATATTTAGCTCTTGACCAAAAATCAATTGCAATGGGGAGTATTTAAAACTTATTGTC
17365552 TT
66 TT
17365554 GATGAGAAATATTTAGCTCTTGACCAAAAATCAATTGCAATGGGGAGTATTTAAAACTTATTG
1 GATGAGAAATATTTAGCTCTTGACCAAAAATCAATTGCAATGGGGAGTATTTAAAACTTATTG
17365617 GCTTAATTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (67 bp):
GATGAGAAATATTTAGCTCTTGACCAAAAATCAATTGCAATGGGGAGTATTTAAAACTTATTGTC
TT
Found at i:17368229 original size:369 final size:369
Alignment explanation
Indices: 17367550--17368291 Score: 1484
Period size: 369 Copynumber: 2.0 Consensus size: 369
17367540 GTCTCCTAAA
17367550 ATGAACAACATCCTCTTTACCACTGGAGCCACTCGTTGGGTTTAATTCATTAAAATTTTTAAATA
1 ATGAACAACATCCTCTTTACCACTGGAGCCACTCGTTGGGTTTAATTCATTAAAATTTTTAAATA
17367615 AAAACTACTATTATAAAAATATTCTAAATTTAGTATACACAACCAACCTATGTTACATAGAGCAC
66 AAAACTACTATTATAAAAATATTCTAAATTTAGTATACACAACCAACCTATGTTACATAGAGCAC
17367680 AGGTATTGTTAACAAAATACCATACTCGTGCTCTATGTATCATTTAAGTTATATTTTGTAAAATG
131 AGGTATTGTTAACAAAATACCATACTCGTGCTCTATGTATCATTTAAGTTATATTTTGTAAAATG
17367745 TAAGTGCATTATATATAATTTACACTTAGAAAAGTTACAAAATAATTTTTATGTATTTATAATAT
196 TAAGTGCATTATATATAATTTACACTTAGAAAAGTTACAAAATAATTTTTATGTATTTATAATAT
17367810 CAATCATAAAATTAATTTTTTACAATATTATAAAATAATTTTAATATATTTTAATTGATACATAC
261 CAATCATAAAATTAATTTTTTACAATATTATAAAATAATTTTAATATATTTTAATTGATACATAC
17367875 AATCAAGTACATTAATGTATAAACTAATTTATTAATATATTATT
326 AATCAAGTACATTAATGTATAAACTAATTTATTAATATATTATT
17367919 ATGAACAACATCCTCTTTACCACTGGAGCCACTCGTTGGGTTTAATTCATTAAAATTTTTAAATA
1 ATGAACAACATCCTCTTTACCACTGGAGCCACTCGTTGGGTTTAATTCATTAAAATTTTTAAATA
17367984 AAAACTACTATTATAAAAATATTCTAAATTTAGTATACACAACCAACCTATGTTACATAGAGCAC
66 AAAACTACTATTATAAAAATATTCTAAATTTAGTATACACAACCAACCTATGTTACATAGAGCAC
17368049 AGGTATTGTTAACAAAATACCATACTCGTGCTCTATGTATCATTTAAGTTATATTTTGTAAAATG
131 AGGTATTGTTAACAAAATACCATACTCGTGCTCTATGTATCATTTAAGTTATATTTTGTAAAATG
17368114 TAAGTGCATTATATATAATTTACACTTAGAAAAGTTACAAAATAATTTTTATGTATTTATAATAT
196 TAAGTGCATTATATATAATTTACACTTAGAAAAGTTACAAAATAATTTTTATGTATTTATAATAT
17368179 CAATCATAAAATTAATTTTTTACAATATTATAAAATAATTTTAATATATTTTAATTGATACATAC
261 CAATCATAAAATTAATTTTTTACAATATTATAAAATAATTTTAATATATTTTAATTGATACATAC
17368244 AATCAAGTACATTAATGTATAAACTAATTTATTAATATATTATT
326 AATCAAGTACATTAATGTATAAACTAATTTATTAATATATTATT
17368288 ATGA
1 ATGA
17368292 TTTTATCTGA
Statistics
Matches: 373, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
369 373 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (369 bp):
ATGAACAACATCCTCTTTACCACTGGAGCCACTCGTTGGGTTTAATTCATTAAAATTTTTAAATA
AAAACTACTATTATAAAAATATTCTAAATTTAGTATACACAACCAACCTATGTTACATAGAGCAC
AGGTATTGTTAACAAAATACCATACTCGTGCTCTATGTATCATTTAAGTTATATTTTGTAAAATG
TAAGTGCATTATATATAATTTACACTTAGAAAAGTTACAAAATAATTTTTATGTATTTATAATAT
CAATCATAAAATTAATTTTTTACAATATTATAAAATAATTTTAATATATTTTAATTGATACATAC
AATCAAGTACATTAATGTATAAACTAATTTATTAATATATTATT
Found at i:17370633 original size:8 final size:8
Alignment explanation
Indices: 17370620--17370658 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
17370610 ACAATAAGAT
17370620 AATAAATG
1 AATAAATG
* *
17370628 AGTAAATA
1 AATAAATG
*
17370636 AATAAACG
1 AATAAATG
17370644 AATAAATG
1 AATAAATG
17370652 AATAAAT
1 AATAAAT
17370659 AAAGAAACAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (8 bp):
AATAAATG
Found at i:17370647 original size:24 final size:24
Alignment explanation
Indices: 17370620--17370666 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17370610 ACAATAAGAT
* *
17370620 AATAAATGAGTAAATAAATAAACG
1 AATAAATGAATAAATAAAGAAACG
17370644 AATAAATGAATAAATAAAGAAAC
1 AATAAATGAATAAATAAAGAAAC
17370667 AAACGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.66, C:0.04, G:0.11, T:0.19
Consensus pattern (24 bp):
AATAAATGAATAAATAAAGAAACG
Found at i:17370670 original size:28 final size:28
Alignment explanation
Indices: 17370630--17370683 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
17370620 AATAAATGAG
* *
17370630 TAAATAAATAAACGAATAAATGAATAAA
1 TAAAGAAACAAACGAATAAATGAATAAA
*
17370658 TAAAGAAACAAACGAATAAATTAATA
1 TAAAGAAACAAACGAATAAATGAATA
17370684 TACATATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.07, T:0.20
Consensus pattern (28 bp):
TAAAGAAACAAACGAATAAATGAATAAA
Found at i:17370674 original size:20 final size:20
Alignment explanation
Indices: 17370632--17370678 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
17370622 TAAATGAGTA
* *
17370632 AATAAATAAACGAATAAATG
1 AATAAATAAACGAACAAACG
17370652 AATAAATAAA-GAAACAAACG
1 AATAAATAAACG-AACAAACG
17370672 AATAAAT
1 AATAAAT
17370679 TAATATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (20 bp):
AATAAATAAACGAACAAACG
Found at i:17370683 original size:24 final size:24
Alignment explanation
Indices: 17370620--17370683 Score: 56
Period size: 28 Copynumber: 2.5 Consensus size: 24
17370610 ACAATAAGAT
* * * *
17370620 AATAAATGAGTAAATAAATAAACG
1 AATAAATTAATAAAGAAACAAACG
17370644 AATAAATGAATAAATAAAGAAACAAACG
1 AATAAAT---T-AATAAAGAAACAAACG
17370672 AATAAATTAATA
1 AATAAATTAATA
17370684 TACATATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 11 0.34
25 1 0.03
28 20 0.62
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (24 bp):
AATAAATTAATAAAGAAACAAACG
Found at i:17371108 original size:43 final size:41
Alignment explanation
Indices: 17371033--17371117 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 41
17371023 CTTTTACCTT
17371033 ACCCAAATATAATTTCATTCTTAAAAGAAACTCATAAACTAA
1 ACCCAAATATAATTTCATTCTTAAAAGAAACTC-TAAACTAA
*
17371075 ACCCAAA-ATTAATTTTCACTTCTTAAAA-AAACTCTAAATTAA
1 ACCCAAATA-TAA-TTTCA-TTCTTAAAAGAAACTCTAAACTAA
17371117 A
1 A
17371118 TAAAAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
41 1 0.03
42 18 0.46
43 11 0.28
44 9 0.23
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (41 bp):
ACCCAAATATAATTTCATTCTTAAAAGAAACTCTAAACTAA
Found at i:17371375 original size:30 final size:29
Alignment explanation
Indices: 17371304--17371507 Score: 221
Period size: 30 Copynumber: 6.8 Consensus size: 29
17371294 AATTAAAATC
17371304 GGGTCAAATTTGAATTTTTGGAAAGTTTAG
1 GGGTCAAATTTGAATTTTT-GAAAGTTTAG
* * *
17371334 GGGT-TAATTGGAATTTTTAGAAAATTTAG
1 GGGTCAAATTTGAATTTTT-GAAAGTTTAG
* * *
17371363 GGGTTAAATTGGAATTTTTGCAAAGTTTAA
1 GGGTCAAATTTGAATTTTTG-AAAGTTTAG
* *
17371393 GGGTCAACTTTGAATTTTTGGAAAGTTTGG
1 GGGTCAAATTTGAATTTTT-GAAAGTTTAG
*
17371423 GGGTCAAATTTGAATTTTTGAAAGGTTTGG
1 GGGTCAAATTTGAATTTTTGAAA-GTTTAG
* *
17371453 GGGTCAAATTTGAATGTTTGAAAAGTTTAA
1 GGGTCAAATTTGAATTTTTG-AAAGTTTAG
**
17371483 GGGTCAAATTCAAATTTTTGGAAAG
1 GGGTCAAATTTGAATTTTT-GAAAG
17371508 CTCGAGGGTT
Statistics
Matches: 149, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
29 30 0.20
30 114 0.77
31 5 0.03
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (29 bp):
GGGTCAAATTTGAATTTTTGAAAGTTTAG
Found at i:17371487 original size:90 final size:89
Alignment explanation
Indices: 17371304--17371507 Score: 275
Period size: 90 Copynumber: 2.3 Consensus size: 89
17371294 AATTAAAATC
* *
17371304 GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTTAATTGGAATTTTTAGAAAATTTAGGGGTTA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTAAATTGGAATTTTTAGAAAATTTAGGGGTCA
* *
17371369 AATTGGAATTTTTGCAAAGTTTAA
66 AATTGGAATGTTTGAAAAGTTTAA
* * * * *
17371393 GGGTCAACTTTGAATTTTTGGAAAGTTTGGGGGTCAAATTTGAATTTTT-GAAAGGTTTGGGGGT
1 GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGT-AAATTGGAATTTTTAGAAA-ATTTAGGGGT
*
17371457 CAAATTTGAATGTTTGAAAAGTTTAA
64 CAAATTGGAATGTTTGAAAAGTTTAA
**
17371483 GGGTCAAATTCAAATTTTTGGAAAG
1 GGGTCAAATTTGAATTTTTGGAAAG
17371508 CTCGAGGGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 36 0.36
90 64 0.64
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (89 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTAAATTGGAATTTTTAGAAAATTTAGGGGTCA
AATTGGAATGTTTGAAAAGTTTAA
Found at i:17373341 original size:79 final size:79
Alignment explanation
Indices: 17373203--17373378 Score: 250
Period size: 79 Copynumber: 2.2 Consensus size: 79
17373193 CTCAATAGCT
* * *
17373203 TTAGGTGTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGT-TT
1 TTAGG-GTAAAAGATTGGATTACTTTAATCTGCCCCATGGTCGGGGCAAAAGATCGGATGGTCTT
*
17373267 ATAATCTGCCCTCT-A
65 -CAATCTGCCCTCTGA
*
17373282 GTTAGGGTAAAAGATTGGATTACTTTAATCTGCCCCATGGT-GGAGGCAAAAGATTGGATGGTCT
1 -TTAGGGTAAAAGATTGGATTACTTTAATCTGCCCCATGGTCGG-GGCAAAAGATCGGATGGTCT
17373346 TCAATCTGCCCTCTGA
64 TCAATCTGCCCTCTGA
17373362 TTAGGGTAAAAGATTGG
1 TTAGGGTAAAAGATTGG
17373379 TTGGTCCTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
78 2 0.02
79 78 0.89
80 8 0.09
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (79 bp):
TTAGGGTAAAAGATTGGATTACTTTAATCTGCCCCATGGTCGGGGCAAAAGATCGGATGGTCTTC
AATCTGCCCTCTGA
Found at i:17373373 original size:40 final size:40
Alignment explanation
Indices: 17373203--17373460 Score: 174
Period size: 40 Copynumber: 6.5 Consensus size: 40
17373193 CTCAATAGCT
* *
17373203 TTAGGTGTAAAAGATTGGATTG-CTTTAATCTGCCCCATGG
1 TTAGG-GTAAAAGATTGGATGGTCTTTAATCTGCCCCATGA
** * *
17373243 TCGGGGTAAGAGATCGGATGGT-TTATAATCTGCCCTC-T-A
1 TTAGGGTAAAAGATTGGATGGTCTT-TAATCTGCCC-CATGA
17373282 GTTAGGGTAAAAGATTGGAT--TACTTTAATCTGCCCCATG-
1 -TTAGGGTAAAAGATTGGATGGT-CTTTAATCTGCCCCATGA
* * * *
17373321 GTGGAGGCAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGA
1 TTAG-GGTAAAAGATTGGATGGTCTTTAATCTGCCC-CATGA
* * * * *
17373362 TTAGGGTAAAAGATTGGTTGGTCCTCAATCTGTCCCATGG
1 TTAGGGTAAAAGATTGGATGGTCTTTAATCTGCCCCATGA
* * * * * *
17373402 TCAGGGTAAAAGACTAGATTG-CTTTAATCTACCCCATGG
1 TTAGGGTAAAAGATTGGATGGTCTTTAATCTGCCCCATGA
** *
17373441 TCGGGGTAAAAGATTTGATG
1 TTAGGGTAAAAGATTGGATG
17373461 TGGTGACTTC
Statistics
Matches: 170, Mismatches: 34, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
38 4 0.02
39 71 0.42
40 90 0.53
41 5 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (40 bp):
TTAGGGTAAAAGATTGGATGGTCTTTAATCTGCCCCATGA
Found at i:17373431 original size:79 final size:77
Alignment explanation
Indices: 17373203--17373431 Score: 248
Period size: 79 Copynumber: 2.9 Consensus size: 77
17373193 CTCAATAGCT
* *
17373203 TTAGGTGTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTTTA
1 TTAGG-GTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCGGGGTAAAAGAT-GGATGGCTT-
17373268 TAATCTGCCCTCTAG
63 TAATCTGCCCTCTAG
* *
17373283 TTAGGGTAAAAGATTGGATTACTTTAATCTGCCCCATGGT-GGAGGCAAAAGATTGGATGGTCTT
1 TTAGGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCGG-GGTAAAAGA-TGGATGG-CTT
*
17373347 CAATCTGCCCTCT-G
63 TAATCTGCCCTCTAG
* * * * * *
17373361 ATTAGGGTAAAAGATTGG-TTGGTCCTCAATCTGTCCCATGGTCAGGGTAAAAGACTAGATTGCT
1 -TTAGGGTAAAAGATTGGATT-G-CTTTAATCTGCCCCATGGTCGGGGTAAAAGA-TGGATGGCT
17373425 TTAATCT
62 TTAATCT
17373432 ACCCCATGGT
Statistics
Matches: 127, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
78 5 0.04
79 84 0.66
80 37 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (77 bp):
TTAGGGTAAAAGATTGGATTGCTTTAATCTGCCCCATGGTCGGGGTAAAAGATGGATGGCTTTAA
TCTGCCCTCTAG
Found at i:17373683 original size:50 final size:50
Alignment explanation
Indices: 17373629--17373734 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
17373619 TAGCCTTTTT
* *
17373629 CAGCTTCAGAAGTATAAGATTCACTC-TTGCAGCTTCAATATGCCCCTCTA
1 CAGCTTCAGAAGAATAAGATTCAC-CATTCCAGCTTCAATATGCCCCTCTA
* ** * ** *
17373679 CAGCTTTAGGTGAATGAGATTTGCCATTCCAGCTTCAATTTGCCCCTCTA
1 CAGCTTCAGAAGAATAAGATTCACCATTCCAGCTTCAATATGCCCCTCTA
17373729 CAGCTT
1 CAGCTT
17373735 TAGGTGTATG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 1 0.02
50 45 0.98
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (50 bp):
CAGCTTCAGAAGAATAAGATTCACCATTCCAGCTTCAATATGCCCCTCTA
Found at i:17373735 original size:50 final size:50
Alignment explanation
Indices: 17373658--17373757 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
17373648 TTCACTCTTG
17373658 CAGCTTCAATATGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTC
1 CAGCTTCAATATGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTC
* *
17373708 CAGCTTCAATTTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGCCATTC
1 CAGCTTCAATATGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTC
17373758 TAACTCCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (50 bp):
CAGCTTCAATATGCCCCTCTACAGCTTTAGGTGAATGAGATTTGCCATTC
Found at i:17385529 original size:29 final size:29
Alignment explanation
Indices: 17385497--17385591 Score: 129
Period size: 29 Copynumber: 3.2 Consensus size: 29
17385487 GTTAAATTTG
17385497 AATTTTTGGAAGTTCGAGGGTCAAATTCA
1 AATTTTTGGAAGTTCGAGGGTCAAATTCA
* * *
17385526 AATTTTTGAAAAGTTC-AGGGGTTAAATTTA
1 AATTTTTG-GAAGTTCGA-GGGTCAAATTCA
*
17385556 AATTTTTGGAAGTTCGAGAGTCAAATTCA
1 AATTTTTGGAAGTTCGAGGGTCAAATTCA
17385585 AATTTTT
1 AATTTTT
17385592 AGAAAGTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 31 0.55
30 25 0.45
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (29 bp):
AATTTTTGGAAGTTCGAGGGTCAAATTCA
Found at i:17386371 original size:15 final size:15
Alignment explanation
Indices: 17386351--17386384 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17386341 ATCCAAGGCT
17386351 ATGGCGACGACGACG
1 ATGGCGACGACGACG
*
17386366 ATGGCGACGACGGCG
1 ATGGCGACGACGACG
17386381 ATGG
1 ATGG
17386385 AGCAAGCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.44, T:0.09
Consensus pattern (15 bp):
ATGGCGACGACGACG
Found at i:17386603 original size:20 final size:19
Alignment explanation
Indices: 17386578--17386624 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
17386568 ATATTTAGGC
*
17386578 TTTATTTTGTT-TTTTTTAAT
1 TTTATTTT-TTATTATTT-AT
17386598 TTTATTATTTTATTATTTAT
1 TTTATT-TTTTATTATTTAT
17386618 TTTATTT
1 TTTATTT
17386625 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTATTTTTTATTATTTAT
Found at i:17387206 original size:14 final size:15
Alignment explanation
Indices: 17387180--17387213 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17387170 AAGAAAATTG
17387180 GAAAACAATTTTAAT
1 GAAAACAATTTTAAT
*
17387195 TAAAAC-ATTTTAAT
1 GAAAACAATTTTAAT
17387209 GAAAA
1 GAAAA
17387214 ATGAACACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
GAAAACAATTTTAAT
Found at i:17387368 original size:20 final size:20
Alignment explanation
Indices: 17387332--17387387 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
17387322 ATAGGGGTTG
17387332 AAAATAACATAAAATAAGATATT
1 AAAATAA-AT-AAATAAGA-ATT
17387355 -AAATAAATAAATAAGAATT
1 AAAATAAATAAATAAGAATT
*
17387374 AAAATAAAAAAATA
1 AAAATAAATAAATA
17387388 GGATTCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 20 0.65
21 2 0.06
22 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAATAAATAAATAAGAATT
Found at i:17388471 original size:18 final size:18
Alignment explanation
Indices: 17388448--17388483 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17388438 TTATTTTGAA
17388448 AATAAAAAAATAATAAAT
1 AATAAAAAAATAATAAAT
* *
17388466 AATAAATAGATAATAAAT
1 AATAAAAAAATAATAAAT
17388484 GTAAATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAAAAAAATAATAAAT
Found at i:17389651 original size:46 final size:47
Alignment explanation
Indices: 17389601--17389699 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 47
17389591 TGGAAGGTGA
17389601 CTTCAAC-CTACCCTTCTTGACTTA-GGGGTAAAAGATTAGATGATGG
1 CTTCAACACTACCC-TCTTGACTTAGGGGGTAAAAGATTAGATGATGG
* * * *
17389647 CTTCAACATTTCCCTCTTGACTTAGGGGGTAAAAGATTGGATGGTGG
1 CTTCAACACTACCCTCTTGACTTAGGGGGTAAAAGATTAGATGATGG
17389694 CTTCAA
1 CTTCAA
17389700 TTTGCTCGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
46 17 0.36
47 30 0.64
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (47 bp):
CTTCAACACTACCCTCTTGACTTAGGGGGTAAAAGATTAGATGATGG
Found at i:17389695 original size:47 final size:46
Alignment explanation
Indices: 17389579--17389699 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
17389569 CCCCATGGTT
* * *
17389579 GGGGTAAGAGATTGGAAGGTGACTTCAACCTACCCTTCTTGACTTA
1 GGGGTAAAAGATTGGATGGTGGCTTCAACCTACCCTTCTTGACTTA
* * * *
17389625 GGGGTAAAAGATTAGATGATGGCTTCAACATTTCCC-TCTTGACTTA
1 GGGGTAAAAGATTGGATGGTGGCTTCAAC-CTACCCTTCTTGACTTA
17389671 GGGGGTAAAAGATTGGATGGTGGCTTCAA
1 -GGGGTAAAAGATTGGATGGTGGCTTCAA
17389700 TTTGCTCGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 34 0.53
47 30 0.47
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (46 bp):
GGGGTAAAAGATTGGATGGTGGCTTCAACCTACCCTTCTTGACTTA
Found at i:17389790 original size:43 final size:43
Alignment explanation
Indices: 17389742--17390096 Score: 390
Period size: 43 Copynumber: 8.3 Consensus size: 43
17389732 GATGACTTCA
* *
17389742 AAAAGACTGGATAGATTCAATCTGCCCCTACTAGATTAGGGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* * ** **
17389785 AAAAGATTGGATGGCTTCAATCTATCCCTACTGGATTACAGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
*
17389828 AAAAGATTGGAT-GACTTCAATCTGCCCCTACTGGATTA-GGGT
1 AAAAGACTGGATAG-CTTCAATCTGCCCCTACTGGATTAGGGGT
* * * **
17389870 AGAAGACTGGATAGCTTCAATCTGCCCCTACTGAATAAAAGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* * * * * *
17389913 AAAAGAATGGATGGTTTCAATCTACCACTATTGGATTAGGGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* *
17389956 AAAAGACTGGATAGCTTCAATTTGCCCCTACTAGATTAGGGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* * * * * *
17389999 AAAAGATTAGATGGTTTCAATCTGCCCTTACTAGATTAGGGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* * *
17390042 AAAAGACTAGATAGCTTCAATTTGCCTCTACTGGATTAGGGGT
1 AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
* *
17390085 AAATGATTGGAT
1 AAAAGACTGGAT
17390097 GAGGTGATGT
Statistics
Matches: 258, Mismatches: 51, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
42 36 0.14
43 222 0.86
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAAGACTGGATAGCTTCAATCTGCCCCTACTGGATTAGGGGT
Found at i:17389974 original size:128 final size:129
Alignment explanation
Indices: 17389742--17390098 Score: 375
Period size: 128 Copynumber: 2.8 Consensus size: 129
17389732 GATGACTTCA
* ** *
17389742 AAAAGACTGGATAGATTCAATCTGCCCCTACTAGATTAGGGGTAAAAGATTGGATGGCTTCAATC
1 AAAAGACTGGATAGATTCAATCTGCCCCTACTAGATAAAAGGTAAAAGAATGGATGGCTTCAATC
* *
17389807 TATCCCTACTGGATTACAGGTAAAAGATTGGATGACTTCAATCTGCCCCTACTGGATTA-GGGT
66 TATCCCTACTGGATTACAGGTAAAAGACTGGATGACTTCAATCTGCCCCTACTAGATTAGGGGT
* * *
17389870 AGAAGACTGGATAGCTTCAATCTGCCCCTACT-GAATAAAAGGTAAAAGAATGGATGGTTTCAAT
1 AAAAGACTGGATAGATTCAATCTGCCCCTACTAG-ATAAAAGGTAAAAGAATGGATGGCTTCAAT
* ** *
17389934 CTA-CCACTATTGGATTAGGGGTAAAAGACTGGAT-AGCTTCAATTTGCCCCTACTAGATTAGGG
65 CTATCC-CTACTGGATTACAGGTAAAAGACTGGATGA-CTTCAATCTGCCCCTACTAGATTAGGG
17389997 GT
128 GT
* * * * * * ** * * *
17389999 AAAAGATTAGATGGTTTCAATCTGCCCTTACTAGATTAGGGGTAAAAGACTAGATAGCTTCAAT-
1 AAAAGACTGGATAGATTCAATCTGCCCCTACTAGATAAAAGGTAAAAGAATGGATGGCTTCAATC
** * *
17390063 T-TGCCTCTACTGGATTAGGGGTAAATGATTGGATGA
66 TAT-CC-CTACTGGATTACAGGTAAAAGACTGGATGA
17390099 GGTGATGTAG
Statistics
Matches: 191, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
127 4 0.02
128 105 0.55
129 80 0.42
130 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (129 bp):
AAAAGACTGGATAGATTCAATCTGCCCCTACTAGATAAAAGGTAAAAGAATGGATGGCTTCAATC
TATCCCTACTGGATTACAGGTAAAAGACTGGATGACTTCAATCTGCCCCTACTAGATTAGGGGT
Found at i:17392994 original size:25 final size:23
Alignment explanation
Indices: 17392966--17393011 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
17392956 GGGCACACGA
17392966 AGTGCTAATAACAGAGGCCACGCAC
1 AGTGCT-A-AACAGAGGCCACGCAC
*
17392991 AGTGCTAAACAGAGGGCACGC
1 AGTGCTAAACAGAGGCCACGC
17393012 TAGTGTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.28, T:0.11
Consensus pattern (23 bp):
AGTGCTAAACAGAGGCCACGCAC
Found at i:17401969 original size:27 final size:27
Alignment explanation
Indices: 17401920--17402039 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
17401910 AATCCGTTAA
17401920 GACAGTAAACACG-GGTAGTCCACCAG
1 GACAGTAAACACGAGGTAGTCCACCAG
*
17401946 GATAGTAAACACGAGGTAGTCCACCAG
1 GACAGTAAACACGAGGTAGTCCACCAG
* ****
17401973 GACAGTAAACATCGA-GTACTCCGTTGG
1 GACAGTAAACA-CGAGGTAGTCCACCAG
* * * *
17402000 GACAATAAACACGATGTAGTCAATCAG
1 GACAGTAAACACGAGGTAGTCCACCAG
*
17402027 GACAATAAACACG
1 GACAGTAAACACG
17402040 GTATAGTCAG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 15 0.19
27 60 0.77
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
GACAGTAAACACGAGGTAGTCCACCAG
Found at i:17402046 original size:27 final size:27
Alignment explanation
Indices: 17401999--17402067 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
17401989 TACTCCGTTG
*
17401999 GGACAATAAACACGATGTAGTCAATCA
1 GGACAATAAACACGATATAGTCAATCA
* *
17402026 GGACAATAAACACGGTATAGTCAGTCA
1 GGACAATAAACACGATATAGTCAATCA
17402053 GGACAATAAACACGA
1 GGACAATAAACACGA
17402068 GATATTTCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (27 bp):
GGACAATAAACACGATATAGTCAATCA
Found at i:17405068 original size:16 final size:16
Alignment explanation
Indices: 17405048--17405107 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
17405038 TGATTTCAAG
17405048 AAAAATTATTAAACAAT
1 AAAAA-TATTAAACAAT
**
17405065 AAAAATATTTTAC-AT
1 AAAAATATTAAACAAT
*
17405080 -AAAATCATTCAAACATT
1 AAAAAT-ATT-AAACAAT
17405097 AAAAATATTAA
1 AAAAATATTAA
17405108 TTTTATAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 10 0.29
17 9 0.26
18 5 0.15
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATATTAAACAAT
Found at i:17405470 original size:21 final size:21
Alignment explanation
Indices: 17405423--17405475 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
17405413 AATTCAATTG
* *
17405423 TTATTTTATTTTATTTAAAAT
1 TTATTATATTTTATTAAAAAT
17405444 TATATTATATTTTA-TAAAAAT
1 T-TATTATATTTTATTAAAAAT
17405465 CTTATTATATT
1 -TTATTATATT
17405476 CATTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATATTTTATTAAAAAT
Done.