Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 188 of 259
Found at i:60453721 original size:11 final size:12
Alignment explanation
Indices: 60453705--60453741 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
60453695 AGGAAAAAAA
60453705 GGAAGAGAG-AG
1 GGAAGAGAGAAG
60453716 GGAAGAGAGAAG
1 GGAAGAGAGAAG
60453728 GG-AGAGAGAAG
1 GGAAGAGAGAAG
60453739 GGA
1 GGA
60453742 GGGGGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:60453882 original size:15 final size:16
Alignment explanation
Indices: 60453847--60453880 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60453837 AGGTAAAAAA
* *
60453847 TTTATTTTTTTTATTT
1 TTTATTTCTTGTATTT
60453863 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
60453879 TT
1 TT
60453881 ATATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:60454775 original size:42 final size:40
Alignment explanation
Indices: 60454683--60454827 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
60454673 TTCGTCTACT
60454683 CACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
1 CACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
* * * *
60454723 CACTATTGCTTAGGGAAATAAGATCTGTGGTTTTG-TCTGCTC
1 CACTACTGCTTAGGGAGATAAGA-CT-T-GATGTGATCTGCTC
* * *
60454765 CACTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTC
1 CACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
60454805 CACTACTGCTTAGGGAGATAAGA
1 CACTACTGCTTAGGGAGATAAGA
60454828 TTGTAATCTT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 51 0.57
41 4 0.04
42 29 0.32
43 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (40 bp):
CACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTC
Found at i:60455230 original size:134 final size:134
Alignment explanation
Indices: 60454953--60456446 Score: 2625
Period size: 134 Copynumber: 11.1 Consensus size: 134
60454943 TTAGGGAGAT
* * *
60454953 AAGATCTGTAATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
60455018 TACTCCACTGTAGTCATAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
60455083 GAAGGC
129 GAAGGC
60455089 AAGATCTGCAATCTTCAATCTATT-CACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * * *
60455153 TACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAATACAGG
66 TACTCCACTGTAGTCA-AGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
60455218 AAGGC
130 AAGGC
* * *
60455223 AAGATCTGCAATCTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTGTCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
60455288 TACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
60455353 GAAGGC
129 GAAGGC
* *
60455359 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAATTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
60455424 TACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455489 AGGC
131 AGGC
60455493 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60455558 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455623 AGGC
131 AGGC
60455627 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
60455692 TACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455757 AGGC
131 AGGC
60455761 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
60455826 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTACCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455891 AGGC
131 AGGC
*
60455895 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
60455960 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTTTGCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
60456025 GAAGGC
129 GAAGGC
60456031 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60456096 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60456161 AGGC
131 AGGC
60456165 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * * *
60456230 TACTCCACTGTAGTTAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60456295 AGGC
131 AGGC
60456299 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60456364 TACTCCACTGTAGTC-AGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60456428 AGGC
131 AGGC
60456432 AAGATCTGC-ATCTTC
1 AAGATCTGCAATCTTC
60456447 GATCCACTTC
Statistics
Matches: 1307, Mismatches: 47, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
132 6 0.00
133 59 0.05
134 853 0.65
135 110 0.08
136 279 0.21
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (134 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
AGGC
Found at i:60455985 original size:538 final size:535
Alignment explanation
Indices: 60454953--60456446 Score: 2686
Period size: 538 Copynumber: 2.8 Consensus size: 535
60454943 TTAGGGAGAT
* * *
60454953 AAGATCTGTAATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
60455018 TACTCCACTGTAGTCATAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
60455083 GAAGGCAAGATCTGCAATCTTCAATCTATT-CACTGCCAAATACAGGGAGATAGAGTTATCGGCT
129 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
* * *
60455147 TCAATGTACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
194 TCAATGTACTCCACTGTAGTCA-GGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAA
* *
60455212 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTGT
258 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
* * *
60455277 CAGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
323 CGGCTTCAATGTACTCCACTGTAGT--CA-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
*
60455342 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAG
385 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
60455407 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
450 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
60455472 CGCTGCCAAATACAGGAAGGC
515 CGCTGCCAAATACAGGAAGGC
60455493 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60455558 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455623 AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
131 AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
60455688 AATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATAC
196 AATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATAC
60455753 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
261 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
60455818 CTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTACCAA
326 CTTCAATGTACTCCACTGTAGTCA-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAA
* *
60455883 ATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTA
390 ATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTA
* * * *
60455948 TCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTTTGC
455 TCGGCTTCAATGTACTCCACTGTAGTCA-A-GGAGGTAAAATCCGCCATCTTCGACCTGCTTCGC
60456013 TGCCAAATACAGGAAGGC
518 TGCCAAATACAGGAAGGC
60456031 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60456096 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60456161 AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
131 AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
*
60456226 AATGTACTCCACTGTAGTTAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATAC
196 AATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATAC
60456291 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
261 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
60456356 CTTCAATGTACTCCACTGTAGTCAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
326 CTTCAATGTACTCCACTGTAGTCAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
60456421 TACAGGAAGGCAAGATCTGC-ATCTTC
391 TACAGGAAGGCAAGATCTGCAATCTTC
60456447 GATCCACTTC
Statistics
Matches: 925, Mismatches: 26, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
536 135 0.15
537 60 0.06
538 596 0.64
539 56 0.06
540 78 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (535 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
AATGTACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATAC
AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
CTTCAATGTACTCCACTGTAGTCAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTAT
CGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGC
CAAATACAGGAAGGC
Found at i:60456160 original size:672 final size:672
Alignment explanation
Indices: 60454953--60456446 Score: 2670
Period size: 672 Copynumber: 2.2 Consensus size: 672
60454943 TTAGGGAGAT
* * *
60454953 AAGATCTGTAATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
60455018 TACTCCACTGTAGTCATAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGTC--AGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
60455083 GAAGGCAAGATCTGCAATCTTCAATCTATTCACTGCCAAATACAGGGAGATAGAGTTATCGGCTT
129 GAAGGCAAGATCTGCAATCTTCAATCTATTCACTGCCAAATACAGGGAGATAGAGTTATCGGCTT
* *
60455148 CAATGTACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAAT
194 CAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTACAAAAT
* *
60455213 ACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTGTC
259 ACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATC
60455278 AGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTG
324 AGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTG
*
60455343 CCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAGA
389 CCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
60455408 ATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTC
454 ATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTC
60455473 GCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
519 GCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGA
* *
60455538 TAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTG
584 TAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTG
60455603 CTTCGCTGCCAAATACAGGAAGGC
649 CTTCGCTGCCAAATACAGGAAGGC
60455627 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
60455692 TACTCCACTGTAGTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60455757 AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
131 AGGCAAGATCTGCAATCTTCAATCTATT-CACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
* * * *
60455822 AATGTACTCCACTGTAGTCA-GGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTACCAAATA
195 AATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTACAAAATA
* *
60455886 CAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCG
260 CAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCA
* * * *
60455951 GCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTTTGCTGC
325 GCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGC
*
60456016 CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAG
390 CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAA
* *
60456081 TTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
455 TTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCG
60456146 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
520 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
* *
60456211 AGAGTTATCGGCTTCAATGTACTCCACTGTAGTTAGGGAGGTAAAATCCGCCATCTTCGACCTGC
585 AGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGC
60456276 TTCGCTGCCAAATACAGGAAGGC
650 TTCGCTGCCAAATACAGGAAGGC
60456299 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
60456364 TACTCCACTGTAGTCA-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
60456428 AGGCAAGATCTGC-ATCTTC
131 AGGCAAGATCTGCAATCTTC
60456447 GATCCACTTC
Statistics
Matches: 787, Mismatches: 32, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
670 6 0.01
671 59 0.07
672 590 0.75
673 55 0.07
674 77 0.10
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (672 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
AGGCAAGATCTGCAATCTTCAATCTATTCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCA
ATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTACAAAATAC
AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
CTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCC
AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
TATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGC
TGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATA
GAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCT
TCGCTGCCAAATACAGGAAGGC
Found at i:60456735 original size:176 final size:175
Alignment explanation
Indices: 60456441--60457225 Score: 758
Period size: 176 Copynumber: 4.5 Consensus size: 175
60456431 CAAGATCTGC
* * * * * * **
60456441 ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTTACGCC
1 ATCTTCGATCTACTTCC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCC
*
60456506 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
65 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC-CCACCAATATAGGAAGACAAGATCT
* *
60456571 GC-ATCTTCGATCCATTTCCTACCAATATAGAAAGATAGGATCAGCT
129 GCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCT
60456617 ATCTTCGATCTACTTCGCGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCC
1 ATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCC
*
60456682 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
65 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC-CCACCAATATAGGAAGACAAGATCT
*
60456747 GC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCT
129 GCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCT
** *
60456793 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT-TACGC
*** * * * * * * * *
60456858 CAATATGGGAAGACAAGATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCA
64 CAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCCCACCAATATAGGAAGACAAGATCT
* * * * ** *
60456922 GCTATCTCCGATCTACTTCTTGCC----CCGGGAGATA-GA--A-CT
129 GCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCT
*
60456961 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTA--
1 ATCTTCGATCTACTTC-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT--TACG
* * * * * * * * * *
60457024 CCAATATAGGAAGGC-AGAATCTGC-ATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
63 CCAATACATGAAGACAAG-ATCTGCTTTCTGCGATCTACTTCCCACCAATATAGGAAGACAAGAT
* * * * * * * *
60457087 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-
127 CTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCAGCT
* * * * * ** * * *
60457136 ATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTG-TTATCTTTGATCTACTTCACGC
1 ATCTTCGATCTACTTCC-GCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTTACGC
*
60457200 TAATACATGAAGACAAGATCTGCTTT
64 CAATACATGAAGACAAGATCTGCTTT
60457226 AATGACTTCA
Statistics
Matches: 516, Mismatches: 73, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
166 2 0.00
167 68 0.13
168 62 0.12
169 2 0.00
171 2 0.00
172 13 0.03
173 3 0.01
174 3 0.01
175 83 0.16
176 255 0.49
177 23 0.04
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (175 bp):
ATCTTCGATCTACTTCCGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTACGCCA
ATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC
TATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCT
Found at i:60457046 original size:44 final size:44
Alignment explanation
Indices: 60456961--60457222 Score: 212
Period size: 44 Copynumber: 6.0 Consensus size: 44
60456951 AGATAGAACT
* * * *
60456961 ATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC
1 ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
* *
60457004 TTTCTTCGATCTACTTC-CTACCAATATAGGAAGGC-AGAATCTGC
1 -ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG-ATCTGC
* * * *
60457048 ATCTTCGATCTACTTCAC-GCCAATACATGAAGATAAGATCTGC
1 ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
* * * * *
60457091 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 -ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
* * ** * *
60457136 ATCGTCGATCCACTTC-CTACCAATATAGGAAGACCGGACCTGTT
1 ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTG-C
* * * * *
60457180 ATCTTTGATCTACTTCAC-GCTAATACATGAAGACAAGATCTGC
1 ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
60457223 TTTAATGACT
Statistics
Matches: 169, Mismatches: 41, Indels: 17
0.74 0.18 0.07
Matches are distributed among these distances:
43 55 0.33
44 94 0.56
45 20 0.12
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGC
Found at i:60457192 original size:255 final size:255
Alignment explanation
Indices: 60456734--60457195 Score: 746
Period size: 255 Copynumber: 1.8 Consensus size: 255
60456724 ACCAATATGG
* * *
60456734 GAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGAATCAGCTATCTTC
60456799 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
* * * *
60456864 GGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCT
131 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCAGCTATCT
60456929 CCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATACAT
196 CCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATACAT
* * * *
60456989 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGGCAGAATCTGC-ATCTT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGAATCAGCTATCTT
* *
60457053 CGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
65 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
* * *
60457118 TGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATC
130 TGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCAGCTATC
**
60457183 TTTGATCTACTTC
195 TCCGATCTACTTC
60457196 ACGCTAATAC
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
255 152 0.81
256 36 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (255 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGAATCAGCTATCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCAGCTATCT
CCGATCTACTTCTTGCCCCGGGAGATAGAACTATCTTTGATCTACTTCACGCCAATACAT
Found at i:60457224 original size:132 final size:132
Alignment explanation
Indices: 60456396--60457225 Score: 794
Period size: 132 Copynumber: 6.3 Consensus size: 132
60456386 AAAATCTGCC
* * * * * * *
60456396 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGC-ATCTTCGATCCACTTC-CT
1 ATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
* * * * * * * *
60456459 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT--TACGCCAATACATGAAGACAAG
64 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTA--CCAATATAGGAAGACAGG
*
60456522 ATCTGCT
126 ATCAGCT
* * * * *** * * * *
60456529 TTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCATTTC-CTA
1 ATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
* * * * * * * * * *
60456592 CCAATATAGAAAGATAGGATCAGCTATCTTCGATCTACTTCGC-GCCAATACATGAAGACAAGAT
65 CCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGAT
*
60456656 CTGCT
128 CAGCT
* * *
60456661 TTCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* *
60456726 CAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAG
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAG
60456791 CT
131 CT
60456793 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* *
60456858 CAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAG
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAG
60456923 CT
131 CT
* ** ** * * * * * * *
60456925 ATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGA---ACTATCTTTGATCTACTTC-ACGC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
*** * * * * *
60456981 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGGCAGAATCT
66 CAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCA
60457046 GC-
130 GCT
*
60457048 ATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* * * * *
60457113 CAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTG
66 CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAG
*
60457178 TT
131 CT
* *
60457180 ATCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTT
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
60457226 AATGACTTCA
Statistics
Matches: 589, Mismatches: 90, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
123 40 0.07
124 52 0.09
127 8 0.01
128 8 0.01
131 74 0.13
132 370 0.63
133 36 0.06
134 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAG
CT
Found at i:60458253 original size:16 final size:16
Alignment explanation
Indices: 60458232--60458278 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
60458222 TGGCCTCTCC
60458232 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
*
60458248 TTTTTCTTTTTC--AT
1 TTTTTCTTTTTCTTTT
60458262 TTTTTCATTTTTCTTTT
1 TTTTTC-TTTTTCTTTT
60458279 CGTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 12 0.46
17 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTT
Found at i:60458285 original size:7 final size:6
Alignment explanation
Indices: 60458231--60458278 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
60458221 TTGGCCTCTC
60458231 CTTTTT CTTTTT C-TTTT -TTTTT CTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C--TTTTT C-TTTTT CTTTT
60458279 CGTTTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
5 8 0.22
6 17 0.46
7 6 0.16
8 6 0.16
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:60458287 original size:21 final size:21
Alignment explanation
Indices: 60458248--60458286 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
60458238 TTTTTCTTTT
60458248 TTTTTCTTTTTCATTTTTTCA
1 TTTTTCTTTTTCATTTTTTCA
*
60458269 TTTTTC-TTTTCGTTTTTT
1 TTTTTCTTTTTCATTTTTT
60458287 TAGTGAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTTCTTTTTCATTTTTTCA
Found at i:60458752 original size:20 final size:20
Alignment explanation
Indices: 60458729--60458789 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
60458719 TTTTATTTGG
*
60458729 TTTTTTTTGTTTTTTTTTCT
1 TTTTTTTTCTTTTTTTTTCT
* *
60458749 TTTTATTTTCTCTTTTTTACT
1 TTTT-TTTTCTTTTTTTTTCT
60458770 TTTACTTTTTCTTTTTTTTT
1 TTT--TTTTTCTTTTTTTTT
60458790 TGCCCCCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 4 0.12
21 16 0.48
22 12 0.36
23 1 0.03
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTTCT
Found at i:60463108 original size:11 final size:12
Alignment explanation
Indices: 60463092--60463128 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
60463082 AGGAAAAAAA
60463092 GGAAGAGAG-AG
1 GGAAGAGAGAAG
60463103 GGAAGAGAGAAG
1 GGAAGAGAGAAG
60463115 GG-AGAGAGAAG
1 GGAAGAGAGAAG
60463126 GGA
1 GGA
60463129 GGGGGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:60464994 original size:17 final size:17
Alignment explanation
Indices: 60464974--60465017 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
60464964 TTAAAAACCC
60464974 AAAATAAAACAAAAATA
1 AAAATAAAACAAAAATA
*
60464991 AAAA-AAACACACAAATA
1 AAAATAAA-ACAAAAATA
60465008 AAAATCAAAA
1 AAAAT-AAAA
60465018 TTCCAGTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 1 0.04
19 3 0.13
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAATAAAACAAAAATA
Found at i:60467456 original size:88 final size:88
Alignment explanation
Indices: 60467307--60467482 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
60467297 AATTTTTAAA
60467307 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
1 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
60467372 AATAATTATATATCCCTAGCTTT
66 AATAATTATATATCCCTAGCTTT
60467395 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
1 ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
*
60467460 AATAATTATATATCCTTAGCTTT
66 AATAATTATATATCCCTAGCTTT
60467483 TATACAAGCT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (88 bp):
ATTTGTGTTTGAAATATTTTGCATATTATTCGATTCAAATGTTTTATTCTACAATATTTATTTCA
AATAATTATATATCCCTAGCTTT
Found at i:60480529 original size:6 final size:6
Alignment explanation
Indices: 60480518--60480544 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
60480508 ATATTATAGT
60480518 TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTT
60480545 AAAATTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:60480550 original size:13 final size:13
Alignment explanation
Indices: 60480522--60480560 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
60480512 TATAGTTTTT
*
60480522 AATTTTAATTT-T
1 AATTTTAATTTAA
60480534 AATTTTAATTTAA
1 AATTTTAATTTAA
*
60480547 AATTTTAGTTTAA
1 AATTTTAATTTAA
60480560 A
1 A
60480561 TAAAGTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
AATTTTAATTTAA
Found at i:60480561 original size:12 final size:12
Alignment explanation
Indices: 60480522--60480561 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
60480512 TATAGTTTTT
*
60480522 AATTTTAATTTT
1 AATTTTAATTTA
60480534 AATTTTAATTTAA
1 AATTTTAATTT-A
*
60480547 AATTTTAGTTTA
1 AATTTTAATTTA
60480559 AAT
1 AAT
60480562 AAAGTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
AATTTTAATTTA
Found at i:60484423 original size:132 final size:132
Alignment explanation
Indices: 60484170--60484410 Score: 306
Period size: 132 Copynumber: 1.8 Consensus size: 132
60484160 TTTCGAAGAG
* ** * * *
60484170 ATATTCGATTATTTTGAACAAACGGGAAATTGCAACTCAACATGATAGGGCACGATTCTCGAATT
1 ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
** * * * *
60484235 ATCAAACATCGAGTATTGTCTTCGTTTTGGAAGGTTTTTTTATAAACACGAGTGAAAGCCTAAAG
66 ATCAAACATCGAGTATTACCTTCATTTTGAAAGGTATTTTTAAAAACACGAGTGAAAGCCTAAAG
60484300 GA
131 GA
* * *
60484302 ATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATT
1 ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
* *
60484367 GTCAAACA-CTGAGTATTACCTTCATTTTTAAAGG-ATTTTTAAAA
66 ATCAAACATC-GAGTATTACCTTCATTTTGAAAGGTATTTTTAAAA
60484411 GATATGAGTG
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
131 9 0.10
132 82 0.90
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (132 bp):
ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCACGATTCCCGAATT
ATCAAACATCGAGTATTACCTTCATTTTGAAAGGTATTTTTAAAAACACGAGTGAAAGCCTAAAG
GA
Found at i:60487467 original size:10 final size:10
Alignment explanation
Indices: 60487452--60487481 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
60487442 CAAAAAATCA
60487452 AAATAAAAAT
1 AAATAAAAAT
60487462 AAATAAAAAT
1 AAATAAAAAT
60487472 AAATAAAAAT
1 AAATAAAAAT
60487482 TATAACAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:60487470 original size:16 final size:15
Alignment explanation
Indices: 60487443--60487481 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
60487433 CCCAACAACC
*
60487443 AAAAAATCAAAATAA
1 AAAAAATAAAAATAA
60487458 AAATAAATAAAAATAA
1 AAA-AAATAAAAATAA
60487474 ATAAAAAT
1 A-AAAAAT
60487482 TATAACAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.76
17 2 0.10
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:60489157 original size:11 final size:13
Alignment explanation
Indices: 60489133--60489159 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60489123 TGCTATGATA
60489133 ATATGTTTTATAT
1 ATATGTTTTATAT
60489146 ATATGTTTTATAT
1 ATATGTTTTATAT
60489159 A
1 A
60489160 GATTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATATGTTTTATAT
Found at i:60490772 original size:132 final size:131
Alignment explanation
Indices: 60490465--60490765 Score: 281
Period size: 131 Copynumber: 2.3 Consensus size: 131
60490455 TCACTTGCTT
* * * * * *
60490465 AAAATAATCAAATATTCCCTCAAAAT-TTCACTCGTATCTTCC-AAAAA-TCCTTTAAAACGAAG
1 AAAACAATCGAATATTCCTTC-AGATGTTCACTCATAT-TTCCTAAAAACT-CATTAAAACGAAG
* * * ** *
60490527 GCAATACTCGGTGTTTGACGATTCGGGAATCATGCCCTATCGTGCTGGGTTGGGATTTCTCGTTT
63 GCAATACTCGATGTTTGACAATTCGGGAATCATACCCTATCGTGCTGGGTTGCAATTTCCCGTTT
60490592 GGTC
128 GGTC
* * ** *
60490596 AAAACAATCGAATATTCCTTTAGGTGTTGGCTCATGTTTCCTAAAAACTCATTAAAACGAAGGCA
1 AAAACAATCGAATATTCCTTCAGATGTTCACTCATATTTCCTAAAAACTCATTAAAACGAAGGCA
* * *
60490661 ATATTCGATGTTTGGCAATTCGGGGAAT-AGTACCCTATCGTGCTGGGTTGCAATTTCCCGTTTT
66 ATACTCGATGTTTGACAATTC-GGGAATCA-TACCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
*
60490725 TTC
129 GTC
* * *
60490728 AAGATAATCGAATA-TCTCTTCAGAAT-TTCACTTATATT
1 AAAACAATCGAATATTC-CTTCAG-ATGTTCACTCATATT
60490766 CTCTAAAGGG
Statistics
Matches: 134, Mismatches: 29, Indels: 13
0.76 0.16 0.07
Matches are distributed among these distances:
130 6 0.04
131 64 0.48
132 63 0.47
133 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAACAATCGAATATTCCTTCAGATGTTCACTCATATTTCCTAAAAACTCATTAAAACGAAGGCA
ATACTCGATGTTTGACAATTCGGGAATCATACCCTATCGTGCTGGGTTGCAATTTCCCGTTTGGT
C
Found at i:60492320 original size:19 final size:19
Alignment explanation
Indices: 60492298--60492345 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
60492288 TCATCCCATA
*
60492298 CATTTACATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
60492317 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
60492336 CATTTGCATT
1 CATTTGCATT
60492346 AAAATTTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:60494875 original size:5 final size:5
Alignment explanation
Indices: 60494862--60494948 Score: 103
Period size: 5 Copynumber: 17.8 Consensus size: 5
60494852 TGAGATATTT
*
60494862 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
60494911 AAATA- AAGAA- AAAAG AAAA- AGAAA- AAAAG AAAAG AAAA
1 AAA-AG AA-AAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAA
60494949 TGAGAGGCCA
Statistics
Matches: 75, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
4 10 0.13
5 63 0.84
6 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:60494920 original size:8 final size:7
Alignment explanation
Indices: 60494865--60494948 Score: 68
Period size: 7 Copynumber: 11.6 Consensus size: 7
60494855 GATATTTAAA
60494865 AAAAAAG
1 AAAAAAG
60494872 AAAAGAA-
1 AAAA-AAG
60494879 AAGAAAAG
1 AA-AAAAG
60494887 AAAAGAA-
1 AAAA-AAG
60494894 AAGAAAAG
1 AA-AAAAG
60494902 AAAAGAAAG
1 -AAA-AAAG
60494911 AAATAAAG
1 AAA-AAAG
60494919 AAAAAAG
1 AAAAAAG
60494926 -AAAAAG
1 AAAAAAG
60494932 AAAAAA-
1 AAAAAAG
*
60494938 AGAAAAG
1 AAAAAAG
60494945 AAAA
1 AAAA
60494949 TGAGAGGCCA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
6 11 0.17
7 26 0.41
8 21 0.33
9 6 0.09
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:60495130 original size:32 final size:32
Alignment explanation
Indices: 60495094--60495158 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
60495084 GGAAGTATGC
60495094 TACGTCTTGGGGCATCGACAAAGTACCCCGGA
1 TACGTCTTGGGGCATCGACAAAGTACCCCGGA
60495126 TACGTCTTGGGGCATCGACAAAGTACCCCGGA
1 TACGTCTTGGGGCATCGACAAAGTACCCCGGA
60495158 T
1 T
60495159 CCCTTAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (32 bp):
TACGTCTTGGGGCATCGACAAAGTACCCCGGA
Found at i:60496424 original size:132 final size:128
Alignment explanation
Indices: 60496187--60497025 Score: 817
Period size: 132 Copynumber: 6.4 Consensus size: 128
60496177 TGGGTCTATG
* * * * * *
60496187 AGGCTAAAATTTTAGATCTTGTTTCCTTGAAATTGAAGTGAAGCAGATCGAAGACGGTGAATCTG
1 AGGCTAAAA-TTTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* * *
60496252 AGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACTAAGCTTCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACC--CT-AGCTCCCTAAAGTTGTAGTGGA
*
60496317 TT
127 GT
* *
60496319 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGAAGATCGAAGACGGCGAATCTT
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* *
60496384 AGCTTCCTGAAGTTGCAGCGAAACAGATTTAAACCACCAACCCAGCTCCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCA-C--CCTAGCTCCCTAAAGTTGTAGTGGA
60496449 GT
127 GT
* * * ** * * *
60496451 AAGCTAAATTTTCAGATCTCGTTTCTTTGAAGTTGTAGTGAAGCAGATCGAAGACGGCGAATCTG
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* *
60496516 AGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAA---ACCACCCTAGCTCCCTAAAGTTGTAGTGGA
60496581 GT
127 GT
* * * ** *** *
60496583 AGGCTAAAATTTCAGATCTCGTTTCCCTGAAGTTACAGTGAGGCAAATTAAAGACGATAAATCCT
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* * * * * *
60496648 GGCTCCCTGAAGATGCAGCGAAGCAGATTT-AAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGT
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAGT
* * *
60496711 AGGCTGAAGATTATAGATCTTGTTTCCCTG-AGATGGCAGTGGGGCAGATCGAAGACGGCGAATC
1 AGGCT-AAAATT-TAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGACGGCGAATC
* * * * * * * *
60496775 -TAGGTTTCCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTAG
63 TTA-GCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCA-CCCTAGCTCCCTAAAGTTGTAGTGG
60496839 AGT
126 AGT
** * * * * ***
60496842 AGGCTGAGGATTGTAGATCTCGCCTT-CCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATC
1 AGGCT-AAAATT-TAGATCTTG-TTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATC
* * * * * *
60496906 TTGGCTTCCTGAAGATGCAGCGAAGCAGATTT-AAGCATCCTAGCTTCCTAAGGTTGTAGTGGAG
63 TTAGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAG
60496970 T
128 T
* *
60496971 AGGCTGAAGATTATAGATCTTGTTTCCCTG-AGATTGCAGTGGGGCAGATCGAAGA
1 AGGCT-AAAATT-TAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGA
60497026 TAGCAGATTT
Statistics
Matches: 590, Mismatches: 99, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
128 41 0.07
129 132 0.22
130 5 0.01
131 101 0.17
132 304 0.52
133 2 0.00
135 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (128 bp):
AGGCTAAAATTTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTTA
GCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAGT
Found at i:60496888 original size:260 final size:258
Alignment explanation
Indices: 60496199--60497025 Score: 1033
Period size: 260 Copynumber: 3.2 Consensus size: 258
60496189 GCTAAAATTT
* * * *
60496199 TAGATCTTGTTTCCTTGAAATTGAAGTGAAGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGAAG
*
60496264 TTGCAGTGAAGCAGATTTAAGCCACCAA-CTAAGCT-TCCTAAAGTTGTAGTGGATTAGGCTAAA
66 TTGCAGTGAAGCAGATTTAAG-CA--AACCT-AGCTCT-CTAAAGTTGTAGTGGAGTAGGCTAAA
* * * *** *
60496327 ATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAG-AAGATCGAAGACGGCGAATCTTAGCTTCC
126 ATTTCAGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAA-ATCAAAGACGATAAATCTTGGCTTCC
* * * * * * *
60496391 TGAAGTTGCAGCGAAACAGATTTAAACCACCAACCCAGCTCCCTAAAGTTGTAGTGGAGTAAGCT
190 TGAAGATGCAGCGAAGCAGATTT--A--AGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCT
*
60496456 -AA-ATTT
251 GAAGATTA
* ** *
60496462 TCAGATCTCGTTTCTTTGA-AGTTGTAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGA
1 T-AGATCTTGTTTCCCTGAGA-TTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGA
*
60496526 AGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAA
64 AGTTGCAGTGAAGCAGATTTAAG-CA--AACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTAAA
* * * *
60496591 ATTTCAGATCTCGTTTCCCTGAAGTTACAGTGAGGCAAATTAAAGACGATAAATCCTGGCTCCCT
126 ATTTCAGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
60496656 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
191 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
60496721 TTA
256 TTA
* ** * *
60496724 TAGATCTTGTTTCCCTGAGATGGCAGTGGGGCAGATCGAAGACGGCGAATCT-AGGTTTCCTGAT
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGA-GCTTCCTGAA
* * **
60496788 GTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTAGAGTAGGCTGAGGAT
65 GTTGCAGTGAAGCAGATTTAAGCAA-ACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT-AAAAT
*
60496853 TGT-AGATCTCGCCTT-CCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
128 T-TCAGATCTCG-TTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
*
60496916 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTTCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
191 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
60496981 TTA
256 TTA
**
60496984 TAGATCTTGTTTCCCTGAGATTGCAGTGGGGCAGATCGAAGA
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGA
60497026 TAGCAGATTT
Statistics
Matches: 505, Mismatches: 46, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
258 1 0.00
259 30 0.06
260 199 0.39
261 77 0.15
262 6 0.01
263 2 0.00
264 186 0.37
265 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (258 bp):
TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGAAG
TTGCAGTGAAGCAGATTTAAGCAAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTAAAATTTC
AGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCTGAAGA
TGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGATTA
Found at i:60497063 original size:44 final size:44
Alignment explanation
Indices: 60497014--60497551 Score: 727
Period size: 44 Copynumber: 12.2 Consensus size: 44
60497004 TTGCAGTGGG
60497014 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * ** * *
60497058 GCAGATCAAAAATAGCAGATTTGGAATTTCTATATTGGCGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* *
60497102 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTGTTGGTGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
*
60497146 GCAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * *
60497190 GCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAGTGGCGAAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * * *
60497234 GCAGATCGAAGATAACATATTTGGCATCTCTGTAGTGGCGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * * * *
60497278 GCAGATTGAAGATAACAGATTTGGCATCTCTGTGTTGGCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
*
60497322 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGAAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * *
60497366 GCAGATTGAAGATAGCAGATTTGGCGTCTCCGTAGTGGCGGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* *
60497410 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * * * *
60497454 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAAA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
* * **
60497498 GCAGATTGAAGAT-GACAGATTTGGCATCTCTGTATTGGTAGAGA
1 GCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGGCGGAGA
*
60497542 ACAGATCGAA
1 GCAGATCGAA
60497552 AATAACAAAT
Statistics
Matches: 437, Mismatches: 56, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
43 1 0.00
44 436 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (44 bp):
GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGA
Found at i:60499479 original size:11 final size:13
Alignment explanation
Indices: 60499455--60499481 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60499445 TGCTATGATA
60499455 ATATGTTTTATAT
1 ATATGTTTTATAT
60499468 ATATGTTTTATAT
1 ATATGTTTTATAT
60499481 A
1 A
60499482 GATTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
ATATGTTTTATAT
Found at i:60501091 original size:132 final size:131
Alignment explanation
Indices: 60500784--60501084 Score: 295
Period size: 131 Copynumber: 2.3 Consensus size: 131
60500774 TCACTTGCTT
* * * * * * *
60500784 AAAATAATCAAATATTCCCTCAAAATTTCACTCGTATCTTCC-AAAAA-TCCTTTAAAATGAAGG
1 AAAACAATCGAATATTCCTTCAGAATTTCACTCATAT-TTCCTAAAAACT-CATTAAAACGAAGG
* * * ** *
60500847 CAATACTCGGTGTTTGACGATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTG
64 CAATACTCGATGTTTGACAATTCGGGAATCATACCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
60500912 GTC
129 GTC
* ** ** *
60500915 AAAACAATCGAATATTCCTTTAGGTTTTGGCTCATGTTTCCTAAAAACTCATTAAAACGAAGGCA
1 AAAACAATCGAATATTCCTTCAGAATTTCACTCATATTTCCTAAAAACTCATTAAAACGAAGGCA
* * *
60500980 ATATTCGATGTTTGGCAATTCGGGGAAT-AGTACCCTATCGTGCTGGGTTGCAATTTCCCGTTTT
66 ATACTCGATGTTTGACAATTC-GGGAATCA-TACCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
*
60501044 TTC
129 GTC
* * *
60501047 AAGATAATCGAATA-TCTCTTCAGAATTTCACTTATATT
1 AAAACAATCGAATATTC-CTTCAGAATTTCACTCATATT
60501085 CTCTAAAGGG
Statistics
Matches: 133, Mismatches: 32, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
130 4 0.03
131 65 0.49
132 64 0.48
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (131 bp):
AAAACAATCGAATATTCCTTCAGAATTTCACTCATATTTCCTAAAAACTCATTAAAACGAAGGCA
ATACTCGATGTTTGACAATTCGGGAATCATACCCTATCGTGCTGGGTTGCAATTTCCCGTTTGGT
C
Found at i:60503704 original size:3 final size:3
Alignment explanation
Indices: 60503698--60503757 Score: 95
Period size: 3 Copynumber: 19.7 Consensus size: 3
60503688 TATCATCATC
60503698 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
60503747 CATT ATT -TT AT
1 -ATT ATT ATT AT
60503758 GTCAATTACT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.04
3 48 0.89
4 2 0.04
5 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:60504547 original size:15 final size:15
Alignment explanation
Indices: 60504529--60504557 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
60504519 TTCAAAAAAA
60504529 ATGGTTTCGACAGCT
1 ATGGTTTCGACAGCT
60504544 ATGGTTTCGACAGC
1 ATGGTTTCGACAGC
60504558 ATATTTGTTA
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:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
ATGGTTTCGACAGCT
Found at i:60506814 original size:19 final size:19
Alignment explanation
Indices: 60506790--60506828 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60506780 CATGCTTTCA
60506790 AATGGAATGGGGGAATTGG
1 AATGGAATGGGGGAATTGG
60506809 AATGGAATGGGGGAATTGG
1 AATGGAATGGGGGAATTGG
60506828 A
1 A
60506829 TGTTCATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (19 bp):
AATGGAATGGGGGAATTGG
Found at i:60508921 original size:62 final size:61
Alignment explanation
Indices: 60508806--60508921 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
60508796 TTTTAGTAAA
* * * *
60508806 CTAATACAAAGTAGTACCTAAATATTAATTTGGTTAAAATAAAGTTTAGTAATTGTAACAT
1 CTAATACAAAGTAGTACCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTGTAACAT
* *
60508867 CTAAGTACAAA-TGGTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATT
1 CTAA-TACAAAGTAGTACCTAAATATTAATTAGGT-AAAAATAAAGTTAAATAATT
60508922 ATAATATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 24 0.51
62 23 0.49
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.34
Consensus pattern (61 bp):
CTAATACAAAGTAGTACCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTGTAACAT
Found at i:60508939 original size:61 final size:61
Alignment explanation
Indices: 60508806--60508925 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 61
60508796 TTTTAGTAAA
* * * * * * *
60508806 CTAA-TACAAAGTAGTACCTAAATATTAATTTGGTTAAAATAAAGTTTAGTAATTGTAACAT
1 CTAAGTACAAA-TGGTATCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTATAACAT
60508867 CTAAGTACAAATGGTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATAA
1 CTAAGTACAAATGGTATCTAAATATTAATTAGGT-AAAAATAAAGTTAAATAATTATAA
60508926 TATTTAATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 24 0.48
62 26 0.52
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (61 bp):
CTAAGTACAAATGGTATCTAAATATTAATTAGGTAAAAATAAAGTTAAATAATTATAACAT
Found at i:60510059 original size:77 final size:77
Alignment explanation
Indices: 60509932--60510087 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
60509922 GTTAGTATTT
60509932 CGTGAGATGTGTTGCATGATGATTATTGATGGTCTATAAAACCAATAAACTATCTTTTGCTACTC
1 CGTGAGATGTGTTGCATGATGATTATTGATGGTCTATAAAACCAATAAACTATCTTTTGCTACTC
60509997 TACTAATATGAC
66 TACTAATATGAC
60510009 CGTGAGATGTGTTGCATGATGATTATTGATGGTCTATAAAACCAATAAACTATCTTTTGCTACTC
1 CGTGAGATGTGTTGCATGATGATTATTGATGGTCTATAAAACCAATAAACTATCTTTTGCTACTC
60510074 TACTAATATGAC
66 TACTAATATGAC
60510086 CG
1 CG
60510088 CATTTCGGTG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (77 bp):
CGTGAGATGTGTTGCATGATGATTATTGATGGTCTATAAAACCAATAAACTATCTTTTGCTACTC
TACTAATATGAC
Found at i:60512419 original size:28 final size:28
Alignment explanation
Indices: 60512331--60512419 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
60512321 TTCCCAATAG
* *
60512331 AAAAAAGCTTATGTACCAAATT-AGGAA
1 AAAAAAGCTTAAGTACCAAATTAAAGAA
* *
60512358 AAATGTCAAAG-TTCAAGTACCAAATTAGACAA
1 AAA----AAAGCTT-AAGTACCAAATTAAAGAA
*
60512390 AAAAAAGCTTAGGTACCAAATTAAAGAA
1 AAAAAAGCTTAAGTACCAAATTAAAGAA
60512418 AA
1 AA
60512420 TGTCAAATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
27 3 0.06
28 21 0.44
29 2 0.04
30 2 0.04
31 15 0.31
32 5 0.10
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.20
Consensus pattern (28 bp):
AAAAAAGCTTAAGTACCAAATTAAAGAA
Found at i:60512714 original size:20 final size:20
Alignment explanation
Indices: 60512689--60512726 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60512679 TATTTTGTGT
60512689 AATTACATAAAATATTACTA
1 AATTACATAAAATATTACTA
*
60512709 AATTACATAAATTATTAC
1 AATTACATAAAATATTAC
60512727 AACATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTACATAAAATATTACTA
Found at i:60512755 original size:59 final size:58
Alignment explanation
Indices: 60512638--60512787 Score: 158
Period size: 59 Copynumber: 2.5 Consensus size: 58
60512628 TTATTTTAAA
* * ** * * * *
60512638 AAAATATTTCTCAATTACATAAATTATTATAATTTTTGTGATATTTTGTGTAATTACAT
1 AAAATATTACT-AATTACATAAATTATTACAACATTTATGATATTCTGTATAAATACAT
*
60512697 AAAATATTACTAAATTACATAAATTATTACAACATTTAT-AGTGTTCTGTATAAATACAT
1 AAAATATTACT-AATTACATAAATTATTACAACATTTATGA-TATTCTGTATAAATACAT
* *
60512756 AAAATATTATCTAATTACACAAATTACTACAA
1 AAAATATTA-CTAATTACATAAATTATTACAA
60512788 ATCTAATATT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.01
59 74 0.96
60 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (58 bp):
AAAATATTACTAATTACATAAATTATTACAACATTTATGATATTCTGTATAAATACAT
Found at i:60514613 original size:25 final size:25
Alignment explanation
Indices: 60514585--60514635 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
60514575 GGTTTTGTCA
60514585 ATAG-TTTAATGGTTTTATGTT-GTTC
1 ATAGCTTT-ATGGTTTTAT-TTGGTTC
*
60514610 ATAGCTTTGTGGTTTTATTTGGTTC
1 ATAGCTTTATGGTTTTATTTGGTTC
60514635 A
1 A
60514636 CATTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.18, C:0.06, G:0.22, T:0.55
Consensus pattern (25 bp):
ATAGCTTTATGGTTTTATTTGGTTC
Found at i:60515599 original size:19 final size:20
Alignment explanation
Indices: 60515562--60515598 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
60515552 AAAATATTGT
*
60515562 AAAAAGTTATTAAAATTTTC
1 AAAAAGTTAGTAAAATTTTC
60515582 AAAAA-TTAGT-AAATTTT
1 AAAAAGTTAGTAAAATTTT
60515599 TTTGTATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAAGTTAGTAAAATTTTC
Found at i:60515712 original size:20 final size:21
Alignment explanation
Indices: 60515683--60515742 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
60515673 TTAAAATATA
*
60515683 ATCAACTTTTTAAT-TTTTAC
1 ATCAAATTTTTAATATTTTAC
*
60515703 ATCAAATTTTTAATATTTTAA
1 ATCAAATTTTTAATATTTTAC
60515724 ATACATAAATTTTTAATAT
1 AT-C--AAATTTTTAATAT
60515743 GTTCTAGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.38
21 7 0.21
22 1 0.03
24 13 0.38
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
ATCAAATTTTTAATATTTTAC
Found at i:60520102 original size:17 final size:17
Alignment explanation
Indices: 60520077--60520111 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60520067 ACCAGATGTT
*
60520077 AGAACGTTTAGTTGGGA
1 AGAACGTTTAGCTGGGA
*
60520094 AGAATGTTTAGCTGGGA
1 AGAACGTTTAGCTGGGA
60520111 A
1 A
60520112 ATCTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
AGAACGTTTAGCTGGGA
Found at i:60525481 original size:20 final size:20
Alignment explanation
Indices: 60525453--60525491 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60525443 GTTTTTTGTA
60525453 CATTATTATAAATATATATG
1 CATTATTATAAATATATATG
*
60525473 CATTTTTATAAATATATAT
1 CATTATTATAAATATATAT
60525492 ACTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
CATTATTATAAATATATATG
Found at i:60528576 original size:4 final size:4
Alignment explanation
Indices: 60528567--60528604 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
60528557 TTGCTTGTAC
60528567 ATAA ATAA ATAA ATAAA ATGAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA A
60528605 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 3 0.10
4 21 0.68
5 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:60532268 original size:30 final size:30
Alignment explanation
Indices: 60532232--60532290 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
60532222 CAGTTAAATC
60532232 AAATTTTAAAAAAAAT-TTAATATATATTTT
1 AAATTTT-AAAAAAATGTTAATATATATTTT
* * *
60532262 AAATTTTTACAAAATGTTAATATTTATTT
1 AAATTTTAAAAAAATGTTAATATATATTT
60532291 AATGAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
AAATTTTAAAAAAATGTTAATATATATTTT
Found at i:60533255 original size:18 final size:18
Alignment explanation
Indices: 60533214--60533248 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60533204 GTACTAGGTA
*
60533214 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
60533232 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
60533249 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:60533566 original size:7 final size:7
Alignment explanation
Indices: 60533554--60533579 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60533544 AAATAGTATT
60533554 TAATATA
1 TAATATA
60533561 TAATATA
1 TAATATA
60533568 TAATATA
1 TAATATA
60533575 TAATA
1 TAATA
60533580 ACAAGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:60533703 original size:19 final size:18
Alignment explanation
Indices: 60533663--60533701 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
60533653 TTTTAAAATG
*
60533663 AAATAATATATAATAGAT
1 AAATAATAAATAATAGAT
60533681 AAATAAATAAATAATA-AT
1 AAAT-AATAAATAATAGAT
60533699 AAA
1 AAA
60533702 ATGTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAATAAATAATAGAT
Found at i:60533864 original size:24 final size:24
Alignment explanation
Indices: 60533814--60533867 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
60533804 TATAATATTT
*
60533814 ATAAAAATAATAAGTGGTATAGAA
1 ATAAAAATAATAAATGGTATAGAA
* *
60533838 ATAAAACATAATAAATGTTATA-TA
1 ATAAAA-ATAATAAATGGTATAGAA
60533862 ATAAAA
1 ATAAAA
60533868 TATATAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAAATGGTATAGAA
Found at i:60535745 original size:83 final size:82
Alignment explanation
Indices: 60535621--60535802 Score: 233
Period size: 83 Copynumber: 2.2 Consensus size: 82
60535611 GATTTGTGGG
* * *
60535621 GATGCCAAATCAACTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTTGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
60535686 TG-TTCTTTGTAAGCACAAA
66 TGTTTC-TTGTAA--ACAAA
* * * * *
60535705 GATGCCAAACCATCTTGAGTCTG-TTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
60535769 TGTTTCTTGTAAACAAA
66 TGTTTCTTGTAAACAAA
* *
60535786 AATACCAAATCATCTTG
1 GATGCCAAATCATCTTG
60535803 GATCTGCTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 19 0.22
83 43 0.50
84 24 0.28
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (82 bp):
GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
TGTTTCTTGTAAACAAA
Found at i:60536142 original size:118 final size:119
Alignment explanation
Indices: 60535730--60536193 Score: 758
Period size: 119 Copynumber: 3.9 Consensus size: 119
60535720 TGAGTCTGTT
* * * * *
60535730 TGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
60535793 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGAT-TAGATCCACTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TCTAGATCCACTATATC
60535847 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * **
60535912 AATCATCTTGGATCTGCTTCAATATAAATATCTGAAGTCTAGATCTTCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCCACTATATC
60535966 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
60536031 AATCATCTTGGATCTG-TTCAGTATAAACATCTGAAGAT-TAGATCCGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TCTAGATCCACTATATC
*
60536084 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* *
60536149 AATCATCTTGGATCTGCTTCAGCATAAATATCTGAAGTCTAGATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATC
60536194 TGCTGTCTTC
Statistics
Matches: 325, Mismatches: 16, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
117 49 0.15
118 115 0.35
119 161 0.50
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCCACTATATC
Found at i:60536144 original size:237 final size:236
Alignment explanation
Indices: 60535730--60536194 Score: 824
Period size: 237 Copynumber: 2.0 Consensus size: 236
60535720 TGAGTCTGTT
* * * *
60535730 TGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
1 TGAGAACATCTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
60535795 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATCTGAGAACATCTGA
66 TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATCTGAGAACATCTGA
*
60535860 GAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGAT
131 GAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGAT
*
60535925 CTGCTTCAATATAAATATCTGAAGTCTAGATCTTCTATATC
196 CTGCTTCAACATAAATATCTGAAGTCTAGATCTTCTATATC
*
60535966 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
*
60536031 AATCATCTTGGATCTG-TTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAGAACATCT
64 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATCTGAGAACATCT
60536095 GAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
129 GAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGG
*
60536160 ATCTGCTTCAGCATAAATATCTGAAGTCTAGATCT
194 ATCTGCTTCAACATAAATATCTGAAGTCTAGATCT
60536195 GCTGTCTTCA
Statistics
Matches: 218, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
236 49 0.22
237 146 0.67
238 23 0.11
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (236 bp):
TGAGAACATCTGAGAGTCAAATCTACAATGTCCTCGATTTGTTTCTTGTAAACAAAAATACCAAA
TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATCTGAGAACATCTGA
GAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGAT
CTGCTTCAACATAAATATCTGAAGTCTAGATCTTCTATATC
Found at i:60547602 original size:18 final size:18
Alignment explanation
Indices: 60547561--60547595 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60547551 GTACTAGGTA
*
60547561 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
60547579 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
60547596 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:60547915 original size:7 final size:7
Alignment explanation
Indices: 60547903--60547935 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
60547893 AAATAGTATT
60547903 TAATATA
1 TAATATA
60547910 TAATATA
1 TAATATA
60547917 TAATATA
1 TAATATA
60547924 TAATATA
1 TAATATA
60547931 TAATA
1 TAATA
60547936 ACAAGAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:60548059 original size:19 final size:18
Alignment explanation
Indices: 60548019--60548057 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
60548009 TTTTAAAATG
*
60548019 AAATAATATATAATAGAT
1 AAATAATAAATAATAGAT
60548037 AAATAAATAAATAATA-AT
1 AAAT-AATAAATAATAGAT
60548055 AAA
1 AAA
60548058 ATGTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAATAAATAATAGAT
Found at i:60548217 original size:24 final size:24
Alignment explanation
Indices: 60548167--60548220 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
60548157 TATAATATTT
*
60548167 ATAAAAATAATAAGTGGTATAGAA
1 ATAAAAATAATAAATGGTATAGAA
* *
60548191 ATAAAACATAATAAATGTTATA-TA
1 ATAAAA-ATAATAAATGGTATAGAA
60548215 ATAAAA
1 ATAAAA
60548221 TATATAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAAATGGTATAGAA
Found at i:60548310 original size:28 final size:28
Alignment explanation
Indices: 60548270--60548357 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 28
60548260 AATGAAAGTT
* *
60548270 TAAATGTAAAATAATGTATAAATAATAA
1 TAAATATATAATAATGTATAAATAATAA
60548298 TAAATATATAATATATGTGA-AAAT-ATAA
1 TAAATATATAATA-ATGT-ATAAATAATAA
* *
60548326 CAATATATATAAAAATGATATAAAATAATAA
1 TAA-ATATATAATAATG-TAT-AAATAATAA
60548357 T
1 T
60548358 TTGAGAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 21 0.44
29 18 0.38
30 5 0.10
31 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
TAAATATATAATAATGTATAAATAATAA
Found at i:60548340 original size:20 final size:19
Alignment explanation
Indices: 60548294--60548341 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
60548284 TGTATAAATA
*
60548294 ATAATAAATATATAATATAT
1 ATAA-AAATATACAATATAT
* *
60548314 GTGAAAATATAACAATATAT
1 ATAAAAATAT-ACAATATAT
60548334 ATAAAAAT
1 ATAAAAAT
60548342 GATATAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAAAATATACAATATAT
Found at i:60548498 original size:19 final size:20
Alignment explanation
Indices: 60548461--60548500 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
60548451 AATAAAACAA
*
60548461 ATAATAAATATATATATAGG
1 ATAATAAATATAAATATAGG
60548481 ATAATAAA-ATAAATATAGG
1 ATAATAAATATAAATATAGG
60548500 A
1 A
60548501 CTGAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (20 bp):
ATAATAAATATAAATATAGG
Found at i:60551405 original size:18 final size:20
Alignment explanation
Indices: 60551382--60551419 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60551372 CTTCTTACAC
60551382 AAACT-CAAAT-ACACCATT
1 AAACTCCAAATGACACCATT
*
60551400 AAACTCCCAATGACACCATT
1 AAACTCCAAATGACACCATT
60551420 TTGTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.21
Consensus pattern (20 bp):
AAACTCCAAATGACACCATT
Found at i:60553088 original size:22 final size:22
Alignment explanation
Indices: 60553061--60553104 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
60553051 TTAACCAAAT
*
60553061 AAATTGATAAATATAAAGATTA
1 AAATTGATAAATATAAAAATTA
60553083 AAATTGATAAATATAAAAATTA
1 AAATTGATAAATATAAAAATTA
60553105 TAAAAACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATTGATAAATATAAAAATTA
Found at i:60557377 original size:132 final size:130
Alignment explanation
Indices: 60557044--60557420 Score: 504
Period size: 131 Copynumber: 2.9 Consensus size: 130
60557034 TAAGAATTCT
* *
60557044 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* * *
60557109 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTTCCTTTAGAATTTCACCCATGTCTTTAAAAAATC
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAAT-
60557174 C
130 C
* ** * * *
60557175 TTTAAACGAAGGCGATGTTCGATATTTGGCGATTCGCGGAATCGTGCCCTATCGTGCTGGGTTTC
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* * *
60557240 AATTTCTCGATTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTCTTTAAAAAACT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAA-T
60557305 C
130 C
* * * * *
60557306 TTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCTTATCGTGCTAGGTTG
1 TT-AAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTG
* ** *
60557371 CGATTTC-CTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTC
65 CAATTTCTC-GTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTC
60557421 GTGCTTCCTA
Statistics
Matches: 212, Mismatches: 31, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
131 118 0.56
132 94 0.44
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAATC
Found at i:60564978 original size:181 final size:176
Alignment explanation
Indices: 60564656--60564978 Score: 448
Period size: 176 Copynumber: 1.8 Consensus size: 176
60564646 AAAATGATTG
* * * * *
60564656 AACAACCTATGCATCACAAAGGCCCGGGCCTAGGAGAAGTGAAAACTCCAAAAGAATGAATAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
**
60564721 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGTTTGGAACAACCTCAGACATTTTCCATTTT
66 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
*
60564786 AATCTTTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
131 AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
* * *
60564832 AACAACCTATGCCTCACAAAGACTAGGGCATAGGAGAAGTGAAAACTTCAAAAGAACGAAAAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
* * * ** *
60564897 TTGCAAATGATATTGCAGTTGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGATGTTTTCT
66 --ACAAATAACATTGCA---GTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCC
60564962 ATTTTAATCATTTGACT
126 ATTTTAATCATTTGACT
60564979 AACCTGCCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
176 57 0.46
178 12 0.10
181 56 0.45
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (176 bp):
AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
Found at i:60565953 original size:3 final size:3
Alignment explanation
Indices: 60565947--60565999 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
60565937 TCCTCCTCCG
* * * * * *
60565947 CTT CTT CTT CTT CTT CTT CAT CAT CAT CTA CAT CTT CGT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60565995 CTT CT
1 CTT CT
60566000 CTCTCGTCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (3 bp):
CTT
Found at i:60579146 original size:27 final size:27
Alignment explanation
Indices: 60579089--60579146 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
60579079 ACTATATTTT
* *
60579089 AAAAGTTAAAATGTTATAAAATTTTAC
1 AAAAGTTAAAATGATATAAAATTATAC
60579116 AAAAGTTAAAAATGAT-TAAAATATATA-
1 AAAAGTT-AAAATGATATAAAAT-TATAC
60579143 AAAA
1 AAAA
60579147 TTAGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAAGTTAAAATGATATAAAATTATAC
Found at i:60581595 original size:46 final size:46
Alignment explanation
Indices: 60581545--60581720 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
60581535 TGATTGAGCA
60581545 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60581591 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
60581636 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
60581684 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60581721 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60581701 original size:93 final size:93
Alignment explanation
Indices: 60581542--60581713 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
60581532 GGATGATTGA
*
60581542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60581607 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60581635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
60581699 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
60581714 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60585609 original size:28 final size:28
Alignment explanation
Indices: 60585553--60585619 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
60585543 TAATTACATT
60585553 AGAAAATAATAAAATAAATAATTAATTAA
1 AGAAAATAA-AAAATAAATAATTAATTAA
* * *
60585582 TGAAATTAAAAAATAAAT-CTTAATTTAA
1 AGAAAATAAAAAATAAATAATTAA-TTAA
60585610 AGAAAATAAA
1 AGAAAATAAA
60585620 CGTAATTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.12
28 21 0.66
29 7 0.22
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
AGAAAATAAAAAATAAATAATTAATTAA
Found at i:60587291 original size:53 final size:51
Alignment explanation
Indices: 60587143--60587302 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 51
60587133 TAACGGAAAA
* *
60587143 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGTTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
* * * *
60587195 AATGTGAT-TCGTGTTCCTGTATAAGACCATAGCTAGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGTTCC-GTATAAGACCATAGCTGGGATATGGCATCGGTAT
* *
60587247 GATGTGATAATATGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
60587300 GAT
1 GAT
60587303 ATGTGATCCG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
51 5 0.05
52 47 0.51
53 35 0.38
54 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
Found at i:60592482 original size:66 final size:66
Alignment explanation
Indices: 60592397--60592529 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
60592387 TAAAAATAAT
*
60592397 TATATAAAGAAATTCAATTTAAATTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
60592462 A
66 A
* * *
60592463 TATATAAAGAAATTTAATTTAAAGTTTTTTATCCCTATTTTAATTATCGAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
60592528 A
66 A
60592529 T
1 T
60592530 TTAGTCATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (66 bp):
TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
A
Found at i:60603937 original size:19 final size:19
Alignment explanation
Indices: 60603913--60603951 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60603903 TTAACATTAC
60603913 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
60603932 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
60603951 T
1 T
60603952 AGTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTAATGTTTATATTAGAG
Found at i:60607471 original size:64 final size:63
Alignment explanation
Indices: 60607373--60607511 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
60607363 CCGTGTCCCC
* *
60607373 TGCCTGTGTGACTCCAAATTTGAACTCAATGAGTTACATAGCCTAGACACACACACGTGTATAT
1 TGCCTGTGTGACTCCAAATCTGAACTCAAGGAGTTACATAGCCTAGACACACAC-CGTGTATAT
* * * * * * * *
60607437 TGTCTGTGTGACTTCAAATCCT-AACTTAAGGAGTTACATGGCCTGGACACACGCCGTGTGTTT
1 TGCCTGTGTGACTCCAAAT-CTGAACTCAAGGAGTTACATAGCCTAGACACACACCGTGTATAT
60607500 TGCCTGTGTGAC
1 TGCCTGTGTGAC
60607512 CCTGCACCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 18 0.29
64 44 0.70
65 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (63 bp):
TGCCTGTGTGACTCCAAATCTGAACTCAAGGAGTTACATAGCCTAGACACACACCGTGTATAT
Found at i:60610025 original size:20 final size:21
Alignment explanation
Indices: 60609991--60610044 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
60609981 TGATGATATT
*
60609991 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
60610012 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
60610032 TTTTATTATTTTA
1 TTATATTATTTTA
60610045 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:60610048 original size:3 final size:3
Alignment explanation
Indices: 60610030--60610078 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
60610020 TTTAATGAGA
*
60610030 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
60610075 TAT T
1 TAT T
60610079 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:60610050 original size:11 final size:11
Alignment explanation
Indices: 60610034--60610072 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
60610024 ATGAGATATT
60610034 TTATTATTTTA
1 TTATTATTTTA
*
60610045 TTATTATTTCA
1 TTATTATTTTA
60610056 TTATTATTTTA
1 TTATTATTTTA
60610067 TTATTA
1 TTATTA
60610073 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:60610058 original size:19 final size:19
Alignment explanation
Indices: 60610030--60610071 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
60610020 TTTAATGAGA
*
60610030 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
60610049 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
60610068 TATT
1 TATT
60610072 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:60610502 original size:11 final size:11
Alignment explanation
Indices: 60610470--60610502 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
60610460 TTGATATGTT
60610470 AGTGAAGAGAA
1 AGTGAAGAGAA
60610481 AGT-AAGAGAA
1 AGTGAAGAGAA
*
60610491 AGTGATGAGAA
1 AGTGAAGAGAA
60610502 A
1 A
60610503 TGGTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:60612258 original size:23 final size:23
Alignment explanation
Indices: 60612224--60612336 Score: 104
Period size: 23 Copynumber: 4.8 Consensus size: 23
60612214 CCCGATATAT
60612224 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
*
60612247 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * * *
60612270 GTGCT-TGCTTGAACTTCCCTATATA
1 G-GCTCTTCGTGAGCTTCCC--GATA
* *
60612295 TGGCTATCCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
*
60612318 GGCTCTTCATGAGCTTCCC
1 GGCTCTTCGTGAGCTTCCC
60612337 AATATGGTTC
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 6 0.08
23 45 0.63
24 3 0.04
25 14 0.20
26 3 0.04
ACGTcount: A:0.15, C:0.29, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:60614685 original size:15 final size:15
Alignment explanation
Indices: 60614665--60614693 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
60614655 ATGATCAATG
60614665 AAAAGCTTGTTCACC
1 AAAAGCTTGTTCACC
60614680 AAAAGCTTGTTCAC
1 AAAAGCTTGTTCAC
60614694 TATATTCTTT
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:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
AAAAGCTTGTTCACC
Found at i:60623364 original size:18 final size:18
Alignment explanation
Indices: 60623323--60623364 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
60623313 TGGTTTTTTA
*
60623323 CTTTTT-TTTCTTTCTTT
1 CTTTTTATTTATTTCTTT
60623340 CTTTTTATTTATTTACTTT
1 CTTTTTATTTATTT-CTTT
60623359 -TTTTTA
1 CTTTTTA
60623365 AGTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTATTTATTTCTTT
Found at i:60623485 original size:21 final size:21
Alignment explanation
Indices: 60623450--60623493 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60623440 ATTTGAAATG
60623450 TTTTATAATATTTTTTTAAAA
1 TTTTATAATATTTTTTTAAAA
*
60623471 TTTTA-AATATATTTTTTGAAA
1 TTTTATAATAT-TTTTTTAAAA
60623492 TT
1 TT
60623494 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTATAATATTTTTTTAAAA
Found at i:60623496 original size:13 final size:13
Alignment explanation
Indices: 60623471--60623508 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
60623461 TTTTTTAAAA
60623471 TTTTAAATATATT
1 TTTTAAATATATT
60623484 TTTTGAAAT-TATT
1 TTTT-AAATATATT
60623497 TTTTAAA-ATATT
1 TTTTAAATATATT
60623509 AAATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.30
13 12 0.52
14 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTTTAAATATATT
Found at i:60623517 original size:19 final size:20
Alignment explanation
Indices: 60623493--60623536 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60623483 TTTTTGAAAT
*
60623493 TATTTTTTAA-AATATTAAA
1 TATTTTTTAATAATATAAAA
60623512 TATTTTTTAATAATATAAAA
1 TATTTTTTAATAATATAAAA
60623532 TATTT
1 TATTT
60623537 AAATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTTAATAATATAAAA
Found at i:60623518 original size:20 final size:20
Alignment explanation
Indices: 60623456--60623536 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
60623446 AATGTTTTAT
*
60623456 AATATTTTTTTAAAATTTTA
1 AATATTTTTTTAAAATATTA
*
60623476 AATATATTTTTT-GAA-A-T-
1 AATAT-TTTTTTAAAATATTA
60623493 --TA-TTTTTTAAAATATTA
1 AATATTTTTTTAAAATATTA
*
60623510 AATA-TTTTTTAATAATATAA
1 AATATTTTTTTAA-AATATTA
60623530 AATATTT
1 AATATTT
60623537 AAATATTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
13 6 0.12
14 2 0.04
15 3 0.06
16 1 0.02
18 1 0.02
19 10 0.21
20 17 0.35
21 8 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (20 bp):
AATATTTTTTTAAAATATTA
Found at i:60623605 original size:70 final size:70
Alignment explanation
Indices: 60623527--60623727 Score: 215
Period size: 70 Copynumber: 2.9 Consensus size: 70
60623517 TTTAATAATA
*
60623527 TAAAATATTTAAATATTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAA
1 TAAAATATTTAAAT-TTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAA
60623592 -AT-TT
65 TATGTT
* * *
60623596 TAAATATATTTAATTTGTTTTAAA-ATAT----TTTTAATATATT-TAATTTGTTTTATAATATT
1 TAAA-ATATTTAA-AT-TTTTAAAGATATGACCTTTCAA-AT-TTATTATTTGTTTTATAATA-T
*
60623655 TTTAATTTGTT
60 TTTAATATGTT
60623666 TAAAATATATT--ATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTA
1 TAAAATAT-TTAAATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTA
60623728 GATGTATATT
Statistics
Matches: 109, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
66 12 0.11
67 22 0.20
68 8 0.07
69 16 0.15
70 38 0.35
71 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (70 bp):
TAAAATATTTAAATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAT
ATGTT
Found at i:60623611 original size:16 final size:17
Alignment explanation
Indices: 60623576--60623608 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60623566 TTATTATTAG
60623576 TTTTATAATATTTTAAA
1 TTTTATAATATTTTAAA
60623593 TTTTA-AATATATTTAA
1 TTTTATAATAT-TTTAA
60623609 TTTGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATAATATTTTAAA
Found at i:60623653 original size:21 final size:21
Alignment explanation
Indices: 60623623--60623676 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
60623613 TTTTAAAATA
60623623 TTTT-TAATATATTTAATTTG
1 TTTTATAATATATTTAATTTG
*
60623643 TTTTATAATATTTTTAATTTG
1 TTTTATAATATATTTAATTTG
*
60623664 -TTTAAAATATATT
1 TTTTATAATATATT
60623677 ATTTTTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTATAATATATTTAATTTG
Found at i:60623668 original size:30 final size:30
Alignment explanation
Indices: 60623592--60623660 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
60623582 AATATTTTAA
*
60623592 ATTTTAAATATATTTAATTTGTTTTAAAAT
1 ATTTTTAATATATTTAATTTGTTTTAAAAT
*
60623622 ATTTTTAATATATTTAATTTGTTTTATAAT
1 ATTTTTAATATATTTAATTTGTTTTAAAAT
60623652 ATTTTTAAT
1 ATTTTTAAT
60623661 TTGTTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTTAATATATTTAATTTGTTTTAAAAT
Found at i:60623791 original size:122 final size:134
Alignment explanation
Indices: 60623538--60623803 Score: 326
Period size: 137 Copynumber: 2.1 Consensus size: 134
60623528 AAAATATTTA
*
60623538 AATA-TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATTTTAAATA
1 AATATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATTGT-AATA
* * *
60623602 TATTTAATTTGTTTTAAAATATTTTTAATATATTTAATTTGTTTTATAATATTTTTAATTTGTTT
65 TATTTAATATGTTTTAAAATATTTTTAATATA-TTAATTTGTTTTATAAAATTATTAA-TTGTTT
60623667 AAAATAT
128 AAAATAT
* * *
60623674 ATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAGA-TGT-ATAT
1 AATATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATTGTAATAT
60623737 -TTTAAATAT-TTTT-AAA-A-TTTTAA-ATA-TAATTT-TTTT-TAAAATTATTAA-T-TTTAA
66 ATTT-AATATGTTTTAAAATATTTTTAATATATTAATTTGTTTTATAAAATTATTAATTGTTTAA
*
60623791 AATTT
130 AATAT
60623796 AATATTTT
1 AATATTTT
60623804 ATTTGGTGGA
Statistics
Matches: 119, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
122 16 0.13
123 1 0.01
125 10 0.08
126 4 0.03
127 6 0.05
129 3 0.03
130 6 0.05
131 1 0.01
132 3 0.03
133 7 0.06
134 8 0.07
136 5 0.04
137 49 0.41
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (134 bp):
AATATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATTGTAATAT
ATTTAATATGTTTTAAAATATTTTTAATATATTAATTTGTTTTATAAAATTATTAATTGTTTAAA
ATAT
Found at i:60629610 original size:40 final size:40
Alignment explanation
Indices: 60629555--60629633 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
60629545 TAGATGAAGT
*
60629555 GTGATCCATATTTGCTCCATAAGACATTTTAATATTTGCG
1 GTGATCCATATTTGCTCCAAAAGACATTTTAATATTTGCG
60629595 GTGATCCATATTTGCTCCAAAAGACATTTTAATATTTGC
1 GTGATCCATATTTGCTCCAAAAGACATTTTAATATTTGC
60629634 ATAATTTGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (40 bp):
GTGATCCATATTTGCTCCAAAAGACATTTTAATATTTGCG
Found at i:60629898 original size:13 final size:13
Alignment explanation
Indices: 60629880--60629904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60629870 TTATAATTTT
60629880 TTTAAATTTTTAA
1 TTTAAATTTTTAA
60629893 TTTAAATTTTTA
1 TTTAAATTTTTA
60629905 CTTTTTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATTTTTAA
Found at i:60629909 original size:20 final size:20
Alignment explanation
Indices: 60629886--60629923 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60629876 TTTTTTTAAA
*
60629886 TTTTTAATTTAAATTTTTAC
1 TTTTTAATATAAATTTTTAC
*
60629906 TTTTTAATATATATTTTT
1 TTTTTAATATAAATTTTT
60629924 TAAATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATATAAATTTTTAC
Found at i:60629925 original size:14 final size:15
Alignment explanation
Indices: 60629906--60629966 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
60629896 AAATTTTTAC
*
60629906 TTTTT-AATATATAT
1 TTTTTAAATAAATAT
60629920 TTTTTAAATAAATAT
1 TTTTTAAATAAATAT
*
60629935 TTTTAAAATAAAGTCAT
1 TTTTTAAATAAA-T-AT
*
60629952 ATTTTTTAATAAATA
1 -TTTTTAAATAAATA
60629967 AATCCTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.13
15 19 0.49
16 2 0.05
17 3 0.08
18 10 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTTTAAATAAATAT
Found at i:60630248 original size:19 final size:19
Alignment explanation
Indices: 60630224--60630295 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
60630214 GTTTTATATT
60630224 ATTAAAAAATATATTTAAA
1 ATTAAAAAATATATTTAAA
*
60630243 ATTAAAAAATAT-TTT--C
1 ATTAAAAAATATATTTAAA
*
60630259 A--AAAATATATATTTAAA
1 ATTAAAAAATATATTTAAA
**
60630276 ATTTTAAAATATATTATAAA
1 ATTAAAAAATATATT-TAAA
60630296 TCATTTCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
14 8 0.20
15 3 0.07
16 1 0.02
17 1 0.02
18 3 0.07
19 21 0.51
20 4 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAAAATATATTTAAA
Found at i:60630274 original size:33 final size:32
Alignment explanation
Indices: 60630219--60630292 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 32
60630209 TAAATGTTTT
60630219 ATATTATTAAAAAATATATTTAAAATTAAAAA
1 ATATTATTAAAAAATATATTTAAAATTAAAAA
*
60630251 ATATT-TTCAAAAATATATATTTAAAATTTTAAAAT
1 ATATTATT-AAAAA-ATATATTTAAAA--TTAAAAA
60630286 ATATTAT
1 ATATTAT
60630293 AAATCATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 2 0.06
32 10 0.28
33 12 0.33
35 11 0.31
36 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATTATTAAAAAATATATTTAAAATTAAAAA
Found at i:60630347 original size:8 final size:8
Alignment explanation
Indices: 60630334--60630414 Score: 67
Period size: 9 Copynumber: 9.6 Consensus size: 8
60630324 TAAAATCAAT
*
60630334 AATAAACA
1 AATAAATA
60630342 AATAAATAA
1 AATAAAT-A
60630351 AATAAATA
1 AATAAATA
*
60630359 AATAAAGA
1 AATAAATA
*
60630367 CAATAAAGA
1 -AATAAATA
60630376 CAATAAA-A
1 -AATAAATA
60630384 AACTTAAA-A
1 AA--TAAATA
60630393 AAGTAAATA
1 AA-TAAATA
60630402 AATAAATA
1 AATAAATA
60630410 AATAA
1 AATAA
60630415 GAAAGAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
7 2 0.03
8 30 0.46
9 33 0.51
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.19
Consensus pattern (8 bp):
AATAAATA
Found at i:60630350 original size:4 final size:4
Alignment explanation
Indices: 60630334--60630414 Score: 67
Period size: 4 Copynumber: 19.2 Consensus size: 4
60630324 TAAAATCAAT
* * *
60630334 AATA AACA AATA AATAA AATA AATA AATA AAGA CAATA AAGA CAATA AA-A
1 AATA AATA AATA AAT-A AATA AATA AATA AATA -AATA AATA -AATA AATA
60630384 AACTTA AA-A AAGTA AATA AATA AATA AATA A
1 AA--TA AATA AA-TA AATA AATA AATA AATA A
60630415 GAAAGAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 6 0.10
4 41 0.65
5 13 0.21
6 3 0.05
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:60634123 original size:4 final size:4
Alignment explanation
Indices: 60634114--60634138 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
60634104 ATCCCATCAA
60634114 TTCT TTCT TTCT TTCT TTCT TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT T
60634139 GTTTTGGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:60637984 original size:21 final size:22
Alignment explanation
Indices: 60637944--60637990 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
60637934 CTCTGCTCAA
*
60637944 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
60637965 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
60637987 ACTC
1 ACTC
60637991 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:60642805 original size:11 final size:11
Alignment explanation
Indices: 60642768--60642827 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
60642758 TTAAAGTTTG
60642768 AAAAATTATTAA
1 AAAAATTA-TAA
*
60642780 AAAAA-TA-AT
1 AAAAATTATAA
60642789 AAAAATTATAA
1 AAAAATTATAA
*
60642800 ACAAATTTTATAA
1 A-AAA-ATTATAA
60642813 AAAAATTTATAA
1 AAAAA-TTATAA
60642825 AAA
1 AAA
60642828 TTTTTAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 4 0.10
12 20 0.51
13 7 0.18
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:60642812 original size:13 final size:12
Alignment explanation
Indices: 60642784--60642827 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
60642774 TATTAAAAAA
60642784 ATAATAAAAA-TT
1 ATAA-AAAAATTT
*
60642796 ATAAACAAATTTT
1 ATAAA-AAAATTT
60642809 ATAAAAAAATTT
1 ATAAAAAAATTT
60642821 ATAAAAA
1 ATAAAAA
60642828 TTTTTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 20 0.71
13 7 0.25
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAAAAATTT
Found at i:60642822 original size:25 final size:24
Alignment explanation
Indices: 60642784--60642833 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
60642774 TATTAAAAAA
60642784 ATAATAAAAATTATAAACAAATTTT
1 ATAATAAAAATTATAAA-AAATTTT
*
60642809 ATAA-AAAAATTTATAAAAATTTTT
1 ATAATAAAAA-TTATAAAAAATTTT
60642833 A
1 A
60642834 ATTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATAAAAATTATAAAAAATTTT
Found at i:60642833 original size:12 final size:12
Alignment explanation
Indices: 60642794--60642833 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
60642784 ATAATAAAAA
60642794 TTATAAACAAATT
1 TTATAAA-AAATT
*
60642807 TTATAAAAAAAT
1 TTATAAAAAATT
*
60642819 TTATAAAAATTT
1 TTATAAAAAATT
60642831 TTA
1 TTA
60642834 ATTATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TTATAAAAAATT
Found at i:60647711 original size:25 final size:27
Alignment explanation
Indices: 60647674--60647726 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
60647664 TCAAACATGC
60647674 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
60647700 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
60647726 A
1 A
60647727 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:60649236 original size:26 final size:26
Alignment explanation
Indices: 60649200--60649283 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
60649190 CATGAAATTC
60649200 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
60649226 TTATCGTGAAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
*
60649252 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
60649278 TTATCA
1 TTATCA
60649284 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:60649784 original size:26 final size:26
Alignment explanation
Indices: 60649746--60649797 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
60649736 GGAGGAGTAG
*
60649746 AAGAGAATGAAAAATAA-AGAAAAAAA
1 AAGAAAATG-AAAATAACAGAAAAAAA
* *
60649772 AAGAAAATTAAAATAACATAAAAAAA
1 AAGAAAATGAAAATAACAGAAAAAAA
60649798 GAATTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.12
Consensus pattern (26 bp):
AAGAAAATGAAAATAACAGAAAAAAA
Found at i:60650797 original size:16 final size:16
Alignment explanation
Indices: 60650776--60650808 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60650766 CGCCCCTGTA
60650776 AGTTGAGATGCGGTTG
1 AGTTGAGATGCGGTTG
60650792 AGTTGAGATGCGGTTG
1 AGTTGAGATGCGGTTG
60650808 A
1 A
60650809 TGAGTGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.42, T:0.30
Consensus pattern (16 bp):
AGTTGAGATGCGGTTG
Found at i:60653243 original size:29 final size:30
Alignment explanation
Indices: 60653184--60653241 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60653174 TCCGAGCCTT
*
60653184 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
60653214 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
60653242 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:60653471 original size:13 final size:13
Alignment explanation
Indices: 60653453--60653484 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60653443 TTTCCAGCAA
60653453 TTATGAATTTATT
1 TTATGAATTTATT
60653466 TTATGAATTTATT
1 TTATGAATTTATT
*
60653479 TGATGA
1 TTATGA
60653485 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:60653692 original size:50 final size:50
Alignment explanation
Indices: 60653579--60653819 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
60653569 ATTTGGGTAA
* * *
60653579 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
60653635 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
60653685 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
60653735 AGAGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
60653784 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
60653820 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.21
50 60 0.37
51 24 0.15
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:60653786 original size:99 final size:103
Alignment explanation
Indices: 60653579--60653827 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
60653569 ATTTGGGTAA
60653579 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
60653644 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
60653685 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT-C-GA-GATGAGAGGT-CCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
60653746 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGA-CACG
* *
60653784 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
60653828 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 41 0.31
100 47 0.35
101 2 0.02
105 1 0.01
106 41 0.31
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
Found at i:60660833 original size:29 final size:30
Alignment explanation
Indices: 60660774--60660831 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60660764 TCCGAGCCTT
*
60660774 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
60660804 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
60660832 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:60661061 original size:13 final size:13
Alignment explanation
Indices: 60661043--60661074 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60661033 TTTCCAGCAA
60661043 TTATGAATTTATT
1 TTATGAATTTATT
60661056 TTATGAATTTATT
1 TTATGAATTTATT
*
60661069 TGATGA
1 TTATGA
60661075 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:60661282 original size:50 final size:49
Alignment explanation
Indices: 60661169--60661360 Score: 240
Period size: 50 Copynumber: 3.7 Consensus size: 49
60661159 ATTTGGGTAA
*
60661169 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC---AGA-C--G
* *
60661225 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-AGACG
* *
60661275 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCA-GACG
*
60661325 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
60661361 TTTGGCATGT
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.01
50 49 0.39
51 31 0.25
52 1 0.01
53 3 0.02
55 2 0.02
56 39 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (49 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAGACG
Found at i:60661312 original size:26 final size:26
Alignment explanation
Indices: 60661283--60661360 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
60661273 CGAGAGGTCC
60661283 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
60661309 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
60661334 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
60661360 C
1 C
60661361 TTTGGCATGT
Statistics
Matches: 35, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
24 2 0.06
25 15 0.43
26 16 0.46
27 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (26 bp):
CATGTAAGACCATGTCTGGGACATGG
Done.