Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 23 of 106
Found at i:9698461 original size:62 final size:62
Alignment explanation
Indices: 9698389--9699181 Score: 1140
Period size: 62 Copynumber: 12.9 Consensus size: 62
9698379 TAAGGAAATT
* * * * *
9698389 TTTAAATCGAACCTGTTCTAATATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAGTTTTA
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* * * *
9698451 TTTAAATCGAACCTGTTATGAGATAGGTCGAACCT-GAATTAAGTTTAGGAATTTCAA--TT-
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAG-ATTAAGTCTAGGAATTTTAATTTTA
*
9698510 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTTAATTTTA
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* * *
9698572 TTTAAGTCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTA
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
*
9698634 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTG
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* *
9698696 TTTAAATCGAACCTGTTGTGAGACAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAA---TA
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* * * * *
9698755 TTTAAATCTAACCTGTTATGAGATGGGTCGAGCCTAGATTAAGTCTAGGAATCTTAATTTTG
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* *
9698817 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTAT-GAGAATTTCAA--TT-
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAG-GAATTTTAATTTTA
* * * * * * *
9698876 TTTAAATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTCAATTTTG
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* *
9698938 TTTAAATCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTG
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
*
9699000 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTG
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* *
9699062 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAATCTAAGAATTTTAATTTTA
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
* * * *
9699124 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTTTGGGAATTTTAAT
1 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
9699182 CGAATTTGTT
Statistics
Matches: 658, Mismatches: 60, Indels: 26
0.88 0.08 0.03
Matches are distributed among these distances:
59 151 0.23
60 6 0.01
61 6 0.01
62 495 0.75
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (62 bp):
TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTA
Found at i:9698759 original size:183 final size:181
Alignment explanation
Indices: 9698385--9699181 Score: 1091
Period size: 183 Copynumber: 4.3 Consensus size: 181
9698375 GTATTAAGGA
* * * * *
9698385 AATT-TTTAAATCGAACCTGTTCTAATATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAGTTT
1 AATTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* * *
9698449 TATTTAAATCGAACCTGTTATGAGATAGGTCGAACCT-GAATTAAGTTTAGGAATTTCAATTTTT
66 TATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAG-ATTAAGTCTAGGAATTTCAATTTTT
* *
9698513 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTT
130 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTT
* * *
9698565 AATTTTATTTAAGTCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAAT
1 AA--TTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
*
9698630 TTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
64 TTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAA--TT
*
9698695 GTTTAAATCGAACCTGTTGTGAGACAGGTCGAGCCTAGATTAAGTCTAGAAATTTT
127 -TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTT
* * * *
9698751 AA-TATTTAAATCTAACCTGTTATGAGATGGGTCGAGCCTAGATTAAGTCTAGGAATCTTAATTT
1 AATTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* *
9698815 TGTTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTAT-GAGAATTTCAATTTTT
66 TATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAG-GAATTTCAATTTTT
* * * * * * *
9698879 AAATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTC
130 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTT
* *
9698931 AATTTTGTTTAAATCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
1 AA--TTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
* *
9698996 TTTGTTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTT
64 TTTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAA--TT
*
9699061 GTTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAATCTA-AGAATTTT
127 -TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGA-AATTTT
* * * *
9699117 AATTTTATTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTTTGGGAATTTTAAT
1 AA--TTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
9699182 CGAATTTGTT
Statistics
Matches: 548, Mismatches: 53, Indels: 26
0.87 0.08 0.04
Matches are distributed among these distances:
180 51 0.09
181 2 0.00
182 3 0.01
183 327 0.60
184 2 0.00
185 4 0.01
186 159 0.29
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (181 bp):
AATTATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
TATTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTA
AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTT
Found at i:9699061 original size:366 final size:367
Alignment explanation
Indices: 9698385--9699181 Score: 1244
Period size: 366 Copynumber: 2.2 Consensus size: 367
9698375 GTATTAAGGA
* * * * *
9698385 AATT-TTTAAATCGAACCTGTTCTAATATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAGTTT
1 AATTATTTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
*
9698449 TATTTAAATCGAACCTGTTATGAGATAGGTCGAACCTGAATTAAGTTTAGGAATTTCAATTTTTA
66 TATTTAAATCGAACCTGTTATGAGATAGGTCGAACCTGAATTAAGTTGAGGAATTTCAATTTTTA
* * * * * * * *
9698514 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTTAATTTTATTTAAGT
131 AATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTCAATTTTATTTAAAT
9698579 CGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTATTTAAATCGA
196 CGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTATTTAAATCGA
9698644 ACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAACC
261 ACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAACC
*
9698709 TGTTGTGAGACAGGTCGAGCCTAGATTAAGTCT-AGAAATTTT
326 TGTTGTGAGACAGGTCGAGCCTAGATTAAATCTAAG-AATTTT
* * *
9698751 AA-TATTTAAATCTAACCTGTTATGAGATGGGTCGAGCCTAGATTAAGTCTAGGAATCTTAATTT
1 AATTATTTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
* * *
9698815 TGTTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCT-AGATTAAGTATGA-GAATTTCAATTTT
66 TATTTAAATCGAACCTGTTATGAGATAGGTCGAACCTGA-ATTAAGT-TGAGGAATTTCAATTTT
*
9698878 TAAATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTCAATTTTGTTTAA
129 TAAATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTCAATTTTATTTAA
* *
9698943 ATCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATC
194 ATCGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTATTTAAATC
9699008 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAA
259 GAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAA
*
9699073 CCTGTTGTGAGATAGGTCGAGCCTAGATTAAATCTAAGAATTTT
324 CCTGTTGTGAGACAGGTCGAGCCTAGATTAAATCTAAGAATTTT
* * * * *
9699117 AATTTTATTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTTTGGGAATTTTAAT
1 AA--TTATTTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAAT
9699182 CGAATTTGTT
Statistics
Matches: 391, Mismatches: 33, Indels: 11
0.90 0.08 0.03
Matches are distributed among these distances:
365 2 0.01
366 333 0.85
367 4 0.01
369 52 0.13
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (367 bp):
AATTATTTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTT
TATTTAAATCGAACCTGTTATGAGATAGGTCGAACCTGAATTAAGTTGAGGAATTTCAATTTTTA
AATCGAACCTGTTGTGAGATAAGTCAAGACTAAATTAAGTCTAGGAATCTCAATTTTATTTAAAT
CGAATCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTATTTAAATCGA
ACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTTAAATCGAACC
TGTTGTGAGACAGGTCGAGCCTAGATTAAATCTAAGAATTTT
Found at i:9699223 original size:124 final size:124
Alignment explanation
Indices: 9698389--9699188 Score: 552
Period size: 121 Copynumber: 6.5 Consensus size: 124
9698379 TAAGGAAATT
* * * * * * * ***
9698389 TTTAAATCGAACCTGTTCTAATATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAGTTTTATTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
* ** * * * * * * *
9698454 AAATCGAACCTGTTATGAGATAGGTCGAA-CCT-GAATTAAGTTTAGGAATTTCAA--TT-
66 AAATCGAACATGTGGTAAGACAGATC-AAGCCTAG-ATTAAATCTAAGAATTTTAATTTTA
* * * ***
9698510 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAGTTTTAATTTTATTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
* * * * * * *
9698575 AAGTCGAATC-TGTTGTGAGATAGGTCGAGCCTAGATTAAGTCT-AGAAATTTTAATTTTA
66 AAATCGAA-CATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAG-AATTTTAATTTTA
* * ****
9698634 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
* * * * * *
9698699 AAATCGAACCTGTTGTGAGACAGGTCGAGCCTAGATTAAGTCT-AGAAATTTTAA---TA
66 AAATCGAACATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAG-AATTTTAATTTTA
* * * * * * ****
9698755 TTTAAATCTAACCTGTTATGAGATGGGTCGAGCCTAGATTAAGTCTAGGAATCTTAATTTTGTTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
* * * * * * * * * *
9698820 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTATGAGAATTTCAA--TT-
66 AAATCGAACATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAGAATTTTAATTTTA
* * * * * * ****
9698876 TTTAAATCGAACCTGTTGTGAGATAAGTCAAGACTAA-ATTAAGTCTAGGAATCTCAATTTTGTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAG-CCAAGATTAAGTCTAGGAATTTTAATCGAATT
* * * * * * * *
9698940 TAAATCGAATC-TGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTG
65 TAAATCGAA-CATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAGAATTTTAATTTTA
* * ****
9699000 TTTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGTTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
* * * * * *
9699065 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAATCTAAGAATTTTAATTTTA
66 AAATCGAACATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAGAATTTTAATTTTA
* *
9699124 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTTTGGGAATTTTAATCGAATTT
1 TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
9699189 GTTCTAACAT
Statistics
Matches: 610, Mismatches: 52, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
120 2 0.00
121 312 0.51
122 8 0.01
123 8 0.01
124 280 0.46
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (124 bp):
TTTAAATCGAACCTATTGTGAGATAGGTCGAGCCAAGATTAAGTCTAGGAATTTTAATCGAATTT
AAATCGAACATGTGGTAAGACAGATCAAGCCTAGATTAAATCTAAGAATTTTAATTTTA
Found at i:9700366 original size:23 final size:23
Alignment explanation
Indices: 9700339--9700390 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9700329 TGCTGAGCTT
*
9700339 AAATAAAAATATAAAAATAATAA
1 AAATAAAAATATAAAAATAACAA
*
9700362 AAATAAAAATATATAAATAACAA
1 AAATAAAAATATAAAAATAACAA
*
9700385 CAATAA
1 AAATAA
9700391 CGATAATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATAAAAATATAAAAATAACAA
Found at i:9700380 original size:8 final size:8
Alignment explanation
Indices: 9700341--9700378 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
9700331 CTGAGCTTAA
9700341 ATAAAAAT
1 ATAAAAAT
9700349 ATAAAAAT
1 ATAAAAAT
9700357 AATAAAAAT
1 -ATAAAAAT
9700366 A-AAAATAT
1 ATAAAA-AT
9700374 ATAAA
1 ATAAA
9700379 TAACAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.15
8 12 0.44
9 11 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAAAT
Found at i:9700458 original size:3 final size:3
Alignment explanation
Indices: 9700444--9700472 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9700434 GAGGCTTGCA
9700444 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9700473 TCATGACGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9700515 original size:11 final size:11
Alignment explanation
Indices: 9700501--9700529 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9700491 TATTTTTTAT
9700501 AATAATAAATA
1 AATAATAAATA
9700512 AATAATAAATA
1 AATAATAAATA
9700523 AATAATA
1 AATAATA
9700530 TAATTGGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATAAATA
Found at i:9701597 original size:199 final size:198
Alignment explanation
Indices: 9701249--9701648 Score: 741
Period size: 199 Copynumber: 2.0 Consensus size: 198
9701239 TCAGTCTGTC
* * *
9701249 AATTT-AAT-AAAAATTTAATTAATAAAGTAGGGATTAAACTAAGAGAAGGCTATATTAAGATAA
1 AATTTCAATAAAAAATTTAATTAATAAAATAGAGATTAAACTAAGAAAAGGCTATATTAAGATAA
9701312 CTTAAGATTAAATAGTACTGTTCATGGAACAGGCGCCACGGAGGTGCTAACCCTTCTCCGTGAGT
66 CTTAAGATTAAATAGTACTGTTCATGGAACAGGCGCCACGGAGGTGCTAACCCTTCTCCGTGAGT
9701377 AACCGCACTCCCGAAACCATCTCTAAAAAACGTGGATTAGTTCTCATTCTTTCGACGAACCTAAA
131 AACCGCACTCCCGAAACCATCTCTAAAAAACGTGGATTAGTTCTCATTCTTTCGACGAACCTAAA
9701442 ATT
196 ATT
*
9701445 AATNTTCAATAAAAAATTTAATTAATAAAATAGAGATTAAACTAAGAAAATGCTATATTAAGATA
1 AAT-TTCAATAAAAAATTTAATTAATAAAATAGAGATTAAACTAAGAAAAGGCTATATTAAGATA
9701510 ACTTAAGATTAAATAGTACTGTTCATGGAACAGGCGCCACGGAGGTGCTAACCCTTCTCCGTGAG
65 ACTTAAGATTAAATAGTACTGTTCATGGAACAGGCGCCACGGAGGTGCTAACCCTTCTCCGTGAG
9701575 TAACCGCACTCCCGAAACCATCTCTAAAAAACGTGGATTAGTTCTCATTCTTTCGACGAACCTAA
130 TAACCGCACTCCCGAAACCATCTCTAAAAAACGTGGATTAGTTCTCATTCTTTCGACGAACCTAA
9701640 AATT
195 AATT
9701644 AATTT
1 AATTT
9701649 AAGATTTCAT
Statistics
Matches: 197, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
196 3 0.02
197 2 0.01
198 5 0.03
199 187 0.95
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (198 bp):
AATTTCAATAAAAAATTTAATTAATAAAATAGAGATTAAACTAAGAAAAGGCTATATTAAGATAA
CTTAAGATTAAATAGTACTGTTCATGGAACAGGCGCCACGGAGGTGCTAACCCTTCTCCGTGAGT
AACCGCACTCCCGAAACCATCTCTAAAAAACGTGGATTAGTTCTCATTCTTTCGACGAACCTAAA
ATT
Found at i:9708757 original size:20 final size:20
Alignment explanation
Indices: 9708734--9708798 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
9708724 TATCTGGATT
9708734 GAACACATTCATAATGGAAA
1 GAACACATTCATAATGGAAA
* * *
9708754 GAACACATCCATTATGAAAA
1 GAACACATTCATAATGGAAA
* * *
9708774 GAACGCATTCATCATGGGAA
1 GAACACATTCATAATGGAAA
9708794 GAACA
1 GAACA
9708799 TGCTAGCCCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.18
Consensus pattern (20 bp):
GAACACATTCATAATGGAAA
Found at i:9713905 original size:27 final size:27
Alignment explanation
Indices: 9713863--9713924 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
9713853 CCCTGCAAGC
* * *
9713863 TTTATTTTCATTAAAATAATATATTGT
1 TTTACTTTCATCAAAATAAGATATTGT
9713890 TTTACTTTCATCAAAATAAGATATTGT
1 TTTACTTTCATCAAAATAAGATATTGT
*
9713917 TATACTTT
1 TTTACTTT
9713925 AAACTTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (27 bp):
TTTACTTTCATCAAAATAAGATATTGT
Found at i:9724520 original size:49 final size:48
Alignment explanation
Indices: 9724442--9724636 Score: 200
Period size: 49 Copynumber: 4.0 Consensus size: 48
9724432 AAGAACATGC
* * *
9724442 TGAAGACTAAAGC--CTCCAAAGTTCCACAAATCTAAGAA-GAAAGATT
1 TGAAAACTAAAGCTTCTCTAAAGTTCCACAAATCCAAGAAGGAAA-ATT
* **
9724488 TGAGGAACTAAAGCTTCTCTAAAGTTCCACAAATATAAGAAGGAAAATT
1 TGA-AAACTAAAGCTTCTCTAAAGTTCCACAAATCCAAGAAGGAAAATT
* * ** *
9724537 TGAAAAACTAAAGCCTCCCCTAGAA-TTCCACAAATCCACCAAGGAAGATT
1 TG-AAAACTAAAG-CTTCTCTA-AAGTTCCACAAATCCAAGAAGGAAAATT
*
9724587 TGAAAGACTAAAGCCTCTCTAAAGTTCCACAAATCCAAGAAGGAAAATT
1 TGAAA-ACTAAAGCTTCTCTAAAGTTCCACAAATCCAAGAAGGAAAATT
9724636 T
1 T
9724637 CAAGAACCAT
Statistics
Matches: 122, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
46 3 0.02
47 8 0.07
48 2 0.02
49 67 0.55
50 40 0.33
51 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (48 bp):
TGAAAACTAAAGCTTCTCTAAAGTTCCACAAATCCAAGAAGGAAAATT
Found at i:9724860 original size:49 final size:49
Alignment explanation
Indices: 9724792--9724904 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
9724782 AAGATTAAGT
* * *
9724792 CATAAGA-CCTTGAAACGAAGTGTCCAAATTGTTCGTTCAAAATCAAGC
1 CATAAGACCCTTGAAACGAAGTGCCCAAATTATTCATTCAAAATCAAGC
* * * *
9724840 CATAAGACCCTTGAAGCGAAGTGCCCAAGTTATTCATTCAAGATCAAGT
1 CATAAGACCCTTGAAACGAAGTGCCCAAATTATTCATTCAAAATCAAGC
*
9724889 CA-AAAACCCTTGAAAC
1 CATAAGACCCTTGAAAC
9724905 AAAGATTGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 19 0.35
49 36 0.65
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (49 bp):
CATAAGACCCTTGAAACGAAGTGCCCAAATTATTCATTCAAAATCAAGC
Found at i:9724999 original size:15 final size:15
Alignment explanation
Indices: 9724979--9725007 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9724969 CATGCTTGAT
9724979 TAATCTAAATTTTTC
1 TAATCTAAATTTTTC
9724994 TAATCTAAATTTTT
1 TAATCTAAATTTTT
9725008 GACACAAAAT
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:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATCTAAATTTTTC
Found at i:9732024 original size:24 final size:23
Alignment explanation
Indices: 9731997--9732071 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 23
9731987 GTTGCAGTCA
9731997 ATGCAGTTGGAGATCCAGTGAGCG
1 ATGCAGTTGGAGATCCAGTG-GCG
* * * *
9732021 ATGCAGATGCAGATGCAGT--CA
1 ATGCAGTTGGAGATCCAGTGGCG
*
9732042 ATGCAGTTGGAGATCCAGCGGGCG
1 ATGCAGTTGGAGATCCAG-TGGCG
9732066 ATGCAG
1 ATGCAG
9732072 ATGTAGACAC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 16 0.41
24 23 0.59
ACGTcount: A:0.27, C:0.19, G:0.36, T:0.19
Consensus pattern (23 bp):
ATGCAGTTGGAGATCCAGTGGCG
Found at i:9732043 original size:45 final size:45
Alignment explanation
Indices: 9731979--9732074 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
9731969 GACGAATATA
* * *
9731979 CAGATGTAGTTGCAGTCAATGCAGTTGGAGATCCAGTGAGCGATG
1 CAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCGAGCGATG
*
9732024 CAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCGGGCGATG
1 CAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCGAGCGATG
9732069 CAGATG
1 CAGATG
9732075 TAGACACAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (45 bp):
CAGATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCGAGCGATG
Found at i:9734319 original size:3 final size:3
Alignment explanation
Indices: 9734298--9734340 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
9734288 CATTTCATTC
* *
9734298 ATT ATT TTT ATT TTT ATT ATT ATT ATT ATT -TT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9734341 TCTTCTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
ATT
Found at i:9734333 original size:8 final size:8
Alignment explanation
Indices: 9734309--9734340 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
9734299 TTATTTTTAT
9734309 TTTTATTA
1 TTTTATTA
9734317 TTATTATTA
1 TT-TTATTA
9734326 TTTTATTA
1 TTTTATTA
9734334 TTTTATT
1 TTTTATT
9734341 TCTTCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTATTA
Found at i:9735518 original size:12 final size:12
Alignment explanation
Indices: 9735503--9735527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9735493 TTTTTTAAAT
9735503 TATTTTATTTTA
1 TATTTTATTTTA
9735515 TATTTTATTTTA
1 TATTTTATTTTA
9735527 T
1 T
9735528 TACAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:9736121 original size:26 final size:26
Alignment explanation
Indices: 9736092--9736141 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9736082 AACATTATTC
*
9736092 TGTATCATTTCCATATTATTCTTTTT
1 TGTATCATTTACATATTATTCTTTTT
9736118 TGTATCATTTACATATTATTCTTT
1 TGTATCATTTACATATTATTCTTT
9736142 GTATTCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTTT
Found at i:9736142 original size:23 final size:23
Alignment explanation
Indices: 9736085--9736150 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
9736075 TAACATTAAC
*
9736085 ATTATTC--TGTATCATTTCCAT
1 ATTATTCTTTGTATCATTTACAT
9736106 ATTATTCTTTTTTGTATCATTTACAT
1 ATTATTC---TTTGTATCATTTACAT
9736132 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
9736151 CATGTGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.18
23 6 0.16
24 5 0.13
26 20 0.53
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.59
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:9740171 original size:78 final size:78
Alignment explanation
Indices: 9740081--9740241 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 78
9740071 TTTGAGAGAG
* * * * ** *
9740081 ACATCTTGTGTTTTAGATTTGTTTTTCCCCCAGTCACCCCACTCAATTTGCTTCGTTGTACTGGT
1 ACATCTTATGTTTTAGATTTGCTTGTCCCCCAATCACAACACTCAATTTGCTTCGTTGTACTAGT
9740146 CACAGCTGCTGCA
66 CACAGCTGCTGCA
** * * *
9740159 ACATCTTATGTTTTAGATTTGCTTGTCTTCCAATCACAACAGTCATTTTGCTTCGTTGTTCTAGT
1 ACATCTTATGTTTTAGATTTGCTTGTCCCCCAATCACAACACTCAATTTGCTTCGTTGTACTAGT
* *
9740224 CATAGTTGCTGCA
66 CACAGCTGCTGCA
9740237 ACATC
1 ACATC
9740242 ATGTGTTGCA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (78 bp):
ACATCTTATGTTTTAGATTTGCTTGTCCCCCAATCACAACACTCAATTTGCTTCGTTGTACTAGT
CACAGCTGCTGCA
Found at i:9743600 original size:22 final size:22
Alignment explanation
Indices: 9743575--9743620 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9743565 CCACTCTCGT
*
9743575 AATACATAACAA-CAGATCACGC
1 AATACATAAAAATCAG-TCACGC
*
9743597 AATATATAAAAATCAGTCACGC
1 AATACATAAAAATCAGTCACGC
9743619 AA
1 AA
9743621 GCCTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (22 bp):
AATACATAAAAATCAGTCACGC
Found at i:9743725 original size:118 final size:118
Alignment explanation
Indices: 9743511--9743905 Score: 509
Period size: 118 Copynumber: 3.4 Consensus size: 118
9743501 AATGTCTAAT
* * * * *** * *
9743511 AACTAGTGAACAAACGCCCCAAAACAATAGGCGAATTGCACAAGTCATGCGCAACCACTCTCGTA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCA
* * *
9743576 ATACATAACAACAGATCACGCAATATATAAAAATCAGTCACGCAAGCCTAAAA
66 ATACATAATAACAGGTCATGCAATATATAAAAATCAGTCACGCAAGCCTAAAA
* * * *
9743629 AGCTATTGAACAAAAGCCTCAAAACAACACATGACTTGCACAAGTCATGTGCCACCACTCTCGCA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCA
*
9743694 ATACATAATAACAGGTCATGTAATATATAAAAATCAGTCACGCAAGCCTAAAA
66 ATACATAATAACAGGTCATGCAATATATAAAAATCAGTCACGCAAGCCTAAAA
*
9743747 AACTACTGAACAAAAGCCTCAAAAAAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGC-
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCA
* * * *
9743811 -TAC--AAT---AGGTAACT-CAATATATAAAAACCAATCACGCACTGCCTAAAA
66 ATACATAATAACAGGTCA-TGCAATATATAAAAATCAGTCACGCA-AGCCTAAAA
*
9743859 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCAAAAGTCA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCA
9743906 GTCACACACC
Statistics
Matches: 247, Mismatches: 28, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
111 26 0.11
112 54 0.22
114 3 0.01
116 3 0.01
118 161 0.65
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (118 bp):
AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCA
ATACATAATAACAGGTCATGCAATATATAAAAATCAGTCACGCAAGCCTAAAA
Found at i:9745249 original size:309 final size:308
Alignment explanation
Indices: 9744684--9745295 Score: 965
Period size: 309 Copynumber: 2.0 Consensus size: 308
9744674 AATGGTTCCC
*
9744684 TTTATTTATAGGCATGAATGATGACTCTTTGTTTTCTACACCCATATAAATGCAATGAAAGGGGC
1 TTTATTTATAGGCATGAATGATGACTCTTCGTTTTCTACACCCATATAAATGCAATGAAAGGGGC
* * * * * *
9744749 TAAATTGGTTATTAAGTACTTGTTCGGCTTGGCGTTTCATCTTTTCTACCTCTTAAAAGCAAAAT
66 TAAATAGGTTATTAAGTACCTGTTCGGCCTGGCATTTCATCTTATCTACCTCTTAAAAGCAAAAG
* *
9744814 CTAGGCCAAACATCATTTTTCAAGAAATTCTTAATAAAAAGTAGCTTAAAGGTTTTCTCTCTTTT
131 CCAGGCCAAACATCATTTTTCAAGAAATTCTTAATAAAAAGCAGCTTAAAGGTTTTCTCTCTTTT
* * * * *
9744879 TCATTAATCAAAAGGATTTTAATGTTACATATATATCGTTTCCTCTTTTTTCTTTTTTTTTCTTA
196 TCACTAATCAAAAGGATTTTAATGTTACATATATATCATTTCATCTTTTCTCTTCTTTTTTCTTA
*
9744944 ATTTAAGCATCATGCTCCGATTACTTGGTAGACCAACCAAAATTTTCT
261 ATTTAAGCATCATGCTCCGATTACTTGGTAAACCAACCAAAATTTTCT
* * *
9744992 TTTATTTATAGGCATGAATGTTGACTCTTCGTTTTCTACACCCATATAAGTGCAATGAAGGGGGG
1 TTTATTTATAGGCATGAATGATGACTCTTCGTTTTCTACACCCATATAAATGCAATGAA-AGGGG
* *
9745057 CTGAATAGGTTATTAAGTACCTGTTTGGCCTGGCATTTCATCTTATCTACCTCTTACAAA-CAAA
65 CTAAATAGGTTATTAAGTACCTGTTCGGCCTGGCATTTCATCTTATCTACCTCTTA-AAAGCAAA
* * *
9745121 AGCCAGGCCAAACATTATTTTTCAAGAAATTTTTAATGAAAAGCAGCTTAAAGGTTTTCTCTCTT
129 AGCCAGGCCAAACATCATTTTTCAAGAAATTCTTAATAAAAAGCAGCTTAAAGGTTTTCTCTCTT
9745186 TTTCACTAATCAAAAGGATTTTAATGTTACATATATATCATTTCATCTTTTCTCTTCTTTTTTCT
194 TTTCACTAATCAAAAGGATTTTAATGTTACATATATATCATTTCATCTTTTCTCTTCTTTTTTCT
* * *
9745251 TAATTTAAGCATCATGGTCCTATTGCTTGGTAAACCAACCAAAAT
259 TAATTTAAGCATCATGCTCCGATTACTTGGTAAACCAACCAAAAT
9745296 CTTATACTAT
Statistics
Matches: 276, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
308 56 0.20
309 217 0.79
310 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (308 bp):
TTTATTTATAGGCATGAATGATGACTCTTCGTTTTCTACACCCATATAAATGCAATGAAAGGGGC
TAAATAGGTTATTAAGTACCTGTTCGGCCTGGCATTTCATCTTATCTACCTCTTAAAAGCAAAAG
CCAGGCCAAACATCATTTTTCAAGAAATTCTTAATAAAAAGCAGCTTAAAGGTTTTCTCTCTTTT
TCACTAATCAAAAGGATTTTAATGTTACATATATATCATTTCATCTTTTCTCTTCTTTTTTCTTA
ATTTAAGCATCATGCTCCGATTACTTGGTAAACCAACCAAAATTTTCT
Found at i:9745618 original size:22 final size:22
Alignment explanation
Indices: 9745590--9745673 Score: 89
Period size: 22 Copynumber: 3.6 Consensus size: 22
9745580 TAGGTAGCTA
9745590 AAGTCACGCAATGCCTACAAAC
1 AAGTCACGCAATGCCTACAAAC
*
9745612 AAGTCACGCAATGCTCAACAAATATTC
1 AAGTCACGCAATGC-CTAC-AA-A--C
* *
9745639 AA-TCACGTAATGCCTATAAAC
1 AAGTCACGCAATGCCTACAAAC
9745660 AAGTCACGCAATGC
1 AAGTCACGCAATGC
9745674 TCAACAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.06
22 24 0.47
23 4 0.08
24 4 0.08
25 3 0.06
26 10 0.20
27 3 0.06
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.19
Consensus pattern (22 bp):
AAGTCACGCAATGCCTACAAAC
Found at i:9745645 original size:26 final size:26
Alignment explanation
Indices: 9745615--9745693 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
9745605 TACAAACAAG
9745615 TCACGCAATGCTCAACAAATATTCAA
1 TCACGCAATGCTCAACAAATATTCAA
* * *
9745641 TCACGTAATGC-CTA-TAA-A--CAA
1 TCACGCAATGCTCAACAAATATTCAA
*
9745662 GTCACGCAATGCTCAACAAATATTCAG
1 -TCACGCAATGCTCAACAAATATTCAA
9745689 TCACG
1 TCACG
9745694 TAATATTCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 3 0.08
22 10 0.25
23 3 0.08
24 4 0.10
25 3 0.08
26 15 0.38
27 2 0.05
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (26 bp):
TCACGCAATGCTCAACAAATATTCAA
Found at i:9745651 original size:48 final size:48
Alignment explanation
Indices: 9745593--9745697 Score: 183
Period size: 48 Copynumber: 2.2 Consensus size: 48
9745583 GTAGCTAAAG
*
9745593 TCACGCAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAA
1 TCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAA
* *
9745641 TCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTCAG
1 TCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAA
9745689 TCACGTAAT
1 TCACGTAAT
9745698 ATTCATGCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (48 bp):
TCACGTAATGCCTACAAACAAGTCACGCAATGCTCAACAAATATTCAA
Found at i:9747196 original size:59 final size:59
Alignment explanation
Indices: 9747088--9747840 Score: 602
Period size: 59 Copynumber: 12.7 Consensus size: 59
9747078 TCCTAACTTA
* * * * * *
9747088 AAATCGAACCTTTTTTTATATAGGTCGAGCTTA-AGTCAAGTCTAAGAATTTCAATTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGA-TCAAGTTTAGGAATTTCAATTTTT
* * * * *
9747147 AAATCGAACCTATTTTGAGATAGGTCGAACCTAGATTAAGTTTACGAATTTCAA-TTTA
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * * * *
9747205 AAATCGAACATGTTTTGAGATAGGTCGAGCCTAGGTCAAGTCTAAGAATTTTCAATCTGT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAA-TTTCAATTTTT
* * * * *
9747265 AAATCGAACCTGTTTTGAGATAGGTTGAGCCCAGGTCAAGTTTATGAATTTTAATTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * * * * * * * * *
9747324 TAATCGAACCTATTCTAATATAGGTTGAACCTAGATTAAGTCTAGAAATTTAAATTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * * *
9747383 AAATCGAATCTATTTTGATATAGGTCGAGCTTAGGTCAAGTTTAGGAATTTCAATTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * *
9747442 AAGTCGAACCTGTTTTGAGATA-GTCGAGCCTAGGTCAAGTTTAGGAATTTTAGTTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * * * * * *
9747500 AAGTCAAACCTGTTTTGAGATATGTCGAACCTAGGTCAAGTCTAGAAATTTTCAATTTGTA
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAA-TTTCAATTT-TT
* * * * *
9747561 AAATTGAACCTGTTTTGATACAGGTTGAGCCTA-AGTCAAGTATAGGAATTTTCAATTTTT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGA-TCAAGTTTAGGAA-TTTCAATTTTT
* * * * * * * *
9747621 AAAATTGAACCTATTCTGATACAAGTCTAGCCTA-AGTCAAGTTTAGGAATTTTCAATTTGT
1 -AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGA-TCAAGTTTAGGAA-TTTCAATTTTT
* * * * * * * * * * * *
9747682 AAAACTGAACCTGTTCTAATACAGGTTGAACCTAAATCAAGTTTAGAAATTTTAACTCTT
1 AAATC-GAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
* * * * * *
9747742 AAATCGAACTTGTGTTAAGATAGGTCGAACATA-AGTCAAGTTTAGGAATTTCAA-TTTA
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGA-TCAAGTTTAGGAATTTCAATTTTT
* * *
9747800 AAATCAAACCTGTTTTGAGATAGGTCGAGTCTAGATTAAGT
1 AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGT
9747841 CTAGAGTTTT
Statistics
Matches: 564, Mismatches: 118, Indels: 25
0.80 0.17 0.04
Matches are distributed among these distances:
58 132 0.23
59 230 0.41
60 67 0.12
61 134 0.24
62 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (59 bp):
AAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATCAAGTTTAGGAATTTCAATTTTT
Found at i:9747437 original size:177 final size:178
Alignment explanation
Indices: 9747085--9747828 Score: 725
Period size: 177 Copynumber: 4.2 Consensus size: 178
9747075 GTTTCCTAAC
* * * * * * *
9747085 TTAAAATCGAACCTTTTTTTATATAGGTCGAGCTTAAGTCAAGTCTAAGAATTTCAATTTTTAAA
1 TTAAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTAATTTTTAAA
* * * *
9747150 TCGAACCTATTTTGAGATAGGTCGAACCTAGATTAAGTTTACG-AATTTCAA-TTTAAAATCGAA
66 TCGAACCTATTCTAAGATAGGTCGAACCTAGATCAAGTCTA-GAAATTTCAATTTTAAAATCGAA
* * * *
9747213 CATGTTTTGAGATAGGTCGAGCCTAGGTCAAGTCTAAGAATTTTCAATCT
130 C-TGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTCAATTT
* * * * * *
9747263 GT-AAATCGAACCTGTTTTGAGATAGGTTGAGCCCAGGTCAAGTTTATGAATTTTAATTTTTTAA
1 TTAAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTAATTTTTAAA
* * * * *
9747327 TCGAACCTATTCTAATATAGGTTGAACCTAGATTAAGTCTAGAAATTTAAATTTTTAAATCGAAT
66 TCGAACCTATTCTAAGATAGGTCGAACCTAGATCAAGTCTAGAAATTTCAATTTTAAAATCGAA-
* * * *
9747392 CTATTTTGATATAGGTCGAGCTTAGGTCAAGTTTAGGAA-TTTCAATTT
130 CTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTCAATTT
* * * *
9747440 TT-AAGTCGAACCTGTTTTGAGATA-GTCGAGCCTAGGTCAAGTTTAGGAATTTTAGTTTTTAAG
1 TTAAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTAATTTTTAAA
* * * * * * *
9747503 TCAAACCTGTTTTGAGATATGTCGAACCTAGGTCAAGTCTAGAAATTTTCAATTTGTAAAATTGA
66 TCGAACCTATTCTAAGATAGGTCGAACCTAGATCAAGTCTAGAAA-TTTCAATTT-TAAAATCGA
* * * *
9747568 ACCTGTTTTGATACAGGTTGAGCCTAAGTCAAGTATAGGAATTTTCAATTT
129 A-CTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTCAATTT
* * * * * * * *
9747619 TTAAAATTGAACCTATTCTGATACAAGTCTAGCCTAAGTCAAGTTTAGGAATTTTCAATTTGTAA
1 TTAAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTT-AATTTTTAA
* * * * * * * * *
9747684 AACTGAACCTGTTCTAATACAGGTTGAACCTAAATCAAGTTTAGAAATTTTAACTCTT-AAATCG
65 ATC-GAACCTATTCTAAGATAGGTCGAACCTAGATCAAGTCTAGAAATTTCAA-TTTTAAAATCG
* * * *
9747748 AACTTGTGTTAAGATAGGTCGAACATAAGTCAAGTTTAGGAA-TTTCAA--T
128 AAC-TGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTCAATTT
*
9747797 TTAAAATCAAACCTGTTTTGAGATAGGTCGAG
1 TTAAAATCGAACCTGTTTTGAGATAGGTCGAG
9747829 TCTAGATTAA
Statistics
Matches: 461, Mismatches: 93, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
176 70 0.15
177 132 0.29
178 111 0.24
179 12 0.03
180 23 0.05
181 64 0.14
182 14 0.03
183 35 0.08
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (178 bp):
TTAAAATCGAACCTGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTAATTTTTAAA
TCGAACCTATTCTAAGATAGGTCGAACCTAGATCAAGTCTAGAAATTTCAATTTTAAAATCGAAC
TGTTTTGAGATAGGTCGAGCCTAAGTCAAGTTTAGGAATTTTCAATTT
Found at i:9747527 original size:117 final size:118
Alignment explanation
Indices: 9747085--9747844 Score: 691
Period size: 117 Copynumber: 6.4 Consensus size: 118
9747075 GTTTCCTAAC
* * * * * *
9747085 TTAAAATCGAACCTTTTTTTATATAGGTCGAGCTTAAGTCAAGTCTAAGAATTTCAATTTTTAAA
1 TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTTAATTTTTAAA
* * *
9747150 TCGAACCTATTTTGAGATAGGTCGAACCTAGATTAAGTTTACGAATTTCAA-T
66 TCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAATTTCAATT
* * * * *
9747202 TTAAAATCGAACATGTTTTGAGATAGGTCGAGCCTAGGTCAAGTCTAAGAATTTTCAATCTGTAA
1 TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTT-AATTTTTAA
* * * * * *
9747267 ATCGAACCTGTTTTGAGATAGGTTGAGCCCAGGTCAAGTTTATGAATTTTAATT
65 ATCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAATTTCAATT
** * * * * * * * * *
9747321 TTTTAATCGAACCTATTCTAATATAGGTTGAACCTAGATTAAGTCTAGAAATTTAAATTTTTAAA
1 TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTTAATTTTTAAA
* * * *
9747386 TCGAATCTATTTTGATATAGGTCGAGCTTAGGTCAAGTTTAGGAATTTCAATT
66 TCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAATTTCAATT
* * * * * *
9747439 TTTAAGTCGAACCTGTTTTGAGATA-GTCGAGCCTAGGTCAAGTTTAGGAATTTTAGTTTTTAAG
1 TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTTAATTTTTAAA
* * * * *
9747503 TCAAACCTGTTTTGAGATATGTCGAACCTAGGTCAAGTCTAGAAATTTTCAATT
66 TCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAA-TTTCAATT
* * * * *
9747557 TGTAAAATTGAACCTGTTTTGATACAGGTTGAGCCTAAGTCAAGTATAGGAATTTTCAATTTTTA
1 T-TAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTT-AATTTTT-
* * * * * * * *
9747622 AAATTGAACCTATTCTGATACAAGTCTAGCCTAAGTCAAGTTTAGGAATTTTCAATT
63 AAATCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAA-TTTCAATT
* * * * * ** * * * *
9747679 TGTAAAA-CTGAACCTGTTCTAATACAGGTTGAACCTAAATCAAGTTTAGAAATTTTAACTCTTA
1 T-TAAAATC-GAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTTAATTTTTA
* * * * * *
9747743 AATCGAACTTGTGTTAAGATAGGTCGAACATAAGTCAAGTTTAGGAATTTCAA-T
64 AATCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAATTTCAATT
* * * * *
9747797 TTAAAATCAAACCTGTTTTGAGATAGGTCGAGTCTAGATTAAGTCTAG
1 TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAG
9747845 AGTTTTCAAT
Statistics
Matches: 515, Mismatches: 119, Indels: 18
0.79 0.18 0.03
Matches are distributed among these distances:
117 148 0.29
118 135 0.26
119 67 0.13
120 62 0.12
121 11 0.02
122 92 0.18
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (118 bp):
TTAAAATCGAACCTGTTTTGATATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTTAATTTTTAAA
TCGAACCTATTTTGAGATAGGTCGAACCTAGGTCAAGTTTAGGAATTTCAATT
Found at i:9751581 original size:189 final size:189
Alignment explanation
Indices: 9751261--9751620 Score: 483
Period size: 189 Copynumber: 1.9 Consensus size: 189
9751251 GATTTGGTGA
*
9751261 ATCATGGACTGCCCCTCCAGAAGAGGAATACAAATCTAACGTGGATGGCTCTACTAGAGGTAAGA
1 ATCATGGACTGCCCCTCCAGAAGAGGAATACAAATCTAACGTGGATGGCTCTACTAGAGATAAGA
** * **
9751326 TAGGTCCAAATGGCTACGGTGGTATGCTTAGGGACTCATTTAATTATGTCATTGGAATATTTTTT
66 TAGGTCCAAATGGCTACGACGGTATGCTTAGAGACTCATCCAATTATGTCATTGGAATATTTTTT
* *
9751391 AGTCCACTTGAAATTCAAGATTTCAATCATGTTGAGCTCATCACAATCAGACTTGGCTG
131 AGCCCACTTGAAATTCAAGATTCCAATCATGTTGAGCTCATCACAATCAGACTTGGCTG
* * * *
9751450 ATCATGGACTGTCCCTCTAGAAG-GGAAATACAGAT-TAAATGTGGATGGCTCTACTAGAGATAA
1 ATCATGGACTGCCCCTCCAGAAGAGG-AATACAAATCT-AACGTGGATGGCTCTACTAGAGATAA
* * * * * *
9751513 GCTAGGTCCAACTGGCTGCGACGGTGTGCTT-GAAGACTCATCCAGTTATGTCATTGGAATTTTT
64 GATAGGTCCAAATGGCTACGACGGTATGCTTAG-AGACTCATCCAATTATGTCATTGGAATATTT
* * *
9751577 TTTAGCCCGCTTGAAATTCAAGATTCCAGTTATGTTGAGCTCAT
128 TTTAGCCCACTTGAAATTCAAGATTCCAATCATGTTGAGCTCAT
9751621 GGCTATCAAG
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
188 4 0.03
189 143 0.97
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (189 bp):
ATCATGGACTGCCCCTCCAGAAGAGGAATACAAATCTAACGTGGATGGCTCTACTAGAGATAAGA
TAGGTCCAAATGGCTACGACGGTATGCTTAGAGACTCATCCAATTATGTCATTGGAATATTTTTT
AGCCCACTTGAAATTCAAGATTCCAATCATGTTGAGCTCATCACAATCAGACTTGGCTG
Found at i:9752739 original size:189 final size:189
Alignment explanation
Indices: 9752419--9752797 Score: 526
Period size: 189 Copynumber: 2.0 Consensus size: 189
9752409 TTTCCACTCT
* * *
9752419 AGACTTGGCTGATCATGGACTGCCCCTTCAGAAGGGGAATACAAATCTAATATGGATAGCTTTAC
1 AGACTTGGCTGATCATGCACTACCCCTTCAGAAGGGGAATACAAATCTAATATGGATAGCTCTAC
* * ** **
9752484 TAGAGGTAAGATAGGTCCAATTGGCTACGGTGGTGTGCTTAAAGACTCATTTAATTATGTCATTG
66 TAGAGATAAGATAGGTCCAACTGGCTACCATGGTGTGCTTAAAGACTCATCCAATTATGTCATTG
* *
9752549 GAATATTTTTTAGCCCACTTGAAATGAAAGATTTCAATCATGTTGAGCTCATGGCTATC
131 GAATATTTTTTAGCCCACTTGAAATGAAAGATTCCAATCATGTTGAGATCATGGCTATC
* * * *
9752608 AGACTTGGTTGATCATGCACTACCCC-TCTAGAAGGGGAATACAAATTTAATGTGGATGGCTCTA
1 AGACTTGGCTGATCATGCACTACCCCTTC-AGAAGGGGAATACAAATCTAATATGGATAGCTCTA
* * * * *
9752672 CTGGAGATAAGCTAGGTCCAACTGGCTGCCATGGTGTGCTTAGAGACTCATCCAGTTATGTCATT
65 CTAGAGATAAGATAGGTCCAACTGGCTACCATGGTGTGCTTAAAGACTCATCCAATTATGTCATT
* ** *
9752737 GGAATATTTTTTAGCCCGCTTGAAATTCAAGATTCCAGTCATGTTGAGATCATGGCTATC
130 GGAATATTTTTTAGCCCACTTGAAATGAAAGATTCCAATCATGTTGAGATCATGGCTATC
9752797 A
1 A
9752798 AGCACGCATT
Statistics
Matches: 165, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
188 2 0.01
189 163 0.99
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (189 bp):
AGACTTGGCTGATCATGCACTACCCCTTCAGAAGGGGAATACAAATCTAATATGGATAGCTCTAC
TAGAGATAAGATAGGTCCAACTGGCTACCATGGTGTGCTTAAAGACTCATCCAATTATGTCATTG
GAATATTTTTTAGCCCACTTGAAATGAAAGATTCCAATCATGTTGAGATCATGGCTATC
Found at i:9753823 original size:12 final size:12
Alignment explanation
Indices: 9753806--9753830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9753796 AAAATAAAAA
9753806 ATTTGAATTTAT
1 ATTTGAATTTAT
9753818 ATTTGAATTTAT
1 ATTTGAATTTAT
9753830 A
1 A
9753831 CTTTTGACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTGAATTTAT
Found at i:9757805 original size:6 final size:7
Alignment explanation
Indices: 9757783--9757822 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
9757773 ATAAAGATTT
9757783 TTAA-AA
1 TTAATAA
9757789 TTAATATA
1 TTAATA-A
9757797 TTAA-AA
1 TTAATAA
9757803 TTAATAA
1 TTAATAA
9757810 TTAATAA
1 TTAATAA
9757817 -TAATAA
1 TTAATAA
9757823 ATTTATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 15 0.48
7 11 0.35
8 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TTAATAA
Found at i:9757820 original size:13 final size:13
Alignment explanation
Indices: 9757783--9757822 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
9757773 ATAAAGATTT
9757783 TTAAAATTAATATA
1 TTAAAATTAATA-A
9757797 TTAAAATTAATAA
1 TTAAAATTAATAA
9757810 TTAATAA-TAATAA
1 TTAA-AATTAATAA
9757823 ATTTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAATTAATAA
Found at i:9758683 original size:16 final size:16
Alignment explanation
Indices: 9758637--9758690 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 16
9758627 ATATATAAAT
*
9758637 AAATAAAATATAACTAA
1 AAATAAAAAATAA-TAA
9758654 AAATGAATATAAATAATAA
1 AAAT-AA-A-AAATAATAA
9758673 AAATAAAAAATAA-AA
1 AAATAAAAAATAATAA
9758688 AAA
1 AAA
9758691 CTTTAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.15
16 6 0.18
17 5 0.15
18 4 0.12
19 8 0.24
20 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAAAAAATAATAA
Found at i:9761962 original size:15 final size:15
Alignment explanation
Indices: 9761942--9761970 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9761932 CTCATAACGT
9761942 TTATTTAATTAATTG
1 TTATTTAATTAATTG
9761957 TTATTTAATTAATT
1 TTATTTAATTAATT
9761971 ATGTGTTCTC
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:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATTTAATTAATTG
Found at i:9763362 original size:2 final size:2
Alignment explanation
Indices: 9763355--9763422 Score: 79
Period size: 2 Copynumber: 35.5 Consensus size: 2
9763345 AAACTAGTTT
* * * *
9763355 TA TA TA TA TA CA TA TA TA TA GA T- TA -A TA TA AA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9763395 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9763423 TAAGAAGAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
1 3 0.05
2 52 0.95
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9763710 original size:18 final size:18
Alignment explanation
Indices: 9763689--9763736 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
9763679 TGTTATGAAT
9763689 ATATATATATATATAAAA
1 ATATATATATATATAAAA
*
9763707 ATATATA-AT-TATATAA
1 ATATATATATATATAAAA
*
9763723 ATGTAT-TATATATA
1 ATATATATATATATA
9763737 CATATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 13 0.50
17 6 0.23
18 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATATATATATATAAAA
Found at i:9764428 original size:23 final size:23
Alignment explanation
Indices: 9764402--9764480 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
9764392 TTTTAGAGTT
* * *
9764402 TGTGAAACGGAATGGTGAGAATG
1 TGTGACACGGCATGGTGAGAATA
9764425 TGTGACACGGCATGGT-AGGAATA
1 TGTGACACGGCATGGTGA-GAATA
*
9764448 TGTGACACGTCATGGTGAGAATA
1 TGTGACACGGCATGGTGAGAATA
*
9764471 TGTGAGACGG
1 TGTGACACGG
9764481 GTGTGACACG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.37, T:0.23
Consensus pattern (23 bp):
TGTGACACGGCATGGTGAGAATA
Found at i:9764715 original size:103 final size:103
Alignment explanation
Indices: 9764572--9765514 Score: 592
Period size: 104 Copynumber: 9.2 Consensus size: 103
9764562 GTGACACGAC
* * * * * * * *
9764572 AGGGTTTGGAATGTGTGACATGCCATGGTCAGACGTGTGACACTAAAGGGTTACAATGTGTGAAA
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACATGTGACACGATAGGGTTATAATGTGTGAAA
*
9764637 CGGCACAGTGATAATGTGTGACACGGGTGTGACATGGT
66 CGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
* * *
9764675 AGGATTTAGAGTGTGTGACACGCTATGGCCAGACATGTGACACGATAGGGTTATAATATGTGAAA
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACATGTGACACGATAGGGTTATAATGTGTGAAA
* * **
9764740 TGGCACAGTGATAATGTTTGACACGGGTGTGACACGAC
66 CGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
** ** * *
9764778 AGGGTTTAGAGTGTGTGACACGCCATGAAGGGA-ATTTGTGACACGGTAGGGTCATAATGTGTGA
1 AGGGTTTAGAGTGTGTGACACGCCATG--GCCAGACATGTGACACGATAGGGTTATAATGTGTGA
*
9764842 AACGGCACAGTGATAATGTTTGACAAGGGTGTGACATGGT
64 AACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
* *** * * * * *
9764882 AGGGTTTAGAGTGTGTGACACACCATGGAGGGA-ATCTATGATACGACAGGGTGATAATTTGT-A
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACA--TGTGACACGATAGGGTTATAATGTGTGA
* * * * * * * *
9764945 AGACGACACGGTGAGAATATGTGACACGAGTGTGACACGGC
64 A-ACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
** * * * ** *
9764986 AACGTTTACAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGGCAGGGTCATAATGTGTGAA
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAG-ACATGTGACACGATAGGGTTATAATGTGTGAA
* *
9765051 ATGGCACAGTGATAATGTTTGGCAC------GACA--G-
65 ACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
* * * ** * *** ** ** * * *
9765081 -GGTTTAGAGTGTGTGACACGC-CATGGAGGGA-ATTTGTAACACGACAGGGTGATAATGTGTGA
1 AGGGTT-TAGAGTGTGTGACACGCCATG-GCCAGACATGTGACACGATAGGGTTATAATGTGTGA
* * * * * * **
9765143 GACGGCACGGTGAGAATATGTGACACGGGTGTGACAAGAC
64 AACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
** * * * * * *
9765183 AGCTTTTACAGTGTGTGACACCCCATGGTCAGAACTTGTGACACGACAAGGTTATAATGTGTGAA
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAG-ACATGTGACACGATAGGGTTATAATGTGTGAA
** * *
9765248 ACCACACAATGATAATGTTTGACACGGGTGTGACACGGT
65 ACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
*** * ** *
9765287 AGGGTTTAGAGTGTGTGACACGCCATGGAGGGA-ATCTATGACACGGCAGGGTGATAATGTGTGA
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACA--TGTGACACGATAGGGTTATAATGTGTGA
* * * * * * * *
9765351 GACGGCACGGTGAGAATATGTGAGACTGGTGTGACATGAT
64 AACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
* * * * *
9765391 AGCGTTTAGAGTGTGTGACATGCCATGGTCAGA-ATGTGTGACATGCCAT-GGGTT-TAATATGT
1 AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACA--TGTGACA--CGATAGGGTTATAATGTGT
* * ** * * *
9765453 GACACGCCATGGTGATAATGTTTGACACAGGTGTGACACGGA
62 GAAACGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
*
9765495 AAGGTTTAGAGTGTGTGACA
1 AGGGTTTAGAGTGTGTGACA
9765515 TGAGGGAATC
Statistics
Matches: 641, Mismatches: 171, Indels: 55
0.74 0.20 0.06
Matches are distributed among these distances:
93 46 0.07
94 4 0.01
95 11 0.02
96 1 0.00
98 4 0.01
99 4 0.01
102 13 0.02
103 122 0.19
104 426 0.66
105 9 0.01
106 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (103 bp):
AGGGTTTAGAGTGTGTGACACGCCATGGCCAGACATGTGACACGATAGGGTTATAATGTGTGAAA
CGGCACAGTGATAATGTTTGACACGGGTGTGACATGGT
Found at i:9764973 original size:23 final size:23
Alignment explanation
Indices: 9764924--9764973 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
9764914 AATCTATGAT
* * * *
9764924 ACGACAGGGTGATAATTTGTAAG
1 ACGACACGGTGAGAATATGTAAC
*
9764947 ACGACACGGTGAGAATATGTGAC
1 ACGACACGGTGAGAATATGTAAC
9764970 ACGA
1 ACGA
9764974 GTGTGACACG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (23 bp):
ACGACACGGTGAGAATATGTAAC
Found at i:9765048 original size:23 final size:23
Alignment explanation
Indices: 9765022--9765170 Score: 84
Period size: 23 Copynumber: 6.4 Consensus size: 23
9765012 GGTCAGAACT
*
9765022 TGTGACACGGCAGGGTCATAATG
1 TGTGACACGGCAGGGTGATAATG
* * **
9765045 TGTGAAATGGCACAGTGATAATG
1 TGTGACACGGCAGGGTGATAATG
* * * *
9765068 TTTGGCACGACAGGGT-TTAGAGTG
1 TGTGACACGGCAGGGTGATA-A-TG
* * * ** *
9765092 TGTGACACGCCATGGAGGGAATT
1 TGTGACACGGCAGGGTGATAATG
* *
9765115 TGTAACACGACAGGGTGATAATG
1 TGTGACACGGCAGGGTGATAATG
* * * *
9765138 TGTGAGACGGCACGGTGAGAATA
1 TGTGACACGGCAGGGTGATAATG
9765161 TGTGACACGG
1 TGTGACACGG
9765171 GTGTGACAAG
Statistics
Matches: 88, Mismatches: 35, Indels: 6
0.68 0.27 0.05
Matches are distributed among these distances:
22 2 0.02
23 71 0.81
24 14 0.16
25 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (23 bp):
TGTGACACGGCAGGGTGATAATG
Found at i:9765048 original size:208 final size:207
Alignment explanation
Indices: 9764506--9765637 Score: 1144
Period size: 208 Copynumber: 5.5 Consensus size: 207
9764496 GTTTAGAGTG
* * * * * * *
9764506 TGTGACACGTCAGGGTGCTAATGTGTGAGACGACACGATGAG-A-ATGTAACAGGGGCGTGACAC
1 TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACA-CGGTGTGACAC
* * * * * * * * *
9764569 GACAGGGTTTGGAATGTGTGACATGCCATGGTCAG-ACGTGTGACACTAAAGGGTTACAATGTGT
65 GACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGACAGGGTCATAATGTGT
* * * *
9764633 GAAACGGCACAGTGATAATGTGTGACACGGGTGTGACATGGTAGGATTTAGAGTGTGTGACACGC
130 GAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGC
* ***
9764698 TATGGCCAG-A-C
195 CATGGAGGGAATC
* * * * * * * * *
9764709 ATGTGACACGATAGGGTTATAATATGTGAAATGGCACAGTGATAATGTTTGACACGGGTGTGACA
1 -TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACAC-GGTGTGACA
* **** * **
9764774 CGACAGGGTTTAGAGTGTGTGACACGCCATGAAGGGAATTTGTGACACGGTAGGGTCATAATGTG
64 CGACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGACAGGGTCATAATGTG
* *
9764839 TGAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACATGGTAGGGTTTAGAGTGTGTGACACA
129 TGAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACG
9764904 CCATGGAGGGAATC
194 CCATGGAGGGAATC
* * * * *
9764918 TATGATACGACAGGGTGATAATTTGTAAGACGACACGGTGAGAATATGTGACACGAGTGTGACAC
1 TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACG-GTGTGACAC
* * * *
9764983 GGCAACGTTTACAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGGCAGGGTCATAATGTGT
65 GACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGACAGGGTCATAATGTGT
* **
9765048 GAAATGGCACAGTGATAATG-TT--------TG-G-CACGACAGGGTTTAGAGTGTGTGACACGC
130 GAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGC
*
9765102 CATGGAGGGAATT
195 CATGGAGGGAATC
* *
9765115 TGTAACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACAA
1 TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACAC-GGTGTGACAC
* * * * *
9765180 GACAGCTTTTACAGTGTGTGACACCCCATGGTCAGAACTTGTGACACGACAAGGTTATAATGTGT
65 GACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGACAGGGTCATAATGTGT
** * *
9765245 GAAACCACACAATGATAATGTTTGACACGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGC
130 GAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGC
9765310 CATGGAGGGAATC
195 CATGGAGGGAATC
* * * *
9765323 TATGACACGGCAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAGACTGGTGTGACAT
1 TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACAC-GGTGTGACAC
* * * * * *
9765388 GATAGCGTTTAGAGTGTGTGACATGCCATGGTCAGAA-TGTGTGACATGCCATGGGT-TTAATAT
65 GACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACT-TGTGACACGACA-GGGTCATAATGT
* * ** * *
9765451 GTGACACGCCATGGTGATAATGTTTGACACA-GGTGTGACACGGAAAGGTTTAGAGTGTGTG--A
128 GTGAAACGGCACAGTGATAATGTTTGACA-AGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACA
9765513 ---CAT-GAGGGAATC
192 CGCCATGGAGGGAATC
** ** * **
9765525 TGTGACACGGTAGGGTGATAATGTGTGAGACGAAACTGTGAGAATATGTGGGACTGGTGTGACAC
1 TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACAC-GGTGTGACAC
* * * * *
9765590 GGCAGCGTTTAGAGTGTGAGACATGCCATGGTCACAACGTGTGACACG
65 GACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACG
9765638 CCATGGTGTG
Statistics
Matches: 779, Mismatches: 126, Indels: 48
0.82 0.13 0.05
Matches are distributed among these distances:
197 167 0.21
198 4 0.01
199 2 0.00
202 108 0.14
203 3 0.00
204 31 0.04
205 1 0.00
206 45 0.06
207 93 0.12
208 321 0.41
209 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (207 bp):
TGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGTGTGACACG
ACAGCGTTTAGAGTGTGTGACACGCCATGGTCAGAACTTGTGACACGACAGGGTCATAATGTGTG
AAACGGCACAGTGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGCC
ATGGAGGGAATC
Found at i:9765077 original size:104 final size:104
Alignment explanation
Indices: 9764506--9765068 Score: 519
Period size: 104 Copynumber: 5.5 Consensus size: 104
9764496 GTTTAGAGTG
* * * * * * * *
9764506 TGTGACACGTCAGGGTGCTAATGTGTGAGACGACAC-GATGAGAA--TGTAACAGGGGCGTGACA
1 TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAG-TGATAATGTGTGACACGGGTGTGACA
* * * * *
9764568 CGACAGGGTTTGGAATGTGTGACATGCCATGGTCAG-ACG
65 CGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
* * * * *
9764607 TGTGACACTAAAGGGTTACAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACAT
1 TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACAC
* * * * *
9764672 GGTAGGATTTAGAGTGTGTGACACGCTATGGCCAG-ACA
66 GGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
* * * * *
9764710 TGTGACACGATAGGGTTATAATATGTGAAATGGCACAGTGATAATGTTTGACACGGGTGTGACAC
1 TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACAC
* **** *
9764775 GACAGGGTTTAGAGTGTGTGACACGCCATGAAGGGAATT
66 GGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
** * * * *
9764814 TGTGACACGGTAGGGTCATAATGTGTGAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACAT
1 TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACAC
* * ***
9764879 GGTAGGGTTTAGAGTGTGTGACACACCATGGAGGGAA-T
66 GGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
* * * * * * * *
9764917 CTATGATACGACAGGGTGATAATTTGT-AAGACGACACGGTGAGAATATGTGACACGAGTGTGAC
1 -TGTGACACGACAGGGTGATAATGTGTGAA-ACGGCACAGTGATAATGTGTGACACGGGTGTGAC
** *
9764981 ACGGCAACGTTTACAGTGTGTGACACGCCATGGTCAGAACT
64 ACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
* * *
9765022 TGTGACACGGCAGGGTCATAATGTGTGAAATGGCACAGTGATAATGT
1 TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAGTGATAATGT
9765069 TTGGCACGAC
Statistics
Matches: 373, Mismatches: 81, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
101 33 0.09
102 1 0.00
103 132 0.35
104 204 0.55
105 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.24
Consensus pattern (104 bp):
TGTGACACGACAGGGTGATAATGTGTGAAACGGCACAGTGATAATGTGTGACACGGGTGTGACAC
GGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACT
Found at i:9765242 original size:405 final size:404
Alignment explanation
Indices: 9764508--9765433 Score: 1054
Period size: 405 Copynumber: 2.3 Consensus size: 404
9764498 TTAGAGTGTG
* * * * * ** *
9764508 TGACACGTCAGGGTGCTAATGTGTGAGACGACACGATGAG-A-ATGTAACAGGGGCGTGACACGA
1 TGACACGACAGGGTGATAATGTGTAAGACGACACGGTGAGAATATGTGACACTGGTGTGACACGA
** ** * * * *** * *
9764571 CAGGGTTTGGAATGTGTGACATGCCATGGTCAG-ACGTGTGACACTAAAGGGTTACAATGTGTGA
66 CAACGTTTACAGTGTGTGACACGCCATGGTCAGAATGTGTGACACGGCAGGGTCATAATGTGTGA
* * * *
9764635 AACGGCACAGTGATAATGTGTGACACGGGTGTGACATGGTAGGATTTAGAGTGTGTGACACGCTA
131 AATGGCACAGTGATAATGTTTGGCAC------GACA--G--GG-TTTAGAGTGTGTGACACGCCA
* * * * * * * *
9764700 TGGCCAGACATGTGACACGATAGGGTTATAATATGTGAAATGGCACAGTGATAATGTTTGACACG
185 TGGACAGACATGTAACACGACAGGGTGATAATATGTGAAACGGCACAGTGAGAATATGTGACACG
* * * * ** * ** *
9764765 GGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGAAGGGAATTTGTGACACGGTAGGGT
250 GGTGTGACAAGACAGCGTTTACAGTGTGTGACACCCCATGAACAGAACTTGTGACACGACAAGGT
** * *
9764830 CATAATGTGTGAAACGGCACAGTGATAATGTTTGACAAGGGTGTGACATGGTAGGGTTTAGAGTG
315 CATAATGTGTGAAACCACACAATGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTG
9764895 TGTGACACACCATGGAGGGAATCTA
380 TGTGACACACCATGGAGGGAATCTA
* *
9764920 TGATACGACAGGGTGATAATTTGTAAGACGACACGGTGAGAATATGTGACAC-GAGTGTGACACG
1 TGACACGACAGGGTGATAATGTGTAAGACGACACGGTGAGAATATGTGACACTG-GTGTGACACG
*
9764984 GCAACGTTTACAGTGTGTGACACGCCATGGTCAGAACT-TGTGACACGGCAGGGTCATAATGTGT
65 ACAACGTTTACAGTGTGTGACACGCCATGGTCAGAA-TGTGTGACACGGCAGGGTCATAATGTGT
**
9765048 GAAATGGCACAGTGATAATGTTTGGCACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGA-
129 GAAATGGCACAGTGATAATGTTTGGCACGACAGGGTTTAGAGTGTGTGACACGCCATGGACAGAC
* * *
9765112 ATTTGTAACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGA
194 A--TGTAACACGACAGGGTGATAATATGTGAAACGGCACAGTGAGAATATGTGACACGGGTGTGA
* ** *
9765177 CAAGACAGCTTTTACAGTGTGTGACACCCCATGGTCAGAACTTGTGACACGACAAGGTTATAATG
257 CAAGACAGCGTTTACAGTGTGTGACACCCCATGAACAGAACTTGTGACACGACAAGGTCATAATG
*
9765242 TGTGAAACCACACAATGATAATGTTTGACACGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACA
322 TGTGAAACCACACAATGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACA
*
9765307 CGCCATGGAGGGAATCTA
387 CACCATGGAGGGAATCTA
* * * * *
9765325 TGACACGGCAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAGACTGGTGTGACATGA
1 TGACACGACAGGGTGATAATGTGTAAGACGACACGGTGAGAATATGTGACACTGGTGTGACACGA
* * * *
9765390 TAGCGTTTAGAGTGTGTGACATGCCATGGTCAGAATGTGTGACA
66 CAACGTTTACAGTGTGTGACACGCCATGGTCAGAATGTGTGACA
9765434 TGCCATGGGT
Statistics
Matches: 434, Mismatches: 71, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
403 1 0.00
404 26 0.06
405 275 0.63
406 1 0.00
407 1 0.00
409 4 0.01
412 34 0.08
413 2 0.00
414 43 0.10
415 47 0.11
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.24
Consensus pattern (404 bp):
TGACACGACAGGGTGATAATGTGTAAGACGACACGGTGAGAATATGTGACACTGGTGTGACACGA
CAACGTTTACAGTGTGTGACACGCCATGGTCAGAATGTGTGACACGGCAGGGTCATAATGTGTGA
AATGGCACAGTGATAATGTTTGGCACGACAGGGTTTAGAGTGTGTGACACGCCATGGACAGACAT
GTAACACGACAGGGTGATAATATGTGAAACGGCACAGTGAGAATATGTGACACGGGTGTGACAAG
ACAGCGTTTACAGTGTGTGACACCCCATGAACAGAACTTGTGACACGACAAGGTCATAATGTGTG
AAACCACACAATGATAATGTTTGACAAGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACACC
ATGGAGGGAATCTA
Found at i:9765271 original size:104 final size:104
Alignment explanation
Indices: 9765082--9765637 Score: 434
Period size: 104 Copynumber: 5.4 Consensus size: 104
9765072 GCACGACAGG
** * * *
9765082 GTTTAGAGTGTGTGACACGCCATGGAGGGAATTTGTAACACGACAGGGTGATAATGTGTGAGACG
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATCTGTGACACGACAGGGTGATAATGTGTGAGACC
*
9765147 GCACGGTGAGAATATGTGACACGGGTGTGACAAGACAGC
66 GCACGGTGAGAATATGTGACACGGGTGTGACAAGATAGC
* * * * * * *
9765186 TTTTACAGTGTGTGACACCCCATGGTCAGAA-CTTGTGACACGACAAGGTTATAATGTGTGAAAC
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATC-TGTGACACGACAGGGTGATAATGTGTGAGAC
* ** * * * * * *
9765250 CACACAATGATAATGTTTGACACGGGTGTGACACGGTAGG
65 CGCACGGTGAGAATATGTGACACGGGTGTGACAAGATAGC
** * * *
9765290 GTTTAGAGTGTGTGACACGCCATGGAGGGAATCTATGACACGGCAGGGTGATAATGTGTGAGACG
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATCTGTGACACGACAGGGTGATAATGTGTGAGACC
* * *
9765355 GCACGGTGAGAATATGTGAGACTGGTGTGACATGATAGC
66 GCACGGTGAGAATATGTGACACGGGTGTGACAAGATAGC
* * * * * * * *
9765394 GTTTAGAGTGTGTGACATGCCATGGTCAGAATGTGTGACATGCCATGGGT-TTAATATGTGACA-
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATCTGTGACACGACA-GGGTGATAATGTGTGAGAC
* * * * * * *
9765457 CGCCATGGTGATAATGTTTGACACAGGTGTGACACGGAAAG-
65 CG-CACGGTGAGAATATGTGACACGGGTGTGACA-AGATAGC
* **
9765498 GTTTAGAGTGTGTGACATG--A-GG---GAATCTGTGACACGGTAGGGTGATAATGTGTGAGA-C
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATCTGTGACACGACAGGGTGATAATGTGTGAGACC
* * ** * * **
9765556 GAAACTGTGAGAATATGTGGGACTGGTGTGACACGGCAGC
66 G-CACGGTGAGAATATGTGACACGGGTGTGACAAGATAGC
* * * *
9765596 GTTTAGAGTGTGAGACATGCCATGGTCACAA-CGTGTGACACG
1 GTTTAGAGTGTGTGACACGCCATGGACAGAATC-TGTGACACG
9765638 CCATGGTGTG
Statistics
Matches: 351, Mismatches: 87, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
97 7 0.02
98 65 0.19
100 1 0.00
101 4 0.01
102 1 0.00
103 2 0.01
104 262 0.75
105 9 0.03
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (104 bp):
GTTTAGAGTGTGTGACACGCCATGGACAGAATCTGTGACACGACAGGGTGATAATGTGTGAGACC
GCACGGTGAGAATATGTGACACGGGTGTGACAAGATAGC
Found at i:9765362 original size:23 final size:23
Alignment explanation
Indices: 9765329--9765376 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
9765319 AATCTATGAC
* * *
9765329 ACGGCAGGGTGATAATGTGTGAG
1 ACGGCACGGTGAGAATATGTGAG
9765352 ACGGCACGGTGAGAATATGTGAG
1 ACGGCACGGTGAGAATATGTGAG
9765375 AC
1 AC
9765377 TGGTGTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.40, T:0.19
Consensus pattern (23 bp):
ACGGCACGGTGAGAATATGTGAG
Found at i:9765471 original size:23 final size:23
Alignment explanation
Indices: 9765402--9765480 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
9765392 GCGTTTAGAG
* * *
9765402 TGTGTGACATGCCATGGTCAGAA
1 TGTGTGACACGCCATGGTGATAA
* *
9765425 TGTGTGACATGCCATGG-GTTTAA
1 TGTGTGACACGCCATGGTG-ATAA
*
9765448 TATGTGACACGCCATGGTGATAA
1 TGTGTGACACGCCATGGTGATAA
*
9765471 TGTTTGACAC
1 TGTGTGACAC
9765481 AGGTGTGACA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (23 bp):
TGTGTGACACGCCATGGTGATAA
Found at i:9766150 original size:55 final size:54
Alignment explanation
Indices: 9766077--9766258 Score: 202
Period size: 55 Copynumber: 3.3 Consensus size: 54
9766067 CATATGACGC
*
9766077 GTTGTGGTTTAACTGGTTTTTTGGATTTTTAGCGTGTCACGGCTGTTCCTGGCGT
1 GTTGTGGGTTAACTGGTTTTTTGG-TTTTTAGCGTGTCACGGCTGTTCCTGGCGT
* * * * * *
9766132 GTTGTAGGTTAATTGGTTTTTTGGGTTTTTAACGTGTCACGGTTGTTTCTGGTGT
1 GTTGTGGGTTAACTGGTTTTTT-GGTTTTTAGCGTGTCACGGCTGTTCCTGGCGT
** * * * * * *
9766187 GTCATGGGTTAACTAGATTTATAGGTTTTTGGTGTGTCACGGCTGTTCCTGGCAT
1 GTTGTGGGTTAACT-GGTTTTTTGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGT
9766242 GTTGTGGGTTAACTGGT
1 GTTGTGGGTTAACTGGT
9766259 CACATGAGTT
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
54 2 0.02
55 92 0.91
56 7 0.07
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.45
Consensus pattern (54 bp):
GTTGTGGGTTAACTGGTTTTTTGGTTTTTAGCGTGTCACGGCTGTTCCTGGCGT
Found at i:9766318 original size:31 final size:31
Alignment explanation
Indices: 9766271--9766350 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
9766261 CATGAGTTTT
* *
9766271 TGGCGTGTCACGACATTTGACTTGATATGCA
1 TGGCGTGTAACAACATTTGACTTGATATGCA
* * *
9766302 TGGTGTGTTACAACATTTTACTTGATATGCA
1 TGGCGTGTAACAACATTTGACTTGATATGCA
9766333 TGGCGTGTAACAACATTT
1 TGGCGTGTAACAACATTT
9766351 ATTTCTTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
TGGCGTGTAACAACATTTGACTTGATATGCA
Found at i:9768794 original size:81 final size:81
Alignment explanation
Indices: 9768624--9768794 Score: 218
Period size: 81 Copynumber: 2.1 Consensus size: 81
9768614 ATCAGATGAT
* * * * *
9768624 GCTGAAAGAGTCAATGTTTCTCAGGCTGCTTCAGTTATTAATGCATCTGCGAAAGGGGAGGGGGA
1 GCTGAAGGAGTCAATGTTCCTCAGGCTGATTCAGTTATCAATGCATCTGCGAAAGGGGAAGGGGA
9768689 CCTTCACTCGCTCGTG
66 CCTTCACTCGCTCGTG
* * * **
9768705 GCTAAAGGAGTCCATGTTCCTGAGGCTGATTC-GATTATCAATGCATCTGCGGGAGGGGAAGGGG
1 GCTGAAGGAGTCAATGTTCCTCAGGCTGATTCAG-TTATCAATGCATCTGCGAAAGGGGAAGGGG
*
9768769 ACCTTCAGTCGCTCGTG
65 ACCTTCACTCGCTCGTG
*
9768786 GTTGAAGGA
1 GCTGAAGGA
9768795 CAACATCTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 75 0.99
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (81 bp):
GCTGAAGGAGTCAATGTTCCTCAGGCTGATTCAGTTATCAATGCATCTGCGAAAGGGGAAGGGGA
CCTTCACTCGCTCGTG
Found at i:9770422 original size:84 final size:84
Alignment explanation
Indices: 9770222--9770439 Score: 258
Period size: 84 Copynumber: 2.6 Consensus size: 84
9770212 TTTGTGTCGT
** * * * * *
9770222 GTCA-CCCACAAGACTGCAACATTTTGGCCTGCCACTCCAAGTCTGCATGCACTCAGCGTGTCAC
1 GTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAAGTCTGCATGCACTCAGCATGTCAC
* *
9770286 CATAATTGGCCCCTGCCAT
66 CACAATTGGCCCCTGCCAG
* * ** *
9770305 GTCACCCCACAAGACTGCAAGAAGTCAATGTGTCACGCCAAGTCTGCATGCACTCGGCATGTCAC
1 GTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAAGTCTGCATGCACTCAGCATGTCAC
* *
9770370 CACAATTGGCCCTTGCCGG
66 CACAATTGGCCCCTGCCAG
*
9770389 GTCACCCCAAAAGACTGCAACAAGTTAGCGTGTCACGCCATAAGTCTGCAT
1 GTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCC--AAGTCTGCAT
9770440 TAACTTAGTG
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
83 4 0.04
84 97 0.87
86 10 0.09
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (84 bp):
GTCACCCCACAAGACTGCAACAAGTTAGCGTGTCACGCCAAGTCTGCATGCACTCAGCATGTCAC
CACAATTGGCCCCTGCCAG
Found at i:9770438 original size:31 final size:31
Alignment explanation
Indices: 9770389--9770468 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
9770379 CCCTTGCCGG
* * * *
9770389 GTCACCCCAAAAGACTGCAACAAGTTAGCGT
1 GTCACGCCATAAGTCTGCAACAACTTAGCGT
** *
9770420 GTCACGCCATAAGTCTGCATTAACTTAGTGT
1 GTCACGCCATAAGTCTGCAACAACTTAGCGT
9770451 GTCACGCCATAAGTCTGC
1 GTCACGCCATAAGTCTGC
9770469 TTGCACTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (31 bp):
GTCACGCCATAAGTCTGCAACAACTTAGCGT
Found at i:9770477 original size:31 final size:31
Alignment explanation
Indices: 9770413--9770486 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
9770403 CTGCAACAAG
*
9770413 TTAGCGTGTCACGCCATAAGTCTGCATTAAC
1 TTAGTGTGTCACGCCATAAGTCTGCATTAAC
*
9770444 TTAGTGTGTCACGCCATAAGTCTGC-TTGCAC
1 TTAGTGTGTCACGCCATAAGTCTGCATT-AAC
9770475 TTAGTGTGTCAC
1 TTAGTGTGTCAC
9770487 TATAATTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 2 0.05
31 38 0.95
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (31 bp):
TTAGTGTGTCACGCCATAAGTCTGCATTAAC
Found at i:9770510 original size:117 final size:115
Alignment explanation
Indices: 9770329--9770594 Score: 361
Period size: 117 Copynumber: 2.3 Consensus size: 115
9770319 CTGCAAGAAG
* *
9770329 TCAATGTGTCACGCCAAGTCTGCATGCACTCGGCATGTCACCACAATTGGCCCTTGCCGGGTCAC
1 TCAATGTGTCACGCCAAGTCTGCATGCACTCAGCATGTCACCACAATTGGCCCCTGCCGGGTCAC
* * *
9770394 CCCAAAAGACTGCAACAAGTTAGCGTGTCACGCCATAAGTCTGCATTAAC
66 CCCAAAAGACTGCAACAAGTCAACGTGTCACGCCATAAGTCTGAATTAAC
* * * * ** * * *
9770444 TTAGTGTGTCACGCCATAAGTCTGCTTGCACTTAGTGTGTCACTATAATTGGCCCCTGCCGTGTC
1 TCAATGTGTCACGCC--AAGTCTGCATGCACTCAGCATGTCACCACAATTGGCCCCTGCCGGGTC
* *
9770509 ACCCCACAAGACTGTAACAAGTCAACGTGTCACGCCATAAGTCTGAATTAAC
64 ACCCCAAAAGACTGCAACAAGTCAACGTGTCACGCCATAAGTCTGAATTAAC
*
9770561 TCAACGTGTCACGCCAAGTCTGCATGCACTCAGC
1 TCAATGTGTCACGCCAAGTCTGCATGCACTCAGC
9770595 GTAACATCCA
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
115 29 0.23
117 98 0.77
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (115 bp):
TCAATGTGTCACGCCAAGTCTGCATGCACTCAGCATGTCACCACAATTGGCCCCTGCCGGGTCAC
CCCAAAAGACTGCAACAAGTCAACGTGTCACGCCATAAGTCTGAATTAAC
Found at i:9770541 original size:31 final size:31
Alignment explanation
Indices: 9770503--9770572 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
9770493 TGGCCCCTGC
*
9770503 CGTGTCACCCCACAAGACTGTAA-CAAGTCAA
1 CGTGTCACCCCACAAGACTG-AATCAACTCAA
* * * *
9770534 CGTGTCACGCCATAAGTCTGAATTAACTCAA
1 CGTGTCACCCCACAAGACTGAATCAACTCAA
9770565 CGTGTCAC
1 CGTGTCAC
9770573 GCCAAGTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (31 bp):
CGTGTCACCCCACAAGACTGAATCAACTCAA
Found at i:9770591 original size:29 final size:30
Alignment explanation
Indices: 9770530--9770592 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
9770520 CTGTAACAAG
*
9770530 TCAACGTGTCACGCCATAAGTCTGAATTAAC
1 TCAACGTGTCACGCCA-AAGTCTGAATGAAC
* *
9770561 TCAACGTGTCACGCC-AAGTCTGCATGCAC
1 TCAACGTGTCACGCCAAAGTCTGAATGAAC
9770590 TCA
1 TCA
9770593 GCGTAACATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.48
31 15 0.52
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (30 bp):
TCAACGTGTCACGCCAAAGTCTGAATGAAC
Found at i:9775285 original size:31 final size:31
Alignment explanation
Indices: 9775250--9775781 Score: 616
Period size: 31 Copynumber: 16.8 Consensus size: 31
9775240 TTTATCAGTC
* * *
9775250 ATGTTGTTACACGTCATGCATTTAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775281 ATGTTGTAACATGTCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775312 ATGTGGTAACACGCCATGCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
9775343 ATATTGTAACACGTCATGCATATAGCGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
9775374 ATGTGGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * * * * *
9775405 ATGTCGTAATACGTCATGCATTTAATGGAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775436 ATGTGGTAACACGCCATGCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775467 ATGTGGTAACACGTCATGCATATAACGTAAAATAACGTTAA
1 ATGTTGTAACACGCCATGCATATAACG-----T-A----AA
** *
9775508 ATGTTGTAACACGTTATGTATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
9775539 ATGTTGTTACACACCATGCATATAACGTTAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
9775570 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
9775601 ATG-TGATAACATGCCATGCATATAACGTAAA
1 ATGTTG-TAACACGCCATGCATATAACGTAAA
**
9775632 ATGTTGTAACACGCCATGCATATAGTGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775663 ATGTGGTAACACGCCATGCATATAACGGAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
9775694 ATGTGGTAACACGCCATGCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
9775725 ATGTGGTAACACGCGATGCATATAACGTTAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
9775756 ATGTTGTAACACGCCTTGCATATAAC
1 ATGTTGTAACACGCCATGCATATAAC
9775782 CAATGTCGTG
Statistics
Matches: 430, Mismatches: 59, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
30 2 0.00
31 396 0.92
32 2 0.00
35 1 0.00
36 2 0.00
37 1 0.00
41 26 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:9776509 original size:24 final size:24
Alignment explanation
Indices: 9776458--9776509 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9776448 TATAATTACA
* ***
9776458 CTTAATAACTTTATTAGTTTTTTT
1 CTTAATAACTTTATTAGTTATCAC
9776482 CTTAATAACTTTATTAGTTATCAC
1 CTTAATAACTTTATTAGTTATCAC
9776506 CTTA
1 CTTA
9776510 GATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
CTTAATAACTTTATTAGTTATCAC
Found at i:9776532 original size:14 final size:16
Alignment explanation
Indices: 9776513--9776549 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
9776503 CACCTTAGAT
9776513 TTTATAA-TA-TATTA
1 TTTATAATTAGTATTA
9776527 TTTATAATTAGTTATTA
1 TTTATAATTAG-TATTA
9776544 TTTATA
1 TTTATA
9776550 CAAACTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATTAGTATTA
Found at i:9776638 original size:17 final size:17
Alignment explanation
Indices: 9776598--9776652 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
9776588 TCATTAATTT
* *
9776598 TACATATATATAATAAA
1 TACATATATTTAATATA
9776615 GTA-ATATA-TT-ATATA
1 -TACATATATTTAATATA
*
9776630 TACATATATTTAATTTA
1 TACATATATTTAATATA
9776647 TACATA
1 TACATA
9776653 AGCATCACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.06
15 9 0.29
16 3 0.10
17 15 0.48
18 2 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
TACATATATTTAATATA
Found at i:9784692 original size:22 final size:22
Alignment explanation
Indices: 9784666--9784707 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9784656 TCATTGAAAA
9784666 TTTTATTTATTTAATTTTATAT
1 TTTTATTTATTTAATTTTATAT
*
9784688 TTTTATTTATTTTATTTTAT
1 TTTTATTTATTTAATTTTAT
9784708 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTTATTTAATTTTATAT
Found at i:9792259 original size:22 final size:22
Alignment explanation
Indices: 9792234--9792275 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9792224 AAAATTACAA
9792234 CCAAACAA-AAACAAAAAAAAGG
1 CCAAA-AAGAAACAAAAAAAAGG
*
9792256 CCAAAAAGAAATAAAAAAAA
1 CCAAAAAGAAACAAAAAAAA
9792276 AGAAAGCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.76, C:0.14, G:0.07, T:0.02
Consensus pattern (22 bp):
CCAAAAAGAAACAAAAAAAAGG
Found at i:9792403 original size:10 final size:10
Alignment explanation
Indices: 9792378--9792425 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
9792368 GATTGGCGGC
*
9792378 AAAGAAGAAG
1 AAAGAAAAAG
*
9792388 AGAAGAGAAAG
1 A-AAGAAAAAG
9792399 AAAGAAAAAGG
1 AAAGAAAAA-G
9792410 AAGAGAAAAAG
1 AA-AGAAAAAG
9792421 AAAGA
1 AAAGA
9792426 GAGAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 11 0.34
11 14 0.44
12 7 0.22
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:9792413 original size:14 final size:13
Alignment explanation
Indices: 9792378--9792439 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 13
9792368 GATTGGCGGC
9792378 AAAG-AAGAAGAGA
1 AAAGAAAGAAGA-A
*
9792391 AGAGAAAGAAAGAA
1 AAAGAAAG-AAGAA
*
9792405 AAAGGAAG-AGAA
1 AAAGAAAGAAGAA
9792417 AAAGAAAGAGAGAA
1 AAAGAAAGA-AGAA
*
9792431 AAAAAAAGA
1 AAAGAAAGA
9792440 GAGAGAATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 11 0.28
13 3 0.08
14 22 0.55
15 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:9792423 original size:22 final size:21
Alignment explanation
Indices: 9792378--9792430 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 21
9792368 GATTGGCGGC
*
9792378 AAAGAAGAAGAGAAGAGAAAG
1 AAAGAAAAAGAGAAGAGAAAG
9792399 AAAGAAAAAG-GAAGAG-AA-
1 AAAGAAAAAGAGAAGAGAAAG
*
9792417 AAAGAAAGAGAGAA
1 AAAGAAAAAGAGAA
9792431 AAAAAAAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.31
19 5 0.17
20 6 0.21
21 9 0.31
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGAGAAGAGAAAG
Found at i:9792430 original size:26 final size:25
Alignment explanation
Indices: 9792384--9792433 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
9792374 CGGCAAAGAA
*
9792384 GAAGAGAAGAGAAAGAAAGAAAAAG
1 GAAGAGAAAAGAAAGAAAGAAAAAG
*
9792409 GAAGAGAAAAAGAAAGAGAGAAAAA
1 GAAGAG-AAAAGAAAGAAAGAAAAA
9792434 AAAAGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (25 bp):
GAAGAGAAAAGAAAGAAAGAAAAAG
Found at i:9792439 original size:26 final size:26
Alignment explanation
Indices: 9792385--9792441 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9792375 GGCAAAGAAG
* **
9792385 AAGAG-AAGAGAAAGAAAGAAAAAGG
1 AAGAGAAAAAGAAAGAAAGAAAAAAA
*
9792410 AAGAGAAAAAGAAAGAGAGAAAAAAA
1 AAGAGAAAAAGAAAGAAAGAAAAAAA
9792436 AAGAGA
1 AAGAGA
9792442 GAGAATGGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (26 bp):
AAGAGAAAAAGAAAGAAAGAAAAAAA
Found at i:9792440 original size:12 final size:13
Alignment explanation
Indices: 9792378--9792441 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 13
9792368 GATTGGCGGC
9792378 AAAGAAGAAGAG-A
1 AAAGAA-AAGAGAA
* *
9792391 AGAGAAAGAAAGAA
1 AAAGAAA-AGAGAA
*
9792405 AAAG-GAAGAGAA
1 AAAGAAAAGAGAA
9792417 AAAGAAAGAGAGAA
1 AAAGAAA-AGAGAA
9792431 AAA-AAAAGAGA
1 AAAGAAAAGAGA
9792442 GAGAATGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 15 0.37
13 13 0.32
14 13 0.32
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAGAA
Found at i:9792440 original size:14 final size:14
Alignment explanation
Indices: 9792397--9792443 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
9792387 GAGAAGAGAA
*
9792397 AGAAAGAAAAAGGAAG
1 AGAAA-AAAAAAG-AG
*
9792413 AGAAAAAGAAAGAG
1 AGAAAAAAAAAGAG
9792427 AGAAAAAAAAAGAG
1 AGAAAAAAAAAGAG
9792441 AGA
1 AGA
9792444 GAATGGAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.64
15 5 0.18
16 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAGAG
Found at i:9792442 original size:16 final size:16
Alignment explanation
Indices: 9792390--9792446 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
9792380 AGAAGAAGAG
* *
9792390 AAGAGAAAGAAAGAAA
1 AAGAGAGAGAAAAAAA
*
9792406 AAG-GA-AGAGAAAAAG
1 AAGAGAGAGA-AAAAAA
9792421 AA-AGAGAGAAAAAAA
1 AAGAGAGAGAAAAAAA
9792436 AAGAGAGAGAA
1 AAGAGAGAGAA
9792447 TGGAGGATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 17 0.50
16 14 0.41
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AAGAGAGAGAAAAAAA
Found at i:9792520 original size:20 final size:19
Alignment explanation
Indices: 9792475--9792539 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
9792465 AAAAAAAGAT
* *
9792475 AAAGAAAAAGAGAAAAGAAG
1 AAAGAGAAAGAG-GAAGAAG
9792495 AAAGAGAAAGAGTGAAGAAG
1 AAAGAGAAAGAG-GAAGAAG
*
9792515 AAAGAGAGAGAAGGAAGAA-
1 AAAGAGAAAG-AGGAAGAAG
9792534 AAAGAG
1 AAAGAG
9792540 CCAGTTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 6 0.15
20 32 0.80
21 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (19 bp):
AAAGAGAAAGAGGAAGAAG
Found at i:9792600 original size:23 final size:22
Alignment explanation
Indices: 9792573--9792658 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 22
9792563 CAAGGGAGAA
9792573 AAGGGAAGAAGAGAAAAAGAAAG
1 AAGGGAAGAAGA-AAAAAGAAAG
*
9792596 AAGGGAAGAAGAAAGAAGAAAG
1 AAGGGAAGAAGAAAAAAGAAAG
* ** *
9792618 -A-GAAAG-AGAAAGGAGAGA-
1 AAGGGAAGAAGAAAAAAGAAAG
*
9792636 AAGGGAAGAAGAAAGAAGAAAG
1 AAGGGAAGAAGAAAAAAGAAAG
9792658 A
1 A
9792659 GAAAGAGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
19 11 0.21
20 8 0.15
21 11 0.21
22 10 0.19
23 12 0.23
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (22 bp):
AAGGGAAGAAGAAAAAAGAAAG
Found at i:9792621 original size:34 final size:34
Alignment explanation
Indices: 9792577--9792685 Score: 114
Period size: 40 Copynumber: 3.1 Consensus size: 34
9792567 GGAGAAAAGG
9792577 GAAG-AAGAGAAAAAGAAAGAAGGGAAGAAGAAA
1 GAAGAAAGAGAAAAAGAAAGAAGGGAAGAAGAAA
*
9792610 GAAGAAAGAGAAAGAGAAAGGAGAGAAAGGGAAGAAGAAA
1 GAAGAAAGAG--A-A-AAA-GAAAG-AAGGGAAGAAGAAA
* *
9792650 GAAGAAAGAGAAAGAGAAAGGAGAGGAAG-AGAAA
1 GAAGAAAGAGAAAAAGAAAGAAG-GGAAGAAGAAA
9792684 GA
1 GA
9792686 TAAGGAAGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
33 4 0.06
34 14 0.22
35 9 0.14
36 3 0.05
37 2 0.03
38 4 0.06
39 4 0.06
40 24 0.38
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (34 bp):
GAAGAAAGAGAAAAAGAAAGAAGGGAAGAAGAAA
Found at i:9792628 original size:40 final size:41
Alignment explanation
Indices: 9792581--9792668 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 41
9792571 AAAAGGGAAG
9792581 AAGAGAAAAAGAAAG-AAGGGAAGAAGAAAGAAGAAAGAGA
1 AAGAGAAAAAGAAAGAAAGGGAAGAAGAAAGAAGAAAGAGA
* *
9792621 AAGAG-AAAGGAGAGAAAGGGAAGAAGAAAGAAGAAAGAGA
1 AAGAGAAAAAGAAAGAAAGGGAAGAAGAAAGAAGAAAGAGA
9792661 AAGAGAAA
1 AAGAGAAA
9792669 GGAGAGGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 7 0.16
40 35 0.80
41 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (41 bp):
AAGAGAAAAAGAAAGAAAGGGAAGAAGAAAGAAGAAAGAGA
Found at i:9792669 original size:40 final size:40
Alignment explanation
Indices: 9792596--9792674 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
9792586 AAAAAGAAAG
9792596 AAGGGAAGAAGAAAGAAGAAAGAGAAAGAGAAAGGAGAGA
1 AAGGGAAGAAGAAAGAAGAAAGAGAAAGAGAAAGGAGAGA
9792636 AAGGGAAGAAGAAAGAAGAAAGAGAAAGAGAAAGGAGAG
1 AAGGGAAGAAGAAAGAAGAAAGAGAAAGAGAAAGGAGAG
9792675 GAAGAGAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (40 bp):
AAGGGAAGAAGAAAGAAGAAAGAGAAAGAGAAAGGAGAGA
Found at i:9792674 original size:15 final size:15
Alignment explanation
Indices: 9792616--9792684 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
9792606 GAAAGAAGAA
9792616 AGAGAAAGAGAAAGG
1 AGAGAAAGAGAAAGG
*
9792631 AGAGAAAG-GGAA-G
1 AGAGAAAGAGAAAGG
9792644 A-AGAAAGA-AGAA--
1 AGAGAAAGAGA-AAGG
9792656 AGAGAAAGAGAAAGG
1 AGAGAAAGAGAAAGG
*
9792671 AGAGGAAGAGAAAG
1 AGAGAAAGAGAAAG
9792685 ATAAGGAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 7 0.16
13 13 0.29
14 4 0.09
15 21 0.47
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AGAGAAAGAGAAAGG
Found at i:9793114 original size:3 final size:3
Alignment explanation
Indices: 9793108--9793133 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9793098 AAATCAACCA
9793108 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9793134 GTGAACGAGA
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:9793559 original size:121 final size:121
Alignment explanation
Indices: 9793340--9793584 Score: 366
Period size: 121 Copynumber: 2.0 Consensus size: 121
9793330 TAGGTGCGGA
* * * * *
9793340 GTTCGAGAAGAATTTTCATCGAAACGTCGGGATAAATCCGAATTCTATACTCTAATACCCGTTAA
1 GTTCGAGAAGAATTTTCACCGAAACGTCGAGATAAATCCGAATTCTATACTCCAAAACCCATTAA
* *
9793405 CTCAAATAATTATTGTTAAAAAAAAATAAATATTAGAAAAAATAAATTTTCATAAT
66 CTCAAATAATCATTGTTAAAAAAAAATAAATATTAGAAAAAATAAATTTACATAAT
* *
9793461 GTTCGAGATGAATTTTCACCGAAGCGTCGAGATAAATCCGAATTCTATACTCCAAAACCCATTAA
1 GTTCGAGAAGAATTTTCACCGAAACGTCGAGATAAATCCGAATTCTATACTCCAAAACCCATTAA
* * *
9793526 CTCAAATAATCGTTG-TAAAAAAATAATATATATTTGAAAAAATAAATTTACATAAT
66 CTCAAATAATCATTGTTAAAAAAA-AATAAATATTAGAAAAAATAAATTTACATAAT
9793582 GTT
1 GTT
9793585 GCATTTAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
120 8 0.07
121 103 0.93
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (121 bp):
GTTCGAGAAGAATTTTCACCGAAACGTCGAGATAAATCCGAATTCTATACTCCAAAACCCATTAA
CTCAAATAATCATTGTTAAAAAAAAATAAATATTAGAAAAAATAAATTTACATAAT
Found at i:9793794 original size:10 final size:10
Alignment explanation
Indices: 9793757--9793801 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
9793747 TAGAAAGCTC
9793757 TAAA-AATAA
1 TAAATAATAA
9793766 TAAATAATTAA
1 TAAATAA-TAA
9793777 -AAATAATAA
1 TAAATAATAA
*
9793786 TAAACAATAA
1 TAAATAATAA
9793796 TAAATA
1 TAAATA
9793802 TATGAACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 7 0.23
10 21 0.68
11 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAATAATAA
Found at i:9795626 original size:27 final size:26
Alignment explanation
Indices: 9795596--9795660 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
9795586 TGTTATTTGC
*
9795596 TATTTTATTATTATTTTATCTTTTTAT
1 TATTTTATTATTATTTTAT-TATTTAT
9795623 TA-TTTATTTATTA-TTTATTATTTAT
1 TATTTTA-TTATTATTTTATTATTTAT
*
9795648 TATTTCATT-TTAT
1 TATTTTATTATTAT
9795661 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
24 3 0.09
25 10 0.30
26 12 0.36
27 8 0.24
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (26 bp):
TATTTTATTATTATTTTATTATTTAT
Found at i:9795628 original size:7 final size:7
Alignment explanation
Indices: 9795599--9795652 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
9795589 TATTTGCTAT
9795599 TTTATTA
1 TTTATTA
*
9795606 TTATTTTA
1 TT-TATTA
*
9795614 TCTTTTTA
1 T-TTATTA
9795622 -TTATTTA
1 TTTA-TTA
9795629 TTTATTA
1 TTTATTA
9795636 TTTATTA
1 TTTATTA
9795643 TTTATTA
1 TTTATTA
9795650 TTT
1 TTT
9795653 CATTTTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 2 0.05
7 25 0.61
8 13 0.32
9 1 0.02
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:9795889 original size:33 final size:31
Alignment explanation
Indices: 9795826--9795906 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
9795816 AAAATATATA
*
9795826 TTTTATTATTTA-TTTATTATTTCTATTTCT
1 TTTTATTATTTATTTTTTTATTTCTATTTCT
*
9795856 TTTTATTATTATATTTTTTTATTTCTTTATTCT
1 TTTTATTATT-TATTTTTTTATTTCTAT-TTCT
* *
9795889 TCTTCATAATTTATTTTT
1 T-TTTATTATTTATTTTT
9795907 ACTTTTTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 10 0.23
31 2 0.05
32 12 0.28
33 12 0.28
34 7 0.16
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (31 bp):
TTTTATTATTTATTTTTTTATTTCTATTTCT
Found at i:9796269 original size:17 final size:17
Alignment explanation
Indices: 9796247--9796279 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9796237 CGCTAGCTTC
*
9796247 TTCTTTCTTTTTCCTTT
1 TTCTTTCTTTCTCCTTT
9796264 TTCTTTCTTTCTCCTT
1 TTCTTTCTTTCTCCTT
9796280 CTCTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTTCTTTCTCCTTT
Found at i:9796585 original size:22 final size:23
Alignment explanation
Indices: 9796537--9796591 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
9796527 GTTTAGGATT
* *
9796537 TTTTTTTTGGATTTGATCTGTGA
1 TTTTTTTTGGATTCGAACTGTGA
* *
9796560 TTTTTTTTGGGTTCGAACT-TGG
1 TTTTTTTTGGATTCGAACTGTGA
9796582 TTTTTCTTTG
1 TTTTT-TTTG
9796592 TTTTTTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.09, C:0.07, G:0.22, T:0.62
Consensus pattern (23 bp):
TTTTTTTTGGATTCGAACTGTGA
Found at i:9796603 original size:22 final size:21
Alignment explanation
Indices: 9796578--9796619 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9796568 GGGTTCGAAC
*
9796578 TTGGTTTTTCTTTGTTTTTTGA
1 TTGGTTTTT-TTGGTTTTTTGA
9796600 TTGGTTTTTTTGGTTTTTTG
1 TTGGTTTTTTTGGTTTTTTG
9796620 GTTCTTGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.02, C:0.02, G:0.21, T:0.74
Consensus pattern (21 bp):
TTGGTTTTTTTGGTTTTTTGA
Found at i:9796824 original size:19 final size:19
Alignment explanation
Indices: 9796788--9796837 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
9796778 ACCATTCCTC
*
9796788 TATATT-TTTT-TTTTATA
1 TATATTATTTTATTTCATA
9796805 TATATTATTTTATTTCATA
1 TATATTATTTTATTTCATA
*
9796824 T-TTTATATTTTATT
1 TATAT-TATTTTATT
9796838 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 6 0.21
19 16 0.57
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TATATTATTTTATTTCATA
Found at i:9803999 original size:31 final size:31
Alignment explanation
Indices: 9803964--9804241 Score: 143
Period size: 31 Copynumber: 9.1 Consensus size: 31
9803954 ATGAGAGGAG
**
9803964 TTAAGCCCAATTTAGCTAACATCCAAAATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAAATGT
* * *
9803995 TTAAGCTCAATTATA-TTGGCA--CAAAGATGA
1 TTAAGCCCAATT-TAGCTGGCATCCAAA-ATGT
* * *
9804025 TTAAGCCTAATTTAGCTAGCATCCAAGATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAAATGT
* * *
9804056 TTAAGCCCAGTTATA-TTGGCA--CAAAGATGA
1 TTAAGCCCAATT-TAGCTGGCATCCAAA-ATGT
*
9804086 TTAAGCCCAATTTAGCTGGCATCCAAGATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAAATGT
* **
9804117 TTAAG-CCTATTTATATTGGCA--CAAAGA-GAT
1 TTAAGCCCAATTTA-GCTGGCATCCAAA-ATG-T
* * * *
9804147 TTGAGCCCAATTTAGCTAGCATCCAAGATAT
1 TTAAGCCCAATTTAGCTGGCATCCAAAATGT
* *
9804178 TTAAGCCCAGTTATA-TTGGCA--CAAAGA-GAT
1 TTAAGCCCAATT-TAGCTGGCATCCAAA-ATG-T
* * * *
9804208 TTGAGCCCAATTTAGCTAGCATCTAAGATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAAATGT
9804239 TTA
1 TTA
9804242 GGCCTAGCTA
Statistics
Matches: 178, Mismatches: 45, Indels: 48
0.66 0.17 0.18
Matches are distributed among these distances:
29 20 0.11
30 69 0.39
31 71 0.40
32 18 0.10
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
TTAAGCCCAATTTAGCTGGCATCCAAAATGT
Found at i:9804090 original size:30 final size:30
Alignment explanation
Indices: 9803987--9804219 Score: 165
Period size: 30 Copynumber: 7.7 Consensus size: 30
9803977 AGCTAACATC
* *
9803987 CAAA-ATGTTTAAGCTCAATTATATTGGCA
1 CAAAGATGATTAAGCCCAATTATATTGGCA
* * *
9804016 CAAAGATGATTAAGCCTAATT-TAGCTAGCA
1 CAAAGATGATTAAGCCCAATTATA-TTGGCA
* * *
9804046 TCCAAGATGTTTAAGCCCAGTTATATTGGCA
1 -CAAAGATGATTAAGCCCAATTATATTGGCA
*
9804077 CAAAGATGATTAAGCCCAATT-TAGCTGGCA
1 CAAAGATGATTAAGCCCAATTATA-TTGGCA
* * * *
9804107 TCCAAGATGTTTAAGCCTATTTATATTGGCA
1 -CAAAGATGATTAAGCCCAATTATATTGGCA
* * *
9804138 CAAAGA-GATTTGAGCCCAATT-TAGCTAGCA
1 CAAAGATGA-TTAAGCCCAATTATA-TTGGCA
* *
9804168 TCCAAGAT-ATTTAAGCCCAGTTATATTGGCA
1 -CAAAGATGA-TTAAGCCCAATTATATTGGCA
*
9804199 CAAAGA-GATTTGAGCCCAATT
1 CAAAGATGA-TTAAGCCCAATT
9804220 TAGCTAGCAT
Statistics
Matches: 156, Mismatches: 35, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
29 11 0.07
30 75 0.48
31 64 0.41
32 6 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (30 bp):
CAAAGATGATTAAGCCCAATTATATTGGCA
Found at i:9804335 original size:30 final size:30
Alignment explanation
Indices: 9804238--9804335 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
9804228 ATCTAAGATG
* *
9804238 TTTAGGCCTAGCTATGTTGACACAAAGAGA
1 TTTAAGCCTAGCTATGTTGGCACAAAGAGA
* ** * * *
9804268 TTTAAGCTCAATTTA-GCTAGCATCCAAGATG-
1 TTTAAGC-CTAGCTATGTTGGCA-CAAAGA-GA
9804299 TTTAAGCCTAGCTATGTTGGCACAAAGAGA
1 TTTAAGCCTAGCTATGTTGGCACAAAGAGA
9804329 TTTAAGC
1 TTTAAGC
9804336 TCAATTTACC
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
29 1 0.02
30 26 0.53
31 21 0.43
32 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (30 bp):
TTTAAGCCTAGCTATGTTGGCACAAAGAGA
Found at i:9804745 original size:62 final size:60
Alignment explanation
Indices: 9803964--9804751 Score: 704
Period size: 61 Copynumber: 12.9 Consensus size: 60
9803954 ATGAGAGGAG
** * * ** *
9803964 TTAAGCCCAATTTAGCTAACATCCAAAATGTTTAAG-CTCAATTATATTGGCACAAAGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTC-CAGTTACGTTGGCACAAAGA-GT
* * * ** *
9804025 TTAAGCCTAATTTAGCTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCACAAAGATGA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCACAAAGA-GT
* **
9804086 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAG-CCTATTTATATTGGCACAAAGAGAT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCC-AGTTACGTTGGCACAAAGAG-T
* * * * **
9804147 TTGAGCCCAATTTAGCTAGCATCCAAGATATTTAAGCCCAGTTATATTGGCACAAAGAGAT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCACAAAGAG-T
* * * * * * *
9804208 TTGAGCCCAATTTAGCTAGCATCTAAGATGTTT-AGGCCTAGCTATGTTGACACAAAGAGAT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCC-AGTTACGTTGGCACAAAGAG-T
* * * *
9804269 TTAAGCTCAATTTAGCTAGCATCCAAGATGTTTAAG-CCTAGCTATGTTGGCACAAAGAGAT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCC-AGTTACGTTGGCACAAAGAG-T
* * * * * * * * *
9804330 TTAAGCTCAATTTACCTGGCATTCAAGATGTATAAGTCTAATTACATTGGCATGAAGGAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCA-CAAAGAGT
* ** * * * *
9804391 TTGAGCCCAATTTAGCTTACATACAAGATGTTTAAGTCCAATTACATTAGCACAAAAAGAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCAC--AAAGAGT
* * ** *
9804453 TGAAGCCCAATTTACCTGGCATCCAAGATGCATAAGTCCAATTACGTTGGCACGAAAGAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCAC-AAAGAGT
* ** * *
9804514 TTAAGCCCAATTTAGCTGGTATTTAAGATGTTTAAGTCCAGTTACATTTGGCACAAAAATGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTAC-GTTGGCACAAAGA-GT
* * * * *
9804576 TTAAGCCAAATTTAGCTAGCATCTAAGATGTATAAGTCCAGTTACGTTGACACAAAAGGAGT
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCAC-AAA-GAGT
* ** *
9804638 TTAACCCCAATTT-GTCTGGCATCCAAGATGCATAAGTCTAGTTACGTTGGCACAAAAGGAGT
1 TTAAGCCCAATTTAG-CTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCAC-AAA-GAGT
** * *
9804700 TTAAGCCCAATCAAACTGGCATCTAAGATGTTTAAGTCCAGTTACGTTGGCA
1 TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCA
9804752 TGAGAGACTC
Statistics
Matches: 623, Mismatches: 88, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
60 7 0.01
61 405 0.65
62 210 0.34
63 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (60 bp):
TTAAGCCCAATTTAGCTGGCATCCAAGATGTTTAAGTCCAGTTACGTTGGCACAAAGAGT
Found at i:9804751 original size:31 final size:31
Alignment explanation
Indices: 9804469--9804752 Score: 104
Period size: 31 Copynumber: 9.2 Consensus size: 31
9804459 CCAATTTACC
* ** *
9804469 TGGCATCCAAGATGCATAAGTCCAATTACGT
1 TGGCATCAAAGATGTTTAAGTCCAGTTACGT
* * *
9804500 TGGCA-CGAAAGA-GTTTAAGCCCAATTTA-GC
1 TGGCATC-AAAGATGTTTAAGTCC-AGTTACGT
* ** *
9804530 TGGTATTTAAGATGTTTAAGTCCAGTTACATT
1 TGGCATCAAAGATGTTTAAGTCCAGTTAC-GT
* * *
9804562 TGGCA-CAAAAATGTTTAAG-CCAAATTTA-GC
1 TGGCATCAAAGATGTTTAAGTCC--AGTTACGT
* * *
9804592 TAGCATCTAAGATGTATAAGTCCAGTTACGT
1 TGGCATCAAAGATGTTTAAGTCCAGTTACGT
* ** * *
9804623 TGACA-CAAAAGGA-GTTTAACCCCAATT-TGT
1 TGGCATC-AAA-GATGTTTAAGTCCAGTTACGT
* ** *
9804653 CTGGCATCCAAGATGCATAAGTCTAGTTACGT
1 -TGGCATCAAAGATGTTTAAGTCCAGTTACGT
* * * ***
9804685 TGGCA-CAAAAGGA-GTTTAAGCCCAATCAAAC
1 TGGCATC-AAA-GATGTTTAAGTCCAGTTACGT
*
9804716 TGGCATCTAAGATGTTTAAGTCCAGTTACGT
1 TGGCATCAAAGATGTTTAAGTCCAGTTACGT
9804747 TGGCAT
1 TGGCAT
9804753 GAGAGACTCC
Statistics
Matches: 172, Mismatches: 60, Indels: 42
0.63 0.22 0.15
Matches are distributed among these distances:
30 39 0.23
31 115 0.67
32 18 0.10
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (31 bp):
TGGCATCAAAGATGTTTAAGTCCAGTTACGT
Found at i:9804885 original size:59 final size:59
Alignment explanation
Indices: 9804819--9805024 Score: 234
Period size: 59 Copynumber: 3.5 Consensus size: 59
9804809 GCATTAGAAA
* * * * *
9804819 TTTTAAATCGAACCTGTTTTGAGATAAGTTGAGCGTAGATCAAGTTTAAGAATTTCAAT
1 TTTTAAATCAAACCTATTTTGAGATAGGTCGAGCCTAGATCAAGTTTAAGAATTTCAAT
* * * * * * *
9804878 TTTTAAATCAAACTTGTTGTGAGATAGGTCGAGCTTAGATCAAGTCTAGGAATTTTAAT
1 TTTTAAATCAAACCTATTTTGAGATAGGTCGAGCCTAGATCAAGTTTAAGAATTTCAAT
* * * * *
9804937 TTTTAAATCAAACTTATTTGGAGATAGGTCAAGCCTAGATTAAGTTT-AGAAATTTCAGT
1 TTTTAAATCAAACCTATTTTGAGATAGGTCGAGCCTAGATCAAGTTTAAG-AATTTCAAT
*
9804996 TTTTAAATCAAACCTACTTTGAGATAGGT
1 TTTTAAATCAAACCTATTTTGAGATAGGT
9805025 TGTGCTTAAA
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
58 1 0.01
59 123 0.99
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (59 bp):
TTTTAAATCAAACCTATTTTGAGATAGGTCGAGCCTAGATCAAGTTTAAGAATTTCAAT
Found at i:9805045 original size:59 final size:58
Alignment explanation
Indices: 9804819--9805058 Score: 221
Period size: 59 Copynumber: 4.1 Consensus size: 58
9804809 GCATTAGAAA
* * * * * *
9804819 TTTTAAATCGAACCTGTTTTGAGATAAGTTGAGCGTAGATCAAGTTTA-AGAATTTCAAT
1 TTTTAAATCAAACCT-ATTTGAGATAGGTCGAGCTTAGATCAAATTTAGA-AATTTCAAT
* * * * * *
9804878 TTTTAAATCAAACTTGTTGTGAGATAGGTCGAGCTTAGATCAAGTCTAGGAATTTTAAT
1 TTTTAAATCAAACCTATT-TGAGATAGGTCGAGCTTAGATCAAATTTAGAAATTTCAAT
* * * * * *
9804937 TTTTAAATCAAACTTATTTGGAGATAGGTCAAGCCTAGATTAAGTTTAGAAATTTCAGT
1 TTTTAAATCAAACCTATTT-GAGATAGGTCGAGCTTAGATCAAATTTAGAAATTTCAAT
* * * * *
9804996 TTTTAAATCAAACCTACTTTGAGATAGGTTGTGCTTAAATCAAACTTAGAAATTTCATT
1 TTTTAAATCAAACCTA-TTTGAGATAGGTCGAGCTTAGATCAAATTTAGAAATTTCAAT
9805055 TTTT
1 TTTT
9805059 CTTTCTTTCT
Statistics
Matches: 150, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
58 3 0.02
59 144 0.96
60 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (58 bp):
TTTTAAATCAAACCTATTTGAGATAGGTCGAGCTTAGATCAAATTTAGAAATTTCAAT
Found at i:9805343 original size:21 final size:20
Alignment explanation
Indices: 9805313--9805352 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9805303 AACTAAAAAA
9805313 TAAAAAAATAAGAAATAAATT
1 TAAAAAAATAA-AAATAAATT
* *
9805334 TAAAATAATAATAATAAAT
1 TAAAAAAATAAAAATAAAT
9805353 AAAAAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAAAAATAAAAATAAATT
Found at i:9806024 original size:12 final size:13
Alignment explanation
Indices: 9805931--9806040 Score: 59
Period size: 14 Copynumber: 8.2 Consensus size: 13
9805921 GATCGACAGC
9805931 AAAGAAAAAG-GA
1 AAAGAAAAAGAGA
9805943 AAA-AAAAA-AGA
1 AAAGAAAAAGAGA
* *
9805954 GAAGAAGGAAGAGA
1 AAAGAA-AAAGAGA
9805968 AAGAGAAAAAGAGA
1 AA-AGAAAAAGAGA
*
9805982 AAA-AAGGACACTGACGA
1 AAAGAA--A-A-AGA-GA
* *
9805999 AGAGAAAGAGAGA
1 AAAGAAAAAGAGA
9806012 AAA-AAAAAGAGA
1 AAAGAAAAAGAGA
9806024 ACAAGAAAAAGAAGA
1 A-AAGAAAAAG-AGA
9806039 AA
1 AA
9806041 GNGAGAAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
11 9 0.12
12 16 0.22
13 9 0.12
14 22 0.30
15 9 0.12
16 3 0.04
17 4 0.05
18 2 0.03
ACGTcount: A:0.70, C:0.04, G:0.25, T:0.01
Consensus pattern (13 bp):
AAAGAAAAAGAGA
Found at i:9806071 original size:15 final size:15
Alignment explanation
Indices: 9806053--9806134 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 15
9806043 GAGAAAAGGG
9806053 AGGAAGAGAAAGAGA
1 AGGAAGAGAAAGAGA
* *
9806068 AGGAAGGGAAAAAGA
1 AGGAAGAGAAAGAGA
*
9806083 AAGAA-A-AAAGAG-
1 AGGAAGAGAAAGAGA
9806095 A--AAGAGAAAG-GA
1 AGGAAGAGAAAGAGA
* *
9806107 AGGGAAGAAAAAGAAA
1 A-GGAAGAGAAAGAGA
9806123 AGGAAG-GAAAGA
1 AGGAAGAGAAAGA
9806135 AAAAAATTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 6 0.12
13 5 0.10
14 5 0.10
15 30 0.58
16 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AGGAAGAGAAAGAGA
Found at i:9806096 original size:34 final size:34
Alignment explanation
Indices: 9806056--9806123 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
9806046 AAAAGGGAGG
9806056 AAGAGAAAGAG-AAGGAAGGGAAAAAGAAAGAAAA
1 AAGAGAAAGAGAAAGGAAGGGAAAAA-AAAGAAAA
*
9806090 AAGAGAAAGAGAAAGGAAGGGAAGAAAAAGAAAA
1 AAGAGAAAGAGAAAGGAAGGGAAAAAAAAGAAAA
9806124 GGAAGGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (34 bp):
AAGAGAAAGAGAAAGGAAGGGAAAAAAAAGAAAA
Found at i:9806137 original size:19 final size:18
Alignment explanation
Indices: 9806044--9806137 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 18
9806034 GAAGAAAGNG
*
9806044 AGAAAAGGGAGGAAGAGAA
1 AGAAAAGGAAGGAAGA-AA
* *
9806063 AGAGAAGGAAGGGA-AAA
1 AGAAAAGGAAGGAAGAAA
**
9806080 AG-AAA-GAAAAAAGAGAA
1 AGAAAAGGAAGGAAGA-AA
9806097 AGAGAAAGGAAGGGAAGAAAA
1 AGA-AAAGGAA-GGAAG-AAA
9806118 AGAAAAGGAAGGAAAGAAA
1 AGAAAAGGAAGG-AAGAAA
9806137 A
1 A
9806138 AAATTATAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
15 4 0.07
16 3 0.05
17 8 0.14
18 1 0.02
19 20 0.34
20 13 0.22
21 8 0.14
22 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AGAAAAGGAAGGAAGAAA
Found at i:9806535 original size:3 final size:3
Alignment explanation
Indices: 9806529--9806554 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9806519 AACCAAAAAA
9806529 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9806555 GTGAATGAGA
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:9810598 original size:29 final size:29
Alignment explanation
Indices: 9810535--9810598 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
9810525 AATTGTAGTA
*
9810535 ATATTGTAAAAATAATTTTACTTATCATT
1 ATATTTTAAAAATAATTTTACTTATCATT
*
9810564 A-ATTTTAAAAATTATTATTA-TATAT-ATT
1 ATATTTTAAAAATAATT-TTACT-TATCATT
9810592 ATATTTT
1 ATATTTT
9810599 TTATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (29 bp):
ATATTTTAAAAATAATTTTACTTATCATT
Found at i:9813630 original size:2 final size:2
Alignment explanation
Indices: 9813623--9813647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9813613 CATACTCCTC
9813623 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
9813648 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9822892 original size:15 final size:17
Alignment explanation
Indices: 9822861--9822892 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9822851 GAAGGCAGAT
9822861 TTTTGGGAAAGCTTGGG
1 TTTTGGGAAAGCTTGGG
9822878 TTTT-GGAAA-CTTGGG
1 TTTTGGGAAAGCTTGGG
9822893 AGTTTTAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.19, C:0.06, G:0.38, T:0.38
Consensus pattern (17 bp):
TTTTGGGAAAGCTTGGG
Found at i:9826711 original size:10 final size:10
Alignment explanation
Indices: 9826696--9826726 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9826686 AATCCAATAG
9826696 TCATACTATA
1 TCATACTATA
9826706 TCATACTATA
1 TCATACTATA
*
9826716 TCACACTATA
1 TCATACTATA
9826726 T
1 T
9826727 GACATAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (10 bp):
TCATACTATA
Found at i:9836409 original size:19 final size:21
Alignment explanation
Indices: 9836373--9836412 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9836363 AATGACATAG
9836373 AAAAACCCTAAGACAAAGAAA
1 AAAAACCCTAAGACAAAGAAA
9836394 AAAAACCCTAA-A-AAAGAAA
1 AAAAACCCTAAGACAAAGAAA
9836413 GCAAGAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.70, C:0.17, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAAACCCTAAGACAAAGAAA
Found at i:9837638 original size:19 final size:19
Alignment explanation
Indices: 9837614--9837650 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9837604 CATATTTAAA
*
9837614 AAAATTTTAAATTATTTTC
1 AAAATTTTAAATAATTTTC
9837633 AAAATTTTAAATAATTTT
1 AAAATTTTAAATAATTTT
9837651 TTATTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATTTTAAATAATTTTC
Found at i:9837667 original size:26 final size:28
Alignment explanation
Indices: 9837601--9837717 Score: 87
Period size: 29 Copynumber: 4.1 Consensus size: 28
9837591 CTATTTTTTA
* **
9837601 TATCAT-ATTTAAAAAAATTTTAAATTAT
1 TATCATAATTTAAATAAATTTTTTATT-T
* *
9837629 TTTCAAAATTTTAAAT-AATTTTTTATTT
1 TATCATAA-TTTAAATAAATTTTTTATTT
*
9837657 TATCAT-ATTTAATTAAATTTTTATATTTT
1 TATCATAATTTAAATAAATTTTT-TA-TTT
** *
9837686 TATTTTAATTTAAATAAATTATTTATTAT
1 TATCATAATTTAAATAAATTTTTTATT-T
9837715 TAT
1 TAT
9837718 TAATTAATTA
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
26 6 0.09
27 8 0.11
28 13 0.19
29 23 0.33
30 20 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TATCATAATTTAAATAAATTTTTTATTT
Found at i:9837674 original size:30 final size:29
Alignment explanation
Indices: 9837638--9837717 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 29
9837628 TTTTCAAAAT
9837638 TTTAAATAATTTTTTATTTTATCATATTTAA
1 TTTAAATAATTTTTTATTTTAT-AT-TTTAA
*
9837669 -TTAAAT--TTTTATATTTT-TATTTTAA
1 TTTAAATAATTTTTTATTTTATATTTTAA
*
9837694 TTTAAATAAATTATTTATTATTAT
1 TTTAAAT-AATTTTTTATT-TTAT
9837718 TAATTAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
25 5 0.12
26 8 0.20
27 1 0.03
28 10 0.25
29 7 0.17
30 8 0.20
31 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTAAATAATTTTTTATTTTATATTTTAA
Found at i:9837726 original size:31 final size:30
Alignment explanation
Indices: 9837663--9837718 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9837653 ATTTTATCAT
* * *
9837663 ATTTAATTAAATTTTTATATTTTTATTTTA
1 ATTTAAATAAATTATTATATTATTATTTTA
9837693 ATTTAAATAAATTATT-TATTATTATT
1 ATTTAAATAAATTATTATATTATTATT
9837719 AATTAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTAAATAAATTATTATATTATTATTTTA
Found at i:9837738 original size:10 final size:10
Alignment explanation
Indices: 9837703--9837741 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
9837693 ATTTAAATAA
*
9837703 ATTATTTATT
1 ATTATTAATT
9837713 ATTATTAATT
1 ATTATTAATT
9837723 A--ATTAATT
1 ATTATTAATT
9837731 ATTATTAATT
1 ATTATTAATT
9837741 A
1 A
9837742 AAATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTAATT
Found at i:9837748 original size:15 final size:17
Alignment explanation
Indices: 9837710--9837751 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
9837700 TAAATTATTT
9837710 ATTATTATTAATTAATTA
1 ATTATTATTAATTAA-TA
9837728 ATTATTATTAATTAA-A
1 ATTATTATTAATTAATA
9837744 A-TATTATT
1 ATTATTATT
9837752 TATCATCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.29
16 2 0.08
18 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTATTAATTAATA
Found at i:9843872 original size:33 final size:33
Alignment explanation
Indices: 9843827--9843937 Score: 132
Period size: 33 Copynumber: 3.4 Consensus size: 33
9843817 TCAATGATGG
* * * *
9843827 TGATGTGGATGCTGCTACTAGAGTTAGTGGTGA
1 TGATGTGAATGCTGCTATTGGAGTTGGTGGTGA
*
9843860 TGATGTGAATGCTGCTATTGGAGTTGGTGATGA
1 TGATGTGAATGCTGCTATTGGAGTTGGTGGTGA
* ** * *
9843893 CGATGTGGGTTCTACTATTGGAGTTGGTGGTGA
1 TGATGTGAATGCTGCTATTGGAGTTGGTGGTGA
9843926 TGATGTGAATGC
1 TGATGTGAATGC
9843938 CATTAACCAA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.20, C:0.08, G:0.37, T:0.35
Consensus pattern (33 bp):
TGATGTGAATGCTGCTATTGGAGTTGGTGGTGA
Found at i:9846548 original size:29 final size:29
Alignment explanation
Indices: 9846479--9846586 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
9846469 CCTTGTTTTT
*
9846479 TTGTACCTGTTAACGTATAGC-TTTTCTC
1 TTGTACCTGTTCACGTATAGCTTTTTCTC
* *
9846507 TTGTACTTGTTCATGTATAGCTTTTTCTC
1 TTGTACCTGTTCACGTATAGCTTTTTCTC
* * *
9846536 TTGTACCTATTCACGTACAGCTTCATT-TC
1 TTGTACCTGTTCACGTATAGCTT-TTTCTC
9846565 TTGTACCTGTTCACGTATAGCT
1 TTGTACCTGTTCACGTATAGCT
9846587 CACTTTATTG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.26
29 48 0.71
30 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (29 bp):
TTGTACCTGTTCACGTATAGCTTTTTCTC
Found at i:9860575 original size:8 final size:8
Alignment explanation
Indices: 9860558--9860600 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
9860548 AATTGGGGTC
9860558 TTTTTCTT
1 TTTTTCTT
*
9860566 TTTTCTTTT
1 TTTT-TCTT
9860575 TTTTTCTT
1 TTTTTCTT
*
9860583 TTTTGCTT
1 TTTTTCTT
*
9860591 TGTTTCTT
1 TTTTTCTT
9860599 TT
1 TT
9860601 GATGATCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:9860580 original size:17 final size:18
Alignment explanation
Indices: 9860558--9860591 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9860548 AATTGGGGTC
9860558 TTTTTCTTTTTT-CTTTT
1 TTTTTCTTTTTTGCTTTT
9860575 TTTTTCTTTTTTGCTTT
1 TTTTTCTTTTTTGCTTT
9860592 GTTTCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTTTGCTTTT
Found at i:9866260 original size:23 final size:23
Alignment explanation
Indices: 9866220--9866265 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9866210 TATTTAAATG
*
9866220 ATAATAATAACAGTAAATATATA
1 ATAATAATAACAGAAAATATATA
*
9866243 ATAATTAATAACA-AAAATTTATA
1 ATAA-TAATAACAGAAAATATATA
9866266 TTGTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAATAATAACAGAAAATATATA
Found at i:9870668 original size:14 final size:14
Alignment explanation
Indices: 9870651--9870697 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
9870641 TAAAATAGAT
9870651 AAATAAAAAAATAA
1 AAATAAAAAAATAA
*
9870665 AAATTAAAAAATAA
1 AAATAAAAAAATAA
* *
9870679 AAATAAAGAAGTAA
1 AAATAAAAAAATAA
9870693 AAATA
1 AAATA
9870698 TTAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
AAATAAAAAAATAA
Found at i:9870697 original size:20 final size:20
Alignment explanation
Indices: 9870657--9870695 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9870647 AGATAAATAA
*
9870657 AAAAATAAAAATTAAAAAAT
1 AAAAATAAAAAGTAAAAAAT
9870677 AAAAATAAAGAAGTAAAAA
1 AAAAATAAA-AAGTAAAAA
9870696 TATTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAGTAAAAAAT
Done.