Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 251 of 333
Found at i:82794654 original size:12 final size:12
Alignment explanation
Indices: 82794599--82794652 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
82794589 ATCCAAACAA
*
82794599 AATATAATAATAT
1 AATAAAATAA-AT
*
82794612 AATAATAT-AAT
1 AATAAAATAAAT
*
82794623 AATATAATAAAT
1 AATAAAATAAAT
82794635 AATAAAATAAA-
1 AATAAAATAAAT
82794646 AATAAAA
1 AATAAAA
82794653 ATTGAGTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 15 0.43
12 14 0.40
13 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAAATAAAT
Found at i:82801035 original size:20 final size:20
Alignment explanation
Indices: 82801012--82801060 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
82801002 TTAAATTCTA
82801012 AAAGATAAATACAA-ATAAAT
1 AAAGATAAATA-AATATAAAT
*
82801032 AAAGATAATTAAATATAAAT
1 AAAGATAAATAAATATAAAT
82801052 AAAGATAAA
1 AAAGATAAA
82801061 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (20 bp):
AAAGATAAATAAATATAAAT
Found at i:82801039 original size:10 final size:10
Alignment explanation
Indices: 82801012--82801060 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
82801002 TTAAATTCTA
82801012 AAAGATAAAT
1 AAAGATAAAT
82801022 ACAA-ATAAAT
1 A-AAGATAAAT
*
82801032 AAAGATAATT
1 AAAGATAAAT
*
82801042 AAATATAAAT
1 AAAGATAAAT
82801052 AAAGATAAA
1 AAAGATAAA
82801061 AGCTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:82803300 original size:19 final size:17
Alignment explanation
Indices: 82803272--82803310 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
82803262 CATATGTTGA
82803272 TAGTTGGATAATGAAATTT
1 TAGTTGGATAA--AAATTT
*
82803291 TAGTTTGATAAAAATTT
1 TAGTTGGATAAAAATTT
82803308 TAG
1 TAG
82803311 ATAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TAGTTGGATAAAAATTT
Found at i:82805450 original size:94 final size:94
Alignment explanation
Indices: 82805285--82805478 Score: 318
Period size: 94 Copynumber: 2.1 Consensus size: 94
82805275 CCAACATGTT
*
82805285 AACA-CCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATTAACC
1 AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
82805349 CTTCAAAAACACGAAGATTACATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
* * *
82805378 AACACCCATATTACACATGATCTTTTCCTATAAATACTTTCAAGAATGATGAAGATGGATCGAGC
1 AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
* * *
82805443 CTTCAAAAGCACTACGATTACATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
82805472 AACACCC
1 AACACCC
82805479 TTTTAGCCCT
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 4 0.04
94 89 0.96
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (94 bp):
AACACCCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
CTTCAAAAACACGAAGATTACATCTTGCC
Found at i:82807173 original size:108 final size:108
Alignment explanation
Indices: 82806999--82807214 Score: 342
Period size: 108 Copynumber: 2.0 Consensus size: 108
82806989 TATTAGCATC
*
82806999 TGGCCAAAGCAACCTTCCACAAAGATCACCTTGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
*
82807064 CCATCAACAACCAAGGACTAGTTTAGAACTCCAAACCTGACAT
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
* **
82807107 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGTCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
* * * * *
82807172 CCATTAGCAGCCTATGACCAGTTTAGAACTCCAAACCTGACAT
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
82807215 AACACCAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (108 bp):
TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
Found at i:82811533 original size:21 final size:21
Alignment explanation
Indices: 82811509--82811551 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
82811499 TATCATATTA
82811509 ATGCTTTCCTATTTTTTAAGG
1 ATGCTTTCCTATTTTTTAAGG
82811530 ATGCTTTCCTATTTTTTAAGG
1 ATGCTTTCCTATTTTTTAAGG
82811551 A
1 A
82811552 GAAGATGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (21 bp):
ATGCTTTCCTATTTTTTAAGG
Found at i:82813185 original size:27 final size:27
Alignment explanation
Indices: 82813154--82813209 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
82813144 CCCAGAAAAA
82813154 TAGACATACAGAGCAAAAGAATGTATC
1 TAGACATACAGAGCAAAAGAATGTATC
82813181 TAGACATACAGAGCAAAAGAATGTATC
1 TAGACATACAGAGCAAAAGAATGTATC
82813208 TA
1 TA
82813210 TCTTTTGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (27 bp):
TAGACATACAGAGCAAAAGAATGTATC
Found at i:82814220 original size:6 final size:6
Alignment explanation
Indices: 82814187--82814219 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
82814177 GATATGAAAT
82814187 AAAAAC AAAAAC AAAAAC AAAAA- AAAAA- AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
82814220 AGGTTAGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:82815683 original size:39 final size:39
Alignment explanation
Indices: 82815639--82815717 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
82815629 AGAACATCTG
*
82815639 CCTAATCCAAGATCATAAAGAGCACCAGAATCAGAAAAT
1 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
82815678 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
1 CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
82815717 C
1 C
82815718 TCAAGTCCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.15
Consensus pattern (39 bp):
CCTAATCCAACATCATAAAGAGCACCAGAATCAGAAAAT
Found at i:82817957 original size:15 final size:16
Alignment explanation
Indices: 82817932--82817964 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
82817922 AGAATATATA
82817932 TTTATATTATTTTAAT
1 TTTATATTATTTTAAT
*
82817948 TTTATA-TATTTTTAT
1 TTTATATTATTTTAAT
82817963 TT
1 TT
82817965 ATTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATATTATTTTAAT
Found at i:82817958 original size:24 final size:25
Alignment explanation
Indices: 82817926--82817981 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
82817916 AAAACTAGAA
*
82817926 TATATATTTATA-TTATTTTAA-TTT
1 TATATATTTATATTTA-TTAAATTTT
*
82817950 TATATATTTTTATTTATTAAATTTT
1 TATATATTTATATTTATTAAATTTT
82817975 TATATAT
1 TATATAT
82817982 AACTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATATTTATATTTATTAAATTTT
Found at i:82821563 original size:16 final size:16
Alignment explanation
Indices: 82821542--82821572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82821532 TTCACTATTA
*
82821542 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
82821558 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
82821573 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:82825746 original size:190 final size:190
Alignment explanation
Indices: 82825477--82825856 Score: 760
Period size: 190 Copynumber: 2.0 Consensus size: 190
82825467 AATTTGAAAA
82825477 ATGAAATGAAATTAATTGGTTATCATGAATCTATTGAATATGGAAATTAAATATATTTCTCATAG
1 ATGAAATGAAATTAATTGGTTATCATGAATCTATTGAATATGGAAATTAAATATATTTCTCATAG
82825542 ATTTTTTTACGATAAAGTTGACATGACTTTAACAAAAGTAGAATTGAGTTGAAAAAATTATTTAA
66 ATTTTTTTACGATAAAGTTGACATGACTTTAACAAAAGTAGAATTGAGTTGAAAAAATTATTTAA
82825607 TTGAAAAATTAATTTAATAAATAATATTTATTTTGAGAAATAGAAAAACATGTATTGGGT
131 TTGAAAAATTAATTTAATAAATAATATTTATTTTGAGAAATAGAAAAACATGTATTGGGT
82825667 ATGAAATGAAATTAATTGGTTATCATGAATCTATTGAATATGGAAATTAAATATATTTCTCATAG
1 ATGAAATGAAATTAATTGGTTATCATGAATCTATTGAATATGGAAATTAAATATATTTCTCATAG
82825732 ATTTTTTTACGATAAAGTTGACATGACTTTAACAAAAGTAGAATTGAGTTGAAAAAATTATTTAA
66 ATTTTTTTACGATAAAGTTGACATGACTTTAACAAAAGTAGAATTGAGTTGAAAAAATTATTTAA
82825797 TTGAAAAATTAATTTAATAAATAATATTTATTTTGAGAAATAGAAAAACATGTATTGGGT
131 TTGAAAAATTAATTTAATAAATAATATTTATTTTGAGAAATAGAAAAACATGTATTGGGT
82825857 TGGATTAAGT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
190 190 1.00
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.38
Consensus pattern (190 bp):
ATGAAATGAAATTAATTGGTTATCATGAATCTATTGAATATGGAAATTAAATATATTTCTCATAG
ATTTTTTTACGATAAAGTTGACATGACTTTAACAAAAGTAGAATTGAGTTGAAAAAATTATTTAA
TTGAAAAATTAATTTAATAAATAATATTTATTTTGAGAAATAGAAAAACATGTATTGGGT
Found at i:82828871 original size:13 final size:13
Alignment explanation
Indices: 82828855--82828884 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
82828845 AAATTAACAA
82828855 AAAATATTAAATT
1 AAAATATTAAATT
82828868 AAAATATTAAATT
1 AAAATATTAAATT
82828881 AAAA
1 AAAA
82828885 ACATGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATATTAAATT
Found at i:82829388 original size:115 final size:113
Alignment explanation
Indices: 82829160--82829501 Score: 494
Period size: 115 Copynumber: 3.0 Consensus size: 113
82829150 TTTTAAATAC
* * * *
82829160 AATAACTAAAACTATTAAAATTTTGCTTTAAGTAACATTTATACCTTCTCTC--T-T-TATTGAA
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTATATATATTGAA
* *
82829221 ATTGAATAAAATTGTTTTTGTCACTTCCAATTGAATTGGTGTCCAGTT
66 ATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
82829269 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTTTATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTC--TATATATATTG
* * *
82829334 AAATTGAATAAAATTGTTTTTGTTATTTCCAACTGAATTGATGTCTAGTT
64 AAATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
*
82829384 AATAACTAAAAATTTTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTCCATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCT--ATATATATTG
* * * *
82829449 AAATTAAATAAAGTTGTTTTTGTCATTTTCAACTTAATTGGTGTCCAGTT
64 AAATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
82829499 AAT
1 AAT
82829502 TCAATTATAG
Statistics
Matches: 208, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
109 48 0.23
113 2 0.01
114 1 0.00
115 157 0.75
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (113 bp):
AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTATATATATTGAA
ATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
Found at i:82829927 original size:31 final size:31
Alignment explanation
Indices: 82829866--82829930 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
82829856 AAAGTTTATA
** **
82829866 TTTCTAATATTTTTTTTGTTTTTTTTAATTT
1 TTTCTAATATTTTTTTTGAATTTTGAAATTT
82829897 TTTCTAAT-TTTCTTTTTGAATTTTGAAATTT
1 TTTCTAATATTT-TTTTTGAATTTTGAAATTT
82829928 TTT
1 TTT
82829931 TATTTTTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (31 bp):
TTTCTAATATTTTTTTTGAATTTTGAAATTT
Found at i:82830324 original size:23 final size:23
Alignment explanation
Indices: 82830298--82830348 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
82830288 TGATTTTTAA
* *
82830298 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
*
82830321 ATTTAGGATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
82830344 ATTTA
1 ATTTA
82830349 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:82830325 original size:13 final size:13
Alignment explanation
Indices: 82830307--82830348 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
82830297 AATTTTGAAT
82830307 TATTTAGTGATAA
1 TATTTAGTGATAA
82830320 TATTTAG-GAT--
1 TATTTAGTGATAA
*
82830330 TATTTAATGATAA
1 TATTTAGTGATAA
82830343 TATTTA
1 TATTTA
82830349 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:82839183 original size:21 final size:21
Alignment explanation
Indices: 82839159--82839199 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82839149 GACTAAATAA
* *
82839159 AAAACATTTGAAAATTTTAAG
1 AAAACAGTTGAAAAATTTAAG
*
82839180 AAAAGAGTTGAAAAATTTAA
1 AAAACAGTTGAAAAATTTAA
82839200 ACTGTAGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (21 bp):
AAAACAGTTGAAAAATTTAAG
Found at i:82839701 original size:18 final size:19
Alignment explanation
Indices: 82839669--82839704 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
82839659 TATATATATG
82839669 TACTATAATAATTAAGTAA
1 TACTATAATAATTAAGTAA
*
82839688 TACT-TAATATTTAAGTA
1 TACTATAATAATTAAGTA
82839705 CTATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
TACTATAATAATTAAGTAA
Found at i:82839838 original size:12 final size:14
Alignment explanation
Indices: 82839809--82839845 Score: 60
Period size: 12 Copynumber: 2.8 Consensus size: 14
82839799 AAAACAGGGG
82839809 AGAAAAAGAGAGAA
1 AGAAAAAGAGAGAA
82839823 AGAAAAAGA-A-AA
1 AGAAAAAGAGAGAA
82839835 AGAAAAAGAGA
1 AGAAAAAGAGA
82839846 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAGAGAA
Found at i:82839840 original size:5 final size:6
Alignment explanation
Indices: 82839809--82839843 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
82839799 AAAACAGGGG
82839809 AGAAAA AGAGAGAA AGAAAA AGAAAA AGAAAA AGA
1 AGAAAA AGA-A-AA AGAAAA AGAAAA AGAAAA AGA
82839844 GAAATTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:82840491 original size:5 final size:5
Alignment explanation
Indices: 82840472--82840520 Score: 80
Period size: 5 Copynumber: 9.6 Consensus size: 5
82840462 TAAGGTGAGT
*
82840472 ATTGA TATTGA ATTGT ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
1 ATTGA -ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
82840521 ATGAGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 36 0.88
6 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (5 bp):
ATTGA
Found at i:82841569 original size:26 final size:26
Alignment explanation
Indices: 82841532--82841593 Score: 92
Period size: 25 Copynumber: 2.4 Consensus size: 26
82841522 ATGAAAAATC
82841532 AAAAAAAT-AGAAAAAAATCCAAACA-
1 AAAAAAATAAGAAAAAAAT-CAAACAG
82841557 AAAAAAATAAGAAAAAAATCAAACAG
1 AAAAAAATAAGAAAAAAATCAAACAG
82841583 AAATAAAATAA
1 AAA-AAAATAA
82841594 TAAATTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 14 0.41
26 13 0.38
27 7 0.21
ACGTcount: A:0.77, C:0.08, G:0.05, T:0.10
Consensus pattern (26 bp):
AAAAAAATAAGAAAAAAATCAAACAG
Found at i:82841584 original size:15 final size:15
Alignment explanation
Indices: 82841540--82841591 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
82841530 TCAAAAAAAT
82841540 AGAAAAAAATCCAAAC
1 AGAAAAAAAT-CAAAC
82841556 A-AAAAAAAT---A-
1 AGAAAAAAATCAAAC
82841566 AGAAAAAAATCAAAC
1 AGAAAAAAATCAAAC
82841581 AGAAATAAAAT
1 AGAAA-AAAAT
82841592 AATAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
10 1 0.03
11 9 0.30
14 1 0.03
15 13 0.43
16 6 0.20
ACGTcount: A:0.75, C:0.10, G:0.06, T:0.10
Consensus pattern (15 bp):
AGAAAAAAATCAAAC
Found at i:82845192 original size:21 final size:21
Alignment explanation
Indices: 82845168--82845208 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82845158 CTCATGCACG
*
82845168 TGTCCCTTGACCACATGGGCA
1 TGTCCCTTGACCACACGGGCA
*
82845189 TGTCCCTTGATCACACGGGC
1 TGTCCCTTGACCACACGGGC
82845209 GTGTGTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTCCCTTGACCACACGGGCA
Found at i:82846455 original size:21 final size:20
Alignment explanation
Indices: 82846415--82846476 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
82846405 CGAATATGCC
*
82846415 AACAGAAGCTCGAA-AGCTG
1 AACAGAAGCTCTAAGAGCTG
82846434 AACAGAAGCTCTTAAGAGCTG
1 AACAGAAGCTC-TAAGAGCTG
82846455 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTC-TAAGAGCTG
82846476 A
1 A
82846477 TCCACCCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 26 0.67
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (20 bp):
AACAGAAGCTCTAAGAGCTG
Found at i:82851564 original size:18 final size:18
Alignment explanation
Indices: 82851541--82851823 Score: 126
Period size: 18 Copynumber: 15.3 Consensus size: 18
82851531 GAATAATTAT
82851541 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
82851559 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
82851577 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
* *
82851595 TTATTCAGTATCGATTAATTGATCGG
1 TTATTCAGTA---A--CA--G-TCAG
* * *
82851621 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
*
82851639 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
82851656 ATATTCGGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
82851675 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
82851692 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
82851711 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
82851729 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
82851747 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
82851765 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
82851783 TTA-TCTGATAACAGTCAA
1 TTATTCAG-TAACAGTCAG
* *
82851801 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
82851819 TTATT
1 TTATT
82851824 TTATACCTTT
Statistics
Matches: 195, Mismatches: 52, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
17 19 0.10
18 142 0.73
19 19 0.10
21 2 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:82851583 original size:36 final size:36
Alignment explanation
Indices: 82851541--82851823 Score: 171
Period size: 36 Copynumber: 7.6 Consensus size: 36
82851531 GAATAATTAT
* *
82851541 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
82851577 TTATTCAATAATAACCAGTTATTCAGTATCGATTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
82851613 TTGATCGGTTATCCAGTAACAATCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * * *
82851657 -TATTCGGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
82851692 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
82851729 TTATTCAGTAATATTCAGTTATTTAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
82851766 -TATCCAGTAACAGTCAATTA-TCTGATAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAG-TAACAATCAA
*
82851801 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
82851824 TTATACCTTT
Statistics
Matches: 183, Mismatches: 46, Indels: 35
0.69 0.17 0.13
Matches are distributed among these distances:
35 11 0.06
36 126 0.69
37 19 0.10
42 2 0.01
43 5 0.03
44 20 0.11
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:82851660 original size:17 final size:18
Alignment explanation
Indices: 82851621--82851823 Score: 137
Period size: 18 Copynumber: 11.3 Consensus size: 18
82851611 AATTGATCGG
*
82851621 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
82851639 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* * *
82851657 -TATTCGGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
82851674 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
82851692 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
82851711 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
82851729 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
* *
82851747 TTATTTAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
82851766 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
82851783 TTA-TCTGATAACAGTCAA
1 TTATTCAG-TAACAATCAA
* *
82851801 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
82851819 TTATT
1 TTATT
82851824 TTATACCTTT
Statistics
Matches: 143, Mismatches: 32, Indels: 20
0.73 0.16 0.10
Matches are distributed among these distances:
17 21 0.15
18 106 0.74
19 16 0.11
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:82851749 original size:72 final size:71
Alignment explanation
Indices: 82851622--82851823 Score: 212
Period size: 72 Copynumber: 2.8 Consensus size: 71
82851612 ATTGATCGGT
* * *
82851622 TATCCAGTAACAATCAATTATTCAGTAAAATCAGA-TATTCGGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
82851686 CAGTC-AT
64 CAGTCTAA
* * * * *
82851693 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTTAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
82851758 CAGTCTAA
64 CAGTCTAA
* * * *
82851766 TATCCAGTAACAGTCAATTA-TCTGATAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAG-TAA-AATCAATTATTCAGTAATATTCAGTTATT
82851824 TTATACCTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 4 0.04
72 89 0.82
73 15 0.14
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:82852040 original size:45 final size:45
Alignment explanation
Indices: 82851991--82852185 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
82851981 ATCCGGAATA
* * * *
82851991 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
82852036 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCAAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
82852081 GTAACGGTAACAATAACAATATTTGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
82852126 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
82852171 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
82852186 GCGTTAACAG
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:82852618 original size:15 final size:16
Alignment explanation
Indices: 82852581--82852641 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
82852571 CAATACACAT
82852581 TTCAATT-AA-TCATAA
1 TTCAATTCAATTCA-AA
* * *
82852596 TTCCATTCCATTC-CA
1 TTCAATTCAATTCAAA
82852611 TTCAATTCAATTCAAA
1 TTCAATTCAATTCAAA
82852627 TTCAATTCAAATTCA
1 TTCAATTC-AATTCA
82852642 CTTTTCCACT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 18 0.50
16 10 0.28
17 8 0.22
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCAATTCAATTCAAA
Found at i:82852624 original size:5 final size:5
Alignment explanation
Indices: 82852594--82852641 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
82852584 AATTAATCAT
* * *
82852594 AATTC CATTC CATTC CATTC AATTC AATTC AAATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC -AATTC AATTC -AATTC A
82852642 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 29 0.74
6 10 0.26
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:82852630 original size:11 final size:11
Alignment explanation
Indices: 82852605--82852641 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
82852595 ATTCCATTCC
*
82852605 ATTCCATTC-A
1 ATTCAATTCAA
82852615 ATTCAATTCAA
1 ATTCAATTCAA
82852626 ATTCAATTCAA
1 ATTCAATTCAA
82852637 ATTCA
1 ATTCA
82852642 CTTTTCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAATTCAA
Found at i:82854020 original size:9 final size:10
Alignment explanation
Indices: 82854008--82854047 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
82853998 TGTTTTTCTT
82854008 TTTCATTTC-
1 TTTCATTTCA
82854017 TTTCATTTCA
1 TTTCATTTCA
82854027 TTT-ATTTC-
1 TTTCATTTCA
82854035 TTT-ATTTCA
1 TTTCATTTCA
82854044 TTTC
1 TTTC
82854048 TTTATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.29
9 17 0.61
10 3 0.11
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:82854025 original size:5 final size:5
Alignment explanation
Indices: 82854008--82854047 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
82853998 TGTTTTTCTT
82854008 TTTCA TTTC- TTTCA TTTCA TTT-A TTTC- TTT-A TTTCA TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
82854048 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.45
5 17 0.55
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTCA
Found at i:82854048 original size:13 final size:13
Alignment explanation
Indices: 82854012--82854054 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
82854002 TTTCTTTTTC
82854012 ATTTC-TTTCATTT
1 ATTTCATTTC-TTT
82854025 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
82854038 ATTTCATTTCTTT
1 ATTTCATTTCTTT
82854051 ATTT
1 ATTT
82854055 TATTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 15 0.56
14 8 0.30
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:82858332 original size:12 final size:12
Alignment explanation
Indices: 82858315--82858341 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
82858305 GTGTTCTTTA
82858315 TTTTATTTTATT
1 TTTTATTTTATT
82858327 TTTTATTTTATT
1 TTTTATTTTATT
82858339 TTT
1 TTT
82858342 CACATTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:82861369 original size:17 final size:18
Alignment explanation
Indices: 82861347--82861381 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
82861337 TTTTAGATGA
*
82861347 AAAAAATTATAA-AATTT
1 AAAAAATAATAATAATTT
82861364 AAAAAATAATAATAATTT
1 AAAAAATAATAATAATTT
82861382 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAATAATAATAATTT
Found at i:82868043 original size:16 final size:16
Alignment explanation
Indices: 82868022--82868074 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
82868012 GTTTAGTTCA
82868022 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
* *
82868038 CTGTAATTGAATAAAG
1 CTGTAATAGAATAGAG
*
82868054 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
82868070 CTGTA
1 CTGTA
82868075 GTCAGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:82868317 original size:58 final size:58
Alignment explanation
Indices: 82868255--82868378 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 58
82868245 TTTTAATAAG
* *
82868255 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
82868313 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
82868371 ATTATTAT
1 ATTATTAT
82868379 ATGAATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.37
58 37 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:82874472 original size:35 final size:35
Alignment explanation
Indices: 82874426--82874497 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
82874416 GAAGAGAAAC
82874426 GAATGTGTTTTTGTGGATTTGATAAATTGATGACT
1 GAATGTGTTTTTGTGGATTTGATAAATTGATGACT
*
82874461 GAATGTGTTTTTGTGGATTTGATTAATTGATGACT
1 GAATGTGTTTTTGTGGATTTGATAAATTGATGACT
82874496 GA
1 GA
82874498 CGTTTAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.03, G:0.26, T:0.46
Consensus pattern (35 bp):
GAATGTGTTTTTGTGGATTTGATAAATTGATGACT
Found at i:82878453 original size:55 final size:55
Alignment explanation
Indices: 82878380--82878484 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
82878370 CCCATGCTCA
*
82878380 ATTATGATATGTGCATAATGAAACTAGTAAGCATGATTATATACATGCATACCCT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
* * *
82878435 ATTATGATATGTGTATAATGAAACTAGTGAGCATGACTATGTACATGCAT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCAT
82878485 GCTCAATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (55 bp):
ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
Found at i:82878753 original size:59 final size:55
Alignment explanation
Indices: 82878615--82878755 Score: 140
Period size: 55 Copynumber: 2.5 Consensus size: 55
82878605 TTCATTATGA
* * * **
82878615 AACTAGTAAGCATCACTATGTACATGCATGCTCTATTTTGATATGTGCACTGTGT
1 AACTAGTGAGCATCACTATGTACATGCATGCTCTATTATGATATGTGCACTATAC
* * * * *
82878670 AACTAATGATCATCATTATGTACATGCATGC-CTTATTATGATATGTGTATTATAC
1 AACTAGTGAGCATCACTATGTACATGCATGCTC-TATTATGATATGTGCACTATAC
82878725 ACATTTCTAGTGAGCATCACTATGTACATGC
1 A-A---CTAGTGAGCATCACTATGTACATGC
82878756 TTGTTACATT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
54 1 0.01
55 44 0.65
56 1 0.01
59 22 0.32
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (55 bp):
AACTAGTGAGCATCACTATGTACATGCATGCTCTATTATGATATGTGCACTATAC
Found at i:82888665 original size:29 final size:28
Alignment explanation
Indices: 82888613--82888687 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
82888603 AAAAAATTAT
* *
82888613 AAACTTTTAAAATATT-ATTAAATATATAA
1 AAACATTTAAAA-ATTAATAAAATA-ATAA
82888642 AAA-ATTTAAAAAGTTAATAAAATAATAA
1 AAACATTTAAAAA-TTAATAAAATAATAA
82888670 AAACGATTTAAAAATTAA
1 AAAC-ATTTAAAAATTAA
82888688 GCCCATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 1 0.03
28 16 0.40
29 14 0.35
30 9 0.22
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAACATTTAAAAATTAATAAAATAATAA
Found at i:82888895 original size:19 final size:19
Alignment explanation
Indices: 82888868--82888911 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
82888858 TTTTAGCATA
82888868 TTTAAAAAATAAAAAATAT
1 TTTAAAAAATAAAAAATAT
* * *
82888887 TTTATAAAATAAATATTAT
1 TTTAAAAAATAAAAAATAT
82888906 TTTAAA
1 TTTAAA
82888912 TTTTAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAAAAAATAAAAAATAT
Found at i:82889015 original size:21 final size:21
Alignment explanation
Indices: 82888991--82889031 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82888981 TTTATTGATT
* *
82888991 TTTAATTTTTTTTTAAATTTA
1 TTTAATATTTTTATAAATTTA
82889012 TTTAATATTTTTATAAATTT
1 TTTAATATTTTTATAAATTT
82889032 TAATAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATATTTTTATAAATTTA
Found at i:82889033 original size:18 final size:20
Alignment explanation
Indices: 82889012--82889056 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
82889002 TTTAAATTTA
*
82889012 TTTAAT-AT-TTTTATAAAT
1 TTTAATAATGTTTTAGAAAT
82889030 TTTAATAATGTTTTAGAAAT
1 TTTAATAATGTTTTAGAAAT
82889050 TTATAAT
1 TT-TAAT
82889057 TCTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 11 0.48
21 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAATAATGTTTTAGAAAT
Found at i:82889070 original size:21 final size:21
Alignment explanation
Indices: 82889046--82889087 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
82889036 AATGTTTTAG
*
82889046 AAAT-TTATAATTCTTTTAAAA
1 AAATATTAAAATT-TTTTAAAA
82889067 AAATATTAAAATTTTTTAAAA
1 AAATATTAAAATTTTTTAAAA
82889088 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATTAAAATTTTTTAAAA
Found at i:82891055 original size:25 final size:27
Alignment explanation
Indices: 82891014--82891073 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
82891004 AAAGAAAAGT
**
82891014 ATTAT-AAAATCATTTTTGGA-TAAAA
1 ATTATAAAAATCATTTTTAAATTAAAA
*
82891039 ATTATAAAAATGA-TTTTAAATTTAAAA
1 ATTATAAAAATCATTTTTAAA-TTAAAA
82891066 ATTATAAA
1 ATTATAAA
82891074 TAAAAACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 6 0.21
27 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (27 bp):
ATTATAAAAATCATTTTTAAATTAAAA
Found at i:82902140 original size:14 final size:13
Alignment explanation
Indices: 82902120--82902146 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82902110 GAAAATGCTG
82902120 TAAAAAAAGTTAA
1 TAAAAAAAGTTAA
82902133 TAAAAAAAGTTAA
1 TAAAAAAAGTTAA
82902146 T
1 T
82902147 TTTAAGTATT
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
TAAAAAAAGTTAA
Found at i:82909051 original size:36 final size:37
Alignment explanation
Indices: 82908982--82909051 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
82908972 AAATTTAGAT
* *
82908982 ATATCATTATATTAAATTATTTAAATATTATTTACAA
1 ATATCATTATAGTAAATTATTTAAATATCATTTACAA
*
82909019 ATATTATTATAGTAAA-TATTTAAATATCATTTA
1 ATATCATTATAGTAAATTATTTAAATATCATTTA
82909052 TTATTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
ATATCATTATAGTAAATTATTTAAATATCATTTACAA
Found at i:82910096 original size:3 final size:3
Alignment explanation
Indices: 82910088--82910170 Score: 79
Period size: 3 Copynumber: 29.3 Consensus size: 3
82910078 CTTGGGCAGT
* *
82910088 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* *
82910130 AGA AGA AGA AAA AGA AGA AGA A-A AGA AGA A-A AGG AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
82910171 TAATAAGAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 11 0.17
3 54 0.83
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:82910147 original size:37 final size:36
Alignment explanation
Indices: 82910091--82910170 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 36
82910081 GGGCAGTAGA
* *
82910091 AGAAGAAGAGAAAAAGAAGAATAAGAGAAGAAACA-G
1 AGAAGAAGAGAAAAAGAAGAAGAAAAGAAGAAA-AGG
82910127 AGAAGAAGAAGAAAAAGAAGAAGAAAAGAAGAAAAGG
1 AGAAGAAG-AGAAAAAGAAGAAGAAAAGAAGAAAAGG
82910164 AGAAGAA
1 AGAAGAA
82910171 TAATAAGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 9 0.22
37 31 0.77
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (36 bp):
AGAAGAAGAGAAAAAGAAGAAGAAAAGAAGAAAAGG
Found at i:82910159 original size:11 final size:11
Alignment explanation
Indices: 82910090--82910159 Score: 64
Period size: 11 Copynumber: 6.7 Consensus size: 11
82910080 TGGGCAGTAG
82910090 AAGAAGAAGAGA
1 AAGAAGAAGA-A
82910102 AA-AAGAAGAA
1 AAGAAGAAGAA
82910112 TAAG-AGAAGAA
1 -AAGAAGAAGAA
82910123 ACAG-AGAAG--
1 A-AGAAGAAGAA
82910132 AAGAAG-A-AA
1 AAGAAGAAGAA
82910141 AAGAAGAAGAA
1 AAGAAGAAGAA
82910152 AAGAAGAA
1 AAGAAGAA
82910160 AAGGAGAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.06
9 9 0.18
10 3 0.06
11 33 0.66
12 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (11 bp):
AAGAAGAAGAA
Found at i:82910313 original size:16 final size:16
Alignment explanation
Indices: 82910292--82910322 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82910282 AACATTATGA
*
82910292 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
82910308 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
82910323 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:82912058 original size:21 final size:21
Alignment explanation
Indices: 82912017--82912059 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
82912007 CAACGTGGCA
*
82912017 AGTTAACTGGCCACATTAGCT
1 AGTTAACTGGCCACATCAGCT
* *
82912038 AGTTAATTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
82912059 A
1 A
82912060 TCCCGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:82918143 original size:5 final size:5
Alignment explanation
Indices: 82918133--82918217 Score: 170
Period size: 5 Copynumber: 17.0 Consensus size: 5
82918123 AATAATTAAG
82918133 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
82918183 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
82918218 ATAAAAGAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 80 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:82918922 original size:45 final size:45
Alignment explanation
Indices: 82918851--82918957 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
82918841 CGACTACTGT
* * *
82918851 TACTATTACCATTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
82918896 TATTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
82918941 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
82918958 ATACTGCTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:82918963 original size:18 final size:18
Alignment explanation
Indices: 82918940--82918982 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
82918930 TGTGTGTTGA
* *
82918940 ATACTGTTACTGTTACTG
1 ATACTGCTACCGTTACTG
82918958 ATACTGCTACCGTTACTG
1 ATACTGCTACCGTTACTG
82918976 ATTACTG
1 A-TACTG
82918983 ATTAGGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (18 bp):
ATACTGCTACCGTTACTG
Found at i:82919733 original size:14 final size:13
Alignment explanation
Indices: 82919709--82919742 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
82919699 CGAAATTTAT
82919709 AAATAAATAAATA
1 AAATAAATAAATA
82919722 AAATAGAATAAATA
1 AAATA-AATAAATA
82919736 AAA-AAAT
1 AAATAAAT
82919743 TGGAGCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 6 0.30
14 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:82925054 original size:5 final size:5
Alignment explanation
Indices: 82925044--82925131 Score: 176
Period size: 5 Copynumber: 17.6 Consensus size: 5
82925034 TTAAGTATAT
82925044 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
82925094 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
82925132 AAAAGAAACA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 83 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:82925779 original size:12 final size:12
Alignment explanation
Indices: 82925762--82925786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82925752 GCCGACTACT
82925762 GTTACTGTTACC
1 GTTACTGTTACC
82925774 GTTACTGTTACC
1 GTTACTGTTACC
82925786 G
1 G
82925787 ATTCGTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:82925817 original size:45 final size:45
Alignment explanation
Indices: 82925764--82925870 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
82925754 CGACTACTGT
* *
82925764 TACTGTTACCGTTACTGTTACCGATTC-GTCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTCTGTGTCGAA
* * *
82925809 TATTGTTACCATTACTGTTACAGATTCAGCACTTTCTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
*
82925854 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
82925871 ATACTGCTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
Found at i:82927599 original size:13 final size:13
Alignment explanation
Indices: 82927567--82927612 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
82927557 AAATTTTAAA
82927567 ATAA-TAATAATT
1 ATAATTAATAATT
82927579 AATAATTAATAATT
1 -ATAATTAATAATT
*
82927593 ATCATT-ATAAATT
1 ATAATTAAT-AATT
82927606 ATAATTA
1 ATAATTA
82927613 CAATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:82930342 original size:15 final size:15
Alignment explanation
Indices: 82930322--82930351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82930312 CAATTTGGGC
*
82930322 CGTGTGGGCTACATG
1 CGTGTGGGCCACATG
82930337 CGTGTGGGCCACATG
1 CGTGTGGGCCACATG
82930352 GGCATGTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.23
Consensus pattern (15 bp):
CGTGTGGGCCACATG
Found at i:82937128 original size:97 final size:97
Alignment explanation
Indices: 82936971--82937233 Score: 294
Period size: 97 Copynumber: 2.7 Consensus size: 97
82936961 TCAATCCACT
* ** * *
82936971 CCACTGTAACTTCAGGGAACTAAGATTTGCTATCTTCAGTCTGCTCATACTGCAATTTCAGGGAG
1 CCACTGTAACTTCAGGGAAATAAGATCCGCTATCTTCAGTCTGCTCATACTGCAACTTCAGAGAG
82937036 ATAAGACTCGCAACTTTTAGCTTCAAGCTGCC
66 ATAAGACTCGCAACTTTTAGCTTCAAGCTGCC
* * * **
82937068 CCACTGTAACTTTAGGGAAATAAGATCCGCTATCTTTAGTCTGCTCCTACTTTAACTTCAGAGAG
1 CCACTGTAACTTCAGGGAAATAAGATCCGCTATCTTCAGTCTGCTCATACTGCAACTTCAGAGAG
* * * *
82937133 ATAGGGCTCGCAACTTTTAGCTTCAAGCTACT
66 ATAAGACTCGCAACTTTTAGCTTCAAGCTGCC
* ** * * ** * * * *
82937165 TCACTACAACCTCAGGGAAATGAGATTTGCTATCTTCAGTCTACTC-TGCTGCAACTTTAGGGAG
1 CCACTGTAACTTCAGGGAAATAAGATCCGCTATCTTCAGTCTGCTCATACTGCAACTTCAGAGAG
82937229 ATAAG
66 ATAAG
82937234 GCTGGTGGCT
Statistics
Matches: 136, Mismatches: 30, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
96 17 0.12
97 119 0.88
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (97 bp):
CCACTGTAACTTCAGGGAAATAAGATCCGCTATCTTCAGTCTGCTCATACTGCAACTTCAGAGAG
ATAAGACTCGCAACTTTTAGCTTCAAGCTGCC
Found at i:82938597 original size:27 final size:27
Alignment explanation
Indices: 82938556--82938609 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
82938546 TGTCTTGTGA
* *
82938556 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
82938583 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
82938610 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:82939011 original size:50 final size:49
Alignment explanation
Indices: 82938863--82939092 Score: 248
Period size: 50 Copynumber: 4.7 Consensus size: 49
82938853 TGAGGTTACC
* *
82938863 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* * * * * * *
82938912 TGTGTAGTACTAAGTGCA-ACTACTATGCGTA-CTTGACAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATAA-TT-GGTCACA
** *
82938962 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACA
* * * *
82939012 TGTATAGTACTAAATGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* *
82939061 TGTGTAGTACTAAGTGCAGGTTACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
82939093 CCAAATAGCC
Statistics
Matches: 148, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.01
48 14 0.09
49 53 0.36
50 67 0.45
51 12 0.08
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
Found at i:82939065 original size:99 final size:99
Alignment explanation
Indices: 82938863--82939095 Score: 265
Period size: 99 Copynumber: 2.4 Consensus size: 99
82938853 TGAGGTTACC
* * *
82938863 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
* * *
82938928 CAACTACTATGCGTACTTGACAACTTCGATCACG
66 CAACTACTACGCGTACTGGACAACTTCGATCACA
* ** *
82938962 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTATAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTATAGTACTAAAT
* * * * *
82939027 GCAGGCTACTACGTGTA-TCGGATAA-TT-GGTCGCA
65 GCA-ACTACTACGCGTACT-GGACAACTTCGATCACA
* *
82939061 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
82939096 AATAGCCTTG
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
99 75 0.66
100 24 0.21
101 14 0.12
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
CAACTACTACGCGTACTGGACAACTTCGATCACA
Found at i:82941062 original size:89 final size:88
Alignment explanation
Indices: 82940833--82941073 Score: 256
Period size: 90 Copynumber: 2.7 Consensus size: 88
82940823 TGCTCTACTG
* *
82940833 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATT
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* *
82940898 TTCCATATTTTAGCTACTCCATTTG
66 TT-C-TATTTTAGCTACTCCATCTA
* ** * * ** *
82940923 CAACTTCAAGGAGATAAGGTCT--TCAACTTCAATCTGCTCCACTGTTACTTCAGGAAGATGAGA
1 CAACTTCAGGGAGATAAGG-CTGGT-GGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGA
*
82940986 TTTGT-TGTCTTTAGTCTACTCC-TCTA
64 TTT-TCTAT-TTTAG-CTACTCCATCTA
* *
82941012 CAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAG
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
82941074 GTTCGCCATA
Statistics
Matches: 122, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
88 4 0.03
89 56 0.46
90 59 0.48
91 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (88 bp):
CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
TTCTATTTTAGCTACTCCATCTA
Found at i:82941085 original size:179 final size:178
Alignment explanation
Indices: 82940833--82941165 Score: 504
Period size: 179 Copynumber: 1.9 Consensus size: 178
82940823 TGCTCTACTG
*
82940833 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
** * * * *
82940898 TTCCATATTTTAGCTACTCCATTTGCAACTTCAAGGAGATAAGGTCTTCAACTTCAATCTGCTCC
66 CGCCATATTTGAGCTACTCCA-CTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCC
* *
82940963 ACTGTTACTTCAGGAAGATGAGATTTGTTGTCTTTAGTCTACTCCTCTA
130 ACTGCTACTTCAGGAAGATAAGATTTGTTGTCTTTAGTCTACTCCTCTA
* * * *
82941012 CAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGGTT
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* * *
82941077 CGCCATATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTTCCT
66 CGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCA
*
82941142 TTGCTACTTCAGGAAGATAAGATT
131 CTGCTACTTCAGGAAGATAAGATT
82941166 GGTGGCTTAA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
178 60 0.44
179 77 0.56
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (178 bp):
CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
CGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCA
CTGCTACTTCAGGAAGATAAGATTTGTTGTCTTTAGTCTACTCCTCTA
Found at i:82941093 original size:89 final size:88
Alignment explanation
Indices: 82940830--82941118 Score: 285
Period size: 89 Copynumber: 3.2 Consensus size: 88
82940820 GTTTGCTCTA
* * *
82940830 CTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAG
1 CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
* *
82940895 ATTTTCCATATTTTAGCTACTCCAT
66 ATTTGCCATA-TTTATCTACTCC-T
* ** * * ** *
82940920 TTGCAACTTCAAGGAGATAAGGTCT--TCAACTTCAATCTGCTCCACTGTTACTTCAGGAAGATG
1 CTGCAACTTCAAGGAGATAAGG-CTGGT-GGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATA
*** *
82940983 AGATTTGTTGTCTTTAGTCTACTCCT
64 AGATTTGCCATATTTA-TCTACTCCT
* * * *
82941009 CTACAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
* * *
82941074 GTTCGCCATATTTGATCTACTCCA
66 ATTTGCCATATTT-ATCTACTCCT
*
82941098 CTGCAAATTCAAGGAGATAAG
1 CTGCAACTTCAAGGAGATAAG
82941119 ATCTTCAACT
Statistics
Matches: 155, Mismatches: 38, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
88 2 0.01
89 88 0.57
90 63 0.41
91 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (88 bp):
CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAG
ATTTGCCATATTTATCTACTCCT
Found at i:82941135 original size:89 final size:87
Alignment explanation
Indices: 82940859--82941165 Score: 278
Period size: 89 Copynumber: 3.4 Consensus size: 87
82940849 AGACTGGTGG
* * * * *
82940859 CTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATTTTCCATATTTTAGCTACTCCATTTGC
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATA-TTTATCTACTCCA-CTGC
82940924 AACTTCAAGGAGATAAGGTCTTCAA
64 AACTTCAAGGAGATAA-GTCTTCAA
* * ** * *** * * *
82940949 CTTCAATCTGCTCCACTGTTACTTCAGGAAGATGAGATTTGTTGTCTTTAGTCTACTCCTCTACA
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTTA-TCTACTCCACTGCA
* * **
82941014 ACTTCAGGGAGATAAGGCTGGT-GG
65 ACTTCAAGGAGATAAGTCT--TCAA
* * *
82941038 CTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGGTTCGCCATATTTGATCTACTCCACTGCA
1 CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTT-ATCTACTCCACTGCA
*
82941103 AATTCAAGGAGATAAGATCTTCAA
65 ACTTCAAGGAGATAAG-TCTTCAA
*
82941127 CTTCAATCTG-TTC-CTTTGCTACTTCAGGAAGATAAGATT
1 CTTCAATCTGCTTCGC--TGCAACTTCAGGAAGATAAGATT
82941166 GGTGGCTTAA
Statistics
Matches: 168, Mismatches: 41, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
87 1 0.01
88 7 0.04
89 114 0.68
90 46 0.27
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (87 bp):
CTTCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTTGCCATATTTATCTACTCCACTGCAA
CTTCAAGGAGATAAGTCTTCAA
Found at i:82941360 original size:261 final size:262
Alignment explanation
Indices: 82941017--82941513 Score: 617
Period size: 261 Copynumber: 1.9 Consensus size: 262
82941007 CTCTACAACT
* * * * * * *
82941017 TCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGGTTCGCCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
* * * **
82941082 TATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAA-CTTCAAT-CTGTTCCTTTG
66 TATTTGATCTACTCCACTGC-AACTCAAGGAGATAAGATCTGCAACCTTC-ATCCTGCTCCACTG
* * * *
82941145 CTACTTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTCC-CTA-CTCGGGAAGATAAGATTC-
129 CTACTT-AGGAAGACAAGACTAGTGGCTTAAATCTGCTTCCACTACCTCAGGAAGATAAGATTCA
* * *
82941207 GCAGTCTTCGATCTAGTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCAT
193 CCA-TCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCAT
82941272 TGTTGC
257 TGTTGC
* * * * *
82941278 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGTATGATAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
* * *
82941343 TCTTTGATCTGCTCCACTGCTACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
66 TATTTGATCTACTCCACTGCAACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
* * * *
82941408 GCTTAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATATGATTCACC
131 ACTTAGGAAGACAAGACTAGTGGCTTAAATCTGCTTCC-ACTACCTCAGGAAGATAAGATTCACC
* *
82941473 ATCTTCGATCTACTTCACTACTACTTAGGGAGATAAGATCT
195 ATCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCT
82941514 TTGAATTCAC
Statistics
Matches: 197, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
260 52 0.26
261 88 0.45
262 3 0.02
263 52 0.26
264 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (262 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
TATTTGATCTACTCCACTGCAACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
ACTTAGGAAGACAAGACTAGTGGCTTAAATCTGCTTCCACTACCTCAGGAAGATAAGATTCACCA
TCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCATTGTT
GC
Found at i:82941374 original size:132 final size:129
Alignment explanation
Indices: 82941017--82941514 Score: 473
Period size: 132 Copynumber: 3.8 Consensus size: 129
82941007 CTCTACAACT
* * * * * * *
82941017 TCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCGCTGCAACTTCAGGAAGATAAGGTTCGCCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC-CTACTACCTCAGGAAGATAAGATTCACCA
* * * * * * * *
82941082 TATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTTCCTTTGCT
65 TCTTCGATCTACTCCACTAC-TACTCAAGGAGATAAGATCTT-AACTTCAACCTGCTCCATTGCT
*
82941147 AC
128 GC
* ** * * *
82941149 TTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTCC--CTA-CTCGGGAAGATAAGATTC-GCA
1 -TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCA
* * * * * * *
82941210 GTCTTCGATCTAGTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCATTGT
65 -TCTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCT-TAA-CTTCAACCTGCTCCATTGC
82941275 TGC
127 TGC
* * * *
82941278 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGTATGATAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTT-CCTACTACCTCAGGAAGATAAGATTCACCA
* * * * * *
82941343 TCTTTGATCTGCTCCACTGCTACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
65 TCTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCT-TAA-CTTCAACCTGCTCCATTGCT
82941408 GC
128 GC
* * *
82941410 TTAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATATGATTCACCAT
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCAT
* * *
82941475 CTTCGATCTACTTCACTACTACTTAGGGAGATAAGATCTT
66 CTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCTT
82941515 TGAATTCACC
Statistics
Matches: 295, Mismatches: 62, Indels: 19
0.78 0.16 0.05
Matches are distributed among these distances:
128 48 0.16
129 50 0.17
130 2 0.01
131 62 0.21
132 101 0.34
133 32 0.11
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (129 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCAT
CTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCTTAACTTCAACCTGCTCCATTGCTGC
Found at i:82948403 original size:52 final size:53
Alignment explanation
Indices: 82948314--82948442 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 53
82948304 TTACCATATC
82948314 AGACCATAGCTGGGCTATGGCATCAGTGCATTATGAT-ATGTA-CTCCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCT-CCGTATA
* * * *
82948366 AGACCATGGCTGGGCTATGGCATCAGTAGGA-TGTGATAATGTGCCTCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGT-GCATTATGATAATGTACCTCCGTATA
** *
82948419 AGACCATATTTGGGATATGGCATC
1 AGACCATAGCTGGGCTATGGCATC
82948443 GGTATGATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 31 0.47
53 33 0.50
54 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (53 bp):
AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCTCCGTATA
Found at i:82949883 original size:38 final size:38
Alignment explanation
Indices: 82949832--82949976 Score: 166
Period size: 38 Copynumber: 3.8 Consensus size: 38
82949822 AAAGGCCCGA
* *
82949832 ATATAATACCAGCACTAGGCCTACAGGATTTAACCCAG
1 ATATAATACCAGCACTAAGCCTACGGGATTTAACCCAG
*
82949870 ATATAATACCAGCA-TGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACT-AAGCCTACGGGATTTAACCCAG
* * * *
82949908 ATATATTACCAGCACGAAGCCTATGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTACGGGATTTAACCCAG
* * * * *
82949946 TTATATTACTAGCACAAAGCCTGCGGGATTT
1 ATATAATACCAGCACTAAGCCTACGGGATTT
82949977 TAAGCCCGGA
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 91 0.99
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTACGGGATTTAACCCAG
Found at i:82949922 original size:76 final size:76
Alignment explanation
Indices: 82949832--82949976 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
82949822 AAAGGCCCGA
* * **
82949832 ATATAATACCAGCACTAGGCCTACAGGATTTAACCCAGATATAATACCAGCATGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACAGGATTTAACCCAGATATAATACCAGCACAAAGCCTGCGGG
82949897 ATTTAACCCAG
66 ATTTAACCCAG
* ** * * * *
82949908 ATATATTACCAGCACGAAGCCTATGGGATTTAACCCGGTTATATTACTAGCACAAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACAGGATTTAACCCAGATATAATACCAGCACAAAGCCTGCGGG
82949973 ATTT
66 ATTT
82949977 TAAGCCCGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTACAGGATTTAACCCAGATATAATACCAGCACAAAGCCTGCGGG
ATTTAACCCAG
Found at i:82955460 original size:46 final size:43
Alignment explanation
Indices: 82955364--82955492 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 43
82955354 CTTTTATTCA
* * * *
82955364 TTCACCGGCATT-TCGCCTACTAGGCTC-GAGGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-ATAAT
82955406 TTCACCGGCATTATAGCCTGCTAGGCTCAAAAGGCCCGAATAAT
1 TTCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAAT
*
82955450 GTCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 -T-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
82955493 TAATACCAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
42 12 0.16
43 13 0.17
44 4 0.05
45 22 0.29
46 26 0.34
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT
Found at i:82955541 original size:38 final size:38
Alignment explanation
Indices: 82955485--82955647 Score: 191
Period size: 38 Copynumber: 4.2 Consensus size: 38
82955475 GGCTCAAAGG
* * *
82955485 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* * *
82955523 CCCGGATATAATACCAGCATGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* * *
82955561 CCCGGATATATTACCTGCACGAAGCTTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* * * *
82955599 CCTGGTTATATTACCAGCACGAAGCCTGCGGGATTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGA-TTTAA
82955638 GCCCGGATAT
1 -CCCGGATAT
82955648 CATATTTCGA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
38 94 0.89
39 5 0.05
40 7 0.07
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:82978874 original size:16 final size:16
Alignment explanation
Indices: 82978826--82978877 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
82978816 TTTGGTTCGC
82978826 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
82978842 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
82978858 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
82978874 TGTA
1 TGTA
82978878 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:82978942 original size:44 final size:45
Alignment explanation
Indices: 82978858--82978948 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
82978848 GGATTAGAGG
* * *
82978858 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
82978903 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
82978947 TG
1 TG
82978949 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:82979134 original size:18 final size:17
Alignment explanation
Indices: 82979113--82979147 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
82979103 TTATTATTAA
*
82979113 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
82979131 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
82979148 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:82979323 original size:14 final size:15
Alignment explanation
Indices: 82979304--82979336 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
82979294 CTTTATTCTT
*
82979304 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
82979318 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
82979333 AAAA
1 AAAA
82979337 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:82979804 original size:58 final size:58
Alignment explanation
Indices: 82979681--82979819 Score: 197
Period size: 59 Copynumber: 2.4 Consensus size: 58
82979671 AAAGTTGCTA
* * *
82979681 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGAAACCACAAGCCACAACAACCAGCATGTCAAGGATTAAATT
* * *
82979739 TGTTTTGGCACTAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-AAACCACAAGCCACAACAACCAGCATGTCAAGGATTAAATT
* *
82979798 TGTTTGGGCACTAAAAGCAACC
1 TGTTTTGGCACTAAAAGAAACC
82979820 GCAATCGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 21 0.29
59 51 0.71
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGAAACCACAAGCCACAACAACCAGCATGTCAAGGATTAAATT
Found at i:82986290 original size:40 final size:40
Alignment explanation
Indices: 82986204--82986338 Score: 162
Period size: 41 Copynumber: 3.3 Consensus size: 40
82986194 GCATTTTGAC
* * * * *
82986204 AACGCTGCTAAAAACTGAGCAATAGCGGCAGTTTTTGTTAA
1 AACGCCGCTAAAAACAGAGCATTAGCGGC-GCTTTTGGTAA
*
82986245 AACGCCGCTAAAAACAGAGCATTAGTGGCGCTTTTGGTAA
1 AACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAA
* * *
82986285 AACGCCGCTAAAGACGAGAGCATTGGCGGTGCTTTTGGTAA
1 AACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTGGTAA
*
82986326 AACGCCACTAAAA
1 AACGCCGCTAAAA
82986339 GTCATGTAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 23 0.28
41 58 0.72
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (40 bp):
AACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAA
Found at i:82986977 original size:24 final size:24
Alignment explanation
Indices: 82986950--82986998 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
82986940 CATATATTTA
82986950 TTAAAAGTT-TATATAAAAATTAAT
1 TTAAAA-TTCTATATAAAAATTAAT
82986974 TTAAAATTCTATATAAAAATTAAT
1 TTAAAATTCTATATAAAAATTAAT
82986998 T
1 T
82986999 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAAATTCTATATAAAAATTAAT
Found at i:82987368 original size:22 final size:22
Alignment explanation
Indices: 82987357--82987396 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
82987347 AATCATTGAT
82987357 AAATAAATAAATAAAACATTAA
1 AAATAAATAAATAAAACATTAA
82987379 AAATAAAT-AA-AAAACATT
1 AAATAAATAAATAAAACATT
82987397 TGATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAATAAATAAAACATTAA
Found at i:82987857 original size:14 final size:13
Alignment explanation
Indices: 82987808--82987859 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
82987798 TTAATTTTTT
82987808 TATTTATAAAAACCA
1 TATTTATAAAAA--A
82987823 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
82987835 TAGTAATAAAAAA
1 TATTTATAAAAAA
82987848 TATTTTATAAAA
1 TA-TTTATAAAA
82987860 TTACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:82990020 original size:81 final size:81
Alignment explanation
Indices: 82989923--82990073 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
82989913 TACCTTTTTG
* * * * * *
82989923 AATTTGTGATAGATTTTCAGTGGG-AATTTATTG-ATATTCTTTGTCACTTACTTGTGTATCTTG
1 AATTTGTAATAAATTTTCAGTGGGAAAATT-TTGCAGA-TCTTTATCACATACTTGTGTATCTTG
82989986 GCTGTTGGTACATTGTTT
64 GCTGTTGGTACATTGTTT
* *
82990004 AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATGTTTATCACATGCTTGTGTATCTTGGC
1 AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATCTTTATCACATACTTGTGTATCTTGGC
82990069 TGTTG
66 TGTTG
82990074 ACTTCAGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 54 0.90
82 6 0.10
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (81 bp):
AATTTGTAATAAATTTTCAGTGGGAAAATTTTGCAGATCTTTATCACATACTTGTGTATCTTGGC
TGTTGGTACATTGTTT
Found at i:82992482 original size:19 final size:19
Alignment explanation
Indices: 82992459--82992505 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
82992449 ATTTAATCTA
*
82992459 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
82992477 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
82992497 ATTTTTATT
1 ATTTTTATT
82992506 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:82993632 original size:27 final size:26
Alignment explanation
Indices: 82993584--82993714 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 26
82993574 GCGAGGCTAC
* *
82993584 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
82993610 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* * *
82993637 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
* *
82993664 CAGATATATGTGG-TGAGCAACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
82993690 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
82993715 GACGCTTCCT
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
26 26 0.30
27 59 0.69
28 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:82993667 original size:53 final size:54
Alignment explanation
Indices: 82993602--82993714 Score: 176
Period size: 53 Copynumber: 2.1 Consensus size: 54
82993592 GTGACGAAGT
*
82993602 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATACAGATATATGTGG-AGAGCAACCAGATCAGATAATCGTGGCATAGC
* *
82993656 CACCAGA-ACAGATATATGTGGTGAGCAACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATACAGATATATGTGGAGAGCAACCAGATCAGATAATCGTGGCATAGC
82993709 CACCAG
1 CACCAG
82993715 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
53 43 0.78
54 12 0.22
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATACAGATATATGTGGAGAGCAACCAGATCAGATAATCGTGGCATAGC
Found at i:82993882 original size:28 final size:26
Alignment explanation
Indices: 82993820--82993882 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
82993810 AAAGTAACCC
** * *
82993820 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
82993846 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
82993874 TAGGGGTAT
1 TAGGGGTAT
82993883 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:82995346 original size:26 final size:26
Alignment explanation
Indices: 82995315--82995422 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
82995305 TGAAATGCCC
*
82995315 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
82995341 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
82995367 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
82995393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
82995419 ATCA
1 ATCA
82995423 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83000659 original size:27 final size:27
Alignment explanation
Indices: 83000611--83000766 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 27
83000601 GCGAGGCTGC
* *
83000611 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
83000638 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
83000664 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83000691 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
83000718 TAGATATATGTGGCAGAGCAACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83000745 CGGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
83000767 TAGGATGCTT
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
26 10 0.09
27 92 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:83000704 original size:54 final size:54
Alignment explanation
Indices: 83000629--83000766 Score: 206
Period size: 54 Copynumber: 2.6 Consensus size: 54
83000619 GTGACGAAGT
* *
83000629 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
83000683 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
83000737 AACCAGATCGGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
83000767 TAGGATGCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 5 0.07
54 71 0.93
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:83000937 original size:28 final size:26
Alignment explanation
Indices: 83000875--83000937 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
83000865 AAAGTAACCC
** * *
83000875 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
83000901 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
83000929 TAGGGGTAT
1 TAGGGGTAT
83000938 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:83002408 original size:26 final size:26
Alignment explanation
Indices: 83002377--83002484 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83002367 TGAAATGCCC
*
83002377 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
83002403 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
83002429 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
83002455 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83002481 ATCA
1 ATCA
83002485 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83005246 original size:6 final size:6
Alignment explanation
Indices: 83005216--83005303 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
83005206 AAGAAACATT
* * * *
83005216 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
83005265 ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
83005304 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:83005270 original size:25 final size:25
Alignment explanation
Indices: 83005237--83005303 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
83005227 AATCAAAATG
* *
83005237 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
83005262 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
83005287 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
83005304 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:83005461 original size:27 final size:26
Alignment explanation
Indices: 83005421--83005528 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 26
83005411 AGCATAACTG
*
83005421 CCAGAACAGATATTGTGGCAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
83005447 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
83005474 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
83005501 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
83005528 C
1 C
83005529 TTAACAGAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
26 12 0.16
27 55 0.73
28 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:83005715 original size:22 final size:22
Alignment explanation
Indices: 83005687--83005751 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
83005677 GTAAATACGT
* *
83005687 TTGGCACACATCCATAATCAGG
1 TTGGCACAGAGCCATAATCAGG
*
83005709 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAGAGCCATAAT-CAGG
83005731 TTGGCACAGAGCCATAATCAG
1 TTGGCACAGAGCCATAATCAG
83005752 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATCAGG
Found at i:83006157 original size:27 final size:27
Alignment explanation
Indices: 83006127--83006189 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
83006117 AGGGGCAAAA
83006127 TGGTAATTTTGCTAATCGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
* *
83006154 TGGTAATTTTTCTAATTGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
**
83006181 CAGTAATTT
1 TGGTAATTT
83006190 GGTAAACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (27 bp):
TGGTAATTTTGCTAATCGAGGGTATTT
Found at i:83008249 original size:25 final size:25
Alignment explanation
Indices: 83008188--83008279 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
83008178 AATCAAAATG
* * * *
83008188 AGAATAAGAATCAAAATCAGGTGAC
1 AGAATCAGAATTAGAATTAGGTGAC
*
83008213 AGGATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATTAGAATTAGGTGAC
* * *
83008238 AAAATCAGAATTAGTATTAGGTAAC
1 AGAATCAGAATTAGAATTAGGTGAC
* *
83008263 AGAATTAGAATCAGAAT
1 AGAATCAGAATTAGAAT
83008280 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.23
Consensus pattern (25 bp):
AGAATCAGAATTAGAATTAGGTGAC
Found at i:83008434 original size:27 final size:26
Alignment explanation
Indices: 83008397--83008504 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
83008387 AGTATGGCTG
* *
83008397 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
83008423 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
* *
83008450 CCAGAACAGGTATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGCCA
*
83008477 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAAAGCCA
83008504 C
1 C
83008505 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 54 0.75
28 7 0.10
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:83008530 original size:54 final size:55
Alignment explanation
Indices: 83008413--83008530 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 55
83008403 CAGATATTGT
* * * * **
83008413 GACAAAGTCACCAGATACAGATATTGTGGCAAAGCCACCAGAACAGGTATTTGTG
1 GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
* **
83008468 G-CATAGCCACCAGAAACAGATAATGTGGCAAAGCCA-CTTAACA-GAATACGTG
1 GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
83008520 GCACAAAGCCA
1 G-ACAAAGCCA
83008531 TCGATAACTG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
52 7 0.14
53 5 0.10
54 38 0.75
55 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (55 bp):
GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
Found at i:83008697 original size:22 final size:22
Alignment explanation
Indices: 83008665--83008727 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
83008655 AAATACGTTA
*
83008665 GGCACACAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
* *
83008687 GGCACAGAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
83008709 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
83008728 AATAATTGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:83009132 original size:27 final size:27
Alignment explanation
Indices: 83009102--83009245 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
83009092 GGGGCAAAAT
* *
83009102 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
83009129 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
83009156 GAT-ATTTCTACCCTAAAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
83009183 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * * *
83009210 AATAATTCTACCCTATAATGATATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
83009237 GGTAATTTT
1 GGTAATTTT
83009246 GTAAATCGAG
Statistics
Matches: 93, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
26 3 0.03
27 86 0.92
28 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:83009223 original size:54 final size:54
Alignment explanation
Indices: 83009104--83009245 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
83009094 GGCAAAATGG
* * * * * * *
83009104 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGA
1 TAATTCTACCCTAAAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
* *
83009158 TATTTCTACCCTAAAAGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTAAAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
* * *
83009212 TAATTCTACCCTATAATGATATTTCGGTAATTTT
1 TAATTCTACCCTAAAAGGGTATTTCGGTAATTTT
83009246 GTAAATCGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (54 bp):
TAATTCTACCCTAAAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
Found at i:83009312 original size:27 final size:26
Alignment explanation
Indices: 83009282--83009477 Score: 176
Period size: 27 Copynumber: 7.3 Consensus size: 26
83009272 TGTAAATTGG
* *
83009282 GGGTACTTTGGTAATTTTACAAGTTGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
** * *
83009309 GGGTATTTCAGTAATTTTACAGGTTGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
* * *
83009336 GGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTAC-AATCGA
* * * *
83009363 TGATATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAATCGA
* *
83009389 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAATCGA
*
83009416 GAGGTATTTTGGTAATTTTGCTAATCGA
1 G-GGTATTTTGGTAATTTTAC-AATCGA
*
83009444 GGGTATTTTGGTAATTTTTCTAATCGA
1 GGGTATTTTGGTAATTTTAC-AATCGA
83009471 GGGTATT
1 GGGTATT
83009478 CAGTAATTTT
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
26 5 0.04
27 131 0.92
28 6 0.04
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:83009422 original size:81 final size:80
Alignment explanation
Indices: 83009288--83009513 Score: 213
Period size: 81 Copynumber: 2.8 Consensus size: 80
83009278 TTGGGGGTAC
* * *****
83009288 TTTGGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAGGTTGAGGGTATTTTAGTAATTT
1 TTTGGTAATTTTACAAATAGAGGGTA-TTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
*
83009353 CACAAATCAATGATAT
65 CACAAATCAAGGATAT
** *
83009369 TTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAA-TAGAGGGTA-TTCAGTAATTTTACAAACCAAG-GGTATTTTAGTAAT
** * * *
83009432 TTTGCTAATCGAGGGTAT
63 TTCACAAATCAAGGATAT
* * * **
83009450 TTTGGTAATTTTTCTAATCGAGGGTATTCAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 TTTGGTAATTTTACAAATAGAGGGTATTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
83009514 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
80 34 0.29
81 82 0.69
82 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (80 bp):
TTTGGTAATTTTACAAATAGAGGGTATTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTC
ACAAATCAAGGATAT
Found at i:83009476 original size:54 final size:52
Alignment explanation
Indices: 83009282--83009513 Score: 171
Period size: 54 Copynumber: 4.3 Consensus size: 52
83009272 TGTAAATTGG
* * * *
83009282 GGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTTACAGGTTGA
1 GGGTATTTTGGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTTACA-ATCGA
* * * * * ** * *
83009336 GGGTATTTTAGTAATTTCACAAATCAATGATATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTACAATCGA
* * ** *
83009389 GGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTTTGCTAATCGA
1 -GGGTATTTTGGTAATTTTACAATCGAG-GGTATTTCAGTAATTTTAC-AATCGA
* * *
83009444 GGGTATTTTGGTAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTA-AACCAA
1 GGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTCAGTAA-TTT-TACAATCGA
*
83009497 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
83009514 GGTAAACTAA
Statistics
Matches: 140, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
53 31 0.22
54 97 0.69
55 12 0.09
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAATCGA
Found at i:83009499 original size:26 final size:27
Alignment explanation
Indices: 83009470--83009520 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
83009460 TTTCTAATCG
*
83009470 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTGGTAAACCA
*
83009496 AGGGTATTTTAGTAATTTGGTAAAC
1 AGGGTATTTCAGTAATTTGGTAAAC
83009521 TAAAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTGGTAAACCA
Found at i:83009513 original size:27 final size:27
Alignment explanation
Indices: 83009335--83009513 Score: 123
Period size: 27 Copynumber: 6.7 Consensus size: 27
83009325 TTACAGGTTG
* * * *
83009335 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * * *
83009362 ATGATATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
83009389 GGGGTATTTTGGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
83009415 AGAGGTATTTTGGTAATTTTGCT-AATCG
1 AG-GGTATTTTGGTAATTTT-ATAAACCA
* * *
83009443 AGGGTATTTTGGTAATTTT-TCTAATCG
1 AGGGTATTTTGGTAATTTTAT-AAACCA
** *
83009470 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
83009496 AGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
83009514 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 20 0.16
27 102 0.82
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:83009528 original size:26 final size:27
Alignment explanation
Indices: 83009479--83009529 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
83009469 GAGGGTATTC
* *
83009479 AGTAATTTTGTAAACCAAGGGTATTTT
1 AGTAATTTGGTAAACCAAGAGTATTTT
*
83009506 AGTAATTTGGTAAACTAA-AGTATT
1 AGTAATTTGGTAAACCAAGAGTATT
83009530 CTAAACATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (27 bp):
AGTAATTTGGTAAACCAAGAGTATTTT
Found at i:83017520 original size:24 final size:24
Alignment explanation
Indices: 83017459--83017521 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
83017449 ATATGTCATA
* *
83017459 AATTAATCCTTTGAATTTACCATC
1 AATTCATCCTTTGCATTTACCATC
* *
83017483 AATTCATCCTTTGCATTTATCGTC
1 AATTCATCCTTTGCATTTACCATC
*
83017507 AATTCATTCTTTGCA
1 AATTCATCCTTTGCA
83017522 CAGAACGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.44
Consensus pattern (24 bp):
AATTCATCCTTTGCATTTACCATC
Done.