Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 35 of 344
Found at i:11876201 original size:17 final size:16
Alignment explanation
Indices: 11876164--11876207 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
11876154 TCGATCCAAT
11876164 AATTTTAATAAATTAA
1 AATTTTAATAAATTAA
*
11876180 AATTTTTATAAATTAA
1 AATTTTAATAAATTAA
11876196 AGA-TTTAATAAA
1 A-ATTTTAATAAA
11876208 AACTTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTTTAATAAATTAA
Found at i:11876948 original size:72 final size:72
Alignment explanation
Indices: 11876831--11876974 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
11876821 CAGATTCTAA
11876831 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
1 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
11876896 CATGCCT
66 CATGCCT
11876903 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
1 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
11876968 CATGCCT
66 CATGCCT
11876975 TTTGCCTTCT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (72 bp):
ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
CATGCCT
Found at i:11881921 original size:21 final size:21
Alignment explanation
Indices: 11881885--11881950 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
11881875 GTATTTTTTT
**
11881885 TTTTTTGAAAAATTTAAGGAA
1 TTTTTTGAAATTTTTAAGGAA
* * *
11881906 TTTTTTGCATTTTTTATGGAA
1 TTTTTTGAAATTTTTAAGGAA
* *
11881927 -ATTTTGAAATTTTAAAGGAA
1 TTTTTTGAAATTTTTAAGGAA
11881947 TTTT
1 TTTT
11881951 AAGTTTTTTC
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.52
Consensus pattern (21 bp):
TTTTTTGAAATTTTTAAGGAA
Found at i:11885009 original size:31 final size:31
Alignment explanation
Indices: 11884973--11885034 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11884963 TGTTTGAAGT
11884973 TTGAATATTAGTATTTTTGTGTAAGACCACC
1 TTGAATATTAGTATTTTTGTGTAAGACCACC
11885004 TTGAATATTAGTATTTTTGTGTAAGACCACC
1 TTGAATATTAGTATTTTTGTGTAAGACCACC
11885035 CTCAAAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (31 bp):
TTGAATATTAGTATTTTTGTGTAAGACCACC
Found at i:11888095 original size:23 final size:22
Alignment explanation
Indices: 11888069--11888122 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
11888059 TGTATACGCG
11888069 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
11888092 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
11888114 TAC-TAATAA
1 TACATAATAA
11888123 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:11888103 original size:3 final size:3
Alignment explanation
Indices: 11888072--11888142 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
11888062 ATACGCGTAC
* * * *
11888072 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
11888119 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11888143 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11888625 original size:13 final size:12
Alignment explanation
Indices: 11888607--11888644 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
11888597 AAGAAAAAAA
11888607 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
11888620 GAAGAGAGAAGG
1 GAAGAGAGAAGG
11888632 G-AGAGAGAAGG
1 GAAGAGAGAAGG
11888643 GA
1 GA
11888645 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:11889848 original size:45 final size:45
Alignment explanation
Indices: 11889788--11889986 Score: 116
Period size: 45 Copynumber: 4.4 Consensus size: 45
11889778 GATCTGTAAT
*
11889788 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
* * * * * * ** *
11889833 CTTCAATGTACTCCACTG--TAGTCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-TATCAG
* * * * * * ** * * *
11889878 CTTCTATTTGCTTCTCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-AG
* *
11889924 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
* *
11889969 CTTCAATGTACTCTACTG
1 CTTCAATCTACTCCACTG
11889987 TAGTCACAGG
Statistics
Matches: 108, Mismatches: 39, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
43 2 0.02
44 13 0.12
45 49 0.45
46 38 0.35
47 6 0.06
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
Found at i:11890351 original size:134 final size:134
Alignment explanation
Indices: 11889776--11891004 Score: 2138
Period size: 134 Copynumber: 9.1 Consensus size: 134
11889766 TTAGGGAGAT
* *
11889776 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
11889841 TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
11889906 GAAGGC
129 GAAGGC
11889912 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * * *
11889977 TACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAATACAGG
66 TACTCCACTGTAGTCA-AGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
11890042 AAGGC
130 AAGGC
* *
11890047 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTGTCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
11890112 TACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
11890177 GAAGGC
129 GAAGGC
* *
11890183 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAATTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
11890248 TACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
11890313 AGGC
131 AGGC
11890317 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGA-AGTAGAGTTATCGGCTTCAAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGA-TAGAGTTATCGGCTTCAAT
11890381 GTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
65 GTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
11890446 AAGGC
130 AAGGC
*
11890451 AAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
11890516 TACTCCACTGTAGTCAGGGAGGTAAAATCCGCCCATCTTCGACCTGCTTCGCTGCCAAATACAGG
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTG-CCATCTTCGATCTGCTTCGCTGCCAAATACAGG
11890581 AAGGC
130 AAGGC
11890586 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
11890651 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
11890716 AGGC
131 AGGC
*
11890720 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
11890785 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
11890850 GAAGGC
129 GAAGGC
11890856 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
11890921 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
11890986 AGGC
131 AGGC
11890990 AAGATCTGC-ATCTTC
1 AAGATCTGCAATCTTC
11891005 GATCCACTTC
Statistics
Matches: 1053, Mismatches: 34, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
133 7 0.01
134 448 0.43
135 259 0.25
136 339 0.32
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (134 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
AGGC
Found at i:11890810 original size:539 final size:538
Alignment explanation
Indices: 11889776--11891004 Score: 2178
Period size: 539 Copynumber: 2.3 Consensus size: 538
11889766 TTAGGGAGAT
* *
11889776 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* * *
11889841 TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGTCA-A-GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAG
11889906 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
129 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
*
11889971 TCAATGTACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
194 TCAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
*
11890036 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTGT
259 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
*
11890101 CAGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
324 CAGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
*
11890166 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAG
388 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
11890231 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
453 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
11890296 CGCTGCCAAATACAGGAAGGC
518 CGCTGCCAAATACAGGAAGGC
11890317 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGA-AGTAGAGTTATCGGCTTCAAT
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGA-TAGAGTTATCGGCTTCAAT
11890381 GTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
65 GTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
*
11890446 AAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTT
130 AAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTT
* *
11890511 CAATGTACTCCACTGTAGTCA-GGGAGGTAAAATCCGCCCATCTTCGACCTGCTTCGCTGCCAAA
195 CAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCG-CCATCTTCGACCTGCTTCGCTGCAAAA
11890575 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
259 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
* * *
11890640 CGGCTTCAATGTACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTG
324 CAGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTG
*
11890704 CCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
389 CCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
* * * *
11890769 GTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCT
454 ATTATCGGCTTCAATGTACTCCACTGTAGTCA-A-GGAGGTAAAATCCGCCATCTTCGACCTGCT
11890834 TCGCTGCCAAATACAGGAAGGC
517 TCGCTGCCAAATACAGGAAGGC
11890856 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
11890921 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
66 TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
11890986 AGGCAAGATCTGC-ATCTTC
131 AGGCAAGATCTGCAATCTTC
11891005 GATCCACTTC
Statistics
Matches: 661, Mismatches: 22, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
537 130 0.20
538 21 0.03
539 430 0.65
540 3 0.00
541 77 0.12
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (538 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGA
AGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
AATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAATA
CAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCA
GCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCC
AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
TATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGC
TGCCAAATACAGGAAGGC
Found at i:11890969 original size:673 final size:673
Alignment explanation
Indices: 11889776--11891004 Score: 2201
Period size: 673 Copynumber: 1.8 Consensus size: 673
11889766 TTAGGGAGAT
**
11889776 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
* * ** *
11889841 TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCTATTTGCTTCTCTGCCAAATACAG
66 TACTCCACTGTAGT-ACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAG
11889906 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
130 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
*
11889971 TCAATGTACTCTACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
195 TCAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
*
11890036 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTGT
260 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
11890101 CAGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
325 CAGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
*
11890166 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAG
390 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
11890231 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
455 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
11890296 CGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAA
520 CGCTGCCAAATACAGGAAGGCAAGATCTGC-ATCTTCAATCTATTCCACTGCCAAATACAGGGAA
11890361 GTAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCT
584 GTAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCT
11890426 GCTTCGCTGCCAAATACAGGAAGGC
649 GCTTCGCTGCCAAATACAGGAAGGC
*
11890451 AAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
11890516 TACTCCACTGTAGT-CAGGGAGGTAAAATCCGCCCATCTTCGACCTGCTTCGCTGCCAAATACAG
66 TACTCCACTGTAGTACAGGGAGGTAAAATCCG-CCATCTTCGACCTGCTTCGCTGCCAAATACAG
11890580 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
130 GAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
* * * *
11890645 TCAATGTACTCCACTGTAGTCA-GGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
195 TCAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAA
*
11890709 TACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
260 TACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT
* * * *
11890774 CGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTTCGCT
325 CAGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCT
11890839 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
390 GCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
* * * *
11890904 AGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT
455 AATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTT
11890969 CGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTC
520 CGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTC
11891005 GATCCACTTC
Statistics
Matches: 529, Mismatches: 24, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
672 6 0.01
673 333 0.63
674 114 0.22
675 76 0.14
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (673 bp):
AAGATCTACAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATG
TACTCCACTGTAGTACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCCAAATACAGG
AAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTT
CAATGTACTCCACTGTAGTCACAGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTGCAAAAT
ACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATC
AGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCCGCCATCTTCGACCTGCTTCGCTG
CCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
ATTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCCGCCATCTTCGACCTGCTTC
GCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCAATCTATTCCACTGCCAAATACAGGGAAGT
AGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAAGGAGGTAAAATCTGCCATCTTCGATCTGC
TTCGCTGCCAAATACAGGAAGGC
Found at i:11891066 original size:44 final size:44
Alignment explanation
Indices: 11890977--11891321 Score: 319
Period size: 44 Copynumber: 7.9 Consensus size: 44
11890967 TTCGCTGCCA
* * *
11890977 AATACAGGAAGGCAAGATCTGC-ATCTTCGATCCAC-TTCCTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTCC-ACC
* * * * *
11891020 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTTACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTCCACC
* * * * *
11891064 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT-TCCACC
* *
11891109 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCA-TTTCCTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTCC-ACC
* * * *
11891152 AATATAGGAAGATAGGATCAGCTATCTTCGATCTAC-TTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTC-CACC
* * *
11891196 AAT-TCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
1 AATAT-AGGAAGACAAGATCTGCTATCTTCGATCTACTT-TCCACC
* *
11891241 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCA-TTTCCTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTCC-ACC
* * * *
11891284 AATATAGGAAGATAGGATCAGCTATCTCCGATCTACTT
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
11891322 CTTGCCCCGG
Statistics
Matches: 239, Mismatches: 49, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
42 4 0.02
43 65 0.27
44 118 0.49
45 50 0.21
46 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTCCACC
Found at i:11891220 original size:132 final size:132
Alignment explanation
Indices: 11890955--11891607 Score: 831
Period size: 132 Copynumber: 5.0 Consensus size: 132
11890945 AAATCTGCCA
* ** ** *
11890955 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCGCCACC-AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACC
* *
11891020 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTG
65 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
11891085 CTT
130 CTT
* *
11891088 TCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
11891153 ATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATTCATGAAGACAAGATCTGC
66 ATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
11891218 TT
131 TT
*
11891220 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * ** ** * * *
11891285 ATATAGGAAGATAGGATCAGCTATCTCCGATCTACTTCTTGCC----CCGGGAGA-TAGA---AC
66 ATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
11891342 TA
131 TT
* * * *** * *
11891344 TCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACC
** * * *
11891408 AATATAGGAAGGCAGAATCTGC-ATCTTCGATCTACTTCACGCTAATACATGAAGATAAGATCTG
65 AATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
11891472 CTT
130 CTT
* *
11891475 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
** * * *
11891540 ATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 ATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
11891605 TT
131 TT
11891607 T
1 T
11891608 AATGACTTCA
Statistics
Matches: 446, Mismatches: 63, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
123 39 0.09
124 52 0.12
127 8 0.02
128 8 0.02
131 51 0.11
132 271 0.61
133 17 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TT
Found at i:11891428 original size:44 final size:43
Alignment explanation
Indices: 11891343--11891604 Score: 201
Period size: 44 Copynumber: 6.0 Consensus size: 43
11891333 AGATAGAACT
* * * *
11891343 ATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC
1 ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGC
* *
11891386 TTTCTTCGATCTACTTCCTACCAATATAGGAAGGC-AGAATCTGC
1 -ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAG-ATCTGC
* * *
11891430 ATCTTCGATCTACTT-C-ACGCTAATACATGAAGATAAGATCTGC
1 ATCTTCGATCTACTTCCTAC-C-AATATAGGAAGACAAGATCTGC
* * * *
11891473 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 -ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGC
* * ** * *
11891518 ATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTT
1 ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTG-C
* * * *
11891562 ATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC
1 ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGC
11891605 TTTAATGACT
Statistics
Matches: 170, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 52 0.31
44 92 0.54
45 18 0.11
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGC
Found at i:11891479 original size:255 final size:260
Alignment explanation
Indices: 11890955--11891550 Score: 758
Period size: 255 Copynumber: 2.3 Consensus size: 260
11890945 AAATCTGCCA
* ** ** *
11890955 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCATCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTCGCCACC-AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACC
* * * *
11891020 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTTACGCCAATACATGAAGACAAGATCTG
65 AATATAGGAAGATAGGATCAGCTACCTCCGATCTACTTTACGCC---ACAGGAAGACAAGAACTG
* ** *
11891085 CTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTA
127 CTTTCT-CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
* * *
11891150 CCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATTCATGAAGACAAGATC
191 CCAATATAGGAAGACAGAATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
11891215 TGCTT
256 TGCTT
*
11891220 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * * * * *
11891285 ATATAGGAAGATAGGATCAGCTATCTCCGATCTACTTCT-TGCC-CCGGGAGA-TAGAACT-ATC
66 ATATAGGAAGATAGGATCAGCTACCTCCGATCTACTT-TACGCCACAGGAAGACAAGAACTGCT-
* * * *
11891346 TT-T-GATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACC
129 TTCTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTACC
* * * *
11891408 AATATAGGAAGGCAGAATCTGC-ATCTTCGATCTACTTCACGCTAATACATGAAGATAAGATCTG
193 AATATAGGAAGACAGAATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
11891472 CTT
258 CTT
* *
11891475 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
11891540 ATATAGGAAGA
66 ATATAGGAAGA
11891551 CCGGACCTGT
Statistics
Matches: 293, Mismatches: 35, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
255 137 0.47
256 46 0.16
258 2 0.01
259 7 0.02
260 5 0.02
264 77 0.26
265 19 0.06
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (260 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGATAGGATCAGCTACCTCCGATCTACTTTACGCCACAGGAAGACAAGAACTGCTTT
CTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
ATAGGAAGACAGAATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:11892636 original size:16 final size:16
Alignment explanation
Indices: 11892615--11892661 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
11892605 TGGCCTCTCC
11892615 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTTCTTTT
*
11892631 TTTTTCTTTTTC--AT
1 TTTTTCTTTTTCTTTT
11892645 TTTTTCATTTTTCTTTT
1 TTTTTC-TTTTTCTTTT
11892662 CGTTTTTTTT
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:11892668 original size:7 final size:6
Alignment explanation
Indices: 11892614--11892661 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
11892604 TTGGCCTCTC
11892614 CTTTTT CTTTTT C-TTTT -TTTTT CTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C--TTTTT C-TTTTT CTTTT
11892662 CGTTTTTTTT
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:11892670 original size:21 final size:21
Alignment explanation
Indices: 11892631--11892669 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11892621 TTTTTCTTTT
11892631 TTTTTCTTTTTCATTTTTTCA
1 TTTTTCTTTTTCATTTTTTCA
*
11892652 TTTTTC-TTTTCGTTTTTT
1 TTTTTCTTTTTCATTTTTT
11892670 TTAGTGAAGT
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:11897075 original size:23 final size:22
Alignment explanation
Indices: 11897049--11897102 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
11897039 TGTATACGGG
11897049 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
11897072 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
11897094 TAC-TAATAA
1 TACATAATAA
11897103 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:11897083 original size:3 final size:3
Alignment explanation
Indices: 11897052--11897122 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
11897042 ATACGGGTAC
* * * *
11897052 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
11897099 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11897123 CAATGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11897737 original size:16 final size:16
Alignment explanation
Indices: 11897716--11897752 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11897706 AGGTAAAAAA
* *
11897716 TTTATTTTTTTTATTT
1 TTTATTTCTTGTATTT
11897732 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
11897748 TTTAT
1 TTTAT
11897753 ATATATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:11903233 original size:27 final size:27
Alignment explanation
Indices: 11903203--11903282 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
11903193 TAAGTAAAGT
11903203 CTTAATCGATTTCACCAATAAGATCAA
1 CTTAATCGATTTCACCAATAAGATCAA
* *
11903230 CTTAAT-TATTTTAACC-A-AAG-T---
1 CTTAATCGA-TTTCACCAATAAGATCAA
*
11903251 CTTAATCGATTTCACCAATAAAATCAA
1 CTTAATCGATTTCACCAATAAGATCAA
11903278 CTTAA
1 CTTAA
11903283 CAAAGTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 12 0.30
22 2 0.05
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 17 0.43
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (27 bp):
CTTAATCGATTTCACCAATAAGATCAA
Found at i:11903236 original size:48 final size:48
Alignment explanation
Indices: 11903183--11903282 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
11903173 CTGATCAATT
** *
11903183 TTAATTATTTTAAGTAAAGTCTTAATCGATTTCACCAATAAGATCAAC
1 TTAATTATTTTAACCAAAGTCTTAATCGATTTCACCAATAAAATCAAC
11903231 TTAATTATTTTAACCAAAGTCTTAATCGATTTCACCAATAAAATCAAC
1 TTAATTATTTTAACCAAAGTCTTAATCGATTTCACCAATAAAATCAAC
11903279 TTAA
1 TTAA
11903283 CAAAGTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (48 bp):
TTAATTATTTTAACCAAAGTCTTAATCGATTTCACCAATAAAATCAAC
Found at i:11903267 original size:21 final size:21
Alignment explanation
Indices: 11903198--11903268 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 21
11903188 TATTTTAAGT
11903198 AAAGTCTTAATCGATTTCACC
1 AAAGTCTTAATCGATTTCACC
* *
11903219 AATAAGATCAACTTAAT-TATTTTAACC
1 -A-AAG-T---CTTAATCGA-TTTCACC
11903246 AAAGTCTTAATCGATTTCACC
1 AAAGTCTTAATCGATTTCACC
11903267 AA
1 AA
11903269 TAAAATCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
21 14 0.37
22 2 0.05
23 3 0.08
24 2 0.05
25 3 0.08
26 2 0.05
27 12 0.32
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAGTCTTAATCGATTTCACC
Found at i:11906864 original size:10 final size:10
Alignment explanation
Indices: 11906849--11906895 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
11906839 ATCAATTCTT
11906849 AATAAATATA
1 AATAAATATA
* *
11906859 AATAAATTTT
1 AATAAATATA
*
11906869 AATCAA-ATA
1 AATAAATATA
*
11906878 AATAAATAAA
1 AATAAATATA
11906888 AATAAATA
1 AATAAATA
11906896 AATTGAGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAATATA
Found at i:11906880 original size:19 final size:21
Alignment explanation
Indices: 11906842--11906884 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
11906832 ACACACGATC
11906842 AATTCTTAATAAATATAAATA
1 AATTCTTAATAAATATAAATA
*
11906863 AATT-TTAATCAA-ATAAATA
1 AATTCTTAATAAATATAAATA
11906882 AAT
1 AAT
11906885 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTCTTAATAAATATAAATA
Found at i:11911226 original size:11 final size:11
Alignment explanation
Indices: 11911210--11911234 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11911200 TATAATTAGG
11911210 TTAGTTGTAGA
1 TTAGTTGTAGA
11911221 TTAGTTGTAGA
1 TTAGTTGTAGA
11911232 TTA
1 TTA
11911235 TGACTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (11 bp):
TTAGTTGTAGA
Found at i:11914680 original size:14 final size:15
Alignment explanation
Indices: 11914655--11914685 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11914645 TATACCATGG
11914655 TTTAACTTAATTAAC
1 TTTAACTTAATTAAC
11914670 TTTAA-TTAATTAAC
1 TTTAACTTAATTAAC
11914684 TT
1 TT
11914686 AATCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAACTTAATTAAC
Found at i:11914710 original size:21 final size:20
Alignment explanation
Indices: 11914656--11914697 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11914646 ATACCATGGT
11914656 TTAACTTAA-TTAA-CTTTAA
1 TTAA-TTAACTTAATCTTTAA
11914675 TTAATTAACTTAATCTTTAA
1 TTAATTAACTTAATCTTTAA
11914695 TTA
1 TTA
11914698 TTTTACCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAACTTAATCTTTAA
Found at i:11920128 original size:15 final size:14
Alignment explanation
Indices: 11920108--11920142 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
11920098 ACTAATTAAT
11920108 TGAAGTACTTTTCAA
1 TGAAGTA-TTTTCAA
11920123 TGAAGT-TTTTCAA
1 TGAAGTATTTTCAA
11920136 TGAAGTA
1 TGAAGTA
11920143 AGAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.68
15 6 0.32
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (14 bp):
TGAAGTATTTTCAA
Found at i:11920290 original size:13 final size:13
Alignment explanation
Indices: 11920272--11920297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11920262 TTTAAAGTCC
11920272 TTTTCAATGAAGT
1 TTTTCAATGAAGT
11920285 TTTTCAATGAAGT
1 TTTTCAATGAAGT
11920298 AAGAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTTCAATGAAGT
Found at i:11920399 original size:156 final size:156
Alignment explanation
Indices: 11920110--11920425 Score: 623
Period size: 156 Copynumber: 2.0 Consensus size: 156
11920100 TAATTAATTG
11920110 AAGTACTTTTCAATGAAGTTTTTCAATGAAGTAAGAATTAAAAATTTGGAGACCAATTAATACAA
1 AAGTACTTTTCAATGAAGTTTTTCAATGAAGTAAGAATTAAAAATTTGGAGACCAATTAATACAA
11920175 GGGTTTTCGTTTCAACACAAAGGTATAAGGGTTTTTGTGGCAATTCAAACCGTGAAAGGTGTGGA
66 GGGTTTTCGTTTCAACACAAAGGTATAAGGGTTTTTGTGGCAATTCAAACCGTGAAAGGTGTGGA
11920240 AAGTCTCTAAAAAATTGTGGTTTTTA
131 AAGTCTCTAAAAAATTGTGGTTTTTA
*
11920266 AAGTCCTTTTCAATGAAGTTTTTCAATGAAGTAAGAATTAAAAATTTGGAGACCAATTAATACAA
1 AAGTACTTTTCAATGAAGTTTTTCAATGAAGTAAGAATTAAAAATTTGGAGACCAATTAATACAA
11920331 GGGTTTTCGTTTCAACACAAAGGTATAAGGGTTTTTGTGGCAATTCAAACCGTGAAAGGTGTGGA
66 GGGTTTTCGTTTCAACACAAAGGTATAAGGGTTTTTGTGGCAATTCAAACCGTGAAAGGTGTGGA
11920396 AAGTCTCTAAAAAATTGTGGTTTTTA
131 AAGTCTCTAAAAAATTGTGGTTTTTA
11920422 AAGT
1 AAGT
11920426 TTTGGGCTTG
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 159 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (156 bp):
AAGTACTTTTCAATGAAGTTTTTCAATGAAGTAAGAATTAAAAATTTGGAGACCAATTAATACAA
GGGTTTTCGTTTCAACACAAAGGTATAAGGGTTTTTGTGGCAATTCAAACCGTGAAAGGTGTGGA
AAGTCTCTAAAAAATTGTGGTTTTTA
Found at i:11926242 original size:69 final size:69
Alignment explanation
Indices: 11926160--11926290 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
11926150 TTGTCAATAT
* * * * *
11926160 TCAGGCTCAATTACACAATTAGAAATAAATCTTCAATCGAGTTCAATATCAATATCGAGCTTGAG
1 TCAGGCTCAATTACACAATTAAAAATAAATCTTCAATCGAGGTCAAGACCAATATCAAGCTTGAG
11926225 TTTG
66 TTTG
* * ** **
11926229 TCAGGCTCGATTACGCGTTTAAAAATCGATCTTCAATCGAGGTCAAGACCAATATCAAGCTT
1 TCAGGCTCAATTACACAATTAAAAATAAATCTTCAATCGAGGTCAAGACCAATATCAAGCTT
11926291 TGCTCAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (69 bp):
TCAGGCTCAATTACACAATTAAAAATAAATCTTCAATCGAGGTCAAGACCAATATCAAGCTTGAG
TTTG
Found at i:11929845 original size:13 final size:13
Alignment explanation
Indices: 11929827--11929853 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11929817 ATAATCAATC
11929827 TCAGAACATATTA
1 TCAGAACATATTA
11929840 TCAGAACATATTA
1 TCAGAACATATTA
11929853 T
1 T
11929854 AGTAATATAA
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:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
TCAGAACATATTA
Found at i:11932362 original size:68 final size:68
Alignment explanation
Indices: 11932274--11932524 Score: 342
Period size: 68 Copynumber: 3.7 Consensus size: 68
11932264 CATCCTTGCA
* * * * *
11932274 GACTATATTGGTTGCTATAGCTGAGCTATGGTCTTACACCTTATAACCCCATGTTTAATGTCTTG
1 GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACATTATAACCCTATGTTTAATGTCTTG
11932339 GCG
66 GCG
*
11932342 GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACCTTATAACCCTATGTTTAATGTCTTG
1 GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACATTATAACCCTATGTTTAATGTCTTG
11932407 GCG
66 GCG
* * * * * * *
11932410 GACTCTATTGGTTGCCATAGTCGAGCTATGATCTTACACATTGTAACCCTATATTTATTATCCTG
1 GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACATTATAACCCTATGTTTAATGTCTTG
*
11932475 GCA
66 GCG
* * *
11932478 GATTCTATTGGTTGTCATAGCCGAGCTATAGTCTTACACATTA-AACC
1 GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACATTATAACC
11932525 TCTTTTAAGA
Statistics
Matches: 164, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 4 0.02
68 160 0.98
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (68 bp):
GACTCTATTGGTTGCCATAGCCGAGCTATGGTCTTACACATTATAACCCTATGTTTAATGTCTTG
GCG
Found at i:11934604 original size:47 final size:46
Alignment explanation
Indices: 11934543--11934672 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 46
11934533 GTGCGAATAA
* *
11934543 TACCTTGATTTGGCTACGGGCAATGGTATAGGTATTCAAAAAGGAGT
1 TACCTTGATTTGGCTACGGGC-ATGGTATAGGTACTCAAAAAGAAGT
* * * **** *
11934590 TACTTTGATTTGGCTATGGACCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGG-GCATGGTATAGGTACTCAAAAAGAAGT
11934637 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGG-CATGGTATAGGTACT
11934673 TATCAATTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 67 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCATGGTATAGGTACTCAAAAAGAAGT
Found at i:11937753 original size:13 final size:12
Alignment explanation
Indices: 11937725--11937750 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11937715 AAAATATATA
11937725 TTATTTAATTTT
1 TTATTTAATTTT
11937737 TTATTTAATTTT
1 TTATTTAATTTT
11937749 TT
1 TT
11937751 TATCTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTAATTTT
Found at i:11937953 original size:17 final size:18
Alignment explanation
Indices: 11937931--11937964 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11937921 AAAATATGTT
*
11937931 TTAAAAATTA-AAAATTA
1 TTAAAAAGTATAAAATTA
11937948 TTAAAAAGTATAAAATT
1 TTAAAAAGTATAAAATT
11937965 TATAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
TTAAAAAGTATAAAATTA
Found at i:11937954 original size:39 final size:38
Alignment explanation
Indices: 11937890--11937963 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
11937880 TTAATTAATT
* *
11937890 TTTTAAAATTTAAAAACTTCAAAAAATTATGAAAATATG
1 TTTTAAAAATTAAAAACTTCAAAAAAGTAT-AAAATATG
11937929 TTTTAAAAATTAAAAA-TT-ATTAAAAAGTATAAAAT
1 TTTTAAAAATTAAAAACTTCA--AAAAAGTATAAAAT
11937964 TTATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 1 0.03
38 7 0.23
39 23 0.74
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (38 bp):
TTTTAAAAATTAAAAACTTCAAAAAAGTATAAAATATG
Found at i:11945204 original size:131 final size:131
Alignment explanation
Indices: 11945016--11945274 Score: 367
Period size: 131 Copynumber: 2.0 Consensus size: 131
11945006 TTTAGAGAAC
* ** * *
11945016 ATGAGTGAAATTCTAAAAGGGTATTTGATCATTTTGAACAAACAGAAAATCGCAACCCAGCACGA
1 ATGAGTGAAATTCCAAAAGAATATTCGATCATTTTGAACAAACAGAAAATCGCAACCCAGCACAA
* *
11945081 CAGGACACGATTCCCTGAATTGCCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTAAAGA
66 CAGGACACGATTCCCTGAATTGCCAAACACCGAACATTACCTTCATTTTAAAGAATTTTTAAAGA
11945146 T
131 T
* * * *
11945147 ATGAGTGAAATTCCAAAAGAATATTCGATTATTTTGAACAAGCA-AGAAATTGCAACCCAGTACA
1 ATGAGTGAAATTCCAAAAGAATATTCGATCATTTTGAACAAACAGA-AAATCGCAACCCAGCACA
* * * *
11945211 ATAGGGCACGATTTCCTGAATTGCCAAACACCGAACATTACCTTCGTTTTAAAGAATTTTTAAA
65 ACAGGACACGATTCCCTGAATTGCCAAACACCGAACATTACCTTCATTTTAAAGAATTTTTAAA
11945275 TGAATAGTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
130 1 0.01
131 111 0.99
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (131 bp):
ATGAGTGAAATTCCAAAAGAATATTCGATCATTTTGAACAAACAGAAAATCGCAACCCAGCACAA
CAGGACACGATTCCCTGAATTGCCAAACACCGAACATTACCTTCATTTTAAAGAATTTTTAAAGA
T
Found at i:11949214 original size:22 final size:22
Alignment explanation
Indices: 11949168--11949217 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11949158 AAGTTCATAG
*
11949168 ACCAAAATCGTTGTTTTAATAA
1 ACCAAAATCGTTGTTTTAAAAA
11949190 ACCAAAAT-GTT-TTATTAAAATA
1 ACCAAAATCGTTGTT-TTAAAA-A
11949212 ACCAAA
1 ACCAAA
11949218 TCCTTAGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 15 0.60
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (22 bp):
ACCAAAATCGTTGTTTTAAAAA
Found at i:11949465 original size:20 final size:20
Alignment explanation
Indices: 11949440--11949481 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11949430 TAATACGATT
*
11949440 AATACAA-ATAAATAAACATG
1 AATACAATAAAAAT-AACATG
11949460 AATACAATAAAAATAACATG
1 AATACAATAAAAATAACATG
11949480 AA
1 AA
11949482 ATGAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.19
Consensus pattern (20 bp):
AATACAATAAAAATAACATG
Found at i:11951994 original size:40 final size:40
Alignment explanation
Indices: 11951920--11952130 Score: 266
Period size: 40 Copynumber: 5.3 Consensus size: 40
11951910 TCTTCGGAAT
** * *
11951920 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
11951958 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
11951998 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
11952038 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
11952078 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
11952118 TTAGCCCGGATAT
1 TTAGCCCGGATAT
11952131 CATTCGAATA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 127 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:11954325 original size:11 final size:10
Alignment explanation
Indices: 11954282--11954333 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
11954272 TTTTTAAAAT
11954282 AATTATTAA-
1 AATTATTAAG
11954291 AATTATTAA-
1 AATTATTAAG
* *
11954300 AA-TATAAAA
1 AATTATTAAG
11954309 AATTATTTAAG
1 AATTA-TTAAG
11954320 AATTATTAAG
1 AATTATTAAG
11954330 AATT
1 AATT
11954334 GCTAAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 5 0.14
9 13 0.35
10 11 0.30
11 8 0.22
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (10 bp):
AATTATTAAG
Found at i:11954330 original size:10 final size:9
Alignment explanation
Indices: 11954282--11954372 Score: 53
Period size: 9 Copynumber: 9.9 Consensus size: 9
11954272 TTTTTAAAAT
11954282 AATTATTAA
1 AATTATTAA
11954291 AATTATTAA
1 AATTATTAA
*
11954300 AA-TATAAAA
1 AATTAT-TAA
11954309 AATTATTTAA
1 AATTA-TTAA
11954319 GAATTATTAA
1 -AATTATTAA
* *
11954329 GAATTGCTAAA
1 -AATT-ATTAA
*
11954340 AATTA-TAG
1 AATTATTAA
* *
11954348 AATAATAAA
1 AATTATTAA
*
11954357 AATTAATAA
1 AATTATTAA
11954366 AA-TATTA
1 AATTATTA
11954373 GTGTCGAAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
8 12 0.19
9 24 0.39
10 17 0.27
11 9 0.15
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
AATTATTAA
Found at i:11954369 original size:18 final size:17
Alignment explanation
Indices: 11954336--11954369 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11954326 TAAGAATTGC
*
11954336 TAAAAATTATAGAATAA
1 TAAAAATTATAAAATAA
11954353 TAAAAATTAATAAAATA
1 TAAAAATT-ATAAAATA
11954370 TTAGTGTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAATTATAAAATAA
Found at i:11955688 original size:31 final size:31
Alignment explanation
Indices: 11955617--11955696 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
11955607 TAATTTTATC
*
11955617 ATAAATTATA--TATGC-AATAGATTTTTAA
1 ATAAATTATATGTATACAAATAGATTTTTAA
* *
11955645 A-ACATAATTATGTATACAAATAGATTTTTAA
1 ATAAATTA-TATGTATACAAATAGATTTTTAA
11955676 ATAAATTATATGTATA-AAATA
1 ATAAATTATATGTATACAAATA
11955697 ACATAAGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.10
28 3 0.07
30 9 0.21
31 22 0.52
32 4 0.10
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (31 bp):
ATAAATTATATGTATACAAATAGATTTTTAA
Found at i:11958065 original size:24 final size:24
Alignment explanation
Indices: 11958006--11958065 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 24
11957996 AAACAAAAAA
*
11958006 AGAAACAAAGCAAGACAACAGAGC
1 AGAAACAAAGCAAGAAAACAGAGC
* *
11958030 --AAA-AAGGC--GAAAATAGAGC
1 AGAAACAAAGCAAGAAAACAGAGC
11958049 AGAAACAAAGCAAGAAA
1 AGAAACAAAGCAAGAAA
11958066 CAGCAAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
19 9 0.33
21 7 0.26
22 7 0.26
24 4 0.15
ACGTcount: A:0.62, C:0.15, G:0.22, T:0.02
Consensus pattern (24 bp):
AGAAACAAAGCAAGAAAACAGAGC
Found at i:11959094 original size:13 final size:13
Alignment explanation
Indices: 11959076--11959100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11959066 ATTAATTTAA
11959076 TATTTATCATTTT
1 TATTTATCATTTT
11959089 TATTTATCATTT
1 TATTTATCATTT
11959101 ACTTTGATTT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTATCATTTT
Found at i:11959116 original size:25 final size:24
Alignment explanation
Indices: 11959076--11959137 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
11959066 ATTAATTTAA
*
11959076 TATTTATCATTTTTATTTA-TCATT
1 TATTTAT-TTTTTTATTTATTCATT
11959100 TACTTTGATTTTTTTATTTATTCATT
1 TA-TTT-ATTTTTTTATTTATTCATT
11959126 TATTTATTTTTT
1 TATTTATTTTTT
11959138 CCTTCTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 9 0.26
25 16 0.47
26 9 0.26
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTATTTTTTTATTTATTCATT
Found at i:11959129 original size:12 final size:12
Alignment explanation
Indices: 11959087--11959133 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11959077 ATTTATCATT
11959087 TTTATTTA-TCA
1 TTTATTTATTCA
**
11959098 TTTACTTTGATTTT
1 TTTA-TTT-ATTCA
11959112 TTTATTTATTCA
1 TTTATTTATTCA
11959124 TTTATTTATT
1 TTTATTTATT
11959134 TTTTCCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.14
12 16 0.55
13 4 0.14
14 5 0.17
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:11961854 original size:17 final size:16
Alignment explanation
Indices: 11961804--11961854 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
11961794 TAATTATCAT
11961804 TTATTAAATAAATATGA
1 TTATTAAATAAA-ATGA
*
11961821 TT-TTAATTAAAAT-A
1 TTATTAAATAAAATGA
11961835 TTATTATAATAAAATGA
1 TTATTA-AATAAAATGA
11961852 TTA
1 TTA
11961855 AATTTCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 15 0.52
17 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TTATTAAATAAAATGA
Found at i:11964609 original size:29 final size:30
Alignment explanation
Indices: 11964562--11964629 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
11964552 TGGCCCAAGA
* *
11964562 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
11964592 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
11964622 GCAAATAT
1 GTAAATAT
11964630 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:11967085 original size:46 final size:46
Alignment explanation
Indices: 11967028--11967255 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
11967018 GGTGTGCTCT
* *
11967028 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11967074 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11967120 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11967166 CTGATATGAAATGTGTAAGACTATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
11967212 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11967256 TCATGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11971115 original size:128 final size:129
Alignment explanation
Indices: 11970879--11971115 Score: 386
Period size: 128 Copynumber: 1.8 Consensus size: 129
11970869 TGAAGATTCA
* * *
11970879 CTAAAACAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTC
1 CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
* *
11970944 GATTTCCCGCTTGTTCAAAATAACCGAATATTCCTTTAGAATTTTATTTGTGTTTTTTCAAAAG
66 GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTTTATTTGTGTTTTTTCAAAAG
11971008 CTAAAAC-AAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
1 CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
* ** *
11971072 GATTTCCCGTTTGTTCAAAATAATTAAATATTCCTTCGGAATTT
66 GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTT
11971116 CACCCGTGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 92 0.93
129 7 0.07
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (129 bp):
CTAAAACAAAGGCAATATTCAATGTTTGGAAATTCGGGGAATAGTGCCCTATCATGCTGGATTTC
GATTTCCCGCTTGTTCAAAATAACCAAATATTCCTTCAGAATTTTATTTGTGTTTTTTCAAAAG
Found at i:11973652 original size:43 final size:43
Alignment explanation
Indices: 11973568--11973714 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
11973558 CAATCTGACA
* * * *
11973568 CTGTAGTGCATCATCGGATAAATCAAAGGAAATTTATTGGCAC
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
* * *
11973611 CTGTAGTGCATCATTGGATAAGTCGAAGGAAACATACTGGCATA
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCA-C
* * * * * *
11973655 C-ATAGAGCATCATCGAATAAGTCGAAGCAATTGTACTGGCAC
1 CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
* * *
11973697 AT-AAGTGCATCATTGGAT
1 CTGTAGTGCATCATCGGAT
11973715 GAACCGAATC
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
42 12 0.15
43 68 0.84
44 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (43 bp):
CTGTAGTGCATCATCGGATAAGTCGAAGGAAATATACTGGCAC
Found at i:11974960 original size:39 final size:39
Alignment explanation
Indices: 11974897--11974976 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
11974887 ATGGCCACAA
* *
11974897 CTCTATATATAATAACAATTTTCTTAGTCATTCATTGTC
1 CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
*
11974936 CTCTAGATATAATATCAATCTTCTTAGTCATTCATTGTC
1 CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
11974975 CT
1 CT
11974977 TGTTTATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (39 bp):
CTCTAGATATAATAACAATCTTCTTAGTCATTCATTGTC
Found at i:11975839 original size:8 final size:8
Alignment explanation
Indices: 11975828--11975863 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
11975818 GTTAAATTAA
11975828 ATTAATCG
1 ATTAATCG
11975836 ATTAATCG
1 ATTAATCG
11975844 ATTAATCG
1 ATTAATCG
11975852 ATTAAT-G
1 ATTAATCG
11975859 ATTAA
1 ATTAA
11975864 AATTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (8 bp):
ATTAATCG
Found at i:11975967 original size:13 final size:13
Alignment explanation
Indices: 11975949--11975973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11975939 ATTAATCGGT
11975949 TGATAAATAATAA
1 TGATAAATAATAA
11975962 TGATAAATAATA
1 TGATAAATAATA
11975974 TATAAGCCGA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
TGATAAATAATAA
Found at i:11979461 original size:3 final size:3
Alignment explanation
Indices: 11979453--11979477 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11979443 CCAACTCTTA
11979453 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
11979478 AATTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:11980026 original size:22 final size:20
Alignment explanation
Indices: 11979989--11980032 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
11979979 AAAATAAAAG
*
11979989 AATAAAAAATTCAAATTTTT
1 AATAAAAAATTCAAATCTTT
*
11980009 AATAAAAAATATATAAATCTTT
1 AATAAAAAAT-T-CAAATCTTT
11980031 AA
1 AA
11980033 GCAAACTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAAAAATTCAAATCTTT
Found at i:12005985 original size:17 final size:19
Alignment explanation
Indices: 12005883--12005977 Score: 146
Period size: 17 Copynumber: 5.3 Consensus size: 19
12005873 CAAAATCATA
12005883 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
12005900 ATGATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12005919 ATCATATCTAAGATTGCA-
1 ATCATATCTAAGATTGCAT
12005937 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
12005954 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12005973 ATCAT
1 ATCAT
12005978 TAAAGATTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
17 31 0.44
18 16 0.23
19 24 0.34
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12005997 original size:54 final size:54
Alignment explanation
Indices: 12005882--12005986 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
12005872 ACAAAATCAT
* * *
12005882 AATCATATCTAAGATTGTATGATATCTAAGATTGCATATCATATCTAAGATTGC
1 AATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCAAAGATTAC
12005936 AATCATATCTAAGATTGTATCATATCTAAGATTGCATATCAT-T-AAAGATTA
1 AATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCAAAGATTA
12005987 TATTTCCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 6 0.12
53 1 0.02
54 41 0.85
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.37
Consensus pattern (54 bp):
AATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCAAAGATTAC
Found at i:12006359 original size:45 final size:45
Alignment explanation
Indices: 12006289--12006488 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
12006279 GGAAGGCGAT
* * *
12006289 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGACAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
12006334 ATCTATTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * ** * *
12006379 ATCTGCT-TCTTCAATCTGCTTTCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
12006423 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
12006468 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
12006489 TCGATGTAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 38 0.29
45 94 0.71
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:12006454 original size:89 final size:90
Alignment explanation
Indices: 12006289--12006472 Score: 262
Period size: 89 Copynumber: 2.1 Consensus size: 90
12006279 GGAAGGCGAT
** * *
12006289 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGACAAATCTATTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGACAAATCTATTATCTCCGATCTGC
12006354 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
** * * * *
12006379 ATCTGCT-TCTTCAATCTGCTTTCCGTCTAATACAAAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGACAAATCTATTATCTCCGATCTGC
*
12006443 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
12006468 ATCTG
1 ATCTG
12006473 TCATCTTGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 76 0.92
90 7 0.08
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGACAAATCTATTATCTCCGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:12006631 original size:78 final size:78
Alignment explanation
Indices: 12006502--12006883 Score: 516
Period size: 78 Copynumber: 4.8 Consensus size: 78
12006492 ATGTAAACAC
* * *
12006502 ATGAAGGTTAGATCTGCTATGTCTTTGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
12006567 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
12006580 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
12006644 TTGGATCTGCTTCAATGTAAACA
65 TTGGATCTG---C--T-T---CA
*
12006667 CATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 -ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
12006732 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
12006746 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
12006810 TTGGATCTGCCTCA
65 TTGGATCTGCTTCA
* ** * *
12006824 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
12006884 ATGTTTCTTC
Statistics
Matches: 273, Mismatches: 17, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
77 2 0.01
78 189 0.69
79 5 0.02
81 1 0.00
82 1 0.00
83 2 0.01
84 1 0.00
85 1 0.00
87 4 0.01
88 67 0.25
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:12006721 original size:166 final size:165
Alignment explanation
Indices: 12006422--12006883 Score: 671
Period size: 166 Copynumber: 2.8 Consensus size: 165
12006412 AAAGATGCCA
* *
12006422 AATCTGTTA--TCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATC
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATC
* *
12006485 TGCTTCGATGTAAACACATGAAGGTTAGATCTGCTATGTCTTTGATCTGCTTCCC-GTCTAATAC
62 TGCTTC-ATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGC-TCCCTGTCTAATAC
12006549 AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC
125 AGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC
*
12006590 AATCTGTTATGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
12006655 TCAATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGA
66 TC-ATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGA
12006720 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC
130 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC
*
12006756 AATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC-
1 AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
* * * *
12006820 -C---T---CA-ATGAAGGTCAGATCTGCTATGTCTTCGATCTACT-CTTCGTCGAATATAGAGA
66 TCATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCT-GTCTAATACAGAGA
12006876 TGCCAAAT
130 TGCCAAAT
12006884 ATGTTTCTTC
Statistics
Matches: 278, Mismatches: 12, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
155 2 0.01
156 53 0.19
157 2 0.01
160 1 0.00
164 1 0.00
165 4 0.01
166 171 0.62
168 9 0.03
170 35 0.13
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (165 bp):
AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGAT
GCCAAATCATCTTGGATCTGCTTCAATGAAGGTCC
Found at i:12007108 original size:376 final size:374
Alignment explanation
Indices: 12006630--12007365 Score: 1222
Period size: 376 Copynumber: 2.0 Consensus size: 374
12006620 CTAATACAGA
* *
12006630 GATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCG
1 GATGCCAAATCATATTGGATCTACTTCAATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCG
* *
12006695 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
66 ATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
12006760 TGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCCTCAA
131 TGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCCTCAA
*
12006825 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAATATGTTT
196 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAATATGTTC
* **
12006890 CTTCGATTTGTTCTCTAACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
261 CTTCGATTTGTTCTCTAACAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAACAC
***
12006955 GTGAAATCCAAATCTGCTATGTCTTCGATCTGCTCATTGTCAACGTAAG
326 GTGAAAGAAAAATCTGCTATGTCTTCGATCTGCTCATTGTCAACGTAAG
* * *
12007004 GATGCCAAATCATATTGGATCTACTTCGATGTGAAA-ACATCCTAAGGTTAGATCTGCTATGTCT
1 GATGCCAAATCATATTGGATCTACTTCAATGT-AAACACAT--GAAGGTCAGATCTGCTATGTCT
*
12007068 TCGATCTGCTCCCCGTTTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA
63 TCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA
* * *
12007133 ATCTGTTATGTCTTCGATCTACTCCCCGTTTAATACAGAGATGCCAAATCATCTTGGATTTGCTT
128 ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCCT
* * *
12007198 CAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAATCTG
193 CAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAATATG
* * *
12007263 TTCCTTCGATTTGTTCTCTGACAGTACAGATATGTCAAATCATCGTAGATCTGCAACAGCGTAAA
258 TTCCTTCGATTTGTTCTCTAACAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAA
12007328 CACGTGAAAGAAAAATCTGCTATGTCTTCGATCTGCTC
323 CACGTGAAAGAAAAATCTGCTATGTCTTCGATCTGCTC
12007366 TCCGTCGAAT
Statistics
Matches: 335, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
374 33 0.10
375 3 0.01
376 299 0.89
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (374 bp):
GATGCCAAATCATATTGGATCTACTTCAATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCG
ATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATC
TGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCCTCAA
TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAATATGTTC
CTTCGATTTGTTCTCTAACAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAACAC
GTGAAAGAAAAATCTGCTATGTCTTCGATCTGCTCATTGTCAACGTAAG
Found at i:12007149 original size:298 final size:287
Alignment explanation
Indices: 12006624--12007181 Score: 721
Period size: 298 Copynumber: 1.9 Consensus size: 287
12006614 CCCCGTCTAA
* * * *
12006624 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAACACATGAAGGTCAGATCTGCTATG
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAACACATGAAGATCAAATCTGCTATG
* * * **
12006689 TCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
66 TCTTCGATCTGCTCACTGTCTAATACAGAGATGCCAAATCATATTGGATCTACTTCAATGAACAT
* *
12006754 CCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
131 CCAATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTG
** *
12006819 CCTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTTCGTCGAATATAGAGATGCCAAAT
196 CCTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCGAATACAGAGATGCCAAAT
12006884 ATGTTTCTTCGATTTGTTCTCTAACAG
261 ATGTTTCTTCGATTTGTTCTCTAACAG
* *
12006911 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAA-ATCCAAATCTGCTAT
1 TACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAACACATGAAGAT-CAAATCTGCTAT
* *
12006975 GTCTTCGATCTGCTCATTGTC-AACGTA-AG-GATGCCAAATCATATTGGATCTACTTCGATGTG
65 GTCTTCGATCTGCTCACTGTCTAA--TACAGAGATGCCAAATCATATTGGATCTACTTC-A-ATG
* *
12007037 AAAACATCCTAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAAAGATGCCAA
126 --AACATCC-------A-ATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAA
* * **
12007102 ATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTTTAA
181 ATCATCTTGGATCTGCCTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCGAA
12007166 TACAGAGATGCCAAAT
245 TACAGAGATGCCAAAT
12007182 CATCTTGGAT
Statistics
Matches: 231, Mismatches: 24, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
286 28 0.12
287 78 0.34
288 4 0.02
290 5 0.02
297 1 0.00
298 113 0.49
299 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (287 bp):
TACAGAGATGCCAAATCATCTTAGATCTGCTTCAACGTAAACACATGAAGATCAAATCTGCTATG
TCTTCGATCTGCTCACTGTCTAATACAGAGATGCCAAATCATATTGGATCTACTTCAATGAACAT
CCAATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTG
CCTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCGAATACAGAGATGCCAAAT
ATGTTTCTTCGATTTGTTCTCTAACAG
Found at i:12007260 original size:78 final size:78
Alignment explanation
Indices: 12007047--12007234 Score: 315
Period size: 78 Copynumber: 2.4 Consensus size: 78
12007037 AAAACATCCT
* *
12007047 AAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAAAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTGG
12007112 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* *
12007125 AAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTTTAATACAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTG
*
12007189 GATTTGCTTCAATG
65 GATCTGCTTCAATG
12007203 AAGGTCAGATCTGCTATGTCTTCGATCTGCTC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTC
12007235 TTCGTCGAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
77 2 0.02
78 98 0.97
79 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:12007445 original size:131 final size:131
Alignment explanation
Indices: 12007211--12007496 Score: 464
Period size: 131 Copynumber: 2.2 Consensus size: 131
12007201 TGAAGGTCAG
* * *
12007211 ATCTGCTATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAATCTGTTCCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTCATTCGATTTG
* * *
12007276 TTCTCTGACAGTACAGATATGTCAAATCATCGTAGATCTGCAACAGCGTAAACACGTGAAAGAAA
66 TTCTCTGAAAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAACACGTGAAAGAAA
12007341 A
131 A
*
12007342 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTATTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTCATTCGATTTG
* ** **
12007407 TTCTCTGAAAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCA
66 TTCTCTGAAAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAACACGTGAAAGAAA
12007472 A
131 A
12007473 ATCTGCTATGTCTTCGATCTGCTC
1 ATCTGCTATGTCTTCGATCTGCTC
12007497 CTTAACAACG
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 143 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (131 bp):
ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTCATTCGATTTG
TTCTCTGAAAGTACAGAGATGCCAAATCATCGTAGATCTGCAACAGCGTAAACACGTGAAAGAAA
A
Found at i:12013215 original size:5 final size:5
Alignment explanation
Indices: 12013207--12013232 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12013197 CTTTTCTTTG
12013207 ATGTA ATGTA ATGTA ATGTA ATGTA A
1 ATGTA ATGTA ATGTA ATGTA ATGTA A
12013233 ATGCATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
ATGTA
Found at i:12016054 original size:19 final size:19
Alignment explanation
Indices: 12016014--12016073 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
12016004 CAAAATCATA
12016014 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
12016031 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12016050 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
12016069 ATCAT
1 ATCAT
12016074 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.39
19 25 0.61
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:12016081 original size:17 final size:19
Alignment explanation
Indices: 12016014--12016081 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
12016004 CAAAATCATA
*
12016014 ATCATATCTAAGATTG--T
1 ATCATATCGAAGATTGCAT
*
12016031 ATCATATCTAAGATTGCAT
1 ATCATATCGAAGATTGCAT
*
12016050 ATCATATCTAAGATTGCAT
1 ATCATATCGAAGATTGCAT
12016069 ATCAT-T-GAAGATT
1 ATCATATCGAAGATT
12016082 ATATTTCCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
17 22 0.46
18 1 0.02
19 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (19 bp):
ATCATATCGAAGATTGCAT
Found at i:12016230 original size:21 final size:20
Alignment explanation
Indices: 12016192--12016231 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12016182 TTGGACTTCG
**
12016192 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
12016212 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
12016232 TCTGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:12016747 original size:38 final size:38
Alignment explanation
Indices: 12016675--12016747 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
12016665 AAAATACGAT
* * * *
12016675 TTTTAGGGACTGAATCATAAAATTTTGTAAATTTGTGA
1 TTTTAGAGACTAAATCATAAAATATTGCAAATTTGTGA
12016713 TTTTAGAGACTAAATCATAAAA-ATTGCAATATTTG
1 TTTTAGAGACTAAATCATAAAATATTGCAA-ATTTG
12016748 AATTCCACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 5 0.17
38 25 0.83
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (38 bp):
TTTTAGAGACTAAATCATAAAATATTGCAAATTTGTGA
Found at i:12017033 original size:32 final size:32
Alignment explanation
Indices: 12016996--12017060 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12016986 ATTTGTGATG
12016996 AATTAGTAAGAATGATTTTAAATTAAATTTTA
1 AATTAGTAAGAATGATTTTAAATTAAATTTTA
12017028 AATTAGTAAGAATGATTTTAAATTAAATTTTA
1 AATTAGTAAGAATGATTTTAAATTAAATTTTA
12017060 A
1 A
12017061 GGATATGAAA
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:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (32 bp):
AATTAGTAAGAATGATTTTAAATTAAATTTTA
Found at i:12022720 original size:25 final size:23
Alignment explanation
Indices: 12022645--12022761 Score: 78
Period size: 25 Copynumber: 4.9 Consensus size: 23
12022635 ATGTGATAAA
*
12022645 AATATAATA-AATAAATAATAAGT
1 AATATAATATAAAAAAT-ATAAGT
** *
12022668 AATGAT-ATATGTTAAAATATATATT
1 AAT-ATAATAT-AAAAAATATA-AGT
*
12022693 AATATGATAATAAAAAATATGAAGT
1 AATATAAT-ATAAAAAATAT-AAGT
*
12022718 AATATAATATAATAAGATATAAGT
1 AATATAATATAA-AAAATATAAGT
*
12022742 AA-ATAATTATAAAATATATA
1 AATATAA-TATAAAAAATATA
12022762 TAATATGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
23 17 0.23
24 22 0.29
25 33 0.44
26 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
AATATAATATAAAAAATATAAGT
Found at i:12024894 original size:206 final size:206
Alignment explanation
Indices: 12024397--12025300 Score: 1303
Period size: 206 Copynumber: 4.4 Consensus size: 206
12024387 GGTCAAATTT
* *
12024397 GCTACGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTG-TGTCAGT
1 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCT-TCAGT
* * * *
12024461 GA-AATCATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCGTCGAATATGGAGACGCCAAACT
65 -ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACT
* * *
12024525 TCGATTTTTTCTCTGACAATACAGAAATGTCAAATCATCTT--A---G----A-CGTAAGCACGT
129 TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAGCACGT
12024580 GAAAGCCAAATCA
194 GAAAGCCAAATCA
* ** *
12024593 ACTATGTCTTCGATTTGTTCCTTGTGAA-CACAAGAATATCAAATCATCTTGGATCTACTTCAGT
1 GCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGT
* *
12024657 ATAAACATTTAAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTT
65 ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTT
* *
12024722 CGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTG
130 CGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAGCACGTG
*
12024787 AAAGCCAAATTA
195 AAAGCCAAATCA
* * * * *
12024799 GCTATGTCTTTGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTCTTCAGTA
1 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
* ***
12024864 TAAACATCTGAAGGTGGGATCCATTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTTC
66 TAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTTC
* * *
12024929 AATTTGTTCTCTGACAATACAGAGATACCAAATTATCTTAGATTCGCTTCAGCGTAAGCACGTGA
131 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAGCACGTGA
12024994 AAGCCAAATCA
196 AAGCCAAATCA
* *
12025005 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGTCAAACCATCTTGGATCTGCTTCAGTA
1 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
* * * * *
12025070 TAATCATCTAAAGGTGAGATCTGCTATGTATCTGCTCTTCGTCGAATATGGAGATACCAGACTTC
66 TAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTTC
*
12025135 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAACACGTGA
131 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAGCACGTGA
12025200 AAGCCAAATCA
196 AAGCCAAATCA
* * *
12025211 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTA
1 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
**
12025276 TAAACATCTGAAGGCCAGATCTGCT
66 TAAACATCTGAAGGTGAGATCTGCT
12025301 GTGTTGCTGC
Statistics
Matches: 633, Mismatches: 61, Indels: 18
0.89 0.09 0.03
Matches are distributed among these distances:
195 1 0.00
196 149 0.24
197 3 0.00
198 1 0.00
201 1 0.00
205 3 0.00
206 475 0.75
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
TAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCGAATATGGAGATGCCAGACTTC
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTCGCTTCAGCGTAAGCACGTGA
AAGCCAAATCA
Found at i:12036998 original size:25 final size:23
Alignment explanation
Indices: 12036923--12037039 Score: 78
Period size: 25 Copynumber: 4.9 Consensus size: 23
12036913 ATGTGATAAA
*
12036923 AATATAATA-AATAAATAATAAGT
1 AATATAATATAAAAAAT-ATAAGT
** *
12036946 AATGAT-ATATGTTAAAATATATATT
1 AAT-ATAATAT-AAAAAATATA-AGT
*
12036971 AATATGATAATAAAAAATATGAAGT
1 AATATAAT-ATAAAAAATAT-AAGT
*
12036996 AATATAATATAATAAGATATAAGT
1 AATATAATATAA-AAAATATAAGT
*
12037020 AA-ATAATTATAAAATATATA
1 AATATAA-TATAAAAAATATA
12037040 TAATATGTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
23 17 0.23
24 22 0.29
25 33 0.44
26 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
AATATAATATAAAAAATATAAGT
Found at i:12044528 original size:25 final size:25
Alignment explanation
Indices: 12044496--12044545 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12044486 TGGTTTTTTT
12044496 TCTTGCCTTTATATTTTATATACTA
1 TCTTGCCTTTATATTTTATATACTA
12044521 TCTTGCCTTTATATTTTATATACTA
1 TCTTGCCTTTATATTTTATATACTA
12044546 AGCCTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (25 bp):
TCTTGCCTTTATATTTTATATACTA
Found at i:12046077 original size:42 final size:42
Alignment explanation
Indices: 12045979--12046114 Score: 141
Period size: 42 Copynumber: 3.2 Consensus size: 42
12045969 TGATTTTGAA
** *
12045979 TAAGACCACATCTGGGACGTTGGCATTG-ATTTGAGATTTACGTG
1 TAAGACCATGTCTGGGACGTTGGCATCGTATTT--GATTT-CGTG
*
12046023 TAAGACCATGTCTGGGACGTTGGCATCGTATATGATTTCGTG
1 TAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTCGTG
* * * *
12046065 TAAGACCCTGTCTGGGACAG-TGACATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTTCGTG
12046108 TAAGACC
1 TAAGACC
12046115 TCATTTGGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
42 28 0.35
43 24 0.30
44 25 0.31
45 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTTCGTG
Found at i:12048377 original size:30 final size:30
Alignment explanation
Indices: 12048343--12048401 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
12048333 ACTTATTTTA
*
12048343 TTGTTAATTTTGTTATTATTCTAAAGACAT
1 TTGTTAAATTTGTTATTATTCTAAAGACAT
* *
12048373 TTGTTAAATTTGTTATTATTTTAGAGACA
1 TTGTTAAATTTGTTATTATTCTAAAGACA
12048402 ATTTCTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTCTAAAGACAT
Found at i:12048920 original size:13 final size:13
Alignment explanation
Indices: 12048890--12048914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12048880 ATAAACTGTA
12048890 ATATACATACATG
1 ATATACATACATG
12048903 ATATACATACAT
1 ATATACATACAT
12048915 ATTATAAACA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:12048956 original size:26 final size:26
Alignment explanation
Indices: 12048920--12048972 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
12048910 TACATATTAT
*
12048920 AAACAGTAATAAACATAACAAACATA
1 AAACAATAATAAACATAACAAACATA
** *
12048946 AAACAATAATATGCATAACATACATA
1 AAACAATAATAAACATAACAAACATA
12048972 A
1 A
12048973 TAGACTGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (26 bp):
AAACAATAATAAACATAACAAACATA
Found at i:12053873 original size:20 final size:20
Alignment explanation
Indices: 12053848--12053890 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
12053838 ATTTTTAGTC
12053848 AACTGACCAGCATCTGATTT
1 AACTGACCAGCATCTGATTT
12053868 AACTGACCAGCATCTGATTT
1 AACTGACCAGCATCTGATTT
12053888 AAC
1 AAC
12053891 CTCTATGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
AACTGACCAGCATCTGATTT
Found at i:12054655 original size:43 final size:44
Alignment explanation
Indices: 12054586--12054678 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
12054576 TCCTAATTGG
12054586 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
12054629 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
12054673 -AAAATA
1 GAAAATA
12054679 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:12054722 original size:19 final size:18
Alignment explanation
Indices: 12054700--12054739 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
12054690 TGAATAAAAC
12054700 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
12054719 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
12054737 TTA
1 TTA
12054740 AAAATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:12074374 original size:42 final size:43
Alignment explanation
Indices: 12074307--12074401 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
12074297 CCTAATTGGG
*
12074307 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 AAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
12074349 AAAATAGTTTCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 AAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
12074392 AAAATA-TTTC
1 AAAATAGTTTC
12074402 TAGAATATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 41 0.85
43 7 0.15
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.33
Consensus pattern (43 bp):
AAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:12074441 original size:19 final size:18
Alignment explanation
Indices: 12074419--12074458 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
12074409 TGAATAAAAC
12074419 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
12074438 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
12074456 TTA
1 TTA
12074459 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:12081990 original size:46 final size:47
Alignment explanation
Indices: 12081937--12082028 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 47
12081927 TTATCTGTAG
12081937 AGATGTTTAATACAAGCTTGCAAATGTCACTGAATTG-CCATCTCAA
1 AGATGTTTAATACAAGCTTGCAAATGTCACTGAATTGCCCATCTCAA
12081983 AGATGTTTAATACAAGCTTGCAAATGTCACTGAATTGCCCATCTCA
1 AGATGTTTAATACAAGCTTGCAAATGTCACTGAATTGCCCATCTCA
12082029 CTTATCAGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 37 0.82
47 8 0.18
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (47 bp):
AGATGTTTAATACAAGCTTGCAAATGTCACTGAATTGCCCATCTCAA
Found at i:12083052 original size:12 final size:12
Alignment explanation
Indices: 12083034--12083065 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12083024 ATGTAGATAT
12083034 ATATATATACAC
1 ATATATATACAC
*
12083046 GTATATATACAC
1 ATATATATACAC
12083058 ATATATAT
1 ATATATAT
12083066 TATCCTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (12 bp):
ATATATATACAC
Found at i:12091097 original size:35 final size:35
Alignment explanation
Indices: 12091058--12091124 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
12091048 GTTTTTAGGG
*
12091058 TTAGGGTTTTGCTAAAATAAGTTAAGGTTTAGTGT
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
* * *
12091093 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAG
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAG
12091125 AATTTTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
Found at i:12091248 original size:35 final size:34
Alignment explanation
Indices: 12091184--12091251 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
12091174 AAAAAATATT
*
12091184 TAAATTAGGGTTTATGGTTTTTAAATAAATTAAG
1 TAAATTAGGGTTTAAGGTTTTTAAATAAATTAAG
12091218 TAAATTAGGGTTTTTAAGG-TTTTAAATAAATTAA
1 TAAATTAGGG--TTTAAGGTTTTTAAATAAATTAA
12091252 ATTAGGGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 10 0.32
35 15 0.48
36 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (34 bp):
TAAATTAGGGTTTAAGGTTTTTAAATAAATTAAG
Found at i:12091264 original size:17 final size:17
Alignment explanation
Indices: 12091244--12091279 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12091234 AGGTTTTAAA
* *
12091244 TAAATTAAATTAGGGTT
1 TAAAATAAATTAAGGTT
12091261 TAAAATAAATTAAGGTT
1 TAAAATAAATTAAGGTT
12091278 TA
1 TA
12091280 TGGTTTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (17 bp):
TAAAATAAATTAAGGTT
Found at i:12091286 original size:7 final size:7
Alignment explanation
Indices: 12091274--12091306 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
12091264 AATAAATTAA
12091274 GGTTTAT
1 GGTTTAT
12091281 GGTTTAT
1 GGTTTAT
12091288 GGTTTAT
1 GGTTTAT
*
12091295 AGTTTAT
1 GGTTTAT
12091302 GGTTT
1 GGTTT
12091307 TTAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GGTTTAT
Found at i:12091380 original size:28 final size:29
Alignment explanation
Indices: 12091312--12091392 Score: 103
Period size: 28 Copynumber: 2.8 Consensus size: 29
12091302 GGTTTTTAAA
*
12091312 TAAATTAAGTAAATTAGGGTTCT-AGGATTT
1 TAAATTAATTAAATTAGGGTT-TAAGGA-TT
*
12091342 TAAATAAATTAAATTAGGGTTTAAGG-TT
1 TAAATTAATTAAATTAGGGTTTAAGGATT
*
12091370 TAATTTAATTAAATTAGGGTTTA
1 TAAATTAATTAAATTAGGGTTTA
12091393 GTTTTTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 23 0.50
29 1 0.02
30 22 0.48
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAATTAATTAAATTAGGGTTTAAGGATT
Found at i:12091764 original size:126 final size:126
Alignment explanation
Indices: 12091452--12091957 Score: 691
Period size: 126 Copynumber: 4.0 Consensus size: 126
12091442 ATTTTTACCC
* *
12091452 TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGT-AAAAAAAGCTTTAAGTAGGATG
1 TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGTCAAAAACA-CTTCAAGTAGGATG
*
12091516 CACTGTCAGCAAAAATATAGA-AAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTCA
65 CACTGTCAGC-AAAATATAGAGAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* * * *
12091578 TG-AAAAATAATTTTAAGAAGACATTTCTGAATAAATAGTGTCAAAAACGCTTCAAGTAGGATGC
1 TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGC
* ** *
12091642 ACTGTCAGCAAAA-ATACGAGAAAAAGTTATCACGTGGACGCTCTTTTTCTACAATAGTTCA
66 ACTGTCAGCAAAATATA-GAGAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* * *
12091703 TGAAAAAATAATTTTGCGAAGACGTTTATGAACAAATAGTGTCAAAAACACTTCAAATAGGATGC
1 TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGC
* * *
12091768 TCTGTCAGCAAAATTATAGAGAAAAA-CTCCCGCGTGGACGCTCTTTTTCTACAGTAGTTCC
66 ACTGTCAGCAAAA-TATAGAGAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* ** * * * *
12091829 TGAAAAAATAATTTTGAAAAGATGTTTCTAAAAAAATAGTGTCAAAAACACTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGC
* *
12091894 AATGTCAGCAAAATTTATGA-AAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAATATA-GAGAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
12091955 TGA
1 TGA
12091958 TTGGCCTTAG
Statistics
Matches: 334, Mismatches: 38, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
123 3 0.01
124 6 0.02
125 105 0.31
126 209 0.63
127 8 0.02
128 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
TGAAAAAATAATTTTGAGAAGACATTTATGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGC
ACTGTCAGCAAAATATAGAGAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
Found at i:12092892 original size:54 final size:54
Alignment explanation
Indices: 12092810--12092917 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
12092800 GAACCTGAAA
*
12092810 ACGTTGAAGGGAGTTTAGATTAAGAAGAAGAATATTTGCAATTCAGGGCGCACT
1 ACGTTGAAGGGAGTTTAGATTAAGAAGAAGAATATCTGCAATTCAGGGCGCACT
*
12092864 ACGTTGAA-GGAGGTTTAGATTAAGAAGAAGAATATCTGCGATTCAGGGCGCACT
1 ACGTTGAAGGGA-GTTTAGATTAAGAAGAAGAATATCTGCAATTCAGGGCGCACT
12092918 CACCTTTAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 3 0.06
54 48 0.94
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (54 bp):
ACGTTGAAGGGAGTTTAGATTAAGAAGAAGAATATCTGCAATTCAGGGCGCACT
Found at i:12095534 original size:18 final size:18
Alignment explanation
Indices: 12095508--12095551 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
12095498 GACTGGAAAA
* *
12095508 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
12095526 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
12095544 AGGATACA
1 AGGATACA
12095552 CACTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:12100936 original size:7 final size:7
Alignment explanation
Indices: 12100926--12100950 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12100916 TTATATACAT
12100926 AATACTA
1 AATACTA
12100933 AATACTA
1 AATACTA
12100940 AATACTA
1 AATACTA
12100947 AATA
1 AATA
12100951 TGAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:12101899 original size:30 final size:29
Alignment explanation
Indices: 12101865--12101963 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
12101855 CCGATTAATT
12101865 ATGAAATACAAATTAATTAAAATTACATAA
1 ATGAAATA-AAATTAATTAAAATTACATAA
* * *
12101895 ATGAAAAAAATATTAAATAATATT-C--AA
1 ATGAAATAAA-ATTAATTAAAATTACATAA
*
12101922 A--AATTAAAATTAATTAAAATTACATAA
1 ATGAAATAAAATTAATTAAAATTACATAA
*
12101949 AGGAAA-AAATATTAA
1 ATGAAATAAA-ATTAA
12101964 ATAATATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
24 11 0.20
25 6 0.11
27 6 0.11
28 3 0.06
29 10 0.19
30 18 0.33
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (29 bp):
ATGAAATAAAATTAATTAAAATTACATAA
Found at i:12101982 original size:53 final size:54
Alignment explanation
Indices: 12101874--12101984 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 54
12101864 TATGAAATAC
12101874 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
* * *
12101928 AAATTAATTAAAATTACATAAA-GGAAAAAATATTAAATAATATTTAAAATTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
12101981 AAAT
1 AAAT
12101985 AAACCGTTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 32 0.59
54 22 0.41
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:12103101 original size:17 final size:16
Alignment explanation
Indices: 12103066--12103111 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 16
12103056 ATAGTAGTAC
12103066 ATTATATATTACTTATT
1 ATTATATATTA-TTATT
*
12103083 ATTATATATTATT-GT
1 ATTATATATTATTATT
12103098 -TTATATATTATTAT
1 ATTATATATTATTAT
12103112 ACTAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 12 0.46
15 1 0.04
16 2 0.08
17 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTATATATTATTATT
Found at i:12103187 original size:242 final size:238
Alignment explanation
Indices: 12102471--12103269 Score: 661
Period size: 249 Copynumber: 3.3 Consensus size: 238
12102461 ATCATATAGT
* * *
12102471 ATATAATATATTAACAGTTTACATATATGCATCAATGATTAAACATTATAATATCATGTAATACT
1 ATATAATATATTAATAGTTTATATAT-TGCATTAATGATTAAACATTATAATATCATGTAATAC-
* * * * *
12102536 ATATCTTTTATTGTAATCCATAATATAATAATAG-T--T-ATA-TA-TA-ATATTAGTACATT-A
64 -TAT-TATTATTATAATCTATAATATAATAAGAGTTAATAATAGTAGTACATATTA-TATATTAA
* ** * *
12102593 TATATTA-ATTATTATTGTTTATTATTATACTG-GTTGAAATATGTTCTAAGTCTCTATA-TTTT
126 T-TATTATA-TATTATTGTTTATTATTATAC-GAGTTAAAATATACTCTAAATCCCTATACTTTT
* * * * * * * * * *
12102655 TCATACATTTGAAAGTTAGCTC-TCTTATTTTATTATATAATATTATATCATATCATATAGT
188 T-GTACATTAGAAACTTAG-TCACCCTACTATACTATATAAT-GT-TATCATA-C------C
* *
12102716 ATATAATATATTAATACTTTATATA-TGCATTAATGATTAAACATTATAATATCATTTAATACTA
1 ATATAATATATTAATAGTTTATATATTGCATTAATGATTAAACATTATAATATCATGTAATACTA
* *
12102780 TTTATTTTATTATAATTTATAATATAATAATAGTTAATAATAGTAGTACATATTATATATTAATT
66 -TTA--TTATTATAATCTATAATATAATAAGAGTTAATAATAGTAGTACATATTATATATTAATT
* * * ** *
12102845 ATTATATATTATTGTTTGTTATTATACGGGTTTAAATATGTTCTAAATCCCTATACTTTTTGTAT
128 ATTATATATTATTGTTTATTATTATACGAGTTAAAATATACTCTAAATCCCTATACTTTTTGTAC
*
12102910 ATTAGAAAGTTAGTCACCCTACTATACTATATAATG-T-T-ATACC
193 ATTAGAAACTTAGTCACCCTACTATACTATATAATGTTATCATACC
* * * *
12102953 ATATCATATATTAATAGTTTATATATGTGCATAAATGATTAAACATTGTAATGTCATGTAATACT
1 ATATAATATATTAATAGTTTATATAT-TGCATTAATGATTAAACATTATAATATCATGTAATACT
*
12103018 A-TA-TATTATAATCTATATTATAATAAGAGTTATACATAATAGTAGTAC--ATTATATATTACT
65 ATTATTATTATAATCTATAATATAATAAGAG-T-TA-ATAATAGTAGTACATATTATATATTA--
* *
12103079 TATTATTATATATTATTGTTTATATATTATTATACTAGTTAAAATATACTCTAAGTCCCTATACT
125 -ATTATTATATATTATTG--T-T-TATTATTATACGAGTTAAAATATACTCTAAATCCCTATACT
* * *
12103144 TTTTGTACATTTA-AAACTTAG-CCCTCCTACTATATTATATAATGTTACATCATATC
185 TTTTGTACA-TTAGAAACTTAGTCAC-CCTACTATACTATATAATGTT--ATCATACC
* *
12103200 ATATAATATATTAATAGTTTATATATATATGCATTGATGATTAAACATTATAACATCATGTAATA
1 ATATAATATATTAATAG-TT-TATATAT-TGCATTAATGATTAAACATTATAATATCATGTAATA
*
12103265 TTATT
63 CTATT
12103270 TATATATGTA
Statistics
Matches: 464, Mismatches: 53, Indels: 69
0.79 0.09 0.12
Matches are distributed among these distances:
234 23 0.05
235 12 0.03
236 2 0.00
237 38 0.08
238 17 0.04
239 35 0.08
240 1 0.00
241 6 0.01
242 68 0.15
243 64 0.14
244 4 0.01
245 23 0.05
246 3 0.01
247 23 0.05
248 7 0.02
249 123 0.27
250 15 0.03
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (238 bp):
ATATAATATATTAATAGTTTATATATTGCATTAATGATTAAACATTATAATATCATGTAATACTA
TTATTATTATAATCTATAATATAATAAGAGTTAATAATAGTAGTACATATTATATATTAATTATT
ATATATTATTGTTTATTATTATACGAGTTAAAATATACTCTAAATCCCTATACTTTTTGTACATT
AGAAACTTAGTCACCCTACTATACTATATAATGTTATCATACC
Found at i:12107329 original size:36 final size:36
Alignment explanation
Indices: 12107270--12107338 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
12107260 CACAAGATCA
* **
12107270 TGTGAAACCATGCAGATCATGTGGGGCACACGGCCG
1 TGTGAAACCATGCAGACCATGTGGACCACACGGCCG
* * *
12107306 TGTGAAATCATGTAGACCGTGTGGACCACACGG
1 TGTGAAACCATGCAGACCATGTGGACCACACGG
12107339 GCTAGCTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (36 bp):
TGTGAAACCATGCAGACCATGTGGACCACACGGCCG
Found at i:12124096 original size:23 final size:23
Alignment explanation
Indices: 12124070--12124157 Score: 60
Period size: 23 Copynumber: 3.9 Consensus size: 23
12124060 TAAATTGTGT
*
12124070 TAATCA-TACTTAAGCTTAATTTA
1 TAATCATTAATTAAG-TTAATTTA
*
12124093 TAATGATTAATTAAGTTAA-TTA
1 TAATCATTAATTAAGTTAATTTA
** *
12124115 T--T-ATTAATTATAAACTAATCTA
1 TAATCATTAA-T-TAAGTTAATTTA
*
12124137 TAATGATTAATTAAGTTAATT
1 TAATCATTAATTAAGTTAATT
12124158 ATTATTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
19 5 0.10
20 2 0.04
21 6 0.12
22 7 0.14
23 16 0.32
24 9 0.18
25 5 0.10
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (23 bp):
TAATCATTAATTAAGTTAATTTA
Found at i:12124122 original size:19 final size:19
Alignment explanation
Indices: 12124098--12124168 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 19
12124088 ATTTATAATG
12124098 ATTAATTAAGTTAATTATT
1 ATTAATTAAGTTAATTATT
**
12124117 ATTAATTATAAACTAATCTATAAT
1 ATTAA-T-TAAGTTAAT-TAT--T
12124141 GATTAATTAAGTTAATTATT
1 -ATTAATTAAGTTAATTATT
12124161 ATTAATTA
1 ATTAATTA
12124169 TAAACTAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
19 13 0.31
20 2 0.05
21 7 0.17
22 6 0.14
23 7 0.17
24 2 0.05
25 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (19 bp):
ATTAATTAAGTTAATTATT
Found at i:12124154 original size:44 final size:44
Alignment explanation
Indices: 12124086--12124180 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
12124076 TACTTAAGCT
*
12124086 TAATTTATAATGATTAATTAAGTTAATTATTATTAATTATAAAC
1 TAATCTATAATGATTAATTAAGTTAATTATTATTAATTATAAAC
12124130 TAATCTATAATGATTAATTAAGTTAATTATTATTAATTATAAAC
1 TAATCTATAATGATTAATTAAGTTAATTATTATTAATTATAAAC
12124174 TAATCTA
1 TAATCTA
12124181 CCTGTAAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (44 bp):
TAATCTATAATGATTAATTAAGTTAATTATTATTAATTATAAAC
Found at i:12128298 original size:16 final size:18
Alignment explanation
Indices: 12128270--12128306 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
12128260 CATCCAACAT
12128270 AATAAATTTTAAA-TAAA
1 AATAAATTTTAAATTAAA
12128287 AATAAA-TTTAAATTAAA
1 AATAAATTTTAAATTAAA
12128304 AAT
1 AAT
12128307 CCAAACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATTTTAAATTAAA
Found at i:12130897 original size:46 final size:44
Alignment explanation
Indices: 12130844--12131017 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 44
12130834 TTTGGGCATT
12130844 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--TC
*** * *
12130890 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATC
* *
12130937 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-ATC
* *
12130983 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12131018 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 67 0.62
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATC
Found at i:12130997 original size:93 final size:93
Alignment explanation
Indices: 12130838--12131009 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
12130828 AGGATATTTG
* ***
12130838 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
12130903 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
12130931 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
*
12130996 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
12131010 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:12133378 original size:13 final size:11
Alignment explanation
Indices: 12133350--12133392 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
12133340 AGTTAAATAT
12133350 TATTTTATTAA
1 TATTTTATTAA
12133361 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
12133374 TA-TTTATTAT
1 TATTTTATTAA
12133384 TATTTTATT
1 TATTTTATT
12133393 TAAAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:12137022 original size:14 final size:11
Alignment explanation
Indices: 12136986--12137017 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
12136976 CTTTATATAC
12136986 TAATAAAATAT
1 TAATAAAATAT
12136997 TAATAAAATAT
1 TAATAAAATAT
12137008 TAATAAAATA
1 TAATAAAATA
12137018 ATATTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:12143437 original size:25 final size:25
Alignment explanation
Indices: 12143409--12143461 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
12143399 AAAATATTTG
* *
12143409 AAATGTTTTAATATAATTTAAAATA
1 AAATATTTTAACATAATTTAAAATA
*
12143434 AAATATTTTAACATAATTTAATATA
1 AAATATTTTAACATAATTTAAAATA
12143459 AAA
1 AAA
12143462 ATAATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATATTTTAACATAATTTAAAATA
Found at i:12143529 original size:42 final size:43
Alignment explanation
Indices: 12143464--12143554 Score: 148
Period size: 42 Copynumber: 2.1 Consensus size: 43
12143454 ATATAAAAAT
*
12143464 AATTATATTAAAAATATTATTAAATTATATATTATTTTTATTA
1 AATTATATTAAAAATATGATTAAATTATATATTATTTTTATTA
* *
12143507 AATTATATT-AAAATATGATTAAATTATTTATTATTTTTATTT
1 AATTATATTAAAAATATGATTAAATTATATATTATTTTTATTA
12143549 AATTAT
1 AATTAT
12143555 TTTTAATAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 36 0.80
43 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (43 bp):
AATTATATTAAAAATATGATTAAATTATATATTATTTTTATTA
Found at i:12143555 original size:14 final size:13
Alignment explanation
Indices: 12143530--12143559 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
12143520 TATGATTAAA
12143530 TTATTTATTATTT
1 TTATTTATTATTT
12143543 TTATTTAATTATTT
1 TTATTT-ATTATTT
12143557 TTA
1 TTA
12143560 ATAACAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTATTATTT
Found at i:12143555 original size:21 final size:21
Alignment explanation
Indices: 12143480--12143556 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
12143470 ATTAAAAATA
*
12143480 TTATTAAATTATATATTATTT
1 TTATTAAATTATTTATTATTT
* * *
12143501 TTATTAAATTATATTA-AAATA
1 TTATTAAATTAT-TTATTATTT
*
12143522 TGATTAAATTATTTATTATTT
1 TTATTAAATTATTTATTATTT
*
12143543 TTATTTAATTATTT
1 TTATTAAATTATTT
12143557 TTAATAACAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.89
22 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTATTAAATTATTTATTATTT
Found at i:12143774 original size:16 final size:16
Alignment explanation
Indices: 12143753--12143785 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12143743 TACTGACTAT
12143753 AACTCTATTACATTAC
1 AACTCTATTACATTAC
*
12143769 AACTCTATTCCATTAC
1 AACTCTATTACATTAC
12143785 A
1 A
12143786 GCGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (16 bp):
AACTCTATTACATTAC
Found at i:12147668 original size:32 final size:32
Alignment explanation
Indices: 12147631--12147707 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
12147621 ATGCATGTGT
* **
12147631 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGTCTCTTCACATTA
* * *
12147663 TTAACTCTTCATATTCAAGTCTCTTCACATTC
1 GTAACTTTTCATATTCAAGTCTCTTCACATTA
12147695 GTAACTTTTCATA
1 GTAACTTTTCATA
12147708 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.45
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGTCTCTTCACATTA
Done.