Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 151 of 202
Found at i:46994486 original size:96 final size:96
Alignment explanation
Indices: 46994361--46994668 Score: 352
Period size: 96 Copynumber: 3.3 Consensus size: 96
46994351 TTTGATATGA
* * * * *
46994361 TCTGCTCTACTGCAGCTTCAAAGATATAAGATCTGTAATTTATAGCTTAAATCTATTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
46994426 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
66 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
* * * * * *
46994457 CCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTA-AG-TTCAACCTGCTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * * * *
46994515 ACCTT-ATGGAGATAAGGTTTGATATG---A-
66 A-CTTCAGGGAAATAAGATTCGCTATGTTCAG
* *
46994542 TCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
46994607 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
66 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
*
46994638 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
46994669 CTTCACTTCA
Statistics
Matches: 168, Mismatches: 31, Indels: 26
0.75 0.14 0.12
Matches are distributed among these distances:
85 27 0.16
86 2 0.01
88 1 0.01
89 32 0.19
90 7 0.04
91 8 0.05
92 34 0.20
93 1 0.01
95 2 0.01
96 54 0.32
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (96 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
ACTTCAGGGAAATAAGATTCGCTATGTTCAG
Found at i:46994543 original size:181 final size:181
Alignment explanation
Indices: 46994315--46994671 Score: 606
Period size: 181 Copynumber: 2.0 Consensus size: 181
46994305 ATTCACTATC
* * *
46994315 TTCAATCTGCTCAACTGTAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
1 TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
* *
46994380 AAAGATATAAGATCTGTAATTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
66 AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
46994445 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
131 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
* *
46994496 TTCAACCTGCTCCACTGCAACCTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
1 TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
* * *
46994561 AGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
66 AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
* *
46994626 CGCTATGTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT
131 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
46994672 CACTTCAATC
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 164 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (181 bp):
TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
Found at i:47002257 original size:17 final size:17
Alignment explanation
Indices: 47002235--47002269 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47002225 ACCATTTAGA
*
47002235 TGCTGCCCCTTTGAGGC
1 TGCTGCCCCTGTGAGGC
47002252 TGCTGCCCCTGTGAGGC
1 TGCTGCCCCTGTGAGGC
47002269 T
1 T
47002270 ATCTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.31, T:0.29
Consensus pattern (17 bp):
TGCTGCCCCTGTGAGGC
Found at i:47007303 original size:6 final size:6
Alignment explanation
Indices: 47007292--47007367 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
47007282 ATATATAAAA
* * ** ** *
47007292 AATAAT AATAAT AGTATT AATAGC AATAAT AATCGT AATAAT AATAAC
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * *
47007340 AATAAT AATAAC AATACT AATAAC AATA
1 AATAAT AATAAT AATAAT AATAAT AATA
47007368 TTAAACTAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:47007324 original size:12 final size:12
Alignment explanation
Indices: 47007292--47007367 Score: 80
Period size: 12 Copynumber: 6.3 Consensus size: 12
47007282 ATATATAAAA
*
47007292 AATAATAATAAT
1 AATAATAATAAC
* * *
47007304 AGTATTAATAGC
1 AATAATAATAAC
***
47007316 AATAATAATCGT
1 AATAATAATAAC
47007328 AATAATAATAAC
1 AATAATAATAAC
47007340 AATAATAATAAC
1 AATAATAATAAC
*
47007352 AATACTAATAAC
1 AATAATAATAAC
47007364 AATA
1 AATA
47007368 TTAAACTAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:47007355 original size:24 final size:24
Alignment explanation
Indices: 47007292--47007367 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
47007282 ATATATAAAA
* * *
47007292 AATAATAATAATAGTATTAATAGC
1 AATAATAATAATAATAATAATAAC
**
47007316 AATAATAATCGTAATAATAATAAC
1 AATAATAATAATAATAATAATAAC
* *
47007340 AATAATAATAACAATACTAATAAC
1 AATAATAATAATAATAATAATAAC
47007364 AATA
1 AATA
47007368 TTAAACTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (24 bp):
AATAATAATAATAATAATAATAAC
Found at i:47009333 original size:34 final size:34
Alignment explanation
Indices: 47009280--47009361 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
47009270 GATACACGAG
* * * * *
47009280 TAAACTACAACACATCAGATAGCTTGTAGGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
47009314 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
*
47009348 TAAACTATACCACA
1 TAAACTACACCACA
47009362 ACATGACACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (34 bp):
TAAACTACACCACACCAGATAGCTCGCAAGAGCT
Found at i:47011666 original size:15 final size:15
Alignment explanation
Indices: 47011646--47011676 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47011636 ATAACAACAT
47011646 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
47011661 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
47011676 A
1 A
47011677 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:47039392 original size:16 final size:16
Alignment explanation
Indices: 47039371--47039415 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
47039361 ATATATTTTC
* *
47039371 TAAATATAATAATGTA
1 TAAATAAAATAATGAA
*
47039387 TAAATAAAATCATGAA
1 TAAATAAAATAATGAA
*
47039403 TATATAAAATAAT
1 TAAATAAAATAAT
47039416 ACTTGAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAATAAAATAATGAA
Found at i:47040039 original size:22 final size:21
Alignment explanation
Indices: 47040009--47040065 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
47039999 AGCCTTGCTC
* *
47040009 TTATTAAAAATTAGAAATAAAA
1 TTATAAAAAATTAAAAAT-AAA
*
47040031 TTATAAAAAATAAAAAATAAA
1 TTATAAAAAATTAAAAATAAA
*
47040052 TTTTAGAAAAATTA
1 TTATA-AAAAATTA
47040066 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
TTATAAAAAATTAAAAATAAA
Found at i:47040122 original size:17 final size:16
Alignment explanation
Indices: 47040089--47040120 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47040079 AAATATAAAA
47040089 AAATTAGATTTTTTTT
1 AAATTAGATTTTTTTT
47040105 AAATTAGATTTTTTTT
1 AAATTAGATTTTTTTT
47040121 TATAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
AAATTAGATTTTTTTT
Found at i:47040425 original size:27 final size:26
Alignment explanation
Indices: 47040376--47040452 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
47040366 ACTTTATAAA
47040376 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTATATTTCT-TAT
*
47040403 ATTTTATGATTTTTTATGA-TTCTTAT
1 ATTTTATAATTTTTTAT-ATTTCTTAT
* *
47040429 AAAAGTTTACAATTTTTTATATTT
1 ---ATTTTATAATTTTTTATATTT
47040453 TTTTACGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.07
27 20 0.49
28 2 0.05
29 16 0.39
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
ATTTTATAATTTTTTATATTTCTTAT
Found at i:47040457 original size:20 final size:20
Alignment explanation
Indices: 47040434--47040471 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47040424 CTTATAAAAG
*
47040434 TTTACAATTTTTTATATTTT
1 TTTACAATTTTTAATATTTT
*
47040454 TTTACGATTTTTAATATT
1 TTTACAATTTTTAATATT
47040472 GGAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTACAATTTTTAATATTTT
Found at i:47040696 original size:90 final size:90
Alignment explanation
Indices: 47040569--47040766 Score: 272
Period size: 90 Copynumber: 2.2 Consensus size: 90
47040559 GCTTAAATTT
* * * * *
47040569 TTTTTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTGCA
1 TTTTTTGAAAAAGTTTGAGGGCCTGTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA
* *
47040634 AAAAAAAAGTAGGGGCTTAATTGCGA
66 AAAAAAAAGAAGGGGCTTAATTAC-A
* **
47040660 TTTTTT-AAAAGGTTTGAGGGCCTGTTTGATGCATTTTGAGGGTTCAAGTACCCAAATGAGTGCA
1 TTTTTTGAAAAAGTTTGAGGGCCTGTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA
*
47040724 AAAAAATAGAAGGGGCTTAATTACA
66 AAAAAAAAGAAGGGGCTTAATTACA
*
47040749 TTTTTTGAAAAATTTTGA
1 TTTTTTGAAAAAGTTTGA
47040767 CGACTTTTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 7 0.08
90 80 0.86
91 6 0.06
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (90 bp):
TTTTTTGAAAAAGTTTGAGGGCCTGTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA
AAAAAAAAGAAGGGGCTTAATTACA
Found at i:47063425 original size:49 final size:49
Alignment explanation
Indices: 47063322--47063499 Score: 153
Period size: 49 Copynumber: 3.6 Consensus size: 49
47063312 AGATCCCATG
* * * **
47063322 TAAGACCATGTCTGGGACTTGGCATTGGCACTAAGATGAGAGGTGCCATG
1 TAAGACCATGTCTGGGACATGG-ATTGGCACCAAGATGAGAGGTCCCACA
* * *
47063372 TAAGACCATGTTTGGGACAT-GAGTTGGCACCGAGATGAGAGGTCCCCCA
1 TAAGACCATGTCTGGGACATGGA-TTGGCACCAAGATGAGAGGTCCCACA
* * * * * **
47063421 TAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGA-CTCTCATG
1 TAAGACCATGTCTGGGACATGG-ATTGGCACCAAGATGAGAGGTCCCACA
* *
47063470 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGG-ATTGGCA
47063500 GTAAAAGAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 70 0.67
50 33 0.31
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGATTGGCACCAAGATGAGAGGTCCCACA
Found at i:47071057 original size:51 final size:51
Alignment explanation
Indices: 47070999--47071098 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
47070989 ATGTGTTTCA
* * *
47070999 TCAATGTGCTGCAGTAGTGCGGAAATTAAGGTGTTGGTCCTTACTCGTTAG
1 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTTAG
47071050 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTT
1 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTT
47071099 TACTTGAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (51 bp):
TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTTAG
Found at i:47072177 original size:41 final size:41
Alignment explanation
Indices: 47072109--47072555 Score: 554
Period size: 41 Copynumber: 10.9 Consensus size: 41
47072099 TCTAACAAAT
* *
47072109 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
47072150 TCAGTGCTTTAGCGGTGTTTCTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
47072191 TCAGTGCTTTAGCGGCGTTTCTGAAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
47072232 TCGGTGCTTTAGCTGCGTTTCTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
47072273 TCGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* ** *
47072314 T-GGGGATTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * **
47072354 TTGGGGCTATAGCGGCGTTTTTGGGAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * **
47072395 TTGGGGCTATAGCGGCGTTTTTGGGAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * **
47072436 TTGGGGCTATAGCAGCGTTTTTGGGAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * ** *
47072477 TAGGGGCTTTAGCGGGGTTTTTGAAAAAGCGTTGCCAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
47072518 TAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
47072556 AAACATTTTA
Statistics
Matches: 370, Mismatches: 35, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
40 35 0.09
41 335 0.91
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:47072692 original size:23 final size:26
Alignment explanation
Indices: 47072639--47072693 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
47072629 ATCTTCAGAA
*
47072639 AAAATAATAACACGTGGAAATAATTT
1 AAAATAATAACACATGGAAATAATTT
*
47072665 GAAATAA-AACACATGGAAA-AA-TT
1 AAAATAATAACACATGGAAATAATTT
47072688 AAAATA
1 AAAATA
47072694 CTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 7 0.27
24 2 0.08
25 11 0.42
26 6 0.23
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (26 bp):
AAAATAATAACACATGGAAATAATTT
Found at i:47072899 original size:15 final size:15
Alignment explanation
Indices: 47072879--47072939 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 15
47072869 TATTTTAAGG
*
47072879 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
47072894 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
47072908 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
47072922 TTTAAGGG-TTA-GGA
1 TTT-AGGGATTATGGA
47072936 TTTA
1 TTTA
47072940 AGGTTTAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 3 0.08
14 21 0.52
15 16 0.40
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:47072934 original size:21 final size:21
Alignment explanation
Indices: 47072909--47072984 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
47072899 GGATTATGAA
*
47072909 TTAGGGATTATGGTTTAAGGG
1 TTAGGGATTAAGGTTTAAGGG
*
47072930 TTA-GGATTTAAGGTTTAGGGG
1 TTAGGGA-TTAAGGTTTAAGGG
* * *
47072951 TTAGGGGTTAGGAGTTTAAGGT
1 TTAGGGATTAAG-GTTTAAGGG
47072973 TTAGAGG-TTAAG
1 TTAG-GGATTAAG
47072985 AGTTAAAGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.07
21 22 0.50
22 17 0.39
23 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (21 bp):
TTAGGGATTAAGGTTTAAGGG
Found at i:47072939 original size:14 final size:14
Alignment explanation
Indices: 47072922--47072976 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
47072912 GGGATTATGG
47072922 TTTAAGGGTTAGGA
1 TTTAAGGGTTAGGA
* *
47072936 TTTAAGGTTTAGGG
1 TTTAAGGGTTAGGA
* *
47072950 GTTAGGGGTTAGGA
1 TTTAAGGGTTAGGA
*
47072964 GTTTAAGGTTTAG
1 -TTTAAGGGTTAG
47072977 AGGTTAAGAG
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTTAAGGGTTAGGA
Found at i:47072952 original size:29 final size:28
Alignment explanation
Indices: 47072923--47073004 Score: 110
Period size: 29 Copynumber: 2.9 Consensus size: 28
47072913 GGATTATGGT
*
47072923 TTAAGGGTTAGGATTTAAGGTTTAGGGG
1 TTAAGGGTTAGGATTTAAGGTTTAGAGG
*
47072951 TTAGGGGTTAGGAGTTTAAGGTTTAGAGG
1 TTAAGGGTTAGGA-TTTAAGGTTTAGAGG
* *
47072980 TTAAGAGTTAAAGATTTAAGGTTTA
1 TTAAGGGTT-AGGATTTAAGGTTTA
47073005 AAGATTCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
28 12 0.26
29 32 0.68
30 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (28 bp):
TTAAGGGTTAGGATTTAAGGTTTAGAGG
Found at i:47072974 original size:7 final size:7
Alignment explanation
Indices: 47072920--47073005 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
47072910 TAGGGATTAT
47072920 GGTTTAA
1 GGTTTAA
*
47072927 GGGTT-A
1 GGTTTAA
47072933 GGATTTAA
1 GG-TTTAA
*
47072941 GGTTTAG
1 GGTTTAA
* *
47072948 GGGTTAG
1 GGTTTAA
* *
47072955 GGGTTAG
1 GGTTTAA
47072962 GAGTTTAA
1 G-GTTTAA
47072970 GGTTTAGA
1 GGTTTA-A
47072978 GG-TTAA
1 GGTTTAA
*
47072984 GAGTTAAA
1 G-GTTTAA
*
47072992 GATTTAA
1 GGTTTAA
47072999 GGTTTAA
1 GGTTTAA
47073006 AGATTCATGG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
6 5 0.08
7 43 0.68
8 15 0.24
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.36
Consensus pattern (7 bp):
GGTTTAA
Found at i:47072976 original size:22 final size:22
Alignment explanation
Indices: 47072937--47073002 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
47072927 GGGTTAGGAT
* * *
47072937 TTAAG-GTTTAGGGGTTAGGGG
1 TTAAGAGTTTAAGGTTTAGAGG
*
47072958 TTAGGAGTTTAAGGTTTAGAGG
1 TTAAGAGTTTAAGGTTTAGAGG
* *
47072980 TTAAGAGTTAAAGATTTA-AGG
1 TTAAGAGTTTAAGGTTTAGAGG
47073001 TT
1 TT
47073003 TAAAGATTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 9 0.24
22 28 0.76
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.36
Consensus pattern (22 bp):
TTAAGAGTTTAAGGTTTAGAGG
Found at i:47073005 original size:15 final size:15
Alignment explanation
Indices: 47072965--47073010 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47072955 GGGTTAGGAG
*
47072965 TTTAAGGTTTAGAG-
1 TTTAAGGTTTAAAGA
*
47072979 GTTAAGAG-TTAAAGA
1 TTTAAG-GTTTAAAGA
47072994 TTTAAGGTTTAAAGA
1 TTTAAGGTTTAAAGA
47073009 TT
1 TT
47073011 CATGGGTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (15 bp):
TTTAAGGTTTAAAGA
Found at i:47073074 original size:25 final size:25
Alignment explanation
Indices: 47073046--47073093 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
47073036 TTAGATTAAT
*
47073046 TTTTTTAATTTATATTTTAAATATG
1 TTTTTTAATTTATATATTAAATATG
47073071 TTTTTTAATTTATATATTAAATA
1 TTTTTTAATTTATATATTAAATA
47073094 ATTTCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTAATTTATATATTAAATATG
Found at i:47073274 original size:14 final size:15
Alignment explanation
Indices: 47073248--47073285 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
47073238 GGGGATTATA
47073248 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
47073263 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
47073277 TATGG-TTTA
1 TATGGATTTA
47073286 ACAGTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:47073330 original size:21 final size:21
Alignment explanation
Indices: 47073304--47073343 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47073294 GATTTAAGAT
*
47073304 TTAGGGGTTAAGGGTTAGGAG
1 TTAGGGGTTAAGAGTTAGGAG
47073325 TTAGGGGTTAAGAGTTAGG
1 TTAGGGGTTAAGAGTTAGG
47073344 GATTTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (21 bp):
TTAGGGGTTAAGAGTTAGGAG
Found at i:47073342 original size:14 final size:14
Alignment explanation
Indices: 47073310--47073344 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47073300 AGATTTAGGG
* *
47073310 GTTAAGGGTTAGGA
1 GTTAGGGGTTAAGA
47073324 GTTAGGGGTTAAGA
1 GTTAGGGGTTAAGA
47073338 GTTAGGG
1 GTTAGGG
47073345 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.29
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:47073717 original size:19 final size:20
Alignment explanation
Indices: 47073693--47073735 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
47073683 AATTATAAGA
*
47073693 AAAAATAAAATACAAAAA-T
1 AAAAATAAAATAAAAAAACT
*
47073712 AAAAATGAAATAAAAAAACT
1 AAAAATAAAATAAAAAAACT
47073732 AAAA
1 AAAA
47073736 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAATAAAATAAAAAAACT
Found at i:47079013 original size:43 final size:44
Alignment explanation
Indices: 47078961--47079276 Score: 285
Period size: 43 Copynumber: 7.4 Consensus size: 44
47078951 TAGTGGCGAG
*
47078961 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTT-TAGGAA
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
* *
47079004 AAGCGCCGCTAAAGGTATCGAGCTATAGCGAC-GTTTGTGGAAA
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
* * *
47079047 AAGCCCCGCTAAAAGCTGT-GA-CTTATAGCGGC-GTTTGTGGGAA
1 AAGCGCCGCT-AAAGGTATCGAGC-TATAGCGGCAGTTTGTGGGAA
* **
47079090 AAGCGTCGCTAAAGGTATCGAGCTATAGCAACA-TTTGTGGGAA
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
* * * * * **
47079133 AAACGTCGCTAAATGTCTTGAGCTATAATGGCA-TTTGTGGGAA
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
* * *
47079176 AAGCGCCGCTAAAGGTCTCGAGATATAGCGGC-GTTTTTGGG-A
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
* * * * ** *
47079218 AAGTGCCGCTAAAGGTTAACG-TCTTTAGCGGCA-TTTGTTAGAG
1 AAGCGCCGCTAAAGG-TATCGAGCTATAGCGGCAGTTTGTGGGAA
*
47079261 AAGCGCCGCTATAGGT
1 AAGCGCCGCTAAAGGT
47079277 CATGGTCTTT
Statistics
Matches: 221, Mismatches: 42, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
42 40 0.18
43 174 0.79
44 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTGTGGGAA
Found at i:47079203 original size:129 final size:127
Alignment explanation
Indices: 47078961--47079233 Score: 316
Period size: 129 Copynumber: 2.1 Consensus size: 127
47078951 TAGTGGCGAG
** *
47078961 AAGCGCCGCTAAAGGTATCGAGCTATAGCGGCAGTTTTAGGAAAAGCGCCGCTAAAGGTATCGAG
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCAACAGTTTTAGGAAAAACGCCGCTAAAGGTATCGAG
* * *
47079026 CTATAGCGACGTTTGTGGAAAAAGCCCCGCTAAAAGCTGTGACTTATAGCGGCGTTTGTGGGAA
66 CTATAACGACATTTGTGGAAAAAGCCCCGCTAAAAGCTGAGAC-TATAGCGGCGTTTGTGGG-A
* * * * * *
47079090 AAGCGTCGCTAAAGGTATCGAGCTATAGCAACA-TTTGTGGGAAAAACGTCGCTAAATGTCTTGA
1 AAGCGCCGCTAAAGGTATCGAGCTATAGCAACAGTTT-TAGGAAAAACGCCGCTAAAGGTATCGA
* * * * * *
47079154 GCTATAATGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTCGAGA-TATAGCGGCGTTTTTGGGA
65 GCTATAACGACATTTGTGGAAAAAGCCCCGCTAAAAG-CT-GAGACTATAGCGGCGTTTGTGGGA
*
47079218 AAGTGCCGCTAAAGGT
1 AAGCGCCGCTAAAGGT
47079234 TAACGTCTTT
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
128 18 0.15
129 98 0.81
130 2 0.02
131 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (127 bp):
AAGCGCCGCTAAAGGTATCGAGCTATAGCAACAGTTTTAGGAAAAACGCCGCTAAAGGTATCGAG
CTATAACGACATTTGTGGAAAAAGCCCCGCTAAAAGCTGAGACTATAGCGGCGTTTGTGGGA
Found at i:47079458 original size:22 final size:22
Alignment explanation
Indices: 47079433--47079475 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47079423 TAGCGGCGCT
* *
47079433 AAAAAATGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
*
47079455 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
47079476 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:47079765 original size:17 final size:17
Alignment explanation
Indices: 47079735--47079769 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47079725 TATATTATGG
47079735 ATGATCTTAGATGTAAA
1 ATGATCTTAGATGTAAA
* *
47079752 ATGATGTTATATGTAAA
1 ATGATCTTAGATGTAAA
47079769 A
1 A
47079770 AAAGATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (17 bp):
ATGATCTTAGATGTAAA
Found at i:47080887 original size:12 final size:12
Alignment explanation
Indices: 47080870--47080897 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47080860 TCAGGTAGTT
47080870 ACACGGCCTAGC
1 ACACGGCCTAGC
47080882 ACACGGCCTAGC
1 ACACGGCCTAGC
47080894 ACAC
1 ACAC
47080898 AGGCATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:47083295 original size:30 final size:30
Alignment explanation
Indices: 47083259--47083325 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
47083249 TTCACATGGT
47083259 CGTGTGAGCTGACCATATGTGGAACACGAC
1 CGTGTGAGCTGACCATATGTGGAACACGAC
* *** * *
47083289 CGTGTGAGGTGATTGTGTGTGGCACACGAC
1 CGTGTGAGCTGACCATATGTGGAACACGAC
47083319 CGTGTGA
1 CGTGTGA
47083326 AAACCCATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.24
Consensus pattern (30 bp):
CGTGTGAGCTGACCATATGTGGAACACGAC
Found at i:47094792 original size:20 final size:19
Alignment explanation
Indices: 47094762--47094843 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 19
47094752 GCATCATTGA
47094762 TGCATAATAGGGGCACTGAAG
1 TGCA-AATAGGGGCAC-GAAG
* *
47094783 TGCAAATAGGGGTACAAATG
1 TGCAAATAGGGGCACGAA-G
* *
47094803 TGCAAACAGGGGCACCGTAG
1 TGCAAATAGGGGCA-CGAAG
*
47094823 TGCAAATAGGGACACGAAG
1 TGCAAATAGGGGCACGAAG
47094842 TG
1 TG
47094844 TATACAAGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 8 0.16
20 36 0.72
21 6 0.12
ACGTcount: A:0.35, C:0.16, G:0.33, T:0.16
Consensus pattern (19 bp):
TGCAAATAGGGGCACGAAG
Found at i:47105953 original size:16 final size:16
Alignment explanation
Indices: 47105932--47105965 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
47105922 TTTACATGTT
47105932 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
47105948 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
47105964 AG
1 AG
47105966 GTTATTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (16 bp):
AGAGGAAAACCTTGGA
Found at i:47111781 original size:19 final size:18
Alignment explanation
Indices: 47111753--47111792 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47111743 AATCAAAACT
**
47111753 AAAATCAAATTCGAATTA
1 AAAATCAAATTAAAATTA
47111771 AAAACTCAAATTAAAATTA
1 AAAA-TCAAATTAAAATTA
47111790 AAA
1 AAA
47111793 CTAATGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATCAAATTAAAATTA
Found at i:47112777 original size:22 final size:22
Alignment explanation
Indices: 47112715--47112786 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
47112705 ACTGTTCAAA
* **
47112715 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
47112737 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
47112759 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
47112781 CATGAG
1 CATGAG
47112787 GGAATATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:47118826 original size:2 final size:2
Alignment explanation
Indices: 47118815--47118852 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
47118805 AATTGAAATG
47118815 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47118853 CAAAATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47121847 original size:31 final size:30
Alignment explanation
Indices: 47121806--47121873 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
47121796 TGTTAATGGA
*
47121806 TGACTAATTTGTCACTTTTCGAAAATGTT-AG
1 TGACTGATTTGTCACTTTTCG-AAA-GTTGAG
* * *
47121837 TGACTGATTTGTTATTTTTTGAAAGTTGAG
1 TGACTGATTTGTCACTTTTCGAAAGTTGAG
47121867 TGACTGA
1 TGACTGA
47121874 ATTGAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 12 0.38
31 17 0.53
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (30 bp):
TGACTGATTTGTCACTTTTCGAAAGTTGAG
Found at i:47124247 original size:2 final size:2
Alignment explanation
Indices: 47124240--47124267 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47124230 TCTAAATTTA
47124240 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47124268 TAGTCACGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47129290 original size:18 final size:20
Alignment explanation
Indices: 47129251--47129290 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
47129241 CACCCCTCCT
*
47129251 TTTTTATTTTACTTTTATTA
1 TTTTTATTTTACTTTCATTA
47129271 TTTTTA-TTTA-TTTCATTA
1 TTTTTATTTTACTTTCATTA
47129289 TT
1 TT
47129291 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTATTTTACTTTCATTA
Found at i:47129291 original size:3 final size:3
Alignment explanation
Indices: 47129265--47129339 Score: 57
Period size: 3 Copynumber: 25.0 Consensus size: 3
47129255 TATTTTACTT
* *
47129265 TTA TTA TTT TTA TTTA TT- TCA TTA TTA TT- TTAA TTA TTA TTA -TA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * *
47129309 TTA GTA GTTA TTA TTA TTC CTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
47129340 ATACTATTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
2 5 0.09
3 44 0.79
4 7 0.12
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:47129292 original size:15 final size:14
Alignment explanation
Indices: 47129254--47129339 Score: 50
Period size: 15 Copynumber: 5.6 Consensus size: 14
47129244 CCCTCCTTTT
*
47129254 TTATT-TTACTTTTA
1 TTATTATTA-TTTAA
* *
47129268 TTATTTTTATTTAT
1 TTATTATTATTTAA
47129282 TTCATTATTATTTTAA
1 TT-ATTATTA-TTTAA
47129298 TTATTATTATATTAGTA
1 TTATTATTAT-TTA--A
47129315 GTTATTATTATTCCT-A
1 -TTATTATTATT--TAA
47129331 TTATTATTA
1 TTATTATTA
47129340 ATACTATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.19
15 28 0.47
16 7 0.12
17 2 0.03
18 10 0.17
19 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTAA
Found at i:47129306 original size:18 final size:18
Alignment explanation
Indices: 47129254--47129326 Score: 55
Period size: 18 Copynumber: 4.1 Consensus size: 18
47129244 CCCTCCTTTT
*
47129254 TTATTTTACTT-TTATTA
1 TTATTTTAATTATTATTA
*
47129271 -T-TTTTATTTATTTCATTA
1 TTATTTTAATTA-TT-ATTA
47129289 TTATTTTAATTATTATTA
1 TTATTTTAATTATTATTA
* *
47129307 -TATTAGTAGTTATTATTA
1 TTATT-TTAATTATTATTA
47129325 TT
1 TT
47129327 CCTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 7 0.16
16 1 0.02
17 6 0.13
18 19 0.42
19 4 0.09
20 8 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTTTAATTATTATTA
Found at i:47129346 original size:15 final size:15
Alignment explanation
Indices: 47129287--47129348 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
47129277 TTTATTTCAT
47129287 TATTATT-TTAAT--
1 TATTATTATTAATAC
* *
47129299 TATTATTA-TATTAG
1 TATTATTATTAATAC
* *
47129313 TAGTTATTATTATTCC
1 TA-TTATTATTAATAC
47129329 TATTATTATTAATAC
1 TATTATTATTAATAC
47129344 TATTA
1 TATTA
47129349 CTACTACTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.25
14 2 0.05
15 22 0.55
16 6 0.15
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (15 bp):
TATTATTATTAATAC
Found at i:47136620 original size:26 final size:26
Alignment explanation
Indices: 47136560--47136630 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
47136550 CTTTGACATC
47136560 GTTGCTCACACGAGCTGTGAAATGTG
1 GTTGCTCACACGAGCTGTGAAATGTG
* * *
47136586 GATGTTCACATGAGCTGTGAAATG-G
1 GTTGCTCACACGAGCTGTGAAATGTG
47136611 GTTTGCTCACACGAGCTGTG
1 G-TTGCTCACACGAGCTGTG
47136631 GAGTATCCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.05
26 36 0.95
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (26 bp):
GTTGCTCACACGAGCTGTGAAATGTG
Found at i:47146028 original size:23 final size:26
Alignment explanation
Indices: 47145984--47146030 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47145974 TTATTATTGG
*
47145984 TTATTTTTTTCTAGTTTGTTATCTCT
1 TTATTTTATTCTAGTTTGTTATCTCT
47146010 TTATTTTATT-TA-TTT-TTATCT
1 TTATTTTATTCTAGTTTGTTATCT
47146031 ATTGTCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 2 0.10
26 9 0.45
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (26 bp):
TTATTTTATTCTAGTTTGTTATCTCT
Found at i:47158435 original size:15 final size:14
Alignment explanation
Indices: 47158417--47158453 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
47158407 CACACTACCG
47158417 TGTGTCACATGGCCA
1 TGTGT-ACATGGCCA
47158432 TGTGT-CA-GGCCA
1 TGTGTACATGGCCA
47158444 TGTGTACATG
1 TGTGTACATG
47158454 AAATTTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.50
13 4 0.20
14 1 0.05
15 5 0.25
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (14 bp):
TGTGTACATGGCCA
Found at i:47159881 original size:17 final size:17
Alignment explanation
Indices: 47159859--47159891 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47159849 CAATTCAGTC
47159859 CAAAATT-CATATTTTTA
1 CAAAATTACA-ATTTTTA
47159876 CAAAATTACAATTTTT
1 CAAAATTACAATTTTT
47159892 CCCCTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
CAAAATTACAATTTTTA
Found at i:47167218 original size:27 final size:27
Alignment explanation
Indices: 47167185--47167310 Score: 155
Period size: 27 Copynumber: 4.7 Consensus size: 27
47167175 TACCCTCGAT
47167185 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* ** * *
47167212 GGATAAAATGACTTTAATGTCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
47167239 GGGTAAAATGATCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
47167266 GGGTAAAATGACCGTAATAG-CCCTGTA
1 GGGTAAAATGACCGTAAT-GCCCCTGTA
* *
47167293 GGGTAAAATAACTGTAAT
1 GGGTAAAATGACCGTAAT
47167311 TCCCTGGTGG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:47167409 original size:24 final size:24
Alignment explanation
Indices: 47167374--47167432 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
47167364 CCTGTGGTTA
*
47167374 AATGACTAATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
* *
47167398 TATGACTGATTTGTGTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
47167422 AATGACTGATT
1 AATGACTGATT
47167433 CTGAGCATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.07, G:0.25, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:47167557 original size:27 final size:26
Alignment explanation
Indices: 47167527--47167595 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
47167517 ACAATCATTG
**
47167527 TTACTGGTGGCTTTGCCACATATACTA
1 TTACTGGCAGCTTTGCCACA-ATACTA
**
47167554 TTACTGGCAGCTTTGCTGCAATACTA
1 TTACTGGCAGCTTTGCCACAATACTA
*
47167580 TTGCTGGCAGCTTTGC
1 TTACTGGCAGCTTTGC
47167596 TGCGATGCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACAATACTA
Found at i:47167586 original size:26 final size:26
Alignment explanation
Indices: 47167548--47167598 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47167538 TTTGCCACAT
47167548 ATACTATTACTGGCAGCTTTGCTGCA
1 ATACTATTACTGGCAGCTTTGCTGCA
*
47167574 ATACTATTGCTGGCAGCTTTGCTGC
1 ATACTATTACTGGCAGCTTTGCTGC
47167599 GATGCTACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCA
Found at i:47167660 original size:32 final size:32
Alignment explanation
Indices: 47167624--47167788 Score: 113
Period size: 32 Copynumber: 5.2 Consensus size: 32
47167614 TTTGTGTCAG
*
47167624 TCATAGTACCGTTACTGATGGCTTTGTGCCGA
1 TCATAGTACCGTTACTAATGGCTTTGTGCCGA
* * * *
47167656 TCATATTACCATTACCAATGGCTGTGTGCCGA
1 TCATAGTACCGTTACTAATGGCTTTGTGCCGA
* ** **
47167688 TCAT-TTCACTATTACTAATGG-TTGTGTATCGA
1 TCATAGT-ACCGTTACTAATGGCTT-TGTGCCGA
** * * * *
47167720 TCATACCACTGCTACTGATGGCTTTGTGCCAA
1 TCATAGTACCGTTACTAATGGCTTTGTGCCGA
*
47167752 TCAT-GTTACCGTTACTAATGG-TTGTGTGCCGG
1 TCATAG-TACCGTTACTAATGGCTT-TGTGCCGA
47167784 TCATA
1 TCATA
47167789 TCACTGCTAC
Statistics
Matches: 101, Mismatches: 25, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
31 5 0.05
32 94 0.93
33 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (32 bp):
TCATAGTACCGTTACTAATGGCTTTGTGCCGA
Found at i:47167741 original size:64 final size:64
Alignment explanation
Indices: 47167673--47167818 Score: 195
Period size: 64 Copynumber: 2.3 Consensus size: 64
47167663 ACCATTACCA
* * * *
47167673 ATGGCTGTGTGCCGATCAT-TTCACTATTACTAATGGTTGTGTATCGATCATACCACTGCTACTG
1 ATGGCTTTGTGCCAATCATGTT-ACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
* * * *
47167737 ATGGCTTTGTGCCAATCATGTTACCGTTACTAATGGTTGTGTGCCGGTCATATCACTGCTACTG
1 ATGGCTTTGTGCCAATCATGTTACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
*
47167801 TTGGCTTTGTGCCAATCA
1 ATGGCTTTGTGCCAATCA
47167819 CATTACTGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 70 0.97
65 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (64 bp):
ATGGCTTTGTGCCAATCATGTTACCATTACTAATGGTTGTGTACCGATCATACCACTGCTACTG
Found at i:47167812 original size:32 final size:32
Alignment explanation
Indices: 47167601--47167818 Score: 109
Period size: 32 Copynumber: 6.8 Consensus size: 32
47167591 TTTGCTGCGA
* * * *
47167601 TGCTACCGATGGATTTGTGTCAGTCATAGT-AC
1 TGCTACTGATGGCTTTGTGCCAATCATA-TCAC
* * * *
47167633 CGTTACTGATGGCTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATCAC
*** ** * * *
47167665 CATTACCAATGGCTGTGTGCCGATCATTTCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATCAC
** * ** * *
47167697 TATTACTAATGG-TTGTGTATCGATCATACCAC
1 TGCTACTGATGGCTT-TGTGCCAATCATATCAC
* *
47167729 TGCTACTGATGGCTTTGTGCCAATCATGTTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATCAC
* * * **
47167761 CGTTACTAATGG-TTGTGTGCCGGTCATATCAC
1 TGCTACTGATGGCTT-TGTGCCAATCATATCAC
*
47167793 TGCTACTGTTGGCTTTGTGCCAATCA
1 TGCTACTGATGGCTTTGTGCCAATCA
47167819 CATTACTGTA
Statistics
Matches: 139, Mismatches: 42, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
31 4 0.03
32 131 0.94
33 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (32 bp):
TGCTACTGATGGCTTTGTGCCAATCATATCAC
Found at i:47167874 original size:22 final size:22
Alignment explanation
Indices: 47167830--47167876 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
47167820 ATTACTGTAC
* **
47167830 TTATAGCTTGTAGCCATTTTGT
1 TTATAGCTTATAGCCATCCTGT
*
47167852 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
47167874 TTA
1 TTA
47167877 CGGCTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:47167917 original size:26 final size:26
Alignment explanation
Indices: 47167888--47167938 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47167878 GGCTCTTAGC
* *
47167888 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
47167914 CATTATTACTACTGGCAGCTATGCT
1 CATTATGACTACTGGCAGCTATGCT
47167939 ATGATATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:47173714 original size:106 final size:105
Alignment explanation
Indices: 47173529--47173735 Score: 405
Period size: 106 Copynumber: 2.0 Consensus size: 105
47173519 ATTGCTGCAA
47173529 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
47173594 GTTGTTTTAATGTAAATGAATCAATATATATAATATGTTGT
66 GTTGTTTTAATGTAAATGAATCAATATATAT-ATATGTTGT
47173635 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
47173700 GTTGTTTTAATGTAAATGAATCAATATATATATATG
66 GTTGTTTTAATGTAAATGAATCAATATATATATATG
47173736 ATTATGTCTA
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 5 0.05
106 96 0.95
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (105 bp):
TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
GTTGTTTTAATGTAAATGAATCAATATATATATATGTTGT
Found at i:47174042 original size:20 final size:20
Alignment explanation
Indices: 47174017--47174063 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
47174007 GTATGAAAAG
*
47174017 AAAGGAATGGTAAGTGTACA
1 AAAGGAATGATAAGTGTACA
*
47174037 AAAGGAATTATAAGTGTACA
1 AAAGGAATGATAAGTGTACA
47174057 AAAGGAA
1 AAAGGAA
47174064 CTATGTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.26, T:0.19
Consensus pattern (20 bp):
AAAGGAATGATAAGTGTACA
Found at i:47174715 original size:24 final size:24
Alignment explanation
Indices: 47174688--47174738 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
47174678 AAGTTTATGC
47174688 TAAGCAAATG-GAATGGAAAGTAAG
1 TAAGCAAATGAG-ATGGAAAGTAAG
* *
47174712 TAAGTAAATGAGGTGGAAAGTAAG
1 TAAGCAAATGAGATGGAAAGTAAG
47174736 TAA
1 TAA
47174739 ATGGAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.29, T:0.20
Consensus pattern (24 bp):
TAAGCAAATGAGATGGAAAGTAAG
Found at i:47182248 original size:35 final size:35
Alignment explanation
Indices: 47182207--47182334 Score: 132
Period size: 35 Copynumber: 3.5 Consensus size: 35
47182197 AACAATAAAA
*
47182207 TAATAAAATATTATTTAAAAATCAAATTAAAATAT
1 TAATAAAATAATATTTAAAAATCAAATTAAAATAT
* * * *
47182242 TAATAAACTAATATTTATTTATTTAATCAAAAATAATAA-AA
1 TAATAAAATAATATTTA---A--AAATC-AAATTAA-AATAT
47182283 TAATAAAATAATATTTAAAAATCAAATTAAAATAT
1 TAATAAAATAATATTTAAAAATCAAATTAAAATAT
*
47182318 TAATAAACTAATATTTA
1 TAATAAAATAATATTTA
47182335 TTTATTTATT
Statistics
Matches: 75, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
34 2 0.03
35 38 0.51
36 4 0.05
38 2 0.03
40 4 0.05
41 23 0.31
42 2 0.03
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (35 bp):
TAATAAAATAATATTTAAAAATCAAATTAAAATAT
Found at i:47182282 original size:8 final size:8
Alignment explanation
Indices: 47182271--47182295 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47182261 TATTTAATCA
47182271 AAAATAAT
1 AAAATAAT
47182279 AAAATAAT
1 AAAATAAT
47182287 AAAATAAT
1 AAAATAAT
47182295 A
1 A
47182296 TTTAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATAAT
Found at i:47182323 original size:76 final size:76
Alignment explanation
Indices: 47182200--47182342 Score: 277
Period size: 76 Copynumber: 1.9 Consensus size: 76
47182190 TATACTAAAC
*
47182200 AATAAAATAATAAAATATTATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATT
1 AATAAAATAATAAAATAATATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATT
47182265 TAATCAAAAAT
66 TAATCAAAAAT
47182276 AATAAAATAATAAAATAATATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATT
1 AATAAAATAATAAAATAATATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATT
47182341 TA
66 TA
47182343 TTTAATCTAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (76 bp):
AATAAAATAATAAAATAATATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATT
TAATCAAAAAT
Found at i:47201581 original size:1 final size:1
Alignment explanation
Indices: 47201575--47201603 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
47201565 TCATGGTGTG
47201575 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47201604 GTGAATGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:47204648 original size:27 final size:27
Alignment explanation
Indices: 47204617--47204684 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
47204607 TTTTGAAGTC
47204617 AAGTTTTGAAGTTTAGGCTTCAAATTT
1 AAGTTTTGAAGTTTAGGCTTCAAATTT
47204644 AAGTTTTGAAGTTTAGGCTTCAAATTT
1 AAGTTTTGAAGTTTAGGCTTCAAATTT
47204671 AAGTTTTGAAGTTT
1 AAGTTTTGAAGTTT
47204685 GAATTTAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (27 bp):
AAGTTTTGAAGTTTAGGCTTCAAATTT
Found at i:47205119 original size:20 final size:20
Alignment explanation
Indices: 47205094--47205133 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47205084 TATAAATTGT
*
47205094 ATATATTTAAAATTTTAAAA
1 ATATATATAAAATTTTAAAA
*
47205114 ATATATATATAATTTTAAAA
1 ATATATATAAAATTTTAAAA
47205134 TTATTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATATAAAATTTTAAAA
Found at i:47205169 original size:18 final size:15
Alignment explanation
Indices: 47205124--47205190 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 15
47205114 ATATATATAT
**
47205124 AATTTTAAAATTATTA
1 AATTTTAAAA-TAAAA
*
47205140 AATATT-AAATAAAA
1 AATTTTAAAATAAAA
47205154 AAGTTTATAAAAATAAAA
1 AA-TTT-T-AAAATAAAA
47205172 TAATTTTAAAATAAAA
1 -AATTTTAAAATAAAA
47205188 AAT
1 AAT
47205191 ATGAATATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.12
15 8 0.19
16 15 0.36
17 1 0.02
18 11 0.26
19 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (15 bp):
AATTTTAAAATAAAA
Found at i:47205188 original size:17 final size:17
Alignment explanation
Indices: 47205146--47205189 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
47205136 ATTAAATATT
*
47205146 AAATAAAAAAGTTTATAA
1 AAATAAAAAAATTTAT-A
*
47205164 AAATAAAATAATTT-TA
1 AAATAAAAAAATTTATA
47205180 AAATAAAAAA
1 AAATAAAAAA
47205190 TATGAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 1 0.04
18 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAAAAAATTTATA
Found at i:47213247 original size:16 final size:16
Alignment explanation
Indices: 47213226--47213257 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47213216 TATTTATTTA
*
47213226 CAAAAATTATCTAAGT
1 CAAAAATTATATAAGT
47213242 CAAAAATTATATAAGT
1 CAAAAATTATATAAGT
47213258 AAATGATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
CAAAAATTATATAAGT
Found at i:47213950 original size:47 final size:47
Alignment explanation
Indices: 47213881--47213971 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
47213871 TACATATCTC
*
47213881 TATTTTTCATATATGTTATTCTCTTTCCTTTCTC-ATATTTGATTCTT
1 TATTTTCCATATATGTTATTCTCTTTCCTTTC-CAATATTTGATTCTT
**
47213928 TATTTTCCATATATGTTATTCTCTTTGTTTTCCAATATTTGATT
1 TATTTTCCATATATGTTATTCTCTTTCCTTTCCAATATTTGATT
47213972 TTCCATTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.19, C:0.15, G:0.05, T:0.60
Consensus pattern (47 bp):
TATTTTCCATATATGTTATTCTCTTTCCTTTCCAATATTTGATTCTT
Found at i:47214038 original size:46 final size:47
Alignment explanation
Indices: 47213986--47214079 Score: 120
Period size: 46 Copynumber: 2.0 Consensus size: 47
47213976 ATTTCCTATT
* * *
47213986 TCTATTT-TGCATATTTGTTATTCTCTTT-TCTTCCCATATTTGATTC
1 TCTATTTCT-CATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
* *
47214032 TCTATTTCTCATATATGTTAGTATCTTTCTTTTCTCATATTTGATTC
1 TCTATTTCTCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
47214079 T
1 T
47214080 TGTTTTCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
46 23 0.56
47 18 0.44
ACGTcount: A:0.17, C:0.18, G:0.06, T:0.59
Consensus pattern (47 bp):
TCTATTTCTCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
Found at i:47214087 original size:106 final size:107
Alignment explanation
Indices: 47213879--47214077 Score: 287
Period size: 106 Copynumber: 1.9 Consensus size: 107
47213869 AATACATATC
* * *
47213879 TCTATTTTTCATATATGTTATTCTCTTTCCTTTCTCATATTTGATTCTTTATTTTCCATATATGT
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
* * *
47213944 TATTCTCTTTGTTTTCCAATATTTGATTTTCCATTTCCTATT
66 TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
* *
47213986 TCTATTTTGCATATTTGTTATTCTCTTTTC-TTCCCATATTTGATTCTCTA-TTTCTCATATATG
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTC-CATATATG
47214049 TTAGTATCTTTCTTTTCTC-ATATTTGATT
65 TTAGTATCTTTCTTTTC-CAATATTTGATT
47214078 CTTGTTTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
105 4 0.05
106 50 0.61
107 28 0.34
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (107 bp):
TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
Found at i:47214217 original size:19 final size:19
Alignment explanation
Indices: 47214170--47214219 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
47214160 CCCATATTTG
* *
47214170 TCTTTCTCTCTCTCATCCC
1 TCTTTCTTTCTCTCATACC
* * *
47214189 TCTATATTTCTCTCATATC
1 TCTTTCTTTCTCTCATACC
47214208 TCTTTCTTTCTC
1 TCTTTCTTTCTC
47214220 ACTCTCATCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTTTCTTTCTCTCATACC
Found at i:47226075 original size:23 final size:23
Alignment explanation
Indices: 47226035--47226291 Score: 291
Period size: 23 Copynumber: 11.0 Consensus size: 23
47226025 TCTACCCTGT
*
47226035 TTGGACAGC-TCTTATACATCAAA
1 TTGGACAGCAT-TTATACACCAAA
* *
47226058 TTGGATAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
47226082 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
47226105 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
47226128 TTGGACAACATTTTTTACACCAAAA
1 TTGGACAGCA-TTTATACACC-AAA
* *
47226153 CTAGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * * *
47226176 TTGGGCAGTATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
*
47226199 TTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
47226223 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
47226246 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
*
47226269 TTGGACAGCATTTTTACACCAAA
1 TTGGACAGCATTTATACACCAAA
47226292 ATTCACTTGA
Statistics
Matches: 193, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
23 123 0.64
24 60 0.31
25 10 0.05
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:47226252 original size:70 final size:70
Alignment explanation
Indices: 47226054--47226294 Score: 428
Period size: 70 Copynumber: 3.4 Consensus size: 70
47226044 TCTTATACAT
*
47226054 CAAATTGGATAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
47226119 TATAC
66 TATAC
* * * *
47226124 CAAATTGGACAACATTTTTTACACCAAAACTAGACAGCATTTATACACCAAATTGGGCAGTATAT
1 CAAATTGGACAGCA-TTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATAT
47226189 ATATAC
65 ATATAC
47226195 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
47226260 TATAC
66 TATAC
47226265 CAAATTGGACAGCATTTTTACACCAAAATT
1 CAAATTGGACAGCATTTTTACACCAAAATT
47226295 CACTTGAATC
Statistics
Matches: 161, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
70 95 0.59
71 66 0.41
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (70 bp):
CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
TATAC
Found at i:47229477 original size:15 final size:15
Alignment explanation
Indices: 47229457--47229489 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
47229447 CGATATATGT
47229457 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
47229472 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
47229487 AAG
1 AAG
47229490 TTAAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGACTTAGAAAACA
Found at i:47230498 original size:13 final size:12
Alignment explanation
Indices: 47230476--47230528 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
47230466 ATAATGAATG
47230476 GTTTTTATTCAA
1 GTTTTTATTCAA
47230488 GTTTTTCATTC-A
1 GTTTTT-ATTCAA
*
47230500 GTTTTTATTCAT
1 GTTTTTATTCAA
* *
47230512 CTTTCTATT-AA
1 GTTTTTATTCAA
47230523 GTTTTT
1 GTTTTT
47230529 CTTTAGTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 9 0.27
12 20 0.61
13 4 0.12
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (12 bp):
GTTTTTATTCAA
Found at i:47230525 original size:23 final size:24
Alignment explanation
Indices: 47230476--47230528 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
47230466 ATAATGAATG
* *
47230476 GTTTTTATTCAAGTTTTTCATTCA
1 GTTTTTATTCAAGTCTTTCATTAA
47230500 GTTTTTATTC-A-TCTTTCTATTAA
1 GTTTTTATTCAAGTCTTTC-ATTAA
47230523 GTTTTT
1 GTTTTT
47230529 CTTTAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 10 0.38
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (24 bp):
GTTTTTATTCAAGTCTTTCATTAA
Found at i:47230606 original size:47 final size:47
Alignment explanation
Indices: 47230552--47230644 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
47230542 TTTCTTTTAT
47230552 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
1 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
47230599 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAAC
1 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAAC
47230645 GGATTATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (47 bp):
TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAACA
Found at i:47239224 original size:27 final size:26
Alignment explanation
Indices: 47239165--47239238 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
47239155 AGTTTGACAG
*
47239165 GACGTTAAACACGGGTTGGTCCCATAA
1 GACGTTAAACACGGG-TAGTCCCATAA
* **
47239192 GACGTTAAACACGGGATAGTCCGATGG
1 GACGTTAAACACGGG-TAGTCCCATAA
*
47239219 GCCGTTAAACACAGGGTAGT
1 GACGTTAAACAC-GGGTAGT
47239239 TCGTCAGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (26 bp):
GACGTTAAACACGGGTAGTCCCATAA
Found at i:47245152 original size:24 final size:23
Alignment explanation
Indices: 47245116--47245161 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47245106 CTCTTACTTC
47245116 AACTGCCCCAAAAAGGAATTGTT
1 AACTGCCCCAAAAAGGAATTGTT
47245139 AACTGCCCCAAAAAGGAATTGTT
1 AACTGCCCCAAAAAGGAATTGTT
47245162 CTTTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (23 bp):
AACTGCCCCAAAAAGGAATTGTT
Found at i:47255853 original size:20 final size:20
Alignment explanation
Indices: 47255824--47255868 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
47255814 AAAAGAAACC
47255824 TCTA-CAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
47255843 TCTACCAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
47255863 TCTACC
1 TCTACC
47255869 TTTTCTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (20 bp):
TCTACCAACTCTACAAGGGT
Found at i:47256509 original size:23 final size:23
Alignment explanation
Indices: 47256468--47256511 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47256458 TATTTTTAAA
*
47256468 GTTTGTTTATGGTTTGGGTTTGG
1 GTTTGTTTAAGGTTTGGGTTTGG
47256491 GTTT-TTTAAGGTTTAGGGTTT
1 GTTTGTTTAAGGTTT-GGGTTT
47256512 TTAAGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (23 bp):
GTTTGTTTAAGGTTTGGGTTTGG
Found at i:47284142 original size:11 final size:12
Alignment explanation
Indices: 47284121--47284145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47284111 AGTTAGCCTC
47284121 TTTCTTTTTTTT
1 TTTCTTTTTTTT
47284133 TTTCTTTTTTTT
1 TTTCTTTTTTTT
47284145 T
1 T
47284146 ACAGCAGCTA
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:47284531 original size:17 final size:17
Alignment explanation
Indices: 47284509--47284549 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
47284499 GTTTGTTTTT
47284509 AGTGAGTATGTTCAATA
1 AGTGAGTATGTTCAATA
47284526 AGTGAGTATGTTCAATA
1 AGTGAGTATGTTCAATA
47284543 AGTGAGT
1 AGTGAGT
47284550 TGGTGTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (17 bp):
AGTGAGTATGTTCAATA
Found at i:47294991 original size:8 final size:8
Alignment explanation
Indices: 47294978--47295029 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
47294968 TTTTTAAAAA
47294978 TAATTTAT
1 TAATTTAT
47294986 TAA-TT-T
1 TAATTTAT
*
47294992 T-AGTTAT
1 TAATTTAT
47294999 TATATTTAT
1 TA-ATTTAT
47295008 TAATTTAT
1 TAATTTAT
47295016 TAA-TT-T
1 TAATTTAT
47295022 TAATTTAT
1 TAATTTAT
47295030 GCATTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
5 1 0.03
6 8 0.22
7 8 0.22
8 13 0.35
9 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
TAATTTAT
Found at i:47295017 original size:17 final size:14
Alignment explanation
Indices: 47294978--47295029 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
47294968 TTTTTAAAAA
47294978 TAATTTATTAATTT
1 TAATTTATTAATTT
*
47294992 T-AGTTATTATATTTAT
1 TAATTTATTA-A-TT-T
47295008 TAATTTATTAATTT
1 TAATTTATTAATTT
47295022 TAATTTAT
1 TAATTTAT
47295030 GCATTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.22
14 11 0.34
15 4 0.12
16 3 0.09
17 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TAATTTATTAATTT
Found at i:47299197 original size:17 final size:16
Alignment explanation
Indices: 47299159--47299211 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
47299149 TCTAATAGTA
*
47299159 AAAATTAATTTTAAAT
1 AAAATTAATATTAAAT
**
47299175 TTAATTACATATTAAAT
1 AAAATTA-ATATTAAAT
47299192 AAAATTAATTATATAAAT
1 AAAATTAA-TAT-TAAAT
47299210 AA
1 AA
47299212 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAATATTAAAT
Found at i:47309825 original size:18 final size:18
Alignment explanation
Indices: 47309771--47309828 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 18
47309761 GTGAATGTTG
*
47309771 AGAA-AAGAAAAGAAAGT
1 AGAAGAAGAAAAGAAAGA
*
47309788 AGAAGAAAGATCAAAAAAAGA
1 AGAAG-AAGA--AAAGAAAGA
47309809 AGAAGAAGAAAAGAAAGA
1 AGAAGAAGAAAAGAAAGA
47309827 AG
1 AG
47309829 TAGTGTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 4 0.12
18 10 0.29
19 4 0.12
20 4 0.12
21 12 0.35
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.03
Consensus pattern (18 bp):
AGAAGAAGAAAAGAAAGA
Found at i:47319669 original size:22 final size:21
Alignment explanation
Indices: 47319633--47319702 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
47319623 CATCAGTGTT
47319633 ATCAGTGGCAATTTATCTGCAA
1 ATCAGT-GCAATTTATCTGCAA
* *
47319655 ATCAGTAGCAGTTTATCTGCTA
1 ATCAGT-GCAATTTATCTGCAA
*
47319677 ATCAGTGACAATTTATTTGCAA
1 ATCAGTG-CAATTTATCTGCAA
47319699 ATCA
1 ATCA
47319703 ATGGTGGCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (21 bp):
ATCAGTGCAATTTATCTGCAA
Found at i:47322707 original size:51 final size:51
Alignment explanation
Indices: 47322650--47322747 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
47322640 GCCCTAATTC
*
47322650 ATTCAGTTTTGTAGTAATTTTTTTCAAAATTCATACTTTAATTATAATAAA
1 ATTCAGTTTCGTAGTAATTTTTTTCAAAATTCATACTTTAATTATAATAAA
*
47322701 ATTCAGTTTCGTAGTATTTTTTTTCAAAATTCATACTTTAATTATAA
1 ATTCAGTTTCGTAGTAATTTTTTTCAAAATTCATACTTTAATTATAA
47322748 AATAATTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (51 bp):
ATTCAGTTTCGTAGTAATTTTTTTCAAAATTCATACTTTAATTATAATAAA
Found at i:47342995 original size:13 final size:14
Alignment explanation
Indices: 47342977--47343005 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47342967 GGATTTTATC
47342977 TTTTATTTTG-GGA
1 TTTTATTTTGTGGA
47342990 TTTTATTTTGTGGA
1 TTTTATTTTGTGGA
47343004 TT
1 TT
47343006 ACTATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.66
Consensus pattern (14 bp):
TTTTATTTTGTGGA
Found at i:47349830 original size:12 final size:12
Alignment explanation
Indices: 47349813--47349861 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
47349803 ACTTAATCAC
47349813 TTTAATATTAAA
1 TTTAATATTAAA
47349825 TTTAATGA-TAAA
1 TTTAAT-ATTAAA
*
47349837 TATT-AGATTAAA
1 T-TTAATATTAAA
47349849 TTTAATATTAAA
1 TTTAATATTAAA
47349861 T
1 T
47349862 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:47350395 original size:24 final size:24
Alignment explanation
Indices: 47350363--47350410 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
47350353 ATTGGGCCAA
*
47350363 TTGCCTGACTTGAAAGTTAATTTT
1 TTGCCTGACTTGAAAATTAATTTT
47350387 TTGCCTGACTTGAAAATTAATTTT
1 TTGCCTGACTTGAAAATTAATTTT
47350411 CAAACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (24 bp):
TTGCCTGACTTGAAAATTAATTTT
Found at i:47359233 original size:45 final size:45
Alignment explanation
Indices: 47358899--47359214 Score: 461
Period size: 45 Copynumber: 7.0 Consensus size: 45
47358889 AAGGCTGGTG
*
47358899 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
47358944 TCTTCGATCTACTTTGCTGCCAATACAGAAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
47358989 ACTTCGATCTACTTCACTGCCGATACAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
47359034 TCTTCAATCTACTTCGCTGCCAATACCGGAAGATAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
47359079 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
47359124 TCTTCGATCTATTTTGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
47359169 TCTTCGATCTACTTCACTGCCAGTACAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
47359214 T
1 T
47359215 TTTCAACCTA
Statistics
Matches: 239, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 239 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:47368071 original size:13 final size:13
Alignment explanation
Indices: 47368053--47368077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47368043 GATTCTATTT
47368053 AGAAAACTTTACC
1 AGAAAACTTTACC
47368066 AGAAAACTTTAC
1 AGAAAACTTTAC
47368078 ATAAAACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
AGAAAACTTTACC
Found at i:47368530 original size:22 final size:22
Alignment explanation
Indices: 47368502--47368544 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
47368492 TTTATTGTTC
47368502 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
47368524 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
47368545 TATTTCGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:47374093 original size:25 final size:26
Alignment explanation
Indices: 47374056--47374116 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
47374046 TTATAAATCA
* *
47374056 AAAAAAATATCTTTAGA-AATTTTCT
1 AAAATAATATCTTCAGAGAATTTTCT
*
47374081 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAATAATATCTTCAGAGAATTTTCT
*
47374107 GAAATAATAT
1 AAAATAATAT
47374117 TTCTCTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (26 bp):
AAAATAATATCTTCAGAGAATTTTCT
Found at i:47377065 original size:16 final size:16
Alignment explanation
Indices: 47377045--47377079 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47377035 AGTAAACCAT
*
47377045 AAAAACCCTAAACCTA
1 AAAAACCATAAACCTA
*
47377061 AAAAATCATAAACCTA
1 AAAAACCATAAACCTA
47377077 AAA
1 AAA
47377080 CAAAAAACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACCATAAACCTA
Found at i:47379712 original size:29 final size:31
Alignment explanation
Indices: 47379674--47379743 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
47379664 AACAATAATG
*
47379674 TAAGTGACTAAAACGTAACAT-A-TCAAACA
1 TAAGTGACTAAAACGTAACATAAGACAAACA
* *
47379703 TAAGTGACTAAAATGTAATATAAGACAAACA
1 TAAGTGACTAAAACGTAACATAAGACAAACA
*
47379734 AAAGTGACTA
1 TAAGTGACTA
47379744 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
30 1 0.03
31 15 0.43
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (31 bp):
TAAGTGACTAAAACGTAACATAAGACAAACA
Found at i:47381515 original size:20 final size:20
Alignment explanation
Indices: 47381492--47381538 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47381482 AATAAGTAAA
47381492 AAAAATATTAAAAGTTAATG
1 AAAAATATTAAAAGTTAATG
* * *
47381512 AAAAATATTAAAATTTCATT
1 AAAAATATTAAAAGTTAATG
47381532 AAAAATA
1 AAAAATA
47381539 GAAAAGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAAATATTAAAAGTTAATG
Found at i:47381577 original size:10 final size:10
Alignment explanation
Indices: 47381564--47381606 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
47381554 AAATCGTAAC
47381564 AAAATTATAA
1 AAAATTATAA
47381574 AAAATTATAA
1 AAAATTATAA
***
47381584 ATTTTTAT-A
1 AAAATTATAA
47381593 AAAATTATAA
1 AAAATTATAA
47381603 AAAA
1 AAAA
47381607 AACTATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 6 0.23
10 20 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:47381822 original size:20 final size:19
Alignment explanation
Indices: 47381797--47381900 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
47381787 TTTGGTACAC
47381797 TTTTATAATCTTTTTACAAT
1 TTTTATAAT-TTTTTACAAT
*
47381817 TTTTAT-ATTTCTTTACATTT
1 TTTTATAATTT-TTTACA-AT
47381837 TTTTATAATTTTCTTACAACT
1 TTTTATAATTTT-TTACAA-T
* * * *
47381858 TTATAAAATTTTATA-TAT
1 TTTTATAATTTTTTACAAT
*
47381876 TTTTATAATTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAT
47381896 TTTTA
1 TTTTA
47381901 ATAAGTTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.21
19 9 0.14
20 23 0.35
21 20 0.30
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:47385406 original size:16 final size:17
Alignment explanation
Indices: 47385385--47385418 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47385375 AATAATAGGG
47385385 GCAAAAGCAT-AATTTT
1 GCAAAAGCATGAATTTT
*
47385401 GCAAAAGTATGAATTTT
1 GCAAAAGCATGAATTTT
47385418 G
1 G
47385419 GATTGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (17 bp):
GCAAAAGCATGAATTTT
Found at i:47388919 original size:37 final size:37
Alignment explanation
Indices: 47388878--47388954 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
47388868 AAAAATAAAA
47388878 TTAAAAAGCAAATATT-TCAT-AAAATACATAAAGAAAT
1 TTAAAAA-CAAATATTAT-ATCAAAATACATAAAGAAAT
* * *
47388915 TTAAAAATAAGTATTATATCAAAATACATAAAGATAT
1 TTAAAAACAAATATTATATCAAAATACATAAAGAAAT
47388952 TTA
1 TTA
47388955 CATATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 8 0.23
37 27 0.77
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.31
Consensus pattern (37 bp):
TTAAAAACAAATATTATATCAAAATACATAAAGAAAT
Found at i:47392311 original size:26 final size:26
Alignment explanation
Indices: 47392277--47392337 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
47392267 ACTTTATTAA
***
47392277 GGGTAAAATCGTCAAAATTTTGTTAG
1 GGGTAAAATCGTCAAAATTTTACCAG
47392303 GGGTAAAATCGTCAAAATTTTACCAG
1 GGGTAAAATCGTCAAAATTTTACCAG
47392329 GGGTAAAAT
1 GGGTAAAAT
47392338 TGAGATGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (26 bp):
GGGTAAAATCGTCAAAATTTTACCAG
Found at i:47395517 original size:16 final size:17
Alignment explanation
Indices: 47395486--47395518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47395476 TATATTGATT
47395486 TTTTACAATCATAATTA
1 TTTTACAATCATAATTA
*
47395503 TTTTATAAT-ATAATTA
1 TTTTACAATCATAATTA
47395519 AAAGACGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTACAATCATAATTA
Found at i:47397200 original size:2 final size:2
Alignment explanation
Indices: 47397193--47397217 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47397183 GTTTGTATTT
47397193 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47397218 TTAACGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47399983 original size:15 final size:17
Alignment explanation
Indices: 47399962--47400002 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
47399952 TAATCAACTA
47399962 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATGAT
*
47399978 -AAATTATCAAAATGAT
1 AAAATTATAAAAATGAT
47399994 AAAATTATA
1 AAAATTATA
47400003 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATGAT
Found at i:47401089 original size:10 final size:10
Alignment explanation
Indices: 47401074--47401107 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
47401064 AAAAAAACTA
47401074 ATTTTTTAAT
1 ATTTTTTAAT
47401084 ATTTTTTAAT
1 ATTTTTTAAT
47401094 ATTTTTT-AT
1 ATTTTTTAAT
47401103 ATTTT
1 ATTTT
47401108 ATTATAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:47401112 original size:10 final size:9
Alignment explanation
Indices: 47401074--47401113 Score: 53
Period size: 10 Copynumber: 4.1 Consensus size: 9
47401064 AAAAAAACTA
47401074 ATTTTTTAAT
1 ATTTTTT-AT
47401084 ATTTTTTAAT
1 ATTTTTT-AT
47401094 ATTTTTTAT
1 ATTTTTTAT
47401103 ATTTTATTAT
1 ATTTT-TTAT
47401113 A
1 A
47401114 AGAATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:47405399 original size:30 final size:29
Alignment explanation
Indices: 47405360--47405426 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
47405350 ACGAAAAAAA
*
47405360 GCCGTTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTT-AAAATTTACCGAAATGG
** *
47405390 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAAAATTTACCGAAATGG
*
47405419 TCC-ATTTT
1 GCCGATTTT
47405427 CCGGGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.16
29 16 0.50
30 11 0.34
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (29 bp):
GCCGATTTTTTTAAAATTTACCGAAATGG
Found at i:47405821 original size:123 final size:123
Alignment explanation
Indices: 47405602--47405949 Score: 579
Period size: 123 Copynumber: 2.8 Consensus size: 123
47405592 TTATTTCGAC
* *
47405602 TTGACGTTTATGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * * *
47405667 AAATCGCACCCTCGTGGACGGGATTTTGCTACAGTAGGTCATGTAAGGAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGATCATGTAAGAAATAATTTTT
*
47405725 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACAAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
47405790 AAATCGTGCCCTCGTGGACGTGATTTTGCTACAGTTGATCATGTAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGATCATGTAAGAAATAATTTTT
*
47405848 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
47405913 AAATCGCGCTCTCGTGGACACGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
47405950 CAAGTTTGGG
Statistics
Matches: 209, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 209 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGATCATGTAAGAAATAATTTTT
Found at i:47409066 original size:10 final size:10
Alignment explanation
Indices: 47409051--47409075 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47409041 CAAATTTAAC
47409051 ATTATGTAAA
1 ATTATGTAAA
47409061 ATTATGTAAA
1 ATTATGTAAA
47409071 ATTAT
1 ATTAT
47409076 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:47409218 original size:69 final size:65
Alignment explanation
Indices: 47409095--47409286 Score: 251
Period size: 55 Copynumber: 3.0 Consensus size: 65
47409085 AAAATTGTGT
* *
47409095 TAATGGTTAGTAAAATTATCAAATTATGTAAATTTATTAAGTCCAAAAATTGTGTTAATGGTTAG
1 TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAACTGTGTTAATGGTTAG
47409160 TAATGGTTAGTAAAATTATACAATTATGTATGTAAAATTATTAAGTCCAAAAAC--TG----T-G
1 TAATGGTTAGTAAAATTAT-CAA--AT-TATGTAAAATTATTAAGTCCAAAAACTGTGTTAATGG
47409218 -T--
62 TTAG
*
47409219 TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAG
1 TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAACTGTGTTAATGGTTAG
47409284 TAA
1 TAA
47409287 AATTATCAAA
Statistics
Matches: 110, Mismatches: 3, Indels: 28
0.78 0.02 0.20
Matches are distributed among these distances:
55 25 0.23
56 2 0.02
57 2 0.02
58 3 0.03
59 19 0.17
61 2 0.02
62 2 0.02
63 2 0.02
65 22 0.20
66 3 0.03
67 2 0.02
68 2 0.02
69 24 0.22
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.39
Consensus pattern (65 bp):
TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAACTGTGTTAATGGTTAG
Found at i:47409273 original size:55 final size:55
Alignment explanation
Indices: 47409160--47409305 Score: 247
Period size: 55 Copynumber: 2.6 Consensus size: 55
47409150 TAATGGTTAG
47409160 TAATGGTTAGTAAAATTATACAATTATGTATGTAAAATTATTAAGTCCAAAAACTGTGT
1 TAATGGTTAGTAAAATTAT-CAA--AT-TATGTAAAATTATTAAGTCCAAAAACTGTGT
*
47409219 TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGT
1 TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAACTGTGT
47409274 TAATGGTTAGTAAAATTATCAAATTATGTAAA
1 TAATGGTTAGTAAAATTATCAAATTATGTAAA
47409306 TTAGGTTAGG
Statistics
Matches: 86, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
55 62 0.72
56 2 0.02
58 3 0.03
59 19 0.22
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (55 bp):
TAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAACTGTGT
Done.