Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 32 of 175
Found at i:8537386 original size:62 final size:62
Alignment explanation
Indices: 8537289--8537408 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
8537279 TATCTTTTTT
* *
8537289 GCATTCATGCATTAACATTACATATCATTGCATACAATAAATTTCCTAAAATCCAAAAATGC
1 GCATTCATGCATCAACATTACATATCATTACATACAATAAATTTCCTAAAATCCAAAAATGC
*
8537351 GCATTCATGCATCAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAA
1 GCATTCATGCATCAACATTACATATCATTACATACAATAAATTTCCTAAAATCCAAAA
8537409 GTACGTCGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (62 bp):
GCATTCATGCATCAACATTACATATCATTACATACAATAAATTTCCTAAAATCCAAAAATGC
Found at i:8539073 original size:11 final size:11
Alignment explanation
Indices: 8539057--8539092 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
8539047 ACTTCACTTG
8539057 AAAAAAAGAAA
1 AAAAAAAGAAA
8539068 AAAAAAAGAAA
1 AAAAAAAGAAA
8539079 AATGAAAAAGAAA
1 AA--AAAAAGAAA
8539092 A
1 A
8539093 GGAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.57
13 10 0.43
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:8539099 original size:7 final size:6
Alignment explanation
Indices: 8539059--8539099 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
8539049 TTCACTTGAA
*
8539059 AAAAAG AAAAA- AAAAAG AAAAATG AAAAAG AAAAGG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAA
8539100 AAGGAGAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:8540097 original size:44 final size:44
Alignment explanation
Indices: 8540049--8540583 Score: 140
Period size: 44 Copynumber: 12.2 Consensus size: 44
8540039 AAAATTGCAG
*
8540049 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * ** ** *
8540093 ATCTTATCTTCCTAAG--GTATTAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA
** * * * * * * ** *
8540136 GCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * *
8540180 ATCTTATCTCTCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * * * ** ** *
8540224 ATCTTATCT-TCTCAATGTAGTAGAGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AA-GCAGTAGTGGAGCAGATCGAAGACGGCAA
* * * * * * * **** *
8540268 GTCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTATAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * * * * * * ** *
8540312 ATCTTGTTTTCCTGTA-CTGGCAGTGAAGCAGATCGAAG-CCACCA
1 ATCTTATCTCCCT-AAGC-AGTAGTGGAGCAGATCGAAGACGGCAA
* * * * * ** * *
8540356 ATCCTATCTCCCTGAGCA-TCAATGGAGTA-AGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGT-AGTGGAGCAGA-TCGAAGACGGCAA
* * *
8540400 ACCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
** ** ** *
8540444 ATCTTATCTTGCTAAG--GTAGTAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA
* * * * * * ** *
8540487 ATCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* **
8540531 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
8540575 ATCTTATCT
1 ATCTTATCT
8540584 TCTCAAGGTA
Statistics
Matches: 332, Mismatches: 137, Indels: 44
0.65 0.27 0.09
Matches are distributed among these distances:
42 10 0.03
43 81 0.24
44 199 0.60
45 42 0.13
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
Found at i:8540314 original size:132 final size:131
Alignment explanation
Indices: 8540004--8540316 Score: 457
Period size: 131 Copynumber: 2.4 Consensus size: 131
8539994 CATCATATCA
* * * *
8540004 AGCCTTATCTCCTTGAGCAGTAGTGGAGTAAGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* * *
8540069 AGTGGAGCAGATCGAAGACGGTAAATCTTATCTTCCTAAGGTATTAGGAAGCAGATTTAAGCCAC
66 AGTAGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
8540134 C
131 C
* *
8540135 AGCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCTCTAAGCAGT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
* *
8540200 AGTAGAGCAGATCGAAGACGGCGAATCTTATCTT-CTCAATGTAGTAGAGAAGCAGATTTAAGCC
66 AGTAGAGCAGATCGAAGACGGCAAATCTTATCTTCCT-AAGGTAGTAG-GAAGCAGATTTAAGCC
8540264 ACC
129 ACC
* * * **
8540267 AGTCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTATAGATCTT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTT
8540317 GTTTTCCTGT
Statistics
Matches: 163, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
130 2 0.01
131 98 0.60
132 63 0.39
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGT
AGTAGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCAC
C
Found at i:8540316 original size:88 final size:87
Alignment explanation
Indices: 8540224--8540408 Score: 185
Period size: 88 Copynumber: 2.1 Consensus size: 87
8540214 AAGACGGCGA
* ** * *
8540224 ATCTTATCTTCTCAATGTA-GTAGAGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAGCAGC
1 ATCTTATCTT-TC-ATGTACGCAGAGAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGC
* *
8540288 AGCGGAGTAGGTGGAAGATTATAG
64 AACGGAGTAAGTGGAAGATTATAG
* * * *
8540312 ATCTTGT-TTTCCTGTACTGGCAGTGAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCATC
1 ATCTTATCTTTCATGTAC--GCAGAGAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGC
* * *
8540376 AATGGAGTAAGTTGAAGATTGTAG
64 AACGGAGTAAGTGGAAGATTATAG
*
8540400 ACCTTATCT
1 ATCTTATCT
8540409 CCCTAAGCAG
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
85 4 0.05
86 2 0.03
87 2 0.03
88 68 0.88
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (87 bp):
ATCTTATCTTTCATGTACGCAGAGAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGCAA
CGGAGTAAGTGGAAGATTATAG
Found at i:8540408 original size:220 final size:219
Alignment explanation
Indices: 8540116--8540535 Score: 628
Period size: 220 Copynumber: 1.9 Consensus size: 219
8540106 AAGGTATTAG
** * * *
8540116 GAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATCGAAGCCACCAGCCTTATCTCCCTGAGCAGCAATGGAGTAAGTTGAAGATTGCAGA
* * * *
8540181 TCTTATCTCTCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTT-CTCAATGTAGT
66 CCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTGCT-AAGGTAGT
* *
8540245 AGAGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTAT
130 AG-GAAGCAGATTTAAGCCACCAATCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTAC
8540310 AGATCTTGTTTTCCTGTACTGGCAGT
194 AGATCTTGTTTTCCTGTACTGGCAGT
* * *
8540336 GAAGCAGATCGAAGCCACCAATCC-TATCTCCCTGAGCATCAATGGAGTAAGTTGAAGATTGTAG
1 GAAGCAGATCGAAGCCACC-AGCCTTATCTCCCTGAGCAGCAATGGAGTAAGTTGAAGATTGCAG
*
8540400 ACCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGAATCTTATCTTGCTAAGGTAGT
65 ACCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTGCTAAGGTAGT
* * * *
8540465 AGGAAGCAGATTTAAGCCACCAATCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCA
130 AGGAAGCAGATTTAAGCCACCAATCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTACA
8540530 GATCTT
195 GATCTT
8540536 ATCTCCCTAA
Statistics
Matches: 179, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
219 63 0.35
220 111 0.62
221 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (219 bp):
GAAGCAGATCGAAGCCACCAGCCTTATCTCCCTGAGCAGCAATGGAGTAAGTTGAAGATTGCAGA
CCTTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCTTATCTTGCTAAGGTAGTA
GGAAGCAGATTTAAGCCACCAATCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTACAG
ATCTTGTTTTCCTGTACTGGCAGT
Found at i:8540513 original size:131 final size:132
Alignment explanation
Indices: 8540336--8540663 Score: 471
Period size: 131 Copynumber: 2.5 Consensus size: 132
8540326 TACTGGCAGT
** * * *
8540336 GAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCATCAATGGAGTAAGTTGAAGATTGTAGA
1 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
***
8540401 CCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGAATCTTATCTTGCT-AAGGTAGT
66 CCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAAAATCTTATCTT-CTCAAGGTAGT
8540465 AG-
130 AGA
* * *
8540467 GAAGCAGATTTAAGCCACCAATCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
* * *
8540532 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCTCAAGGTAGTA
66 CCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAAAATCTTATCTTCTCAAGGTAGTA
8540597 GA
131 GA
* * * *
8540599 GAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGA
1 GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
8540664 TCTTGTCTTC
Statistics
Matches: 174, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
130 2 0.01
131 114 0.66
132 58 0.33
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (132 bp):
GAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
CCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAAAATCTTATCTTCTCAAGGTAGTA
GA
Found at i:8540654 original size:88 final size:88
Alignment explanation
Indices: 8540535--8540744 Score: 210
Period size: 88 Copynumber: 2.4 Consensus size: 88
8540525 TTGCAGATCT
* * * * * * *
8540535 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCTCAAGGTAGT-A-G
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGACGAAAAATCTTATCTTCT---GGTACTGACA
**
8540598 A-GAAGCAGATTTAAGCCACCAGTCC
63 ATGAAGCAGATCGAAGCCACCAGTCC
* ** * * * *
8540623 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTGTCTTCTTGTACTGACAATG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGACGAAAAATCTTATCTTCTGGTACTGACAATG
8540688 AAGCAGATCGAAGCCACCAGTCC
66 AAGCAGATCGAAGCCACCAGTCC
* *
8540711 TATCTCCCTGAGCATCAGTGGAGTAGGTTGAAGA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGA
8540745 TTGTAGATCT
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
85 4 0.04
86 1 0.01
87 1 0.01
88 94 0.94
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (88 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGACGAAAAATCTTATCTTCTGGTACTGACAATG
AAGCAGATCGAAGCCACCAGTCC
Found at i:8540658 original size:351 final size:350
Alignment explanation
Indices: 8540009--8541017 Score: 1572
Period size: 351 Copynumber: 2.9 Consensus size: 350
8539999 TATCAAGCCT
* * *
8540009 TATCTCCTTGAGCAGT-AGTGGAGTAAGTTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTGAGCA-TCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
** * **
8540073 GAGCAGATCGAAGACGGTAAATCTTATCTTCCTAAGGTATTAGGAAGCAGATTTAAGCCACCAGC
65 GAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAAT
*
8540138 CTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCTCTAAGCAGTAGT
130 CTTATCTC-CTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
8540203 AGAGCAGATCGAAGACGGCGAATCTTATCTTCTCAATGTAGTAGAGAAGCAGATTTAAGCCACCA
194 GGAGCAGATCGAAGACGGAGAATCTTATCTTCTCAAGGTAGTAGAGAAGCAGATTTAAGCCACCA
* * * *
8540268 GTCTTATCTCCCTGAGCAGCAGCGGAGTAGGTGGAAGATTATAGATCTTGTTTTCCTGTACTGGC
259 GTCCTATCTCCCTGAGCAGCAGCGGAGTAGGTAGAAGATTATAGATCTTGTCTTCCTGTACTGAC
*
8540333 AGTGAAGCAGATCGAAGCCACCAATCC
324 AATGAAGCAGATCGAAGCCACCAATCC
* *
8540360 TATCTCCCTGAGCATCAATGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCATCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
8540425 AACAGATCGAAGACGGCGAATCTTATCTTGCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAATC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAATC
*
8540490 TTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGTAGTAGTG
131 TTATC-TCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
8540555 GAGCAGATCGAAGACGAAAAATCTTATCTTCTCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAG
195 GAGCAGATCGAAGACGGAGAATCTTATCTTCTCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAG
* *
8540620 TCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTGTCTTCTTGTACTGACA
260 TCCTATCTCCCTGAGCAGCAGCGGAGTAGGTAGAAGATTATAGATCTTGTCTTCCTGTACTGACA
*
8540685 ATGAAGCAGATCGAAGCCACCAGTCC
325 ATGAAGCAGATCGAAGCCACCAATCC
*
8540711 TATCTCCCTGAGCATCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCATCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
8540776 AGCAGATCAAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAAATTTAAACCTCCTATC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAATC
* * * *
8540841 CTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAGATTGCAGATCTTATCTCCTTAAGCAGTAGTG
131 TTATCTCC-TGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* * * *
8540906 GAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGATAGTAG-GAAGCAGATTTAAGCCACCAG
195 GAGCAGATCGAAGACGGAGAATCTTATCTTCTCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAG
* * *
8540970 CCCTATCTCCTTGAGCAGCAGCGGAGTAGGTAGAAGATTGTAGATCTT
260 TCCTATCTCCCTGAGCAGCAGCGGAGTAGGTAGAAGATTATAGATCTT
8541018 ATCTCCCTAA
Statistics
Matches: 604, Mismatches: 51, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
350 69 0.11
351 533 0.88
352 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (350 bp):
TATCTCCCTGAGCATCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAGATTTAAGCCACCAATC
TTATCTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGAGAATCTTATCTTCTCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAGT
CCTATCTCCCTGAGCAGCAGCGGAGTAGGTAGAAGATTATAGATCTTGTCTTCCTGTACTGACAA
TGAAGCAGATCGAAGCCACCAATCC
Found at i:8540737 original size:220 final size:219
Alignment explanation
Indices: 8540467--8540869 Score: 603
Period size: 220 Copynumber: 1.8 Consensus size: 219
8540457 AAGGTAGTAG
** * *
8540467 GAAGCAGATTTAAGCCACCAATCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
1 GAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
* *
8540532 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTT-CTCAAGGTAGT
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTCCT-AAGGTAGT
* * *
8540596 AGAGAAGCAGATTTAAGCCACC-AGTCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTA
130 AG-GAAGCAAATTTAAACCACCTA-TCCTATCTCCCTGAGCAGCAGCAGAGTAGGTCGAAGATTA
8540660 TAGATCTTGTCTTCTTGTACTGACAAT
193 TAGATCTTGTCTTCTTGTACTGACAAT
* * *
8540687 GAAGCAGATCGAAGCCACCAGTCCTATCTCCCTGAGCATCAGTGGAGTAGGTTGAAGATTGTAGA
1 GAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
***
8540752 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTAAGGTAGTA
66 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTCCTAAGGTAGTA
* * *
8540817 GGAAGCAAATTTAAACCTCCTATCCTATCTCCTTGAGCAGCAGTAGAGTAGGT
131 GGAAGCAAATTTAAACCACCTATCCTATCTCCCTGAGCAGCAGCAGAGTAGGT
8540870 TAAAGATTGC
Statistics
Matches: 163, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
219 44 0.27
220 117 0.72
221 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (219 bp):
GAAGCAGATCGAAGCCACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTCCTAAGGTAGTA
GGAAGCAAATTTAAACCACCTATCCTATCTCCCTGAGCAGCAGCAGAGTAGGTCGAAGATTATAG
ATCTTGTCTTCTTGTACTGACAAT
Found at i:8540799 original size:44 final size:44
Alignment explanation
Indices: 8540751--8540934 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
8540741 AAGATTGTAG
8540751 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
* * ** ** **
8540795 ATCTTATCTTCCTAAG--GTAGTAGGAAGCAAATTTAA-ACCTCCT
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCGA
* * * * * * * * **
8540838 ATCCTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAGATTGC-A
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
* * *
8540881 GATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
8540926 ATCTTATCT
1 ATCTTATCT
8540935 TCCCGAGATA
Statistics
Matches: 100, Mismatches: 33, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
42 5 0.05
43 24 0.24
44 66 0.66
45 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
Found at i:8540866 original size:131 final size:131
Alignment explanation
Indices: 8540701--8541043 Score: 517
Period size: 131 Copynumber: 2.6 Consensus size: 131
8540691 CAGATCGAAG
* *
8540701 CCACCAGTCCTATCTCCCTGAGCATCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
8540766 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTAA
8540831 A
131 A
* * * * *
8540832 CCTCCTA-TCCTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAGATTGCAGATCTTATCTCCTTA
1 CCACC-AGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * * *
8540896 AGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTA
*
8540961 AG
130 AA
* * *
8540963 CCACCAGCCCTATCTCCTTGAGCAGCAGCGGAGTAGGTAGAAGATTGTAGATCTTATCTCCCTAA
1 CCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
8541028 GCAGTAGTGGAGCAGA
66 GCAGTAGTGGAGCAGA
8541044 CCGAAAACCA
Statistics
Matches: 188, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
130 1 0.01
131 186 0.99
132 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (131 bp):
CCACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCAAGATAGTAGGAAGCAAATTTAA
A
Found at i:8541279 original size:43 final size:43
Alignment explanation
Indices: 8541102--8541281 Score: 111
Period size: 43 Copynumber: 4.2 Consensus size: 43
8541092 CATCCAGTCT
*
8541102 TATCTCCCTAAGCAGTAGTGGAGCTGACAGAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCC
** * * * ** *
8541145 TATCTCCCTGAAGTTGCAATGGAGCGGA-TTAA-AAACACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAAC-CA-ATCC
* ** * * * * * *
8541189 TATCTCTCTAA--AGT--TACAGTAGAGCAGATCGCATCCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGA-AGAAACCAATCC
8541230 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCC
8541273 TATCTCCCT
1 TATCTCCCT
8541282 GAAGTTGATG
Statistics
Matches: 96, Mismatches: 30, Indels: 22
0.65 0.20 0.15
Matches are distributed among these distances:
39 5 0.05
41 15 0.16
42 6 0.06
43 36 0.38
44 28 0.29
45 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:8541363 original size:128 final size:128
Alignment explanation
Indices: 8541047--8541346 Score: 460
Period size: 128 Copynumber: 2.3 Consensus size: 128
8541037 GAGCAGACCG
* * * *
8541047 AAAACCACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCCAGTCTTATCTCCCTA
1 AAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
*
8541112 AGCAGTAGTGGAGCTGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATT
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATT
*
8541175 AAAAACACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
1 AAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
*
8541240 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTG-ATGTGGAGCGGATT
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCA-ATGGAGCGGATT
** * * *
8541303 AAAATGA-TGAATTTTATCTATCTAAAGTTGCAGTAGAGCAGATC
1 AAAAACACAG-ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC
8541347 ATATCAAACA
Statistics
Matches: 157, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
127 2 0.01
128 155 0.99
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (128 bp):
AAAAACACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTA
AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATT
Found at i:8541416 original size:44 final size:44
Alignment explanation
Indices: 8541327--8541472 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 44
8541317 TATCTATCTA
* * * * * *
8541327 AAGTTGCAGTAGAGCAGATC--ATAT-CAAACATTATCTCTCTA
1 AAGTTGCAGTAGAGTAGGTCGAATATGCAAACCTTATCCCCCTG
*
8541368 AAGTTGCAGTAGAGTAGGTTGAAGTA-GCAAACCTTATCCCCCTG
1 AAGTTGCAGTAGAGTAGGTCGAA-TATGCAAACCTTATCCCCCTG
* * ** **
8541412 AAGTTGCAGTAGGGCAGGTCGAATATGCAAGTCTTATCTTCCTG
1 AAGTTGCAGTAGAGTAGGTCGAATATGCAAACCTTATCCCCCTG
*
8541456 AAGTTGCAGTGGAGTAG
1 AAGTTGCAGTAGAGTAG
8541473 ACTGAAGCTG
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
41 17 0.20
43 3 0.04
44 63 0.76
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AAGTTGCAGTAGAGTAGGTCGAATATGCAAACCTTATCCCCCTG
Found at i:8554220 original size:13 final size:13
Alignment explanation
Indices: 8554202--8554227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8554192 GGGTCGAGTG
8554202 GGCCACATGGGCA
1 GGCCACATGGGCA
8554215 GGCCACATGGGCA
1 GGCCACATGGGCA
8554228 TGTGAGCCCA
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:0.23, C:0.31, G:0.38, T:0.08
Consensus pattern (13 bp):
GGCCACATGGGCA
Found at i:8555718 original size:3 final size:3
Alignment explanation
Indices: 8555704--8555743 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
8555694 CCTTATTTTC
* * *
8555704 CTT CTT CAT CTT CTT CCT CTT CCT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
8555744 CTACACCTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:8557829 original size:39 final size:39
Alignment explanation
Indices: 8557766--8557914 Score: 201
Period size: 39 Copynumber: 3.8 Consensus size: 39
8557756 TGGCACACAA
**
8557766 CCTGCTAGGCACATAGCCCGAATAATCACCGGTACAAAG
1 CCTGCTAGGCACATAGCCTAAATAATCACCGGTACAAAG
* * *
8557805 CTTGCTAGGCACATA-ACTCAAATAATCACTGGTACAAAG
1 CCTGCTAGGCACATAGCCT-AAATAATCACCGGTACAAAG
* *
8557844 CCTGCTAGGCACATAGCCTAAATAATCACCAGCACAAAG
1 CCTGCTAGGCACATAGCCTAAATAATCACCGGTACAAAG
* *
8557883 CCAGCTAGGCACATAGCCTGAATAATCACCGG
1 CCTGCTAGGCACATAGCCTAAATAATCACCGG
8557915 ATTTCTATTT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 92 0.97
40 2 0.02
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.17
Consensus pattern (39 bp):
CCTGCTAGGCACATAGCCTAAATAATCACCGGTACAAAG
Found at i:8560171 original size:23 final size:23
Alignment explanation
Indices: 8560137--8560187 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
8560127 AGGTTGTAGT
*
8560137 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
8560160 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
8560183 AGTAA
1 TGTAA
8560188 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:8566230 original size:12 final size:11
Alignment explanation
Indices: 8566199--8566238 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
8566189 ATAAACATAA
8566199 ATTCAAA-CAT
1 ATTCAAATCAT
8566209 -TTCAAATCAT
1 ATTCAAATCAT
8566219 ATTCATAATCAT
1 ATTCA-AATCAT
8566231 ATT-AAATC
1 ATTCAAATC
8566239 CAAACCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.22
10 7 0.26
11 5 0.19
12 9 0.33
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAAATCAT
Found at i:8567527 original size:39 final size:39
Alignment explanation
Indices: 8567470--8567627 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
8567460 TCAATACACT
*
8567470 GGCACACAGCCTGCTAGGCACATAGCCCGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
* *
8567509 GGCACAAAGCCTGGTAGGCACATAGCCCAAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
* * *
8567548 AGCACAAAGCCTACTAGGCACATAGCCTGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
* *
8567587 GGCATAAAGCCTGCTAGGCACATAGCCTGAATAATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
8567626 GG
1 GG
8567628 ATTTCTATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.15
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
Found at i:8568940 original size:39 final size:39
Alignment explanation
Indices: 8568892--8569026 Score: 189
Period size: 39 Copynumber: 3.5 Consensus size: 39
8568882 TAGGCGTATG
* *
8568892 GCCCAAATAATCACCAGAATAAAGCCTGCTAGGCACATA
1 GCCCGAATAATCACCAGAACAAAGCCTGCTAGGCACATA
* *
8568931 GCCCGAATAATCACCAGCACAAAGCCTGCTAAGCACATA
1 GCCCGAATAATCACCAGAACAAAGCCTGCTAGGCACATA
*** * *
8568970 GATTGAATAATCACCGGCACAAAGCCTGCTAGGCACATA
1 GCCCGAATAATCACCAGAACAAAGCCTGCTAGGCACATA
8569009 GCCCGAATAATCACCAGA
1 GCCCGAATAATCACCAGA
8569027 TTTCTATTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.39, C:0.30, G:0.17, T:0.15
Consensus pattern (39 bp):
GCCCGAATAATCACCAGAACAAAGCCTGCTAGGCACATA
Found at i:8588814 original size:2 final size:2
Alignment explanation
Indices: 8588809--8588836 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8588799 GTGTGTGTGT
8588809 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8588837 TTCAATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8592564 original size:48 final size:48
Alignment explanation
Indices: 8592493--8592594 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
8592483 TTGTACATAG
8592493 TCATCAGACAAGTTTCACACACATGTATCTTTCATCTCATTTTTCAAC
1 TCATCAGACAAGTTTCACACACATGTATCTTTCATCTCATTTTTCAAC
*
8592541 TCATCAGGCAAGTTTCACACACATGTATCTTTCATCTCATTTTTCAAC
1 TCATCAGACAAGTTTCACACACATGTATCTTTCATCTCATTTTTCAAC
*
8592589 TTATCA
1 TCATCA
8592595 AGTAACATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.38
Consensus pattern (48 bp):
TCATCAGACAAGTTTCACACACATGTATCTTTCATCTCATTTTTCAAC
Found at i:8592873 original size:25 final size:25
Alignment explanation
Indices: 8592819--8593047 Score: 96
Period size: 25 Copynumber: 9.2 Consensus size: 25
8592809 TAGCTCTTTC
* *
8592819 GAGCCATATAACGGGAAGCTCATGTA
1 GAGCCATATATCGGGAAGCTCAT-AA
*
8592845 -AGCCGTATATCGGGAAGCTCATAA
1 GAGCCATATATCGGGAAGCTCATAA
** * *
8592869 GAGCCGCA-ATCAGGTAGCTC-TAGA
1 GAGCCATATATCGGGAAGCTCATA-A
8592893 GAGCCAT-TAATCGGGAAGCTCATGAGA
1 GAGCCATAT-ATCGGGAAGCTCAT-A-A
* * * *
8592920 GAGCC-TTTAATCAGAAAGCTCGTAA
1 GAGCCATAT-ATCGGGAAGCTCATAA
* * * *
8592945 GAGCCATATGTTAGTG-TGCTCATAA
1 GAGCCATAT-ATCGGGAAGCTCATAA
* * * * *
8592970 GAGCTAAATAACGGGAAGCTCGTGA
1 GAGCCATATATCGGGAAGCTCATAA
* * *
8592995 GAACCAAATATCAGGAAGCTCA-AGA
1 GAGCCATATATCGGGAAGCTCATA-A
* * *
8593020 GAGCCA-ATATTGGGATGCTCATGA
1 GAGCCATATATCGGGAAGCTCATAA
8593044 GAGC
1 GAGC
8593048 TAATAATGGG
Statistics
Matches: 150, Mismatches: 42, Indels: 24
0.69 0.19 0.11
Matches are distributed among these distances:
23 2 0.01
24 36 0.24
25 85 0.57
26 6 0.04
27 21 0.14
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCATAA
Found at i:8592948 original size:52 final size:49
Alignment explanation
Indices: 8592853--8592951 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 49
8592843 TAAGCCGTAT
**
8592853 ATCGGGAAGCTCATAAGAGCCGCAATCAGGTAGCTCTAGAGAGCCATTA
1 ATCGGGAAGCTCATAAGAGCCGCAATCAGAAAGCTCTAGAGAGCCATTA
**
8592902 ATCGGGAAGCTCATGAGAGAGCCTTTAATCAGAAAGCTCGTA-AGAGCCAT
1 ATCGGGAAGCTCAT-A-AGAGCC-GCAATCAGAAAGCTC-TAGAGAGCCAT
8592952 ATGTTAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 14 0.33
50 1 0.02
51 6 0.14
52 19 0.45
53 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (49 bp):
ATCGGGAAGCTCATAAGAGCCGCAATCAGAAAGCTCTAGAGAGCCATTA
Found at i:8593039 original size:24 final size:24
Alignment explanation
Indices: 8593012--8593058 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8593002 ATATCAGGAA
*
8593012 GCTCAAGAGAGCCAATATTGGGAT
1 GCTCAAGAGAGCCAATAATGGGAT
* *
8593036 GCTCATGAGAGCTAATAATGGGA
1 GCTCAAGAGAGCCAATAATGGGA
8593059 CACTCTTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (24 bp):
GCTCAAGAGAGCCAATAATGGGAT
Found at i:8600926 original size:3 final size:3
Alignment explanation
Indices: 8600918--8600954 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8600908 GATGCAGAGC
8600918 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8600955 AGAAATGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8603689 original size:9 final size:9
Alignment explanation
Indices: 8603670--8603698 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8603660 AATAAGATAG
8603670 AAAAGAA-A
1 AAAAGAACA
8603678 AAAAGAACA
1 AAAAGAACA
8603687 AAAAGAACA
1 AAAAGAACA
8603696 AAA
1 AAA
8603699 TCAAAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGAACA
Found at i:8608289 original size:26 final size:26
Alignment explanation
Indices: 8608253--8608340 Score: 124
Period size: 26 Copynumber: 3.3 Consensus size: 26
8608243 TTACTCAAAT
8608253 AAATTTCTGACAATTTTACCCCCGATA
1 AAATTT-TGACAATTTTACCCCCGATA
* **
8608280 AAATTTTGACAAATTTA-CCCTTAGTA
1 AAATTTTGACAATTTTACCCCCGA-TA
8608306 AAATTTTGACAATTTTACCCCCGATA
1 AAATTTTGACAATTTTACCCCCGATA
8608332 AAATTTTGA
1 AAATTTTGA
8608341 GAAATTTCGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
25 4 0.08
26 39 0.74
27 10 0.19
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (26 bp):
AAATTTTGACAATTTTACCCCCGATA
Found at i:8613620 original size:16 final size:16
Alignment explanation
Indices: 8613583--8613622 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8613573 TAAATAAAAT
* *
8613583 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
8613599 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
8613615 TAAAATTA
1 TAAAATTA
8613623 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:8613655 original size:59 final size:65
Alignment explanation
Indices: 8613589--8613753 Score: 216
Period size: 68 Copynumber: 2.6 Consensus size: 65
8613579 AAATTAAAAC
*
8613589 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
*
8613648 TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATTG
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAATTG
8613713 TAT
63 TAT
*
8613716 TAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAA
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAAA
8613754 CAAACTTGAT
Statistics
Matches: 93, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
59 6 0.06
60 1 0.01
61 8 0.09
62 1 0.01
63 1 0.01
64 1 0.01
65 3 0.03
66 26 0.28
68 46 0.49
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (65 bp):
TAATTGTTAATAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTAT
Found at i:8613693 original size:66 final size:67
Alignment explanation
Indices: 8613611--8613753 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
8613601 AAATTAATTG
*
8613611 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
8613675 GA
66 GA
*
8613677 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
8613742 TGA
65 TGA
8613745 TTAGTAAAA
1 TTAGTAAAA
8613754 CAAACTTGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:8613707 original size:9 final size:9
Alignment explanation
Indices: 8613695--8613722 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8613685 TTTATCAAAT
8613695 TATTAATTG
1 TATTAATTG
8613704 TATTAATTG
1 TATTAATTG
8613713 TATTAATTG
1 TATTAATTG
8613722 T
1 T
8613723 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:8613858 original size:22 final size:23
Alignment explanation
Indices: 8613819--8613861 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8613809 AAATAAACTT
* *
8613819 AAAATAAAAACTATTATATTTTA
1 AAAATAAAAACAAATATATTTTA
8613842 AAAATAAAAA-AAATATATTT
1 AAAATAAAAACAAATATATTT
8613862 AATATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAAAAACAAATATATTTTA
Found at i:8621002 original size:286 final size:286
Alignment explanation
Indices: 8620489--8621065 Score: 1070
Period size: 286 Copynumber: 2.0 Consensus size: 286
8620479 TAATTCATAA
*
8620489 AAAAAGGGATTAAGAGTGTAAAAAGACCCTTAAACTTTTTCAAAAAAAGCAATTAAGCTCTTTTT
1 AAAAAGGGATTAAGAGTGTAAAAAGACCCTTAAACTTTTTCAAAAAAAGCAATTAAGCTCCTTTT
*
8620554 TTTTTCTTTTTTTTGCACTCACTTAGGTACTTTAACTTTTACAATACTGTAATACAAAGACACTT
66 TTTTTCTTTTTTTTGCACTCACTTAGGTACTTTAACTTTTACAATACTATAATACAAAGACACTT
8620619 AATTTTTTTAAAAAATCAATTAAGTCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACCAC
131 AATTTTTTTAAAAAATCAATTAAGTCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACCAC
* *
8620684 CCCTAATTTTTTTAGTTAAAACCACCACGTGTAACAACCACAACGTGACATGTGACAAAAAATAA
196 CCCTAATTTTTTCAGTTAAAACCACCACGTGTAACAACCACAACGTGACACGTGACAAAAAATAA
8620749 TAAAAATAAAAATTAATAAAAGTTAAT
261 TAAAAATAAAAATTAATAAAAGTT-AT
8620776 AAAAAGGGATTAAGAGTGTAAAAAGACCCTTAAACTTTTTCAAAAAAAGCAATTAAGCTCCTTTT
1 AAAAAGGGATTAAGAGTGTAAAAAGACCCTTAAACTTTTTCAAAAAAAGCAATTAAGCTCCTTTT
8620841 TTTTTC-TTTTTTTGCACTCACTTAGGTACTTTAACTTTTACAATACTATAATACAAAGACACTT
66 TTTTTCTTTTTTTTGCACTCACTTAGGTACTTTAACTTTTACAATACTATAATACAAAGACACTT
8620905 AAAATTTTTTT-AAAAATCAATTAAGTCCCTAC-TTTTTTTTGCACTCAATTGGGTACTTGAACC
131 --AATTTTTTTAAAAAATCAATTAAGTCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACC
8620968 ACCCCTAATTTTTTCAGTTAAAACCACCACGTGTAACAACCACAACGTGACACGTGACAAAAAAT
194 ACCCCTAATTTTTTCAGTTAAAACCACCACGTGTAACAACCACAACGTGACACGTGACAAAAAAT
8621033 AATAAAAATAAAAATTAATAAAAGTTAT
259 AATAAAAATAAAAATTAATAAAAGTTAT
8621061 AAAAA
1 AAAAA
8621066 TAATTAAATT
Statistics
Matches: 284, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
285 7 0.02
286 177 0.62
287 91 0.32
288 9 0.03
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (286 bp):
AAAAAGGGATTAAGAGTGTAAAAAGACCCTTAAACTTTTTCAAAAAAAGCAATTAAGCTCCTTTT
TTTTTCTTTTTTTTGCACTCACTTAGGTACTTTAACTTTTACAATACTATAATACAAAGACACTT
AATTTTTTTAAAAAATCAATTAAGTCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAACCAC
CCCTAATTTTTTCAGTTAAAACCACCACGTGTAACAACCACAACGTGACACGTGACAAAAAATAA
TAAAAATAAAAATTAATAAAAGTTAT
Found at i:8621041 original size:9 final size:9
Alignment explanation
Indices: 8621027--8621114 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
8621017 ACACGTGACA
8621027 AAAAATAAT
1 AAAAATAAT
8621036 AAAAAT-A-
1 AAAAATAAT
*
8621043 AAAATTAAT
1 AAAAATAAT
* *
8621052 AAAAGTTAT
1 AAAAATAAT
8621061 AAAAATAATT
1 AAAAATAA-T
**
8621071 AAATTTTAAT
1 AAA-AATAAT
*
8621081 AAAAATATT
1 AAAAATAAT
8621090 AAAAATTAGA-
1 AAAAA-TA-AT
*
8621100 AAAAATTAT
1 AAAAATAAT
8621109 AAAAAT
1 AAAAAT
8621115 CGTAAATTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
7 5 0.08
8 3 0.05
9 34 0.57
10 15 0.25
11 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATAAT
Found at i:8621052 original size:10 final size:10
Alignment explanation
Indices: 8621039--8621114 Score: 63
Period size: 10 Copynumber: 7.9 Consensus size: 10
8621029 AAATAATAAA
8621039 AATAAAAATT
1 AATAAAAATT
*
8621049 AATAAAAGTT
1 AATAAAAATT
8621059 -ATAAAAA-T
1 AATAAAAATT
**
8621067 AATTAAATTTT
1 AA-TAAAAATT
8621078 AATAAAAA-T
1 AATAAAAATT
*
8621087 ATTAAAAATT
1 AATAAAAATT
8621097 AGA-AAAAATT
1 A-ATAAAAATT
8621107 -ATAAAAAT
1 AATAAAAAT
8621115 CGTAAATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
8 2 0.04
9 21 0.40
10 26 0.50
11 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AATAAAAATT
Found at i:8621073 original size:19 final size:19
Alignment explanation
Indices: 8621027--8621103 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
8621017 ACACGTGACA
8621027 AAAAATAA-TAAAAA-TA-
1 AAAAATAATTAAAAATTAT
* *
8621043 AAAATTAA-TAAAAGTTAT
1 AAAAATAATTAAAAATTAT
**
8621061 AAAAATAATTAAATTTTAAT
1 AAAAATAATTAAAAATT-AT
*
8621081 AAAAAT-ATTAAAAATTAG
1 AAAAATAATTAAAAATTAT
8621099 AAAAA
1 AAAAA
8621104 ATTATAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
16 12 0.24
17 2 0.04
18 13 0.27
19 14 0.29
20 8 0.16
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAATAATTAAAAATTAT
Found at i:8621092 original size:29 final size:25
Alignment explanation
Indices: 8621027--8621095 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 25
8621017 ACACGTGACA
*
8621027 AAAAATAATAAAAATAAAAATTAAT
1 AAAAATATTAAAAATAAAAATTAAT
*
8621052 AAAAGT-TATAAAAATAATTAAATTTTAAT
1 AAAAATAT-TAAAAATAA--AAA--TTAAT
8621081 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
8621096 TAGAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
25 14 0.40
27 3 0.09
29 17 0.49
30 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (25 bp):
AAAAATATTAAAAATAAAAATTAAT
Found at i:8621482 original size:10 final size:10
Alignment explanation
Indices: 8621423--8621540 Score: 68
Period size: 10 Copynumber: 12.1 Consensus size: 10
8621413 TTTTGATGGA
8621423 TTTATAA-TT
1 TTTATAATTT
**
8621432 TTTATAAAAT
1 TTTATAATTT
* *
8621442 TTTACAATAT
1 TTTATAATTT
*
8621452 TTTATAAAATT
1 TTTAT-AATTT
*
8621463 TTTCT-A-TT
1 TTTATAATTT
8621471 TTTATAATTT
1 TTTATAATTT
*
8621481 TTAATAATTT
1 TTTATAATTT
8621491 TTTATAA-TT
1 TTTATAATTT
*
8621500 TTTA-ATTTT
1 TTTATAATTT
**
8621509 TTTATTAAAAT
1 TTTA-TAATTT
*
8621520 TTAATAA-TT
1 TTTATAATTT
8621529 TTTATAAATTT
1 TTTAT-AATTT
8621540 T
1 T
8621541 ATTGATTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
8 7 0.08
9 26 0.31
10 35 0.42
11 15 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATAATTT
Found at i:8621540 original size:29 final size:29
Alignment explanation
Indices: 8621468--8621543 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
8621458 AAATTTTTCT
* ** *
8621468 ATTTTTATAATTTTTAATAATTTTTTATA
1 ATTTTTATAATTTTTATTAAAATTTAATA
*
8621497 ATTTTTA-ATTTTTTTATTAAAATTTAATA
1 ATTTTTATA-ATTTTTATTAAAATTTAATA
*
8621526 ATTTTTATAAATTTTATT
1 ATTTTTATAATTTTTATT
8621544 GATTTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTATAATTTTTATTAAAATTTAATA
Found at i:8621550 original size:20 final size:19
Alignment explanation
Indices: 8621430--8621551 Score: 97
Period size: 20 Copynumber: 6.3 Consensus size: 19
8621420 GGATTTATAA
8621430 TTTTTATAAAATTTTACA-AT
1 TTTTTAT-AAATTTTA-ATAT
* **
8621450 ATTTTATAAAATTTTTCTA-
1 TTTTTAT-AAATTTTAATAT
*
8621469 TTTTTATAATTTTTAATAAT
1 TTTTTATAAATTTTAAT-AT
*
8621489 TTTTTATAATTTTTAAT-T
1 TTTTTATAAATTTTAATAT
* *
8621507 TTTTTATTAAAATTTAATAA
1 TTTTTA-TAAATTTTAATAT
*
8621527 TTTTTATAAATTTTATTGAT
1 TTTTTATAAATTTTAAT-AT
8621547 TTTTT
1 TTTTT
8621552 TTTTAAAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
18 14 0.17
19 25 0.30
20 44 0.53
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTTATAAATTTTAATAT
Found at i:8621550 original size:39 final size:37
Alignment explanation
Indices: 8621423--8621550 Score: 125
Period size: 39 Copynumber: 3.3 Consensus size: 37
8621413 TTTTGATGGA
* * *
8621423 TTTATAATTTTTATAAAATTTTACAATATTTTATAAAAT
1 TTTATTATTTTTATAAAATTTAATAAT-TTTTAT-AAAT
** *
8621462 TTT-TCTATTTTTATAATTTTTAATAATTTTTTATAATT
1 TTTAT-TATTTTTATAAAATTTAATAA-TTTTTATAAAT
8621500 TTTAATT-TTTTTATTAAAATTTAATAATTTTTATAAAT
1 TTT-ATTATTTTTA-TAAAATTTAATAATTTTTATAAAT
8621538 TTTATTGATTTTT
1 TTTATT-ATTTTT
8621551 TTTTTAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
37 3 0.04
38 26 0.36
39 42 0.58
40 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTATTATTTTTATAAAATTTAATAATTTTTATAAAT
Found at i:8621889 original size:90 final size:90
Alignment explanation
Indices: 8621723--8621889 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
8621713 ATCAGGGACT
* * *
8621723 TAATTGCTTTTCTTTAAAAAAGTTTGAGGGTTTTTTTAATGCATTTAAAAGTTCAAATACCTAAT
1 TAATTGCTTTTCTTTAAAAAAGTTTGAAGGTCTTTTTAATACATTTAAAAGTTCAAATACCTAAT
** *
8621788 TGCGTGCAAAAAAAAAACAATAGTC
66 TAAGTGAAAAAAAAAAACAATAGTC
* * * * * * *
8621813 TAATTGCTTTT-TTTGAAAAAGTTTGAAGGTCTTTTTGATATATTTTAAAAGTTTAAGTATCTTA
1 TAATTGCTTTTCTTTAAAAAAGTTTGAAGGTCTTTTTAATACA-TTTAAAAGTTCAAATACCTAA
8621877 TTAAGTGAAAAAA
65 TTAAGTGAAAAAA
8621890 GAAGCAGGGG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
89 25 0.40
90 38 0.60
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (90 bp):
TAATTGCTTTTCTTTAAAAAAGTTTGAAGGTCTTTTTAATACATTTAAAAGTTCAAATACCTAAT
TAAGTGAAAAAAAAAAACAATAGTC
Found at i:8628342 original size:24 final size:24
Alignment explanation
Indices: 8628304--8628357 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8628294 TATTCTGTTA
* *
8628304 GCCTTTGTGGCGTATTCTAATTTG
1 GCCTTTATGGCGTATTCTAATTGG
*
8628328 GCCTTTATGGTGTATTCTAATTGG
1 GCCTTTATGGCGTATTCTAATTGG
8628352 GCCTTT
1 GCCTTT
8628358 GTAGCATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (24 bp):
GCCTTTATGGCGTATTCTAATTGG
Found at i:8635254 original size:24 final size:24
Alignment explanation
Indices: 8635226--8635275 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
8635216 ACTAGCATAG
* *
8635226 TATTT-TTTATTTTATCTTTTATTT
1 TATTTATTTA-TTTATCTATCATTT
8635250 TATTTATTTATTTATCTATCATTT
1 TATTTATTTATTTATCTATCATTT
8635274 TA
1 TA
8635276 ATATCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTATTTATTTATCTATCATTT
Found at i:8645488 original size:225 final size:226
Alignment explanation
Indices: 8645054--8645504 Score: 762
Period size: 225 Copynumber: 2.0 Consensus size: 226
8645044 GATGTGTAGA
* * * *
8645054 TGTAAACTGAAAAATATATAAGATTTTTCCTATATAATTCATTACCTTTTTACTTAAATTTGTTG
1 TGTAAACGGAAAAATATATAAGATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTTG
*
8645119 TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGAAAAAAATATGAAATTAGGACATAGA
66 TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGAAAAAAATATGAAATTAAGACATAGA
*
8645184 AATTATTAAAATGTGATTTTATACCTTATTATATAGTTTTCATGCATAAAATGGCTTATTTTATA
131 AATTATTAAAATGTGATTTTATACCTTATTATATAGTTTTCATGCATAAAATGGCTTATTTAATA
*
8645249 TTAATTTGAGCATATTATATTTTTAAGCTAT
196 TTAATTTAAGCATATTATATTTTTAAGCTAT
*
8645280 TGTAAACGGAAAAATATA-AAGGATTTTTCTTATATAATTAATCACCTTTTTACTTAAAATTGTT
1 TGTAAACGGAAAAATATATAA-GATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTT
**
8645344 GTTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATG-TGAAAATATGAAATTAAGACATAG
65 GTTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGAAAAAAATATGAAATTAAGACATAG
***
8645408 AAATTATTAAAATGTGATTTTATGTTTTATTATATAGTTTTCATGCATAAAATGGCTTATTTAAT
130 AAATTATTAAAATGTGATTTTATACCTTATTATATAGTTTTCATGCATAAAATGGCTTATTTAAT
8645473 ATTAATTTAAGCATATTATATTTTTAAGCTAT
195 ATTAATTTAAGCATATTATATTTTTAAGCTAT
8645505 GAAGTGGGCC
Statistics
Matches: 211, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
225 115 0.55
226 96 0.45
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (226 bp):
TGTAAACGGAAAAATATATAAGATTTTTCCTATATAATTAATCACCTTTTTACTTAAAATTGTTG
TTAAAACCAAGTAATTGTTTAATAAATTAATGAAATATGAAAAAAATATGAAATTAAGACATAGA
AATTATTAAAATGTGATTTTATACCTTATTATATAGTTTTCATGCATAAAATGGCTTATTTAATA
TTAATTTAAGCATATTATATTTTTAAGCTAT
Found at i:8656925 original size:7 final size:7
Alignment explanation
Indices: 8656915--8656943 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8656905 AATTTTTCAA
8656915 TCATCCC
1 TCATCCC
8656922 TCATCCC
1 TCATCCC
8656929 TCATCCC
1 TCATCCC
8656936 TCATCCC
1 TCATCCC
8656943 T
1 T
8656944 TTCATCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.55, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:8672662 original size:132 final size:132
Alignment explanation
Indices: 8672329--8672663 Score: 544
Period size: 132 Copynumber: 2.5 Consensus size: 132
8672319 TATCGGCTTT
* * *
8672329 AATCTGCTCCCCACTATATTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * *
8672394 GGGAAATAAGATCTACACTCTTCAACCTTCTCCTCTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
*
8672459 TA
131 CA
* *
8672461 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
8672526 GGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
8672591 CA
131 CA
* **
8672593 AATCTGCTTCCCACTATCTTGGAAAGATTAGATTCGCCGTCTTCGATCTGCTTTACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
8672658 GGGAGA
66 GGGAGA
8672664 CAAGGCTTGG
Statistics
Matches: 187, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 187 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
CA
Found at i:8672665 original size:88 final size:88
Alignment explanation
Indices: 8672555--8672751 Score: 331
Period size: 88 Copynumber: 2.2 Consensus size: 88
8672545 CTTCAACCTT
*
8672555 CTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
1 CTCCACTACTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
* *
8672620 TTAGATTCGCCGTCTTCGATCTG
66 TAAGATTCGCCGTCTTCGATCTA
** * *
8672643 CTTTACTACTGCTTAGGGAGACAAGGCTTGGTGGCTCAAATCTGTTTCCCACTATCTTGGAAAGA
1 CTCCACTACTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
8672708 TAAGATTCGCCGTCTTCGATCTA
66 TAAGATTCGCCGTCTTCGATCTA
8672731 CTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTCAGGGAGA
8672752 TAAGATCTAC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 99 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (88 bp):
CTCCACTACTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
TAAGATTCGCCGTCTTCGATCTA
Found at i:8672699 original size:220 final size:220
Alignment explanation
Indices: 8672437--8672883 Score: 768
Period size: 220 Copynumber: 2.0 Consensus size: 220
8672427 TCTGCTGCCC
*
8672437 AGGGAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
1 AGGGAGACAAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
* * *
8672502 TTCAATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGC
66 TTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGC
* *
8672567 TCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATTAGATTCGCCG
131 TCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAG
* **
8672632 TCTTCGATCTGCTTTACTACTGCTT
196 TCTTCGATCTACTCCACTACTGCTT
* *
8672657 AGGGAGACAAGGCTTGGTGGCTCAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
1 AGGGAGACAAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
* *
8672722 TTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACTTTCTCCACTGCTGC
66 TTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGC
8672787 TCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAG
131 TCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAG
*
8672852 TCTTTGATCTACTCCACTACTGCTT
196 TCTTCGATCTACTCCACTACTGCTT
8672877 AGGGAGA
1 AGGGAGA
8672884 TAAGATCTAC
Statistics
Matches: 213, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
220 213 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (220 bp):
AGGGAGACAAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTC
TTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGC
TCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAG
TCTTCGATCTACTCCACTACTGCTT
Found at i:8672869 original size:132 final size:132
Alignment explanation
Indices: 8672651--8673286 Score: 1065
Period size: 132 Copynumber: 4.8 Consensus size: 132
8672641 TGCTTTACTA
* *
8672651 CTGCTTAGGGAGACAAGGCTTGGTGGCTCAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* *
8672716 GCCGTCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACTTTCTCCAC
66 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
8672781 TG
131 TG
8672783 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * *
8672848 GCAGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACTTTCTCCAC
66 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
8672913 TG
131 TG
*
8672915 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGGAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * * *
8672980 GCCGTCTTCGATCTACTCTAATACTGTTTAGGGAGATAAGATCTACAATCTTCAACCTTCTTCAC
66 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
*
8673045 TA
131 TG
* *
8673047 CTGTTCAGGGAGACAAAGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
8673112 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
66 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
*
8673177 GG
131 TG
* * *
8673179 CTGCTCAGTGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * * *
8673244 GCCTTCTCCAATCTGCTCCACTACTGCTTAGGGAGATAAGATC
66 GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
8673287 ACTGGTTACC
Statistics
Matches: 472, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 472 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
CTGCTCAGGGAGACAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
GCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
TG
Found at i:8672982 original size:352 final size:352
Alignment explanation
Indices: 8672329--8673015 Score: 1149
Period size: 352 Copynumber: 2.0 Consensus size: 352
8672319 TATCGGCTTT
* *
8672329 AATCTGCTCCCCACTATATTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTCCCCACTATATTGGAAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTCA
* *
8672394 GGGAAATAAGATCTACACTCTTCAACCTTCTCCTCTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
66 GGGAAATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
* * * *
8672459 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCAATCTGCTCCGCTACTGCT
131 CAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCT
8672524 TAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
196 TAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
* * * *
8672589 CTCAAATCTGCTTCCCACTATCTTGGAAAGATTAGATTCGCCGTCTTCGATCTGCTTTACTACTG
261 CTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCTAATACTG
8672654 CTTAGGGAGACAAGGCTTGGTGGCTCA
326 CTTAGGGAGACAAGGCTTGGTGGCTCA
* * * *
8672681 AATCTGTTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTCA
1 AATCTGCTCCCCACTATATTGGAAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTCA
* * * *
8672746 GGGAGATAAGATCTACAATCTTCAACTTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAAATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
**
8672811 CAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAGTCTTTGATCTACTCCACTACTGCT
131 CAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCT
*
8672876 TAGGGAGATAAGATCTACAATCTTCAACTTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
196 TAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
*
8672941 CTCAAATCTGCTTCCCACTATCTTGGGAAGATAAGATTCGCCGTCTTCGATCTACTCTAATACTG
261 CTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCTAATACTG
*
8673006 TTTAGGGAGA
326 CTTAGGGAGA
8673016 TAAGATCTAC
Statistics
Matches: 310, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
352 310 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (352 bp):
AATCTGCTCCCCACTATATTGGAAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTCA
GGGAAATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCCCAGGGAGACAAAGCTTGGTGGCT
CAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCT
TAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGG
CTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCTAATACTG
CTTAGGGAGACAAGGCTTGGTGGCTCA
Found at i:8673150 original size:44 final size:44
Alignment explanation
Indices: 8672705--8673153 Score: 139
Period size: 44 Copynumber: 10.2 Consensus size: 44
8672695 TATCTTGGAA
* * *
8672705 AGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTCAGGG
1 AGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
8672749 AGATAAGA-TCTACAATCTTCAA-CTTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATC-TACTCCACTACTGCTTAGGG
* * ** * * *
8672793 AGACAAGGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGTCTTC-AATCTAC-T-CCACTACTGCTTAGG-G
**
8672837 AGATAAGATTCGCAGTCTTTGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
8672881 AGATAAGA-TCTACAATCTTCAA-CTTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATC-TACTCCACTACTGCTTAGGG
* * ** * *
8672925 AGACAAGGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGG
1 AGATAA-GATTCGCAGTCTTC-AATCTAC-T-CCACTACTGCTTAGGG
* * * * *
8672968 AAGATAAGATTCGCCGTCTTCGATCTACTCTAATACTGTTTAGGG
1 -AGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
8673013 AGATAAGA-TCTACAATCTTCAACCTTCTTCACTACTG-TTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTACTCCACTACTGCTT-AGGG
* * ** * * *
8673057 AGACAAAGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGA-TAAGATTCGCAGTCTTC-AATCTAC-T-CCACTACTGCTTAGG-G
* *
8673101 AGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
8673145 AGATAAGAT
1 AGATAAGAT
8673154 CTACAATCTT
Statistics
Matches: 282, Mismatches: 81, Indels: 84
0.63 0.18 0.19
Matches are distributed among these distances:
42 16 0.06
43 40 0.14
44 181 0.64
45 27 0.10
46 18 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:8674428 original size:29 final size:29
Alignment explanation
Indices: 8674395--8674456 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
8674385 CTCCTTTTTT
8674395 TTTTTGGAAATCCGAGCGCCCTTTGCGGG
1 TTTTTGGAAATCCGAGCGCCCTTTGCGGG
8674424 TTTTTGGAAATCCGAGCGCCCTTTGCGGG
1 TTTTTGGAAATCCGAGCGCCCTTTGCGGG
8674453 TTTT
1 TTTT
8674457 CACTTTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.29, T:0.35
Consensus pattern (29 bp):
TTTTTGGAAATCCGAGCGCCCTTTGCGGG
Found at i:8686050 original size:58 final size:58
Alignment explanation
Indices: 8685958--8686075 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
8685948 TTCGTCCGGC
8685958 CAAAGGTCCGGTCATCGGCCACCGCGCCGACCGCCGATATCTGGCACCGGCGCCACCG
1 CAAAGGTCCGGTCATCGGCCACCGCGCCGACCGCCGATATCTGGCACCGGCGCCACCG
*
8686016 CAAAGGTCCGGTCATCGGCCACCGCGCCGGCCGCCGATATCTGGCACCGGCGCCACCG
1 CAAAGGTCCGGTCATCGGCCACCGCGCCGACCGCCGATATCTGGCACCGGCGCCACCG
8686074 CA
1 CA
8686076 TGCGGTGGCC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.17, C:0.43, G:0.30, T:0.10
Consensus pattern (58 bp):
CAAAGGTCCGGTCATCGGCCACCGCGCCGACCGCCGATATCTGGCACCGGCGCCACCG
Found at i:8687578 original size:7 final size:7
Alignment explanation
Indices: 8687566--8687590 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8687556 CAATTAAAAC
8687566 AATTAAT
1 AATTAAT
8687573 AATTAAT
1 AATTAAT
8687580 AATTAAT
1 AATTAAT
8687587 AATT
1 AATT
8687591 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:8694246 original size:5 final size:5
Alignment explanation
Indices: 8694236--8694293 Score: 107
Period size: 5 Copynumber: 11.6 Consensus size: 5
8694226 CCTGCCAAGT
*
8694236 ATATA ATATA ACATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
8694286 ATATA ATA
1 ATATA ATA
8694294 CCCAATTAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:8695543 original size:2 final size:2
Alignment explanation
Indices: 8695536--8695561 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8695526 ATAACTCAAT
8695536 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8695562 AAAGCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8696536 original size:29 final size:31
Alignment explanation
Indices: 8696503--8696570 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
8696493 GGTTGCTCAC
8696503 ATAAGGGCCAAATCTTT-CA-AAATGATCAA
1 ATAAGGGCCAAATCTTTACAGAAATGATCAA
* * * * *
8696532 ATAAGGGACTAATTTTTACAGAAGTGCTCAA
1 ATAAGGGCCAAATCTTTACAGAAATGATCAA
8696563 ATAAGGGC
1 ATAAGGGC
8696571 TTTTCACGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 14 0.45
30 2 0.06
31 15 0.48
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (31 bp):
ATAAGGGCCAAATCTTTACAGAAATGATCAA
Found at i:8698810 original size:6 final size:6
Alignment explanation
Indices: 8698799--8698828 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8698789 GAGCATCTAT
8698799 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG
8698829 AATGCTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:8701395 original size:13 final size:14
Alignment explanation
Indices: 8701369--8701402 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
8701359 CAACAGATTG
8701369 TTTTTTAATCTCAAA
1 TTTTTTAA-CTCAAA
8701384 TTTTTTAA-TCAAA
1 TTTTTTAACTCAAA
8701397 TTTTTT
1 TTTTTT
8701403 CAACCTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTAACTCAAA
Found at i:8703902 original size:20 final size:21
Alignment explanation
Indices: 8703858--8703908 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
8703848 TGTCAATCCT
* *
8703858 ATGAATAGTGGGGTCAAGTTC
1 ATGAATAGTGGAGTCAAGATC
*
8703879 ATGAACAGTGGAGTCAA-ATC
1 ATGAATAGTGGAGTCAAGATC
8703899 ATGAATAGTG
1 ATGAATAGTG
8703909 ATAGTATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.25
Consensus pattern (21 bp):
ATGAATAGTGGAGTCAAGATC
Found at i:8705771 original size:3 final size:3
Alignment explanation
Indices: 8705763--8705811 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8705753 TTAAGTACCT
8705763 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8705811 T
1 T
8705812 AATGCAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8710267 original size:103 final size:103
Alignment explanation
Indices: 8710152--8710353 Score: 289
Period size: 103 Copynumber: 2.0 Consensus size: 103
8710142 TAATGAATTT
* *
8710152 AATATTAAATTAAATTTAAA-ATTTATCTAGATACTAATATGAGATATTTAATTTAATTTAATAC
1 AATATTAAATTAAA-TTAAATATTTATCTAGATACTAATATGAGATATTAAATTAAATTTAATAC
* * *
8710216 TTATTTAGATAGTGCTTTATTAATTTAATATTAATATCA
65 TTATCTAGATAATACTTTATTAATTTAATATTAATATCA
* * * *
8710255 AATATTACATTAAATTAAATATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAATATT
1 AATATTAAATTAAATTAAATATTTATCTAGATACTAATATGAGATATTAAATTAAATTTAATACT
* *
8710320 TATCTAGATAATATTTTGTTAATTTAATATTAAT
66 TATCTAGATAATACTTTATTAATTTAATATTAAT
8710354 GTGATTAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 5 0.06
103 82 0.94
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (103 bp):
AATATTAAATTAAATTAAATATTTATCTAGATACTAATATGAGATATTAAATTAAATTTAATACT
TATCTAGATAATACTTTATTAATTTAATATTAATATCA
Found at i:8710289 original size:42 final size:42
Alignment explanation
Indices: 8710233--8710329 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
8710223 GATAGTGCTT
* *
8710233 TATTAATTTA-ATATTAATATCAAATATTACATTAAATTAAA
1 TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
* * *
8710274 TATTTATTTAGATATTAATATGAGATATTAAATTAAATTTAA
1 TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
*
8710316 TATTTATCTAGATA
1 TATTTATTTAGATA
8710330 ATATTTTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 9 0.18
42 40 0.82
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (42 bp):
TATTTATTTAGATATTAATATCAAATATTAAATTAAATTAAA
Found at i:8713572 original size:3 final size:3
Alignment explanation
Indices: 8713564--8713589 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8713554 TTGCTAGGAA
8713564 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
8713590 AAATAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8716021 original size:24 final size:25
Alignment explanation
Indices: 8715989--8716049 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 25
8715979 ACAATTGCAA
* *
8715989 TTCAGATACATAATCAGATG-TAAT
1 TTCATATACATAATCAGATGCAAAT
8716013 TTCATATACATAATCAGATGCAAAT
1 TTCATATACATAATCAGATGCAAAT
8716038 TTCATATACATA
1 TTCATATACATA
8716050 TTCATATCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (25 bp):
TTCATATACATAATCAGATGCAAAT
Found at i:8717770 original size:14 final size:14
Alignment explanation
Indices: 8717751--8717780 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8717741 CAATGATTCC
8717751 ACCACATAACCTTA
1 ACCACATAACCTTA
8717765 ACCACATAACCTTA
1 ACCACATAACCTTA
8717779 AC
1 AC
8717781 TAACAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCACATAACCTTA
Found at i:8726678 original size:60 final size:56
Alignment explanation
Indices: 8726613--8726771 Score: 164
Period size: 60 Copynumber: 2.8 Consensus size: 56
8726603 TTGTTTTTAA
* *
8726613 ATTTTAATAAGATTATTATTAAATATAATTTAATAAAAAAATAATAAATAATTTAATCAT
1 ATTTTAATAA-ATTATTATTAAATATAATTTAAT---AAAATAATAAATAATTTAATAAC
** *
8726673 ATTTTACCACAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATA-AATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAAC
*
8726730 ATTCTTAAT--ATTATTATTAAAATATGAA-TTAA-AAAATCATAA
1 ATT-TTAATAAATTATTATT-AAATAT-AATTTAATAAAATAATAA
8726772 TATATAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
55 17 0.20
56 10 0.12
57 25 0.29
58 3 0.03
60 30 0.35
61 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (56 bp):
ATTTTAATAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAAC
Found at i:8731875 original size:13 final size:13
Alignment explanation
Indices: 8731857--8731887 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8731847 CTTAAGTGTA
8731857 GTATATTCATTTT
1 GTATATTCATTTT
*
8731870 GTATATTCGTTTT
1 GTATATTCATTTT
8731883 GTATA
1 GTATA
8731888 CTTGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (13 bp):
GTATATTCATTTT
Found at i:8736222 original size:12 final size:12
Alignment explanation
Indices: 8736205--8736233 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8736195 AGATAGTGAC
8736205 ACGTGGCACGCT
1 ACGTGGCACGCT
8736217 ACGTGGCACGCT
1 ACGTGGCACGCT
8736229 ACGTG
1 ACGTG
8736234 TACTTCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (12 bp):
ACGTGGCACGCT
Found at i:8743996 original size:41 final size:41
Alignment explanation
Indices: 8743951--8744098 Score: 269
Period size: 41 Copynumber: 3.6 Consensus size: 41
8743941 ACTGGCACTT
*
8743951 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
8743992 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
8744033 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGACGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
8744074 AGCCTGCTAGACTTAAAGTCTGAAA
1 AGCCTGCTAGACTTAAAGTCTGAAA
8744099 CATATCACTG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:8744122 original size:41 final size:41
Alignment explanation
Indices: 8743951--8744122 Score: 247
Period size: 41 Copynumber: 4.2 Consensus size: 41
8743941 ACTGGCACTT
* *
8743951 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
8743992 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
8744033 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGACGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC-ATCA
** * *
8744074 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
*
8744115 AGACTGCT
1 AGCCTGCT
8744123 GGGCACCGAG
Statistics
Matches: 120, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 119 0.99
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:8745778 original size:28 final size:26
Alignment explanation
Indices: 8745746--8745797 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
8745736 TTTTTAATGT
8745746 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
8745774 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
8745798 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:8749303 original size:23 final size:23
Alignment explanation
Indices: 8749276--8749322 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8749266 AAAAATGAAG
8749276 TTTTA-GTTAAAATTACTATTATA
1 TTTTAGGTTAAAATTAC-ATTATA
* *
8749299 TTTTAGGTTGAAATTTCATTATA
1 TTTTAGGTTAAAATTACATTATA
8749322 T
1 T
8749323 ATATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
TTTTAGGTTAAAATTACATTATA
Found at i:8750634 original size:28 final size:28
Alignment explanation
Indices: 8750603--8750659 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
8750593 TGTTTGTTTT
8750603 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
8750631 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
8750659 T
1 T
8750660 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:8750870 original size:14 final size:15
Alignment explanation
Indices: 8750851--8750879 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8750841 TCACGGAACT
8750851 TTCACACAT-ATAAA
1 TTCACACATAATAAA
8750865 TTCACACATAATAAA
1 TTCACACATAATAAA
8750880 AACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:8757069 original size:42 final size:42
Alignment explanation
Indices: 8757012--8757113 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
8757002 CAATGCCAAC
* * *
8757012 GTCCCAGAC-GTGGTCTTACATGTAAT-CAATATCGATGCC-ATT
1 GTCCCAGACAG-GGTCTTACACGAAATAAAATAT-GATGCCGA-T
8757054 GTCCCAGACAGGGTCTTACACGAAATAAAATATGATGCCGAT
1 GTCCCAGACAGGGTCTTACACGAAATAAAATATGATGCCGAT
* *
8757096 GTCCCAAACATGGTCTTA
1 GTCCCAGACAGGGTCTTA
8757114 TACATAAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 45 0.87
43 7 0.13
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATAAAATATGATGCCGAT
Found at i:8758073 original size:28 final size:28
Alignment explanation
Indices: 8758042--8758096 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8758032 TGTTTGTTTT
8758042 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
8758070 TTTATTATTATAACCTTTATAATTATT
1 TTTATTATAATAACCTTTATAATTATT
8758097 TCAATGGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:8758265 original size:14 final size:15
Alignment explanation
Indices: 8758246--8758274 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8758236 TCACGAAACT
8758246 TTCACACAT-ATAAA
1 TTCACACATAATAAA
8758260 TTCACACATAATAAA
1 TTCACACATAATAAA
8758275 AACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:8759465 original size:7 final size:7
Alignment explanation
Indices: 8759453--8759478 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8759443 TTGAGGTAGA
8759453 TGGGAGG
1 TGGGAGG
8759460 TGGGAGG
1 TGGGAGG
8759467 TGGGAGG
1 TGGGAGG
8759474 TGGGA
1 TGGGA
8759479 TGGGAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:8759673 original size:31 final size:31
Alignment explanation
Indices: 8759638--8759696 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
8759628 TTGGGGGGTT
8759638 GAAAG-GGGAGAGGAGTAAAAGTTTTGAGGGG
1 GAAAGTGGGA-AGGAGTAAAAGTTTTGAGGGG
8759669 GAAAGTGGGAAGGAGTAAAAGTTTTGAG
1 GAAAGTGGGAAGGAGTAAAAGTTTTGAG
8759697 AGAAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (31 bp):
GAAAGTGGGAAGGAGTAAAAGTTTTGAGGGG
Found at i:8766568 original size:44 final size:44
Alignment explanation
Indices: 8766507--8766593 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
8766497 GTTGAAATAA
* * *
8766507 AATAGAAATTGTAATAATTATACATTTAAAAGTAATTATAATTT
1 AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATTT
* * *
8766551 AATAGAAGTTGTGATAATTGCACATTTAAAAATAATTAGAATT
1 AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATT
8766594 AAAATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (44 bp):
AATAGAAATTGTAATAATTACACATTTAAAAATAATTAGAATTT
Found at i:8771133 original size:22 final size:22
Alignment explanation
Indices: 8771107--8771148 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8771097 AAATTTAAGT
8771107 GAGAAATTCAAGAGAGATTTGA
1 GAGAAATTCAAGAGAGATTTGA
*
8771129 GAGAAATTCGAGAGAGATTT
1 GAGAAATTCAAGAGAGATTT
8771149 AAAAATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (22 bp):
GAGAAATTCAAGAGAGATTTGA
Found at i:8778900 original size:15 final size:15
Alignment explanation
Indices: 8778880--8778908 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8778870 CAACAAAGGT
8778880 AGTACAACAGAACAA
1 AGTACAACAGAACAA
8778895 AGTACAACAGAACA
1 AGTACAACAGAACA
8778909 GAGCAGAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.21, G:0.14, T:0.07
Consensus pattern (15 bp):
AGTACAACAGAACAA
Found at i:8781210 original size:618 final size:617
Alignment explanation
Indices: 8780019--8781429 Score: 2364
Period size: 618 Copynumber: 2.3 Consensus size: 617
8780009 CACGCTCATG
*
8780019 TTCTTCACTGGTTGTTGAACTTATCATCGATAACCTTTAAAATCTCATTAAAGATCGGTAAGTAT
1 TTCTTCACTGGTTGTTGAATTTATCATCGATAACCTTTAAAATCTCATTAAAGATCGGTAAGTAT
*
8780084 TCTCATTTCCAATTAGAACCCATAAATTCCGTAATA-TTCGTTCTTGTTAATCTTTCAACTCGAA
66 TCTCATTTCCAATTAGAACCCATAAATTCTGTAATAGTT-GTTCTTGTTAATCTTTCAACTCGAA
* *
8780148 TACGAATCTTTTACGAAATTTCCCAAAGATCTTGAAAATTTTGATAGTTCTATTCACTTTTTTCC
130 TACGAATCTTTTACGAAA-TTCCCAAAAATCTTGATAATTTTGATAGTTCTATTCACTTTTTTCC
* * *
8780213 CATTCTTTTCTTTAAATTTTTAGCAAACTAGAGTGAAAGTCACCTAAAAATAAGTTTAAAATAGA
194 CATTCTTTGCTTTAAATTTTTAGCAAACTAGAATGAAAGTCACCTAAAAACAAGTTTAAAATAGA
8780278 GTAGAAAATTAATAAAAGTGAGCAATAGCTCAAATGATTAAAGCCTTTACTTTTTTCTCCCTTGC
259 GTAGAAAATTAATAAAAGTGAGCAATAGCTCAAATGATTAAAGCCTTTACTTTTTTCTCCCTTGC
* *
8780343 AAACCAGGTTCAAGTTACGCCAAACTCCCCATTTCCATTTTAATTTCGACCAAAATTGGATATCT
324 AAACCAGGTTCAAGTCACGCCAAACTCCCCATCTCCATTTTAATTTCGACCAAAATTGGATATCT
*
8780408 TGCCTTGCAACCCCTTGAAATTTGAAAACCCTAAGTATTTAATCCTCCTTTTCCTAATTACTCTA
389 TGCCATGCAACCCCTTGAAATTTGAAAACCCTAAGTATTTAATCCTCCTTTTCCTAATTACTCTA
* * *
8780473 GGATTTTTATTTCTTTTCTATTTCAACTTGAATGTTCCCTCTTTTCCCTTTAAATTCTTCTTTTC
454 GGATTTTGATTTCTTTTCTATTTCAACTTGAATGTTCACTCTTTTCCCTTTAAATTCTTATTTTC
** *
8780538 TTTTCTCCTCTTTTTCTTTTTCATCATATTTCACATTATTTTGCTGTAAAAATTATTTCTTTGCT
519 TTTTCAACTCCTTTTCTTTTTCATCATATTTCACATTATTTTGCTGTAAAAATTATTTCTTTGCT
*
8780603 CACTCCGAATCAAAATCAATC-TCTATTAAATTCA
584 CACTCCAAATCAAAATCAATCTTC-ATTAAATTCA
* * *
8780637 TTCTACACTGGTTGTTGAGTTTATCATCGATAACCTTCAAAATCTCATTAAAGATCGGTAAGTAT
1 TTCTTCACTGGTTGTTGAATTTATCATCGATAACCTTTAAAATCTCATTAAAGATCGGTAAGTAT
* *
8780702 TCTCATTTTCAATTAGAACCCATAAATTTTGTAATAGTTGTTCTTGTTAATCTTTCAACTCGAAT
66 TCTCATTTCCAATTAGAACCCATAAATTCTGTAATAGTTGTTCTTGTTAATCTTTCAACTCGAAT
8780767 ACGAATCTTTTACGAAATTCCCAAAAAATCTTGATAATTTTGATAGTTCTATTCACTTTTTTCCC
131 ACGAATCTTTTACGAAATTCCC-AAAAATCTTGATAATTTTGATAGTTCTATTCACTTTTTTCCC
* *
8780832 AGTTCTTTGCTTTAAATTTTTAGCAAACTAGAATGAGAGTCACCTAAAAACAAGTTTTAAATAGA
195 A-TTCTTTGCTTTAAATTTTTAGCAAACTAGAATGAAAGTCACCTAAAAACAAGTTTAAAATAGA
*
8780897 GTAGGAAATTAATAAAAGTGAGCAATAGCTCAAATGATTAAAGCCTTTAC-TTTTTCTCCCTTGC
259 GTAGAAAATTAATAAAAGTGAGCAATAGCTCAAATGATTAAAGCCTTTACTTTTTTCTCCCTTGC
* *
8780961 AAACTAGGTTCAAGTCACGCCAAACTCCCCATCTCCATTTTAATTTCGACCAAAATTGGATATTT
324 AAACCAGGTTCAAGTCACGCCAAACTCCCCATCTCCATTTTAATTTCGACCAAAATTGGATATCT
* *
8781026 TTCCATGCAACCCCTTGAAATTTGAAAACCCTAAGTATTTAATCCTCTTTTTCCTAATTACTCTA
389 TGCCATGCAACCCCTTGAAATTTGAAAACCCTAAGTATTTAATCCTCCTTTTCCTAATTACTCTA
8781091 GGATTTTGATTTCTTTTCTATTTCAACTTGAATGCTT-ACTCTTTTCCCTTTAAATTCTTATTTT
454 GGATTTTGATTTCTTTTCTATTTCAACTTGAATG-TTCACTCTTTTCCCTTTAAATTCTTATTTT
** *
8781155 CTTTTCAACTCCTTTTCTTTTTCATCATATTTCACATTATTTTTTTGTGAAAATTATTTCTTTGC
518 CTTTTCAACTCCTTTTCTTTTTCATCATATTTCACATTATTTTGCTGTAAAAATTATTTCTTTGC
*
8781220 TCACTCCAAATCAAAATCAATCTTCATTAAATTCG
583 TCACTCCAAATCAAAATCAATCTTCATTAAATTCA
* * *
8781255 TTCTTCACTGGTTGTTGAATTTATCATCGATAACCTTTAAAATCTCATTATAGATCAGTAAGCAT
1 TTCTTCACTGGTTGTTGAATTTATCATCGATAACCTTTAAAATCTCATTAAAGATCGGTAAGTAT
* *
8781320 TCTTC-TTTCCAATTAGAACCCATAAATTCTGTAATAGTTTTTCTTGTTAATCTTTCAACTCAAA
66 TC-TCATTTCCAATTAGAACCCATAAATTCTGTAATAGTTGTTCTTGTTAATCTTTCAACTCGAA
*
8781384 TACGAATCTTTTACGAATTTTCCCAAAAATCTTGATAATTTTGATA
130 TACGAATCTTTTACGAA-ATTCCCAAAAATCTTGATAATTTTGATA
8781430 AATCTTGGAA
Statistics
Matches: 742, Mismatches: 44, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
617 5 0.01
618 617 0.83
619 120 0.16
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (617 bp):
TTCTTCACTGGTTGTTGAATTTATCATCGATAACCTTTAAAATCTCATTAAAGATCGGTAAGTAT
TCTCATTTCCAATTAGAACCCATAAATTCTGTAATAGTTGTTCTTGTTAATCTTTCAACTCGAAT
ACGAATCTTTTACGAAATTCCCAAAAATCTTGATAATTTTGATAGTTCTATTCACTTTTTTCCCA
TTCTTTGCTTTAAATTTTTAGCAAACTAGAATGAAAGTCACCTAAAAACAAGTTTAAAATAGAGT
AGAAAATTAATAAAAGTGAGCAATAGCTCAAATGATTAAAGCCTTTACTTTTTTCTCCCTTGCAA
ACCAGGTTCAAGTCACGCCAAACTCCCCATCTCCATTTTAATTTCGACCAAAATTGGATATCTTG
CCATGCAACCCCTTGAAATTTGAAAACCCTAAGTATTTAATCCTCCTTTTCCTAATTACTCTAGG
ATTTTGATTTCTTTTCTATTTCAACTTGAATGTTCACTCTTTTCCCTTTAAATTCTTATTTTCTT
TTCAACTCCTTTTCTTTTTCATCATATTTCACATTATTTTGCTGTAAAAATTATTTCTTTGCTCA
CTCCAAATCAAAATCAATCTTCATTAAATTCA
Found at i:8782881 original size:26 final size:25
Alignment explanation
Indices: 8782847--8783057 Score: 118
Period size: 24 Copynumber: 8.6 Consensus size: 25
8782837 TAGTCCTCTC
8782847 GAGCTTCCCGTTATATGGCTCTTCGT
1 GAGCTTCCCGTTATATGGCTCTTC-T
* *
8782873 GAGCTTCCCGATTA-AAGGCTCTTTGT
1 GAGCTTCCCG-TTATATGGCTC-TTCT
* *
8782899 GAGCTTCCTGATTA-ATGGCTC-TCC
1 GAGCTTCCCG-TTATATGGCTCTTCT
* * * *
8782923 GAGATTCCCG--ATCTAGCTC-GCTT
1 GAGCTTCCCGTTATATGGCTCTTC-T
* * * * *
8782946 GAACTTCCCGATATATGGCTATCCA
1 GAGCTTCCCGTTATATGGCTCTTCT
* *
8782971 GAGCTTCCTGTTA-ATGGCTCTTCA
1 GAGCTTCCCGTTATATGGCTCTTCT
* **
8782995 GAGCTACCCGTTAT-TGGCT-AGCAT
1 GAGCTTCCCGTTATATGGCTCTTC-T
* *
8783019 GAGCTTCCCGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCTTCT
8783043 GAGCTTCCCGTTATA
1 GAGCTTCCCGTTATA
8783058 CAGTCCGGAT
Statistics
Matches: 138, Mismatches: 35, Indels: 25
0.70 0.18 0.13
Matches are distributed among these distances:
21 1 0.01
22 6 0.04
23 10 0.07
24 61 0.44
25 18 0.13
26 37 0.27
27 5 0.04
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCTTCT
Found at i:8783047 original size:72 final size:70
Alignment explanation
Indices: 8782872--8783055 Score: 174
Period size: 72 Copynumber: 2.5 Consensus size: 70
8782862 TGGCTCTTCG
* * * *
8782872 TGAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCCTGATTAATGGCTCTCCGAGATTCCCGATCT
1 TGAGCTTCCCGATT-ATGGCTC-TTATGAGCTTCCTG-TTAATGGCTCTCAGAGATACCCGATCT
* *
8782937 AGCTCGCT
63 AGCTAGCA
* * * *
8782945 TGAACTTCCCGATATATGGCTATCCA-GAGCTTCCTGTTAATGGCTCTTCAGAGCTACCCGTTAT
1 TGAGCTTCCCGAT-TATGGCTCT-TATGAGCTTCCTGTTAATGGCTC-TCAGAGATACCCG--AT
*
8783009 -TGGCTAGCA
61 CTAGCTAGCA
*
8783018 TGAGCTTCCCGATTATGGCTCTTATGAGCTTCCCGTTA
1 TGAGCTTCCCGATTATGGCTCTTATGAGCTTCCTGTTA
8783056 TACAGTCCGG
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
71 11 0.12
72 41 0.46
73 35 0.39
74 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (70 bp):
TGAGCTTCCCGATTATGGCTCTTATGAGCTTCCTGTTAATGGCTCTCAGAGATACCCGATCTAGC
TAGCA
Found at i:8784667 original size:29 final size:28
Alignment explanation
Indices: 8784635--8784761 Score: 139
Period size: 28 Copynumber: 4.5 Consensus size: 28
8784625 TATGTTTTAA
8784635 ATATTATAATTTTATCCCCTATTTTTCAT
1 ATATTATAATTTTA-CCCCTATTTTTCAT
*
8784664 ATATTATAATTTTACCCTTATTTTTCA-
1 ATATTATAATTTTACCCCTATTTTTCAT
* * * * *
8784691 AAATTTATAATTTTGCCCATATTTTTTTAG
1 ATA-TTATAATTTTACCCCTA-TTTTTCAT
*
8784721 ATTTTATAATTTTACCCCTATTTTTCAT
1 ATATTATAATTTTACCCCTATTTTTCAT
* *
8784749 ATTTTATAGTTTT
1 ATATTATAATTTT
8784762 GTTCCTTATT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.02
28 45 0.54
29 35 0.42
30 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (28 bp):
ATATTATAATTTTACCCCTATTTTTCAT
Found at i:8784699 original size:57 final size:57
Alignment explanation
Indices: 8784621--8784762 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 57
8784611 GGCCATGTGT
* * *
8784621 CCCTTATGTTTT--AAATATTATAATTTTATCCCCTA-TTTTTCATATATTATAATTTTA
1 CCCTTAT-TTTTCAAAAT-TTATAATTTT-GCCCATATTTTTTCAGATATTATAATTTTA
* *
8784678 CCCTTATTTTTCAAAATTTATAATTTTGCCCATATTTTTTTAGATTTTATAATTTTA
1 CCCTTATTTTTCAAAATTTATAATTTTGCCCATATTTTTTCAGATATTATAATTTTA
* * * *
8784735 CCCCTATTTTTCATATTTTATAGTTTTG
1 CCCTTATTTTTCAAAATTTATAATTTTG
8784763 TTCCTTATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
56 9 0.12
57 60 0.82
58 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.04, T:0.56
Consensus pattern (57 bp):
CCCTTATTTTTCAAAATTTATAATTTTGCCCATATTTTTTCAGATATTATAATTTTA
Found at i:8784771 original size:29 final size:29
Alignment explanation
Indices: 8784621--8784793 Score: 131
Period size: 29 Copynumber: 6.0 Consensus size: 29
8784611 GGCCATGTGT
*
8784621 CCCTTATGTTTT-AAATATTATAATTTT-A
1 CCCTTAT-TTTTCAAATTTTATAATTTTGA
* * *
8784649 TCCCCTATTTTTCATATATTATAATTTT-A
1 -CCCTTATTTTTCAAATTTTATAATTTTGA
*
8784678 CCCTTATTTTTCAAAATTTATAATTTTG-
1 CCCTTATTTTTCAAATTTTATAATTTTGA
* * *
8784706 CCCATATTTTTTTAGATTTTATAATTTT-A
1 CCCTTA-TTTTTCAAATTTTATAATTTTGA
* * * *
8784735 CCCCTATTTTTCATATTTTATAGTTTTGT
1 CCCTTATTTTTCAAATTTTATAATTTTGA
* * *
8784764 TCCTTATTTTTAAAAAATTTTATAGTTTTG
1 CCCTTATTTTT--CAAATTTTATAATTTTG
8784794 TCTCCTACTT
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
28 50 0.42
29 53 0.45
31 15 0.13
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (29 bp):
CCCTTATTTTTCAAATTTTATAATTTTGA
Found at i:8786698 original size:89 final size:90
Alignment explanation
Indices: 8786587--8786771 Score: 345
Period size: 89 Copynumber: 2.1 Consensus size: 90
8786577 GGACTAGAGG
8786587 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTT-AAGGACAAAAT
1 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
8786651 GGAAAATATTTGAGTTAGATAATTA
66 GGAAAATATTTGAGTTAGATAATTA
8786676 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
1 TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
*
8786741 GGTAAATATTTGAGTTAGATAATTA
66 GGAAAATATTTGAGTTAGATAATTA
*
8786766 TAAAAA
1 TGAAAA
8786772 GTGTAATGAT
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
89 53 0.57
90 40 0.43
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (90 bp):
TGAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATAGAAAAAGTTAAAGGACAAAAT
GGAAAATATTTGAGTTAGATAATTA
Found at i:8786718 original size:42 final size:43
Alignment explanation
Indices: 8786588--8786724 Score: 106
Period size: 42 Copynumber: 3.1 Consensus size: 43
8786578 GACTAGAGGT
8786588 GAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATA
1 GAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATA
* * * * *
8786631 GAAAAAGTTAAGGACAAAATGGAAA-ATATTTGAGT--TAGAT--AATTAT-
1 G-AAAA-TTTA--CCAAAA--GAAAGA-A--TGAATCATACATGGTATTATA
8786677 GAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATA
1 GAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATA
8786720 GAAAA
1 GAAAA
8786725 AGTTAAAGGA
Statistics
Matches: 69, Mismatches: 10, Indels: 30
0.63 0.09 0.28
Matches are distributed among these distances:
38 4 0.06
40 9 0.13
41 1 0.01
42 10 0.14
43 6 0.09
44 7 0.10
45 7 0.10
46 1 0.01
47 10 0.14
48 1 0.01
49 9 0.13
51 4 0.06
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.26
Consensus pattern (43 bp):
GAAAATTTACCAAAAGAAAGAATGAATCATACATGGTATTATA
Found at i:8788105 original size:23 final size:24
Alignment explanation
Indices: 8788074--8788122 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
8788064 TTTAGCGCAC
8788074 TCTCTATTACGCACTTCAATGTTG
1 TCTCTATTACGCACTTCAATGTTG
* *
8788098 TCTC-ATTACGCACTTTAATTTTG
1 TCTCTATTACGCACTTCAATGTTG
8788121 TC
1 TC
8788123 CTGTACTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.45
Consensus pattern (24 bp):
TCTCTATTACGCACTTCAATGTTG
Found at i:8793983 original size:29 final size:29
Alignment explanation
Indices: 8793941--8794002 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
8793931 CTTTCAGTGC
*
8793941 ATTTTTTACGGGTGGTTGAGGTTGATCAG
1 ATTTTTTACGGGTGGTTGAGGTTGATCAA
8793970 ATTTTTTACGGGTGGTTGAGGTTGATCAA
1 ATTTTTTACGGGTGGTTGAGGTTGATCAA
8793999 ATTT
1 ATTT
8794003 CTGGAAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.44
Consensus pattern (29 bp):
ATTTTTTACGGGTGGTTGAGGTTGATCAA
Found at i:8795220 original size:26 final size:26
Alignment explanation
Indices: 8795191--8795246 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
8795181 ATAAAATCCT
8795191 ATAGGTACATGCCAACCAAAGTAGCA
1 ATAGGTACATGCCAACCAAAGTAGCA
*
8795217 ATAGGTACATGCCGACCAAAGTAGCA
1 ATAGGTACATGCCAACCAAAGTAGCA
8795243 ATAG
1 ATAG
8795247 TTTCACCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (26 bp):
ATAGGTACATGCCAACCAAAGTAGCA
Found at i:8795431 original size:30 final size:30
Alignment explanation
Indices: 8795397--8795459 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
8795387 ACATAACAAA
*
8795397 AATTATGTAAGGACATAAACAAAATAAGAT
1 AATTATGTAAGAACATAAACAAAATAAGAT
8795427 AATTATGTAAGAACATAAACAAAATAAGAT
1 AATTATGTAAGAACATAAACAAAATAAGAT
8795457 AAT
1 AAT
8795460 CAAAGGTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.06, G:0.11, T:0.24
Consensus pattern (30 bp):
AATTATGTAAGAACATAAACAAAATAAGAT
Found at i:8798249 original size:22 final size:22
Alignment explanation
Indices: 8798223--8798264 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8798213 AAATTTAAGT
8798223 GAGAAATTCAAGAGAGATTTGA
1 GAGAAATTCAAGAGAGATTTGA
*
8798245 GAGAAATTCGAGAGAGATTT
1 GAGAAATTCAAGAGAGATTT
8798265 AAAAATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (22 bp):
GAGAAATTCAAGAGAGATTTGA
Found at i:8817016 original size:20 final size:20
Alignment explanation
Indices: 8816993--8817040 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
8816983 ATTTTCTGAG
8816993 TTTTGCTCATTTTTCGCT-T
1 TTTTGCTCATTTTTCGCTCT
*
8817012 CTTTTGCTCGTTTTTCGCTCT
1 -TTTTGCTCATTTTTCGCTCT
8817033 TTTTGCTC
1 TTTTGCTC
8817041 CAAATTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.02, C:0.25, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTTGCTCATTTTTCGCTCT
Found at i:8817925 original size:20 final size:18
Alignment explanation
Indices: 8817878--8817926 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8817868 GTATATAAAC
8817878 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
8817895 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
8817915 ATTAAATTAATA
1 ATTAAATTAATA
8817927 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:8829252 original size:12 final size:11
Alignment explanation
Indices: 8829233--8829408 Score: 56
Period size: 12 Copynumber: 15.1 Consensus size: 11
8829223 AATACTAAGT
8829233 AAAT-ATAATGA
1 AAATAATAAT-A
8829244 AAATAATAATA
1 AAATAATAATA
8829255 AAATAAATAA-A
1 AAAT-AATAATA
* * *
8829266 TAATAATGTATT
1 AAATAAT-AATA
**
8829278 AAATAGGAATA
1 AAATAATAATA
*
8829289 AGAATAAGAATA
1 A-AATAATAATA
* *
8829301 AGAATTATAAAACA
1 A-AA-TA-ATAATA
*
8829315 AAGAAAGATAATA
1 AA-ATA-ATAATA
* *
8829328 TAATAAGAATA
1 AAATAATAATA
*
8829339 TAAATAAAAAT-
1 -AAATAATAATA
8829350 AAATAATAAACTA
1 AAATAAT-AA-TA
8829363 AATATAATAATAA
1 AA-ATAATAAT-A
* *
8829376 AAATTATGATA
1 AAATAATAATA
8829387 AAATAA-AA-A
1 AAATAATAATA
8829396 AAATAAATAATA
1 AAAT-AATAATA
8829408 A
1 A
8829409 GGTAAATGAA
Statistics
Matches: 123, Mismatches: 25, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
9 5 0.04
10 12 0.10
11 32 0.26
12 47 0.38
13 16 0.13
14 11 0.09
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (11 bp):
AAATAATAATA
Found at i:8829358 original size:17 final size:16
Alignment explanation
Indices: 8829338--8829408 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
8829328 TAATAAGAAT
8829338 ATAAATAAAAATAAATA
1 ATAAA-AAAAATAAATA
**
8829355 ATAAACTAAATATAATA
1 ATAAAAAAAATA-AATA
**
8829372 ATAAAAATTATGATAA-A
1 ATAAAAAAAAT-A-AATA
8829389 ATAAAAAAAATAAATA
1 ATAAAAAAAATAAATA
8829405 ATAA
1 ATAA
8829409 GGTAAATGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 2 0.05
16 11 0.26
17 26 0.60
18 4 0.09
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (16 bp):
ATAAAAAAAATAAATA
Found at i:8829400 original size:29 final size:30
Alignment explanation
Indices: 8829341--8829401 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
8829331 TAAGAATATA
* * *
8829341 AATAAAAATAAATAATAAACTAAATATAAT
1 AATAAAAATAAATAATAAAATAAAAAAAAT
* *
8829371 AATAAAAAT-TATGATAAAATAAAAAAAAT
1 AATAAAAATAAATAATAAAATAAAAAAAAT
8829400 AA
1 AA
8829402 ATAATAAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (30 bp):
AATAAAAATAAATAATAAAATAAAAAAAAT
Found at i:8830090 original size:13 final size:13
Alignment explanation
Indices: 8830072--8830096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8830062 AAATAAAAAT
8830072 TAGGCCGTGTGTC
1 TAGGCCGTGTGTC
8830085 TAGGCCGTGTGT
1 TAGGCCGTGTGT
8830097 GAACATCCTT
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:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (13 bp):
TAGGCCGTGTGTC
Found at i:8833327 original size:19 final size:19
Alignment explanation
Indices: 8833305--8833341 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8833295 TAAATGTGAA
*
8833305 TATAAAATTAAAACAAAAT
1 TATAAAAATAAAACAAAAT
*
8833324 TATAAAAATAAAATAAAA
1 TATAAAAATAAAACAAAA
8833342 ACGGTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
TATAAAAATAAAACAAAAT
Found at i:8839830 original size:22 final size:22
Alignment explanation
Indices: 8839811--8839863 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
8839801 AATGGCTAAG
*
8839811 AGCCGTAAACAGGATAGCTATA
1 AGCCATAAACAGGATAGCTATA
*
8839833 AGCTATAAACAGGATAGCTATA
1 AGCCATAAACAGGATAGCTATA
*
8839855 AGCTATAAA
1 AGCCATAAA
8839864 TAGAATGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (22 bp):
AGCCATAAACAGGATAGCTATA
Found at i:8839879 original size:22 final size:22
Alignment explanation
Indices: 8839816--8839884 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
8839806 CTAAGAGCCG
* *
8839816 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCTA
* *
8839838 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCTA
* *
8839860 TAAATAGAAT-GACTACAAGCCA
1 TAAACAGAATAG-CTACAAGCTA
8839882 TAA
1 TAA
8839885 GTACAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 1 0.02
22 41 0.98
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCTA
Found at i:8840212 original size:24 final size:24
Alignment explanation
Indices: 8840185--8840239 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
8840175 CCATGCTCAG
8840185 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
8840209 AATCAGTCATACCAATCATAGACA
1 AATCAGTCATACAAATCACAGACA
8840233 AATCAGT
1 AATCAGT
8840240 TATTTACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:8840250 original size:24 final size:24
Alignment explanation
Indices: 8840223--8840271 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8840213 AGTCATACCA
* *
8840223 ATCATAGACAAATCAGTTATTTAC
1 ATCATAGACAAATCAATCATTTAC
*
8840247 ATCATGGACAAATCAATCATTTAC
1 ATCATAGACAAATCAATCATTTAC
8840271 A
1 A
8840272 CTCGAGGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (24 bp):
ATCATAGACAAATCAATCATTTAC
Found at i:8840342 original size:27 final size:27
Alignment explanation
Indices: 8840292--8840670 Score: 200
Period size: 27 Copynumber: 14.1 Consensus size: 27
8840282 AAAATAGTCA
* * * *
8840292 TTTACCCTCTACGGGCATTACGATCAT
1 TTTACCCTATAGGGGTATTTCGATCAT
*
8840319 TTTACCTTATAGGGGTATTTCGATCAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* * *
8840346 TTTACCCTATGGGGGTATTACGATTAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* * * * *
8840373 TTTACCCTACAAGGGCATTACGACCAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* *
8840400 TTTACCCTATA-AGGTTTTTC-AGTCAT
1 TTTACCCTATAGGGGTATTTCGA-TCAT
** * *
8840426 TTTACCCTACGGGGGTATTAC-AGTTAT
1 TTTACCCTATAGGGGTATTTCGA-TCAT
* * * * *
8840453 TTTACCTTACAGGGGCATTACGGTCAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* * * * *
8840480 TTGACCCTACAAGGGTATTTTGGTCAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* * *
8840507 TTTACCC-ATCGAGGATATTTTGATCAT
1 TTTACCCTATAG-GGGTATTTCGATCAT
* * *
8840534 TTTACCCT-TTGAGGGTATTTTGGTCAT
1 TTTACCCTATAG-GGGTATTTCGATCAT
* * *
8840561 TTTACCCCTCA-A-GGGTATTTTGGTAAT
1 TTTA-CCCT-ATAGGGGTATTTCGATCAT
* * *
8840588 TTTACCC-ATCGAGGGTATTTTGATAAT
1 TTTACCCTATAG-GGGTATTTCGATCAT
* * * *
8840615 TTTACCCTTTAAGGGTATTTCGGTAAT
1 TTTACCCTATAGGGGTATTTCGATCAT
* *
8840642 TTTACCCT-TCGAGGGTATTTCGATAAT
1 TTTACCCTATAG-GGGTATTTCGATCAT
8840669 TT
1 TT
8840671 GCCCACGAAT
Statistics
Matches: 280, Mismatches: 59, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 22 0.08
27 251 0.90
28 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTTCGATCAT
Found at i:8840453 original size:80 final size:79
Alignment explanation
Indices: 8840304--8840513 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 79
8840294 TACCCTCTAC
* * * *
8840304 GGGCATTACGATCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTACGA
1 GGGCATTACGATCATTTTACCCTATA-AGGTTTTTCG-TCATTTTACCCTACGGGGGTATTACGA
8840369 TTATTTTACCCTACAA
64 TTATTTTACCCTACAA
*
8840385 GGGCATTACGACCATTTTACCCTATAAGGTTTTTCAGTCATTTTACCCTACGGGGGTATTAC-AG
1 GGGCATTACGATCATTTTACCCTATAAGGTTTTTC-GTCATTTTACCCTACGGGGGTATTACGA-
* *
8840449 TTATTTTACCTTACAG
64 TTATTTTACCCTACAA
* * * *
8840465 GGGCATTACGGTCATTTGACCCTACAAGGGTATTTTGGTCATTTTACCC
1 GGGCATTACGATCATTTTACCCTATAA-GGT-TTTTCGTCATTTTACCC
8840514 ATCGAGGATA
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 68 0.60
81 40 0.35
82 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (79 bp):
GGGCATTACGATCATTTTACCCTATAAGGTTTTTCGTCATTTTACCCTACGGGGGTATTACGATT
ATTTTACCCTACAA
Found at i:8840559 original size:81 final size:80
Alignment explanation
Indices: 8840473--8840670 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 80
8840463 AGGGGCATTA
* * *
8840473 CGGTCATTTGACCCTACAAGGGTATTTTGGTCATTTTACCCATCGAGGATATTTTGATCATTTTA
1 CGGTCATTTTACCCT-CAAGGGTATTTTGGTAATTTTACCCATCGAGGATATTTTGATAATTTTA
*
8840538 CCCTTTGAGGGTATTT
65 CCCTTTAAGGGTATTT
* *
8840554 TGGTCATTTTACCCCTCAAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGATAATTTTA
1 CGGTCATTTTA-CCCTCAAGGGTATTTTGGTAATTTTACCCATCGAGGATATTTTGATAATTTTA
8840619 CCCTTTAAGGGTATTT
65 CCCTTTAAGGGTATTT
* * * *
8840635 CGGTAATTTTACCCTTCGAGGGTATTTCGATAATTT
1 CGGTCATTTTACCC-TCAAGGGTATTTTGGTAATTT
8840671 GCCCACGAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
80 3 0.03
81 97 0.93
82 4 0.04
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (80 bp):
CGGTCATTTTACCCTCAAGGGTATTTTGGTAATTTTACCCATCGAGGATATTTTGATAATTTTAC
CCTTTAAGGGTATTT
Found at i:8840667 original size:54 final size:54
Alignment explanation
Indices: 8840331--8840670 Score: 240
Period size: 54 Copynumber: 6.3 Consensus size: 54
8840321 TACCTTATAG
* ** * * * *
8840331 GGGTATTTCGATCATTTTACCCTATGGGGGTATTACGATTATTTTACCCTACAA
1 GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTACGA
* * * * * * *
8840385 GGGCATTACGACCATTTTACCCTATAA-GGTTTTTCAGTCATTTTACCCTACGG
1 GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTACGA
* * * * * *
8840438 GGGTATTAC-AGTTATTTTA-CC-TTACAGGGGCATTACGGTCATTTGACCCTACAA
1 GGGTATTTCGA-TCATTTTACCCTTTA-A-GGGTATTTCGGTCATTTTACCCTACGA
* * * ** * * * **
8840492 GGGTATTTTGGTCATTTTACCCATCGAGGATATTTTGATCATTTTACCCTTTGA
1 GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTACGA
* * * * * *
8840546 GGGTATTTTGGTCATTTTACCCCTCAAGGGTATTTTGGTAATTTTACCC-ATCGA
1 GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTA-CGA
* * * *
8840600 GGGTATTTTGATAATTTTACCCTTTAAGGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTACGA
*
8840654 GGGTATTTCGATAATTT
1 GGGTATTTCGATCATTT
8840671 GCCCACGAAT
Statistics
Matches: 225, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
51 2 0.01
52 4 0.02
53 33 0.15
54 182 0.81
55 3 0.01
56 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTACGA
Found at i:8843708 original size:18 final size:17
Alignment explanation
Indices: 8843679--8843713 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8843669 CCTTCCAAAA
*
8843679 TCTTTTTCTTTTTTCTT
1 TCTTTTTCTTTTCTCTT
8843696 TCTTTTCTCTTTTCTCTT
1 TCTTTT-TCTTTTCTCTT
8843714 CCCATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTTCTTTTCTCTT
Found at i:8846014 original size:57 final size:56
Alignment explanation
Indices: 8845950--8846066 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 56
8845940 TCTTTTTCAT
* * *
8845950 TTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTCC-ATTTCTCCA
1 TTTTCATTTCCATTTTGGAGAAAA--ACAATCATTTCCAAATGATTCCTATTTCACCA
* *
8846007 TTTTCATTTCCATTTTGGAGAAAAATAATCATTTCCAAATGTTTCCTATTTCACCA
1 TTTTCATTTCCATTTTGGAGAAAAACAATCATTTCCAAATGATTCCTATTTCACCA
8846063 TTTT
1 TTTT
8846067 TACCATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
55 19 0.35
56 12 0.22
57 23 0.43
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (56 bp):
TTTTCATTTCCATTTTGGAGAAAAACAATCATTTCCAAATGATTCCTATTTCACCA
Found at i:8849087 original size:30 final size:32
Alignment explanation
Indices: 8849049--8849118 Score: 99
Period size: 31 Copynumber: 2.2 Consensus size: 32
8849039 AGTTTGCCCT
* *
8849049 CTGAACTTGTCC-AAAAGTACTTAGTTA-TAC
1 CTGAACTTGTCCAAAAAGTACCTAATTAGTAC
*
8849079 CTGCACTTGTCCAAAAAGTACCTAATTAGTAC
1 CTGAACTTGTCCAAAAAGTACCTAATTAGTAC
8849111 CTGAACTT
1 CTGAACTT
8849119 ATTAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 11 0.32
31 13 0.38
32 10 0.29
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (32 bp):
CTGAACTTGTCCAAAAAGTACCTAATTAGTAC
Found at i:8851271 original size:47 final size:48
Alignment explanation
Indices: 8851194--8851307 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
8851184 GCCGTGTGGT
* * *
8851194 AGACCATGTGTGGCACACGGCTGTGTGAGACTTTGCAGACCATGTGGCC
1 AGACCGTGTGTGGCACACGAC-GTGTGAGACTCTGCAGACCATGTGGCC
* * * * * *
8851243 AGACCGTGTGTGGCACATGAC-TGTGAGACTCTGTAGGCCGTGTTGCT
1 AGACCGTGTGTGGCACACGACGTGTGAGACTCTGCAGACCATGTGGCC
8851290 AGA-CGTGTGTGGCACACG
1 AGACCGTGTGTGGCACACG
8851308 GTCGTGTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 14 0.25
47 23 0.42
49 18 0.33
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.24
Consensus pattern (48 bp):
AGACCGTGTGTGGCACACGACGTGTGAGACTCTGCAGACCATGTGGCC
Done.