Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 205 of 240
Found at i:62214504 original size:19 final size:19
Alignment explanation
Indices: 62214472--62214512 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
62214462 AGAAAAGTAT
62214472 AAAACTTAAAAAAAAGA-A
1 AAAACTTAAAAAAAAGACA
*
62214490 AAAATTTAAAGAAAAAGACA
1 AAAACTTAAA-AAAAAGACA
62214510 AAA
1 AAA
62214513 GTAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAACTTAAAAAAAAGACA
Found at i:62235844 original size:34 final size:34
Alignment explanation
Indices: 62235804--62235887 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
62235794 GATTTTTTTA
*
62235804 AAAATTAATTAAATTA-GATTTTTGGGGGTTTAA-
1 AAAATTAATTAAATTAGGATTTAT-GGGGTTTAAG
**
62235837 ATAAATTAATTAAATTAGGATTTATGGTTTTTAAG
1 A-AAATTAATTAAATTAGGATTTATGGGGTTTAAG
62235872 AAAATTAATTAAATTA
1 AAAATTAATTAAATTA
62235888 TGGTTTAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.02
34 37 0.82
35 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGATTTATGGGGTTTAAG
Found at i:62236184 original size:126 final size:128
Alignment explanation
Indices: 62235958--62236227 Score: 399
Period size: 126 Copynumber: 2.1 Consensus size: 128
62235948 ACTTTTGTTT
*
62235958 TTTTTCTACAGTAGTT-TCTAAAAAAATTAATTTTGAGAAGACGGTTCTAAAAAGATAATGTAAA
1 TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTAAAAAGATAATGTAAA
62236022 AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCTACGTGGACGCTC
66 AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTAC-GAAAAAAAGCTCCTACGTGGACGCTC
* *
62236085 TTTTTCTACAGTAGTTCT-TAAAAAAA-TAAATTTGAGAAGACGGTTCTAAACAA-ATAGTGTTA
1 TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTAAA-AAGATAATGTAA
* * * * *
62236147 AAAATGCTTCAAGT-AGGATTCACTGTCAGTAAAATTACGAAAAAAAGCTCCTATGTGGACGCTC
65 AAAACGCTTCAA-TCAAGATGCACTGTCAGCAAAATTACGAAAAAAAGCTCCTACGTGGACGCTC
62236211 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
62236228 CTATTTGGCC
Statistics
Matches: 131, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
125 1 0.01
126 102 0.78
127 27 0.21
128 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (128 bp):
TTTTTCTACAGTAGTTCTCTAAAAAAATTAAATTTGAGAAGACGGTTCTAAAAAGATAATGTAAA
AAACGCTTCAATCAAGATGCACTGTCAGCAAAATTACGAAAAAAAGCTCCTACGTGGACGCTC
Found at i:62239233 original size:9 final size:9
Alignment explanation
Indices: 62239210--62239240 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
62239200 ATTTATGTTT
62239210 TATTAAAAA
1 TATTAAAAA
62239219 TA-TAAAAA
1 TATTAAAAA
62239227 TATTAAAAA
1 TATTAAAAA
62239236 TATTA
1 TATTA
62239241 TCTTATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:62239317 original size:24 final size:24
Alignment explanation
Indices: 62239261--62239317 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
62239251 AAGAACTTCT
62239261 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAATAA
*
62239285 ATTACTATT-AAAATATTAAAAATAA
1 ATT-TTATTAAAAATA-TAAAAATAA
*
62239310 CTTTTATT
1 ATTTTATT
62239318 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAATAA
Found at i:62239319 original size:54 final size:54
Alignment explanation
Indices: 62239207--62239325 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
62239197 ATTATTTATG
*** *
62239207 TTTTATTAAAAATATAAAAATATTAAAAATATTATCTTATTCAAAAGAACTTCTA
1 TTTTATTAAAAATATAAAAATA-TAAAAATATTAAAATATTAAAAAGAACTTCTA
* * * *
62239262 TTTTATTAAAAATATAAAAATA-AATTACTATTAAAATATTAAAAATAACTTTTA
1 TTTTATTAAAAATATAAAAATATAA-AAATATTAAAATATTAAAAAGAACTTCTA
62239316 TTTTATTAAA
1 TTTTATTAAA
62239326 TGAAACAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.04
54 31 0.56
55 22 0.40
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (54 bp):
TTTTATTAAAAATATAAAAATATAAAAATATTAAAATATTAAAAAGAACTTCTA
Found at i:62239394 original size:93 final size:92
Alignment explanation
Indices: 62239265--62239447 Score: 339
Period size: 93 Copynumber: 2.0 Consensus size: 92
62239255 ACTTCTATTT
*
62239265 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
1 TATTAAAAATATAAAAATAAATTAATATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
*
62239330 ACAATATAGAAATAGTTTGTACAAATA
66 ACAATATAAAAATAGTTTGTACAAATA
62239357 TATTAAAAATATAAAAAATAAATTAATATTAAAATATTAAAAATAACTTTTATTTTATTAAATGA
1 TATTAAAAATAT-AAAAATAAATTAATATTAAAATATTAAAAATAACTTTTATTTTATTAAATGA
62239422 AACAATATAAAAATAGTTTGTACAAA
65 AACAATATAAAAATAGTTTGTACAAA
62239448 CAACATAGGG
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 12 0.14
93 76 0.86
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTAATATTAAAATATTAAAAATAACTTTTATTTTATTAAATGAA
ACAATATAAAAATAGTTTGTACAAATA
Found at i:62240381 original size:7 final size:7
Alignment explanation
Indices: 62240371--62240396 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62240361 TTATATACAT
62240371 AATACTA
1 AATACTA
62240378 AATACTA
1 AATACTA
62240385 AATACTA
1 AATACTA
62240392 AATAC
1 AATAC
62240397 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:62240596 original size:18 final size:18
Alignment explanation
Indices: 62240553--62240596 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
62240543 GCATACAATT
*
62240553 ATATTTTAAATCTATGTA
1 ATATTTTAAATCTATATA
*
62240571 ATAATTTAAATCTAATATA
1 ATATTTTAAATCT-ATATA
62240590 A-ATTTTA
1 ATATTTTA
62240597 CCTCGTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATTTTAAATCTATATA
Found at i:62242766 original size:24 final size:24
Alignment explanation
Indices: 62242737--62242789 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
62242727 TTTCTAGAAG
62242737 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
*
62242761 ATTTAGTATTTATTAGTATAATTT
1 ATTTAGTATTTATTAGTATAATAT
62242785 ATTTA
1 ATTTA
62242790 ACTTACTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:62244642 original size:14 final size:14
Alignment explanation
Indices: 62244623--62244652 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62244613 AACTCTCATC
62244623 TTTATAAATAAATA
1 TTTATAAATAAATA
62244637 TTTATAAATAAATA
1 TTTATAAATAAATA
62244651 TT
1 TT
62244653 CATTTACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTATAAATAAATA
Found at i:62248431 original size:43 final size:44
Alignment explanation
Indices: 62248375--62248526 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 44
62248365 TTACTGAGAA
*
62248375 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-T
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCGTATAT
* *
62248418 GTGATTACGTGTAAGACCATGTCT-----ATTGGCATCGT-TAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCGTATAT
* ** * * * *
62248456 ATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCG-ATAT
1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCGTATAT
*
62248499 GTGATAACATGTAAGACCATATCTGGGA
1 GTGATAACATGTAAGACCATGTCTGGGA
62248527 TATGGTATTG
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.01
38 31 0.36
43 55 0.63
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCGTATAT
Found at i:62256228 original size:9 final size:9
Alignment explanation
Indices: 62256211--62256506 Score: 106
Period size: 9 Copynumber: 34.9 Consensus size: 9
62256201 TAAGTATAAT
*
62256211 TAAGCTATG
1 TAAGTTATG
62256220 TAAGTTATG
1 TAAGTTATG
*
62256229 TAAGTTATA
1 TAAGTTATG
*
62256238 TAAGTTGTG
1 TAAGTTATG
*
62256247 T-A-TAATG
1 TAAGTTATG
62256254 TAAGTTATG
1 TAAGTTATG
*
62256263 AAAGTTATG
1 TAAGTTATG
62256272 T-A-TTATG
1 TAAGTTATG
*
62256279 TAAGTTATT
1 TAAGTTATG
*
62256288 TAAGTTGTG
1 TAAGTTATG
*
62256297 T-A-TTATA
1 TAAGTTATG
*
62256304 TAAGTCATG
1 TAAGTTATG
* * *
62256313 TAGGCTATA
1 TAAGTTATG
*
62256322 TAAGTTTATATA
1 TAAG--T-TATG
62256334 TAAGTTATG
1 TAAGTTATG
62256343 TAAGTTA--
1 TAAGTTATG
62256350 T-A--TATG
1 TAAGTTATG
62256356 TAAGTTATG
1 TAAGTTATG
*
62256365 T--GTTGTG
1 TAAGTTATG
*
62256372 TAAGTTTATATA
1 TAAG--T-TATG
*
62256384 TAAATTTTAT-
1 T-AA-GTTATG
62256394 TCAAGTTATG
1 T-AAGTTATG
62256404 --A---ATG
1 TAAGTTATG
62256408 TAAGTTATG
1 TAAGTTATG
*
62256417 TAAGTTGTG
1 TAAGTTATG
*
62256426 T--GTAATG
1 TAAGTTATG
62256433 TAAGTTATG
1 TAAGTTATG
62256442 T-A-TTATG
1 TAAGTTATG
*
62256449 TAAGTTATT
1 TAAGTTATG
*
62256458 TAAGTTGTG
1 TAAGTTATG
62256467 T-A-TTATG
1 TAAGTTATG
*
62256474 TAAGTCATG
1 TAAGTTATG
* *
62256483 TAGGCTATG
1 TAAGTTATG
*
62256492 T--GTTACG
1 TAAGTTATG
62256499 TAAGTTAT
1 TAAGTTAT
62256507 TATAAGTAAG
Statistics
Matches: 208, Mismatches: 44, Indels: 70
0.65 0.14 0.22
Matches are distributed among these distances:
4 5 0.02
6 3 0.01
7 44 0.21
8 10 0.05
9 124 0.60
10 4 0.02
11 4 0.02
12 12 0.06
13 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:62256258 original size:25 final size:25
Alignment explanation
Indices: 62256224--62256308 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
62256214 GCTATGTAAG
62256224 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
* *
62256249 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTGTGTA
*
62256274 TTATGTAAGTTATTTAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
*
62256299 TTATATAAGT
1 TTATGTAAGT
62256309 CATGTAGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 51 0.98
26 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTGTGTA
Found at i:62256357 original size:13 final size:13
Alignment explanation
Indices: 62256339--62256363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62256329 ATATATAAGT
62256339 TATGTAAGTTATA
1 TATGTAAGTTATA
62256352 TATGTAAGTTAT
1 TATGTAAGTTAT
62256364 GTGTTGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:62256359 original size:22 final size:21
Alignment explanation
Indices: 62256322--62256365 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
62256312 GTAGGCTATA
62256322 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
62256343 TAAGTTATATATGTAAGTTATG
1 TAAGTT-TATATATAAGTTATG
62256365 T
1 T
62256366 GTTGTGTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:62256400 original size:52 final size:51
Alignment explanation
Indices: 62256322--62256657 Score: 154
Period size: 52 Copynumber: 6.6 Consensus size: 51
62256312 GTAGGCTATA
62256322 TAAGTTTATATATAAGTTATGTAAGTTAT-ATATGTAAGTTATGT-GTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATGA-ATGTAAGTTATGTAGTTGTG
*
62256372 TAAGTTTATATATAAATTTTAT-TCAAGTTATGAATGTAAGTTATGTAAGTTGTG
1 TAAGTTTATATAT-AA-GTTATGT-AAGTTATGAATGTAAGTTATGT-AGTTGTG
* * * *
62256426 T--G--TA-ATGTAAGTTATGT-A-TTATGTAAGTTATTTAAGTTGTGTA-TTATG
1 TAAGTTTATATATAAGTTATGTAAGTTATG--A---ATGTAAGTTATGTAGTTGTG
** ** * * * * * *
62256474 TAAGTCATGTAGGCTATGTGTTACGTAAGTTATTATAAGTAAGTTATGAAAGTTATATA
1 TAAGT--T-TA-TATATAAGTTATGTAAGTTATGA-ATGTAAGTTATG-TAG-T-TGTG
*
62256533 TAAGTTTATATATAAATTATGTAAGTTATTG--TGTAAGTTATGT-GTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTA-TGAATGTAAGTTATGTAGTTGTG
* * * * *
62256582 TAAGTTTATATATAAATTTTATTTAAATTATGTATGTAAGTTA--TA----TA
1 TAAGTTTATATAT-AA-GTTATGTAAGTTATGAATGTAAGTTATGTAGTTGTG
62256629 TAAGTTTATATATAAGTTATGTAAGTTAT
1 TAAGTTTATATATAAGTTATGTAAGTTAT
62256658 ATATAAGTTT
Statistics
Matches: 218, Mismatches: 35, Indels: 71
0.67 0.11 0.22
Matches are distributed among these distances:
45 16 0.07
46 3 0.01
47 19 0.09
48 8 0.04
49 19 0.09
50 33 0.15
51 14 0.06
52 34 0.16
53 11 0.05
54 7 0.03
55 26 0.12
56 4 0.02
57 10 0.05
58 2 0.01
59 12 0.06
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (51 bp):
TAAGTTTATATATAAGTTATGTAAGTTATGAATGTAAGTTATGTAGTTGTG
Found at i:62256435 original size:16 final size:16
Alignment explanation
Indices: 62256414--62256456 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
62256404 AATGTAAGTT
* *
62256414 ATGTAAGTTGTGTGTA
1 ATGTAAGTTATGTATA
*
62256430 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATA
62256446 ATGTAAGTTAT
1 ATGTAAGTTAT
62256457 TTAAGTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATA
Found at i:62256461 original size:25 final size:25
Alignment explanation
Indices: 62256433--62256513 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
62256423 GTGTGTAATG
62256433 TAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATTATGTAAGTTATT
* * *
62256458 TAAGTTGTGTATTATGTAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATT
* * * *
62256483 TAGGCTATGTGTTACGTAAGTTATT
1 TAAGTTATGTATTATGTAAGTTATT
62256508 ATAAGT
1 -TAAGT
62256514 AAGTTATGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 40 0.93
26 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATT
Found at i:62256553 original size:32 final size:32
Alignment explanation
Indices: 62256513--62256742 Score: 180
Period size: 32 Copynumber: 7.3 Consensus size: 32
62256503 TTATTATAAG
*
62256513 TAAGTTATGAAAGTTATATATAAGTTTATATA
1 TAAGTTATGTAAGTTATATATAAGTTTATATA
* * * *
62256545 TAAATTATGTAAGTTATTGTGTAAG--T-TATG
1 TAAGTTATGTAAGTTA-TATATAAGTTTATATA
* * *
62256575 T--GTTGTGTAAGTTTATATATAAATTT-TATT
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
*
62256605 TAAATTATGTATGTAAGTTATATATAAGTTTATATA
1 T-AA--GT-TATGTAAGTTATATATAAGTTTATATA
62256641 TAAGTTATGTAAGTTATATATAAGTTTATATA
1 TAAGTTATGTAAGTTATATATAAGTTTATATA
* *
62256673 TAAGTTATGTAAGTTATTATGTAAG--T-TATG
1 TAAGTTATGTAAGTTA-TATATAAGTTTATATA
* *
62256703 T--GTTGTGTAAGTTTATATATAAATTTATATA
1 TAAGTTATGTAAG-TTATATATAAGTTTATATA
62256734 T--GTTATGTA
1 TAAGTTATGTA
62256743 TGTAAATTAT
Statistics
Matches: 159, Mismatches: 23, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
28 28 0.18
29 6 0.04
30 14 0.09
31 13 0.08
32 57 0.36
33 14 0.09
35 16 0.10
36 11 0.07
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (32 bp):
TAAGTTATGTAAGTTATATATAAGTTTATATA
Found at i:62256639 original size:12 final size:12
Alignment explanation
Indices: 62256582--62256678 Score: 89
Period size: 12 Copynumber: 8.5 Consensus size: 12
62256572 ATGTGTTGTG
62256582 TAAGTTTATATA
1 TAAGTTTATATA
* *
62256594 TAAATTT-TATT
1 TAAGTTTATATA
* * *
62256605 TAAATTATGTATG
1 TAAGTT-TATATA
62256618 TAAG-TTATATA
1 TAAGTTTATATA
62256629 TAAGTTTATATA
1 TAAGTTTATATA
*
62256641 TAAG--T-TATG
1 TAAGTTTATATA
62256650 TAAG-TTATATA
1 TAAGTTTATATA
62256661 TAAGTTTATATA
1 TAAGTTTATATA
62256673 TAAGTT
1 TAAGTT
62256679 ATGTAAGTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.10
10 2 0.03
11 24 0.34
12 32 0.45
13 6 0.08
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.49
Consensus pattern (12 bp):
TAAGTTTATATA
Found at i:62256656 original size:128 final size:128
Alignment explanation
Indices: 62256513--62256757 Score: 411
Period size: 128 Copynumber: 1.9 Consensus size: 128
62256503 TTATTATAAG
*
62256513 TAAGTTATGAAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATTGTGTAAGTTATGTGT
1 TAAGTTATGAAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATTATGTAAGTTATGTGT
* *
62256578 TGTGTAAGTTTATATATAAATTTTATTTAAATTATGTATGTAAGTTAT-ATATAAGTTTATATA
66 TGTGTAAGTTTATATATAAA-TTTATATAAATTATGTATGTAAATTATGATATAAGTTTATATA
* *
62256641 TAAGTTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGT
1 TAAGTTATGAAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATTATGTAAGTTATGTGT
**
62256706 TGTGTAAGTTTATATATAAATTTATATATGTTATGTATGTAAATTATGATAT
66 TGTGTAAGTTTATATATAAATTTATATAAATTATGTATGTAAATTATGATAT
62256758 GATTGATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 23 0.21
128 86 0.79
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (128 bp):
TAAGTTATGAAAGTTATATATAAGTTTATATATAAATTATGTAAGTTATTATGTAAGTTATGTGT
TGTGTAAGTTTATATATAAATTTATATAAATTATGTATGTAAATTATGATATAAGTTTATATA
Found at i:62256685 original size:21 final size:21
Alignment explanation
Indices: 62256614--62256703 Score: 62
Period size: 21 Copynumber: 4.2 Consensus size: 21
62256604 TTAAATTATG
62256614 TATGTAAGTTA-TATATAAGT
1 TATGTAAGTTATTATATAAGT
* * *
62256634 T-TATATA-TAAGTTATGTAAGTT
1 TATGTA-AGTTA-TTATATAAG-T
*
62256656 ATATATAAGTT-TATATATAAGT
1 -TATGTAAGTTAT-TATATAAGT
*
62256678 TATGTAAGTTATTATGTAAGT
1 TATGTAAGTTATTATATAAGT
62256699 TATGT
1 TATGT
62256704 GTTGTGTAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
19 5 0.09
20 2 0.04
21 29 0.54
22 4 0.07
23 9 0.17
24 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTAAGTTATTATATAAGT
Found at i:62256692 original size:12 final size:12
Alignment explanation
Indices: 62256548--62256701 Score: 62
Period size: 12 Copynumber: 13.2 Consensus size: 12
62256538 TTATATATAA
62256548 ATTATGTAAGTT
1 ATTATGTAAGTT
*
62256560 ATTGTGTAAGTT
1 ATTATGTAAGTT
*
62256572 ATGTGTTGTGTAAGTT
1 A----TTATGTAAGTT
* *
62256588 -TATATATAAATT
1 AT-TATGTAAGTT
* *
62256600 -TTATTTAAATT
1 ATTATGTAAGTT
62256611 ATGTATGTAAGTT
1 AT-TATGTAAGTT
*
62256624 A-TATATAAGTT
1 ATTATGTAAGTT
*
62256635 -TATATATAAG--
1 AT-TATGTAAGTT
62256645 -TTATGTAAGTT
1 ATTATGTAAGTT
*
62256656 A-TATATAAGTT
1 ATTATGTAAGTT
*
62256667 -TATATATAAG--
1 AT-TATGTAAGTT
62256677 -TTATGTAAGTT
1 ATTATGTAAGTT
62256688 ATTATGTAAGTT
1 ATTATGTAAGTT
62256700 AT
1 AT
62256702 GTGTTGTGTA
Statistics
Matches: 114, Mismatches: 11, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
9 14 0.12
10 2 0.02
11 28 0.25
12 50 0.44
13 9 0.08
16 11 0.10
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (12 bp):
ATTATGTAAGTT
Found at i:62256785 original size:19 final size:19
Alignment explanation
Indices: 62256763--62256803 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62256753 GATATGATTG
*
62256763 ATAAATTTTTCAA-ATATAT
1 ATAAAATTTT-AATATATAT
62256782 ATAAAATTTTAATATATAT
1 ATAAAATTTTAATATATAT
62256801 ATA
1 ATA
62256804 TTAAAACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAAATTTTAATATATAT
Found at i:62256802 original size:21 final size:22
Alignment explanation
Indices: 62256774--62256831 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
62256764 TAAATTTTTC
* *
62256774 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
*
62256795 ATATATATATTAAAACTGTATAT
1 AAATATATA-TAAAACTGTATAT
62256818 AAATATATATAAAA
1 AAATATATATAAAA
62256832 GATGTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 8 0.26
22 13 0.42
23 10 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:62259519 original size:21 final size:21
Alignment explanation
Indices: 62259458--62259519 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 21
62259448 TTCATTGAAA
*
62259458 TTTTAAGTAAATAATTATTAAAG
1 TTTTAAGT-AA-AATTATAAAAG
*
62259481 TTTTAAGTAATATT-TAAAAG
1 TTTTAAGTAAAATTATAAAAG
*
62259501 TTTT-TGATAAAATTATAAA
1 TTTTAAG-TAAAATTATAAA
62259520 TTTTAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.45
21 7 0.21
22 2 0.06
23 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
TTTTAAGTAAAATTATAAAAG
Found at i:62260261 original size:15 final size:15
Alignment explanation
Indices: 62260238--62260276 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
62260228 CACTTAAATC
62260238 TCCTAAACCCCTAAA
1 TCCTAAACCCCTAAA
* *
62260253 TCCTTAACCCCTAAC
1 TCCTAAACCCCTAAA
*
62260268 CCCTAAACC
1 TCCTAAACC
62260277 TCGATCCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (15 bp):
TCCTAAACCCCTAAA
Found at i:62260594 original size:88 final size:89
Alignment explanation
Indices: 62260445--62260609 Score: 296
Period size: 88 Copynumber: 1.9 Consensus size: 89
62260435 ACCCAAACCC
*
62260445 CTAACCACTAACCCCTAAATATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCCT
1 CTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCCT
62260510 AAA-CCTAACCCGACCCCGAATCA
66 AAACCCTAACCCGACCCCGAATCA
* *
62260533 CTAACCCCTAACCTCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCCT
1 CTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCCT
62260598 AAACCCTAACCC
66 AAACCCTAACCC
62260610 CTAAACATTA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 65 0.89
89 8 0.11
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.28
Consensus pattern (89 bp):
CTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCCT
AAACCCTAACCCGACCCCGAATCA
Found at i:62260614 original size:63 final size:63
Alignment explanation
Indices: 62260528--62260671 Score: 225
Period size: 63 Copynumber: 2.3 Consensus size: 63
62260518 CCCGACCCCG
* * *
62260528 AATCACTAACCCCTAACCTCTAAACATTATTTAATATATAAATTAAAAAATACTAATTAATCTA
1 AATC-CTAAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
*
62260592 AATCCTAAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTA
1 AATCCTAAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
* *
62260655 AACCCTAAACTCTAACC
1 AATCCTAAACCCTAACC
62260672 TAACACCAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 70 0.95
64 4 0.05
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (63 bp):
AATCCTAAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTA
Found at i:62260782 original size:14 final size:15
Alignment explanation
Indices: 62260765--62260797 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
62260755 ATTAAATCAG
62260765 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
62260779 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
62260794 AATC
1 AATC
62260798 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:62261269 original size:40 final size:41
Alignment explanation
Indices: 62261184--62261456 Score: 259
Period size: 41 Copynumber: 6.7 Consensus size: 41
62261174 AAAAGTTTTT
*
62261184 GCGGCGCTTTT-TCAAAAACGTCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCT-AAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
62261225 GCGGCGCTTTTCTATAAACGCCGCTAAAGATTTGAGTA-TC
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTA
* ** * *
62261265 GCGGCGATTTTGGAAAAATGCCGATAAAGATCTGAGCATTA
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
62261306 GCGGCGCTTCTCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTA
** * *
62261347 G-GGTACTTCTT-AAAAAACGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTT-TTCTAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
62261387 GCGGCACTTTTAC-AAAAACGCCTCTAAAGATCTGGGCATTA
1 GCGGCGCTTTT-CTAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
62261428 GCGACACTTTTTTTTAAAACGCCGCTAAA
1 GCGGCGC-TTTTCTAAAAACGCCGCTAAA
62261457 TCCCCGAATG
Statistics
Matches: 191, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
40 65 0.34
41 108 0.57
42 18 0.09
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:62261363 original size:81 final size:82
Alignment explanation
Indices: 62261197--62261430 Score: 260
Period size: 81 Copynumber: 2.9 Consensus size: 82
62261187 GCGCTTTTTC
* * * * * *
62261197 AAAAACGTCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCTATAAACGCCGCTAAAGATTTGAGT
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
* *
62261262 A-TCGCGGCGATTTTGG
66 ATTAGCGGCGATTTTGA
* * *
62261278 AAAAATGCCGATAAAGATCTGAGCATTAGCGGCGCTTCTCCAAAAATGCCGCTAAAGATCTGAGC
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
*
62261343 ATTAG-GG-TACTTCTT-A
66 ATTAGCGGCGA-TT-TTGA
* * * * * *
62261359 AAAAACGCTGCTAAAGATCTGAGCATTAGCGGCACTTTTACAAAAACGCCTCTAAAGATCTGGGC
1 AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
62261424 ATTAGCG
66 ATTAGCG
62261431 ACACTTTTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 122 0.95
82 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (82 bp):
AAAAACGCCGATAAAGATCTGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGC
ATTAGCGGCGATTTTGA
Found at i:62261404 original size:122 final size:122
Alignment explanation
Indices: 62261184--62261430 Score: 284
Period size: 122 Copynumber: 2.0 Consensus size: 122
62261174 AAAAGTTTTT
* * * * * *
62261184 GCGGCGCTTTTTCAAAAACGTCGCTAAAGATCTGAGCATTAGCGGCGCTTTTCTATAAACGCCGC
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCACTTTTCAAAAAACGCCGC
* * * ** *
62261249 TAAAGATTTGAGTATCGCGGCGATTTTGGAAAAATGCCGATAAAGATCTGAGCATTA
66 TAAAGATCTGAGCATAGCGGCGATTTTACAAAAACGCCGATAAAGATCTGAGCATTA
* * *
62261306 GCGGCGCTTCTCCAAAAATGCCGCTAAAGATCTGAGCATTAG-GGTACTTCTT-AAAAAACGCTG
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCACTT-TTCAAAAAACGCCG
** *
62261369 CTAAAGATCTGAGCATTAGCGGC-ACTTTTACAAAAACGCCTCTAAAGATCTGGGCATTA
65 CTAAAGATCTGAGCA-TAGCGGCGA-TTTTACAAAAACGCCGATAAAGATCTGAGCATTA
62261428 GCG
1 GCG
62261431 ACACTTTTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
121 27 0.26
122 77 0.74
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (122 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCACTTTTCAAAAAACGCCGC
TAAAGATCTGAGCATAGCGGCGATTTTACAAAAACGCCGATAAAGATCTGAGCATTA
Found at i:62265991 original size:15 final size:14
Alignment explanation
Indices: 62265971--62266000 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
62265961 AGCTTCTTGG
62265971 TTTCTTCTACTTGTT
1 TTTCTTCTAC-TGTT
62265986 TTTCTTCTACTGTT
1 TTTCTTCTACTGTT
62266000 T
1 T
62266001 CCCATAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTCTACTGTT
Found at i:62266680 original size:24 final size:24
Alignment explanation
Indices: 62266635--62266680 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
62266625 CAATAATAAA
* *
62266635 ATAAAATGCAATTAAATTTAATGC
1 ATAAAATGAAATTAAATATAATGC
62266659 ATAAAATGAAATTTAAA-ATAAT
1 ATAAAATGAAA-TTAAATATAAT
62266681 ATCTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAAAATGAAATTAAATATAATGC
Found at i:62275647 original size:21 final size:21
Alignment explanation
Indices: 62275621--62275661 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62275611 ATCTGCTCAA
* *
62275621 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
62275642 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
62275662 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:62282850 original size:26 final size:25
Alignment explanation
Indices: 62282821--62282876 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
62282811 AAAATAAATA
*
62282821 AATAAA-TAAAAATGGAATGTATATAT
1 AATAAAGTAAAAAT-GAAAGTAT-TAT
*
62282847 AATAAAGTAAACATGAAAGTATTAT
1 AATAAAGTAAAAATGAAAGTATTAT
62282872 AATAA
1 AATAA
62282877 TAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (25 bp):
AATAAAGTAAAAATGAAAGTATTAT
Found at i:62282878 original size:3 final size:3
Alignment explanation
Indices: 62282870--62282900 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
62282860 TGAAAGTATT
62282870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62282901 GTAACAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:62283008 original size:3 final size:3
Alignment explanation
Indices: 62283000--62283144 Score: 97
Period size: 3 Copynumber: 50.3 Consensus size: 3
62282990 ATAACAATGG
* * *
62283000 ATA ATA ATA GTA ATA ATA A-A ATA ATA ATA TTA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
62283047 CTT ATA ATA A-A ATA ATA ATA ATGA CT- ATA ATA ATA A-A ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
62283090 ATG CTA ATA TTA ATA TTG ATA ATA ATA AT- ATT ATA GTA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
62283135 ATA TTA ATA A
1 ATA ATA ATA A
62283145 CAAGAGTAAT
Statistics
Matches: 107, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
2 13 0.12
3 92 0.86
4 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:62283033 original size:23 final size:22
Alignment explanation
Indices: 62283000--62283137 Score: 81
Period size: 23 Copynumber: 6.1 Consensus size: 22
62282990 ATAACAATGG
*
62283000 ATAATAATAGTAATAATAAAATA
1 ATAATATTA-TAATAATAAAATA
62283023 ATAATATTAGTAATAAT--AATA
1 ATAATATTA-TAATAATAAAATA
*
62283044 AT-A-CTTATAATAA-AATAATA
1 ATAATATTATAATAATAA-AATA
*
62283064 ATAATGACTATAATAATAAAATA
1 ATAAT-ATTATAATAATAAAATA
* * * *
62283087 AAAATGCTAATATTAATATTGATAATA
1 ATAA---TATTA-TAATAAT-AAAATA
*
62283114 ATAATATTATAGTAA-AAAATA
1 ATAATATTATAATAATAAAATA
62283135 ATA
1 ATA
62283138 TTAATAACAA
Statistics
Matches: 90, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
18 6 0.07
19 3 0.03
20 7 0.08
21 15 0.17
23 35 0.39
24 6 0.07
25 3 0.03
26 7 0.08
27 8 0.09
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAATATTATAATAATAAAATA
Found at i:62283054 original size:38 final size:36
Alignment explanation
Indices: 62283000--62283140 Score: 126
Period size: 38 Copynumber: 3.9 Consensus size: 36
62282990 ATAACAATGG
62283000 ATAATAATAGTAATAATAAAATAATAATATTAGTAATA
1 ATAATAATA-TAATAATAAAATAATAATATTAGT-ATA
* * *
62283038 ATAATAATACTTATAATAAAATAATAATAATGACTATA
1 ATAATAATA-TAATAATAAAATAATAAT-ATTAGTATA
* * ** *
62283076 ATAATAAAATAAAAATGCTAATATTAATATT-G-ATA
1 ATAATAATATAATAAT-AAAATAATAATATTAGTATA
* *
62283111 ATAATAATATTATAGTAAAA-AATAATATTA
1 ATAATAATATAATAATAAAATAATAATATTA
62283141 ATAACAAGAG
Statistics
Matches: 81, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
33 8 0.10
34 2 0.02
35 15 0.19
37 7 0.09
38 45 0.56
39 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (36 bp):
ATAATAATATAATAATAAAATAATAATATTAGTATA
Found at i:62284323 original size:38 final size:40
Alignment explanation
Indices: 62284232--62284337 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 40
62284222 GGAGATAAAG
*
62284232 AAAAGTCATAGTCATTGCATCAATTTCACTACCAAAAAAAAA
1 AAAAGTCATAGTCATTGCATCCA-TTCACTA-CAAAAAAAAA
* *
62284274 AAAGAGTCATAGTCATTGCATCCATTC-CT-CGACAAAAAA
1 AAA-AGTCATAGTCATTGCATCCATTCACTACAAAAAAAAA
*
62284313 AAAAGCCATAGTCATTGCATCCATT
1 AAAAGTCATAGTCATTGCATCCATT
62284338 TTGACTTGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
38 21 0.36
39 11 0.19
41 2 0.03
42 6 0.10
43 19 0.32
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (40 bp):
AAAAGTCATAGTCATTGCATCCATTCACTACAAAAAAAAA
Found at i:62284832 original size:19 final size:20
Alignment explanation
Indices: 62284807--62284853 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
62284797 AATGATAAAA
62284807 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
62284827 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
62284846 AATAAAAA
1 AATAAAAA
62284854 ATATAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:62284899 original size:29 final size:29
Alignment explanation
Indices: 62284817--62284900 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 29
62284807 AATAAAAATC
* * *
62284817 AATAAAATTTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAAATATTATATTTT
* * *
62284846 AATAAAAAATATAAGAAATATTTATTTTTT
1 AATAAAAATTATAAAAAATA-TTATATTTT
* *
62284876 ATTAAAAATTAGAAAAAATATTATA
1 AATAAAAATTATAAAAAATATTATA
62284901 AAAATCGTAA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
29 20 0.47
30 23 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AATAAAAATTATAAAAAATATTATATTTT
Found at i:62285295 original size:24 final size:24
Alignment explanation
Indices: 62285268--62285316 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
62285258 TGTTCTCTTG
*
62285268 TTTAGTAAATTTTAA-ATATTTTTA
1 TTTAGTAAAGTTTAATA-ATTTTTA
*
62285292 TTTATTAAAGTTTAATAATTTTTA
1 TTTAGTAAAGTTTAATAATTTTTA
62285316 T
1 T
62285317 AACTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTAGTAAAGTTTAATAATTTTTA
Found at i:62294806 original size:19 final size:21
Alignment explanation
Indices: 62294764--62294816 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
62294754 ATGTGAAAAA
62294764 TAAATAAATAAATCATTAAGT
1 TAAATAAATAAATCATTAAGT
* *
62294785 TAAA-AAATAACTC-TTAATT
1 TAAATAAATAAATCATTAAGT
*
62294804 TAAAGAAAATAAA
1 TAAA-TAAATAAA
62294817 CGTAATTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 10 0.37
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAATAAATAAATCATTAAGT
Found at i:62298283 original size:123 final size:124
Alignment explanation
Indices: 62298064--62298409 Score: 550
Period size: 123 Copynumber: 2.8 Consensus size: 124
62298054 TTTCGAGTTA
*
62298064 ACGTTTCTGATCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* * *
62298129 TCGCGCCCTCGAGGACGCGCTTTCGCTACAGTAGGTCATGGATGAAATAA-TTTTTTTG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTTTTTC
* *
62298187 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAACAGGATGCTATTTGAGACGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* *
62298252 TCGCACCCTCGTGGACGCGTTTTTGCTACAGTAGGTCATGGATGAAATAAGTTTTTTTTTTC
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAA---TTTTTTTTC
* * *
62298314 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGTTATTTGAGAATAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
*
62298379 TCGTGCCCTCGTGGACGCGCTTTTGCTACAG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAG
62298410 CAGCATGTTT
Statistics
Matches: 203, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
123 108 0.53
127 95 0.47
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (124 bp):
ACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTTTTTC
Found at i:62301782 original size:45 final size:46
Alignment explanation
Indices: 62301591--62301805 Score: 188
Period size: 50 Copynumber: 4.6 Consensus size: 46
62301581 TAAGCTCATG
* *
62301591 TTATTACATCGAATAATATCAAAATAAC-TCAAAAAAATTTCTA-T
1 TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
** * *
62301635 TTATTACATCAAATAA-ACTTCTATTTTATTACATCAAATAAATTTCTATT
1 TTATTACATCAAATAATA--T-TA--AAATAACATCAAAAAAATTTCTATT
** * * * *
62301685 TTATTACATCAAATAA-ACTTCTATTTTATTACGTCAAATAAACTTCTATT
1 TTATTACATCAAATAATA--T-TA--AAATAACATCAAAAAAATTTCTATT
62301735 TTATTACATCAAATAATATTAAAATAAC-TCAAAAAAATTTCTATT
1 TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
*
62301780 TTATTACATCAAATAATATCAAAATA
1 TTATTACATCAAATAATATTAAAATA
62301806 TTCAAAATAT
Statistics
Matches: 149, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 15 0.10
45 41 0.28
46 5 0.03
48 6 0.04
49 15 0.10
50 65 0.44
51 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (46 bp):
TTATTACATCAAATAATATTAAAATAACATCAAAAAAATTTCTATT
Found at i:62301791 original size:25 final size:25
Alignment explanation
Indices: 62301619--62301795 Score: 222
Period size: 25 Copynumber: 7.3 Consensus size: 25
62301609 TCAAAATAAC
*
62301619 TCAAAAAAATTTCTA-TTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
*
62301643 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
62301668 TCAAATAAATTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
* *
62301693 TCAAATAAACTTCTATTTTATTACG
1 TCAAATAAATTTCTATTTTATTACA
*
62301718 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
* ** *
62301743 TCAAAT-AATAT-TA--AAATAAC-
1 TCAAATAAATTTCTATTTTATTACA
*
62301763 TCAAAAAAATTTCTATTTTATTACA
1 TCAAATAAATTTCTATTTTATTACA
62301788 TCAAATAA
1 TCAAATAA
62301796 TATCAAAATA
Statistics
Matches: 130, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
20 5 0.04
21 8 0.06
22 2 0.02
23 2 0.02
24 20 0.15
25 93 0.72
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.42
Consensus pattern (25 bp):
TCAAATAAATTTCTATTTTATTACA
Found at i:62302240 original size:18 final size:18
Alignment explanation
Indices: 62302217--62302256 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
62302207 GACTTGGAAA
*
62302217 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
62302235 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
62302253 AGGA
1 AGGA
62302257 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:62302917 original size:7 final size:7
Alignment explanation
Indices: 62302907--62302932 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62302897 TTATATACAT
62302907 AATACTA
1 AATACTA
62302914 AATACTA
1 AATACTA
62302921 AATACTA
1 AATACTA
62302928 AATAC
1 AATAC
62302933 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:62304191 original size:12 final size:11
Alignment explanation
Indices: 62304148--62304196 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
62304138 AAATTTTGGA
62304148 AGGAAATTGAG
1 AGGAAATTGAG
* *
62304159 AGGAAAATGAA
1 AGGAAATTGAG
*
62304170 AGAAAATTGAG
1 AGGAAATTGAG
62304181 AGGAAATTTGAG
1 AGGAAA-TTGAG
62304193 AGGA
1 AGGA
62304197 TTAGTTTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.16
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:62304860 original size:18 final size:18
Alignment explanation
Indices: 62304837--62304878 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
62304827 CCCATTAACT
*
62304837 AAACCCGAATCTATACCC
1 AAACCCGAATCTAAACCC
*
62304855 AAACCCGAATCTAAACCT
1 AAACCCGAATCTAAACCC
62304873 AAACCC
1 AAACCC
62304879 TAAACCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.05, T:0.14
Consensus pattern (18 bp):
AAACCCGAATCTAAACCC
Found at i:62307743 original size:20 final size:20
Alignment explanation
Indices: 62307705--62307743 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62307695 TACGACCAAT
* * *
62307705 GGTTTTGATATTTGTTGTTA
1 GGTTTTAATATTGGGTGTTA
62307725 GGTTTTAATATTGGGTGTT
1 GGTTTTAATATTGGGTGTT
62307744 GAAAGGTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (20 bp):
GGTTTTAATATTGGGTGTTA
Found at i:62308450 original size:21 final size:21
Alignment explanation
Indices: 62308426--62308469 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
62308416 TATTTTTCCT
62308426 AAGTTTAAAGCTATTGTTGAA
1 AAGTTTAAAGCTATTGTTGAA
62308447 AAGTTTAAAGCTATTGTTGAA
1 AAGTTTAAAGCTATTGTTGAA
62308468 AA
1 AA
62308470 ATACTTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (21 bp):
AAGTTTAAAGCTATTGTTGAA
Found at i:62311349 original size:6 final size:5
Alignment explanation
Indices: 62311316--62311348 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
62311306 TTCTTTTGAT
*
62311316 TTTTA TTTTA TTTTA TTTTA TTTT- TTTCA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
62311349 CGACTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:62312113 original size:3 final size:3
Alignment explanation
Indices: 62312105--62312150 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
62312095 ATTTTAATCC
*
62312105 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
62312151 CCTTCTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:62321284 original size:18 final size:18
Alignment explanation
Indices: 62321263--62321301 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
62321253 TTTCTTCAAC
* *
62321263 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
62321281 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
62321299 TTC
1 TTC
62321302 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:62337896 original size:11 final size:11
Alignment explanation
Indices: 62337880--62337904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62337870 CACTGATTAC
62337880 ATATATATATA
1 ATATATATATA
62337891 ATATATATATA
1 ATATATATATA
62337902 ATA
1 ATA
62337905 ATCAGTACAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATATATA
Found at i:62342254 original size:42 final size:41
Alignment explanation
Indices: 62342203--62342363 Score: 196
Period size: 42 Copynumber: 3.9 Consensus size: 41
62342193 TTGAGAAAAA
* *
62342203 CGCCACTGAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
* * * *
62342245 CGCCGCTGAAGAACATGTTCTTTAGCAGCGTTTTTATATAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTTAAG
* * *
62342287 CGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTATTAAG
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTT-TTAAG
* *
62342329 TGCCACTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTT
62342364 GTACAAAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 101 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (41 bp):
CGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
Found at i:62342773 original size:21 final size:21
Alignment explanation
Indices: 62342749--62342795 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
62342739 TTTGAACCTT
62342749 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* * *
62342770 TGCTTCTTTCGCTGCCGCGTC
1 TGCTTCTCTCGCTGCAGCCTC
62342791 TGCTT
1 TGCTT
62342796 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.38, G:0.21, T:0.38
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:62348286 original size:7 final size:7
Alignment explanation
Indices: 62348276--62348321 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
62348266 TGATATATTT
62348276 TTATGTA
1 TTATGTA
62348283 TTATGTAA
1 TTATGT-A
62348291 GTTATGTAA
1 -TTATGT-A
62348300 GTTATGTA
1 -TTATGTA
62348308 TTATGTA
1 TTATGTA
62348315 TTATGTA
1 TTATGTA
62348322 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:62348297 original size:9 final size:9
Alignment explanation
Indices: 62348283--62348935 Score: 596
Period size: 9 Copynumber: 72.8 Consensus size: 9
62348273 TTTTTATGTA
62348283 TTATGTAAG
1 TTATGTAAG
62348292 TTATGTAAG
1 TTATGTAAG
62348301 TTATGT-A-
1 TTATGTAAG
62348308 TTATGT-A-
1 TTATGTAAG
62348315 TTATGTAAG
1 TTATGTAAG
62348324 -TACTGTAAG
1 TTA-TGTAAG
*
62348333 TAATGTAAG
1 TTATGTAAG
*
62348342 TTGTGT-A-
1 TTATGTAAG
* *
62348349 TAATAATAA-
1 TTAT-GTAAG
*
62348358 TTATGTGAG
1 TTATGTAAG
*
62348367 TTGTGT-A-
1 TTATGTAAG
*
62348374 TAATGTAAG
1 TTATGTAAG
*
62348383 TTAAG-AAGG
1 TTATGTAA-G
62348392 TTATGT-A-
1 TTATGTAAG
*
62348399 TAATGTAAG
1 TTATGTAAG
62348408 TTATGTAAG
1 TTATGTAAG
* * *
62348417 TAATTTAAT
1 TTATGTAAG
62348426 TTATGTAAG
1 TTATGTAAG
*
62348435 TTATGCAAG
1 TTATGTAAG
* *
62348444 TTATTTAAT
1 TTATGTAAG
62348453 TTATGTAAG
1 TTATGTAAG
*
62348462 TTATGTAAA
1 TTATGTAAG
*
62348471 TTATTTAAG
1 TTATGTAAG
62348480 TTATGTAAG
1 TTATGTAAG
62348489 TTATGTAAG
1 TTATGTAAG
* *
62348498 TTATTTAAT
1 TTATGTAAG
*
62348507 TTATGTAGG
1 TTATGTAAG
62348516 TTATGTAAG
1 TTATGTAAG
* * * *
62348525 TCCACGGAAT
1 T-TATGTAAG
62348535 TTATGTAAG
1 TTATGTAAG
62348544 TTATGTAAG
1 TTATGTAAG
* *
62348553 TTATTTAAT
1 TTATGTAAG
62348562 TTATGTAAG
1 TTATGTAAG
62348571 TTATGTAAG
1 TTATGTAAG
* *
62348580 TTATTTAAT
1 TTATGTAAG
*
62348589 TTATGTAGG
1 TTATGTAAG
62348598 TTATGTAAG
1 TTATGTAAG
62348607 TTATGTAAG
1 TTATGTAAG
*
62348616 TTATTTAA-
1 TTATGTAAG
*
62348624 TCTATGCAAG
1 T-TATGTAAG
*
62348634 TTTATGTACG
1 -TTATGTAAG
* *
62348644 TTATTTAAT
1 TTATGTAAG
62348653 TTATGTAAG
1 TTATGTAAG
62348662 TTATGTAAG
1 TTATGTAAG
* *
62348671 TTATTTAAT
1 TTATGTAAG
*
62348680 TTATGTAGG
1 TTATGTAAG
62348689 TTATGTAAG
1 TTATGTAAG
62348698 TTATGTAAG
1 TTATGTAAG
* *
62348707 TTATTTAAT
1 TTATGTAAG
*
62348716 TTATGCAAG
1 TTATGTAAG
62348725 TTTATGTAAG
1 -TTATGTAAG
*
62348735 TTATGCAAG
1 TTATGTAAG
62348744 TTTATGTAAG
1 -TTATGTAAG
* *
62348754 TTATTTAAT
1 TTATGTAAG
62348763 TTATGTAAG
1 TTATGTAAG
62348772 TTATGTAAG
1 TTATGTAAG
* *
62348781 TTATTTAAT
1 TTATGTAAG
*
62348790 TTATGTAGG
1 TTATGTAAG
62348799 TTATGTAAG
1 TTATGTAAG
62348808 TTATGTAAG
1 TTATGTAAG
* *
62348817 TTATTTAAT
1 TTATGTAAG
*
62348826 TTATGCAAG
1 TTATGTAAG
62348835 TTTATGTAAG
1 -TTATGTAAG
62348845 TTATGTAAG
1 TTATGTAAG
62348854 TTATGTAAG
1 TTATGTAAG
* *
62348863 TTATTTAAT
1 TTATGTAAG
62348872 TTATGTAAG
1 TTATGTAAG
*
62348881 TTGTGTAAG
1 TTATGTAAG
* *
62348890 TTATTTAAT
1 TTATGTAAG
62348899 TTATGTAAG
1 TTATGTAAG
*
62348908 TTATGCAAG
1 TTATGTAAG
*
62348917 CTTATATACAAG
1 -TTATGT--AAG
62348929 TTATGTA
1 TTATGTA
62348936 TTATAACATA
Statistics
Matches: 510, Mismatches: 111, Indels: 46
0.76 0.17 0.07
Matches are distributed among these distances:
7 24 0.05
8 14 0.03
9 423 0.83
10 40 0.08
11 6 0.01
12 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:62349023 original size:21 final size:21
Alignment explanation
Indices: 62348999--62349049 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
62348989 AATTATTATG
62348999 TAAGTTATGCAAGCTTAAATA
1 TAAGTTATGCAAGCTTAAATA
*
62349020 TAAGTTATGCAAGCTTATATA
1 TAAGTTATGCAAGCTTAAATA
*
62349041 CAAGTTATG
1 TAAGTTATG
62349050 TATTATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAGTTATGCAAGCTTAAATA
Found at i:62349030 original size:116 final size:116
Alignment explanation
Indices: 62348904--62349144 Score: 448
Period size: 116 Copynumber: 2.1 Consensus size: 116
62348894 TTAATTTATG
62348904 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTAT-TATG
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGT-TG
62348968 CTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
65 CTATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
*
62349020 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGC
*
62349085 TATTATATATAAGTTCTGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
62349136 TAAGTTATG
1 TAAGTTATG
62349145 TATTATATAA
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
116 121 0.99
117 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.43
Consensus pattern (116 bp):
TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATGTTGC
TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
Found at i:62349289 original size:62 final size:62
Alignment explanation
Indices: 62349205--62349323 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
62349195 TAGAAACTTA
* * * *** *
62349205 TAAACTTAATACACATATATTTTATTTCTCCCAAATTTAGAACACTTATTTAGAAAATAAAG
1 TAAACTTAATACACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAATAAAG
* *
62349267 TAAATTTAATACTA-ATAAATTTTAATACAAATAAATTTAGAAAACTTATTTAGAAAA
1 TAAACTTAATAC-ACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAA
62349324 CTTATAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 46 0.98
63 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (62 bp):
TAAACTTAATACACATAAATTTTAATACAAACAAATTTAGAAAACTTATTTAGAAAATAAAG
Found at i:62349292 original size:16 final size:16
Alignment explanation
Indices: 62349267--62349304 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62349257 GAAAATAAAG
*
62349267 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
62349282 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
62349298 TAAATTT
1 TAAATTT
62349305 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:62349319 original size:13 final size:13
Alignment explanation
Indices: 62349301--62349328 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62349291 ATACAAATAA
62349301 ATTTAGAAAACTT
1 ATTTAGAAAACTT
62349314 ATTTAGAAAACTT
1 ATTTAGAAAACTT
62349327 AT
1 AT
62349329 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:62349336 original size:17 final size:17
Alignment explanation
Indices: 62349297--62349346 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
62349287 TTTAATACAA
62349297 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
62349313 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
62349327 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
62349344 ATA
1 ATA
62349347 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:62350863 original size:27 final size:27
Alignment explanation
Indices: 62350833--62350888 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
62350823 ACCAATAAGA
62350833 AAGCAAAATCAAAATTAAAAATACGAC
1 AAGCAAAATCAAAATTAAAAATACGAC
62350860 AAGCAAAATCAAAATTAAAAATACGAC
1 AAGCAAAATCAAAATTAAAAATACGAC
62350887 AA
1 AA
62350889 AACCCAATCT
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:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (27 bp):
AAGCAAAATCAAAATTAAAAATACGAC
Found at i:62353488 original size:21 final size:20
Alignment explanation
Indices: 62353462--62353502 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62353452 CTCTAAACCT
*
62353462 TAAACCTCAATCTCCAAGCCC
1 TAAACCT-AAACTCCAAGCCC
*
62353483 TAAACCTAAACTCTAAGCCC
1 TAAACCTAAACTCCAAGCCC
62353503 AAATCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAACCTAAACTCCAAGCCC
Found at i:62354062 original size:134 final size:131
Alignment explanation
Indices: 62353827--62354201 Score: 407
Period size: 134 Copynumber: 2.8 Consensus size: 131
62353817 TTCTTAATAT
* * * * * * *
62353827 ACGCCACTAAATCCGAACCGTTTCCGGCGTTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGA
1 ACGCCACT-AATCC-AATCATTTCCGGCGGTTTTTAA-AATGCGCCACTAAAGAAAT-AAAATGA
* * * * *
62353891 AACAACAAAACAGTACCGTTTTGCTCAAAATTATTCCTCAAATTAGATTTCTTTACCGGCGTTTC
62 AACAACAAAACGGTA-CGTTTTGCTCAAATTTTTTCCTCAAATTAGATATATTTACCGGCGTTTC
62353956 TCC-AATA
126 -CCGAA-A
* * *
62353963 ACGCCACTATATCCCAAT-ATTTGCGGCGGTTTTTAAAATGCGCCACTAAGGAAATAAAATGAAG
1 ACGCCACTA-AT-CCAATCATTTCCGGCGGTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAA
*
62354027 CAATAAAACGGTAGCGTTTTG-TCCAAATTTTTTCCTCAAATTAGATATATTTACCGGCGTTTCC
64 CAACAAAACGGTA-CGTTTTGCT-CAAATTTTTTCCTCAAATTAGATATATTTACCGGCGTTTCC
62354091 CTGAAA
127 C-GAAA
* * * * * *
62354097 ACGCCGCTAATGCATTCTTTTCCGGCGTTTTTTAAAATGTGCCACTAAAGAAATAAAATGAAACA
1 ACGCCACTAATCCAATCATTTCCGGCGGTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACA
62354162 ACAAAACGGTACTGTTTTGCTCAAATTTTTTCCTCAAATT
66 ACAAAACGGTAC-GTTTTGCTCAAATTTTTTCCTCAAATT
62354202 CGTTATCGTT
Statistics
Matches: 203, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
132 4 0.02
133 82 0.40
134 83 0.41
135 20 0.10
136 12 0.06
137 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (131 bp):
ACGCCACTAATCCAATCATTTCCGGCGGTTTTTAAAATGCGCCACTAAAGAAATAAAATGAAACA
ACAAAACGGTACGTTTTGCTCAAATTTTTTCCTCAAATTAGATATATTTACCGGCGTTTCCCGAA
A
Found at i:62354168 original size:133 final size:132
Alignment explanation
Indices: 62353847--62354241 Score: 431
Period size: 133 Copynumber: 2.9 Consensus size: 132
62353837 ATCCGAACCG
* * * * *
62353847 TTTCCGGCGTTTTTTAACATTTCGCCACTAAAG-CATAAAAAGGAAACAACAAAACAGTACCGTT
1 TTTCCGGCGTTTTTTAAAATGT-GCCACTAAAGAAAT-AAAATGAAACAACAAAACGGTA-CGTT
* * * *
62353911 TTGCTCAAAATTATTCCTCAAATTAGATTTCTTTACCGGCGTTTCTCC-AATAACGCCACTATAT
63 TTGCTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTC-CCGAA-AACGCCGCTATAT
62353975 CCCAATA
126 CCCAATA
* * * * * *
62353982 TTTGCGGCGGTTTTTAAAATGCGCCACTAAGGAAATAAAATGAAGCAATAAAACGGTAGCGTTTT
1 TTTCCGGCGTTTTTTAAAATGTGCCACTAAAGAAATAAAATGAAACAACAAAACGGTA-CGTTTT
* *
62354047 G-TCCAAATTTTTTCCTCAAATTAGATATATTTACCGGCGTTTCCCTGAAAACGCCGCTA-AT-G
65 GCT-CAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCCC-GAAAACGCCGCTATATCC
* *
62354109 CATTCT
128 CAAT-A
62354115 TTTCCGGCGTTTTTTAAAATGTGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACTGTTTT
1 TTTCCGGCGTTTTTTAAAATGTGCCACTAAAGAAATAAAATGAAACAACAAAACGGTAC-GTTTT
* * * * * *
62354180 GCTCAAATTTTTTCCTCAAATTCGTTATCGTTACCAGCATTTCTCAGAAAACGCCGCTATAT
65 GCTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTC-CCGAAAACGCCGCTATAT
62354242 TCTAATTTTT
Statistics
Matches: 218, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
132 4 0.02
133 110 0.50
134 83 0.38
135 21 0.10
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (132 bp):
TTTCCGGCGTTTTTTAAAATGTGCCACTAAAGAAATAAAATGAAACAACAAAACGGTACGTTTTG
CTCAAATTTTTTCCTCAAATTAGATATCTTTACCGGCGTTTCCCGAAAACGCCGCTATATCCCAA
TA
Found at i:62354991 original size:31 final size:29
Alignment explanation
Indices: 62354919--62354996 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
62354909 TTTGAACCAC
* **
62354919 AATCAAAGTTTCATGTGTGTAATTGCATTA
1 AATCAAAG-TTCATGTATCAAATTGCATTA
* *
62354949 AATTAAAGTTCATGTATCAAATTGCACATTG
1 AATCAAAGTTCATGTATCAAATTG--CATTA
62354980 AATCAAAGTTCATGTAT
1 AATCAAAGTTCATGTAT
62354997 AATTTTGGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.32
30 7 0.17
31 20 0.50
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (29 bp):
AATCAAAGTTCATGTATCAAATTGCATTA
Found at i:62363856 original size:22 final size:22
Alignment explanation
Indices: 62363831--62363874 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
62363821 AACCCTTAAA
62363831 CCTTGTGT-TTCTTCTTTCTTTC
1 CCTT-TGTCTTCTTCTTTCTTTC
* *
62363853 CCTTTTTCTTTTTCTTTCTTTC
1 CCTTTGTCTTCTTCTTTCTTTC
62363875 TTTCTGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.00, C:0.27, G:0.05, T:0.68
Consensus pattern (22 bp):
CCTTTGTCTTCTTCTTTCTTTC
Found at i:62366762 original size:16 final size:16
Alignment explanation
Indices: 62366740--62366808 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
62366730 TTTGGTTCGC
62366740 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62366756 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62366772 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
62366789 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62366805 TGTA
1 TGTA
62366809 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62366786 original size:33 final size:32
Alignment explanation
Indices: 62366740--62366808 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
62366730 TTTGGTTCGC
62366740 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
62366772 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
62366805 TGTA
1 TGTA
62366809 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:62366873 original size:44 final size:45
Alignment explanation
Indices: 62366789--62366878 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
62366779 GGATTAGAGG
* * *
62366789 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
62366834 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
62366878 T
1 T
62366879 AGAATAGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:62366895 original size:39 final size:43
Alignment explanation
Indices: 62366799--62366902 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
62366789 TGTATTGGAT
62366799 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGTAATGGAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA-GTAA-GGAA
* ***
62366844 TAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA-T-A-GAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
62366883 TAGAGGTGTAATAGCATAAT
1 TAGAGGTGTAATAGC-TAAT
62366903 GAAAAAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 16 0.31
41 5 0.10
42 1 0.02
44 17 0.33
45 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (43 bp):
TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
Found at i:62367065 original size:18 final size:17
Alignment explanation
Indices: 62367044--62367078 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62367034 TTATTATTAA
*
62367044 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62367062 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62367079 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:62367185 original size:18 final size:17
Alignment explanation
Indices: 62367164--62367198 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62367154 TTATTATTAA
*
62367164 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62367182 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62367199 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:62367225 original size:47 final size:42
Alignment explanation
Indices: 62367133--62367225 Score: 96
Period size: 44 Copynumber: 2.1 Consensus size: 42
62367123 ATATGATACT
* *
62367133 TTAAAATATAAATTAACATAATTATTATTAAATATATTTTAA
1 TTAAAATATAAATTAACAAAATTATTAATAAATATATTTTAA
* * *
62367175 TTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
1 TTAAAATATA-AA-TTAACAAAATTATTAATAAAT-ATATT-TTA-A
62367222 TTAA
1 TTAA
62367226 TTGACACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
42 10 0.24
43 2 0.05
44 16 0.39
45 5 0.12
46 3 0.07
47 5 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (42 bp):
TTAAAATATAAATTAACAAAATTATTAATAAATATATTTTAA
Found at i:62367240 original size:120 final size:120
Alignment explanation
Indices: 62367027--62367248 Score: 426
Period size: 120 Copynumber: 1.9 Consensus size: 120
62367017 ATCATATTTA
62367027 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
62367092 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTTTAAAATATAAATT
66 TATTCTTATATTAATTGACACAAATCATAATATATGATACTTTAAAATATAAATT
62367147 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
62367212 TATTCTTATATTAATTGACACAAATCATAATATATGA
66 TATTCTTATATTAATTGACACAAATCATAATATATGA
62367249 ATTGGACCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTGACACAAATCATAATATATGATACTTTAAAATATAAATT
Found at i:62370714 original size:11 final size:11
Alignment explanation
Indices: 62370698--62370725 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62370688 AATCGGGAGG
62370698 CGAAGGTAGAA
1 CGAAGGTAGAA
62370709 CGAAGGTAGAA
1 CGAAGGTAGAA
62370720 CGAAGG
1 CGAAGG
62370726 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:62371552 original size:23 final size:22
Alignment explanation
Indices: 62371526--62371569 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
62371516 TATATAATCA
*
62371526 ATAACAATAAAAATAGTAGCAAT
1 ATAACAACAAAAATA-TAGCAAT
* *
62371549 ATAATAACAAAATTATAGCAA
1 ATAACAACAAAAATATAGCAA
62371570 AACAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAAATATAGCAAT
Found at i:62380668 original size:5 final size:6
Alignment explanation
Indices: 62380641--62380666 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62380631 AGGACTCCTC
62380641 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
62380667 TATTCCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:62383912 original size:126 final size:126
Alignment explanation
Indices: 62383700--62383935 Score: 355
Period size: 126 Copynumber: 1.9 Consensus size: 126
62383690 ACATGACCTT
* * * * *
62383700 GTGATTTTATATTACATGGGCACAATGAGTTACACGGCTTACGTACATGGGCATGCGAAGCAGTC
1 GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
*
62383765 ACATGGGCGTGTGGAGTAGCCACACGACCATGTCAAGAGCCACACTATGCGACACGGTCGC
66 ACACGGGCGTGTGGAGTAGCCACACGACCATGTCAAGAGCCACACTATGCGACACGGTCGC
* * * * *
62383826 GTGACTTTATATTACACGGGCATAGTGAGTTACACGATTTATGTACACGGGCATGTGAAGCAATC
1 GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
* *
62383891 ACACGGGCGTGTGGAGTAGCCACACGGCCATGTCAAGAGCGACAC
66 ACACGGGCGTGTGGAGTAGCCACACGACCATGTCAAGAGCCACAC
62383936 AGTTTGGACT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 97 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (126 bp):
GTGACTTTATATTACACGGGCACAATGAGTTACACGACTTACGTACACGGGCATGCGAAGCAATC
ACACGGGCGTGTGGAGTAGCCACACGACCATGTCAAGAGCCACACTATGCGACACGGTCGC
Found at i:62386118 original size:17 final size:17
Alignment explanation
Indices: 62386096--62386128 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62386086 TGCTCGTCCG
62386096 TGTGAGCCACATGGGCA
1 TGTGAGCCACATGGGCA
*
62386113 TGTGAGTCACATGGGC
1 TGTGAGCCACATGGGC
62386129 TGATCAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (17 bp):
TGTGAGCCACATGGGCA
Found at i:62391611 original size:9 final size:9
Alignment explanation
Indices: 62391612--62391648 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
62391602 ATTTACAAAA
62391612 AAAATTTA-
1 AAAATTTAT
62391620 AAATATTTAT
1 AAA-ATTTAT
62391630 AAAATTTAT
1 AAAATTTAT
62391639 AAAATTTAT
1 AAAATTTAT
62391648 A
1 A
62391649 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 3 0.11
9 21 0.78
10 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAATTTAT
Found at i:62393604 original size:59 final size:59
Alignment explanation
Indices: 62393512--62393625 Score: 228
Period size: 59 Copynumber: 1.9 Consensus size: 59
62393502 AAACTTACTC
62393512 ATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTTCTT
1 ATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTTCTT
62393571 ATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCT
1 ATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCT
62393626 ATTCACTCGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (59 bp):
ATCAGGAGAATAGATGAGGCGATTCAAGTAAGATCTAATGTAGATCTAAATTTCTTCTT
Found at i:62403234 original size:24 final size:24
Alignment explanation
Indices: 62403176--62403242 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
62403166 GGCCCGAATT
*
62403176 ATATATTAAATATATA-TTTTTAT
1 ATATATTAAATATATATTTTTTAC
* * *
62403199 TTTTAATCAAATATATATTTTTTAC
1 ATAT-ATTAAATATATATTTTTTAC
62403224 ATATATTAAATATATATTT
1 ATATATTAAATATATATTT
62403243 AATATGGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 2 0.06
24 25 0.71
25 8 0.23
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATATTAAATATATATTTTTTAC
Found at i:62405073 original size:25 final size:25
Alignment explanation
Indices: 62405045--62405094 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
62405035 ATAAGCGTCT
*
62405045 CGATATTTAGCTCTCACGAGCTTCC
1 CGATATTTAACTCTCACGAGCTTCC
62405070 CGATATTTAACTCTCACGAGCTTCC
1 CGATATTTAACTCTCACGAGCTTCC
62405095 TGATTAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (25 bp):
CGATATTTAACTCTCACGAGCTTCC
Found at i:62405108 original size:25 final size:25
Alignment explanation
Indices: 62405045--62405206 Score: 82
Period size: 25 Copynumber: 6.5 Consensus size: 25
62405035 ATAAGCGTCT
*
62405045 CGATATTTAGCTCTCACGAGCTTCC
1 CGATATATAGCTCTCACGAGCTTCC
* *
62405070 CGATATTTAACTCTCACGAGCTTCC
1 CGATATATAGCTCTCACGAGCTTCC
* * ***
62405095 TGAT-TAATGGCTCTTTTGAGCTTCC
1 CGATAT-ATAGCTCTCACGAGCTTCC
* * * *
62405120 C-ATTTATGGCTCGT-ATGAGCTTTC
1 CGATATATAGCTC-TCACGAGCTTCC
* *
62405144 CGATA-ATTAGCTCGCAAGAGCTT-C
1 CGATATA-TAGCTCTCACGAGCTTCC
* * *
62405168 CTATTATATAGCTCACATGAGCTTCC
1 CGA-TATATAGCTCTCACGAGCTTCC
* *
62405194 CGTTATATGGCTC
1 CGATATATAGCTC
62405207 GGAAGAGTTT
Statistics
Matches: 107, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
24 23 0.21
25 81 0.76
26 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
CGATATATAGCTCTCACGAGCTTCC
Found at i:62405165 original size:74 final size:75
Alignment explanation
Indices: 62405062--62405207 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 75
62405052 TAGCTCTCAC
* * * * ***
62405062 GAGCTTCCCGATATTTAACTCTCACGAGCTTCCTGATTA-ATGGCTCTTTTGAGCTTCCCATT-T
1 GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCT-ATTATATAGCTCACATGAGCTTCCCATTAT
62405125 ATGGCTCGTAT
65 ATGGCTCGTAT
* * *
62405136 GAGCTTTCCGATAATTAGCTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCGTTATA
1 GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCATTATA
62405201 TGGCTCG
66 TGGCTCG
62405208 GAAGAGTTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
73 4 0.07
74 47 0.78
75 9 0.15
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (75 bp):
GAGCTTCCCGATAATTAACTCGCAAGAGCTTCCTATTATATAGCTCACATGAGCTTCCCATTATA
TGGCTCGTAT
Found at i:62423470 original size:156 final size:156
Alignment explanation
Indices: 62423244--62423710 Score: 868
Period size: 156 Copynumber: 3.0 Consensus size: 156
62423234 GAAGCAATAA
* * *
62423244 CTGAAAACTACTTGGAAATATTTGACCTA-C--GTTACCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
62423306 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
62423371 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
62423397 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
62423462 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
62423527 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
62423553 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
*
62423618 TACCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
62423683 ATTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
62423709 CT
1 CT
62423711 ACTAAGAGAA
Statistics
Matches: 306, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
153 28 0.09
154 1 0.00
156 277 0.91
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (156 bp):
CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
TTTACCTTTTCTTTTAAAGCAGAAAG
Found at i:62426201 original size:22 final size:21
Alignment explanation
Indices: 62426176--62426243 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 21
62426166 ATTTTAAACC
62426176 TTTCTTCTTTTTTATTTATTTT
1 TTTCTT-TTTTTTATTTATTTT
**
62426198 TTTCTATTTTTTGCTTT-TTTT
1 TTTCT-TTTTTTTATTTATTTT
62426219 TTTACTTTTTTATGTATTTATTTT
1 TTT-CTTTTTT-T-TATTTATTTT
62426243 T
1 T
62426244 AGGTTATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 12 0.32
22 16 0.43
23 4 0.11
24 5 0.14
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTTTTATTTATTTT
Found at i:62426209 original size:21 final size:22
Alignment explanation
Indices: 62426183--62426243 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 22
62426173 ACCTTTCTTC
62426183 TTTTTTATTTATTTTTTT-CTA
1 TTTTTTATTTATTTTTTTACTA
* *
62426204 TTTTTTGCTTT-TTTTTTTACTT
1 TTTTTT-ATTTATTTTTTTACTA
62426226 TTTTATGTATTTATTTTT
1 TTTT-T-TATTTATTTTT
62426244 AGGTTATTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 13 0.41
22 9 0.28
23 4 0.12
24 6 0.19
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.80
Consensus pattern (22 bp):
TTTTTTATTTATTTTTTTACTA
Found at i:62444655 original size:24 final size:24
Alignment explanation
Indices: 62444628--62444673 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
62444618 ATTGTATTGG
*
62444628 ATGAAGAGGAGGAAGATGAAGATT
1 ATGAAGAGGAGGAAGAAGAAGATT
* *
62444652 ATGAGGTGGAGGAAGAAGAAGA
1 ATGAAGAGGAGGAAGAAGAAGA
62444674 AGATGACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (24 bp):
ATGAAGAGGAGGAAGAAGAAGATT
Found at i:62444710 original size:12 final size:12
Alignment explanation
Indices: 62444675--62444712 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
62444665 AGAAGAAGAA
*
62444675 GATGACGATGAC
1 GATGACGATGAT
62444687 GATGACGATGAT
1 GATGACGATGAT
*
62444699 GATGATGATGAT
1 GATGACGATGAT
62444711 GA
1 GA
62444713 AGAGGAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (12 bp):
GATGACGATGAT
Found at i:62444712 original size:6 final size:6
Alignment explanation
Indices: 62444675--62444709 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
62444665 AGAAGAAGAA
* *
62444675 GATGAC GATGAC GATGAC GATGAT GATGAT GATGA
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATGA
62444710 TGAAGAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.34, T:0.23
Consensus pattern (6 bp):
GATGAC
Found at i:62462251 original size:20 final size:20
Alignment explanation
Indices: 62462226--62462267 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
62462216 TACAAAAAGT
*
62462226 AATAATTTTCAAAAATT-CAA
1 AATAATTAT-AAAAATTCCAA
62462246 AATAATTATAAAAATTCCAA
1 AATAATTATAAAAATTCCAA
62462266 AA
1 AA
62462268 ATTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATTATAAAAATTCCAA
Found at i:62462258 original size:18 final size:18
Alignment explanation
Indices: 62462236--62462295 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
62462226 AATAATTTTC
62462236 AAAAATTCAAAATAATTAT
1 AAAAATTCAAAA-AATTAT
*
62462255 AAAAATTCCAAAAATTAT
1 AAAAATTCAAAAAATTAT
* * *
62462273 ATATACTTTAAAAAA-TAT
1 A-AAAATTCAAAAAATTAT
62462291 AAAAA
1 AAAAA
62462296 ATATAAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 20 0.61
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATTCAAAAAATTAT
Found at i:62462301 original size:45 final size:45
Alignment explanation
Indices: 62462210--62462304 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
62462200 CTCTCTCAAC
* *
62462210 AAAAATTACAAAAAGTAATAATTTTCAAAAATTCAAAATAATTAT
1 AAAAATTACAAAAAGTAATAACTTTAAAAAATTCAAAATAATTAT
* *
62462255 AAAAATTCCAAAAATTATATATACTTTAAAAAATAT-AAAA-AA-TAT
1 AAAAATTACAAAAAGTA-ATA-ACTTTAAAAAAT-TCAAAATAATTAT
62462300 AAAAA
1 AAAAA
62462305 GAATCACGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
45 23 0.53
46 5 0.12
47 14 0.33
48 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (45 bp):
AAAAATTACAAAAAGTAATAACTTTAAAAAATTCAAAATAATTAT
Found at i:62465805 original size:48 final size:48
Alignment explanation
Indices: 62465753--62465847 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
62465743 TAAAAGCCAT
62465753 GGCAATGCTTGATGATCTATGATACATTGTGTAGAAAAAAGATAATCA
1 GGCAATGCTTGATGATCTATGATACATTGTGTAGAAAAAAGATAATCA
62465801 GGCAATGCTTGATGATCTATGATACATTGTGTAGAAAAAAGATAATC
1 GGCAATGCTTGATGATCTATGATACATTGTGTAGAAAAAAGATAATC
62465848 TTTAACAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (48 bp):
GGCAATGCTTGATGATCTATGATACATTGTGTAGAAAAAAGATAATCA
Found at i:62468151 original size:29 final size:30
Alignment explanation
Indices: 62468098--62468177 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
62468088 TAATTGGATC
* *
62468098 AAATCAAAATTTCATGTACAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* *
62468128 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
62468159 AAACCATAGTTCATGTATA
1 AAATCAAAGTTCATGTATA
62468178 GTTTTGGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.48
30 5 0.12
31 17 0.40
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:62470459 original size:19 final size:19
Alignment explanation
Indices: 62470415--62470453 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62470405 TATAGACAAA
62470415 AACCAACCAACACCAAAAC
1 AACCAACCAACACCAAAAC
62470434 AACCAACCAACACCAAAAC
1 AACCAACCAACACCAAAAC
62470453 A
1 A
62470454 TACAACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.41, G:0.00, T:0.00
Consensus pattern (19 bp):
AACCAACCAACACCAAAAC
Found at i:62471001 original size:7 final size:7
Alignment explanation
Indices: 62470989--62471022 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
62470979 TATTAGTTTA
*
62470989 ATAAATC
1 ATAAACC
*
62470996 ATAAATC
1 ATAAACC
62471003 ATAAACC
1 ATAAACC
62471010 ATAAACC
1 ATAAACC
62471017 ATAAAC
1 ATAAAC
62471023 AACTTCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAACC
Found at i:62471277 original size:23 final size:23
Alignment explanation
Indices: 62471235--62471278 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
62471225 GTAAAACCGA
*
62471235 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
62471258 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
62471279 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:62476774 original size:4 final size:4
Alignment explanation
Indices: 62476760--62476798 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
62476750 TTATTTGTCC
*
62476760 TTTA TTTTA TTTA TTTA TTTA TTTG TTTA -TTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
62476799 TATAAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:62476800 original size:28 final size:28
Alignment explanation
Indices: 62476729--62476801 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 28
62476719 TTTTCTTTTA
*
62476729 TTTATTTACATTTTAATTTTTTTATTTGTCC
1 TTTATTT--ATTTT-ATTTATTTATTTGTCC
*
62476760 TTTATTT-TATTTATTTATTTATTTGT-T
1 TTTATTTAT-TTTATTTATTTATTTGTCC
62476787 TATTATTTATTTTAT
1 T-TTATTTATTTTAT
62476802 AAAATCTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
27 1 0.03
28 25 0.68
29 4 0.11
31 7 0.19
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTATTTATTTTATTTATTTATTTGTCC
Found at i:62476845 original size:23 final size:22
Alignment explanation
Indices: 62476819--62476884 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
62476809 GAAATGTATA
62476819 TTTTAAATATTTTATAATATTAT
1 TTTTAAATATTTTA-AATATTAT
* *
62476842 TTTTAAAAATTTTAAAAATTAT
1 TTTTAAATATTTTAAATATTAT
* *
62476864 TTTTTAATATTATAAAATATT
1 TTTTAAATATT-TTAAATATT
62476885 TAAAATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAATATTTTAAATATTAT
Found at i:62476862 original size:22 final size:23
Alignment explanation
Indices: 62476810--62476867 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
62476800 ATAAAATCTG
*
62476810 AAATGTATATTTTAAATATTTTATA
1 AAAT-TAT-TTTTAAAAATTTTATA
*
62476835 ATATTATTTTTAAAAATTTTA-A
1 AAATTATTTTTAAAAATTTTATA
62476857 AAATTATTTTT
1 AAATTATTTTT
62476868 TAATATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.37
23 13 0.43
24 3 0.10
25 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AAATTATTTTTAAAAATTTTATA
Found at i:62476887 original size:31 final size:33
Alignment explanation
Indices: 62476847--62476907 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
62476837 ATTATTTTTA
*
62476847 AAAATTTT-AAA-A-ATTATTTTTTAATATTAT
1 AAAATTTTAAAATATATTATTTTTAAATATTAT
62476877 AAAATATTTAAAATATATTATTTTTAAATAT
1 AAAAT-TTTAAAATATATTATTTTTAAATAT
62476908 ATGACCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 5 0.19
31 3 0.12
32 3 0.12
33 1 0.04
34 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
AAAATTTTAAAATATATTATTTTTAAATATTAT
Found at i:62476981 original size:13 final size:13
Alignment explanation
Indices: 62476963--62477030 Score: 61
Period size: 13 Copynumber: 5.0 Consensus size: 13
62476953 TATTTTTTAA
62476963 TTTTAAATATATT
1 TTTTAAATATATT
62476976 TTTTAAA-ATTATTT
1 TTTTAAATA-TA-TT
62476990 TTTTAAAATTATGATTT
1 TTTT-AAA-TAT-A-TT
62477007 TTTTAAAT-TA-T
1 TTTTAAATATATT
62477018 TTTTAAATATATT
1 TTTTAAATATATT
62477031 CAAAAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
11 9 0.19
12 3 0.06
13 11 0.23
14 7 0.15
15 4 0.09
16 4 0.09
17 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (13 bp):
TTTTAAATATATT
Found at i:62476991 original size:14 final size:14
Alignment explanation
Indices: 62476974--62477021 Score: 69
Period size: 14 Copynumber: 3.3 Consensus size: 14
62476964 TTTAAATATA
62476974 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
62476988 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
*
62477002 GATTTTTTTAAATTAT
1 --TTTTTTAAAATTAT
62477018 TTTT
1 TTTT
62477022 AAATATATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 18 0.58
16 13 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:62477282 original size:14 final size:14
Alignment explanation
Indices: 62477255--62477321 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 14
62477245 ATAAAAAAAG
62477255 ATTA-AAAATATAT
1 ATTAGAAAATATAT
62477268 ATTAGAAAATTTATATAT
1 ATTAG-AAA---ATATAT
*
62477286 ATTA-AAAAAATA-
1 ATTAGAAAATATAT
*
62477298 ATTTGAAAATATAT
1 ATTAGAAAATATAT
62477312 ATTAGAAAAT
1 ATTAGAAAAT
62477322 TTATTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
12 3 0.07
13 15 0.35
14 9 0.21
15 3 0.07
16 3 0.07
18 10 0.23
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATTAGAAAATATAT
Found at i:62477313 original size:30 final size:31
Alignment explanation
Indices: 62477255--62477313 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
62477245 ATAAAAAAAG
* *
62477255 ATTAAAAATATATATTAGAAAATTTATATAT
1 ATTAAAAAAATATATTAGAAAATATATATAT
*
62477286 ATTAAAAAAATA-ATTTGAAAATATATAT
1 ATTAAAAAAATATATTAGAAAATATATAT
62477314 TAGAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTAAAAAAATATATTAGAAAATATATATAT
Found at i:62477411 original size:14 final size:16
Alignment explanation
Indices: 62477375--62477414 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
62477365 TATCTTTAAA
62477375 AATAATTT-AAAAATT
1 AATAATTTAAAAAATT
62477390 AATAATTTAAAAAATT
1 AATAATTTAAAAAATT
62477406 -AT-ATTTAAA
1 AATAATTTAAA
62477415 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
16 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATTTAAAAAATT
Found at i:62477430 original size:20 final size:20
Alignment explanation
Indices: 62477407--62477468 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
62477397 TAAAAAATTA
* *
62477407 TATTTAAATTTTTTAAAAAG
1 TATTTAAAATATTTAAAAAG
62477427 TATTTAAAATATTTAAAATA-
1 TATTTAAAATATTTAAAA-AG
62477447 TACATTTAAAATATTATAAAAA
1 T--ATTTAAAATATT-TAAAAA
62477469 ATAATAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 17 0.47
21 1 0.03
22 13 0.36
23 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTTAAAATATTTAAAAAG
Done.