Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 84 of 228
Found at i:24912900 original size:16 final size:18
Alignment explanation
Indices: 24912862--24912905 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
24912852 TAGAAAGTAT
24912862 AATATATATACGTACATA
1 AATATATATACGTACATA
* *
24912880 TATATATA-AGGTA-ATA
1 AATATATATACGTACATA
24912896 AATATATATA
1 AATATATATA
24912906 AATCATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (18 bp):
AATATATATACGTACATA
Found at i:24914200 original size:15 final size:16
Alignment explanation
Indices: 24914174--24914206 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24914164 ATTTGGACCC
24914174 TATTTTTCTATTTATT
1 TATTTTTCTATTTATT
*
24914190 TATTTTT-TATTTGTT
1 TATTTTTCTATTTATT
24914205 TA
1 TA
24914207 CTAAGAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTTTCTATTTATT
Found at i:24914512 original size:44 final size:45
Alignment explanation
Indices: 24914409--24915348 Score: 325
Period size: 44 Copynumber: 21.7 Consensus size: 45
24914399 CTTTAATCCA
*
24914409 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* *
24914454 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTAT-TT-GGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-CATCTTCAGTCTG
* *
24914498 CTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTG
** * * * * *
24914539 CT-CTTTGCAACTTCAGAGAGATAAGATCTAAG--AT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTCTG
* * * ** * *
24914582 C-CCACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
*
24914625 CTCC-CTTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCAC-TGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* * **
24914670 C-CTCACTGCAACTTCA-GGAGGATAATACTTG-CTTACTT-AGTCCA
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTG
* * * *
24914714 CTCCACCGCAACTTCAGGGAGATAAGACTAG--A--TGC-GAACTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTG
* * * * * * * *
24914755 CT-CTCTGTAACTTTAGAGAGATAAGATCTAAG--GT-TTTAGTCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTCTG
* * * ** ** * *
24914798 -TCCACTACAACTTCAGCGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
*
24914841 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* * * *
24914886 C-CTCACTACAACTTCA-GGAGGATAGGACTTG-CTTACTT-AGTCCG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTG
* * *
24914930 CTCCACCGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTG
* * * * * * * *
24914971 CT-CTCTACAACTTCAGAGAGATAAGATCTAAG--GT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTCTG
* * ** * *
24915014 CT-CACTGCAACTTCAGTGAGATAAGA-TTACCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
** *
24915057 CTCCACTGCAACTTCATAGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* *
24915102 C-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCCG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTG
* * * * * * *
24915146 CTCTACCGTAACTCCAAGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG-TCTG
** * * * * * *
24915187 CT-CTTTGCAACTTCAGAGAGATAAGATCTAAG--GT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTCTG
* * * * *
24915230 C-CCACTGCAACTTCAGCGAGATAGGA-TTACCGA-CTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCC-ATCTTCAGTCTG
* *
24915273 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
*
24915318 C-CTCACTGCAACTTTA-GGAGGATAAGACTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTG
24915349 TCTGTTATCT
Statistics
Matches: 674, Mismatches: 148, Indels: 146
0.70 0.15 0.15
Matches are distributed among these distances:
40 84 0.12
41 32 0.05
42 12 0.02
43 134 0.20
44 221 0.33
45 188 0.28
46 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
Found at i:24914775 original size:216 final size:216
Alignment explanation
Indices: 24914398--24915348 Score: 1589
Period size: 216 Copynumber: 4.4 Consensus size: 216
24914388 GGAATTTGGT
**
24914398 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
* * * *
24914463 AACTTCAGGAGGATAAGACTTGCTTATTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTA
* *
24914528 GATGCGATCTGCTCTTTGCAACTTCAGAGAGATAAGATCTAAGATTTTAATCCGCCCACTGCAAC
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAAC
24914593 TTCAGCGAGATAGGATTACCG
196 TTCAGCGAGATAGGATTACCG
24914614 GCTTTAATCTGCTCC-CTTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTG
1 GCTTTAATCTGCTCCAC-TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTG
* *
24914678 CAACTTCAGGAGGATAATACTTGCTTACTTAGTCCACTCCACCGCAACTTCAGGGAGATAAGACT
65 CAACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACT
* * * * * *
24914743 AGATGCGAACTGCTCTCTGTAACTTTAGAGAGATAAGATCTAAGGTTTTAGTCCGTCCACTACAA
130 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAA
*
24914808 CTTCAGCGAGATAGGATTATCG
195 CTTCAGCGAGATAGGATTACCG
*
24914830 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTAC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
*
24914895 AACTTCAGGAGGATAGGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTA
* *
24914960 GATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAAC
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAAC
* *
24915025 TTCAGTGAGATAAGATTACCG
196 TTCAGCGAGATAGGATTACCG
**
24915046 GCTTTAATCTGCTCCACTGCAACTTCATAGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
* * * *
24915111 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCTACCGTAACTCCAAGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTA
*
24915176 GATGCGATCTGCTCTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAAC
131 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAAC
24915241 TTCAGCGAGATAGGATTACCG
196 TTCAGCGAGATAGGATTACCG
* *
24915262 ACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
*
24915327 AACTTTAGGAGGATAAGACTTG
66 AACTTCAGGAGGATAAGACTTG
24915349 TCTGTTATCT
Statistics
Matches: 683, Mismatches: 50, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
215 1 0.00
216 681 1.00
217 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (216 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAAC
TTCAGCGAGATAGGATTACCG
Found at i:24914910 original size:89 final size:87
Alignment explanation
Indices: 24914398--24915344 Score: 323
Period size: 89 Copynumber: 10.9 Consensus size: 87
24914388 GGAATTTGGT
**
24914398 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-CTCACTGC
*
24914463 AACTTCAGGAGGATAAGACT-T-
65 AACTTCAGGAGGATAAGATTATG
** * * * **
24914484 GCTTATTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTGCTCTT
1 GC---TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTGCTCAC
*
24914544 TGCAACTTCA-GAGAGATAAGATCTAAG
62 TGCAACTTCAGGAG-GATAAGAT-TATG
** * * * * ** * * *
24914571 ATTTTAATCCGC-CCACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAATCTGCTCCCTTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCAC-TGC
24914634 AACTTCAGG-GAGATAAGATT-TG
65 AACTTCAGGAG-GATAAGATTATG
* * * * * **
24914656 CCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAATACTTG-CTTACTT-AGTCCACTC
1 GC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCT-
* *
24914717 CACCGCAACTTCAGG-GAGATAAGACTA-G
59 CACTGCAACTTCAGGAG-GATAAGATTATG
* * * * * * **** * *
24914745 ATGC--GAA-CTGCT-CTCTGTAACTTTAGAGAGATAAGATCTAAGGT-TTTAGTCCG-TCCACT
1 --GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCT-CACT
* *
24914804 ACAACTTCAGCGA-GATAGGATTATCG
63 GCAACTTCAG-GAGGATAAGATTAT-G
*
24914830 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTAC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-CTCACTGC
* *
24914895 AACTTCAGGAGGATAGGACT-T-
65 AACTTCAGGAGGATAAGATTATG
* * * * * * *
24914916 GCTTACTTAGTCCGCTCCACCGCAACTTCAGGGAGATAAGACTAG--A--TGC-GATCTGCTCTC
1 GC-T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG-TCTGCTCAC
* *
24914976 TACAACTTCA-GAGAGATAAGATCTAAG
62 TGCAACTTCAGGAG-GATAAGAT-TATG
* * * * ** * *
24915003 GTTTTAATCCGCT-CACTGCAACTTCAGTGAGATAAGA-TTACCGGCTTTAATCTGCTCCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCT-CACTGC
*
24915066 AACTTCA-TAGAGATAAGATT-TG
65 AACTTCAGGAG-GATAAGATTATG
* * * * *
24915088 CCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCCGCTC
1 GC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAGTCTGCTC
* * * *
24915149 TACCGTAACTCCAAGGA-GATAAGACTA--
60 -ACTGCAACTTC-AGGAGGATAAGATTATG
* *** ** * * **** * * * *
24915176 GATGCGATCTGCT-CTTTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCCGCCCACTGCA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCACTGCA
* *
24915239 ACTTCAGCGA-GATAGGATTACCG
66 ACTTCAG-GAGGATAAGATTA-TG
* *
24915262 ACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG-CTCACTGC
*
24915327 AACTTTAGGAGGATAAGA
65 AACTTCAGGAGGATAAGA
24915345 CTTGTCTGTT
Statistics
Matches: 627, Mismatches: 154, Indels: 157
0.67 0.16 0.17
Matches are distributed among these distances:
82 4 0.01
83 97 0.15
84 107 0.17
85 34 0.05
86 38 0.06
87 97 0.15
88 35 0.06
89 199 0.32
90 14 0.02
91 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (87 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCACTGCA
ACTTCAGGAGGATAAGATTATG
Found at i:24927186 original size:16 final size:16
Alignment explanation
Indices: 24927131--24927199 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
24927121 GCAAAGTATC
*
24927131 AAATAAATGAACAAAA
1 AAATAAATAAACAAAA
*
24927147 TAAA-AAA-AATACGAAA
1 -AAATAAATAA-ACAAAA
* * *
24927163 ACATAAATCAACAAAC
1 AAATAAATAAACAAAA
24927179 AAATAAATAAACAAAA
1 AAATAAATAAACAAAA
24927195 AAATA
1 AAATA
24927200 TAAAGAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
15 3 0.08
16 33 0.82
17 4 0.10
ACGTcount: A:0.74, C:0.10, G:0.03, T:0.13
Consensus pattern (16 bp):
AAATAAATAAACAAAA
Found at i:24927327 original size:21 final size:21
Alignment explanation
Indices: 24927303--24927356 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
24927293 GAATAAAGAA
* *
24927303 AAATATACATATAGAAATTAT
1 AAATATATATATAGAAAGTAT
**
24927324 AAATATATGGATAGAAAGTAT
1 AAATATATATATAGAAAGTAT
24927345 -AATATATATATA
1 AAATATATATATA
24927357 CGTACATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (21 bp):
AAATATATATATAGAAAGTAT
Found at i:24927495 original size:18 final size:19
Alignment explanation
Indices: 24927449--24927495 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
24927439 TAGAAAGTAT
24927449 AATATATAT-ACGTACATA
1 AATATATATAACGTACATA
* *
24927467 TATATATATAAGGTA-ATA
1 AATATATATAACGTACATA
24927485 AATATATATAA
1 AATATATATAA
24927496 ATCATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (19 bp):
AATATATATAACGTACATA
Found at i:24927522 original size:104 final size:104
Alignment explanation
Indices: 24927305--24927522 Score: 246
Period size: 102 Copynumber: 2.1 Consensus size: 104
24927295 ATAAAGAAAA
* *
24927305 ATATACATATAGAAATTATAAATATATGGATAGAAAGTATAATATATATATACGTACATATATAT
1 ATATATATATAGAAATTATAAATATAAGGATAGAAAGTATAATATATATATACGTACATATATAT
* * * * *
24927370 GTATGTTAATAAATATAGACCATAAAGATAATGATTGCAT
66 ATATGTTAATAAATATAAACCATAAAAATAATAATT-CAC
*
24927410 ATATATATATAGAAATTATAAA-ATAAGTATAGAAAGTAT-A-ATATATATACGTACATATATAT
1 ATATATATATAGAAATTATAAATATAAGGATAGAAAGTATAATATATATATACGTACATATATAT
* *
24927472 ATATAAGGTAATAAATATATATAAATCATAAAAATAATAATT-AC
66 ATAT---GT--T-AATAAATATAAACCATAAAAATAATAATTCAC
*
24927516 AAATATA
1 ATATATA
24927523 AACTTAAAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
102 25 0.26
103 1 0.01
104 15 0.16
105 23 0.24
106 7 0.07
107 1 0.01
108 24 0.25
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.34
Consensus pattern (104 bp):
ATATATATATAGAAATTATAAATATAAGGATAGAAAGTATAATATATATATACGTACATATATAT
ATATGTTAATAAATATAAACCATAAAAATAATAATTCAC
Found at i:24928808 original size:15 final size:16
Alignment explanation
Indices: 24928782--24928814 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24928772 ATTTGGACCC
24928782 TATTTTTCTATTTATT
1 TATTTTTCTATTTATT
*
24928798 TATTTTT-TATTTGTT
1 TATTTTTCTATTTATT
24928813 TA
1 TA
24928815 CTATGAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TATTTTTCTATTTATT
Found at i:24932028 original size:15 final size:15
Alignment explanation
Indices: 24932005--24932038 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24931995 TTACTTTTTG
* *
24932005 TGATGTAAATATAAA
1 TGATATAAATAAAAA
24932020 TGATATAAATAAAAA
1 TGATATAAATAAAAA
24932035 TGAT
1 TGAT
24932039 CATTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
TGATATAAATAAAAA
Found at i:24933837 original size:21 final size:21
Alignment explanation
Indices: 24933798--24933837 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24933788 TTGCCACTAA
* *
24933798 TCGTTATACAACCTGTCCAAG
1 TCGTGATACAACCTATCCAAG
*
24933819 TCGTGATACAACTTATCCA
1 TCGTGATACAACCTATCCA
24933838 TAGCCTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
TCGTGATACAACCTATCCAAG
Found at i:24937679 original size:39 final size:39
Alignment explanation
Indices: 24937607--24937682 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
24937597 AGGTTTTGTG
* *
24937607 GGGGTATAGAATAATTATCCTATTGGTAATGATAAAACA
1 GGGGTACAGAATAATTATCCTATTCGTAATGATAAAACA
* * * *
24937646 GGGGTACATAATAATTATCTTATTCTTATTGATAAAA
1 GGGGTACAGAATAATTATCCTATTCGTAATGATAAAA
24937683 TAGAACGAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (39 bp):
GGGGTACAGAATAATTATCCTATTCGTAATGATAAAACA
Found at i:24950226 original size:19 final size:19
Alignment explanation
Indices: 24950217--24950254 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
24950207 TTTATCTTTG
24950217 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
24950236 TCTTTAATTTTAATGTTTA
1 TCTTTAATTTTAAT-TTTA
24950255 TTTTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TCTTTAATTTTAATTTTAA
Found at i:24950243 original size:13 final size:12
Alignment explanation
Indices: 24950153--24950259 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
24950143 AAATTTCTAA
24950153 TTAATTTTAAAATT
1 TTAATTTT--AATT
* *
24950167 TTTATTTTTATT
1 TTAATTTTAATT
*
24950179 TT--TTTTAGTT
1 TTAATTTTAATT
* *
24950189 TTAGTTTTAGTT
1 TTAATTTTAATT
* *
24950201 TTCATTTTTATCT
1 TTAATTTTAAT-T
*
24950214 TT-GTCTTTAATT
1 TTAAT-TTTAATT
24950226 TTAATTTTAATCT
1 TTAATTTTAAT-T
24950239 TTAATTTTAATGT
1 TTAATTTTAAT-T
24950252 TT-ATTTTA
1 TTAATTTTA
24950260 TTTATGTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
10 8 0.11
12 36 0.48
13 24 0.32
14 7 0.09
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (12 bp):
TTAATTTTAATT
Found at i:24950247 original size:25 final size:24
Alignment explanation
Indices: 24950167--24950259 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
24950157 TTTTAAAATT
* *
24950167 TTTA-TTTTTATTTT-TTTTAGT-
1 TTTAGTTTTAATTTTATTTTAATC
* *
24950188 TTTAGTTTTAGTTTTCATTTTTATC
1 TTTAGTTTTAATTTT-ATTTTAATC
24950213 TTT-GTCTTTAATTTTAATTTTAATC
1 TTTAGT-TTTAATTTT-ATTTTAATC
*
24950238 TTTAATTTTAATGTTTATTTTA
1 TTTAGTTTTAAT-TTTATTTTA
24950260 TTTATGTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.07
22 8 0.14
24 7 0.12
25 34 0.60
26 4 0.07
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTAGTTTTAATTTTATTTTAATC
Found at i:24961999 original size:17 final size:19
Alignment explanation
Indices: 24961964--24962000 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
24961954 AAGTTAAGTC
*
24961964 TGAGATTCATTAGATCGTA
1 TGAGATTCATTAGAGCGTA
24961983 TGAGATT-A-TAGAGCGTA
1 TGAGATTCATTAGAGCGTA
24962000 T
1 T
24962001 CGGGCCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (19 bp):
TGAGATTCATTAGAGCGTA
Found at i:24963661 original size:43 final size:43
Alignment explanation
Indices: 24963596--24963689 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
24963586 GTGTTTTTGG
* * * *
24963596 GTAAGACCACGTCTGGGCCGATGGCATCGACTTTTATTTTCGT
1 GTAAGACCACGTCTGGGACGATGACATCGACTTGTATTTTCGA
* * *
24963639 GTAAGACCACTTTTGGGACGATGACATTGACTTGTATTTTCGA
1 GTAAGACCACGTCTGGGACGATGACATCGACTTGTATTTTCGA
24963682 GTAAGACC
1 GTAAGACC
24963690 CTGTCTAGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGATGACATCGACTTGTATTTTCGA
Found at i:24975639 original size:35 final size:35
Alignment explanation
Indices: 24975585--24975699 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 35
24975575 TAGTCGAATA
*
24975585 AGCCCAGCTCTACTTGGATATACCAACGGTATTTG
1 AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
* * * * * **
24975620 TGCCCAGCGCTAGTCGGATAAACCTACAAATAATTAGTG
1 AGCCCAGCTCTAGTTGGATATACCAAC-GGT-ATT--TG
*
24975659 AGTCCAGCTCTAGTTGGATATACCAACGGTATTTG
1 AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
*
24975694 CGCCCA
1 AGCCCA
24975700 TTGTTAGTTG
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
35 27 0.47
36 1 0.02
37 6 0.10
38 1 0.02
39 23 0.40
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (35 bp):
AGCCCAGCTCTAGTTGGATATACCAACGGTATTTG
Found at i:24975713 original size:74 final size:74
Alignment explanation
Indices: 24975588--24975731 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
24975578 TCGAATAAGC
* *
24975588 CCAGCTCTACTTGGATATACCAACGGTATTTGTGCCCAGCGCTAGTCGGATAAACCTACAAATAA
1 CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
*
24975653 TTAGTGAGT
66 ATAGTGAGT
* ** * * *
24975662 CCAGCTCTAGTTGGATATACCAACGGTATTTGCGCCCATTGTTAGTTGGATAAACCGACGAATAA
1 CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
24975727 ATAGT
66 ATAGT
24975732 TATTTATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (74 bp):
CCAGCTCTACTTGGATATACCAACGGTATTTGCGCCCAGCGCTAGTCGGATAAACCGACAAATAA
ATAGTGAGT
Found at i:24978238 original size:98 final size:98
Alignment explanation
Indices: 24978064--24978260 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
24978054 GTACAATAAA
*
24978064 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
24978129 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
24978162 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
24978227 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
24978260 A
1 A
24978261 TTATTTTAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAAATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:24979591 original size:19 final size:19
Alignment explanation
Indices: 24979567--24979698 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
24979557 AATCATATAT
24979567 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
24979586 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
24979605 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
24979624 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
24979645 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
24979664 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
24979683 TCTAAGATTTCATATC
1 TCTAAGATTGCATATC
24979699 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:24979651 original size:59 final size:59
Alignment explanation
Indices: 24979560--24979697 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
24979550 ATTACAAAAT
*
24979560 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
24979615 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
*
24979674 CATATCATATCTAAGATTTCATAT
1 CATATCATATCTAAGATTGCATAT
24979698 CCTCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 57 0.76
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:24988306 original size:16 final size:17
Alignment explanation
Indices: 24988274--24988311 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24988264 CCTAAAATAT
24988274 TATTTAATAATTAAAAA
1 TATTTAATAATTAAAAA
*
24988291 TATTTAATTA-TAAAAA
1 TATTTAATAATTAAAAA
24988307 T-TTTA
1 TATTTA
24988312 CTACTTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTAATAATTAAAAA
Found at i:24988834 original size:158 final size:154
Alignment explanation
Indices: 24988560--24988842 Score: 460
Period size: 158 Copynumber: 1.8 Consensus size: 154
24988550 ATTTCAGCCT
* * *
24988560 TTTGTTCGTATTTATTTCCCGATTTTATTACTTTTAAAAAATATATTATTTTTTAGTTTTATTAT
1 TTTGTTCGTATTTATTTCCCGATTTTATTACTTTAAAAAAATATACTATTTTCTAGTTTTATTAT
24988625 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTATTGAAATTTA
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTATTGAAATTTA
24988690 AAAAAAAAAACCCTTATTTCGTCCC
130 AAAAAAAAAACCCTTATTTCGTCCC
*
24988715 TTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTTAAAAAAAATATACTATTTTCTAGTTTTAT
1 TTTGTTCGTATTTATTTCC-C-GATTTTATTACTTT-AAAAAAATATACTATTTTCTAGTTTTAT
* *
24988780 TATTTTGCATTATTTTAGTACATTATGTTTG-AATGTATTCTTTTAGTGTGGTTTTTATTGAAA
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-GTTTTTATTGAAA
24988843 GTAATAAAAT
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
155 18 0.15
156 1 0.01
157 43 0.36
158 56 0.47
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.54
Consensus pattern (154 bp):
TTTGTTCGTATTTATTTCCCGATTTTATTACTTTAAAAAAATATACTATTTTCTAGTTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTATTGAAATTTAA
AAAAAAAAACCCTTATTTCGTCCC
Found at i:24989247 original size:153 final size:152
Alignment explanation
Indices: 24988840--24989646 Score: 1191
Period size: 152 Copynumber: 5.3 Consensus size: 152
24988830 GTTTTTATTG
* * *
24988840 AAAGTAATAAAATCC-GGTAAAAAATACGAATAAAGGGCCGAAATAAGGGGTTTTTTT-AATTTA
1 AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTA
*
24988903 TTT-AAAAACACACTAAATGAATACATTTCAAACATAGTGTACTAAAATAATGTAAAATAATAAA
66 TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
24988967 ATTAGAAAATAGTATGTTTTTT
131 ACTAGAAAATAGTATATTTTTT
*
24988989 AAAGTAATAAAATCCAGGGAAAAAATATGAACAAAGGGCCGAAATAAGGGTTTTTTTTTAAATTT
1 AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTTTAAATTT
* * *
24989054 ATTT-AAAAACACAGTAAATTAATACATTTCAAACACAATGTACTAAAATAATGTAAAATAATAA
65 ATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
24989118 AATTAGAAAATAGTATATTTTTT
130 AACTAGAAAATAGTATATTTTTT
* *
24989141 AAAAGTAAT-AAATCCAAGGAAAAAAATATGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATT
1 -AAAGTAATAAAATCC-AGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATT
* *
24989205 TATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
64 TATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
24989270 AAA-TACGAAAATAATATATTTTTATT
129 AAACTA-GAAAATAGTATA-TTTT-TT
* *
24989296 GAAAGTAATAAAATCC-GGGAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTTAATTTT
1 -AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTT
* *
24989360 AATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
65 ATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
24989425 AACTAGAAAATAGTATATTTTTT
130 AACTAGAAAATAGTATATTTTTT
* * * *
24989448 AAAGTAATAAAATCCGGGGAAATAAATACAAACAAATGGCCGAAATAAGAGTTTTTTTT-AATTT
1 AAAGTAATAAAATCCAGGGAAA-AAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTT
* * *
24989512 CA-ATAAAAAACATACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAAAATA
65 -ATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
24989576 AAACTAGAAAATAGTATTTTTTTTT
129 AAACTAGAAAATAGTA-TATTTTTT
* *
24989601 AAAGTAATAAAATCCAGGGAAAAAATATGAACAAAGGGCTGAAATA
1 AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATA
24989647 CGAACATGTT
Statistics
Matches: 608, Mismatches: 35, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
149 15 0.02
150 31 0.05
151 22 0.04
152 219 0.36
153 181 0.30
154 122 0.20
155 12 0.02
156 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (152 bp):
AAAGTAATAAAATCCAGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTA
TTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
ACTAGAAAATAGTATATTTTTT
Found at i:24992154 original size:14 final size:13
Alignment explanation
Indices: 24992135--24992168 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
24992125 TTAAATTTAT
24992135 TTAAAATAAATAAA
1 TTAAAAT-AATAAA
*
24992149 TTAAAATCATAAA
1 TTAAAATAATAAA
24992162 TTAAAAT
1 TTAAAAT
24992169 TTACATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAATAATAAA
Found at i:24992222 original size:42 final size:43
Alignment explanation
Indices: 24992176--24992256 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
24992166 AATTTACATT
* *
24992176 TATTAAATAATCAAA-TTATAATTTATATTT-AAT-TTTAAGTAA
1 TATTAAA-AATAAAATTTATAACTTA-ATTTCAATATTTAAGTAA
*
24992218 TATTATAAATAAAATTTATAACTTAATTTCAATATTTAA
1 TATTAAAAATAAAATTTATAACTTAATTTCAATATTTAA
24992257 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
41 10 0.30
42 18 0.55
43 5 0.15
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (43 bp):
TATTAAAAATAAAATTTATAACTTAATTTCAATATTTAAGTAA
Found at i:24996746 original size:15 final size:15
Alignment explanation
Indices: 24996726--24996754 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24996716 AAAAGATGTA
24996726 TTTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
24996741 TTTTCTTTTTTCTT
1 TTTTCTTTTTTCTT
24996755 TTCTTTTTTT
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:24996755 original size:12 final size:12
Alignment explanation
Indices: 24996726--24996763 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
24996716 AAAAGATGTA
24996726 TTTTC-TTT-TT
1 TTTTCTTTTCTT
*
24996736 TCTTCTTTTCTT
1 TTTTCTTTTCTT
24996748 TTTTCTTTTCTT
1 TTTTCTTTTCTT
24996760 TTTT
1 TTTT
24996764 TGCTGCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 3 0.12
12 17 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:24996763 original size:7 final size:7
Alignment explanation
Indices: 24996726--24996756 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
24996716 AAAAGATGTA
24996726 TTTTCTT
1 TTTTCTT
24996733 TTTTCTT
1 TTTTCTT
24996740 CTTTTCTT
1 -TTTTCTT
24996748 TTTTCTT
1 TTTTCTT
24996755 TT
1 TT
24996757 CTTTTTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:24997742 original size:87 final size:87
Alignment explanation
Indices: 24997637--24998147 Score: 842
Period size: 87 Copynumber: 5.9 Consensus size: 87
24997627 ACTTGTAATC
* * * **
24997637 TTCGATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* *
24997702 CTGATGGAGGCAAGGCCTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * **
24997724 TTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGCTATCTTTAACCAACTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
24997789 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
24997811 TTTGATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
24997876 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
24997898 TTCGATCTGCTTCGCTGTTAACGCATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* *
24997963 CTGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
24997985 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTATAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
24998050 CAGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
24998072 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
24998137 CCGATGGAGGC
66 CCGATGGAGGC
24998148 TCTGCTTCGC
Statistics
Matches: 397, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 397 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:24997947 original size:174 final size:173
Alignment explanation
Indices: 24997640--24998235 Score: 871
Period size: 174 Copynumber: 3.5 Consensus size: 173
24997630 TGTAATCTTC
* * * ** *
24997640 GATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACTG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACAG
* * *
24997705 ATGGAGGCAAGGCCTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGCTATCT
66 ATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCT
* *
24997770 TTAACCAACTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTT
131 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTTT
* *
24997814 GATCTGTTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACAG
*
24997879 ATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCATGAAGGCAAGATCTGCTATCT
66 ATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCT
* * *
24997944 TTAACCAGCTCCACTACAACTGATGGAGGCAAGGTTTTGTTTT
131 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
24997987 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTATAACA
1 -GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACA
24998052 GATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATC
65 GATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATC
24998117 TTTAACCAGCTCCACTGCAACCGAT---GG--AGGC--------
130 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * *
24998148 --TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAG
1 GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACAG
*
24998211 ATGGAGGCAAGGGTTTGTTTTCGAT
66 ATGGAGGCAAGGCTTTGTTTTCGAT
24998236 TCTCATTGAT
Statistics
Matches: 393, Mismatches: 28, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
158 83 0.21
169 3 0.01
171 2 0.01
173 4 0.01
174 301 0.77
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (173 bp):
GATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACAG
ATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCT
TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
Found at i:24998101 original size:261 final size:249
Alignment explanation
Indices: 24997637--24998235 Score: 882
Period size: 261 Copynumber: 2.4 Consensus size: 249
24997627 ACTTGTAATC
* * * *
24997637 TTCGATCTGCTTCACTGTTGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
24997702 CTGATGGAGGCAAGGCCTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGCTA
66 CTGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGCTA
* * * *
24997767 TCTTTAACCAACTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGTTTCGCTGTTAA
131 TCTTTAACCAACTCCACTATAACAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
24997832 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTG
196 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT---GG--A-G----G
* *
24997896 TTTTCGATCTGCTTCGCTGTTAACGCATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTAC
1 --TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGC
* * *
24997961 AACTGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
64 AACTGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGC
*
24998026 TATCTTTAACCAGCTCCACTATAACAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
129 TATCTTTAACCAACTCCACTATAACAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
*
24998091 AACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
194 AACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGG
* *
24998147 --C--TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
24998208 CAGATGGAGGCAAGGGTTTGTTTTCGAT
66 CTGATGGAGGCAAGGCTTTGTTTTCGAT
24998236 TCTCATTGAT
Statistics
Matches: 316, Mismatches: 22, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
245 82 0.26
247 1 0.00
251 1 0.00
255 1 0.00
256 1 0.00
258 2 0.01
261 228 0.72
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (249 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CTGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGAAGGCAACATCTGCTA
TCTTTAACCAACTCCACTATAACAGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGG
Found at i:24998193 original size:71 final size:71
Alignment explanation
Indices: 24998077--24998218 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
24998067 TTGTTTTCGA
* *
24998077 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
24998142 GGAGGC
66 GGAGGC
*
24998148 TCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
24998213 GGAGGC
66 GGAGGC
24998219 AAGGGTTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (71 bp):
TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACAGAT
GGAGGC
Found at i:24999946 original size:29 final size:29
Alignment explanation
Indices: 24999863--24999958 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 29
24999853 TTTTCTTTTC
24999863 TTTTTCTCTTTTCATATTTTATTTTGACTTTGA
1 TTTTT-TCTTTTC-T-TTTT-TTTTGACTTTGA
* **
24999896 TTGATTTCTCTTT-TTTGCTTTTGACTTTGA
1 TT-TTTTCT-TTTCTTTTTTTTTGACTTTGA
**
24999926 TTTTTTCTTTTCTTTTTTTTTGTTTTTGA
1 TTTTTTCTTTTCTTTTTTTTTGACTTTGA
24999955 TTTT
1 TTTT
24999959 GATTTTTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
28 3 0.06
29 22 0.42
30 14 0.27
31 2 0.04
32 1 0.02
33 5 0.10
34 5 0.10
ACGTcount: A:0.09, C:0.10, G:0.08, T:0.72
Consensus pattern (29 bp):
TTTTTTCTTTTCTTTTTTTTTGACTTTGA
Found at i:24999953 original size:35 final size:35
Alignment explanation
Indices: 24999906--24999982 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
24999896 TTGATTTCTC
*
24999906 TTTTTTGCTTTTGACTTTGA-TTTTTTCTTTTCTTT
1 TTTTTTGCTTTTGACTTTGATTTTTTTC-TCTCTTT
* *
24999941 TTTTTTGTTTTTGATTTTGATTTTTTTCTCTCTTT
1 TTTTTTGCTTTTGACTTTGATTTTTTTCTCTCTTT
24999976 TTTTTTG
1 TTTTTTG
24999983 AATCTGAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (35 bp):
TTTTTTGCTTTTGACTTTGATTTTTTTCTCTCTTT
Found at i:25003232 original size:265 final size:265
Alignment explanation
Indices: 25002753--25003285 Score: 960
Period size: 265 Copynumber: 2.0 Consensus size: 265
25002743 GTTTGTCCTT
25002753 CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
1 CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
* *
25002818 CAGAGCATACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGGACGAGG
66 CAGAGCATACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
25002883 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
131 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
25002948 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAA-ATGGACTAT
196 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAGA-GGACTAT
25003012 TTTAGA
260 TTTAGA
* *
25003018 CTTGCCGGTGCGACATACGGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
1 CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
* *
25003083 CAGAGCGTACGGAGGCCAGCTGGAGGAGACGCATGCATGCAGAGGCGCAGCACGCACGAAAGAGG
66 CAGAGCATACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
* * *
25003148 CCCTGGGTTCGACGGTGTTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGTTGCGTTG
131 CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
*
25003213 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTGGAGGGTTAGGTCTTTGTAAGAGGACTATT
196 GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAGAGGACTATT
25003278 TTAGA
261 TTAGA
25003283 CTT
1 CTT
25003286 TGGTTTTTAT
Statistics
Matches: 257, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
265 256 1.00
266 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.22
Consensus pattern (265 bp):
CTTGCAGGTGCGACATACAGAAGGTGGACGTGGCACGTACGGAGGCGCGTGAGAGGGCAAGGGCT
CAGAGCATACGGAGGCCAGCTGGAGGAGACGCATGCACGCAGAGGCGCAGCACGCACGAAAGAGG
CCCTGGGTTCGACGGCGCTGGAAGCTGTTTGGTGCTAGGGTTTCTGGTTGTGTTGGGCTGCGTTG
GGCCATGATAGTTAGGCTAGACTAGTGATTGGGCTAGAGGGTTAGGTCTTTGTAAGAGGACTATT
TTAGA
Found at i:25007491 original size:49 final size:50
Alignment explanation
Indices: 25007291--25007532 Score: 315
Period size: 50 Copynumber: 4.8 Consensus size: 50
25007281 GATAATAACA
* * * ** * *
25007291 TGCCAAAGCCATGTCCCAAACATAGTCTTACATGGGATATTCTCCTATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * **
25007342 TGCCCATGCAATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
25007392 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25007442 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25007491 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25007533 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
49 45 0.27
50 90 0.55
51 29 0.18
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25007497 original size:99 final size:100
Alignment explanation
Indices: 25007291--25007533 Score: 353
Period size: 99 Copynumber: 2.4 Consensus size: 100
25007281 GATAATAACA
* * ** ** *
25007291 TGCCAAAGCCATGTCCCAAACATAGTCTTACATGGGATATTCTCCTATCGGTGCCCATGCAATGT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTTATATCGGTGCCAATGCAATGT
* *
25007356 CCCAGACATGGTTTTACGGGGGACCTCTCATCTCGG
65 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
25007392 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATTTCGGTGCCAATGCCATGT-
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCAATGTC
*
25007456 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
25007491 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTT
25007534 TACCCAAATG
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 74 0.57
100 20 0.16
101 35 0.27
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCAATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:25013566 original size:50 final size:50
Alignment explanation
Indices: 25013441--25013633 Score: 217
Period size: 50 Copynumber: 3.8 Consensus size: 50
25013431 GATAATAACA
* ** * *
25013441 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTTCTAATATC-G
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCAG
* * * ** **
25013491 TTACCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 -TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
25013542 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
25013592 TGCCAATGTCATATCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25013634 TTACCCAAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 86 0.73
51 32 0.27
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:25018311 original size:18 final size:18
Alignment explanation
Indices: 25018276--25018314 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25018266 GTCAAGCCAT
* **
25018276 TTTAGGGTTTTAGTTTAG
1 TTTAGGATTTTAACTTAG
25018294 TTTAGGATTTTAACTTAG
1 TTTAGGATTTTAACTTAG
25018312 TTT
1 TTT
25018315 TATTTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.56
Consensus pattern (18 bp):
TTTAGGATTTTAACTTAG
Found at i:25018362 original size:28 final size:28
Alignment explanation
Indices: 25018308--25018363 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
25018298 GGATTTTAAC
25018308 TTAGTTTTATTTTATTTTAAAATTTTTT
1 TTAGTTTTATTTTATTTTAAAATTTTTT
*
25018336 TTAGTTTTA-TTTATTTTAAAATATTTT
1 TTAGTTTTATTTTATTTTAAAATTTTTT
25018363 T
1 T
25018364 ATTTCTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (28 bp):
TTAGTTTTATTTTATTTTAAAATTTTTT
Found at i:25018372 original size:27 final size:27
Alignment explanation
Indices: 25018308--25018373 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
25018298 GGATTTTAAC
*
25018308 TTAGTTTTATTTTATTTTAAAATTTTTT
1 TTAGTTTTA-TTTATTTTAAAATTATTT
25018336 TTAGTTTTATTTATTTTAAAA-TATTT
1 TTAGTTTTATTTATTTTAAAATTATTT
*
25018362 TTATTTCTTATT
1 TTAGTT-TTATT
25018374 ATTCAACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 9 0.26
27 17 0.49
28 9 0.26
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.70
Consensus pattern (27 bp):
TTAGTTTTATTTATTTTAAAATTATTT
Found at i:25025106 original size:19 final size:19
Alignment explanation
Indices: 25025082--25025120 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25025072 TGATCGTCAA
*
25025082 TGTAGATATATTTTAATCT
1 TGTAGATAGATTTTAATCT
*
25025101 TGTAGATAGGTTTTAATCT
1 TGTAGATAGATTTTAATCT
25025120 T
1 T
25025121 AACCGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (19 bp):
TGTAGATAGATTTTAATCT
Found at i:25028879 original size:15 final size:15
Alignment explanation
Indices: 25028859--25028889 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25028849 GTTTTAGTTA
25028859 ATTTTTAATTAATGT
1 ATTTTTAATTAATGT
*
25028874 ATTTTTAATTATTGT
1 ATTTTTAATTAATGT
25028889 A
1 A
25028890 ATTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTAATGT
Found at i:25035527 original size:63 final size:63
Alignment explanation
Indices: 25035451--25035575 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
25035441 AGATAGAGAT
* *
25035451 ATGGATGTAACTTACTAGACTGATATTAGATCAAACTAGACCCAAGAAGAATAGATCCTGAAC
1 ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAAC
* * *** * *
25035514 ATGGATGTGACTTACTGGACTGATAGTAGATTGGACTAGGCCCAAGAAAAATAGATGCTGAA
1 ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAA
25035576 AATCCGTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (63 bp):
ATGGATGTAACTTACTAGACTGATAGTAGATCAAACTAGACCCAAGAAAAATAGATCCTGAAC
Found at i:25039635 original size:13 final size:13
Alignment explanation
Indices: 25039619--25039648 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25039609 TTTTTACCTT
*
25039619 TTAATTTTCTTAG
1 TTAATTTACTTAG
25039632 TTAATTTACTTAG
1 TTAATTTACTTAG
25039645 TTAA
1 TTAA
25039649 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:25049954 original size:18 final size:20
Alignment explanation
Indices: 25049931--25049970 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
25049921 GAGGTGGCAA
25049931 TTTTTCT-AT-CACTTCAAT
1 TTTTTCTAATCCACTTCAAT
25049949 TTTTTCTCAATCCACTTCAAT
1 TTTTTCT-AATCCACTTCAAT
25049970 T
1 T
25049971 CCTCTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 2 0.11
21 10 0.53
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTCTAATCCACTTCAAT
Found at i:25055139 original size:54 final size:54
Alignment explanation
Indices: 25055081--25055226 Score: 157
Period size: 54 Copynumber: 2.7 Consensus size: 54
25055071 TGTGTCTTAA
* * * * *
25055081 ACCGTGTAACTCACTGAGTTGGGTCACATGACCGTGTCGCAGGTCGTGTGCCAG
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
* * * *
25055135 ACCGTATAACTCTCTGACTTGTGACACACGACCGTGTCACAGGCCGTGTGCTAG
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
** * ** *
25055189 GTCGTGTAACTCACTAACTTGATACACACGACTGTGTC
1 ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTC
25055227 TTAAGCCGTG
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (54 bp):
ACCGTGTAACTCACTGACTTGGGACACACGACCGTGTCACAGGCCGTGTGCCAG
Found at i:25058231 original size:9 final size:8
Alignment explanation
Indices: 25058214--25058238 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25058204 CCAAGTAGGA
25058214 TTATTTTT
1 TTATTTTT
25058222 TTATTTTT
1 TTATTTTT
25058230 TTATTTTT
1 TTATTTTT
25058238 T
1 T
25058239 GAATTCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:25068680 original size:15 final size:16
Alignment explanation
Indices: 25068660--25068689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25068650 TTGTTTGGTT
25068660 CACCG-TTTGCTATTC
1 CACCGTTTTGCTATTC
25068675 CACCGTTTTGCTATT
1 CACCGTTTTGCTATT
25068690 ACTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (16 bp):
CACCGTTTTGCTATTC
Found at i:25070613 original size:25 final size:25
Alignment explanation
Indices: 25070584--25070661 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
25070574 TGAAGCAGCT
*
25070584 TTGAAGCAACTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
* * * *
25070609 TTGAAGCAGTTTGCTGCTAATGCCAT
1 TTGAAGCAGCTTGCTGCTATTG-AAA
25070635 TTGAAGCAGCTTGCTGCTATTGAAA
1 TTGAAGCAGCTTGCTGCTATTGAAA
25070660 TT
1 TT
25070662 AAAGGACAAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (25 bp):
TTGAAGCAGCTTGCTGCTATTGAAA
Found at i:25070643 original size:26 final size:25
Alignment explanation
Indices: 25070583--25070658 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
25070573 TTGAAGCAGC
* *
25070583 TTTGAAGCAACTTGCTGCTATTGAA
1 TTTGAAGCAGCTTGCTGCTAATGAA
* * *
25070608 ATTGAAGCAGTTTGCTGCTAATGCCA
1 TTTGAAGCAGCTTGCTGCTAATG-AA
*
25070634 TTTGAAGCAGCTTGCTGCTATTGAA
1 TTTGAAGCAGCTTGCTGCTAATGAA
25070659 ATTAAAGGAC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 20 0.49
26 21 0.51
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (25 bp):
TTTGAAGCAGCTTGCTGCTAATGAA
Found at i:25071228 original size:55 final size:55
Alignment explanation
Indices: 25071161--25071277 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
25071151 TATATTATGA
* * * *
25071161 TTTTAGTAAATTA-ATATAAGAATAATTATATTCAAATTTTTATTAAATTATATAT
1 TTTTATTAAATTATATATAAGAATAATTATATT-AAAATATGATTAAATTATATAT
* * * *
25071216 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 TTTTATTAAATTATATATAAGAATAATTATATTAAAATATGATTAAATTATATAT
25071271 TATTTAT
1 T-TTTAT
25071278 ATTAATAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
55 31 0.60
56 21 0.40
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (55 bp):
TTTTATTAAATTATATATAAGAATAATTATATTAAAATATGATTAAATTATATAT
Found at i:25071233 original size:16 final size:18
Alignment explanation
Indices: 25071196--25071231 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25071186 TTATATTCAA
25071196 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
25071214 ATTTTTATTAAATTATAT
1 ATTTTTATTAAATTATAT
25071232 TTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATTAAATTATAT
Found at i:25084537 original size:23 final size:23
Alignment explanation
Indices: 25084509--25084554 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25084499 GAGGTGTCTG
*
25084509 ATACGACATATAAAATGCCTGAT
1 ATACGACACATAAAATGCCTGAT
*
25084532 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAATGCCTGAT
25084555 CAGCAAGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (23 bp):
ATACGACACATAAAATGCCTGAT
Found at i:25084966 original size:3 final size:3
Alignment explanation
Indices: 25084954--25084983 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
25084944 TAGCTATGGA
25084954 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25084984 CTATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25085507 original size:9 final size:9
Alignment explanation
Indices: 25085495--25085556 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
25085485 CTGCTGTTCT
*
25085495 TTTTGTTTC
1 TTTTATTTC
*
25085504 TTTTACTTC
1 TTTTATTTC
*
25085513 TTTTCTTTC
1 TTTTATTTC
25085522 TTTTATTTC
1 TTTTATTTC
25085531 -TTTAGTTTC
1 TTTTA-TTTC
25085540 TTTTATTTAC
1 TTTTATTT-C
25085550 -TTTATTT
1 TTTTATTT
25085557 TATTTACTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.09
9 36 0.80
10 5 0.11
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTATTTC
Found at i:25085545 original size:18 final size:18
Alignment explanation
Indices: 25085499--25085553 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
25085489 TGTTCTTTTT
* *
25085499 GTTTCTTTTACTTCTTTT
1 GTTTCTTTTATTTCTTTA
*
25085517 CTTTCTTTTATTTCTTTA
1 GTTTCTTTTATTTCTTTA
25085535 GTTTCTTTTATTTACTTTA
1 GTTTCTTTTATTT-CTTTA
25085554 TTTTATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 27 0.84
19 5 0.16
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.71
Consensus pattern (18 bp):
GTTTCTTTTATTTCTTTA
Found at i:25085807 original size:24 final size:24
Alignment explanation
Indices: 25085775--25085836 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
25085765 ATATCATATA
*
25085775 TACCATACACTTGTATTAAATCAT
1 TACCATACATTTGTATTAAATCAT
25085799 TACCATACATTTGTATTAAATCAT
1 TACCATACATTTGTATTAAATCAT
25085823 TACCATACATTTGT
1 TACCATACATTTGT
25085837 CTTTATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (24 bp):
TACCATACATTTGTATTAAATCAT
Found at i:25087681 original size:23 final size:23
Alignment explanation
Indices: 25087654--25087729 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
25087644 AATGTTATTG
25087654 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25087677 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25087700 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25087723 ATCAGTG
1 ATCAGTG
25087730 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25087901 original size:38 final size:37
Alignment explanation
Indices: 25087859--25087931 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
25087849 ATGTGTGGAA
* *
25087859 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
25087897 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
25087932 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:25088759 original size:2 final size:2
Alignment explanation
Indices: 25088754--25088783 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25088744 TATATATATA
25088754 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25088784 ATAATAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:25092443 original size:13 final size:13
Alignment explanation
Indices: 25092399--25092444 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
25092389 AAGATTTAAT
25092399 ATTTATTAGTATA
1 ATTTATTAGTATA
*
25092412 ATATATATT--TATC
1 AT-T-TATTAGTATA
25092425 ATTTATTAGTATA
1 ATTTATTAGTATA
25092438 ATTTATT
1 ATTTATT
25092445 TGACCTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 4 0.15
12 1 0.04
13 17 0.63
14 1 0.04
15 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:25093829 original size:60 final size:61
Alignment explanation
Indices: 25093707--25093832 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 61
25093697 CCTAAATATA
* * * *
25093707 AAAAAATTCAACAAATTTATCCCTCAATGTTAACAAAAATTTTCATTTTAGTTCCAATTCT
1 AAAAAATTCAACAAATTTAGCCCTCAATATTAACAAAAATTTTCAATTTAGTTCCAACTCT
* * * *
25093768 AAAAAATTCAATAAATTTGGCCGTCAATATTTAC-AAAATTATT-AATTTAG-TCCTAACTCT
1 AAAAAATTCAACAAATTTAGCCCTCAATATTAACAAAAATT-TTCAATTTAGTTCC-AACTCT
25093828 AAAAA
1 AAAAA
25093833 TTTAAAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.05
60 22 0.40
61 30 0.55
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (61 bp):
AAAAAATTCAACAAATTTAGCCCTCAATATTAACAAAAATTTTCAATTTAGTTCCAACTCT
Found at i:25095173 original size:2 final size:2
Alignment explanation
Indices: 25095166--25095205 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25095156 CCCACCCCTC
25095166 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25095206 TTTTCATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25101411 original size:33 final size:33
Alignment explanation
Indices: 25101371--25101980 Score: 280
Period size: 33 Copynumber: 18.8 Consensus size: 33
25101361 GTACCAACCC
* *
25101371 GCGCAGCCAAGTGCGAATCCATATGGCCAGCTT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * **
25101404 GCTCAGCCCAGTGCTAATCCATATGGCCAAAAT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * * *
25101437 GGGCAACCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* **
25101470 GCGCAGCCCAGTGCTAATCCATATGGCCAAAAT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * * *
25101503 GGGCAACCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * **
25101536 GCGCAGCCCAGTGCTAACCCATATGGCCAAAAT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * *
25101569 GGGCA-CTCAAGTGCTAATCCCTATGGCCAGCCT
1 GCGCAGC-CAAGTGCTAATCCATATGGCCAGCAT
* * * ** ** *
25101602 GTGCAGCCCAGTGCTAACCCATACAGCCAAAAC
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * * *
25101635 GGGCAGCCAAGTGCTAATCCCTATGGCCTGCCT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * * *
25101668 GCGCAACCCAGTGCAAACCCATATGGCCAG--T
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
*
25101699 -------CAAGTGCTAATCCCTATGGCCAGCCA-
1 GCGCAGCCAAGTGCTAATCCATATGGCCAG-CAT
* * * * * * * *
25101725 ACACAACCAAATGCTATTCCTTATGGTCAATC-T
1 GCGCAGCCAAGTGCTAATCCATATGG-CCAGCAT
* * * * * * *
25101758 GCACAACCAAATGCTAATCCGTATGGTCAACCT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
* * * ** * *
25101791 GCACAACCAAATGCTAATCCATACAGCCAACCT
1 GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
** ** * *
25101824 GTACAGGTACA-TGCTAATCCATATGGCCAACCT
1 GCGCAGCCA-AGTGCTAATCCATATGGCCAGCAT
* ** *
25101857 GCTCAGCCGAA-TGCTAATCCATACAGCCAGCCT
1 GCGCAGCC-AAGTGCTAATCCATATGGCCAGCAT
* * ** *
25101890 ACACAGCCGAA-TGCTAATCCATACAGCCAGCCT
1 GCGCAGCC-AAGTGCTAATCCATATGGCCAGCAT
* * * * *
25101923 ACACAGCCGAA-TGCTAATCCATACGGCCAACCT
1 GCGCAGCC-AAGTGCTAATCCATATGGCCAGCAT
**
25101956 GTACAGCCAAGTGCTAATCCATATG
1 GCGCAGCCAAGTGCTAATCCATATG
25101981 CCCAACCCAC
Statistics
Matches: 449, Mismatches: 110, Indels: 36
0.75 0.18 0.06
Matches are distributed among these distances:
24 19 0.04
31 1 0.00
32 5 0.01
33 419 0.93
34 5 0.01
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (33 bp):
GCGCAGCCAAGTGCTAATCCATATGGCCAGCAT
Found at i:25101462 original size:66 final size:66
Alignment explanation
Indices: 25101377--25101696 Score: 498
Period size: 66 Copynumber: 4.8 Consensus size: 66
25101367 ACCCGCGCAG
* * * * *
25101377 CCAAGTGCGAATCCATATGGCCAGCTTGCTCAGCCCAGTGCTAATCCATATGGCCAAAATGGGCA
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
25101442 A
66 A
*
25101443 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAATCCATATGGCCAAAATGGGCA
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
25101508 A
66 A
25101509 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGC-
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
25101573 A
66 A
* ** *
25101574 CTCAAGTGCTAATCCCTATGGCCAGCCTGTGCAGCCCAGTGCTAACCCATACAGCCAAAACGGGC
1 C-CAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGC
*
25101639 AG
65 AA
* * *
25101641 CCAAGTGCTAATCCCTATGGCCTGCCTGCGCAACCCAGTGCAAACCCATATGGCCA
1 CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCA
25101697 GTCAAGTGCT
Statistics
Matches: 236, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
65 2 0.01
66 233 0.99
67 1 0.00
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (66 bp):
CCAAGTGCTAATCCCTATGGCCAGCCTGCGCAGCCCAGTGCTAACCCATATGGCCAAAATGGGCA
A
Found at i:25102811 original size:18 final size:17
Alignment explanation
Indices: 25102790--25103015 Score: 104
Period size: 18 Copynumber: 13.8 Consensus size: 17
25102780 TGGGGATGAA
*
25102790 CATGGGTATGAACCCAGG
1 CATGGGGATGAA-CCAGG
*
25102808 CATGGGGATGAA-CA-A
1 CATGGGGATGAACCAGG
*
25102823 CATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
* *
25102841 CATGGGGATG-AGCA-A
1 CATGGGGATGAACCAGG
* *
25102856 TATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
* *
25102874 CATGGGGATG-AGCA-A
1 CATGGGGATGAACCAGG
* *
25102889 TATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
*
25102907 CATGGGGATG-AGCA-G
1 CATGGGGATGAACCAGG
* * *
25102922 TATGGGCATGAATCAAGG
1 CATGGGGATGAA-CCAGG
25102940 CATGGGGATG-A--A--
1 CATGGGGATGAACCAGG
*
25102952 CATGGGCATGAATCCAGG
1 CATGGGGATGAA-CCAGG
*
25102970 CATGGGGATGAA-CA-A
1 CATGGGGATGAACCAGG
* *
25102985 CATGGGCATGAATCGAGG
1 CATGGGGATGAA-CCAGG
*
25103003 CATGGAGATGAAC
1 CATGGGGATGAAC
25103016 AATATAGGCA
Statistics
Matches: 151, Mismatches: 36, Indels: 43
0.66 0.16 0.19
Matches are distributed among these distances:
12 9 0.06
13 1 0.01
14 1 0.01
15 47 0.31
16 14 0.09
17 13 0.09
18 66 0.44
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.17
Consensus pattern (17 bp):
CATGGGGATGAACCAGG
Found at i:25102834 original size:33 final size:33
Alignment explanation
Indices: 25102788--25103049 Score: 352
Period size: 33 Copynumber: 8.0 Consensus size: 33
25102778 AATGGGGATG
* *
25102788 AACATGGGTATGAACCCAGGCATGGGGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
*
25102821 AACATGGGCATGAATCCAGGCATGGGGATGAGC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
25102854 AATATGGGCATGAATCCAGGCATGGGGATGAGC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
25102887 AATATGGGCATGAATCCAGGCATGGGGATGAGC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
** *
25102920 AGTATGGGCATGAATCAAGGCATGGGGATG---
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
25102950 AACATGGGCATGAATCCAGGCATGGGGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* *
25102983 AACATGGGCATGAATCGAGGCATGGAGATGAAC
1 AACATGGGCATGAATCCAGGCATGGGGATGAAC
* * *
25103016 AATATAGGCATG-AGCGCAGGCATGGGGATGAAC
1 AACATGGGCATGAATC-CAGGCATGGGGATGAAC
25103049 A
1 A
25103050 TGGGAATGGG
Statistics
Matches: 209, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
30 27 0.13
32 2 0.01
33 180 0.86
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (33 bp):
AACATGGGCATGAATCCAGGCATGGGGATGAAC
Found at i:25102961 original size:129 final size:130
Alignment explanation
Indices: 25102791--25103046 Score: 381
Period size: 129 Copynumber: 2.0 Consensus size: 130
25102781 GGGGATGAAC
* * *
25102791 ATGGGTATGAACCCAGGCATGGGGATGAACAACATGGGCATGAATCCAGGCATGGGGATGAGCAA
1 ATGGGCATGAACCAAGGCATGGGGATG-A-AACATGGGCATGAATCCAGGCATGGGGATGAACAA
* * * * *
25102856 TATGGGCATGAATCCAGGCATGGGGATGAGCAATATGGGCATGAATC-CAGGCATGGGGATGAGC
64 CATGGGCATGAATCCAGGCATGGAGATGAACAATATAGGCATG-AGCGCAGGCATGGGGATGAGC
25102920 AGT
128 AGT
*
25102923 ATGGGCATGAATCAAGGCATGGGGATG-AACATGGGCATGAATCCAGGCATGGGGATGAACAACA
1 ATGGGCATGAACCAAGGCATGGGGATGAAACATGGGCATGAATCCAGGCATGGGGATGAACAACA
*
25102987 TGGGCATGAATCGAGGCATGGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGA
66 TGGGCATGAATCCAGGCATGGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGA
25103047 ACATGGGAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
128 2 0.02
129 87 0.77
132 24 0.21
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.17
Consensus pattern (130 bp):
ATGGGCATGAACCAAGGCATGGGGATGAAACATGGGCATGAATCCAGGCATGGGGATGAACAACA
TGGGCATGAATCCAGGCATGGAGATGAACAATATAGGCATGAGCGCAGGCATGGGGATGAGCAGT
Found at i:25104928 original size:3 final size:3
Alignment explanation
Indices: 25104920--25104945 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25104910 AAATTAGTTA
25104920 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
25104946 AAGGATAGAT
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:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25110179 original size:18 final size:18
Alignment explanation
Indices: 25110156--25110191 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25110146 ATGTTTAGAG
25110156 AGGGTTACTAATCAAGAT
1 AGGGTTACTAATCAAGAT
25110174 AGGGTTACTAATCAAGAT
1 AGGGTTACTAATCAAGAT
25110192 CAAATAACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
AGGGTTACTAATCAAGAT
Found at i:25110650 original size:11 final size:11
Alignment explanation
Indices: 25110634--25110691 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
25110624 TATGCAACTT
25110634 TTTTTTTGCGG
1 TTTTTTTGCGG
25110645 TTTTTTTTGC-G
1 -TTTTTTTGCGG
* *
25110656 -CTTTTTGC-T
1 TTTTTTTGCGG
25110665 TTTTTTTGCGG
1 TTTTTTTGCGG
*
25110676 TTTTTTTGCGC
1 TTTTTTTGCGG
25110687 TTTTT
1 TTTTT
25110692 GCTTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 7 0.18
10 7 0.18
11 16 0.41
12 9 0.23
ACGTcount: A:0.00, C:0.12, G:0.19, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:25110670 original size:31 final size:30
Alignment explanation
Indices: 25110633--25110701 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
25110623 GTATGCAACT
25110633 TTTTTTTTGCGGTTTTTTTTGCGCTTTTTGC
1 TTTTTTTTGCGG-TTTTTTTGCGCTTTTTGC
25110664 TTTTTTTTGCGGTTTTTTTGCGCTTTTTGC
1 TTTTTTTTGCGGTTTTTTTGCGCTTTTTGC
25110694 TTTTTTTT
1 TTTTTTTT
25110702 AAAGAATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 26 0.68
31 12 0.32
ACGTcount: A:0.00, C:0.12, G:0.17, T:0.71
Consensus pattern (30 bp):
TTTTTTTTGCGGTTTTTTTGCGCTTTTTGC
Found at i:25117347 original size:46 final size:46
Alignment explanation
Indices: 25117297--25117404 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
25117287 GTGTTTCTAT
* * * * *
25117297 TATTGATTTGGCGAGTATTATACTTGAGGGGTAGTAGTGTTTTTGC
1 TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
* * * *
25117343 TATTGACTTGGTGAGTAGTATCCTCGAAGGGTACTAGTTTTTTTTC
1 TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
*
25117389 TATTGACTTAGCGAGT
1 TATTGACTTGGCGAGT
25117405 TTGAAAGGCA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (46 bp):
TATTGACTTGGCGAGTAGTATACTCGAAGGGTACTAGTGTTTTTGC
Found at i:25117450 original size:20 final size:20
Alignment explanation
Indices: 25117408--25117450 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25117398 AGCGAGTTTG
*
25117408 AAAGGCAATGTCGAACTTGA
1 AAAGGCAATGTCGAACTTAA
* *
25117428 AAAGGCAGTGTCGAGCTTAA
1 AAAGGCAATGTCGAACTTAA
25117448 AAA
1 AAA
25117451 ATCTAGAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.19
Consensus pattern (20 bp):
AAAGGCAATGTCGAACTTAA
Found at i:25117814 original size:132 final size:131
Alignment explanation
Indices: 25117606--25117905 Score: 332
Period size: 132 Copynumber: 2.3 Consensus size: 131
25117596 ACACATGAAT
* *** * * *
25117606 AATAATTTTTTTACAATAATA-ATTTTTACCTCTCATTGGAGTATTCCTAAAAAGGCTAGAAGGT
1 AATAA-TTTTTTACAATAATATATTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGAT
* * * * * *
25117670 GCTCGCTGATTTATCAACGAGGTATATATGGCACGACATTTATCCCTGCGCAACACAGAGAAATA
65 GCTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATA
25117735 TC
130 TC
* * * *
25117737 AATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGTGTGCCTGAAAAGACTAGTAGAT
1 AATAATTTTTTACAATAATATA-TTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGAT
* * * * ** * ** *
25117802 GCTTGCTCATTTATCGATGAGTTATACATGGTGCCACATTTATCTATGCATGACTCAGAAAAATA
65 GCTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATA
25117867 TC
130 TC
25117869 AATAATTTTTTACAATAATATATTTTTACCTTTCATC
1 AATAATTTTTTACAATAATATATTTTTACCTTTCATC
25117906 GGAGCGTGCC
Statistics
Matches: 139, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
130 14 0.10
131 21 0.15
132 104 0.75
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (131 bp):
AATAATTTTTTACAATAATATATTTTTACCTTTCATCAAAGTATGCCTAAAAAGACTAGAAGATG
CTCGCTCATTTATCAACGAGGTATACATGGCACCACATTTATCCATGCACAACACAGAAAAATAT
C
Found at i:25117988 original size:131 final size:132
Alignment explanation
Indices: 25117725--25117975 Score: 326
Period size: 131 Copynumber: 1.9 Consensus size: 132
25117715 CTGCGCAACA
* * *
25117725 CAGAGAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGTGTGCCTGAAA
1 CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
* ** * * *
25117790 AGACTAGTAGATGCTTGCTCATTTATCGATGAGTTATACATGGTGCCACATTTATCTATGCATGA
66 AGACTAGAAGATGCTCACTCATTAATCGATGAGTTACACATGGTGCAACATTTATCTATGCATGA
25117855 CT
131 CT
* **
25117857 CAGAAAAATATCAATAATTTTTTACAATAATATA-TTTTTACCTTTCATCGGAGCGTGCCTAAAA
1 CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
** * * *
25117921 AGGTTAGAAGGTTCTCACTCATTAATCGGTGAAG-TACACATGGTGCAACATTTAT
66 AGACTAGAAGATGCTCACTCATTAATCGATG-AGTTACACATGGTGCAACATTTAT
25117976 ACTTGTGTGA
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
131 67 0.66
132 34 0.34
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (132 bp):
CAGAAAAATATCAATAATTTTCTACAATAATATATTTTTTACCTTTCATCAAAGCGTGCCTAAAA
AGACTAGAAGATGCTCACTCATTAATCGATGAGTTACACATGGTGCAACATTTATCTATGCATGA
CT
Found at i:25122378 original size:50 final size:50
Alignment explanation
Indices: 25122270--25122516 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
25122260 ATTTGGGTAA
*
25122270 AGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
25122326 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
25122376 AGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * * * *
25122426 TGA-ACTCCCATGTAAGATCATATCTGGGATATGGCATTGGCAGT-ACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * *
25122475 AAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25122517 TGTTATTATC
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 37 0.23
50 80 0.50
53 4 0.02
55 1 0.01
56 39 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:25123830 original size:242 final size:240
Alignment explanation
Indices: 25123407--25123892 Score: 857
Period size: 242 Copynumber: 2.0 Consensus size: 240
25123397 GTATAGAAAG
*
25123407 AATTAGAAGTTATAATTTATATTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGTA
1 AATTAGAAGTCATAATTTATATTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGTA
25123472 GGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAAA
66 GGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAAA
*
25123537 CGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCATCCCAAAAATTTTGACAATTTTATGG
131 CGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCATCCCAAAAATTTTGAAAATTTTATGG
25123602 TAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACGGATCTA
196 TAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACGGATCTA
* *
25123647 AATTAGAAGTCATAATTTAAATTTTTTTTTGATTCCTTATTGAGTCTATTTTTAGTGGAAATAAG
1 AATTAGAAGTCATAATTT--ATATTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAG
* * *
25123712 TATGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAGGACTGTCGAACAGTGA
64 TAGGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGA
25123777 AACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCAAT-CCAAAAATTTTGAAAATTTTA
129 AACGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCC-ATCCCAAAAATTTTGAAAATTTTA
* *
25123841 TGGTAAGAAGGTATATGAGTCTAGTTTTGGAGAAAATTTACGGATCTA
193 TGGTAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACGGATCTA
25123889 AATT
1 AATT
25123893 TCGAGTTTTG
Statistics
Matches: 234, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
240 17 0.07
242 215 0.92
243 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (240 bp):
AATTAGAAGTCATAATTTATATTTTTTTGATTCCTTATTGAGTCTATTTTCAGTGGAAATAAGTA
GGAAGTCTATAAAATGAGATAATTAATTTTTAGTGATGAGAGGTCAAGACTATCGAACAGTGAAA
CGGGGGAGACTTTAACTAATAAACTGTACTAATCGGCCATCCCAAAAATTTTGAAAATTTTATGG
TAAGAAGGTATATGAGTCTAGTTTTAGAGAAAATGTACGGATCTA
Found at i:25132297 original size:26 final size:25
Alignment explanation
Indices: 25132260--25132319 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
25132250 TTTTCTCGAG
* *
25132260 GTAAAATCGTCAAAATTTTACTAGG-
1 GTAAAATTGTCAAAACTTTACT-GGA
25132285 GATAAAATTGTCAAAACTTTACTGGA
1 G-TAAAATTGTCAAAACTTTACTGGA
25132311 GTAAAATTG
1 GTAAAATTG
25132320 GGATGAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (25 bp):
GTAAAATTGTCAAAACTTTACTGGA
Found at i:25136340 original size:49 final size:50
Alignment explanation
Indices: 25136209--25136341 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
25136199 ATAACACACC
* **
25136209 AATAATGTGGACAAGCCACCACATAATGCAG-TCGAGCTACCAGAAACAA
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
* * * * *
25136258 AATAATGTGGTCAAACCACCAGATATTGCAGATTTA-CTGCCAGATACAA
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
* *
25136307 AATATTGTGGACAAGCCGCCAGATAATGCAGATTT
1 AATAATGTGGACAAGCCACCAGATAATGCAGATTT
25136342 GTTGTCAAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 68 0.97
50 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (50 bp):
AATAATGTGGACAAGCCACCAGATAATGCAGATTTAGCTACCAGAAACAA
Found at i:25136688 original size:26 final size:26
Alignment explanation
Indices: 25136635--25136688 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
25136625 GTCATGAGTA
* *
25136635 ATAGAAATCACAAAATTACATATTTT
1 ATAGAAATCACAAAATCACATATATT
*
25136661 ATAGAAATCACCAAATCACA-ATCATT
1 ATAGAAATCACAAAATCACATAT-ATT
25136687 AT
1 AT
25136689 CACAGATCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.30
Consensus pattern (26 bp):
ATAGAAATCACAAAATCACATATATT
Found at i:25140320 original size:342 final size:342
Alignment explanation
Indices: 25139695--25140383 Score: 1157
Period size: 342 Copynumber: 2.0 Consensus size: 342
25139685 TACAGGCCAT
* * * *
25139695 TGTTAGAATGAAACATTATGCGCTTGTTGTTTTTCTGGGTAGCCAGATGGAATTACGGGGAGTTT
1 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
*
25139760 CACATAATGCTTATTCTTTCACTATCTTGATTAATTGCTTTTGTCATTTAGGTAAAGTTGATTTT
66 CACATAATGCTTATTCTTTCACTATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
*
25139825 GGGTTTTCTGTTTTGGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
131 GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
* ** *
25139890 CTTGATTAATGGACTTTGTAATCAAAGCAGGGTTTCTCAGGCTGTGGATTTGTTTTATGAAATGA
196 CTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGAAGATTTGTTTGATGAAATGA
* * * *
25139955 TCGAAAAAGGGTATCGACCTGATTCATTTGCTTGCAATACAGTACTTAATGGGTTGTGCAAGTCT
261 TCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGACT
*
25140020 GGTAACACTGGTCGAGC
326 GGGAACACTGGTCGAGC
*
25140037 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTATGGGGAGTTT
1 TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
*
25140102 CACATGATGCTTATTCTTTCAAC-ATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTT
66 CACATAATGCTTATTCTTTC-ACTATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTT
*
25140166 TGGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTGATGTTGTAACTTTGTCCA
130 TGGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCA
*
25140231 CTTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGCAAG-TTTGTTTGATGAAAT
195 CCTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTG-AAGATTTGTTTGATGAAAT
* *
25140295 GATCAAAAAAGGGTGTCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGTAAGA
259 GATCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGA
25140360 CTGGGAACACTGGTCGAGC
324 CTGGGAACACTGGTCGAGC
25140379 TGTTA
1 TGTTA
25140384 AGTTTCTAAG
Statistics
Matches: 324, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
342 321 0.99
343 3 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (342 bp):
TGTTAGAATGAAACATTATGCGCTTGCTGTTTCTCTGGGCAGCCAGATGGAACTACGGGGAGTTT
CACATAATGCTTATTCTTTCACTATCTTGATTAATTGCTTTTGTCAGTTAGGTAAAGTTGATTTT
GGGTTTTCTGTTTTAGGGAAAATGCTCAAGTTAGGTTTTGAACCTAATGTTGTAACTTTGTCCAC
CTTGATTAATGGACTTTGTAATCAAAGCAAGGTTTCTCAGGCTGAAGATTTGTTTGATGAAATGA
TCAAAAAAGGGTATCGACCTGATTCAGTTGCTTACAATACAGTACTTAATGGGTTGTGCAAGACT
GGGAACACTGGTCGAGC
Found at i:25140822 original size:105 final size:104
Alignment explanation
Indices: 25140629--25141167 Score: 404
Period size: 105 Copynumber: 5.1 Consensus size: 104
25140619 CAATGTTTCT
* * * * * * * * *
25140629 CCTGATATTTTCACGTATAACATATTGATTGATGCACATTGCAAGGAGGGGACAATTTCGGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * ** * ** **
25140694 TGTAAATATCTTTAATGCGATGAGAAAGCAAGGTGTCAAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* ** * *
25140734 CCTGATGTTGTCACCTATAATATAGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAATC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGAT-ATTTCTGAAGC
* * *
25140799 TTTGGATATGGTTCACACAATGAGAAAGCAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * * * * **
25140839 CCTGATGTTGTCACGTATAGTACATTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * * * * *
25140904 CGAAGATATTGTTGACACGATGAGAAAGGAAGGCATTGAG
65 TGTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
* * * *
25140944 CCTGATGTTGTGACGTATAATATATTGGTTGATGCGTATTGCAAGGAGAGGAGTATTTCTAAAGC
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGA-TATTTCTGAAGC
* * ** *
25141009 TGTAGATACCATTGC-CACAATGAGAAAGCAAGGTGTGGAG
65 TGTAGATATCGTT-CACACAATGAGAAAGCAAGGCATTGAG
* ** * *
25141049 CCTGATGTTGTCACCTATAACATATTTATTGATGCACT-TTGCAAGAATG-GGATGGTTTCTGAA
1 CCTGATGTTGTCACCTATAATATATTGGTTGATGCA-TATTGCAAGGA-GAGGAT-ATTTCTGAA
* * * *
25141112 GCTGAATG-TATTG-TCGACACAATGAGAAAACAATGCATTGAG
63 GCTGTA-GATATCGTTC-ACACAATGAGAAAGCAAGGCATTGAG
* *
25141154 CCTAATTTTGTCAC
1 CCTGATGTTGTCAC
25141168 ATACAGAACT
Statistics
Matches: 336, Mismatches: 89, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
103 1 0.00
104 2 0.01
105 330 0.98
106 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (104 bp):
CCTGATGTTGTCACCTATAATATATTGGTTGATGCATATTGCAAGGAGAGGATATTTCTGAAGCT
GTAGATATCGTTCACACAATGAGAAAGCAAGGCATTGAG
Found at i:25141030 original size:210 final size:210
Alignment explanation
Indices: 25140629--25141167 Score: 541
Period size: 210 Copynumber: 2.6 Consensus size: 210
25140619 CAATGTTTCT
* * * * * ** *
25140629 CCTGATATTTTCACGTATAACATATTGATTGATGCACATTGCAAGGAGGGGACAATTTCGGAAGC
1 CCTGATGTTGTCACCTATAACACATTTATTGATGCACATTGCAAGGAGGGGACGGTTTCTGAAGC
* ** ** **
25140694 TGTAA-ATATCT-TTAATGCGATGAGAAAGCAAGGTGTCAAGCCTGATGTTGTCACCTATAATAT
66 TG-AAGATAT-TGTTGACACGATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACCTATAATAT
* * * * * ***
25140757 AGTGGTTGATGCATGGTGCAAGGAGAGGCTAATTTCTGAATCTTTGGATATGGTTCACACAATGA
129 AGTGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAAGCTGTAGATACCATTCACACAATGA
*
25140822 GAAAGCAAGGCATTGAG
194 GAAAGCAAGGCATGGAG
* ** *
25140839 CCTGATGTTGTCACGTATAGTACA-TTAGTTGATGCACATTGCAAGGAGGGGAGGGTTTCTGAAG
1 CCTGATGTTGTCACCTATAACACATTTA-TTGATGCACATTGCAAGGAGGGGACGGTTTCTGAAG
* * * *
25140903 CCGAAGATATTGTTGACACGATGAGAAAGGAAGGCATTGAGCCTGATGTTGTGACGTATAATATA
65 CTGAAGATATTGTTGACACGATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACCTATAATATA
* * * *
25140968 TTGGTTGATGCGTATTGCAAGGAGAGGAGT-ATTTCTAAAGCTGTAGATACCATTGC-CACAATG
130 GTGGTTGATGCATAGTGCAAGGAGAGG-CTAATTTCTAAAGCTGTAGATACCATT-CACACAATG
**
25141031 AGAAAGCAAGGTGTGGAG
193 AGAAAGCAAGGCATGGAG
* * * * *
25141049 CCTGATGTTGTCACCTATAACATATTTATTGATGCACTTTGCAAGAATGGGATGGTTTCTGAAGC
1 CCTGATGTTGTCACCTATAACACATTTATTGATGCACATTGCAAGGAGGGGACGGTTTCTGAAGC
* * * * * *
25141114 TGAATG-TATTGTCGACACAATGAGAAAACAATGCATTGAGCCTAATTTTGTCAC
66 TGAA-GATATTGTTGACACGATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
25141168 ATACAGAACT
Statistics
Matches: 269, Mismatches: 53, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
209 5 0.02
210 258 0.96
211 6 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (210 bp):
CCTGATGTTGTCACCTATAACACATTTATTGATGCACATTGCAAGGAGGGGACGGTTTCTGAAGC
TGAAGATATTGTTGACACGATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACCTATAATATAG
TGGTTGATGCATAGTGCAAGGAGAGGCTAATTTCTAAAGCTGTAGATACCATTCACACAATGAGA
AAGCAAGGCATGGAG
Found at i:25142112 original size:22 final size:21
Alignment explanation
Indices: 25142070--25142113 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
25142060 ATCCTCAACA
25142070 CTTCATTGCAAAAGCTCGAAG
1 CTTCATTGCAAAAGCTCGAAG
25142091 CTTCACTTGCTAAAAGCT-GAAG
1 CTTCA-TTGC-AAAAGCTCGAAG
25142113 C
1 C
25142114 AATCGGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (21 bp):
CTTCATTGCAAAAGCTCGAAG
Found at i:25144233 original size:33 final size:32
Alignment explanation
Indices: 25144181--25144349 Score: 142
Period size: 33 Copynumber: 5.2 Consensus size: 32
25144171 GTCCATACAG
* *
25144181 AACCTGCACGACCAAATGCTAATCCATAAGACC
1 AACCTGCAC-AGCAAATGCTAATCCATAAGGCC
25144214 AACCTGCACAGCAACATGCTAATCCAT-AGGCTC
1 AACCTGCACAGCAA-ATGCTAATCCATAAGGC-C
* ** * *
25144247 AAACTGCATGGCCAAATGCTAATCCACACGGCC
1 AACCTGCACAG-CAAATGCTAATCCATAAGGCC
* * * * *
25144280 AAACTGCTCAGCCAATGCTAATGCATATGGCC
1 AACCTGCACAGCAAATGCTAATCCATAAGGCC
* * * *
25144312 AACCTGTACAGCTAAGTGCTAATCCATATGCCC
1 AACCTGCACAGC-AAATGCTAATCCATAAGGCC
25144345 AACCT
1 AACCT
25144350 ACATAGTCAA
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
32 33 0.30
33 71 0.65
34 6 0.05
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (32 bp):
AACCTGCACAGCAAATGCTAATCCATAAGGCC
Found at i:25148115 original size:17 final size:18
Alignment explanation
Indices: 25148079--25148116 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
25148069 TTATTGCTCG
*
25148079 TGTATTTTATTGCTTATT
1 TGTATTTTATTGATTATT
*
25148097 TGTA-TTTATTGATTCTT
1 TGTATTTTATTGATTATT
25148114 TGT
1 TGT
25148117 CGCTCATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (18 bp):
TGTATTTTATTGATTATT
Found at i:25153734 original size:105 final size:105
Alignment explanation
Indices: 25153581--25153900 Score: 442
Period size: 105 Copynumber: 3.0 Consensus size: 105
25153571 ATATTTTCAT
* * * * ** * **
25153581 GTATAATATGTTGATTGATGCACATTGCAAGGAGGGGACAATTTCTGAAGCTGTAGATACCATTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
25153646 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * * *
25153686 GTATAGTATATTGGTTGATGCACATTGTAAGGAAGGGATGATTCCTGAAGCTAAAGATATTTTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* * *
25153751 AGACAATGATAAAGCAAGGCATTGAGCCTAATGTTGTCAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
* * *
25153791 GTATAGTATATTGGTTGATGCACTTTGTAAGGAGGGGATGGTTTCTGAAGCTGAAGATATTGTTG
1 GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
* *
25153856 ACACAATGAGAAATCAAGGCATTGAGCCTGATGTTGTTAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
*
25153896 CTATA
1 GTATA
25153901 ATGCATTGAT
Statistics
Matches: 187, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 187 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (105 bp):
GTATAGTATATTGGTTGATGCACATTGTAAGGAGGGGATGATTTCTGAAGCTGAAGATATTATTG
ACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTGTTAC
Found at i:25162661 original size:19 final size:19
Alignment explanation
Indices: 25162639--25162680 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
25162629 ATCAAAACTC
25162639 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAAGTTTTAAA
* *
25162658 GTTTCTCCAAATTTTTTAA
1 GTTTCTCCAAAGTTTTAAA
25162677 GTTT
1 GTTT
25162681 TAAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (19 bp):
GTTTCTCCAAAGTTTTAAA
Found at i:25163395 original size:13 final size:13
Alignment explanation
Indices: 25163363--25163398 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
25163353 CATTGCTTTT
*
25163363 GAAAAGCGCTGTG
1 GAAAAGTGCTGTG
25163376 GAAAAGTGCTGTG
1 GAAAAGTGCTGTG
25163389 GAAAAGTGCT
1 GAAAAGTGCT
25163399 TTTGAGAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.19
Consensus pattern (13 bp):
GAAAAGTGCTGTG
Found at i:25173671 original size:21 final size:21
Alignment explanation
Indices: 25173638--25173677 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
25173628 GATTCCTAAG
25173638 ATAAACATAAAAGT-AGAGCA
1 ATAAACATAAAAGTGAGAGCA
*
25173658 ATAAATATCAAAAGTGAGAG
1 ATAAACAT-AAAAGTGAGAG
25173678 ATCACTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
ATAAACATAAAAGTGAGAGCA
Found at i:25175522 original size:49 final size:49
Alignment explanation
Indices: 25175451--25175574 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
25175441 CCAGTTCATG
* * ** * *
25175451 GTGGTTATACAATCACAAGTTGAAGTATAACT-AGGGCTCCAAGTTGACG
1 GTGGTTATGCGATCACGGGTTGAAGTATAACTCA-GGCCCCAAGTTGACA
* * *
25175500 GTGGTTATGCGGTCACGGGTTGAAGTATAACTCAGGCCCCCAGTTGATA
1 GTGGTTATGCGATCACGGGTTGAAGTATAACTCAGGCCCCAAGTTGACA
*
25175549 GTGGTTATGCGATCACGGGTTCAAGT
1 GTGGTTATGCGATCACGGGTTGAAGT
25175575 TTCATGATAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 62 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (49 bp):
GTGGTTATGCGATCACGGGTTGAAGTATAACTCAGGCCCCAAGTTGACA
Found at i:25179322 original size:17 final size:17
Alignment explanation
Indices: 25179300--25179394 Score: 65
Period size: 17 Copynumber: 5.6 Consensus size: 17
25179290 TTAGAAGAAA
25179300 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
25179317 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
**
25179337 AATATTAAATT-AATAC
1 AATATTAAATTAAATTT
* *
25179353 AATA--CAATT-AAGTT
1 AATATTAAATTAAATTT
*
25179367 AAGCATTAAATTAAATTT
1 AA-TATTAAATTAAATTT
25179385 AATATTAAAT
1 AATATTAAAT
25179395 ATATTAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 5 0.08
17 23 0.39
18 7 0.12
19 3 0.05
20 12 0.20
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:25179350 original size:20 final size:18
Alignment explanation
Indices: 25179300--25179351 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
25179290 TTAGAAGAAA
25179300 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
25179317 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
25179337 AATATTAAATTAATA
1 AATATTAAATTAATA
25179352 CAATACAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:25190562 original size:27 final size:27
Alignment explanation
Indices: 25190508--25190576 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
25190498 AAACCTTTAC
* * *
25190508 CCTTAAATCCAAACCCCTAACACTTAAA
1 CCTTAAATCCCAA-CACTAACACCTAAA
*
25190536 CCTTAAATCCCAACACTAACCCCTAAA
1 CCTTAAATCCCAACACTAACACCTAAA
*
25190563 CCTTAAATCTCAAC
1 CCTTAAATCCCAAC
25190577 CCTTAAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.22
Consensus pattern (27 bp):
CCTTAAATCCCAACACTAACACCTAAA
Found at i:25190597 original size:14 final size:15
Alignment explanation
Indices: 25190580--25190612 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25190570 TCTCAACCCT
25190580 TAAAT-CATAATCCC
1 TAAATCCATAATCCC
*
25190594 TAAATCCATACTCCC
1 TAAATCCATAATCCC
25190609 TAAA
1 TAAA
25190613 CCTTACACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:25191060 original size:41 final size:41
Alignment explanation
Indices: 25190997--25191109 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
25190987 AAATATTTTT
* *
25190997 GCGGCACTTTTCCAAAAACGCCGCTAAAGCC-CAGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTC-GAGAATTA
* * *
25191038 GCGGTGCTTTTTCAAAAACGCCGCTAAAACCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGAATTA
*
25191079 GCGGCGCTTTTTCAAAAATGCCGCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
25191110 AAGAAAGGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 62 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTCGAGAATTA
Found at i:25191248 original size:40 final size:40
Alignment explanation
Indices: 25191145--25191280 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
25191135 TGGGCTTAGG
* * * **
25191145 TTTTTTGCGGCATTTTAAAAAAAAAGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGA
* **
25191184 TTTTTAGCGGC-TGTTTACTTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTA-AAAAAGCGCCGCTAATGCTCGA
*
25191224 TCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGA
*
25191264 TTTTTAGCAGCGTTTTT
1 TTTTTAGCGGCGTTTTT
25191281 TGTCCAAACG
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.05
39 26 0.32
40 46 0.57
41 5 0.06
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGA
Found at i:25192548 original size:29 final size:29
Alignment explanation
Indices: 25192514--25192590 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
25192504 TCTTTAAAAT
*
25192514 CAAGAGTCTGGCATTGACTATCCACCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
* * ***
25192543 CAAGAGTTTGGCAGTAACTATTTGCCAAA
1 CAAGAGTCTGGCAGTGACTATCCACCAAA
*
25192572 CAAGAGTCTAGCAGTGACT
1 CAAGAGTCTGGCAGTGACT
25192591 CTCGTTTAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (29 bp):
CAAGAGTCTGGCAGTGACTATCCACCAAA
Found at i:25202687 original size:29 final size:30
Alignment explanation
Indices: 25202633--25202693 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
25202623 ATAATTTGCA
* *
25202633 AAAATTGAATTAAATTAATATTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
*
25202663 AAAATTGCATAAAATTAA-AGTTCATGTAT
1 AAAATTGAATAAAATTAATAGTTCATGTAT
25202692 AA
1 AA
25202694 GATCGTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATTGAATAAAATTAATAGTTCATGTAT
Found at i:25204653 original size:11 final size:10
Alignment explanation
Indices: 25204628--25204677 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
25204618 TGCTTTACTG
*
25204628 TTGTTTTCCA
1 TTGTTTTCTA
25204638 TTGTTTTGCTA
1 TTGTTTT-CTA
25204649 TTGTTTTTCTA
1 TTG-TTTTCTA
25204660 TTGTTTTCTCA
1 TTGTTTTCT-A
25204671 TTGTTTT
1 TTGTTTT
25204678 ACTACTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 13 0.36
11 19 0.53
12 4 0.11
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.68
Consensus pattern (10 bp):
TTGTTTTCTA
Found at i:25204694 original size:33 final size:32
Alignment explanation
Indices: 25204628--25204694 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
25204618 TGCTTTACTG
* * * **
25204628 TTGTTTTCCATTGTTTTGCTATTGTTTTTCTA
1 TTGTTTTCCATTGTTTTACTACTATTTCACTA
25204660 TTGTTTTCTCATTGTTTTACTACTATTTCACTA
1 TTGTTTTC-CATTGTTTTACTACTATTTCACTA
25204693 TT
1 TT
25204695 ATGTTGCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (32 bp):
TTGTTTTCCATTGTTTTACTACTATTTCACTA
Found at i:25206167 original size:10 final size:10
Alignment explanation
Indices: 25206129--25206194 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
25206119 ATAAATTTAT
25206129 TTATATATTA
1 TTATATATTA
*
25206139 GTA-ATATTA
1 TTATATATTA
25206148 TTTATATATTA
1 -TTATATATTA
*
25206159 TTCTATATTA
1 TTATATATTA
25206169 TTAATATATT-
1 TT-ATATATTA
25206179 TTA-AT-TTA
1 TTATATATTA
25206187 -TATATATT
1 TTATATATT
25206195 TAAATTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 4 0.09
8 4 0.09
9 9 0.20
10 17 0.37
11 12 0.26
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TTATATATTA
Found at i:25206168 original size:30 final size:32
Alignment explanation
Indices: 25206113--25206193 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 32
25206103 AACGCATATT
25206113 TTATTTATAAATTTATTTATATATTAGTAATA
1 TTATTTATAAATTTATTTATATATTAGTAATA
* * *
25206145 TTATTTATATA-TTA-TTCTATATTATTAATA
1 TTATTTATAAATTTATTTATATATTAGTAATA
*
25206175 -TATTT-T-AATTTATATATAT
1 TTATTTATAAATTTATTTATAT
25206194 TTAAATTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 4 0.10
29 9 0.22
30 14 0.34
31 3 0.07
32 10 0.24
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATTTATAAATTTATTTATATATTAGTAATA
Found at i:25206202 original size:15 final size:14
Alignment explanation
Indices: 25206172--25206208 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
25206162 TATATTATTA
*
25206172 ATATATTTTAATTT
1 ATATATTTTAAATT
25206186 ATATATATTTAAATT
1 ATATAT-TTTAAATT
25206201 ATATATTT
1 ATATATTT
25206209 ATATGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:25206391 original size:21 final size:21
Alignment explanation
Indices: 25206351--25206389 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25206341 AAATCATAGA
*
25206351 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCAACTCTTTCT
25206372 TAAATCCAAGCAA-TCTTT
1 TAAATCCAAGCAACTCTTT
25206390 TCGTAGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCAACTCTTTCT
Found at i:25207128 original size:93 final size:93
Alignment explanation
Indices: 25206994--25207170 Score: 318
Period size: 93 Copynumber: 1.9 Consensus size: 93
25206984 TGAGATAGCT
* * *
25206994 ATTTGTGCAAGTATTTTGCGATTCAGAAGCAACTGTTTCTTGTACAGATTGTGTATTAATCTACT
1 ATTTGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGACTGTGTATTAATCTACT
25207059 ATAACTATAGGATACCCCCACTCCGCGA
66 ATAACTATAGGATACCCCCACTCCGCGA
*
25207087 ATTTGTGCAAGTATTTTGTGATTCAAAAGCAACTGTGTCTTGTACAGACTGTGTATTAATCTACT
1 ATTTGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGACTGTGTATTAATCTACT
25207152 ATAACTATAGGATACCCCC
66 ATAACTATAGGATACCCCC
25207171 CACACTGCGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 80 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (93 bp):
ATTTGTGCAAGTATTTTGCGATTCAAAAGCAACTGTGTCTTGTACAGACTGTGTATTAATCTACT
ATAACTATAGGATACCCCCACTCCGCGA
Found at i:25209597 original size:8 final size:8
Alignment explanation
Indices: 25209584--25209624 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
25209574 ATGGTAACAA
25209584 TAAATTTT
1 TAAATTTT
25209592 TAAATTTT
1 TAAATTTT
25209600 TAAATTTT
1 TAAATTTT
25209608 TAAATTTT
1 TAAATTTT
*
25209616 AAAATTTT
1 TAAATTTT
25209624 T
1 T
25209625 TTATTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TAAATTTT
Found at i:25214598 original size:22 final size:22
Alignment explanation
Indices: 25214559--25214600 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25214549 AGGAAAAGTT
*
25214559 GAGAGAAAGTGAGAGTGGAGAA
1 GAGAGAAAGAGAGAGTGGAGAA
* *
25214581 GAGAGAATGAGAGTGTGGAG
1 GAGAGAAAGAGAGAGTGGAG
25214601 GATGAGTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.12
Consensus pattern (22 bp):
GAGAGAAAGAGAGAGTGGAGAA
Found at i:25216903 original size:16 final size:17
Alignment explanation
Indices: 25216866--25216903 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
25216856 TTCAACCCCT
25216866 ACTTCTATTCTTCTGAA
1 ACTTCTATTCTTCTGAA
25216883 A-TTCTATTCTTCT-AA
1 ACTTCTATTCTTCTGAA
25216898 ACTTCT
1 ACTTCT
25216904 TCAATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 16 0.80
17 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (17 bp):
ACTTCTATTCTTCTGAA
Found at i:25220296 original size:46 final size:45
Alignment explanation
Indices: 25220246--25220515 Score: 297
Period size: 46 Copynumber: 5.9 Consensus size: 45
25220236 ATACCACTTG
* * * *
25220246 GTCACCCGTTAGGTTTGAACCTATGCGAATCAGATAATAGCGTCCA
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCG-CCA
* * * * *
25220292 GTCACCCGTTAGGGTTGAACCTATGTGAATTAGATAATAGTGTCTA
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCG-CCA
* * *
25220338 GTCACCCATTAGGGTTTAACCTACGTGAATCAAATAATAGTGCCTA
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCGCC-A
* **
25220384 GTCACCCATTAGGGTTGAACCTACGTGAATTAGATAATAGCGACTG
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCG-CCA
* * * * * *
25220430 GCCATCCATTATGGTTTAACATACGGGAATCAGATAATAGCGCCTA
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCGCC-A
*
25220476 GTCACCCATTAGGGTTGAACCTACGTGAATCACATAATAG
1 GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAG
25220516 TGGTTGTTAA
Statistics
Matches: 188, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
45 2 0.01
46 185 0.98
47 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
GTCACCCATTAGGGTTGAACCTACGTGAATCAGATAATAGCGCCA
Found at i:25220388 original size:92 final size:91
Alignment explanation
Indices: 25220246--25220517 Score: 357
Period size: 92 Copynumber: 3.0 Consensus size: 91
25220236 ATACCACTTG
* * *
25220246 GTCACCCGTTAGGTTTGAACCTATGCGAATCAGATAATAGCGTCC-AGTCACCCGTTAGGGTTGA
1 GTCACCCATTAGGTTT-AACCTACGCGAATCAGATAATAGCG-CCTAGTCACCCATTAGGGTTGA
* *
25220310 ACCTATGTGAATTAGATAATAGTGTCTA
64 ACCTACGTGAATTAGATAATAGTGACTA
* * *
25220338 GTCACCCATTAGGGTTTAACCTACGTGAATCAAATAATAGTGCCTAGTCACCCATTAGGGTTGAA
1 GTCACCCATTA-GGTTTAACCTACGCGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAA
* *
25220403 CCTACGTGAATTAGATAATAGCGACTG
65 CCTACGTGAATTAGATAATAGTGACTA
* * * *
25220430 GCCATCCATTATGGTTTAACATACGGGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAA
1 GTCACCCATTA-GGTTTAACCTACGCGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAA
* *
25220495 CCTACGTGAATCACATAATAGTG
65 CCTACGTGAATTAGATAATAGTG
25220518 GTTGTTAACC
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
91 2 0.01
92 151 0.96
93 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (91 bp):
GTCACCCATTAGGTTTAACCTACGCGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAAC
CTACGTGAATTAGATAATAGTGACTA
Found at i:25220477 original size:138 final size:138
Alignment explanation
Indices: 25220246--25220517 Score: 355
Period size: 138 Copynumber: 2.0 Consensus size: 138
25220236 ATACCACTTG
* * * * * *
25220246 GTCACCCGTTAGGTTTGAACCTATGCGAATCAGATAATAGCGTCCAGTCACCCGTTAGGGTTGAA
1 GTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGACCAGCCACCCATTAGGGTTGAA
* * * * * * *
25220311 CCTATGTGAATTAGATAATAGTGTCTAGTCACCCATTAGGGTTTAACCTACGTGAATCAAATAAT
66 CATACGGGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTGAATCAAATAAT
25220376 AGTGCCTA
131 AGTGCCTA
* * ** * * *
25220384 GTCACCCATTAGGGTTGAACCTACGTGAATTAGATAATAGCGACTGGCCATCCATTATGGTTTAA
1 GTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGACCAGCCACCCATTAGGGTTGAA
*
25220449 CATACGGGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTGAATCACATAAT
66 CATACGGGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTGAATCAAATAAT
25220514 AGTG
131 AGTG
25220518 GTTGTTAACC
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
138 113 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (138 bp):
GTCACCCATTAGGGTTGAACCTACGCGAATCAGATAATAGCGACCAGCCACCCATTAGGGTTGAA
CATACGGGAATCAGATAATAGCGCCTAGTCACCCATTAGGGTTGAACCTACGTGAATCAAATAAT
AGTGCCTA
Found at i:25227466 original size:12 final size:12
Alignment explanation
Indices: 25227449--25227474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25227439 AAGGGGTACA
25227449 AGAGGCCGTGGT
1 AGAGGCCGTGGT
25227461 AGAGGCCGTGGT
1 AGAGGCCGTGGT
25227473 AG
1 AG
25227475 TACTAGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.50, T:0.15
Consensus pattern (12 bp):
AGAGGCCGTGGT
Found at i:25233485 original size:9 final size:9
Alignment explanation
Indices: 25233471--25233501 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25233461 GTTAAACGAA
25233471 TCGAGTTAT
1 TCGAGTTAT
*
25233480 TCGAGTTAA
1 TCGAGTTAT
25233489 TCGAGTTAT
1 TCGAGTTAT
25233498 TCGA
1 TCGA
25233502 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:25233571 original size:9 final size:9
Alignment explanation
Indices: 25233554--25233590 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25233544 TGAGTTTTCG
25233554 AATTCGAAT
1 AATTCGAAT
*
25233563 AACTCGAAT
1 AATTCGAAT
25233572 AATTCGAAT
1 AATTCGAAT
25233581 AATTCGAAT
1 AATTCGAAT
25233590 A
1 A
25233591 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Done.