Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold501
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: 850550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:819997 original size:116 final size:111
Alignment explanation
Indices: 819781--820699 Score: 1158
Period size: 116 Copynumber: 8.2 Consensus size: 111
819771 ATAAAGTGCA
**
819781 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGTGGGCTTTG-AAAGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTC
* *
819844 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
819891 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AA----AAGGCGTCCT
* *
819956 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGCG
61 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
820007 TCCTGCTCTTTGAGGATTGGGAAGTGCCACCAAATTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCGTCCT
* * *
820072 GCTTTTTGAGGACTG-AA-GTGCCACCAACTCGTGTGGGCTTTGAAAGGCA
61 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
820121 TCCTACTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTGT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
* * *
820184 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
820230 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCGTCCT
* * *
820295 GATCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCG
61 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * ** * *
820346 TCCTGCTCTTTTAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTT-AAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
* *
820410 TTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAGAGGTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
820456 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
*
820520 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
820566 TTCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AA----AAGGCGTCCT
*
820631 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGCG
61 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
820682 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
820700 GAAGGGTGAA
Statistics
Matches: 715, Mismatches: 63, Indels: 56
0.86 0.08 0.07
Matches are distributed among these distances:
107 24 0.03
108 2 0.00
109 50 0.07
110 267 0.37
111 4 0.01
112 2 0.00
113 25 0.03
114 44 0.06
115 2 0.00
116 288 0.40
117 4 0.01
120 2 0.00
121 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:821175 original size:714 final size:708
Alignment explanation
Indices: 819781--821932 Score: 2600
Period size: 714 Copynumber: 3.0 Consensus size: 708
819771 ATAAAGTGCA
* ** *
819781 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
819846 TGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-G-AGGTGTCCTGCTCTTTGAGG
65 TGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGTGTCCTGCTCTTTGAGG
* *
819906 ACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTGTCCTGCTCTTTGAGGACTG
128 ACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA--T----GCGTCCTGCTCTTTGAGGACTG
*
819971 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCA
187 AAAGGTG-----AA-------GGG----AAAA-GCGTCCTGCTCTTTGAGGA-TAGGAAGTGCCA
*
820036 CCAAATTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTTTTTGAGGACTGAAGTGCCACCAACT
234 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTTTTTGAGGACTGAAGTGCCACCAACT
* * *
820101 CGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTT
299 CGTGTGGGCTTTGAAAGGCATTCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTT
* *
820166 TAAAAGGCGTCCTGCTGTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGT
364 TAAAAGACGTCCTGCTGTTTGAGGACTAAAAGGTGCCACCAACTCTTGTGGGCTTTGAAAGGTGT
*
820231 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTG
429 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
* *
820296 ATCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTTAGG
494 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
*
820361 ACTGGAAGGTGCCTCCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGT
559 ACTGGAAGGTGCCTCCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGT
* * * *
820426 GCCACCAACTTGTATGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAAC
624 GCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAAC
820490 TTGTGTGGGCTTTGAA-AGGTG
688 TTGTGTGGGCTTT-AAGAGGTG
*
820511 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTTCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
820575 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGTGTCCTGCTCTTTGA
64 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAA-G-GAAGGTGTCCTGCTCTTTGA
*
820640 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCCTGCTCTTTGAGGACTGAAG
126 GGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCCTGCTCTTTGAGGACTGAAA
*
820704 GGTGAAGGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA
190 GGTGAAGGGA-AAAGCGTCCTGCTCTTTGAGGA-TAGGAAGTGCCACCAACTTGTGTGGGCTTTA
*
820769 AAAGGAAAAGGCATCCTGCTTTTTAAGGACTGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGC
253 AAAGGAAAAGGCATCCTGCTTTTTGAGGACTGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGC
*
820834 ATTCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGATGTCCTGCTGTT
318 ATTCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTGTT
*
820899 TGAGGACTAAAAGGTGCCACCAACTCTTGTGGGCTTTGAAAGGTGTCCTGCTCTCTGAGGACTAG
383 TGAGGACTAAAAGGTGCCACCAACTCTTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAG
820964 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
448 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
821029 TGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAAC
513 TGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAAC
*
821094 TCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGGGC
578 TCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGC
*
821159 TTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
643 TTTAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGT
821224 G
708 G
*
821225 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * * * **
821290 TGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAG
65 TGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAGGTGTCCTGCTCTTTGAG
*
821355 GACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA-GACGTCCTGCTCTTTGAGGAC
127 GACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AATG-CGTCCTGCTCTTTGAGGAC
* ** ** * ** * * ** * * *
821419 TAAAAGGT---GCCACCAGCTTGT-GTGGGCTTT-A--AAAGGCA-T-CCTGC-TCTT-TGAGGA
185 TGAAAGGTGAAGGGAAAAGC--GTCCTGCTCTTTGAGGATAGGAAGTGCCACCAACTTGTGTGGG
* * * * *
821473 C--AAAAAGGTGAAAGGAAGGAGCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACTAACTTGTGT
248 CTTTAAAA-G-G-AA--AA-G-GCATCCTGCTTTTTGAGGACT--GAAGTGCCACCAACTCGTGT
* * *
821536 GGGCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCT
304 GGGCTTTGAAAGG--CA--T-T-CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCT
* *
821601 TTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACT-TGTGTGGGCTT
363 TT-AAAAG-----A--CGTCCTGCTGTTTGAGGACTAAAAGGTGCCACCAACTCT-TGTGGGCTT
* *
821664 TAAAAGGAGAAGGCGTCCTACTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAA
419 T-----GA-AAGGTGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
821727 AAGGA-AGAGGTGTCATGCTCTTTGAGGACT-AAAGGTGCCACTAACTCGTGTGGGCTTTAAAAG
477 AAGGAGA-AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT-----
* ** *
821790 GAAAAGGTGTCCTGCTCTTTGAGGAC-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAGGC
536 G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTT--AAAAGGC
* * *
821854 GTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCTTGTGGGCTTTAAAAGGCGTCCTGCTCT
598 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCT
821919 TTGAGGACTGAAAG
663 TTGAGGACTGAAAG
821933 GGCTAAAAGA
Statistics
Matches: 1269, Mismatches: 85, Indels: 126
0.86 0.06 0.09
Matches are distributed among these distances:
707 4 0.00
708 1 0.00
709 6 0.00
710 5 0.00
711 3 0.00
712 3 0.00
713 15 0.01
714 630 0.50
715 14 0.01
716 33 0.03
717 8 0.01
718 6 0.00
719 3 0.00
720 28 0.02
721 1 0.00
722 43 0.03
723 5 0.00
725 2 0.00
728 2 0.00
729 30 0.02
730 129 0.10
732 6 0.00
733 28 0.02
734 55 0.04
735 27 0.02
736 50 0.04
738 27 0.02
739 23 0.02
740 82 0.06
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (708 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAGGTGTCCTGCTCTTTGAGGACT
AGAAAGTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCCTGCTCTTTGAGGACTGAAAGGTGAA
GGGAAAAGCGTCCTGCTCTTTGAGGATAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
AGGCATCCTGCTTTTTGAGGACTGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATTCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTGTTTGAGGACT
AAAAGGTGCCACCAACTCTTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAGGAAGTGCC
ACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
GCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGG
GCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG
GCGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:821445 original size:397 final size:393
Alignment explanation
Indices: 820715--821928 Score: 1473
Period size: 397 Copynumber: 3.1 Consensus size: 393
820705 GTGAAGGGAG
820715 AAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 AAGGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT---A--AAAAGG
* * * * * *
820780 CATCCTGCTTTTTAAGGACTG-AA-GTGCCACCAACTCGTGTGGGCTTTGAA-AGGCATTCTGCT
60 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGAGGCGTCCTGCT
* * *
820842 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGATGTCCTGCTGTTTGAGGAC
125 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGAC
*
820906 TAAAAGGTGCCACCAACTCT-TGTGGGCTTTG-AAAG---GTGTCCTGCTCTCTGAGGACTAGGA
189 T-AAAGGTGCCACCAACT-TGTGTGGGCTTTGAAAAGAAAGTGTCCTGCTCTTTGAGGACTAGGA
820966 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG
252 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG
* *
821031 CCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTC
317 CCACCAGCTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCC-CCAACTC
821096 GTGTGGGCTTTAA
381 GTGTGGGCTTTAA
* *
821109 AAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCTCCAACTCGTGTGGGCTTT-AAAAGGCGTCC
1 AAGGCGTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCC
* *
821173 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTG
65 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTG
*
821237 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA
130 AGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-AAA
* **
821302 GGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAGGAAGTG
193 GGTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAGTGTCCTGCTCTTTGAGGACTAGGAAGTG
*
821367 CCACCAACTTGTGTGGGCTTTAAAAGGAGAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
256 CCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
* * * * **
821432 CAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGGTG----AA--AG-GAA
321 CAGCTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCCCAACTCGTGTG
821490 GG------
386 GGCTTTAA
*
821492 -A-GCGTCCTGCTCTTTGAGGACTGAGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAGAGG
1 AAGGCGTCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTT--AA--AA-AGG
*
821555 TGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCG
60 CGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT--AAAG-----AGGCG
* * *
821619 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTA
118 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCCTG
*
821684 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAGAGGTGTCATGCTCT
177 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAA-A-GTGTCCTGCTCT
* * * *
821748 TTGAGGACTA--AAGGTGCCACTAACTCGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTG
239 TTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
* *
821811 AGGAC-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAGGCGTCCTGCTCTTTGAGGACTAG
303 AGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT--AAAAGGCGTCCTGCTCTTTGAGGACTAG
* *
821875 AGGGTGCCACCAACTCTTGTGGGCTTTAA
366 AAGGTGCC-CCAACTCGTGTGGGCTTTAA
821904 AAGGCGTCCTGCTCTTTGAGGACTG
1 AAGGCGTCCTGCTCTTTGAGGACTG
821929 AAAGGGCTAA
Statistics
Matches: 708, Mismatches: 56, Indels: 92
0.83 0.07 0.11
Matches are distributed among these distances:
381 43 0.06
382 4 0.01
384 1 0.00
386 29 0.04
387 22 0.03
388 24 0.03
389 10 0.01
390 45 0.06
391 72 0.10
392 9 0.01
393 30 0.04
394 68 0.10
396 31 0.04
397 191 0.27
398 79 0.11
399 22 0.03
403 2 0.00
406 3 0.00
413 1 0.00
414 22 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (393 bp):
AAGGCGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCT
GCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTGA
GGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAGGT
GCCACCAACTTGTGTGGGCTTTGAAAAGAAAGTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACC
AACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCT
TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCCCAACTCGTGTGGGCTT
TAA
Found at i:821533 original size:216 final size:216
Alignment explanation
Indices: 821279--821670 Score: 596
Period size: 216 Copynumber: 1.8 Consensus size: 216
821269 TTTGAAAGGT
821279 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAA-GAAAAAGCATC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAAAAAGCATC
* * *
821343 CTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAGAAGACGTCC
65 CTGCTCTTTGAGGACTA--AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGACGTCC
*
821405 TGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
128 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
821470 GGACAAAAAGGTGAAAGGAAGGAGC
192 GGACAAAAAGGTGAAAGGAAGGAGC
* * * * **
821495 GTCCTGCTCTTTGAGGACTGAGAA-GTGCCACTAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTC
1 GTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGCATC
*
821559 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTG
65 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGACGTCCTG
*
821624 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
130 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
821671 AGAAGGCGTC
Statistics
Matches: 159, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
214 2 0.01
215 27 0.17
216 104 0.65
217 26 0.16
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (216 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGCATCC
TGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGACGTCCTGC
TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
AAAAAGGTGAAAGGAAGGAGC
Found at i:821704 original size:60 final size:59
Alignment explanation
Indices: 821483--821933 Score: 580
Period size: 60 Copynumber: 7.6 Consensus size: 59
821473 CAAAAAGGTG
* *
821483 AAAGGAAGGAGCGTCCTGCTCTTTGAGGACTGAGAA-GTGCCACTAACTTGTGTGGGCTTTA
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACT-A-AAGGTGCCACCAACTTGTGTGGGCTTTA
* *
821544 AAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAA
1 AAAGGAA-AGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-A
* *
821605 AAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAG--GAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
*
821666 AAAGGAGAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * * *
821726 AAAGGAAGAGGTGTCATGCTCTTTGAGGACTAAAGGTGCCACTAACTCGTGTGGGCTTTA
1 AAAGGAA-AGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
821786 AAAGGAAAAGGTGTCCTGCTCTTTGAGGACAAAAGGTGCCACCAACTCGTGTGGGCTTT-
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
*
821845 AAA--AAAGGCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCT-TGTGGGCTTT-
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACT-TGTGTGGGCTTTA
821902 --A--AAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACT-AAAGG
821934 GCTAAAAGAG
Statistics
Matches: 355, Mismatches: 24, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
55 29 0.08
56 25 0.07
57 24 0.07
59 7 0.02
60 180 0.51
61 39 0.11
62 49 0.14
63 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (59 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:828128 original size:80 final size:78
Alignment explanation
Indices: 828028--828346 Score: 349
Period size: 80 Copynumber: 4.0 Consensus size: 78
828018 ATATTTCCCG
* * * *
828028 ATGAGAAATTTAATATTTTGGAGATAGTAA-CGGGGTTGGAGTATCCCATTGAAAATAACGGAGT
1 ATGAGAAA-TCAATA-TTTGGAGATA-TAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
*
828092 TGGAGTAGCCCCGATT
63 TGGAGTATCCCCGATT
* * * * * * *
828108 GTGAAAAAATCGATGATTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTT
1 ATG-AGAAATCAAT-ATTTGGAGATATAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
828173 GGAGTATCCCCGATT
64 GGAGTATCCCCGATT
* * *
828188 ATGAGAAATTAATATTT-TAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
1 ATGAGAAATCAATATTTGGAGATAT-AA-CCGGGGTTGGAGTATCCCCTCGAAAATAACGGGG-T
828252 TGGAGTATCCCCGATT
63 TGGAGTATCCCCGATT
* *
828268 ATGAGAAATCAATATTTTAGGA-ATA-AAGCCAGGGGTTGGAGTATCCCTTCGACAATAACGGGG
1 ATGAGAAATCAATA-TTT-GGAGATATAA-CC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGG
828331 TTGGAGTATCCCCGAT
62 TTGGAGTATCCCCGAT
828347 GATTAACGGG
Statistics
Matches: 202, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
77 3 0.01
78 6 0.03
79 41 0.20
80 111 0.55
81 38 0.19
82 2 0.01
83 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (78 bp):
ATGAGAAATCAATATTTGGAGATATAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCGATT
Found at i:828305 original size:160 final size:159
Alignment explanation
Indices: 828028--828346 Score: 416
Period size: 160 Copynumber: 2.0 Consensus size: 159
828018 ATATTTCCCG
* * *
828028 ATGAGAAATTTAATATTTTGGAGATAGTAACGGGGTTGGAGTATCCCATTGAAAATAACGGAGTT
1 ATGAGAAATTTAATATTTTAGAAATAG-AACGGGGTTGGAGTATCCCATCGAAAATAACGGAGTT
* *
828093 GGAGTAGCCCCGATTGTGAAAAAATCGATGATTTGGAAATAAAACCGGGGTTGGAGTATCCCCTC
65 GGAGTAGCCCCGATTATGAAAAAATCAATGATTTGGAAATAAAACCGGGGTTGGAGTATCCCCTC
*
828158 GGA-GATAACGGGGTTGGAGTATCCCCGATT
130 -GACAATAACGGGGTTGGAGTATCCCCGATT
* *
828188 ATGAGAAA-TTAATATTTTAGAAATA-AAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
1 ATGAGAAATTTAATATTTTAGAAATAGAA--CGGGGTTGGAGTATCCCATCGAAAATAACGGAG-
* * *
828251 TTGGAGTATCCCCGATTATG-AGAAATCAAT-ATTTTAGG-AATAAAGCCAGGGGTTGGAGTATC
63 TTGGAGTAGCCCCGATTATGAAAAAATCAATGA-TTT-GGAAATAAAACC-GGGGTTGGAGTATC
*
828313 CCTTCGACAATAACGGGGTTGGAGTATCCCCGAT
125 CCCTCGACAATAACGGGGTTGGAGTATCCCCGAT
828347 GATTAACGGG
Statistics
Matches: 140, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
157 2 0.01
158 1 0.01
159 66 0.47
160 71 0.51
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (159 bp):
ATGAGAAATTTAATATTTTAGAAATAGAACGGGGTTGGAGTATCCCATCGAAAATAACGGAGTTG
GAGTAGCCCCGATTATGAAAAAATCAATGATTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCG
ACAATAACGGGGTTGGAGTATCCCCGATT
Found at i:828361 original size:27 final size:27
Alignment explanation
Indices: 828299--828373 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
828289 AATAAAGCCA
828299 GGGGTTGGAGTATCCCTTCGA-CAATAAC
1 GGGGTTGGAGTATCCC--CGATCAATAAC
* *
828327 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATCAATAAC
828354 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
828374 TGTAAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 25 0.57
28 16 0.36
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATCAATAAC
Found at i:828413 original size:107 final size:109
Alignment explanation
Indices: 828217--828421 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 109
828207 GAAATAAAGC
* *
828217 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTTGGAGTATCCCCGATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTTGGAGTATCCCCGATTATAAAAAATCAATA
* *
828282 TTTTAGGAATAAAGCCAGGGGTTGGAGTATCCCTTCGACAATAA
66 TTTTAGGAATAAAACCAGGAGTTGGAGTATCCCTTCGACAATAA
* * * * *
828326 CGGGGTTGGAGTAT-CCC-CGATGATTAACGGGG-TTGGAGTATCCCCGATTGTAAAAAATTAGT
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTTGGAGTATCCCCGATTATAAAAAATCAAT
* * *
828388 GTTTTTGGAAATAAAATC-GGAGTTGGAGTATCCC
65 ATTTTAGG-AATAAAACCAGGAGTTGGAGTATCCC
828422 CGATTAAAGG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 49 0.60
108 19 0.23
109 14 0.17
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (109 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTTGGAGTATCCCCGATTATAAAAAATCAATA
TTTTAGGAATAAAACCAGGAGTTGGAGTATCCCTTCGACAATAA
Found at i:828643 original size:51 final size:52
Alignment explanation
Indices: 828353--828634 Score: 410
Period size: 52 Copynumber: 5.4 Consensus size: 52
828343 CGATGATTAA
* * * *
828353 CGGGGTTGGAGTATCCCCGATTGTAA--AAAATTAGTGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATT-AAAGGAAAATTGGTG-TTTTGAAAATAAAAC
* *
828405 CGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTCTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
*
828457 CGGGGGTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
*
828509 CGGGGTTGGAGTATCCCCGGTTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
** *
828561 CGGGGTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTT-AGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAAC
828612 CGGGGTTGGAGTATCCCCGATTA
1 CGGGGTTGGAGTATCCCCGATTA
828635 TGAAAAATTG
Statistics
Matches: 211, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
50 1 0.00
51 48 0.23
52 153 0.73
53 9 0.04
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:831016 original size:13 final size:13
Alignment explanation
Indices: 830998--831023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
830988 CAAAGAATAG
830998 ATGTATCGATACA
1 ATGTATCGATACA
831011 ATGTATCGATACA
1 ATGTATCGATACA
831024 CATAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:831099 original size:19 final size:19
Alignment explanation
Indices: 831075--831160 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
831065 AGCGATAGAT
831075 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
831094 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
831107 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
831126 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
831147 TGTATCGATACAAA
1 TGTATCGATACAAA
831161 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:831109 original size:32 final size:32
Alignment explanation
Indices: 831067--831139 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
831057 AGCTTTCTAG
*
831067 CGATAGATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
831099 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
831131 CGATACATT
1 CGATACATT
831140 TACTGAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:831112 original size:13 final size:13
Alignment explanation
Indices: 831094--831118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
831084 ACAAAACTTA
831094 TGTATCGATACAT
1 TGTATCGATACAT
831107 TGTATCGATACA
1 TGTATCGATACA
831119 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:831222 original size:21 final size:22
Alignment explanation
Indices: 831196--831253 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
831186 GTTGGGACCT
* *
831196 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
831217 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
831238 TGTATCGATACATTTG
1 TGTATCGATACATTTG
831254 GATAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:831850 original size:2 final size:2
Alignment explanation
Indices: 831837--831883 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
831827 GTGTTTGTGA
*
831837 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
831879 AT AT A
1 AT AT A
831884 AAAGAGATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:842602 original size:183 final size:183
Alignment explanation
Indices: 842292--842659 Score: 610
Period size: 183 Copynumber: 2.0 Consensus size: 183
842282 AACCTTGTTC
*
842292 TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTATAAATGTTTTCAAGTCTTAAATCAA
1 TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTACAAATGTTTTCAAGTCTTAAATCAA
* * *
842357 ATGTTTTCAAGTAAAATTAATCCAAAGTATAGATACATAGGTATTTGTATCGATACATTAAGGTT
66 ATATTTTCAAGTAAAATTAATCCAAAGTACAGATACATAGGTATTTGTATCAATACATTAAGGTT
*
842422 AACTTAGACTACAAAGGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
131 AACTTAGACTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
* * *
842475 TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTACAAGTGTTTTTAAGTCTTAAATCGA
1 TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTACAAATGTTTTCAAGTCTTAAATCAA
* * *
842540 ATATTTTCAAGTAAAATTAATCTAAAGTACCGATACATAGGTATTTGTATCAATATATTAAGGTT
66 ATATTTTCAAGTAAAATTAATCCAAAGTACAGATACATAGGTATTTGTATCAATACATTAAGGTT
* * *
842605 GACTTAGGCTACAAAAGTCAAAACCCTAGAAAGTATCGATACACGCCCAGATG
131 AACTTAGACTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
842658 TA
1 TA
842660 TCGATATATT
Statistics
Matches: 171, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
183 171 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (183 bp):
TAAGTGATTTTCAATTTCAATAAAGGTTTAGAGTTTCGTACAAATGTTTTCAAGTCTTAAATCAA
ATATTTTCAAGTAAAATTAATCCAAAGTACAGATACATAGGTATTTGTATCAATACATTAAGGTT
AACTTAGACTACAAAAGTCAAAACCCTAGAAAGTATCGATACACACCCAGATG
Found at i:842717 original size:19 final size:20
Alignment explanation
Indices: 842689--842739 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
842679 ATCGAAACAA
* *
842689 TGTATCGATACATGC-TCAT
1 TGTATCGATACATACTTAAT
*
842708 TGTATTGATACATACTTAAT
1 TGTATCGATACATACTTAAT
842728 TGTATCGATACA
1 TGTATCGATACA
842740 AGAAATTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTTAAT
Found at i:842804 original size:13 final size:13
Alignment explanation
Indices: 842786--842815 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
842776 GATACATGGG
842786 ACATTGTATCGAT
1 ACATTGTATCGAT
842799 ACATTGTATCGAT
1 ACATTGTATCGAT
842812 ACAT
1 ACAT
842816 AAAGAGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:845180 original size:20 final size:20
Alignment explanation
Indices: 845155--845192 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
845145 TCTAAAGTAT
845155 GTCAAAATATCTTTCCAACG
1 GTCAAAATATCTTTCCAACG
845175 GTCAAAATATCTTTCCAA
1 GTCAAAATATCTTTCCAA
845193 TGGCATCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (20 bp):
GTCAAAATATCTTTCCAACG
Found at i:845961 original size:97 final size:97
Alignment explanation
Indices: 845844--846271 Score: 667
Period size: 97 Copynumber: 4.4 Consensus size: 97
845834 TTTATTTATC
* * * *
845844 GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAGCCCTGCTTTTAAACATATCAAAGTTT
1 GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
845909 AAATCTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
* * * *
845941 GGGACACTTCAACCATATTCCTCCAAGGTGATACTCCAACCCTGCTTTTAAACGCATCAAAGTTT
1 GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
* * * *
846006 AAATTTTATTCTCACTTCAGTTGTTATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
**
846038 GGGACACTCCAACCATATTCCTCCGAGGGGATACTTTAACCCTGCTTTTAAACACATCAAAGTTT
1 GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
846103 AAATCTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
* * * *
846135 GGGACACTTCAACCACATTCCTCCGAGGTGATACTCCAACCCTGCTTTTAAACGCATCAAAGTTT
1 GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
* *
846200 AAATTTTATTCTCACTTAAATTGTTATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
*
846232 GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAAC
1 GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAAC
846272 TTCATTTTTC
Statistics
Matches: 297, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 297 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (97 bp):
GGGACACTCCAACCATATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
AAATCTTATTCTCACTTAAATTGTCATCATCG
Found at i:846178 original size:194 final size:194
Alignment explanation
Indices: 845844--846271 Score: 766
Period size: 194 Copynumber: 2.2 Consensus size: 194
845834 TTTATTTATC
* * *
845844 GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAGCCCTGCTTTTAAACATATCAAAGTTT
1 GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
*
845909 AAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTTCAACCATATTCCTCCAAGGTGATA
66 AAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTTCAACCACATTCCTCCAAGGTGATA
* *
845974 CTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATTTTATTCTCACTTCAGTTGTTATCATCG
131 CTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATTTTATTCTCACTTAAATTGTTATCATCG
* **
846038 GGGACACTCCAACCATATTCCTCCGAGGGGATACTTTAACCCTGCTTTTAAACACATCAAAGTTT
1 GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
*
846103 AAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTTCAACCACATTCCTCCGAGGTGATA
66 AAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTTCAACCACATTCCTCCAAGGTGATA
846168 CTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATTTTATTCTCACTTAAATTGTTATCATCG
131 CTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATTTTATTCTCACTTAAATTGTTATCATCG
846232 GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAAC
1 GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAAC
846272 TTCATTTTTC
Statistics
Matches: 221, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 221 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (194 bp):
GGGACACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTT
AAATCTTATTCTCACTTAAATTGTCATCATCGGGGACACTTCAACCACATTCCTCCAAGGTGATA
CTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATTTTATTCTCACTTAAATTGTTATCATCG
Done.