Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 7 of 23
Found at i:891114 original size:441 final size:439
Alignment explanation
Indices: 890233--891366 Score: 1726
Period size: 441 Copynumber: 2.6 Consensus size: 439
890223 GGAGAAAAGG
* * * *
890233 AAAAGGCATCCTGCTCTTTGAGGACT-ATAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 AAAAGGCGTCCTACTCTTTGAGGACTGA-AAAATGCCACCAATTTGTGTGGGCTTT-AAAAGAAA
* * *
890297 AGGCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
64 AGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GA-AA-GC
* * *
890362 ATCCTGCTCTTTGAGGACTGGGAATTGCCACCAACTTGTGCGGGCTTTAAAAGGTGTCCTGCTCT
126 ATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
* * *
890427 TTGAGGATTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGGACG
191 TTGAGGATTGGGAAGTGCCACC-AACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
* * * *
890491 GGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTAAAAGGCGAA
255 GGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGACTAAAAGGCGAA
*
890556 AAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTTGGCTTTGAAAGGA
320 AAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
*
890621 GAAAGCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT-
385 GAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTA
* * *
890675 GAAAGGCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAACAGAAAAG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
* * *
890740 GCGTCCTGCTTTTTAAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCAT
66 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAGCAT
890805 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
128 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
*
890870 GAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGGA
193 GAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGA
* *
890935 AAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCGAAAAG
258 AAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGACTAAAAGGCGAAAAG
*
891000 AGAGAGCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
323 AGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
* * *
891065 AGCATCCTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTA
388 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTA
891117 AAAAGG-GTCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
1 AAAAGGCGTCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
* **
891181 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG---GTGTCC
66 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCC
* * *
891242 TGCTCTTTGAGGATTGGGAAGTGCCCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGA
130 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
** * * * *
891307 GGACCGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACT
195 GGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
891367 AAAAGGCGAA
Statistics
Matches: 634, Mismatches: 51, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
435 119 0.19
440 6 0.01
441 447 0.71
442 61 0.10
443 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (439 bp):
AAAAGGCGTCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCCT
GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
GATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
TGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGACTAAAAGGCGAAAAGAGA
GAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGC
ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTA
Found at i:891133 original size:155 final size:149
Alignment explanation
Indices: 890856--891141 Score: 421
Period size: 155 Copynumber: 1.9 Consensus size: 149
890846 GCTTTAAAAG
* *
890856 GCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
*
890921 CTTTAAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGAC
66 CTTTAAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGAC
890986 TAAAGGGCGAAAAGAGAGA
131 TAAAGGGCGAAAAGAGAGA
*
891005 GCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG---GCAT
* * * *
891070 CCTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAAGG-GTCCTACTCTT
60 CCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTT-AAAAGGCGTCCTACTCTT
*
891134 TGAGGACT
124 TAAGGACT
891142 GAAAAATGCC
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
149 48 0.40
150 3 0.02
152 2 0.02
155 62 0.51
156 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (149 bp):
GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
CTTTAAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGCGTCCTACTCTTTAAGGAC
TAAAGGGCGAAAAGAGAGA
Found at i:891224 original size:380 final size:373
Alignment explanation
Indices: 890244--892493 Score: 1577
Period size: 380 Copynumber: 5.9 Consensus size: 373
890234 AAAGGCATCC
** *
890244 TGCTCTTTGAGGACTATAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AGAAAAGGCGTCCTAC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG-AAA-GCATCCTAC
** *
890308 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTT
64 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AA--A-AAGGCGTCCTGCTCTT
** * * * *
890373 TGAGGACTGGGAATTGCCACCAACTTGTGCGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGG
124 TGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGG
* * * *
890438 GAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGGA-CGGGAAAATGCC
189 GAAGTGCCACC-AACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGG-AAGTGCC
* * * * **
890501 ACTAACTTGTGTGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTAAAAGGCGAAAAGAGAGAGC
252 ACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-----G-GAAAA-TGCCA-C
*** * *** ** ** * ** * *
890566 GTCCTGCTCTTTGAGGAC-TGGGAAGTGCCACCAACT-TGTGTTGG-CT----TTGAAAGGAGAA
309 CAACT--TCTGTG-GG-CTTTAAAAG-GCGTCCTGCTCT-T-TAGGACTAAAGGCGAAAAGAGAG
*
890624 AGCATCT
367 AGCGTCT
* * *
890631 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTG-AA-AG---GCGTCCTACTC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAAGCATCCTACTC
* * *
890691 TTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAACAGAAAAGGCGTCCTGCTTTTTAA
66 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---A-AAAAGGCGTCCTGCTCTTTGA
*
890756 GGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGAC
127 GGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG-----GCGTCCTGCTCTTTGAGGAC
890821 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGC
186 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGC
*
890886 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTC
251 CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTC
890951 TGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGCGAAAAGAGAGAGCGTCT
316 TGTGGGCTTTAAAAGGCGTCCTGCTCTTT-AGGACTAAA-GGCGAAAAGAGAGAGCGTCT
* **
891011 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCTGTT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAGAAAGCATCCTACT
* *
891076 CTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAAGG-GTCCTACTCTTTGAGGA
65 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGA
* *
891140 CTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGG
130 CTGAAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTTTGAGGACTGGG
* *
891205 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGGAAGTGCCCCC
190 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACC
* * *
891270 AACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACCGGAAAATGCCACCAACTTGTGTG
255 AACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTG
* * *
891335 GGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGGCGAAAAGAGAGAGCGTCC
320 GGCTTTAAAAGGCGTCCTGCTCTTT-AGGACT-AAAGGCGAAAAGAGAGAGCGTCT
* * * * *
891391 TGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAGGCATCCTGCT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAGAAAGCATCCTACT
* * * * * * * *
891456 CTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGTGTCTTGCTCTTTGAGGA
65 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGA
* ** * * * * *
891521 TTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTCTTTGAGGACTGGAAAAT
130 CTGAAAAATGCCACC-AACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGT
* * * * * * *
891585 GCCGCTAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACT--AAAG-GGCA--AA--
194 GCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACT
** * * * * * * *
891643 ---AAGAG-----AGA-GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCT
259 TGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCT
* ** * * ** * *
891699 TTGAAAGGAGAAAGCATCCTATTCTTTGAGGACTGGAAAATGCCCTAACTTGTGTGGGCTTTGAA
324 TT-AAA--AG---GCGTCCTGCTCTTT-AGGACT---AAA-G-GCGAA-------AAG---AGAG
* *
891764 AGGAGTCG
367 A-GCGTCT
* * * * * *
891772 TGCTTTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGA-AAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA-GCATCCTACT
* *
891836 CATTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTT
65 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAG-----GCGTCCTGCTCTTT
* * * * * ***
891901 GAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTTCGAGGACTATA
125 GAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGG
* * * * * * *
891966 AAATGCCACCAACTTGTGTGGGCTTTAAAATGCATCCTGCTCTTTAAGGACT---AAATGGCGA-
190 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGT-GCCAC
* * * * *
892027 -AA------AGAG-----AGA-GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTG
254 CAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTCTG
* * * * * * *
892078 TGGGCTTTGAAAGGAGAAAACATCTTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGG
318 TGGGCTTT-AAA--AG---GCGTCCTGCTCTTT-AGGACT---AAAGGCGA--AA--------AG
* * *
892143 CTTTGAAAGGCGTCC
363 ---AGAGA-GCGTCT
* * * * *
892158 TGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGA-AAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAA-GCATCCTACT
*
892222 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTT
65 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAG-----GCGTCCTGCTCTTT
* * * * * *
892287 GAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAGA
125 GAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGG
* * * * ** *
892352 AAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAAGACTGAAAAATGCCACC
190 AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACC
* * * * *
892417 AACTTGTGTGGGCTTTGAAA-GCTGTCCTACTCTTTGAGGACT-GAAAGGTGCCACTAACTTATG
255 AACTTGTGTGGGCTTTAAAAGGC-GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTCTG
*
892480 TGGGCTTTGAAAGG
318 TGGGCTTTAAAAGG
892494 AAAAGGCGTC
Statistics
Matches: 1583, Mismatches: 188, Indels: 175
0.81 0.10 0.09
Matches are distributed among these distances:
360 44 0.03
361 5 0.00
363 2 0.00
366 18 0.01
368 4 0.00
369 1 0.00
370 3 0.00
371 2 0.00
373 3 0.00
374 13 0.01
375 9 0.01
376 75 0.05
377 1 0.00
378 3 0.00
379 4 0.00
380 456 0.29
381 190 0.12
382 8 0.01
383 6 0.00
384 2 0.00
385 204 0.13
386 422 0.27
387 46 0.03
388 3 0.00
389 4 0.00
390 2 0.00
396 2 0.00
399 2 0.00
400 1 0.00
401 8 0.01
402 40 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (373 bp):
TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAAGCATCCTACTC
TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGAC
TGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGC
CACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTG
TGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTT
AAAAGGCGTCCTGCTCTTTAGGACTAAAGGCGAAAAGAGAGAGCGTCT
Found at i:891227 original size:115 final size:114
Alignment explanation
Indices: 891011--891371 Score: 468
Period size: 115 Copynumber: 3.2 Consensus size: 114
891001 GAGAGCGTCT
** * *
891011 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAA-GCATCCTGT
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GA-AAAGGCGTCCTGC
*
891075 TCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAAGG-GTCC
63 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGTGTCC
* * *
891127 TACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTC
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGAAAAGGCGTCCTGCTC
*
891192 TTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCC
65 TTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCC
* ** * *
891242 TGCTCTTTGAGGATTGGGAAGTGCCCCCAACTTGTGTGGGCTTT----AAAAGGCGTCTTGCTCT
1 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTGCTCT
* *
891303 TTGAGGACCGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTC
66 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCC
891352 TGCTCTTTGAGGACT-AAAAG
1 TGCTCTTTGAGGACTGAAAAG
891372 GCGAAAAGAG
Statistics
Matches: 217, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
109 5 0.02
110 73 0.34
114 9 0.04
115 86 0.40
116 44 0.20
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (114 bp):
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAGGCGTCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCC
Found at i:891458 original size:441 final size:433
Alignment explanation
Indices: 890241--892519 Score: 1469
Period size: 441 Copynumber: 5.2 Consensus size: 433
890231 GGAAAAGGCA
* *
890241 TCCTGCTCTTTGAGGACT-ATAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCC
1 TCCTACTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCC
*
890305 TACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGC
64 TGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAA--AG--GG--TCCTGC
* * *
890369 TCTTTGAGGACTGGGAATTGCCACCAACTTGTGCGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGA
121 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
* * * *
890434 TTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGC-ATCTTGCTCTTTGAGGAC------G
186 CTGGAAAATGCCACC-AACTTGTGTGGGCTTTAAAAGGCGTTC-TGCTCTTTGAGGACTAAAAAG
* * * * * ** * *** * * * *
890491 G-G---A-AAATGC--CACTAACT-TGTGTGGGCTTTAAAAGGTGTCCTACTCTTTGAGGAC-TA
249 GCGAAAAGAAAAGCGTC-CT-GCTCTTTGAGGACTGGAAAATGCCACCAACT-TGTGTGGGCTTA
* * *
890547 AAAGGCGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTTGGCT
311 AAA--TG---AGA-AG-GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCT
* * *
890612 TTGAAAGGAGAAAGCATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGA
369 TTGAAA--AG---GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA
890677 AAGGCG
429 AAGG-G
* * *
890683 TCCTACTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAACAGAAAAGGCGTCCTG
1 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
* * * * *
890748 CTTTTTAAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTC
66 CTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----G-GTCCTGCTC
*
890812 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGATT
123 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
* * * *
890877 GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAGGACT------G-G-
188 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTTCTGCTCTTTGAGGACTAAAAAGGCGA
* ** ** * ** * ** ** *
890934 --A-AAATGCCACCAACTTCTGTG-GG-CTTTAAAAGGCGTCCTGCTCTTTAAGGACTAAAGGGC
253 AAAGAAAAGCGTCCTGC-TCTTTGAGGACTGGAAAATGCCACCAACT-TGT---G--T---GGGC
* * *
890994 -GAAAA-GAG-AGAGCGTCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTG
308 TTAAAATGAGAAG-GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTG
* *
891056 AAAGGAGAAAGCATCCTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAA
372 AAA--AG---GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAA
891121 GGG
431 GGG
*
891124 TCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
1 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
891189 CTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-GTCCTGCTCTTTGAGG
* * * *
891254 ATTGGGAAGTGCCCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACCGGAAAAT
130 ACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
*
891319 GCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACT-AAAAGGCGAAAAGAGA
195 GCCACCAACTTGTGTGGGCTTTAAAAGGCGTTCTGCTCTTTGAGGACTAAAAAGGCGAAAAGA-A
* * * *
891383 GAGCGTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAGGC
259 AAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTAAAATGAGAAGGC
* * * * ** *
891448 ATCCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGTGTCTTGCTC
323 ATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTC
* * *
891513 TTTGAGGATTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGTG
388 TTTGAGGACTGGAAAATGCCACC-AACTTGTGTGGGCTTTAAAAGG-G
* * * * * *
891560 TCTTGCTCTTTGAGGACTGGAAAATGCCGCTAACTTGTGTGGGCTTT-----AAAACGCGTCCTG
1 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
* * ** * * * *
891620 CTCTTTAAGGACTA--AAG-GGCA--AA-AAGAGAGAGC------A---TCCTACTCTTTGAGGA
66 CTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGTCCTGCTCTTTGAGGA
* **
891670 CTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCTATTCTTTGAGGACTGG
131 CTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG---GCGTCCTGCTCTTTGAGGACTGG
* * * *
891735 AAAATGCC-CTAACTTGTGTGGGCTTTGAAAGGAG-TCGTGCTTTTTGAGGACTGGAAAATGCCA
190 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTTC-TGCTCTTTGAGGACT----AA----A
* *
891798 CCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCATTGAGGACTGGAAAATGCCACCAAC
246 --AA--------GGC--GAAAAGAAAA-GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
* * * * *
891863 TTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT
298 TTGTGTGGGC-TTAAAATGAGAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGT
* * **
891928 ATGGGCTTTG-AAAGGCATCCTGCTCTTCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTT
362 GTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
**
891992 AAAATGCA
427 AAAA-GGG
* * * *
892000 TCCTGCTCTTTAAGGAC-------T---A--AA------T-GGC--GAAAAG-AGAGAGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCGTCCT
* * *
892043 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAACATCTTGTTC
65 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-G------TCCTGCTC
* * * *
892108 TTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
123 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
* *
892173 GGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAA
188 GGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTTCTGCTCTTTGAGGACT----A
* *
892238 ATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGC
244 A----A--AA--------GGC---GAAAAG-AAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGC
* * * *
892303 CACCAACTTGTATGGGCTT----TGA-AAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCA
291 CACCAACTTGTGTGGGCTTAAAATGAGAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCA
* * * *
892363 ACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTTTTTGAAGACTGAAAAATGCCACCAACTTGTGTG
356 ACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTG
* *
892427 GGCTTTGAAAGCTG
421 GGCTTTAAAAG-GG
** * * *
892441 TCCTACTCTTTGAGGACTGAAAGGTGCCACTAACTTATGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* *
892506 ACTTTTTGAGGACT
65 GCTCTTTGAGGACT
892520 GAAAAGTGAA
Statistics
Matches: 1513, Mismatches: 189, Indels: 249
0.78 0.10 0.13
Matches are distributed among these distances:
415 44 0.03
416 3 0.00
418 2 0.00
419 3 0.00
420 37 0.02
421 29 0.02
422 1 0.00
423 2 0.00
424 21 0.01
425 6 0.00
426 5 0.00
427 3 0.00
428 5 0.00
429 6 0.00
430 5 0.00
431 27 0.02
433 1 0.00
435 126 0.08
436 83 0.05
438 4 0.00
439 7 0.00
440 102 0.07
441 702 0.46
442 64 0.04
443 10 0.01
444 2 0.00
445 7 0.00
446 99 0.07
447 62 0.04
448 5 0.00
449 7 0.00
451 1 0.00
453 2 0.00
459 1 0.00
460 3 0.00
463 23 0.02
464 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (433 bp):
TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGTCCTGCTCTTTGAGGA
CTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATG
CCACCAACTTGTGTGGGCTTTAAAAGGCGTTCTGCTCTTTGAGGACTAAAAAGGCGAAAAGAAAA
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTAAAATGAGAAGGCATC
CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCATCCTGCTCTTT
GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGG
Found at i:891569 original size:211 final size:204
Alignment explanation
Indices: 891181--892464 Score: 625
Period size: 210 Copynumber: 5.9 Consensus size: 204
891171 AAAAGAAAAG
*
891181 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCT
* * * *
891246 CTTTGAGGATTGGGAAGTGCCCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGAC
66 CTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTAAAAGGCGTCTTGCTCTTTGAGGAC
891311 CGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGGCGA
131 CGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGGCGA
891376 AAAGAGAGA
196 AAAGAGAGA
* *
891385 GCGTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G--GG--T
*
891450 CCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGTGTCTTGCTCTT
60 CCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGC-TTTAAAAGGCGTCTTGCTCTT
** * *
891515 TGAGGATTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGTG-TCTTGCTCTTTGAGGACT
124 TGAGGACCGGAAAATGCCACC-AACTTGTGTGGGCTTTAAAAGGTGTTC-TGCTCTTTGAGGACT
* ** * *
891578 GGAAAATGCCGCTAACTTGTGTGGGCTTTAAAA
187 --AAAA-G--GCGAA-----AAGAG-----AGA
* * ** * * * *
891611 CGCGTCCTGCTCTTTAAGGACTA--AAG-GGCA--AA-AAGAGAGAGC------A----TCCTAC
1 -GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGC
* * * * * **
891660 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCTATTCTT
65 TCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTT-AAA--AG---GCGTCTTGCTCTT
* * * * *
891725 TGAGGACTGGAAAATGCC-CTAACTTGTGTGGGCTTTGAAAGGAG-TCGTGCTTTTTGAGGACTG
124 TGAGGACCGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTC-TGCTCTTTGAGGACT-
* *
891788 GAAAATGCCACCAATTTGTGTGGGCTTTAAAAGA-AAA
187 ----A----A--AA--------GGC--GAAAAGAGAGA
* * *
891825 GGCGTCCTGCTCATTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
1 -GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GG
* * * * ** * * * *
891889 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCT
58 GTCCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTAAAAGGCGTCTTGCTCT
* *** * ** * *
891954 TCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTTAAAATGCATCCTGCTCTTTAAGGACTA
123 TTGAGGACCGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTA
*
892019 AATGGCGAAAAGAGAGA
188 AAAGGCGAAAAGAGAGA
* *
892036 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAACAT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-G-----GT
* * * * * * * * * *
892101 CTTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
60 CCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTAAAAGGCGTCTTGCTCTTT
* * * *
892166 GAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGA
125 GAGGACCGGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTTCTGCTCTTTGAGGA
* * *
892231 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
185 CT-----A----A--AA--------GGC---GAAAAGAGAGA
* * * * **
892273 GCATCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGC
* * * * * * * * *
892337 TCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAAGA
65 TCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTAAAAGGCGTCTTGCTCTTTGAGGA
* * * * * * *
892402 CTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGCTGTCCTACTCTTTGAGGACTGAAAGG
130 CCGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGG
892465 TGCCACTAAC
Statistics
Matches: 852, Mismatches: 118, Indels: 217
0.72 0.10 0.18
Matches are distributed among these distances:
204 56 0.07
205 44 0.05
206 1 0.00
207 4 0.00
208 1 0.00
209 42 0.05
210 213 0.25
211 77 0.09
212 4 0.00
213 4 0.00
214 23 0.03
215 26 0.03
216 7 0.01
217 4 0.00
218 2 0.00
219 2 0.00
220 8 0.01
221 7 0.01
222 3 0.00
223 2 0.00
224 4 0.00
225 7 0.01
226 26 0.03
227 20 0.02
230 26 0.03
231 128 0.15
232 1 0.00
233 2 0.00
234 3 0.00
235 2 0.00
236 45 0.05
237 58 0.07
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (204 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCT
CTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTAAAAGGCGTCTTGCTCTTTGAGGAC
CGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGGCGA
AAAGAGAGA
Found at i:891593 original size:55 final size:55
Alignment explanation
Indices: 891387--891632 Score: 278
Period size: 55 Copynumber: 4.3 Consensus size: 55
891377 AAGAGAGAGC
* *
891387 GTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAG
1 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G--T
* * *
891446 GCATCCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGT
1 G--TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGT
* *
891504 GTCTTGCTCTTTGAGGATTGGGAAGTGCC-CCTAACTTGTGTGGGCTTTAAAAGGT
1 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACC-AACTTGTGTGGGCTTTAAAAGGT
* * * * * * *
891559 GTCTTGCTCTTTGAGGACTGGAAAATGCCGCTAACTTGTGTGGGCTTTAAAACGC
1 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGT
*
891614 GTCCTGCTCTTTAAGGACT
1 GTCCTGCTCTTTGAGGACT
891633 AAAGGGCAAA
Statistics
Matches: 165, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
55 76 0.46
56 38 0.23
58 1 0.01
59 1 0.01
60 1 0.01
61 41 0.25
62 7 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGT
Found at i:891604 original size:266 final size:263
Alignment explanation
Indices: 891123--892464 Score: 1049
Period size: 266 Copynumber: 4.9 Consensus size: 263
891113 TTTAAAAAGG
** * * * *
891123 GTCCTACTCTTTGAGGACTGAAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCATCCT
*
891188 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
*
891253 GATTGGGAAGTGCCCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACCGGAAAA
131 GATTGGGAAGTG-CCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACTGGAAAA
* * * * *
891318 TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTTCTGCTCTTTGAGGACTAAAAGGCGAAAAGAGA
195 TGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAAGGCAAAAAGAGA
891383 GAGC
260 GAGC
* *
891387 GTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGAGAAGGCATCC
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCATCC
* * * *
891452 TGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGTGTCTTGCTCTTTG
65 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGTGTCCTGCTCTTTG
*
891517 AGGATTGGGAAGTGCCCCTAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTCTTTGAGGACTGGAA
129 AGGATTGGGAAGTGCCCC-AACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACTGGAA
* * *
891582 AATGCCGCTAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAGGGCAAAAAGA
193 AATGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAAGGCAAAAAGA
891647 GAGAGC
258 GAGAGC
* * *
891653 ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCC
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCATCC
** * * * * * * *
891718 TATTCTTTGAGGACTGGAAAATGCC-CTAACTTGTGTGGGCTTTGAAAGGAGTCGTGCTTTTTGA
65 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA
* * * * * *
891782 GGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCATTGAGGACT
130 GGATTGGGAAGTGCC-CCAACTTGTGTGGGCTTT-----AAAAGGCGTCTTGCTCTTTGAGGACT
* * *
891847 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAA
189 GGAAAATGCCACCAACTTGTGTGGGCTTT------AAAACGCGTCCTGCTCTTTAAGGACT--AA
* * * *
891912 AATGCCACCAACTTGTATGGGCTTTGAAAGGC
246 AA-GGCA--AA-----A--AG---AGAGA-GC
* * * *** * *
891944 ATCCTGCTCTTCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTT---A-A-AATGCATCCT
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCATCCT
* * * * * * *
892004 GCTCTTTAAGGACT---AAATGGCGA--AA------AGAG-----AGA-GCGTCCTGCTCTTTGA
66 GCTCTTTGAGGACTGGGAAGT-GCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA
* * * * *
892052 GGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAACATCTTGTTCTTTGAGGAC
130 GGATTGGGAAGTGCC-CCAACTTGTGTGGGCTTT-AAA--AG---GCGTCTTGCTCTTTGAGGAC
* * * * *
892117 TGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGC
188 TGGAAAATGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACT--AAAA-GG
* *
892182 CACCAATTTGTGTGGGCTTTAAAAGAAAAGGC
250 CA--AA--------------AAGAG-AGA-GC
* * * * *
892214 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCATCC
1 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCATCC
* * * * **
892279 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA
* * * * * * * *
892344 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAAGACTGAAAA
130 GGATTGGGAAGTGCC-CCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACTGGAAA
* * * *
892409 ATGCCACCAACTTGTGTGGGCTTTGAAA-GCTGTCCTACTCTTTGAGGACTGAAAGG
194 ATGCCACCAACTTGTGTGGGCTTTAAAACGC-GTCCTGCTCTTTAAGGACTAAAAGG
892465 TGCCACTAAC
Statistics
Matches: 887, Mismatches: 118, Indels: 127
0.78 0.10 0.11
Matches are distributed among these distances:
264 93 0.10
265 103 0.12
266 223 0.25
267 3 0.00
268 2 0.00
269 51 0.06
270 93 0.10
271 46 0.05
274 4 0.00
275 24 0.03
276 24 0.03
277 3 0.00
278 6 0.01
279 4 0.00
280 4 0.00
282 6 0.01
283 3 0.00
284 3 0.00
285 23 0.03
286 67 0.08
287 1 0.00
289 2 0.00
290 3 0.00
291 49 0.06
292 47 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (263 bp):
GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCATCCT
GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
GATTGGGAAGTGCCCCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGACTGGAAAAT
GCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAAGGCAAAAAGAGAG
AGC
Found at i:891809 original size:209 final size:205
Alignment explanation
Indices: 891446--891819 Score: 516
Period size: 209 Copynumber: 1.8 Consensus size: 205
891436 AAATGAGAAG
* * ** * *
891446 GCATCCTGCTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTTAAAAGGTGTCTTGC
1 GCATCCTACTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTGAAAAGGCATCCTAC
* * * * *
891511 TCTTTGAGGATTGGGAAGTGCCCCTAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTCTTTGAGGA
66 TCTTTGAGGACTGGAAAATGCCCCTAACTTGTGTGGGCTTTAAAAGGAGTCGTGCTCTTTGAGGA
* *
891576 CTGGAAAATGCCGCTAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAGGGCA
131 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAGGGCA
891641 AAAAGAGAGA
196 AAAAGAGAGA
* * *
891651 GCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCAT
1 GCATCCTACTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTGAAA--AG---GCAT
* * *
891716 CCTATTCTTTGAGGACTGGAAAATG-CCCTAACTTGTGTGGGCTTTGAAAGGAGTCGTGCTTTTT
61 CCTACTCTTTGAGGACTGGAAAATGCCCCTAACTTGTGTGGGCTTTAAAAGGAGTCGTGCTCTTT
*
891780 GAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAA
126 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
891820 GAAAAGGCGT
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
205 49 0.34
207 2 0.01
209 72 0.50
210 21 0.15
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (205 bp):
GCATCCTACTCTTTGAGGAATGGGAAGTGCCACCAACTTGTGCGAGCTTTGAAAAGGCATCCTAC
TCTTTGAGGACTGGAAAATGCCCCTAACTTGTGTGGGCTTTAAAAGGAGTCGTGCTCTTTGAGGA
CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTGCTCTTTAAGGACTAAAGGGCA
AAAAGAGAGA
Found at i:891911 original size:61 final size:60
Alignment explanation
Indices: 891641--891995 Score: 408
Period size: 61 Copynumber: 6.1 Consensus size: 60
891631 CTAAAGGGCA
* * * * *
891641 AAAAGAGAGAGCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * ** *
891701 GAAAGGAGAAAGCATCCTATTCTTTGAGGACTGGAAAATGCC-CTAACTTGTGTGGGCTTT
1 -AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * * * *
891761 GAAAG---GAG--TCGTGCTTTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
891816 AAAAGAAAAGGCGTCCTGCTCATTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
891876 AAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
1 -AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * **
891937 ----G-AAAGGCATCCTGCTCTTCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
891992 AAAA
1 AAAA
891996 TGCATCCTGC
Statistics
Matches: 252, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
54 24 0.10
55 69 0.27
56 3 0.01
58 1 0.00
59 3 0.01
60 60 0.24
61 92 0.37
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:892018 original size:55 final size:56
Alignment explanation
Indices: 891650--892017 Score: 377
Period size: 55 Copynumber: 6.4 Consensus size: 56
891640 AAAAAGAGAG
* * *
891650 AGCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
1 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AA--A-AA
** * *
891711 AGCATCCTATTCTTTGAGGACTGGAAAATGCC-CTAACTTGTGTGGGCTTT--GAA
1 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
* * * *
891764 AGGAGTCGTGCTTTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAA
1 AGCA-TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AA-AAA
* *
891824 AGGCGTCCTGCTCATTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
1 A-GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----A-AAAA
* *
891886 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT-GAAA
1 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
* * **
891941 GGCATCCTGCTCTTCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTT-AAAA
1 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
* *
891996 TGCATCCTGCTCTTTAAGGACT
1 AGCATCCTGCTCTTTGAGGACT
892018 AAATGGCGAA
Statistics
Matches: 264, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.02
54 24 0.09
55 87 0.33
60 63 0.24
61 77 0.29
62 7 0.03
63 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (56 bp):
AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
Found at i:892029 original size:116 final size:113
Alignment explanation
Indices: 891650--892017 Score: 347
Period size: 115 Copynumber: 3.2 Consensus size: 113
891640 AAAAAGAGAG
* * * * *
891650 AGCATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-GAAAGGAGAAAGC
1 AGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAGAAA--AG---GC
** * * * *
891714 ATCCTATTCTTTGAGGACTGGAAAATGCC-CTAACTTGTGTGGGCTTT--GAA
61 ATCCTGCTCATTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
* * * * * * *
891764 AGGAGTCGTGCTTTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAGGCG
1 AGCA-TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT---AGAAAAGGCA
*
891829 TCCTGCTCATTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
62 TCCTGCTCATTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----A-AAAA
*
891886 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT-G-AAAGGCATCCT
1 AGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAGAAAAGGCATCCT
*
891949 GCTC-TTCGAGGACTATAAAATGCCACCAACTTGTGTGGGCTTT-AAAA
66 GCTCATT-GAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
*
891996 TGCATCCTGCTCTTTAAGGACT
1 AGCATCCTGCTCTTTAAGGACT
892018 AAATGGCGAA
Statistics
Matches: 217, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
110 24 0.11
114 30 0.14
115 60 0.28
116 48 0.22
117 3 0.01
119 4 0.02
121 43 0.20
122 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (113 bp):
AGCATCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAGAAAAGGCATCCT
GCTCATTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
Found at i:892193 original size:55 final size:55
Alignment explanation
Indices: 892036--892493 Score: 544
Period size: 55 Copynumber: 8.0 Consensus size: 55
892026 AAAAGAGAGA
*
892036 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA-G
* * * *
892092 AGAAAACATCTTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAG
1 -G----CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
*
892152 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAG
*
892212 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
892273 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
892328 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
892383 GCGTCCTGCTTTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAA-
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
892437 GCTGTCCTACTCTTTGAGGACT-GAAAGGTGCCACTAACTTATGTGGGCTTTGAAAG
1 GC-GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAG
892493 G
1 G
892494 AAAAGGCGTC
Statistics
Matches: 356, Mismatches: 31, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
54 5 0.01
55 188 0.53
56 2 0.01
57 1 0.00
59 2 0.01
60 56 0.16
61 102 0.29
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:892337 original size:176 final size:171
Alignment explanation
Indices: 892036--892432 Score: 600
Period size: 176 Copynumber: 2.3 Consensus size: 171
892026 AAAAGAGAGA
* * *
892036 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAACA
1 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAACA
* * * * *
892100 TCTTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
65 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTT
* *
892165 TGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGAAAAG
130 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAG
892212 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAAGCA
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAA-CA
892276 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTT
65 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTT
892341 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
130 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
892383 GCGTCCTGCTTTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
892433 GAAAGCTGTC
Statistics
Matches: 206, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
171 52 0.25
175 6 0.03
176 148 0.72
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (171 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAACAT
CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCATCCTGCTCTTT
GAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:892366 original size:116 final size:114
Alignment explanation
Indices: 892026--892524 Score: 545
Period size: 116 Copynumber: 4.3 Consensus size: 114
892016 CTAAATGGCG
* *
892026 AAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAAGAAAG-GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
* * *
892090 GGAGAAAACATCTTGTTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT
64 -G-G----CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
892147 ----GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAGA
1 AAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-
*
892208 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
61 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
892262 AAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAA
1 -AAAAG-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
*
892327 GGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
64 GGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
892378 ---A-AAAGGCGTCCTGCTTTTTGAAGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAA-G
1 AAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * * *
892438 CTGTCCTACTCTTTGAGGACT-GAAAGGTGCCACTAACTTATGTGGGCTTT
66 C-ATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
* * *
892488 GAAAGGAAAAGGCGTCCTACTTTTTGAGGACT-GAAAA
1 -AAAAG-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
892525 GTGAAAAGAG
Statistics
Matches: 330, Mismatches: 28, Indels: 46
0.82 0.07 0.11
Matches are distributed among these distances:
109 6 0.02
110 90 0.27
112 1 0.00
115 51 0.15
116 120 0.36
117 5 0.02
119 1 0.00
120 3 0.01
121 53 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (114 bp):
AAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:893501 original size:1 final size:1
Alignment explanation
Indices: 893495--893565 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
893485 CAGATTCTTC
* * * * * * * * *
893495 TTTTTTTTTTCTCTTTTTCTTTGTTTTGTTTTTTTTTTTGTTTTTTTGTTTTTTTTGTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
893560 TTTTTT
1 TTTTTT
893566 GAAAAAGAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.87
Consensus pattern (1 bp):
T
Found at i:893521 original size:9 final size:9
Alignment explanation
Indices: 893498--893565 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 9
893488 ATTCTTCTTT
*
893498 TTTTTTTCTC
1 TTTTTTT-TG
893508 TTTTTCTTTG
1 TTTTT-TTTG
*
893518 TTTTGTTT-
1 TTTTTTTTG
893526 TTTTTTTTG
1 TTTTTTTTG
893535 -TTTTTTTG
1 TTTTTTTTG
893543 TTTTTTTTG
1 TTTTTTTTG
893552 TTGTTTTTT-
1 TT-TTTTTTG
893561 TTTTT
1 TTTTT
893566 GAAAAAGAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
8 18 0.35
9 15 0.29
10 16 0.31
11 2 0.04
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:893527 original size:29 final size:29
Alignment explanation
Indices: 893495--893563 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
893485 CAGATTCTTC
893495 TTTTTTTTTTCTCTTTTTCTTTGTTTTGT
1 TTTTTTTTTTCTCTTTTTCTTTGTTTTGT
* * * *
893524 TTTTTTTTTTGTTTTTTTGTTTTTTTTGT
1 TTTTTTTTTTCTCTTTTTCTTTGTTTTGT
893553 TGTTTTTTTTT
1 T-TTTTTTTTT
893564 TTGAAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (29 bp):
TTTTTTTTTTCTCTTTTTCTTTGTTTTGT
Found at i:893528 original size:17 final size:16
Alignment explanation
Indices: 893495--893565 Score: 81
Period size: 17 Copynumber: 4.3 Consensus size: 16
893485 CAGATTCTTC
* *
893495 TTTTTTT-TTTCTCTT
1 TTTTTTTGTTTTTTTT
*
893510 TTTCTTTGTTTTGTTTT
1 TTTTTTTGTTTT-TTTT
893527 TTTTTTTGTTTTTTTGT
1 TTTTTTTGTTTTTTT-T
893544 TTTTTTTGTTGTTTTTT
1 TTTTTTTGTT-TTTTTT
893561 TTTTT
1 TTTTT
893566 GAAAAAGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.12
16 6 0.12
17 31 0.65
18 5 0.10
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.87
Consensus pattern (16 bp):
TTTTTTTGTTTTTTTT
Found at i:893531 original size:20 final size:20
Alignment explanation
Indices: 893515--893565 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
893505 CTCTTTTTCT
893515 TTGTTTTGTTTTTTTTTTTG
1 TTGTTTTGTTTTTTTTTTTG
* *
893535 TTTTTTTGTTTTTTTTGTTG
1 TTGTTTTGTTTTTTTTTTTG
893555 TT-TTTT-TTTTT
1 TTGTTTTGTTTTT
893566 GAAAAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 5 0.17
19 4 0.14
20 20 0.69
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (20 bp):
TTGTTTTGTTTTTTTTTTTG
Found at i:893535 original size:12 final size:12
Alignment explanation
Indices: 893495--893566 Score: 83
Period size: 12 Copynumber: 5.9 Consensus size: 12
893485 CAGATTCTTC
*
893495 TTTTTTTTTTCT
1 TTTTTTTTTTGT
* *
893507 CTTTTTCTTTGT
1 TTTTTTTTTTGT
893519 TTTGTTTTTTT-T
1 TTT-TTTTTTTGT
893531 TTTGTTTTTTTGT
1 TTT-TTTTTTTGT
*
893544 TTTTTTTGTTGT
1 TTTTTTTTTTGT
893556 TTTTTTTTTTG
1 TTTTTTTTTTG
893567 AAAAAGAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
12 41 0.80
13 10 0.20
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:898560 original size:13 final size:13
Alignment explanation
Indices: 898542--898566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
898532 CAAAGATCAG
898542 TGTATCGATACAA
1 TGTATCGATACAA
898555 TGTATCGATACA
1 TGTATCGATACA
898567 TTTAAATGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:898644 original size:33 final size:33
Alignment explanation
Indices: 898607--898673 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
898597 AGTAGCTTAA
898607 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
898640 ATTGTATTGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
898673 A
1 A
898674 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:909621 original size:78 final size:79
Alignment explanation
Indices: 909509--909981 Score: 492
Period size: 79 Copynumber: 6.2 Consensus size: 79
909499 GAGATAATAA
* *
909509 CGGGGTTGGAGTATCTCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTTTGAAAAATCGATGA
1 CGGGGTTGGAGTATC-CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
*
909573 -TTTAGAAATAAAAT
65 TTTTAGAAATAAAAC
* *
909587 CGGGATTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATG-T
1 CGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGAT
909651 TTT-G---------
66 TTTAGAAATAAAAC
* * * * *
909655 --GGGTTAGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCTCGATTATGAAAAATTAAT-A
1 CGGGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
909717 TTTTAGAAATAAAAC
65 TTTTAGAAATAAAAC
* * * *
909732 CGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAAT-A
1 CGGGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
* *
909796 TTTTAGACATAAAGC
65 TTTTAGAAATAAAAC
* *
909811 CAGGGTTGGGGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAATTGATG-
1 CGGGGTTGGAGTATCC-CTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGA
909872 TTTTAGAAATAAAAC
65 TTTTAGAAATAAAAC
* * * *
909887 CGGGGTTGGAGTGTCCCCTC-AGAAATAACGAGGTTGGAGTATCCCCGATTGT-AAAAATTCA-G
1 CGGGGTTGGAGTAT-CCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
909949 TATTTTAGAAAT-AAAT
64 -ATTTTAGAAATAAAAC
*
909965 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
909982 CGATTTTGGA
Statistics
Matches: 335, Mismatches: 35, Indels: 51
0.80 0.08 0.12
Matches are distributed among these distances:
66 10 0.03
67 47 0.14
68 1 0.00
75 1 0.00
76 62 0.19
77 20 0.06
78 73 0.22
79 121 0.36
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGAT
TTTAGAAATAAAAC
Found at i:909897 original size:155 final size:156
Alignment explanation
Indices: 909663--909963 Score: 435
Period size: 155 Copynumber: 1.9 Consensus size: 156
909653 TGGGGTTAGA
* *
909663 GTATCCCCTCGGAAATAACGGGGTTAGAGTATCCTCGATTATGAAAAATTAATATTTTAGAAATA
1 GTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCG--TATGAAAAATTAATATTTTAGAAATA
* *
909728 AAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAGAAATT-
64 AAACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTAT-AAAAATTC
*
909792 AATATTTTAGACATAAAGCCAGGGTTGGG
128 AATATTTTAGAAATAAAGCCAGGGTTGGG
* * * *
909821 GTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCG-ATGAAAAATTGATGTTTTAGAAATAAA
1 GTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGTATGAAAAATTAATATTTTAGAAATAAA
* * * * *
909885 ACCGGGGTTGGAGTGTCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATTGTAAAAATTCAGT
66 ACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATAAAAATTCAAT
909950 ATTTTAGAAATAAA
131 ATTTTAGAAATAAA
909964 TCGGAGTTGG
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
154 6 0.05
155 89 0.70
158 33 0.26
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (156 bp):
GTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGTATGAAAAATTAATATTTTAGAAATAAA
ACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATAAAAATTCAAT
ATTTTAGAAATAAAGCCAGGGTTGGG
Found at i:909980 original size:50 final size:51
Alignment explanation
Indices: 909919--910046 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
909909 AAATAACGAG
*
909919 GTTGGAGTATCCCCGATTGT-AAAAATTCAGTATTTTAGAAAT-AAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAA-TCAGTACTTTAGAAATAAAATCGGA
* * ** *
909969 GTTGGAGTATCCCCGATTTTGGAAAATGGGTGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATCAGTACTTTAGAAATAAAATCGGA
**
910020 GTTGGAGTATCCCCGATTAAGAAAAAT
1 GTTGGAGTATCCCCGATTGTGAAAAAT
910047 TGATGTTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 31 0.46
51 36 0.54
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATCAGTACTTTAGAAATAAAATCGGA
Found at i:910046 original size:51 final size:50
Alignment explanation
Indices: 909952--910083 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
909942 AATTCAGTAT
** * *
909952 TTTAGAAATAAATCGGAGTTGGAGTATCCCCGATTTTGGAAAATGGGTGC
1 TTTAGAAATAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGC
* *
910002 TTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGT
1 TTTAGAAAT-AAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGC
* *
910053 TTTGGAAATGAAACCGG-GATTGGAGTATCCC
1 TTTAGAAAT-AAATCGGAG-TTGGAGTATCCC
910084 TGAGATGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
50 10 0.14
51 61 0.86
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
TTTAGAAATAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGC
Found at i:911249 original size:19 final size:18
Alignment explanation
Indices: 911225--911288 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
911215 TAGCCAAACT
911225 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
911244 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
911257 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
911276 TTGTATCGATACA
1 -TGTATCGATACA
911289 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:911261 original size:13 final size:13
Alignment explanation
Indices: 911243--911268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
911233 TACACAAAAT
911243 ATGTATCGATACA
1 ATGTATCGATACA
911256 ATGTATCGATACA
1 ATGTATCGATACA
911269 CAAAAAATTG
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:911266 original size:32 final size:33
Alignment explanation
Indices: 911225--911288 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
911215 TAGCCAAACT
*
911225 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
911257 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
911289 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:917440 original size:13 final size:13
Alignment explanation
Indices: 917422--917459 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
917412 CATTTTTCTT
917422 TGTATCGATACAA
1 TGTATCGATACAA
*
917435 TGTATCGATACAC
1 TGTATCGATACAA
*
917448 TATATCGATACA
1 TGTATCGATACA
917460 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:922511 original size:18 final size:18
Alignment explanation
Indices: 922490--922529 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
922480 TGCAAATACC
*
922490 AATGTCATCTAAAATTCA
1 AATGTCATCTAAAATGCA
922508 AATGTCATCTAAAATGCA
1 AATGTCATCTAAAATGCA
922526 AATG
1 AATG
922530 CAGATGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (18 bp):
AATGTCATCTAAAATGCA
Found at i:923637 original size:16 final size:17
Alignment explanation
Indices: 923616--923652 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
923606 TTCATTCCAT
923616 TTTTTTTGCTTTTTTC-
1 TTTTTTTGCTTTTTTCA
*
923632 TTTTTTTTCTTTTTTCA
1 TTTTTTTGCTTTTTTCA
923649 TTTT
1 TTTT
923653 CCTAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTGCTTTTTTCA
Found at i:923637 original size:17 final size:17
Alignment explanation
Indices: 923613--923652 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
923603 TCATTCATTC
923613 CATTTTTTTTGCTTTTTT
1 CATTTTTTTT-CTTTTTT
923631 C-TTTTTTTTCTTTTTT
1 CATTTTTTTTCTTTTTT
923647 CATTTT
1 CATTTT
923653 CCTAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 12 0.57
18 1 0.05
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (17 bp):
CATTTTTTTTCTTTTTT
Found at i:924197 original size:35 final size:35
Alignment explanation
Indices: 924156--924259 Score: 199
Period size: 35 Copynumber: 3.0 Consensus size: 35
924146 ATTATGAAAG
924156 AAGGCTATTCATCATTTCAAACATGACCAAATGAA
1 AAGGCTATTCATCATTTCAAACATGACCAAATGAA
*
924191 AAGGCTATTCATCATTTCAAACATGTCCAAATGAA
1 AAGGCTATTCATCATTTCAAACATGACCAAATGAA
924226 AAGGCTATTCATCATTTCAAACATGACCAAATGA
1 AAGGCTATTCATCATTTCAAACATGACCAAATGA
924260 CCTGAAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (35 bp):
AAGGCTATTCATCATTTCAAACATGACCAAATGAA
Found at i:926749 original size:22 final size:24
Alignment explanation
Indices: 926719--926763 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
926709 CCTCTCAATC
*
926719 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
926742 TCTT-AAGAGATTATAACCCAAA
1 TCTTCAAGAGATTATAACCCAAA
926764 GTTGAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:927458 original size:23 final size:23
Alignment explanation
Indices: 927429--927553 Score: 82
Period size: 23 Copynumber: 5.3 Consensus size: 23
927419 TTTTAATTTG
927429 AAAACATATGATTTAATGCTTGA
1 AAAACATATGATTTAATGCTTGA
*
927452 AAAACATTTAT-ACTT-ATGCTTGA
1 AAAACA--TATGATTTAATGCTTGA
** *
927475 AAAACATATCGATACAA-ACATATGA
1 AAAACATAT-GATTTAATGC-T-TGA
927500 TTTGAAAACATATGATTTAAT--TTG-
1 ----AAAACATATGATTTAATGCTTGA
*
927524 AAAACATTTGATTTAATGCTTGA
1 AAAACATATGATTTAATGCTTGA
927547 AAAACAT
1 AAAACAT
927554 CTTTGATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 30
0.68 0.07 0.26
Matches are distributed among these distances:
20 16 0.20
21 3 0.04
22 3 0.04
23 29 0.37
24 5 0.06
25 8 0.10
26 1 0.01
28 5 0.06
29 9 0.11
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (23 bp):
AAAACATATGATTTAATGCTTGA
Found at i:927524 original size:20 final size:20
Alignment explanation
Indices: 927499--927540 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
927489 CAAACATATG
927499 ATTTGAAAACATATGATTTA
1 ATTTGAAAACATATGATTTA
*
927519 ATTTGAAAACATTTGATTTA
1 ATTTGAAAACATATGATTTA
927539 AT
1 AT
927541 GCTTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (20 bp):
ATTTGAAAACATATGATTTA
Found at i:928381 original size:16 final size:16
Alignment explanation
Indices: 928357--928396 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
928347 TTTCATTCGT
* **
928357 CAAGGAAAGTTAAGTA
1 CAAGCAAAGTTAAAAA
928373 CAAGCAAAGTTAAAAA
1 CAAGCAAAGTTAAAAA
928389 CAAGCAAA
1 CAAGCAAA
928397 AGTGACTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.12
Consensus pattern (16 bp):
CAAGCAAAGTTAAAAA
Found at i:928575 original size:14 final size:15
Alignment explanation
Indices: 928551--928579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
928541 ACGCATTAAG
928551 AGAGTGAGGAGGCGT
1 AGAGTGAGGAGGCGT
928566 AGAG-GAGGAGGCGT
1 AGAGTGAGGAGGCGT
928580 GTTGGCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.55, T:0.10
Consensus pattern (15 bp):
AGAGTGAGGAGGCGT
Found at i:934506 original size:15 final size:15
Alignment explanation
Indices: 934486--934517 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
934476 GTCAACTTCT
934486 TCATTATCATCATCA
1 TCATTATCATCATCA
*
934501 TCATTATCTTCATCA
1 TCATTATCATCATCA
934516 TC
1 TC
934518 TTTGATGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (15 bp):
TCATTATCATCATCA
Found at i:937890 original size:155 final size:154
Alignment explanation
Indices: 937601--937941 Score: 359
Period size: 152 Copynumber: 2.2 Consensus size: 154
937591 AAGTTCAAAG
* ** *
937601 AAAAATTACGAAAATGCCTTTAGAGGATACCTTTAACGTAGAAGTATCCAATACCCCTAAAAGAC
1 AAAAATTACGAAAATACCCCTAGAGGATACCTTCAACGTAGAAGTATCCAATACCCCTAAAAGAC
* * *
937666 TTAAAAAGGATTTTAAAACAGATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGTAGACCC
66 TTAAAAAGGA-TTTAAAACAGATGAAACTATCCTAAACATCCACCTTCGGCATAAAAGCAGACCC
937731 GATGACAACCCAGGATTCAGTTCTA
130 GATGACAACCCAGGATTCAGTTCTA
* * * * *
937756 AAAAATTACTAAAATACCCCTAGGGGATACCTTCAACGT-GAAAGTATTCGATACCCCTAAAGGA
1 AAAAATTACGAAAATACCCCTAGAGGATACCTTCAACGTAG-AAGTATCCAATACCCCTAAAAGA
* ** * * *
937820 CTT-AAAAGGA-TT-AAACGGGATGAAACTATCCTAAATGTCCACCTTTGGTATAAAAGCGGACC
65 CTTAAAAAGGATTTAAAAC-AGATGAAACTATCCTAAACATCCACCTTCGGCATAAAAGCAGACC
* ** ** * *
937882 CGGTGATGACTTAGGATT-TGTTTTTA
129 CGATGACAACCCAGGATTCAG-TTCTA
* *
937908 AGAAAATTATGAAAATGCCCCTAGAGGATACCTT
1 A-AAAATTACGAAAATACCCCTAGAGGATACCTT
937942 TGACGTGAAA
Statistics
Matches: 153, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
151 5 0.03
152 56 0.37
153 28 0.18
154 8 0.05
155 56 0.37
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (154 bp):
AAAAATTACGAAAATACCCCTAGAGGATACCTTCAACGTAGAAGTATCCAATACCCCTAAAAGAC
TTAAAAAGGATTTAAAACAGATGAAACTATCCTAAACATCCACCTTCGGCATAAAAGCAGACCCG
ATGACAACCCAGGATTCAGTTCTA
Found at i:939856 original size:20 final size:19
Alignment explanation
Indices: 939831--939900 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
939821 AAACACCTAT
939831 ATGTATCGATACATGTCCA
1 ATGTATCGATACATGTCCA
*
939850 GATGTATCGATACATGTTCA
1 -ATGTATCGATACATGTCCA
* *
939870 TTGTATCTATACATG-CACA
1 ATGTATCGATACATGTC-CA
939889 ATTGTATCGATA
1 A-TGTATCGATA
939901 TATGAAACCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATGTCCA
Found at i:939970 original size:33 final size:33
Alignment explanation
Indices: 939933--940023 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
939923 CTACCACTGT
939933 ATACATGGCACATTGTATCGATACAACATATCG
1 ATACATGGCACATTGTATCGATACAACATATCG
***
939966 ATACATGGCACATTGTATCGATACATTGTATCG
1 ATACATGGCACATTGTATCGATACAACATATCG
* *
939999 ATACATGAGGA-ATTATATCGATACA
1 ATACATG-GCACATTGTATCGATACA
940024 TTGTCTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
33 50 0.96
34 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (33 bp):
ATACATGGCACATTGTATCGATACAACATATCG
Found at i:939986 original size:20 final size:20
Alignment explanation
Indices: 939933--939991 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
939923 CTACCACTGT
939933 ATACATGGCACATTGTATCG
1 ATACATGGCACATTGTATCG
939953 ATACA----ACA---TATCG
1 ATACATGGCACATTGTATCG
939966 ATACATGGCACATTGTATCG
1 ATACATGGCACATTGTATCG
939986 ATACAT
1 ATACAT
939992 TGTATCGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
13 10 0.31
16 3 0.09
17 3 0.09
20 16 0.50
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
ATACATGGCACATTGTATCG
Found at i:939993 original size:13 final size:13
Alignment explanation
Indices: 939975--940004 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
939965 GATACATGGC
939975 ACATTGTATCGAT
1 ACATTGTATCGAT
939988 ACATTGTATCGAT
1 ACATTGTATCGAT
940001 ACAT
1 ACAT
940005 GAGGAATTAT
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:948757 original size:20 final size:20
Alignment explanation
Indices: 948732--948785 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
948722 CTACCACTGT
948732 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAGCA-A
*
948752 TTGTATCGATACATGAGGAA
1 TTGTATCGATACATGAGCAA
948772 TTGTATCGATACAT
1 TTGTATCGATACAT
948786 TGTCTCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAGCAA
Found at i:950018 original size:13 final size:13
Alignment explanation
Indices: 950000--950026 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
949990 TATAGTGAAC
950000 ATGTATCGATACA
1 ATGTATCGATACA
950013 ATGTATCGATACA
1 ATGTATCGATACA
950026 A
1 A
950027 AGCAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:951324 original size:163 final size:164
Alignment explanation
Indices: 951145--951543 Score: 475
Period size: 163 Copynumber: 2.4 Consensus size: 164
951135 AAAACTCTTA
* * * *
951145 AAAATAAATAAATTTTTGAAAAATACTTTAATATGAAATAAATAATAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAA
* * ** * **
951210 AAATAAAAAACTAAAAAAAATC-CCCCTAAAAAAATTACTGAGTAGAATACTCTGTA-TTT-AAA
65 AAATAAAAAACCAAAAAAAATCTCCCCGAAAAAAATTACAAAGTAGAAAACTCAATATTTTAAAA
* *
951272 AAAAAAGAGTTTCAAGGAAAAAATAAAACATTTATG
130 AAAAAAGAGTTTCAAGG-AAAAATAAAAAATATATG
* * * *
951308 AAAATGAATGAATTTTTAAGAACTGATTT-TTTTAGAATTAAATAATAATATTTGATGAATTTTA
1 AAAATGAATGAATTTTTAA-AACTAATTTAATAT-GAAATAAATAATAATATTTGATGAATTTTA
* * * *
951372 AAAATTAAAAACCAAGAAAAATCTCCTCGAAATAAATTACAAAGTAGAAAACTCAATATTTTGAA
64 AAAATAAAAAACCAAAAAAAATCTCCCCGAAAAAAATTACAAAGTAGAAAACTCAATATTTT--A
951437 AAAAAAAAAGAGTTTCAAGGAAAAATAAAAAATATATG
127 AAAAAAAAAGAGTTTCAAGGAAAAATAAAAAATATATG
* * *
951475 AAAATGAAAGAATTTTTTAGAACTAATTTACTAT-AAATTAAATAATAATATTTGATGAATTTTA
1 AAAATGAATGAA-TTTTTAAAACTAATTTAATATGAAA-TAAATAATAATATTTGATGAATTTTA
951539 AAAAT
64 AAAAT
951544 TAAACAAAAA
Statistics
Matches: 199, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
162 4 0.02
163 70 0.35
164 26 0.13
165 3 0.02
166 2 0.01
167 66 0.33
168 28 0.14
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (164 bp):
AAAATGAATGAATTTTTAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAA
AATAAAAAACCAAAAAAAATCTCCCCGAAAAAAATTACAAAGTAGAAAACTCAATATTTTAAAAA
AAAAAGAGTTTCAAGGAAAAATAAAAAATATATG
Found at i:951490 original size:167 final size:163
Alignment explanation
Indices: 951183--951547 Score: 500
Period size: 167 Copynumber: 2.2 Consensus size: 163
951173 TAATATGAAA
* * *
951183 TAAATAATAATATTTGATGAATTTTAAAAATAAAAAACTAAAAAAAATCCCCCTAAAAAAATTAC
1 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATCCCCCGAAAAAAATTAC
** * ** * *
951248 TGAGTAGAATACTCTGTATTTAAAAAAAAAGAGTTTCAAGGAAAAAATAAAACATTTATGAAAAT
66 AAAGTAGAAAACTCAATATTTAAAAAAAAAGAGTTTCAAGGAAAAAATAAAAAATATATGAAAAT
* * * *
951313 GAATGAATTTTTAAGAACTGATTT-TTTTAGAAT
131 GAAAGAATTTTTAAGAACTAATTTACTATA-AAT
* * *
951346 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCGAAATAAATTA
1 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATC-CCCCGAAAAAAATTA
951411 CAAAGTAGAAAACTCAATATTTTGAAAAAAAAAAAGAGTTTCAAGG-AAAAATAAAAAATATATG
65 CAAAGTAGAAAACTCAATA-TTT---AAAAAAAAAGAGTTTCAAGGAAAAAATAAAAAATATATG
*
951475 AAAATGAAAGAATTTTTTAGAACTAATTTACTATAAAT
126 AAAATGAAAGAATTTTTAAGAACTAATTTACTATAAAT
951513 TAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TAAATAATAATATTTGATGAATTTTAAAAATTAAA
951548 CAAAAATATC
Statistics
Matches: 178, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
163 46 0.26
164 26 0.15
165 3 0.02
167 80 0.45
168 23 0.13
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (163 bp):
TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATCCCCCGAAAAAAATTAC
AAAGTAGAAAACTCAATATTTAAAAAAAAAGAGTTTCAAGGAAAAAATAAAAAATATATGAAAAT
GAAAGAATTTTTAAGAACTAATTTACTATAAAT
Found at i:953547 original size:22 final size:23
Alignment explanation
Indices: 953522--953566 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
953512 TAGAAAAATA
* *
953522 CTATT-CCATTGCTCTCAAAACC
1 CTATTCCCATAGCTCCCAAAACC
953544 CTATTCCCATAGCTCCCAAAACC
1 CTATTCCCATAGCTCCCAAAACC
953567 ACCACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.29, C:0.40, G:0.04, T:0.27
Consensus pattern (23 bp):
CTATTCCCATAGCTCCCAAAACC
Found at i:955544 original size:109 final size:109
Alignment explanation
Indices: 955353--955555 Score: 282
Period size: 109 Copynumber: 1.9 Consensus size: 109
955343 TCCATTGATG
* * * *
955353 TTTTATTTCTAAAACACCAATTTTTCACCATCAAGGATACTCCAACCTCGTTATTTTCGAAGGGA
1 TTTTATTTCTAAAACACCAATTTCTCACCATCAAGGATACTCCAACCCCATTATTTTCAAAGGGA
955418 TACTCCAACCCCAATTTTATTTCTAAAACACTGATTTCACCTAA
66 TACTCCAACCCCAATTTTATTTCTAAAACACTGATTTCACCTAA
* *** *
955462 TTTTATTTTTAAAACATTGATTTCTCACCATCGAGGATACTCCAACCCCATTA-TTTCTAAAGGG
1 TTTTATTTCTAAAACACCAATTTCTCACCATCAAGGATACTCCAACCCCATTATTTTC-AAAGGG
* * *
955526 ATACTCCAACCTCGATTTTATTTCTGAAAC
65 ATACTCCAACCCCAATTTTATTTCTAAAAC
955556 GCTAAATTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 4 0.05
109 77 0.95
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (109 bp):
TTTTATTTCTAAAACACCAATTTCTCACCATCAAGGATACTCCAACCCCATTATTTTCAAAGGGA
TACTCCAACCCCAATTTTATTTCTAAAACACTGATTTCACCTAA
Found at i:955613 original size:28 final size:29
Alignment explanation
Indices: 955573--955642 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 29
955563 TTCCATCATG
* *
955573 GAGGATACTCCAACCCCGTTATTTTTGA-
1 GAGGATACTCCAACCCCATTATTTCTGAT
* *
955601 GAGGATTCTCCAACCTCATTATTTCTGAT
1 GAGGATACTCCAACCCCATTATTTCTGAT
955630 G-GGATACTCCAAC
1 GAGGATACTCCAAC
955643 TTGGTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (29 bp):
GAGGATACTCCAACCCCATTATTTCTGAT
Found at i:955702 original size:78 final size:79
Alignment explanation
Indices: 955601--955930 Score: 314
Period size: 79 Copynumber: 4.2 Consensus size: 79
955591 TTATTTTTGA
* * * * *
955601 GAGGATTCTCCAA-CCTCATTATTTCTGATGGGATACTCCAA-CTTGGTTTTATTTCTAAAATAT
1 GAGGATACTCCAACCCT-GTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACAT
* *
955664 TAATTTTTCACCATC
65 CAATTTTCCACCATC
*
955679 GAGGATACTCTAACCCTGTTATTT-TCGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACAT
1 GAGGATACTCCAACCCTGTTATTTCT-GAGGGGATACTCCAACCTTGATTTTATTTCTAAAACAT
** *
955743 TGATTTTCCACCGA-A
65 CAATTTTCCACC-ATC
* * * **
955758 G-GGATACTCCAACCTTATTATTTTTGAGGGGATACTCCAACCTCAATTTTATTTCTAAAACATC
1 GAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACATC
955822 AATTTTCCACCATC
66 AATTTTCCACCATC
* * * ** * * * * * *
955836 AAGGATTCTCCAACCCTGTTATATCCAAAGGGATACTCCAACCCTGATTTTGTTCCCAAAATATC
1 GAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACATC
955901 AACTTTT-CACCAT-
66 AA-TTTTCCACCATC
*
955914 TAGGGATACTCCAACCC
1 GA-GGATACTCCAACCC
955931 CATTTTTATA
Statistics
Matches: 208, Mismatches: 35, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
77 2 0.01
78 97 0.47
79 104 0.50
80 5 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
GAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACATC
AATTTTCCACCATC
Found at i:955714 original size:185 final size:184
Alignment explanation
Indices: 955462--955802 Score: 443
Period size: 185 Copynumber: 1.8 Consensus size: 184
955452 TTTCACCTAA
* *
955462 TTTTATTTTTAAAACATTGATTTCTCACCATCGAGGATACTCCAACCCCATTATTTCTAAAGGGA
1 TTTTATTTCTAAAACATTAATTTCTCACCATCGAGGATACTCCAACCCCATTATTTCTAAAGGGA
* * * * *
955527 TACTCCAACCTCGATTTTATTTCTGAAACGCTAAATTTCCATC-ATGGAGGATACTCCAACCCCG
66 TACTCCAACCTCGATTTTATTTCTAAAACACTAAATTTCCACCGA-AG-GGATACTCCAACCCCA
*
955591 TTATTTTTGAGAGGATTCTCCAACCTCATTATTTCTGATGGGATACTCCAACTTGG
129 TTATTTTTGAGAGGATACTCCAACCTCATTATTTCTGATGGGATACTCCAACTTGG
* * * ** * *
955647 TTTTATTTCTAAAATATTAATTTTTCACCATCGAGGATACTCTAACCCTGTTATTT-TCGAGGGG
1 TTTTATTTCTAAAACATTAATTTCTCACCATCGAGGATACTCCAACCCCATTATTTCT-AAAGGG
* * * * **
955711 ATACTCCAACCTTGATTTTATTTCTAAAACATTGATTTTCCACCGAAGGGATACTCCAACCTTAT
65 ATACTCCAACCTCGATTTTATTTCTAAAACACTAAATTTCCACCGAAGGGATACTCCAACCCCAT
*
955776 TATTTTTGAGGGGATACTCCAACCTCA
130 TATTTTTGAGAGGATACTCCAACCTCA
955803 ATTTTATTTC
Statistics
Matches: 132, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
184 40 0.30
185 91 0.69
186 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (184 bp):
TTTTATTTCTAAAACATTAATTTCTCACCATCGAGGATACTCCAACCCCATTATTTCTAAAGGGA
TACTCCAACCTCGATTTTATTTCTAAAACACTAAATTTCCACCGAAGGGATACTCCAACCCCATT
ATTTTTGAGAGGATACTCCAACCTCATTATTTCTGATGGGATACTCCAACTTGG
Found at i:955718 original size:106 final size:107
Alignment explanation
Indices: 955494--955722 Score: 289
Period size: 106 Copynumber: 2.1 Consensus size: 107
955484 TCTCACCATC
* * *
955494 GAGGATACTCCAACCCCATTATTTCTAAAGGGATACTCCAACCTCGATTTTATTTCTGAAACGCT
1 GAGGATACTCCAACCTCATTATTTCTAAAGGGATACTCCAACCTCGATTTTATTTCTAAAACACT
* * *
955559 AAATTTCCATCATGGAGGATACTCCAACCCCGTTATTTTTGA
66 AAATTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCGA
* * * * * * *
955601 GAGGATTCTCCAACCTCATTATTTCTGATGGGATACTCCAA-CTTGGTTTTATTTCTAAAATATT
1 GAGGATACTCCAACCTCATTATTTCTAAAGGGATACTCCAACCTCGATTTTATTTCTAAAACACT
* * * *
955665 AATTTTTCACCATCGAGGATACTCTAACCCTGTTATTTTCGA
66 AAATTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCGA
*
955707 GGGGATACTCCAACCT
1 GAGGATACTCCAACCT
955723 TGATTTTATT
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 66 0.64
107 37 0.36
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (107 bp):
GAGGATACTCCAACCTCATTATTTCTAAAGGGATACTCCAACCTCGATTTTATTTCTAAAACACT
AAATTTCCACCATCGAGGATACTCCAACCCCGTTATTTTCGA
Found at i:955834 original size:157 final size:156
Alignment explanation
Indices: 955603--955886 Score: 397
Period size: 157 Copynumber: 1.8 Consensus size: 156
955593 ATTTTTGAGA
* * *** * *
955603 GGATTCTCCAACCTCATTATTTCTGATGGGATACTCCAACTTGGTTTTATTTCTAAAATATTAAT
1 GGATACTCCAACCTCATTATTTCTGAGGGGATACTCCAACTCAATTTTATTTCTAAAACATCAAT
* * * * * * * *
955668 TTTTCACCATCGAGGATACTCTAACCCTGTTATTTTCGAGGGGATACTCCAACCTTGATTTTATT
66 TTTCCACCATCAAGGATACTCCAACCCTGTTATATCCAAAGGGATACTCCAACCCTGATTTTATT
955733 TCTAAAACATTGATTTTCCACCGAAG
131 TCTAAAACATTGATTTTCCACCGAAG
* *
955759 GGATACTCCAACCTTATTATTTTTGAGGGGATACTCCAACCTCAATTTTATTTCTAAAACATCAA
1 GGATACTCCAACCTCATTATTTCTGAGGGGATACTCCAA-CTCAATTTTATTTCTAAAACATCAA
*
955824 TTTTCCACCATCAAGGATTCTCCAACCCTGTTATATCCAAAGGGATACTCCAACCCTGATTTT
65 TTTTCCACCATCAAGGATACTCCAACCCTGTTATATCCAAAGGGATACTCCAACCCTGATTTT
955887 GTTCCCAAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
156 35 0.32
157 74 0.68
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (156 bp):
GGATACTCCAACCTCATTATTTCTGAGGGGATACTCCAACTCAATTTTATTTCTAAAACATCAAT
TTTCCACCATCAAGGATACTCCAACCCTGTTATATCCAAAGGGATACTCCAACCCTGATTTTATT
TCTAAAACATTGATTTTCCACCGAAG
Found at i:955950 original size:51 final size:50
Alignment explanation
Indices: 955864--955982 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 50
955854 TTATATCCAA
* *
955864 AGGGATACTCCAACCCTGATTTTGTTCCCAAAATATCAACTTT-TCACCATT
1 AGGGATACTCCAACCC-CATTTTGTTCCCAAAATATCAA-TTTCTCACCATC
* * *
955915 AGGGATACTCCAACCCCATTTT-TATATCCACAATATCGATTTCTCACCATC
1 AGGGATACTCCAACCCCATTTTGT-T-CCCAAAATATCAATTTCTCACCATC
*
955966 GGGGATACTCCAACCCC
1 AGGGATACTCCAACCCC
955983 GTTGTTTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 9 0.15
51 49 0.83
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (50 bp):
AGGGATACTCCAACCCCATTTTGTTCCCAAAATATCAATTTCTCACCATC
Found at i:964507 original size:52 final size:52
Alignment explanation
Indices: 964451--964579 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
964441 CACTGATCTT
964451 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
964503 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
964555 TGTATCGATACATGCACGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
964580 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:968087 original size:175 final size:175
Alignment explanation
Indices: 967774--968110 Score: 512
Period size: 175 Copynumber: 1.9 Consensus size: 175
967764 AACTTACGTC
* *
967774 AAAGAGGGGTCACTAATATACGAGCCCTGTTTGTCAAAGAGCACTCATATGAGTCTAAAGTTAAC
1 AAAGAGGGGTCACTAATATACGAGCCCTCTTTGTCAAAAAGCACTCATATGAGTCTAAAGTTAAC
* * * *
967839 TGTCGATAAAGGTGCCCAAGTTGAAAGAGGCCTCGGGAAACACCTCTAGGGGATGGTTAGAGGTT
66 CGTCGACAAAGGTGCCCAAGTTGAAAGAGGCCTCGGGAAACACCTCTAGGGGATGGCTAGAGCTT
*
967904 TGGAAGTTGTCAACCAGAGAAAGAAAAGAGGGGTCACCTTATGTA
131 TAGAAGTTGTCAACCAGAGAAAGAAAAGAGGGGTCACCTTATGTA
* * * * * * *
967949 AAAGAGTGGTCACTGATATATGAGCCCTCTTTTTCAAAAAGCATTCATATGAGTTTGAAGTTAAC
1 AAAGAGGGGTCACTAATATACGAGCCCTCTTTGTCAAAAAGCACTCATATGAGTCTAAAGTTAAC
* *
968014 CGTTGACAAAGGTGCCCAAGTTGAAAGAGGCCTTGGGAAACACCTCTAGGGGATGGCTAGAGCTT
66 CGTCGACAAAGGTGCCCAAGTTGAAAGAGGCCTCGGGAAACACCTCTAGGGGATGGCTAGAGCTT
* *
968079 TAGAAGTTGTCAACTAGAGAAGGAAAAGAGGG
131 TAGAAGTTGTCAACCAGAGAAAGAAAAGAGGG
968111 TTGGGGTTCA
Statistics
Matches: 144, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
175 144 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (175 bp):
AAAGAGGGGTCACTAATATACGAGCCCTCTTTGTCAAAAAGCACTCATATGAGTCTAAAGTTAAC
CGTCGACAAAGGTGCCCAAGTTGAAAGAGGCCTCGGGAAACACCTCTAGGGGATGGCTAGAGCTT
TAGAAGTTGTCAACCAGAGAAAGAAAAGAGGGGTCACCTTATGTA
Found at i:972124 original size:17 final size:17
Alignment explanation
Indices: 972102--972154 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
972092 CAACAACGAC
972102 AACAAAAAAAGGAAAAA
1 AACAAAAAAAGGAAAAA
*
972119 AACAAAAAATGGAAAGAA
1 AACAAAAAAAGGAAA-AA
*
972137 AA-AAGAAAAAAGAAAAA
1 AACAA-AAAAAGGAAAAA
972154 A
1 A
972155 GAAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (17 bp):
AACAAAAAAAGGAAAAA
Found at i:972141 original size:7 final size:7
Alignment explanation
Indices: 972131--972171 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
972121 CAAAAAATGG
972131 AAAGAAA
1 AAAGAAA
972138 AAAGAAA
1 AAAGAAA
972145 AAAGAAA
1 AAAGAAA
972152 AAAGAAA
1 AAAGAAA
972159 AAAGAAA
1 AAAGAAA
972166 AAAGAA
1 AAAGAA
972172 CCTGCTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:973254 original size:61 final size:60
Alignment explanation
Indices: 973154--973530 Score: 356
Period size: 61 Copynumber: 6.2 Consensus size: 60
973144 CTTTCAATCT
* * * *
973154 TCAAAGAGCAAGAC-GC-TTTC-TTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAATCC
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTT-GTGGCACCTTTTAGTCC
* * * * *
973212 TCAAAGCGTAGGACACCTTCTCTTTTCAAAGCCCATAGAAGTTGGTGGCACCTTTTAGTCC
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTT-GTGGCACCTTTTAGTCC
* * * *
973273 TTAAAGAGCAAGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTT-GTGGCACCTTTTAGTCC
* * *
973333 TGAAAGAGCAGGACA--TTTTCCTCTCAAAGCCCACACAAGTTGATGGCACCTTTTAGTCC
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTG-TGGCACCTTTTAGTCC
* * * * *
973392 TTAAAGAGCATGACGCATTTTCTTTTCAAAGCCCACAAAAGTTGATGGCACCTTTTAGTCC
1 TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTG-TGGCACCTTTTAGTCC
* * * * *
973453 TCAAA-AACTAAGACACTTCCTTTTTCTTTT-AAAGCCCACACAAGCTGGTGGCACATTCTAGTC
1 TCAAAGAGC-AGGACA---CC-TTTTCTTTTCAAAGCCCACACAAG-TTGTGGCACCTTTTAGTC
973516 C
60 C
*
973517 TTAAAGAGCAGGAC
1 TCAAAGAGCAGGAC
973531 GCCTCTCTCC
Statistics
Matches: 262, Mismatches: 43, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
58 19 0.07
59 44 0.17
60 48 0.18
61 102 0.39
64 36 0.14
65 13 0.05
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (60 bp):
TCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGTGGCACCTTTTAGTCC
Found at i:973380 original size:119 final size:119
Alignment explanation
Indices: 973156--973534 Score: 424
Period size: 119 Copynumber: 3.1 Consensus size: 119
973146 TTCAATCTTC
* * * *
973156 AAAGAGCAAGACG-C-TTTCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAGC
1 AAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGA
* * * * *
973219 GTAGGACACCTTCTCTTTTCAAAGCCCATAGAAGTTGGTGGCACCTTTTAGTCCTT
65 GCAGGACA-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT
*
973275 AAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTGAAAGA
1 AAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGA
* *
973340 GCAGGACA-TTTTCCTCTCAAAGCCCACACAAGTTGATGGCACCTTTTAGTCCTT
65 GCAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT
* * * *
973394 AAAGAGCATGACGCATTTTCTTTTCAAAGCCCACAAAAGTTGATGGCACCTTTTAGTCCTCAAA-
1 AAAGAGCAAGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAG
* * * * * * *
973458 AACTAAGACACTTCCTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACATTCTAGTCCTT
64 AGC-AGGACA----CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT
*
973519 AAAGAGCAGGACGCCT
1 AAAGAGCAAGACGCCT
973535 CTCTCCTTTT
Statistics
Matches: 221, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
119 77 0.35
120 39 0.18
121 51 0.23
122 1 0.00
125 53 0.24
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (119 bp):
AAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAG
CAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT
Found at i:973574 original size:69 final size:64
Alignment explanation
Indices: 973409--973575 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
973399 GCATGACGCA
* *
973409 TTTTCTTTTCAAAGCCCACAAAAGTTGATGGCACCTTTTAGTCCTCAAAAACTAAGACACTTCCT
1 TTTTCTTTT-AAAGCCCACAAAAGTTGATGGCACATTCTAGTCCTCAAAAACTAAGACACTTCCT
* * * * * * *
973474 TTTTCTTTTAAAGCCCACACAAGCTGGTGGCACATTCTAGTCCTTAAAGAGC-AGGACGCCTCTC
1 TTTTCTTTTAAAGCCCACAAAAGTTGATGGCACATTCTAGTCCTCAAA-AACTA--A-GACACT-
973538 TCCT
61 TCCT
973542 TTTT-TATCTTAAAGCCCACAAAAGTTGATGGCAC
1 TTTTCT-T-TTAAAGCCCACAAAAGTTGATGGCAC
973576 CTATCTACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
64 34 0.41
65 11 0.13
66 1 0.01
67 5 0.06
68 9 0.11
69 23 0.28
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (64 bp):
TTTTCTTTTAAAGCCCACAAAAGTTGATGGCACATTCTAGTCCTCAAAAACTAAGACACTTCCT
Found at i:976351 original size:28 final size:28
Alignment explanation
Indices: 976309--976412 Score: 120
Period size: 28 Copynumber: 3.7 Consensus size: 28
976299 TTTCACTATC
976309 GGGGATACTCCAA-CCTCGTTATTTTTGA
1 GGGGATACTCCAACCCT-GTTATTTTTGA
*
976337 GGGGATACTCTAACCCTGTTATTTTTGA
1 GGGGATACTCCAACCCTGTTATTTTTGA
* ** *
976365 GAGGATACTCCAATTCTGTTATTTTCGA
1 GGGGATACTCCAACCCTGTTATTTTTGA
* * *
976393 AGGGATATTCCAACCTTGTT
1 GGGGATACTCCAACCCTGTT
976413 TATATTTCTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
28 60 0.95
29 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (28 bp):
GGGGATACTCCAACCCTGTTATTTTTGA
Found at i:976463 original size:79 final size:77
Alignment explanation
Indices: 976366--976583 Score: 206
Period size: 79 Copynumber: 2.8 Consensus size: 77
976356 TATTTTTGAG
** * ** *
976366 AGGATACTCCAATTCTGTTATTTTCGAAGGGATATTCCAACCTTGTTTATATTTCTAAAACACTG
1 AGGATACTCCAAACCTGTTATTTTCGAAGGGATACTCCAACCTAATTT-TATTTCTAAAACACTA
976431 ATTTTCCACCATCA
65 ATTTTCCACCAT-A
* *
976445 AGGATACTCCAAACCTGTTACTTTT--AAGGGGATACTCTAACCCTAATTTTATTTCTAAGACAC
1 AGGATACTCCAAACCTGTTA-TTTTCGAA-GGGATACTCCAA-CCTAATTTTATTTCTAAAACAC
* *
976508 TAATTTTTCACCATT
63 TAATTTTCCACCATA
** * * * * *
976523 AGAGATACTGTAACCCTGTTATTTTCGAAAGGATACTCCAACCCTGATTTTGTTTCCAAAA
1 AG-GATACTCCAAACCTGTTATTTTCGAAGGGATACTCCAA-CCTAATTTTATTTCTAAAA
976584 TATCGACTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
78 8 0.07
79 94 0.82
80 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (77 bp):
AGGATACTCCAAACCTGTTATTTTCGAAGGGATACTCCAACCTAATTTTATTTCTAAAACACTAA
TTTTCCACCATA
Found at i:982777 original size:23 final size:23
Alignment explanation
Indices: 982744--982796 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
982734 GGAAAGAAAG
*
982744 AAAAAGCGATCTATTATTTGAGT
1 AAAAAGTGATCTATTATTTGAGT
982767 AAAAAGTGATCTATTATTTGAGT
1 AAAAAGTGATCTATTATTTGAGT
982790 AAAAAGT
1 AAAAAGT
982797 TCACCAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (23 bp):
AAAAAGTGATCTATTATTTGAGT
Found at i:986417 original size:28 final size:29
Alignment explanation
Indices: 986371--986875 Score: 151
Period size: 28 Copynumber: 17.9 Consensus size: 29
986361 ATTTAATCTT
* *
986371 TCTCTCAAAACCTATAAGTCAGTGGCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* *
986399 TCTCTCAAAGCCCACAAGTC-GATAGCATCC
1 TCTCTCAAAGCCCATAAGTCAG-TGGCAT-C
* * *
986429 TCTCTCAAAGCCCATAAGT-TGATGGAACC
1 TCTCTCAAAGCCCATAAGTCAG-TGGCATC
* *
986458 TC-CTGAAAGCCTATAAGT-AGGTGGCATC
1 TCTCTCAAAGCCCATAAGTCA-GTGGCATC
* **
986486 CCTTCTCAAAGCCCATAAGTCAGTGGCAAG
1 TC-TCTCAAAGCCCATAAGTCAGTGGCATC
* **** * *
986516 TC-CAC-AAGTTGGT--GGCA-T-CCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * * * *
986538 T-T-TAAAAGCTCACAAGTTAGTGGCACC
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* *
986565 T-TCTCAAAGCCCATAAGTCGGTGTCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * *
986592 -CATTTTAAAGCCCATAAGTCAGTGGCACC
1 TC-TCTCAAAGCCCATAAGTCAGTGGCATC
* *
986621 T-TCTCTAAAGCCTACAAGTC-GATGGCATCC
1 TCTCTC-AAAGCCCATAAGTCAG-TGGCAT-C
* *
986651 CCTCTCAAAGCCCACAAGTCAGTGGCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * * *
986679 CCTTTCAAAGCCCACAAGTCAATGGCATCC
1 TCTCTCAAAGCCCATAAGTCAGTGGCAT-C
* * * * *
986709 CCTTTAAAAGCCCATACGTTAGTGGCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * * *
986737 TCTCTTAAAGCCCACAAGTTAGTGACATCC
1 TCTCTCAAAGCCCATAAGTCAGTGGCAT-C
* * * * * *** *
986767 CCTTTAAAAGCCTAAAAGTTTTTGGCACC
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* *
986796 T-TCTCATAGCCCATAAGTCAGTGGCAAC
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * * *
986824 -CTTTTAAAGCCCATAAGTTAATGGCA-C
1 TCTCTCAAAGCCCATAAGTCAGTGGCATC
* * *
986851 -CATCTCAAAGTCCACAAGTTAGTGG
1 TC-TCTCAAAGCCCATAAGTCAGTGG
986876 GACCCTTTTT
Statistics
Matches: 351, Mismatches: 95, Indels: 62
0.69 0.19 0.12
Matches are distributed among these distances:
22 5 0.01
23 2 0.01
24 3 0.01
25 4 0.01
26 2 0.01
27 11 0.03
28 188 0.54
29 23 0.07
30 107 0.30
31 6 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (29 bp):
TCTCTCAAAGCCCATAAGTCAGTGGCATC
Found at i:986498 original size:30 final size:29
Alignment explanation
Indices: 986373--986513 Score: 92
Period size: 30 Copynumber: 4.9 Consensus size: 29
986363 TTAATCTTTC
* * *
986373 TCTCAAAACCTATAAGTCA-GTGGCACTC-
1 TCTCAAAGCCCATAAGT-AGGTGGCACCCT
* * * * *
986401 TCTCAAAGCCCACAAGTCGATAGCATCCT
1 TCTCAAAGCCCATAAGTAGGTGGCACCCT
* * *
986430 CTCTCAAAGCCCATAAGTTGATGG-AACCT
1 -TCTCAAAGCCCATAAGTAGGTGGCACCCT
* * *
986459 CCTGAAAGCCTATAAGTAGGTGGCATCCCT
1 TCTCAAAGCCCATAAGTAGGTGGCA-CCCT
986489 TCTCAAAGCCCATAAGTCA-GTGGCA
1 TCTCAAAGCCCATAAGT-AGGTGGCA
986514 AGTCCACAAG
Statistics
Matches: 86, Mismatches: 21, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
28 37 0.43
29 5 0.06
30 43 0.50
31 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (29 bp):
TCTCAAAGCCCATAAGTAGGTGGCACCCT
Found at i:986668 original size:30 final size:28
Alignment explanation
Indices: 986542--986881 Score: 214
Period size: 28 Copynumber: 11.9 Consensus size: 28
986532 ATCCACTTTA
* * *
986542 AAAGCTCACAAGTTAGTGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * * * * *
986570 AAAGCCCATAAGTCGGTGTCACCATTTT
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* *
986598 AAAGCCCATAAGTCAGTGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
*
986626 TAAAGCCTACAAGTC-GATGGCATCCCCTCTC
1 -AAAGCCCACAAGTCAG-TGGCA--CCCTCTC
*
986657 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * *
986685 AAAGCCCACAAGTCAATGGCATCCCCTTTA
1 AAAGCCCACAAGTCAGTGGCA--CCCTCTC
* * * * *
986715 AAAGCCCATACGTTAGTGGCACTCTCTT
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * * *
986743 AAAGCCCACAAGTTAGTGACATCCCCTTTA
1 AAAGCCCACAAGTCAGTGGCA--CCCTCTC
* * *** *
986773 AAAGCCTAAAAGTTTTTGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * * * *
986801 ATAGCCCATAAGTCAGTGGCAACCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * * *
986829 AAAGCCCATAAGTTAATGGCACCATCTC
1 AAAGCCCACAAGTCAGTGGCACCCTCTC
* * *
986857 AAAGTCCACAAGTTAGTGGGACCCT
1 AAAGCCCACAAGTCAGTGGCACCCT
986882 TTTTAAAGCC
Statistics
Matches: 240, Mismatches: 63, Indels: 18
0.75 0.20 0.06
Matches are distributed among these distances:
28 155 0.65
29 17 0.07
30 61 0.25
31 7 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTCTC
Found at i:986708 original size:58 final size:58
Alignment explanation
Indices: 986528--986869 Score: 291
Period size: 58 Copynumber: 5.9 Consensus size: 58
986518 CACAAGTTGG
* * * * **
986528 TGGCATCCACTTTAAAAGCTCACAAGTTAGTGGCACCTTCTCAAAGCCCATAAGTCGG
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAA
* * * * * *
986586 TGTCA--CCATTTTAAAGCCCATAAGTCAGTGGCACCTTCTCTAAAGCCTACAAGTCGA
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCTTCTC-AAAGCCCACAAGTCAA
* *
986643 TGGCATCCCCTCTCAAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAA
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAA
* * * * * *
986701 TGGCATCCCCTTTAAAAGCCCATACGTTAGTGGCA-CTCTCTTAAAGCCCACAAGTTAG
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCT-TCTCAAAGCCCACAAGTCAA
* * * *** * * *
986759 TGACATCCCCTTTAAAAGCCTAAAAGTTTTTGGCACCTTCTCATAGCCCATAAGTCAG
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAA
* * * * * * *
986817 TGGCA--ACCTTTTAAAGCCCATAAGTTAATGGCACCATCTCAAAGTCCACAAGT
1 TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGT
986870 TAGTGGGACC
Statistics
Matches: 231, Mismatches: 46, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
56 69 0.30
57 18 0.08
58 112 0.48
59 28 0.12
60 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (58 bp):
TGGCATCCCCTTTAAAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAA
Found at i:986953 original size:32 final size:34
Alignment explanation
Indices: 986901--986972 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
986891 CCATAAGCTT
*
986901 GTGGCAACCCTCTTAAAAAGCCT-ACACAGGTCA
1 GTGGCAACCCTCTTAAAAAGCCTAACACAAGTCA
* *
986934 GTGGTAACCCT-TTCAAAAGCCTAACACAAGTCA
1 GTGGCAACCCTCTTAAAAAGCCTAACACAAGTCA
*
986967 ATGGCA
1 GTGGCA
986973 TCTCTTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 10 0.30
33 23 0.70
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (34 bp):
GTGGCAACCCTCTTAAAAAGCCTAACACAAGTCA
Found at i:987054 original size:52 final size:52
Alignment explanation
Indices: 986979--987094 Score: 146
Period size: 52 Copynumber: 2.2 Consensus size: 52
986969 GGCATCTCTT
* * * *
986979 TTTAAG-CCTAATGTCGCTAGCCTTGAATCAGTACATTGGC-TCTTTTGTCATC
1 TTTAAGTCC-AATGTCACTAGCCTTGAATCAGCACATTGACAT-TCTTGTCATC
* *
987031 TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATTCTTGTTATC
1 TTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGACATTCTTGTCATC
987083 TTTAAGTCCAAT
1 TTTAAGTCCAAT
987095 ATTGCTGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 53 0.95
53 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (52 bp):
TTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGACATTCTTGTCATC
Found at i:987103 original size:52 final size:52
Alignment explanation
Indices: 986998--987120 Score: 142
Period size: 52 Copynumber: 2.4 Consensus size: 52
986988 AATGTCGCTA
* * * *
986998 GCCTTGAATCAGTACATTGGCTCTTTTGTCATCTTTAAGTCCAATGTCACTG
1 GCCTTGAATCAGCACATTGACTCTCTTGTCATCTTTAAGTCCAATATCACTG
* **
987050 GCCTTGAATCAGCACATTGACAT-TCTTGTTATCTTTAAGTCCAATATTGCTG
1 GCCTTGAATCAGCACATTGAC-TCTCTTGTCATCTTTAAGTCCAATATCACTG
*
987102 G-CTATGAATCAGCATATTG
1 GCCT-TGAATCAGCACATTG
987121 GCACCCTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 2 0.03
52 58 0.95
53 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (52 bp):
GCCTTGAATCAGCACATTGACTCTCTTGTCATCTTTAAGTCCAATATCACTG
Found at i:987959 original size:51 final size:52
Alignment explanation
Indices: 987882--988020 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
987872 TATAGAATGA
*
987882 AAATGTATCGATACATTTTTCTTTGTATCGATACATTC-TGGGTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGGTTTTGACCC
* * * *
987933 AAATGTGTTGATACATTTTTCATTGTATCGATACATTCTTGGTTTTTGACCT
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGGTTTTGACCC
* *
987985 AAATGTATCGATACATTCTTT-AATGTATCAATACAT
1 AAATGTATCGATACATT-TTTCATTGTATCGATACAT
988021 CTAGGCAACT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 35 0.45
52 39 0.51
53 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTTGGGTTTTGACCC
Found at i:992824 original size:20 final size:21
Alignment explanation
Indices: 992799--992837 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
992789 TCTTAAAAGC
992799 CCATGTTT-AAGCATTTTATG
1 CCATGTTTCAAGCATTTTATG
*
992819 CCATGTTTCATGCATTTTA
1 CCATGTTTCAAGCATTTTA
992838 ACATGTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (21 bp):
CCATGTTTCAAGCATTTTATG
Found at i:995565 original size:20 final size:19
Alignment explanation
Indices: 995542--995591 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
995532 ACACCCAAAT
* *
995542 GTATTGATACATATTGCTTA
1 GTATCGATACATATT-CATA
*
995562 GTATCGATACATGTTCATA
1 GTATCGATACATATTCATA
995581 GTATCGATACA
1 GTATCGATACA
995592 CCTTAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
GTATCGATACATATTCATA
Found at i:1001762 original size:20 final size:21
Alignment explanation
Indices: 1001737--1001776 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1001727 AATTTCCCAG
1001737 AATGTATCGATACAT-TGAAC
1 AATGTATCGATACATCTGAAC
1001757 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
1001777 AAACCCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAC
Found at i:1001811 original size:20 final size:20
Alignment explanation
Indices: 1001786--1001828 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1001776 AAAACCCAAA
1001786 TGTATCGATAATGCATTCTT
1 TGTATCGATAATGCATTCTT
* *
1001806 TGTATCGATACTGCGTTCTT
1 TGTATCGATAATGCATTCTT
1001826 TGT
1 TGT
1001829 TTTAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (20 bp):
TGTATCGATAATGCATTCTT
Found at i:1006370 original size:51 final size:52
Alignment explanation
Indices: 1006286--1006409 Score: 214
Period size: 51 Copynumber: 2.4 Consensus size: 52
1006276 ATATGAAAAG
* *
1006286 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCT-GGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1006337 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1006389 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1006410 AAGATCAGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 41 0.59
52 28 0.41
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1006527 original size:13 final size:13
Alignment explanation
Indices: 1006509--1006533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1006499 AAAAAAAATA
1006509 TGTATCGATACAT
1 TGTATCGATACAT
1006522 TGTATCGATACA
1 TGTATCGATACA
1006534 ACATTTTATG
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:1010511 original size:13 final size:13
Alignment explanation
Indices: 1010493--1010518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1010483 CAATTTTTTG
1010493 TGTATCGATACAT
1 TGTATCGATACAT
1010506 TGTATCGATACAT
1 TGTATCGATACAT
1010519 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1010583 original size:21 final size:21
Alignment explanation
Indices: 1010557--1010632 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1010547 CTGCCAAGAA
*
1010557 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1010578 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1010598 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1010619 ATGTATCGATACAT
1 ATGTATCGATACAT
1010633 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1010603 original size:20 final size:20
Alignment explanation
Indices: 1010578--1010650 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1010568 CATCTTTTTT
1010578 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1010598 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1010619 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1010639 ATGTATCGATAC
1 ATGTATCGATAC
1010651 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1010614 original size:41 final size:41
Alignment explanation
Indices: 1010557--1010650 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1010547 CTGCCAAGAA
*
1010557 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1010598 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1010639 ATGTATCGATAC
1 ATGTATCGATAC
1010651 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1011290 original size:16 final size:16
Alignment explanation
Indices: 1011269--1011302 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1011259 CCCCCGTTTA
1011269 AAAAAATCTCCCCCTT
1 AAAAAATCTCCCCCTT
1011285 AAAAAATCTCCCCCTT
1 AAAAAATCTCCCCCTT
1011301 AA
1 AA
1011303 TCAAGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATCTCCCCCTT
Found at i:1013126 original size:13 final size:13
Alignment explanation
Indices: 1013108--1013146 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1013098 ATAATCACCC
*
1013108 TGTATCGATACAG
1 TGTATCGATACAA
1013121 TGTATCGATACAA
1 TGTATCGATACAA
1013134 TGTATCGATACAA
1 TGTATCGATACAA
1013147 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1013157 original size:20 final size:20
Alignment explanation
Indices: 1013132--1013210 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1013122 GTATCGATAC
1013132 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1013152 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1013177 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1013196 ACATGTATCGATACA
1 A-ATGTATCGATACA
1013211 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1015252 original size:15 final size:15
Alignment explanation
Indices: 1015232--1015262 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1015222 ATTTCGTTTG
*
1015232 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1015247 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1015262 G
1 G
1015263 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1019342 original size:13 final size:13
Alignment explanation
Indices: 1019324--1019349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019314 CAATTTTTTG
1019324 TGTATCGATACAT
1 TGTATCGATACAT
1019337 TGTATCGATACAT
1 TGTATCGATACAT
1019350 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1019414 original size:21 final size:21
Alignment explanation
Indices: 1019388--1019463 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1019378 CTGCCAAGAA
*
1019388 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1019409 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1019429 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1019450 ATGTATCGATACAT
1 ATGTATCGATACAT
1019464 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1019434 original size:20 final size:20
Alignment explanation
Indices: 1019409--1019481 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1019399 CATCTTTTTT
1019409 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1019429 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1019450 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1019470 ATGTATCGATAC
1 ATGTATCGATAC
1019482 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1019445 original size:41 final size:41
Alignment explanation
Indices: 1019388--1019481 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1019378 CTGCCAAGAA
*
1019388 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1019429 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1019470 ATGTATCGATAC
1 ATGTATCGATAC
1019482 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1021037 original size:33 final size:33
Alignment explanation
Indices: 1021000--1021064 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1020990 TAGCTTAAAA
1021000 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
1021033 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
1021065 ATGCAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:1021038 original size:13 final size:13
Alignment explanation
Indices: 1021020--1021044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1021010 CAAAAAAATA
1021020 TGTATCGATACAT
1 TGTATCGATACAT
1021033 TGTATCGATACA
1 TGTATCGATACA
1021045 ACATTTTATG
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:1024546 original size:4 final size:4
Alignment explanation
Indices: 1024531--1024588 Score: 89
Period size: 4 Copynumber: 14.5 Consensus size: 4
1024521 AAACAAAAAA
* * *
1024531 AAAT AAAC AAAT AAAT AAAC AAAT AAAT GAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1024579 AAAT AAAT AA
1 AAAT AAAT AA
1024589 GCACCTCAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:1026678 original size:79 final size:77
Alignment explanation
Indices: 1026565--1026951 Score: 366
Period size: 79 Copynumber: 4.9 Consensus size: 77
1026555 AAAATCCCTC
** * * *
1026565 GGAGTATCCCCTTGGAAAA-AACGGGGTTGAAGTATCCTCGATTATGAAAAAACGATGTTTTAGA
1 GGAGTATCCCC-TCAAAAATAAC-GGGTTGGAGTATCC-CGATTGTGAAAAATCGATGTTTTAGA
1026629 AATAAAACCAGGGTT
63 AATAAAACCAGGGTT
* * * * *
1026644 GGAGTATCCCCTCAAAAATAATGGGATTGGAGTATCCTCG-GTGATTGAAAATTAG-TATTTTAG
1 GGAGTATCCCCTCAAAAATAACGGG-TTGGAGTATCC-CGATTG--TGAAAAATCGATGTTTTAG
*
1026707 AAATAAAATCAGGGTT
62 AAATAAAACCAGGGTT
* ** * * *
1026723 GGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCTAATTGTGGAAAATTGATGTTTTAGAA
1 GGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCC-GATTGTGAAAAATCGATGTTTTAGAA
***
1026788 ATAAAATTGGGGTT
64 ATAAAACCAGGGTT
* ** *** * *
1026802 GGAGTGTTTCCTTGTAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAATTGATGTTTTAGAA
1 GGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCC-GATTGTGAAAAATCGATGTTTTAGAA
1026867 ATAAAACCAGGGTT
64 ATAAAACCAGGGTT
* *
1026881 AGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAA
1 GGAGTATCCCCTCAAAAATAACG-GGTTGGAGTAT-CCCGATTGTGAAAAATCGATGTTTTAGAA
1026946 ATAAAA
64 ATAAAA
1026952 ACATCAATGA
Statistics
Matches: 257, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
78 18 0.07
79 224 0.87
80 15 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (77 bp):
GGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCGATTGTGAAAAATCGATGTTTTAGAAAT
AAAACCAGGGTT
Found at i:1026780 original size:158 final size:158
Alignment explanation
Indices: 1026565--1026951 Score: 437
Period size: 158 Copynumber: 2.4 Consensus size: 158
1026555 AAAATCCCTC
* * *
1026565 GGAGTATCCCCTTGGAAAA-AACGGGGTTGAAGTAT-CCTCGATTATGAAAAAACGATGTTTTAG
1 GGAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCT-GATTGTGAAAAATCGATGTTTTAG
*
1026628 AAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA-TGGGATTGGAGTATCCTCGGTGA-T-T
64 AAATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGGG-TTGGAGTATCC-C--TGATTGT
*
1026690 -GAAAATT-AGTATTTTAGAAATAAAATCAGGGTT
125 GGAAAATTGA-TATTTTAGAAATAAAACCAGGGTT
* * * *
1026723 GGAGTGTCCCCTTGAAAATAACGGGGTTGGAGTATCCCTAATTGTGGAAAATTGATGTTTTAGAA
1 GGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAA
*** * ** ***
1026788 ATAAAATTGGGGTTGGAGTGTTTCCTTGTAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAA
66 ATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAA
*
1026853 TTGATGTTTTAGAAATAAAACCAGGGTT
131 TTGATATTTTAGAAATAAAACCAGGGTT
* ** * * *
1026881 AGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAA
1 GGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAA
1026946 ATAAAA
66 ATAAAA
1026952 ACATCAATGA
Statistics
Matches: 193, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
155 3 0.02
156 1 0.01
157 7 0.04
158 175 0.91
159 7 0.04
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (158 bp):
GGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCGATGTTTTAGAA
ATAAAACCAGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAA
TTGATATTTTAGAAATAAAACCAGGGTT
Found at i:1029059 original size:20 final size:20
Alignment explanation
Indices: 1029036--1029130 Score: 120
Period size: 20 Copynumber: 4.7 Consensus size: 20
1029026 CACAACCCAG
1029036 AATGTATCGATACAATGAAA
1 AATGTATCGATACAATGAAA
*
1029056 AATGTATCAATACAATGAAA
1 AATGTATCGATACAATGAAA
*
1029076 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAA
* * *
1029096 AGTGTATCAATACAAAT-AGTA
1 AATGTATCGATAC-AATGA-AA
1029117 AATGTATCGATACA
1 AATGTATCGATACA
1029131 TTCACTTATG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 50 0.78
21 14 0.22
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAA
Found at i:1029080 original size:40 final size:41
Alignment explanation
Indices: 1029036--1029130 Score: 140
Period size: 40 Copynumber: 2.3 Consensus size: 41
1029026 CACAACCCAG
1029036 AATGTATCGATACAATGAAAAATGTATCAATAC-AAT-GAAA
1 AATGTATCGATACAATGAAAAATGTATCAATACAAATAG-AA
* * *
1029076 AATGTATCGATACAATGAATAGTGTATCAATACAAATAGTA
1 AATGTATCGATACAATGAAAAATGTATCAATACAAATAGAA
1029117 AATGTATCGATACA
1 AATGTATCGATACA
1029131 TTCACTTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 31 0.62
41 18 0.36
42 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (41 bp):
AATGTATCGATACAATGAAAAATGTATCAATACAAATAGAA
Found at i:1029143 original size:41 final size:40
Alignment explanation
Indices: 1029036--1029150 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 40
1029026 CACAACCCAG
* *
1029036 AATGTATCGATACAATGAAAAATGTATCAATAC-AATGAAA
1 AATGTATCGATACAAT-CAATATGTATCAATACAAATGAAA
* *
1029076 AATGTATCGATACAATGAATAGTGTATCAATACAAAT-AGTA
1 AATGTATCGATACAATCAATA-TGTATCAATACAAATGA-AA
* * *
1029117 AATGTATCGATACATTCACTTATGTATCGATACA
1 AATGTATCGATACAATCA-ATATGTATCAATACA
1029151 TTTCTTTGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.05
40 28 0.44
41 31 0.48
42 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (40 bp):
AATGTATCGATACAATCAATATGTATCAATACAAATGAAA
Found at i:1031195 original size:20 final size:21
Alignment explanation
Indices: 1031172--1031221 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1031162 TCAAGCATGC
*
1031172 ATCGATCCATT-CACTTA-TGT
1 ATCGATACATTAC-CTTATTGT
1031192 ATCGATACATTACCTTATTGT
1 ATCGATACATTACCTTATTGT
1031213 ATCGATACA
1 ATCGATACA
1031222 AATTGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCGATACATTACCTTATTGT
Found at i:1031215 original size:21 final size:20
Alignment explanation
Indices: 1031148--1031221 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
1031138 TGCATGGTCC
***
1031148 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTTA
* *
1031169 TGCATCGATCCATTCACTTA
1 TGTATCGATACATTCACTTA
1031189 TGTATCGATACATT-ACCTTA
1 TGTATCGATACATTCA-CTTA
1031209 TTGTATCGATACA
1 -TGTATCGATACA
1031222 AATTGTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 21 0.48
21 22 0.50
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:1034410 original size:23 final size:23
Alignment explanation
Indices: 1034343--1034410 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
1034333 ATTTTATTCG
* *
1034343 AATAAAATAATT-ATGTATTCAT
1 AATAAAATAATTAATTTAATCAT
*
1034365 TATCAAAATAA--AA-TTAA-CTAT
1 AAT-AAAATAATTAATTTAATC-AT
1034386 AATAAAATAATTAATTTAATCAT
1 AATAAAATAATTAATTTAATCAT
1034409 AA
1 AA
1034411 ATTACACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
20 8 0.23
21 6 0.17
22 5 0.14
23 15 0.43
24 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (23 bp):
AATAAAATAATTAATTTAATCAT
Found at i:1035121 original size:18 final size:18
Alignment explanation
Indices: 1035098--1035132 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1035088 GTTAAACACA
1035098 TTGAGTCAATTACTTACG
1 TTGAGTCAATTACTTACG
1035116 TTGAGTCAATTACTTAC
1 TTGAGTCAATTACTTAC
1035133 TTAGGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
TTGAGTCAATTACTTACG
Found at i:1036790 original size:29 final size:28
Alignment explanation
Indices: 1036715--1036791 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 28
1036705 TATTTGGACA
*
1036715 AAACCAAGGCTCAAAGAAACGACTTGGAT
1 AAACCAAGACTCAAA-AAACGACTTGGAT
* * * *
1036744 ATAACTAAAAAC-CTAAAAATGACTTGGAT
1 A-AAC-CAAGACTCAAAAAACGACTTGGAT
1036773 GAAACCAAGACTCAAAAAA
1 -AAACCAAGACTCAAAAAA
1036792 ATGGTCTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
28 4 0.11
29 22 0.61
30 7 0.19
31 3 0.08
ACGTcount: A:0.52, C:0.18, G:0.14, T:0.16
Consensus pattern (28 bp):
AAACCAAGACTCAAAAAACGACTTGGAT
Found at i:1039888 original size:16 final size:15
Alignment explanation
Indices: 1039855--1039892 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1039845 TAAAATAATA
1039855 TTTA-TTTATTACTT
1 TTTATTTTATTACTT
*
1039869 TTTATTTTATATATTT
1 TTTATTTTAT-TACTT
1039885 TTTATTTT
1 TTTATTTT
1039893 TAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 5 0.24
16 12 0.57
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTACTT
Found at i:1040772 original size:17 final size:17
Alignment explanation
Indices: 1040752--1040786 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1040742 TTCTACTGTT
*
1040752 TCTTATTTTTTTCTCTC
1 TCTTATTTTCTTCTCTC
1040769 TCTTATTTTCTTCTCTC
1 TCTTATTTTCTTCTCTC
1040786 T
1 T
1040787 ATTTTCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.69
Consensus pattern (17 bp):
TCTTATTTTCTTCTCTC
Found at i:1040779 original size:14 final size:14
Alignment explanation
Indices: 1040760--1040792 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1040750 TTTCTTATTT
1040760 TTTTC-TCTCTCTTA
1 TTTTCTTCTCTC-TA
1040774 TTTTCTTCTCTCTA
1 TTTTCTTCTCTCTA
1040788 TTTTC
1 TTTTC
1040793 CAAAGCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCTTCTCTCTA
Found at i:1041173 original size:20 final size:21
Alignment explanation
Indices: 1041148--1041202 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1041138 GTATTGATAC
**
1041148 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
**
1041168 AATGTATCGATATTTGAAAAG
1 AATGTATCGATACATGAAAAG
1041189 AATGTATCGATACA
1 AATGTATCGATACA
1041203 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:1047180 original size:8 final size:8
Alignment explanation
Indices: 1047167--1047192 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1047157 ATTTGATTAA
1047167 ATTTTGTG
1 ATTTTGTG
1047175 ATTTTGTG
1 ATTTTGTG
1047183 ATTTTGTG
1 ATTTTGTG
1047191 AT
1 AT
1047193 GATTGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1047390 original size:47 final size:49
Alignment explanation
Indices: 1047307--1047398 Score: 127
Period size: 47 Copynumber: 1.9 Consensus size: 49
1047297 AAATTCTGGA
*
1047307 AAAATTCCAGAATGTATCGATACAGGTTCAAATGTATCGATACATCTAG
1 AAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACATCTAG
**
1047356 AAAATT-CAGAA-GTATCGATACAGCATTC-TCTGTATCGATACAT
1 AAAATTCCAGAATGTATCGATACAG-ATTCAAATGTATCGATACAT
1047399 TGTATCGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
47 25 0.64
48 8 0.21
49 6 0.15
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (49 bp):
AAAATTCCAGAATGTATCGATACAGATTCAAATGTATCGATACATCTAG
Found at i:1047404 original size:13 final size:13
Alignment explanation
Indices: 1047386--1047423 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1047376 CAGCATTCTC
*
1047386 TGTATCGATACAT
1 TGTATCGATACAG
*
1047399 TGTATCGATATAG
1 TGTATCGATACAG
1047412 TGTATCGATACA
1 TGTATCGATACA
1047424 AAGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1049296 original size:22 final size:22
Alignment explanation
Indices: 1049271--1049315 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1049261 CGAAATTGTT
1049271 AAATTATCTT-ATTAAAGGGGAG
1 AAATT-TCTTGATTAAAGGGGAG
* *
1049293 AAATTTTTTGATTAAGGGGGAG
1 AAATTTCTTGATTAAAGGGGAG
1049315 A
1 A
1049316 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (22 bp):
AAATTTCTTGATTAAAGGGGAG
Found at i:1049907 original size:20 final size:21
Alignment explanation
Indices: 1049882--1049936 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
1049872 GTATCGATAC
**
1049882 AATGTATCGATACATGACCA-
1 AATGTATCGATACATGAAAAG
*
1049902 AATGTATCGATACTTGAAAAG
1 AATGTATCGATACATGAAAAG
1049923 AATGTATCGATACA
1 AATGTATCGATACA
1049937 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAG
Found at i:1050012 original size:20 final size:20
Alignment explanation
Indices: 1049969--1050020 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1049959 TAGCCAAATT
*
1049969 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
*
1049988 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
1050008 TGTATCGATACAT
1 TGTATCGATACAT
1050021 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:1050991 original size:14 final size:14
Alignment explanation
Indices: 1050972--1051021 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1050962 ATTAATTCGT
*
1050972 AAAATTAAACTGTA
1 AAAATTAAACTATA
1050986 AAAATT-AACTATA
1 AAAATTAAACTATA
* *
1050999 AAGATTAAATTATA
1 AAAATTAAACTATA
1051013 AAAATTAAA
1 AAAATTAAA
1051022 AATAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATTAAACTATA
Found at i:1051026 original size:27 final size:26
Alignment explanation
Indices: 1050971--1051026 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
1050961 TATTAATTCG
* **
1050971 TAAAATTAAACTGTAAAAATTAACTA
1 TAAAATTAAACTATAAAAATTAAAAA
*
1050997 TAAAGATTAAATTATAAAAATTAAAAA
1 TAAA-ATTAAACTATAAAAATTAAAAA
1051024 TAA
1 TAA
1051027 TAAAAAATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
TAAAATTAAACTATAAAAATTAAAAA
Found at i:1051539 original size:166 final size:166
Alignment explanation
Indices: 1051085--1051601 Score: 419
Period size: 166 Copynumber: 3.1 Consensus size: 166
1051075 ATTTAATTAC
* *** * * * * *
1051085 AATATTTGATGAATTTTTAAAATTTTAAAGTGAAGA-AAATC-TCCTCGAAAATATTTACGAAAT
1 AATATTTGATGAATTTTAAAAATTTTAAACCCAAAACAAATCACCCT-GAAAAAAATTACGAAAA
** ** * * * *
1051148 AGAAAACT-CAGTTTTTTGAAAAC-AGAAGAATTT-CAAAGAAAAAATTCAAAACTCATGTAAAT
65 AGAAAACTCCA-AATTTCAAAAACAAG-AGAATTTCCAAA-AAAAAA-TAAAAAATAATGAAAAT
* * * * * *
1051210 GAAT--ATTTTTTAAGAACTAATTCAATGTGAATTAAATGAT
126 GAATGAATTTTTCAA-AATTGATTTAATGTTAATCAAATGAT
* * * * *
1051250 AATATTTGATGAATATAAAAAATTTTAAACCCAAAACAAATCACCCTGAAAATATTTACGAAGAA
1 AATATTTGATGAATTTTAAAAATTTTAAACCCAAAACAAATCACCCTGAAAAAAATTACGAAAAA
* ** * * * *
1051315 GAAAACTTCATTTTTCAAACACAAGAGAATTTCCAAAAAAAAATCAAAACTCATGAAAATGAATG
66 GAAAACTCCAAATTTCAAAAACAAGAGAATTTCCAAAAAAAAATAAAAAATAATGAAAATGAATG
1051380 AATTTTTCAAAATTGATTTAAT-TTAAATCAAATGAT
131 AATTTTTCAAAATTGATTTAATGTT-AATCAAATGAT
* * *
1051416 AATATTTGATGAATTTTAAAAATTTTAAA-TCAATGA-AAATC-CTCTCGAAAAAAATTACGAAA
1 AATATTTGATGAATTTTAAAAATTTTAAACCCAA-AACAAATCACCCT-GAAAAAAATTACGAAA
* * **
1051478 AAGAAAACTCCAAATTTCAAAAATAAGAGGAA-TTCTAAGGAAAAATAAAAAATAAATGAAAATG
64 AAGAAAACTCCAAATTTCAAAAACAAGA-GAATTTCCAAAAAAAAATAAAAAAT-AATGAAAATG
* * * *
1051542 AATGAATTTTTTAAAATTGATTTAATGTTGATTAGATGAT
127 AATGAATTTTTCAAAATTGATTTAATGTTAATCAAATGAT
* *
1051582 AATATTTAAAGAATTTTAAA
1 AATATTTGATGAATTTTAAA
1051602 GTTAAAAACT
Statistics
Matches: 294, Mismatches: 45, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
164 3 0.01
165 110 0.37
166 160 0.54
167 21 0.07
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (166 bp):
AATATTTGATGAATTTTAAAAATTTTAAACCCAAAACAAATCACCCTGAAAAAAATTACGAAAAA
GAAAACTCCAAATTTCAAAAACAAGAGAATTTCCAAAAAAAAATAAAAAATAATGAAAATGAATG
AATTTTTCAAAATTGATTTAATGTTAATCAAATGAT
Done.