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 152 of 202
Found at i:47409336 original size:29 final size:29
Alignment explanation
Indices: 47409302--47409525 Score: 371
Period size: 29 Copynumber: 7.6 Consensus size: 29
47409292 TCAAATTATG
47409302 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
47409331 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
47409360 TAAATTAGGTTAGGG-TAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAAT
47409390 TAAATTAGGTTAGGGTTTAGGGTTTTTTAAT
1 TAAATTAGGTTAGGG-TTAGGG-TTTTTAAT
47409421 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
*
47409450 TAAATTAGGTTAGGG-AAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAAT
47409480 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
47409509 TAAATTAGGTTAGGGTT
1 TAAATTAGGTTAGGGTT
47409526 TTTAATTAAA
Statistics
Matches: 185, Mismatches: 2, Indels: 16
0.91 0.01 0.08
Matches are distributed among these distances:
28 3 0.02
29 95 0.51
30 61 0.33
31 24 0.13
32 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAAT
Found at i:47409394 original size:59 final size:58
Alignment explanation
Indices: 47409302--47409525 Score: 371
Period size: 59 Copynumber: 3.8 Consensus size: 58
47409292 TCAAATTATG
47409302 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
47409360 TAAATTAGGTTAGGG-TAGTGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGG-TTAGGG-TTTTTAAT
*
47409421 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-AAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAAT
47409480 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
47409526 TTTAATTAAA
Statistics
Matches: 156, Mismatches: 2, Indels: 14
0.91 0.01 0.08
Matches are distributed among these distances:
57 2 0.01
58 16 0.10
59 78 0.50
60 35 0.22
61 23 0.15
62 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (58 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
Found at i:47409429 original size:90 final size:88
Alignment explanation
Indices: 47409302--47409525 Score: 421
Period size: 90 Copynumber: 2.5 Consensus size: 88
47409292 TCAAATTATG
47409302 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
*
47409367 GGTTAGGGTAGTGGGTTTTTAAT
66 GGTTAGGGAAGTGGGTTTTTAAT
47409390 TAAATTAGGTTAGGGTTTAGGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAAT
1 TAAATTAGGTTAGGG-TTAGGG-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAAT
47409455 TAGGTTAGGGAAGTGGGTTTTTAAT
64 TAGGTTAGGGAAGTGGGTTTTTAAT
47409480 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
47409526 TTTAATTAAA
Statistics
Matches: 133, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
88 40 0.30
89 12 0.09
90 81 0.61
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (88 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
GGTTAGGGAAGTGGGTTTTTAAT
Found at i:47409460 original size:23 final size:23
Alignment explanation
Indices: 47409434--47409540 Score: 97
Period size: 23 Copynumber: 4.1 Consensus size: 23
47409424 ATTAGGTTAG
47409434 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
47409457 GGTTAGGGAAGTGGGTTTTTAATTAAATTAGGTTA
1 GGTT-----A--GGGTTTTTAATT-AA--A--TTA
47409492 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
47409516 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
47409539 GG
1 GG
47409541 GTTTTTATTA
Statistics
Matches: 71, Mismatches: 0, Indels: 26
0.73 0.00 0.27
Matches are distributed among these distances:
23 29 0.41
24 3 0.04
26 1 0.01
28 3 0.04
29 12 0.17
30 12 0.17
31 3 0.04
33 1 0.01
35 3 0.04
36 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:47409532 original size:18 final size:18
Alignment explanation
Indices: 47409495--47409547 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
47409485 TAGGTTAGGG
47409495 TTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTTAATT-AA--A
47409516 GGTTAGGGTTTTTAATTAAA
1 --TTAGGGTTTTTAATTAAA
47409536 TTAGGGTTTTTA
1 TTAGGGTTTTTA
47409548 TTACTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.40
20 1 0.03
22 2 0.07
23 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TTAGGGTTTTTAATTAAA
Found at i:47409652 original size:25 final size:25
Alignment explanation
Indices: 47409543--47409728 Score: 83
Period size: 26 Copynumber: 7.7 Consensus size: 25
47409533 AAATTAGGGT
*
47409543 TTTTATTACTTCAAATAGAACTTCTA
1 TTTTATTACATCAAATA-AACTTCTA
*
47409569 TTTTATTATATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * *
47409592 --AAATAAC-TCAAAAAAATTTCTA
1 TTTTATTACATCAAATAAACTTCTA
** *
47409614 TGCCTATTATATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
47409640 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
47409663 --AAATAAC-TCGAAA-AAAATTCTA
1 TTTTATTACATC-AAATAAACTTCTA
**
47409685 TGCGTATTACATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
47409711 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
47409729 TAAATTTAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
20 7 0.06
21 18 0.15
22 4 0.03
23 4 0.03
24 8 0.07
25 37 0.32
26 39 0.33
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:47409653 original size:71 final size:71
Alignment explanation
Indices: 47409546--47409730 Score: 309
Period size: 71 Copynumber: 2.6 Consensus size: 71
47409536 TTAGGGTTTT
* *
47409546 TATTACTTCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTC-AAAAAAATT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAA-T
47409610 TCTATGCC
64 TCTATGCC
*
47409618 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAATTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAATTC
*
47409683 TATGCG
66 TATGCC
47409689 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
47409731 AATTTAAATA
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 88 0.82
72 19 0.18
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAATTC
TATGCC
Found at i:47410159 original size:18 final size:18
Alignment explanation
Indices: 47410132--47410166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47410122 CGGAAAAGGA
* *
47410132 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
47410150 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
47410167 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:47411332 original size:5 final size:5
Alignment explanation
Indices: 47411322--47411346 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47411312 CTATTTATTG
47411322 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
47411347 CAATTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:47414426 original size:12 final size:13
Alignment explanation
Indices: 47414411--47414439 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47414401 GCATTACTTT
47414411 TTTTATTT-TTTA
1 TTTTATTTGTTTA
47414423 TTTTATTTGTTTA
1 TTTTATTTGTTTA
47414436 TTTT
1 TTTT
47414440 TTAGTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:47414532 original size:3 final size:3
Alignment explanation
Indices: 47414524--47414556 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47414514 GTATTTTCAA
47414524 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47414557 TGCTCATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47414672 original size:29 final size:30
Alignment explanation
Indices: 47414639--47414699 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
47414629 TGCATATTTC
* *
47414639 TATACTTTATATAC-TTTATAATTTATATA
1 TATACGTTATATACTTTTATAATATATATA
47414668 TATACGTTATATACATTTTTATAATATATATA
1 TATACGTTATATAC--TTTTATAATATATATA
47414700 CATATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TATACGTTATATACTTTTATAATATATATA
Found at i:47415408 original size:109 final size:109
Alignment explanation
Indices: 47415207--47415521 Score: 499
Period size: 109 Copynumber: 2.9 Consensus size: 109
47415197 TTTTTCTAAG
* * * * *
47415207 TAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTAGGTTTTGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
47415272 CTCGTTCGACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAA
66 CTCGTTCGACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAA
*
47415316 TAAGGCAATGTTTTGCTTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
47415381 CTCGTTCGACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAA
66 CTCGTTCGACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAA
* * * *
47415425 TAATGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAACGTGCTGGGTTTCGA--TTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
* * *
47415488 CTCGTTGGACCAAATAGCCAAATATCCTCTTAAA
66 CTCGTTCGACCAAATGGCCAAATATCCTTTTAAA
47415522 TCTTAATCCA
Statistics
Matches: 192, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
107 34 0.18
109 158 0.82
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
CTCGTTCGACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAA
Found at i:47426840 original size:44 final size:44
Alignment explanation
Indices: 47426776--47427377 Score: 249
Period size: 44 Copynumber: 13.8 Consensus size: 44
47426766 TAACAAGTCC
* * *
47426776 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
* * * * *
47426820 TATCTCCCTAAGCAGTAGTGGAGTAGATTAAAGACGGCAAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
* * * * * ***
47426864 TATCT-TCTCGAG-A-TAGTAGGAAGCATATTTAAGCCACCAG-TCT
1 TATCTCCCT-GAGCAGTAGT-GG-AGTAGATTGAAGACTGTAGATCT
* * * * *
47426907 TATCTCCGTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
* * *
47426951 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-G-ATGAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTA-G-ATCT
* ** * * *** *
47426995 TATCT-TCTCGAG-A-TAGTAGGAAGCGGATTTAAGCCACCAG-TCC
1 TATCTCCCT-GAGCAGTAGT-GG-AGTAGATTGAAGACTGTAGATCT
* * *
47427038 TATCTCTCTGAGCAGCAGTGGAGTA-AGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGA-TTGAAGACTGTAGATCT
* * * *
47427082 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-GAATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAG-ATCT
* * * *** *
47427126 TATCTTCCC-GAG-A-TAGTAGGAGGCAGATTTAAGCCACCAG-TCC
1 TATC-TCCCTGAGCAGTAGT-GGA-GTAGATTGAAGACTGTAGATCT
* * * *
47427169 TATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
* * * *
47427213 TATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGAC-G-ACGAATTT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTA-G-ATCT
* * * * *** *
47427257 TATCTTCCC-GAG-A-TAGTAGAAAGCAGATTTAAGCCACCAG-TCC
1 TATC-TCCCTGAGCAGTAGT-G-GAGTAGATTGAAGACTGTAGATCT
** * * *
47427300 TATCTCCCTGAGCAACATTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
* * *
47427344 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGA
47427378 TGGCGAATCT
Statistics
Matches: 401, Mismatches: 117, Indels: 80
0.67 0.20 0.13
Matches are distributed among these distances:
42 27 0.07
43 99 0.25
44 250 0.62
45 23 0.06
46 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGACTGTAGATCT
Found at i:47427463 original size:131 final size:131
Alignment explanation
Indices: 47426771--47427442 Score: 1119
Period size: 131 Copynumber: 5.1 Consensus size: 131
47426761 CATCATAACA
47426771 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* ** * *
47426836 AGTGGAGTAGATTAAAGACGGCAAATCTTATCTTCTCGAGATAGTAGGAAGCATATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
47426901 C
131 C
* * *
47426902 AGTCTTATCTCCGTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
** *
47426967 AGTGGAGCAGATCGAAGACGATGAATCTTATCTTCTCGAGATAGTAGGAAGCGGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
47427032 C
131 C
* *
47427033 AGTCCTATCTCTCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * *
47427098 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGATAGTAGGAGGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
47427163 C
131 C
*
47427164 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * * *
47427229 AGTGGAGAAGATCGAAGACGACGAATTTTATCTTCCCGAGATAGTAGAAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
47427294 C
131 C
* *
47427295 AGTCCTATCTCCCTGAGCAACATTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
*
47427360 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
47427425 C
131 C
47427426 AGTCCTATCTCCCTGAG
1 AGTCCTATCTCCCTGAG
47427443 TTGCAGTAGA
Statistics
Matches: 503, Mismatches: 38, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 503 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
C
Found at i:47429090 original size:12 final size:13
Alignment explanation
Indices: 47429073--47429101 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47429063 TTTGCATTAC
47429073 TTTTATTT-TTTA
1 TTTTATTTGTTTA
47429085 TTTTATTTGTTTA
1 TTTTATTTGTTTA
47429098 TTTT
1 TTTT
47429102 TTAGTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:47429308 original size:16 final size:17
Alignment explanation
Indices: 47429282--47429317 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47429272 ATATATATTC
*
47429282 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
47429299 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
47429315 ATA
1 ATA
47429318 TATACGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:47429321 original size:29 final size:30
Alignment explanation
Indices: 47429289--47429349 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
47429279 TTCATACTTC
* *
47429289 TATACTTTATATAC-TTTATAATTTATATA
1 TATACGTTATATACTTTTATAATATATATA
47429318 TATACGTTATATACATTTTTATAATATATATA
1 TATACGTTATATAC--TTTTATAATATATATA
47429350 CATATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TATACGTTATATACTTTTATAATATATATA
Found at i:47429339 original size:41 final size:41
Alignment explanation
Indices: 47429294--47429409 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 41
47429284 ACTTCTATAC
*
47429294 TTTATATACTTTATAATTTATATATATACGT-TATATACATT
1 TTTATATAC-TTATAATATATATATATACGTATATATACATT
* * *
47429335 TTTATAATA-TATATACATATATAGATATACGTGTACAT--ATT
1 TTTAT-ATACT-TATA-ATATATATATATACGTATATATACATT
*
47429376 TTTATA-AC-T-T-ATCTATATATATACGTATATATAC
1 TTTATATACTTATAATATATATATATACGTATATATAC
47429410 CTACTTGTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
35 18 0.30
37 1 0.02
38 1 0.02
39 1 0.02
40 2 0.03
41 17 0.28
42 17 0.28
43 4 0.07
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (41 bp):
TTTATATACTTATAATATATATATATACGTATATATACATT
Found at i:47433672 original size:29 final size:29
Alignment explanation
Indices: 47433639--47433696 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47433629 ATGAATTATG
47433639 AAGTTTGATGGTAGAAATAGAAAGGTTGT
1 AAGTTTGATGGTAGAAATAGAAAGGTTGT
*
47433668 AAGTTTTATGGTAGAAATAGAAAGGTTGT
1 AAGTTTGATGGTAGAAATAGAAAGGTTGT
47433697 TGATAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (29 bp):
AAGTTTGATGGTAGAAATAGAAAGGTTGT
Found at i:47434403 original size:24 final size:25
Alignment explanation
Indices: 47434351--47434397 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47434341 TGGCCCTCTT
*
47434351 GAGCTTCACGTTATATAGTTCTTGC
1 GAGCTTCACGTTATATAGCTCTTGC
*
47434376 GAGCTTCTCGTTA-ATAGCTCTT
1 GAGCTTCACGTTATATAGCTCTT
47434398 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (25 bp):
GAGCTTCACGTTATATAGCTCTTGC
Found at i:47434490 original size:26 final size:25
Alignment explanation
Indices: 47434455--47434555 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 25
47434445 GCAGCTCTTA
* **
47434455 TGAGCATCCCATTATATGGCTCTTCG
1 TGAGCTTCCCATTA-ATGGCTCTTTT
*
47434481 TGAGCTTCCCGATTAAAGGCTCTTTT
1 TGAGCTTCCC-ATTAATGGCTCTTTT
*
47434507 TGAGCTTCCTGATTAATGGCTCTTTT
1 TGAGCTTCC-CATTAATGGCTCTTTT
**
47434533 TGAGCTTCCTGTTTAATGGCTCT
1 TGAGCTTCC-CATTAATGGCTCT
47434556 CCTAAGCTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 62 0.94
27 4 0.06
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTT
Found at i:47440902 original size:24 final size:24
Alignment explanation
Indices: 47440874--47440921 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47440864 CAAATACAAC
47440874 AATGACATTCACATTAGAGATGAT
1 AATGACATTCACATTAGAGATGAT
47440898 AATGACATTCACATTAGAGATGAT
1 AATGACATTCACATTAGAGATGAT
47440922 CATTTACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (24 bp):
AATGACATTCACATTAGAGATGAT
Found at i:47442910 original size:81 final size:82
Alignment explanation
Indices: 47442791--47442978 Score: 240
Period size: 81 Copynumber: 2.3 Consensus size: 82
47442781 ACCGAAGTGT
* * **
47442791 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGCAAT
1 AAACAGGGGCACGCA-TGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCAAT
*
47442854 TCAG-GGTACAAAAGTAC
65 TCAGAGGTACAAAAGTAA
* *
47442871 AAACAGGGGCATGCATGTGCAATTCAGGGGTA-CAAAAGTACAAACAGGGGCACATATGTGTAAT
1 AAACAGGGGCACGCATGTGCAATTCAGGGGTATC-AAAGTACAAACAGGGGCACATATGTGCAAT
*
47442935 TTAGAGGTACAAAAGTAA
65 TCAGAGGTACAAAAGTAA
* *
47442953 AAATAGGGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGCATGTGCAATTCA
47442979 TACAACAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 17 0.18
81 41 0.44
82 35 0.38
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (82 bp):
AAACAGGGGCACGCATGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCAATT
CAGAGGTACAAAAGTAA
Found at i:47442914 original size:41 final size:41
Alignment explanation
Indices: 47442791--47442978 Score: 231
Period size: 41 Copynumber: 4.6 Consensus size: 41
47442781 ACCGAAGTGT
* *
47442791 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATC-GAAGTAC
1 AAACAGGGGCACGTA-TGTGCAATTCAGGGGTA-CAAAAGTAC
*
47442831 AAACAGGGGCATGTATGTGCAATTCA-GGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
* *
47442871 AAACAGGGGCATGCATGTGCAATTCAGGGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
* * * * *
47442912 AAACAGGGGCACATATGTGTAATTTAGAGGTACAAAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
*
47442953 AAATAGGGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
47442979 TACAACAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 52 0.40
41 76 0.59
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
Found at i:47442920 original size:20 final size:20
Alignment explanation
Indices: 47442857--47442920 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
47442847 GTGCAATTCA
47442857 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
* *** * * *
47442877 GGGCATGCATGTGCAATTCAG
1 GGGTACAAAAGTACAA-ACAG
47442898 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
47442918 GGG
1 GGG
47442921 CACATATGTG
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.39, C:0.16, G:0.31, T:0.14
Consensus pattern (20 bp):
GGGTACAAAAGTACAAACAG
Found at i:47444594 original size:27 final size:27
Alignment explanation
Indices: 47444556--47444609 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47444546 ATTAAACAAG
47444556 GAAAGGTAGTAAGTTCCATAGGAACTT
1 GAAAGGTAGTAAGTTCCATAGGAACTT
47444583 GAAAGGTAGTAAGTTCCATAGGAACTT
1 GAAAGGTAGTAAGTTCCATAGGAACTT
47444610 ACCTTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (27 bp):
GAAAGGTAGTAAGTTCCATAGGAACTT
Found at i:47451146 original size:12 final size:12
Alignment explanation
Indices: 47451129--47451155 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47451119 ATTTGTTATC
47451129 TTTGTTAACATA
1 TTTGTTAACATA
47451141 TTTGTTAACATA
1 TTTGTTAACATA
47451153 TTT
1 TTT
47451156 CTTTCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTGTTAACATA
Found at i:47452807 original size:14 final size:13
Alignment explanation
Indices: 47452788--47452818 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
47452778 TAGATTTGGC
47452788 ATTAATTAATCTTA
1 ATTAATTAA-CTTA
47452802 ATTAATTAACTTA
1 ATTAATTAACTTA
47452815 ATTA
1 ATTA
47452819 TGGCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTAACTTA
Found at i:47452933 original size:26 final size:26
Alignment explanation
Indices: 47452897--47452948 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47452887 TAATAAAAGA
47452897 ATGGTTTAATTACCATTTCATTTCTT
1 ATGGTTTAATTACCATTTCATTTCTT
47452923 ATGGTTTAATTACCATTTCATTTCTT
1 ATGGTTTAATTACCATTTCATTTCTT
47452949 TGGATAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (26 bp):
ATGGTTTAATTACCATTTCATTTCTT
Found at i:47455585 original size:16 final size:16
Alignment explanation
Indices: 47455564--47455595 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47455554 AAATGACTGG
47455564 ATAATGTGAGCTTTTT
1 ATAATGTGAGCTTTTT
47455580 ATAATGTGAGCTTTTT
1 ATAATGTGAGCTTTTT
47455596 GATTGATCCG
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:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
ATAATGTGAGCTTTTT
Found at i:47460377 original size:28 final size:28
Alignment explanation
Indices: 47460340--47460396 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
47460330 CCTGATTGGT
47460340 TTATTGATTT-TTATCTTT-TTTATTTTTA
1 TTATTGATTTATT-T-TTTGTTTATTTTTA
*
47460368 TTATTTATTTATTTTTTGTTTATTTTTA
1 TTATTGATTTATTTTTTGTTTATTTTTA
47460396 T
1 T
47460397 CCCAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 21 0.81
29 2 0.08
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (28 bp):
TTATTGATTTATTTTTTGTTTATTTTTA
Found at i:47460380 original size:17 final size:16
Alignment explanation
Indices: 47460339--47460392 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
47460329 TCCTGATTGG
* *
47460339 TTTATTGATTTTTATC
1 TTTATTTATTTTTATA
47460355 TTT-TTTATTTTTATTA
1 TTTATTTATTTTTA-TA
*
47460371 TTTATTTATTTTT-TG
1 TTTATTTATTTTTATA
47460386 TTTATTT
1 TTTATTT
47460393 TTATCCCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 17 0.52
16 7 0.21
17 9 0.27
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTATA
Found at i:47466944 original size:18 final size:19
Alignment explanation
Indices: 47466917--47466963 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
47466907 TTATGTTTAG
47466917 TGATTTTTTTGGATAATTT
1 TGATTTTTTTGGATAATTT
47466936 TGATTTTTTTGGATAATTT
1 TGATTTTTTTGGATAATTT
47466955 TGATTTTTT
1 TGATTTTTT
47466964 ATTTGAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (19 bp):
TGATTTTTTTGGATAATTT
Found at i:47467162 original size:30 final size:31
Alignment explanation
Indices: 47467123--47467182 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47467113 AGAGGTGAGA
*
47467123 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
47467154 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
47467183 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:47467328 original size:29 final size:29
Alignment explanation
Indices: 47467293--47467373 Score: 144
Period size: 30 Copynumber: 2.8 Consensus size: 29
47467283 GGAGGGAAGG
47467293 GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
47467322 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTT-GGGGGAAAGTGGGAA
*
47467352 GGAGTAAAAGTTTTGAGGGAAA
1 GGAGTAAAAGTTTTGGGGGAAA
47467374 AGTAAAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 21 0.42
30 29 0.58
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (29 bp):
GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
Found at i:47467439 original size:9 final size:9
Alignment explanation
Indices: 47467425--47467461 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47467415 TATAGTTTGA
47467425 TATTCGAAT
1 TATTCGAAT
47467434 TATTCGAAT
1 TATTCGAAT
*
47467443 TATTCGAGT
1 TATTCGAAT
47467452 TATTCGAAT
1 TATTCGAAT
47467461 T
1 T
47467462 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47469763 original size:27 final size:27
Alignment explanation
Indices: 47469733--47469847 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
47469723 AAATTGAAAA
*
47469733 CTTTGTGGCAATCTATAAAATGAAAGC
1 CTTTGTGGCAATCTATGAAATGAAAGC
* * *
47469760 CTTTGTTGCAATCTATGAAATGGATGTC
1 CTTTGTGGCAATCTATGAAATGAAAG-C
*
47469788 C-TTGTGGAAATCTATGAAATGAAAGC
1 CTTTGTGGCAATCTATGAAATGAAAGC
* *
47469814 TTTTGTGGCATATCT-T-AAATAAAAGC
1 CTTTGTGGCA-ATCTATGAAATGAAAGC
47469840 CTTTGTGG
1 CTTTGTGG
47469848 AATTCTCTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 17 0.23
27 50 0.68
28 6 0.08
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (27 bp):
CTTTGTGGCAATCTATGAAATGAAAGC
Found at i:47473526 original size:13 final size:13
Alignment explanation
Indices: 47473510--47473534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47473500 CAAGTATTTA
47473510 ACCCAACCCAATT
1 ACCCAACCCAATT
47473523 ACCCAACCCAAT
1 ACCCAACCCAAT
47473535 CCAATCATAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:47473661 original size:9 final size:9
Alignment explanation
Indices: 47473644--47473715 Score: 92
Period size: 9 Copynumber: 8.0 Consensus size: 9
47473634 GTAGTGATTC
*
47473644 AATTTGGTT
1 AATTCGGTT
47473653 AATTCGGTT
1 AATTCGGTT
*
47473662 AATTCGGGT
1 AATTCGGTT
47473671 AATTCGGTT
1 AATTCGGTT
*
47473680 AATTCGGGT
1 AATTCGGTT
*
47473689 AATTCAGTT
1 AATTCGGTT
47473698 AATAT-GGTT
1 AAT-TCGGTT
47473707 AATTCGGTT
1 AATTCGGTT
47473716 CGGTTAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.96
10 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:47477776 original size:31 final size:31
Alignment explanation
Indices: 47477732--47477806 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
47477722 TTGTCTCATA
* *
47477732 AACTTATCCAAAAGTAAT-TAG-TTGATACCTG
1 AACTTGTCTAAAAGT-ATCTAGTTTG-TACCTG
* *
47477763 AATTTGTCTAAAAGTATCTAGTTTGTACTTG
1 AACTTGTCTAAAAGTATCTAGTTTGTACCTG
47477794 AACTTGTCTAAAA
1 AACTTGTCTAAAA
47477807 AATTTTACTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.05
31 32 0.86
32 3 0.08
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (31 bp):
AACTTGTCTAAAAGTATCTAGTTTGTACCTG
Found at i:47477823 original size:18 final size:17
Alignment explanation
Indices: 47477802--47477856 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
47477792 TGAACTTGTC
*
47477802 TAAAAAATTTTACTTTTT
1 TAAAAAATTATA-TTTTT
* *
47477820 TAAATTACTTATATTTTT
1 TAAA-AAATTATATTTTT
47477838 TAAAATAATTATATTTTT
1 TAAAA-AATTATATTTTT
47477856 T
1 T
47477857 TAATTTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAAAAATTATATTTTT
Found at i:47477843 original size:19 final size:17
Alignment explanation
Indices: 47477815--47477856 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
47477805 AAAATTTTAC
*
47477815 TTTTTTAAATTACTTATA
1 TTTTTTAAA-TAATTATA
47477833 TTTTTTAAAATAATTATA
1 TTTTTT-AAATAATTATA
47477851 TTTTTT
1 TTTTTT
47477857 TAATTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTAAATAATTATA
Found at i:47489375 original size:12 final size:12
Alignment explanation
Indices: 47489353--47489399 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
47489343 TCACGAACAA
*
47489353 GCTCTTTTATTG
1 GCTCGTTTATTG
*
47489365 ACTCGTTTATTG
1 GCTCGTTTATTG
47489377 GCTCGTTTATTG
1 GCTCGTTTATTG
47489389 GCTCGTTTATT
1 GCTCGTTTATT
47489400 TATTAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:47491290 original size:26 final size:28
Alignment explanation
Indices: 47491232--47491295 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
47491222 GTGTCATATG
47491232 AATTAA-AATAGGATAAAATAAATAATA
1 AATTAATAATAGGATAAAATAAATAATA
*
47491259 AGTTAATAATA-G-TAAAAT-AATAATTA
1 AATTAATAATAGGATAAAATAAATAA-TA
47491285 AATTAAATAAT
1 AATT-AATAAT
47491296 TATGGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 5 0.16
26 11 0.34
27 12 0.38
28 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (28 bp):
AATTAATAATAGGATAAAATAAATAATA
Found at i:47492859 original size:13 final size:14
Alignment explanation
Indices: 47492834--47492869 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
47492824 ATTAAATAGG
47492834 TATGTATATATATA
1 TATGTATATATATA
47492848 TATGTA-ATATATA
1 TATGTATATATATA
*
47492861 TTTGTATAT
1 TATGTATAT
47492870 TGTTATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:47494572 original size:33 final size:34
Alignment explanation
Indices: 47494533--47494596 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
47494523 ATCTTAACCA
*
47494533 CATTGAAACTAATTCATC-ACTTA-CCATATTGGT
1 CATTGAAA-TAATGCATCAACTTAGCCATATTGGT
*
47494566 CATTGAAATCATGCATCAACTTAGCCATATT
1 CATTGAAATAATGCATCAACTTAGCCATATT
47494597 AACACACATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 7 0.26
33 13 0.48
34 7 0.26
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (34 bp):
CATTGAAATAATGCATCAACTTAGCCATATTGGT
Found at i:47503479 original size:25 final size:23
Alignment explanation
Indices: 47503446--47503506 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
47503436 TTTAAATAAC
*
47503446 AATATATAATAAAGATTAAAACCA
1 AATACATAATAAAGATTAAAA-CA
* **
47503470 TAATACATAATAGATTTTAAAACA
1 -AATACATAATAAAGATTAAAACA
*
47503494 AATACCTAATAAA
1 AATACATAATAAA
47503507 TCTATAATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 11 0.37
24 2 0.07
25 17 0.57
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (23 bp):
AATACATAATAAAGATTAAAACA
Found at i:47503697 original size:6 final size:6
Alignment explanation
Indices: 47503668--47503759 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 6
47503658 AAAACAAATG
* * * *
47503668 AATATAT AAAAAT -ATAAT ACTAAT AATAAT CATAGAGGT AATAAT AATAAG
1 AATA-AT AATAAT AATAAT AATAAT AATAAT AATA-A--T AATAAT AATAAT
* * * * *
47503719 AATAAG GATAAT AATAAC AATAAT AATAAG AATATT AATAA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAA
47503760 ATTTAAAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 4 0.06
8 1 0.02
9 4 0.06
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (6 bp):
AATAAT
Found at i:47503712 original size:21 final size:21
Alignment explanation
Indices: 47503689--47503744 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
47503679 ATATAATACT
**
47503689 AATAATAATCATAGAGG-TAAT
1 AATAATAAGAATA-AGGATAAT
47503710 AATAATAAGAATAAGGATAAT
1 AATAATAAGAATAAGGATAAT
* *
47503731 AATAACAATAATAA
1 AATAATAAGAATAA
47503745 TAAGAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.25
Consensus pattern (21 bp):
AATAATAAGAATAAGGATAAT
Found at i:47503776 original size:4 final size:4
Alignment explanation
Indices: 47503763--47503797 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
47503753 TTAATAAATT
47503763 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
47503798 AACAATGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:47508545 original size:86 final size:86
Alignment explanation
Indices: 47508400--47508570 Score: 263
Period size: 86 Copynumber: 2.0 Consensus size: 86
47508390 CTTTTGACAA
*
47508400 CCCAATGTGAGTCTAATCTTAAACTATTATATAGAATTGTTCAAACAGAAAAACATTTAATTTAG
1 CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGAAAAACATTTAATTTAG
*
47508465 AGCATCATACCAATTGAGCAG
66 AGAATCATACCAATTGAGCAG
* * *
47508486 CCCAATGTGAGTCTAATTTTAAACCATTATATATAATTGTTCAAACA-ATAAAGCATTTAATTTA
1 CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGA-AAAACATTTAATTTA
**
47508550 GAGAATCATGGCAATTGAGCA
65 GAGAATCATACCAATTGAGCA
47508571 TAATGTAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 76 0.99
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (86 bp):
CCCAATGTGAGTCTAATCTTAAACCATTATATAGAATTGTTCAAACAGAAAAACATTTAATTTAG
AGAATCATACCAATTGAGCAG
Found at i:47512636 original size:46 final size:46
Alignment explanation
Indices: 47512566--47512653 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
47512556 AAAATTGTAG
* **
47512566 TGTGGGCCTTAGCCCGTTACAGTATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTATCAGAATCAGAAATAGAATACA
* *
47512612 TGTGGGCCTAAGCCCAATATAGTATCAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTATCAGAATCAGAAATAGAA
47512654 ATGTAACAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTATCAGAATCAGAAATAGAATACA
Found at i:47512856 original size:22 final size:22
Alignment explanation
Indices: 47512826--47512877 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
47512816 AATGGCTAAG
* * *
47512826 AGCCGTAAATAGGATAGCTATA
1 AGCCATAAATAGAATAGCTACA
* *
47512848 AGCTATAAATAGAATGGCTACA
1 AGCCATAAATAGAATAGCTACA
47512870 AGCCATAA
1 AGCCATAA
47512878 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (22 bp):
AGCCATAAATAGAATAGCTACA
Found at i:47512924 original size:32 final size:32
Alignment explanation
Indices: 47512869--47513010 Score: 112
Period size: 32 Copynumber: 4.5 Consensus size: 32
47512859 GAATGGCTAC
* *
47512869 AAGCCATAAGTA-CAGTAATATGATTAGCATA
1 AAGCCATCAGTAGCAGTAATATGATTAGCACA
* **
47512900 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATTAGCACA
* * *
47512932 TAA-CCATCAGTAACGGTAATATGA-TAGGCAGA
1 -AAGCCATCAGTAGCAGTAATATGATTA-GCACA
* * * *
47512964 AAGCAATCAGTAGCAGTGATATGATCAGTACA
1 AAGCCATCAGTAGCAGTAATATGATTAGCACA
*
47512996 CAA-CCATTAGTAGCA
1 -AAGCCATCAGTAGCA
47513011 TCGCAGCAAA
Statistics
Matches: 85, Mismatches: 20, Indels: 11
0.73 0.17 0.09
Matches are distributed among these distances:
31 13 0.15
32 67 0.79
33 5 0.06
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATTAGCACA
Found at i:47512984 original size:64 final size:64
Alignment explanation
Indices: 47512883--47513007 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
47512873 CATAAGTACA
* * * *
47512883 GTAATATGATTAGCATAAAGCCATCAGTAGCAGTGATATGATCGGCACATAACCATCAGTAACG
1 GTAATATGATTAGCAGAAAGCAATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACG
* *
47512947 GTAATATGA-TAGGCAGAAAGCAATCAGTAGCAGTGATATGATCAGTACACAACCATTAGTA
1 GTAATATGATTA-GCAGAAAGCAATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTA
47513008 GCATCGCAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 52 0.96
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (64 bp):
GTAATATGATTAGCAGAAAGCAATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACG
Found at i:47513209 original size:24 final size:24
Alignment explanation
Indices: 47513177--47513234 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
47513167 CCATGCTCAG
47513177 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* *
47513201 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATACAAATCACAAACA
*
47513225 AACCAGTCAT
1 AATCAGTCAT
47513235 TTACATCACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:47513242 original size:24 final size:24
Alignment explanation
Indices: 47513215--47513263 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
47513205 AGTCATACCA
*
47513215 ATCACAGACAAACCAGTCATTTAC
1 ATCACAGACAAACCAATCATTTAC
* *
47513239 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAACCAATCATTTAC
47513263 A
1 A
47513264 CTCAATGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (24 bp):
ATCACAGACAAACCAATCATTTAC
Found at i:47513330 original size:27 final size:27
Alignment explanation
Indices: 47513280--47513530 Score: 265
Period size: 27 Copynumber: 9.4 Consensus size: 27
47513270 GGGCAAAATA
*
47513280 GTCA-TTTACCCTCCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
47513306 GTCATTTAACCTTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * **
47513333 GTCATTTAACCTTATAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
47513360 GTTATTTAACCCTA-TGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
47513386 GTTATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
47513413 GTCATTTTACCCTATAGGGGAATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** *
47513440 GTCATTTTACCCTACA-ATGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
47513466 GTCATTTTACCCTACAGGGGCACTACG
1 GTCATTTTACCCTACAGGGGCATTACG
47513493 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
47513520 ATCATTTTACC
1 GTCATTTTACC
47513531 TATCGACGGT
Statistics
Matches: 192, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 49 0.26
27 143 0.74
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:47513379 original size:53 final size:54
Alignment explanation
Indices: 47513280--47513526 Score: 241
Period size: 53 Copynumber: 4.6 Consensus size: 54
47513270 GGGCAAAATA
* * *
47513280 GTCATTT-ACCCTCCAGGGGCATTACGGTCATTTAACCTTATAGGGGTATTACG
1 GTCATTTAACCCTACAGGGGCATTACAGTCATTTAACCCTATAGGGGTATTACG
* * * *** *
47513333 GTCATTTAACCTTATAGGGGTATTTTGGTTATTTAACCCTAT-GGGGTATTACG
1 GTCATTTAACCCTACAGGGGCATTACAGTCATTTAACCCTATAGGGGTATTACG
* * * *
47513386 GTTATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGAATTACG
1 GTCATTTAACCCTACAGGGGCATTACAGTCATTTAACCCTATAGGGGTATTACG
* ** * * * * * *
47513440 GTCATTTTACCCTACA-ATGTATTACGGTCATTTTACCCTACAGGGGCACTACG
1 GTCATTTAACCCTACAGGGGCATTACAGTCATTTAACCCTATAGGGGTATTACG
*
47513493 GTCATTTTACCCTACAGGGGCATTAC-GATCATTT
1 GTCATTTAACCCTACAGGGGCATTACAG-TCATTT
47513527 TACCTATCGA
Statistics
Matches: 160, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
53 97 0.61
54 63 0.39
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
GTCATTTAACCCTACAGGGGCATTACAGTCATTTAACCCTATAGGGGTATTACG
Found at i:47513384 original size:80 final size:80
Alignment explanation
Indices: 47513280--47513526 Score: 262
Period size: 80 Copynumber: 3.1 Consensus size: 80
47513270 GGGCAAAATA
* * * * * *
47513280 GTCATTT-ACCCTCCAGGGGCATTACGGTCATTTAACCTTATAGGGGTATTACGGTCATTTAACC
1 GTCATTTAACCCTAC-GGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTAACC
* * **
47513344 TTATAGGGGTATTTTG
65 CTATAGGGGAATTACG
* * * * *
47513360 GTTATTTAACCCTATGGGGTATTACGGTTATTTTACCCTACAGGGGCATTACAGTCATTTTACCC
1 GTCATTTAACCCTACGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTAACCC
47513425 TATAGGGGAATTACG
66 TATAGGGGAATTACG
* *** * *
47513440 GTCATTTTACCCTACAATGTATTACGGTCATTTTACCCTACAGGGGCACTACGGTCATTTTACCC
1 GTCATTTAACCCTACGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTAACCC
* *
47513505 TACAGGGGCATTACG
66 TATAGGGGAATTACG
*
47513520 ATCATTT
1 GTCATTT
47513527 TACCTATCGA
Statistics
Matches: 139, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
80 134 0.96
81 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
GTCATTTAACCCTACGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTAACCC
TATAGGGGAATTACG
Found at i:47513417 original size:107 final size:106
Alignment explanation
Indices: 47513280--47513531 Score: 301
Period size: 107 Copynumber: 2.4 Consensus size: 106
47513270 GGGCAAAATA
* * *
47513280 GTCA-TTTACCCTCCAGGGGCATTACGGTCATTTAACCTTATAGGGGTATTACGGTCATTTAACC
1 GTCATTTTACCCTACAGGGGCATTAC-GTCATTTTACCTTATAGGGGAATTACGGTCATTTAACC
* * * ** * * * *
47513344 TTATAGGGGTATTTTGGTTATTTAACCCTA-TGGGGTATTACG
65 CTACA-AGGTATTACGGTCATTTAACCCTACAGGGGCACTACG
* * *
47513386 GTTATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATAGGGGAATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTAC-GTCATTTTACCTTATAGGGGAATTACGGTCATTTAACC
* *
47513451 CTACAATGTATTACGGTCATTTTACCCTACAGGGGCACTACG
65 CTACAAGGTATTACGGTCATTTAACCCTACAGGGGCACTACG
47513493 GTCATTTTACCCTACAGGGGCATTACGATCATTTTACCT
1 GTCATTTTACCCTACAGGGGCATTACG-TCATTTTACCT
47513532 ATCGACGGTA
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
106 22 0.18
107 101 0.82
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (106 bp):
GTCATTTTACCCTACAGGGGCATTACGTCATTTTACCTTATAGGGGAATTACGGTCATTTAACCC
TACAAGGTATTACGGTCATTTAACCCTACAGGGGCACTACG
Found at i:47513553 original size:27 final size:27
Alignment explanation
Indices: 47513518--47513664 Score: 206
Period size: 27 Copynumber: 5.4 Consensus size: 27
47513508 AGGGGCATTA
* * *
47513518 CGATCATTTTACCTATCGACGGTATTT
1 CGATAATTTTACCCATCGAGGGTATTT
*
47513545 C-ATTAATTTTACCCATTGAGGGTATTT
1 CGA-TAATTTTACCCATCGAGGGTATTT
47513572 CGATAATTTTACCCATCGAGGGTATTT
1 CGATAATTTTACCCATCGAGGGTATTT
*
47513599 CGATAATTTTACCCATCGAAGGTATTT
1 CGATAATTTTACCCATCGAGGGTATTT
* * *
47513626 CGGTAATTTTACCCTTCGAGGGCATTT
1 CGATAATTTTACCCATCGAGGGTATTT
47513653 CGATAATTTTAC
1 CGATAATTTTAC
47513665 GGCCCAATCC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (27 bp):
CGATAATTTTACCCATCGAGGGTATTT
Found at i:47513554 original size:54 final size:54
Alignment explanation
Indices: 47513496--47513664 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 54
47513486 CACTACGGTC
* *
47513496 ATTTTACCCTACAG-GGGCATTACGATCATTTTACCTATCGACGGTATTTC-ATTA
1 ATTTTACCC-ACAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCGA-TA
** * * *
47513550 ATTTTACCCATTGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCACAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCGATA
* * * * * * *
47513604 ATTTTACCCATC-GAAGGTATTTCGGTAATTTTACCCTTCGAGGGCATTTCGATA
1 ATTTTACCCA-CAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCGATA
47513658 ATTTTAC
1 ATTTTAC
47513665 GGCCCAATCC
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 97 0.97
55 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (54 bp):
ATTTTACCCACAGAGGGCATTACGATAATTTTACCCATCGACGGTATTTCGATA
Found at i:47515606 original size:21 final size:21
Alignment explanation
Indices: 47515548--47515600 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
47515538 TTGTTTTCCA
*
47515548 AAACCACTTGACTTTAGGGGT
1 AAACCACTTGACTTTAAGGGT
*
47515569 AAACTACTTGACTTTAAGGGT
1 AAACCACTTGACTTTAAGGGT
47515590 AAACCACTTGA
1 AAACCACTTGA
47515601 ACTTAACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (21 bp):
AAACCACTTGACTTTAAGGGT
Found at i:47515785 original size:15 final size:15
Alignment explanation
Indices: 47515761--47515794 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47515751 GGGCTATTAT
*
47515761 ATATAAGGTTCGCTC
1 ATATAAGGTTCGCAC
*
47515776 ATATAGGGTTCGCAC
1 ATATAAGGTTCGCAC
47515791 ATAT
1 ATAT
47515795 TAAATCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (15 bp):
ATATAAGGTTCGCAC
Found at i:47516048 original size:3 final size:3
Alignment explanation
Indices: 47516040--47516094 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
47516030 TTTCAACAAT
47516040 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
47516088 GAGA GAA
1 GA-A GAA
47516095 TCTTGAGAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:47518959 original size:32 final size:32
Alignment explanation
Indices: 47518922--47518985 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
47518912 TATATTTGAA
47518922 ATGTATTAATTTAGTGTGTTTTTTAAATAAAT
1 ATGTATTAATTTAGTGTGTTTTTTAAATAAAT
47518954 ATGTATTAATTTAGTGTGTTTTTTAAATAAAT
1 ATGTATTAATTTAGTGTGTTTTTTAAATAAAT
47518986 TAAAAAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATGTATTAATTTAGTGTGTTTTTTAAATAAAT
Found at i:47519337 original size:148 final size:151
Alignment explanation
Indices: 47519161--47519894 Score: 1024
Period size: 148 Copynumber: 4.9 Consensus size: 151
47519151 CAATTGTTCG
* * * *
47519161 TATTTTGGTCATTTTTTCGTATTTTTTTCTCGAATTTTATTACTTTTAAAAAATATACTATTTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
*
47519226 TAATTTTTAAT-TTTTA-ATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
66 TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
*
47519289 TAAATAAATTTAAAAAA-CCT
131 TAAATAAATTAAAAAAATCCT
* * * * *
47519309 TATTTTGGCCCTATGTTCGTATTTTTTTCCCGGATTTTATTACTTTTAAAACATATACTATTTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
* *
47519374 TAA-TTTT-TTAATTTATATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGCTTT
66 TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTG-TTT
47519437 TTAAATAAATTAAAAAAATCCT
130 TTAAATAAATTAAAAAAATCCT
* * * *
47519459 TATTTCGACTATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAA-ATA-TATTAT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAA-AAAATATACTATT-T
* * * *
47519522 TTTCATATTTTATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATTAATTTACTGTGT
64 TTTAAT-TTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGT
*
47519587 TTTTAAAATAATTTAAAAATAAATCCT
128 TTTT-AAATAAATT-AAAA-AAATCCT
* *
47519614 TATTTCGGCCCTTTGTTCGTATTCTTTTCCCGAATTTTATTACTTTTAAAAAATATACTA-TTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
47519678 TAATTTTT-TTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
66 TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTG-TTT
47519742 TTAAATAAATTAAAAAAAATCCT
130 TTAAATAAATT-AAAAAAATCCT
* *
47519765 TATTTCGGCCATTTGTTCGTA-TTTTTTCTCTG-ATTTTATTACTTTTAAAAAATATATTATTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTC-CCGAATTTTATTACTTTTAAAAAATATACTATTTT
* * *
47519828 CTAA-TTTTATTATTTTACATTATTTTAGCACATTATGTTTGAAATGTATTAATTTAGTGTGTAT
65 TTAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGT-T
47519892 TTT
129 TTT
47519895 TATTGAAAGT
Statistics
Matches: 525, Mismatches: 42, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
146 1 0.00
147 8 0.02
148 104 0.20
149 24 0.05
150 91 0.17
151 92 0.18
152 71 0.14
153 64 0.12
154 14 0.03
155 54 0.10
156 2 0.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (151 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTT
TAATTTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
TAAATAAATTAAAAAAATCCT
Found at i:47519792 original size:305 final size:299
Alignment explanation
Indices: 47519161--47519894 Score: 1079
Period size: 305 Copynumber: 2.4 Consensus size: 299
47519151 CAATTGTTCG
* * * *
47519161 TATTTTGGTCATTTTTTCGTATTTTTTTCTCGAATTTTATTACTTTTAAAAAATATACTATT-TT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTAC-TTTAAAAAA-ATA-TATTATT
* * *
47519225 TTAAT-TTTTAAT-TTTTA-ATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTT
63 TTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
* * *
47519287 TTTAAATAAATTTAAAAAACCTTATTTTGGCCCTATGTTCGTATTTTTTTCCCGGATTTTATTAC
128 TTTAAATAAATTTAAAAAACCTTATTTCGGCCCTATGTTCGTATTCTTTTCCCGAATTTTATTAC
* *
47519352 TTTTAAAACATATACTATTTTTTAATTTTTTAATTTATATTATTTTAGTACATTATATTTGAAAT
193 TTTTAAAAAATATACTATTTTTTAATTTTTTAATTTACATTATTTTAGTACATTATATTTGAAAT
47519417 GTATTAATTTAGTGTGCTTTTTAAATAAATTAAAAAAATCCT
258 GTATTAATTTAGTGTGCTTTTTAAATAAATTAAAAAAATCCT
* * *
47519459 TATTTCGACTATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTT-AA-AAAAATATATTATTT
* *
47519524 TCATATTTTATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATTAATTTACTGTGTTT
64 TCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
*
47519589 TTAAA-ATAATTTAAAAATAAATCCTTATTTCGGCCCTTTGTTCGTATTCTTTTCCCGAATTTTA
129 TTAAATA-AATTT--AAA-AAA-CCTTATTTCGGCCCTATGTTCGTATTCTTTTCCCGAATTTTA
*
47519653 TTACTTTTAAAAAATATACTA-TTTTTAATTTTTTTATTTTACATTATTTTAGTACATTATATTT
189 TTACTTTTAAAAAATATACTATTTTTTAA-TTTTTTAATTTACATTATTTTAGTACATTATATTT
*
47519717 GAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTAAAAAAAATCCT
253 GAAATGTATTAATTTAGTGTGCTTTTTAAATAAATT-AAAAAAATCCT
* *
47519765 TATTTCGGCCATTTGTTCGTA-TTTTTTCTCTGATTTTATTACTTTTAAAAAATATATTATTTTC
1 TATTTCGGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAAAAATATATTATTTTC
*
47519829 -TAATTTTATTATTTTACATTATTTTAGCACATTATGTTTGAAATGTATTAATTTAGTGTGTATT
66 AT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT-TT
47519893 TT
129 TT
47519895 TATTGAAAGT
Statistics
Matches: 393, Mismatches: 28, Indels: 24
0.88 0.06 0.05
Matches are distributed among these distances:
297 7 0.02
298 47 0.12
299 10 0.03
300 6 0.02
301 53 0.13
302 1 0.00
303 76 0.19
304 15 0.04
305 148 0.38
306 30 0.08
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (299 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAAAAAAATATATTATTTTC
ATATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
AAATAAATTTAAAAAACCTTATTTCGGCCCTATGTTCGTATTCTTTTCCCGAATTTTATTACTTT
TAAAAAATATACTATTTTTTAATTTTTTAATTTACATTATTTTAGTACATTATATTTGAAATGTA
TTAATTTAGTGTGCTTTTTAAATAAATTAAAAAAATCCT
Found at i:47520103 original size:152 final size:150
Alignment explanation
Indices: 47519900--47521447 Score: 1509
Period size: 151 Copynumber: 10.2 Consensus size: 150
47519890 ATTTTTATTG
* *
47519900 AAAGTAAGAAAATTCGGG-AAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTTAT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTT-AATTTAT
* *
47519964 TTTAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATATAAAATTTAAAAA
64 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAA
*
47520029 TTTAAAAAATAGTATATGTTTTA
129 -TTAAAAAATAGTATATTTTTTA
* * *
47520052 AAAGTAATAAAATCCGGGAAAAAAATACGAACATAGGGCCAAAATAAGGTTTTTTTAAATTTATT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT-AATTTATT
*
47520117 T-AAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAAT-TAAAAATTAAAAAT
65 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAAT
47520180 TAAAAAATAGTATATTTTTTA
130 TAAAAAATAGTATATTTTTTA
* * * * * **** ** ******
47520201 AAAGTAATAAAATTCGAGAAAAAAATACGAAAAAATGACCAAAATACGAACAATTGGTGCCGCCT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATA--AGGTTTTTTTAATTTAT
* *** * ** * * **** * * ** * ** ****
47520266 CTGCCACAGGCACCAAAGGTGCCGCCTGTGGCAGGCTCTCCTTCAGCATGTTTTTTTTTTAACTG
64 TTAAAAAACACACTAAA-TTAATACAT-T-TCA---AAT--AT-A--ATG-TACTAAAATAA-TG
**** **** *** * * ** **
47520331 TCTTTTTTTTTGTATT--ATTTTGGTAAATAATAAA
116 T-AAAATTTAAAAATTAAAAAATAGTATATTTTTTA
* *
47520365 AAAGTAATAAAA-TCCGGAAAAAAATACGAAGAAAGGGCCGAAATAAGGATTTTTTTAATTTATT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTTTAATTTATT
* * **
47520429 TAAAAAACACACTAAATTAATACATTTCAAATATAATGCACTAAAATAATGGAAAATAAAAAAAA
65 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT-TTAAAAA
47520494 TTAAAAAATAGTATATTTTTTA
129 TTAAAAAATAGTATATTTTTTA
*
47520516 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATACGGATTTTTTTAATTTATT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTTTAATTTATT
* * * * *
47520581 TAAAAAACAAAGTAAATTAATACATTTC-AACATGATGTACTAAAAT-ATATAAAATATT--AAA
65 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT-TTAAAAA
**
47520642 TTATTAAATA-TATATTTTTTA
129 TTAAAAAATAGTATATTTTTTA
* * *
47520663 TTGAAAGTAATAAAATCCGGG--AAAAATACG-ACAAAGGGCCGAAATTAGGATTTTTT-ATTTA
1 ---AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTAATTTA
*
47520724 TTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAATTAATGTAAAA--TAAAA
63 TTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAA
*
47520787 AATAAAAAATAGTATATTTTTTA
128 ATTAAAAAATAGTATATTTTTTA
*
47520810 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGACCGAAATAAGGTTTTTTTTTTAAATTT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG---TTTTTTT-AATTT
* * * * * *
47520875 ATTTAAAAAACACAATAAATTAATATATTTCAAACATGATGTACTAATATAATGTAAAATAATAA
62 ATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT-TTAA
* *
47520940 AATACTAAAATAATA-TAT-TTTTATTG
126 AA-ATTAAAA-AATAGTATATTTT-TTA
* * *
47520966 AAAGTAATAAAATCCGGGAAAAAAATATGAACAAAGAGCCGAAATAAGGATTTTTTTTAATTTAT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG--TTTTTTTAATTTAT
* *
47521031 TTAAAAAACACATTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAAA
64 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAA
* *
47521096 TTAGAAAATAGTATA-TTCTTA
129 TTAAAAAATAGTATATTTTTTA
*
47521117 AAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGGTTTTTTTAATTTAT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAA--GGTTTTTTTAATTTAT
* * *
47521182 TTTAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG-------T-AAAA
64 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAA
47521239 -TAAAAAATAGTATATTTTTTAA
129 TTAAAAAATAGTATATTTTTT-A
* *
47521261 AAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTATT
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTAATTTATT
* *
47521326 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGCAAAATTAAAAAAT
65 TAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAAT
*
47521391 TAAAAAATATTATATTTTTTA
130 TAAAAAATAGTATATTTTTTA
*
47521412 AAAGTAATAAAA-TCCGGAAAAAAATACGAACAAAGG
1 AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
47521448 ATAAAAATAC
Statistics
Matches: 1132, Mismatches: 203, Indels: 124
0.78 0.14 0.08
Matches are distributed among these distances:
142 13 0.01
143 73 0.06
144 66 0.06
145 33 0.03
146 40 0.04
147 63 0.06
148 21 0.02
149 66 0.06
150 71 0.06
151 227 0.20
152 199 0.18
153 33 0.03
154 63 0.06
155 17 0.02
156 57 0.05
157 5 0.00
159 3 0.00
160 2 0.00
161 4 0.00
162 16 0.01
163 32 0.03
164 22 0.02
165 1 0.00
166 5 0.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.31
Consensus pattern (150 bp):
AAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTAATTTATTT
AAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTTAAAAATT
AAAAAATAGTATATTTTTTA
Found at i:47521277 original size:144 final size:145
Alignment explanation
Indices: 47520364--47521443 Score: 1148
Period size: 152 Copynumber: 7.2 Consensus size: 145
47520354 TAAATAATAA
* * * * *
47520364 AAAAGTAATAAAA-TCCGGAAAAAAATACGAAGAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTAT
* * *
47520428 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGCACTAAAATAATGGAAAATAAAAAAA
66 TTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAAT-G---AT---AAAA
47520493 ATTAAAAAATAGTATATTTTTT
124 ATTAAAAAATAGTATATTTTTT
* * * *
47520515 AAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAAATACGGATTTTTTTAATTTAT
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTAT
** * *
47520580 TTAAAAAACAAAGTAAATTAATACATTTC-AACATGATGTACTAAAAT-AT-ATAAAATATTAAA
66 TTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATGATAAAA-ATT-AA
47520642 TTATTAAATA-TATATTTTTT
129 --A--AAATAGTATATTTTTT
* * * *
47520662 ATTGAAAGTAATAAAATCCGGG--AAAAATACG-ACAAAGGGCCGAAATTAGGATTTTTT--ATT
1 A---AAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATT
* * *
47520722 TATTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAATTAATGTAAAATAAAA
63 TATTTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG----ATAAAA
*
47520787 AATAAAAAATAGTATATTTTTT
124 ATTAAAAAATAGTATATTTTTT
* * *
47520809 AAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGACCGAAATAAGGTTTTTTTTTTAAATT
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGG---GTTTTTTAAATT
* * * * *
47520874 TATTTAAAAAACACAA-TAAATTAATATATTTCAAACATGATGTACTAATATAATGTAAAATAAT
63 TATTTAAAAAACA-AACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG----ATAA-
* * *
47520938 AAAATACTAAAATAATATATTTTTATT
122 AAATTA-AAAAATAGTATA-TTTT-TT
* * * * * * *
47520965 GAAAGTAATAAAATCCGGGAAAAAAATATGAACAAAGAGCCGAAATAAGGATTTTTTTTAATTTA
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGG-GTTTTTTAAATTTA
* **
47521030 TTTAAAAAACACATTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAA
65 TTTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG----A-T-AAAA
* *
47521095 ATTAGAAAATAGTATA-TTCTT
124 ATTAAAAAATAGTATATTTTTT
*
47521116 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGGTTTTTTTAATTTA
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAA-GGGTTTTTTAAATTTA
*
47521181 TTTTAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG-T-AAAA-TAAA
65 TTTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATGATAAAAATTAAA
47521243 AAATAGTATATTTTTT
130 AAATAGTATATTTTTT
47521259 AAAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTA
1 -AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTA
* *
47521324 TTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGCAAAATTAAAAA
65 TTTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATG----A-T-AAAA
*
47521389 ATTAAAAAATATTATATTTTTT
124 ATTAAAAAATAGTATATTTTTT
*
47521411 AAAAGTAATAAAA-TCCGGAAAAAAATACGAACA
1 AAAAGTAATAAAATTCGGGAAAAAAATACGAACA
47521444 AAGGATAAAA
Statistics
Matches: 820, Mismatches: 63, Indels: 93
0.84 0.06 0.10
Matches are distributed among these distances:
142 17 0.02
143 76 0.09
144 67 0.08
145 36 0.04
146 30 0.04
147 65 0.08
148 15 0.02
149 1 0.00
150 46 0.06
151 154 0.19
152 162 0.20
153 8 0.01
154 84 0.10
155 10 0.01
156 49 0.06
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (145 bp):
AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTAT
TTAAAAAACAAACCAAATTAATACATTTCAAATATAATGTACTAAAATAATGATAAAAATTAAAA
AATAGTATATTTTTT
Found at i:47521384 original size:294 final size:295
Alignment explanation
Indices: 47520364--47521447 Score: 1541
Period size: 294 Copynumber: 3.6 Consensus size: 295
47520354 TAAATAATAA
*
47520364 AAAAGTAATAAAATCC-GGAAAAAAATACGAAGAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
1 AAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
* * *
47520428 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGCACTAAAATAATGGAAAATAAAAAAA
66 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAAT-TAAAAA
47520493 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGA
130 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGA
*
47520558 AAT-ACGGATTTTTTTAATTTATTTAAAAAACAAAGTAAATTAATACATTTC-AACATGATGTAC
195 AATAAGGGATTTTTTTAATTTATTTAAAAAACAAA-TAAATTAATACATTTCAAACATGATGTAC
*
47520621 TAAAATATAT-AAAATATTAAATTATTAAATATATATTTTTTATT
259 TAAAATA-ATGTAAA-A-TAAA--A--AAATATATATTTTTTA-T
* *
47520665 GAAAGTAATAAAATCCGGG--AAAAATACG-ACAAAGGGCCGAAATTAGGA-TTTTTT-ATTTAT
1 AAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
*
47520725 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAATTAATGTAAAA-TAAAAAA
66 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAAA
*
47520789 -TAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGACCGAA
131 TTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAA
** *
47520853 ATAAGGTTTTTTTTTTAAATTTATTTAAAAAACACAATAAATTAATATATTTCAAACATGATGTA
196 ATAAGG-GATTTTTTT-AATTTATTTAAAAAACA-AATAAATTAATACATTTCAAACATGATGTA
*
47520918 CTAATATAATGTAAAATAATAAAATACTAAAATAATATATTTTTATT
258 CTAAAATAATGTAAAATAA-AAAA-A-T---AT-ATAT-TTTTTA-T
* * *
47520965 GAAAGTAATAAAATCCGGGAAAAAAATATGAACAAAGAGCCGAAATAAGGATTTTTTTTAATTTA
1 AAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGA-TTTTTTTAATTTA
*
47521030 TTTAAAAAACACATTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAA
65 TTTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAA
* * *
47521095 ATTAGAAAATAGTATA-TTCTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGA
130 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGA
* * * * *
47521159 AATAAGGGGTTTTTTTAATTTATTTTAAAAACAAACCAAATTAATACATTTCAAATATAATGTAC
195 AATAAGGGATTTTTTTAATTTATTTAAAAAACAAA-TAAATTAATACATTTCAAACATGATGTAC
47521224 TAAAATAATGTAAAAT-AAAAAATAGTATATTTTTTA-
259 TAAAATAATGTAAAATAAAAAAATA-TATATTTTTTAT
* * * *
47521260 AAAAGTAATAAAATTCGGGAAAAAAATACGAACATAGGGCCGAAATAAGGGTTTTTTAAATTTAT
1 AAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
*
47521325 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGCAAAATTAAAAAA
66 TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAAA
* *
47521390 TTAAAAAATATTATATTTTTTAAAAGTAATAAAA-TCCGGAAAAAAATACGAACAAAGG
131 TTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
47521448 ATAAAAATAC
Statistics
Matches: 712, Mismatches: 45, Indels: 59
0.87 0.06 0.07
Matches are distributed among these distances:
293 2 0.00
294 177 0.25
295 72 0.10
296 10 0.01
297 102 0.14
298 36 0.05
299 23 0.03
300 36 0.05
301 16 0.02
302 11 0.02
303 22 0.03
304 3 0.00
305 62 0.09
306 68 0.10
307 59 0.08
308 13 0.02
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (295 bp):
AAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTAATTTAT
TTAAAAAACACACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATTAAAAAA
TTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCGAA
ATAAGGGATTTTTTTAATTTATTTAAAAAACAAATAAATTAATACATTTCAAACATGATGTACTA
AAATAATGTAAAATAAAAAAATATATATTTTTTAT
Found at i:47522256 original size:11 final size:11
Alignment explanation
Indices: 47522240--47522284 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
47522230 ATTAATCCTT
47522240 TCTCAATTTCC
1 TCTCAATTTCC
*
47522251 TCTCAATTTTC
1 TCTCAATTTCC
* *
47522262 TCTCAAATTGC
1 TCTCAATTTCC
47522273 TCTCAATTTCC
1 TCTCAATTTCC
47522284 T
1 T
47522285 TCCAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:47522267 original size:22 final size:22
Alignment explanation
Indices: 47522240--47522300 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
47522230 ATTAATCCTT
*
47522240 TCTCAATTTCCTCTCAATTTTC
1 TCTCAAATTCCTCTCAATTTTC
* *
47522262 TCTCAAATTGCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTTC
*
47522284 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTCCTCTCAA
47522301 ATCCATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAAATTCCTCTCAATTTTC
Found at i:47522277 original size:33 final size:33
Alignment explanation
Indices: 47522240--47522302 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
47522230 ATTAATCCTT
*
47522240 TCTCAATTTCC-TCTCAATTTTCTCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTTCTCTCAAATTGC
47522273 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
1 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
47522303 CCATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (33 bp):
TCTCAATTTCCTTCCAAATTTCTCTCAAATTGC
Found at i:47522318 original size:51 final size:51
Alignment explanation
Indices: 47522262--47522361 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
47522252 CTCAATTTTC
47522262 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * ** * *
47522313 TCTCAATTTGCTCTCATTTTCCTTTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTT
47522362 TTAATTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.47
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:47524677 original size:49 final size:49
Alignment explanation
Indices: 47524624--47524741 Score: 227
Period size: 49 Copynumber: 2.4 Consensus size: 49
47524614 GTTTATATTA
47524624 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
*
47524673 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
47524722 ATGTAATAAAATACAAAATA
1 ATGTAATAAAATACAAAATA
47524742 ATTAATATTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
Found at i:47530371 original size:44 final size:45
Alignment explanation
Indices: 47530249--47530374 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 45
47530239 AAGACTAGTG
* * **
47530249 TCTTCGATCTACTTCGCTTCCAGTACAGGAAGACAAGATTTGCCA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGAGCTGCCA
* * * *** * **
47530294 TTTTCAACCTACTTCGCTACTGCT-CAGGGAGACAAG-GCTGGTA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGAGCTGCCA
*
47530337 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
1 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
47530375 TCTGTTATTT
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
43 20 0.34
44 22 0.37
45 17 0.29
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGAGCTGCCA
Found at i:47530405 original size:88 final size:88
Alignment explanation
Indices: 47530249--47530421 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
47530239 AAGACTAGTG
* * * * *
47530249 TCTTCGATCTACTTCGCTTCCAGTACAGGAAGACAAGATTTGCCATTTTCAACCTACTTCGCTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTAC
47530314 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGTA
** *
47530337 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTAC
*
47530402 TGCTCAGGGAGATAAGGCTG
66 TGCTCAGGGAGACAAGGCTG
47530422 AAGTTTCACC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTAC
TGCTCAGGGAGACAAGGCTGGTA
Found at i:47531675 original size:16 final size:14
Alignment explanation
Indices: 47531657--47531712 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
47531647 TTTTTACTCT
47531657 TTTCATTTTTTTCA
1 TTTCATTTTTTTCA
*
47531671 TTT-TTATTTTTTCA
1 TTTCAT-TTTTTTCA
47531685 TTTCATTTTCATTTCA
1 TTTCATTTT--TTTCA
47531701 TTTCATTTTTTT
1 TTTCATTTTTTT
47531713 TACGACTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 1 0.03
14 20 0.56
15 1 0.03
16 14 0.39
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCATTTTTTTCA
Found at i:47531695 original size:11 final size:11
Alignment explanation
Indices: 47531679--47531708 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47531669 CATTTTTATT
47531679 TTTTCATTTCA
1 TTTTCATTTCA
47531690 TTTTCATTTCA
1 TTTTCATTTCA
47531701 -TTTCATTT
1 TTTTCATTT
47531709 TTTTTACGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTCATTTCA
Found at i:47532186 original size:21 final size:20
Alignment explanation
Indices: 47532160--47532206 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
47532150 CCGGTAGAGG
* *
47532160 TTTTTGTTTTTCGTTTTTTGT
1 TTTTTGTTCTTC-TTTTTCGT
47532181 TTTTTGTTCTTCTTTTTCGT
1 TTTTTGTTCTTCTTTTTCGT
47532201 TCTTTT
1 T-TTTT
47532207 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (20 bp):
TTTTTGTTCTTCTTTTTCGT
Found at i:47532216 original size:20 final size:19
Alignment explanation
Indices: 47532166--47532228 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
47532156 GAGGTTTTTG
*
47532166 TTTTTCGTTTTTT-GTT-T
1 TTTTTCTTTTTTTCGTTCT
47532183 TTTGTTCTTCTTTTTCGTTCT
1 TTT-TTCTT-TTTTTCGTTCT
* *
47532204 TTTTTCCTTTTTTCCTTTCT
1 TTTTT-CTTTTTTTCGTTCT
47532224 TTTTT
1 TTTTT
47532229 TTTGAAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 4 0.11
19 5 0.13
20 19 0.50
21 7 0.18
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTTTTTCGTTCT
Found at i:47538444 original size:18 final size:17
Alignment explanation
Indices: 47538421--47538457 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
47538411 TATATGTAGG
47538421 TATAATAATAATATATAA
1 TATAATAATAAT-TATAA
47538439 TATAATAATAATTATAA
1 TATAATAATAATTATAA
47538456 TA
1 TA
47538458 ATAACAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATAATAATTATAA
Found at i:47538445 original size:15 final size:14
Alignment explanation
Indices: 47538425--47538478 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
47538415 TGTAGGTATA
47538425 ATAATAATATATAAT
1 ATAATAATA-ATAAT
*
47538440 ATAATAATAATTAT
1 ATAATAATAATAAT
*
47538454 AATAATAACAAATAAT
1 -ATAATAA-TAATAAT
*
47538470 ACAATAATA
1 ATAATAATA
47538479 GTGAAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:47538455 original size:30 final size:30
Alignment explanation
Indices: 47538421--47538478 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47538411 TATATGTAGG
* * *
47538421 TATAATAATAATATATAATATAATAATAAT
1 TATAATAATAACAAATAATACAATAATAAT
47538451 TATAATAATAACAAATAATACAATAATA
1 TATAATAATAACAAATAATACAATAATA
47538479 GTGAAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (30 bp):
TATAATAATAACAAATAATACAATAATAAT
Found at i:47538478 original size:3 final size:3
Alignment explanation
Indices: 47538422--47538461 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
47538412 ATATGTAGGT
*
47538422 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATT ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47538462 CAAATAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:47539996 original size:7 final size:7
Alignment explanation
Indices: 47539984--47540019 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
47539974 AAAATCCTAA
47539984 AAACCCT
1 AAACCCT
47539991 AAACCCT
1 AAACCCT
47539998 AAACCCT
1 AAACCCT
47540005 -AACCCT
1 AAACCCT
47540011 -AACCCT
1 AAACCCT
47540017 AAA
1 AAA
47540020 AACCCAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:47540010 original size:6 final size:6
Alignment explanation
Indices: 47539985--47540018 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
47539975 AAATCCTAAA
47539985 AACCCT AAACCCT AAACCCT AACCCT AACCCT AA
1 AACCCT -AACCCT -AACCCT AACCCT AACCCT AA
47540019 AAACCCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:47540581 original size:22 final size:22
Alignment explanation
Indices: 47540540--47540581 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47540530 TAATTAGATA
*
47540540 AATTAATAAATTTAAGTTTTTT
1 AATTAATAAATATAAGTTTTTT
47540562 AATTAAATAAATATAA-TTTT
1 AATT-AATAAATATAAGTTTT
47540582 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTAATAAATATAAGTTTTTT
Found at i:47546371 original size:21 final size:21
Alignment explanation
Indices: 47546342--47546382 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47546332 CTTGTTTCGT
*
47546342 GAGAAATTTGAGAGAAAATGG
1 GAGAAATTTAAGAGAAAATGG
* *
47546363 GAGAGATTTAAGGGAAAATG
1 GAGAAATTTAAGAGAAAATG
47546383 ATAAAAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (21 bp):
GAGAAATTTAAGAGAAAATGG
Found at i:47550742 original size:46 final size:46
Alignment explanation
Indices: 47550675--47551064 Score: 664
Period size: 46 Copynumber: 8.6 Consensus size: 46
47550665 TTTGAGTACT
47550675 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550721 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550767 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550813 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
47550859 TCTGATCAAGTAACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550905 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550950 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47550995 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
47551040 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
47551065 ATCATATGTA
Statistics
Matches: 332, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
43 12 0.04
44 5 0.02
45 109 0.33
46 206 0.62
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:47551523 original size:52 final size:52
Alignment explanation
Indices: 47551445--47551550 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
47551435 GGTAGATTTT
*
47551445 GTTAAACGACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAA
1 GTTAAACAACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAA
47551497 GTTAAACAACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAA
1 GTTAAACAACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAA
47551549 GT
1 GT
47551551 AATAGAATGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (52 bp):
GTTAAACAACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAA
Found at i:47556063 original size:5 final size:5
Alignment explanation
Indices: 47556053--47556078 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47556043 CTTTCTCTCG
47556053 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
47556079 CAAATCCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:47556229 original size:7 final size:6
Alignment explanation
Indices: 47556198--47556228 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
47556188 TTATTTTCAT
47556198 ATTTAA ATTTAA ATTTAA ATTTAA TATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA -ATTTAA
47556229 TTTGGTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:47556231 original size:12 final size:13
Alignment explanation
Indices: 47556196--47556228 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
47556186 TCTTATTTTC
47556196 ATATTTAAATTTA
1 ATATTTAAATTTA
47556209 A-ATTTAAATTTA
1 ATATTTAAATTTA
47556221 ATATTTAA
1 ATATTTAA
47556229 TTTGGTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTAAATTTA
Found at i:47556746 original size:16 final size:16
Alignment explanation
Indices: 47556703--47556754 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
47556693 CAAAAATAAC
47556703 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGTG
*
47556719 T-ATTGAATTAGAGGTG
1 TAATGGAA-TAGAGGTG
*
47556735 TAATGGGATAGAGGTG
1 TAATGGAATAGAGGTG
47556751 TAAT
1 TAAT
47556755 AACAAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 5 0.16
16 22 0.71
17 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGGTG
Found at i:47557016 original size:14 final size:15
Alignment explanation
Indices: 47556977--47557018 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47556967 TTTAAACATG
*
47556977 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47556992 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47557006 A-TATAATTTAATA
1 ATTATAATTAAATA
47557019 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47570001 original size:8 final size:8
Alignment explanation
Indices: 47569990--47570032 Score: 59
Period size: 9 Copynumber: 5.0 Consensus size: 8
47569980 TTTTTAAACC
47569990 TTTAAAAT
1 TTTAAAAT
47569998 TTTAAAAT
1 TTTAAAAT
47570006 TTTAAAATAT
1 TTT-AAA-AT
47570016 TTTAAAAT
1 TTTAAAAT
47570024 ATTTAAAAT
1 -TTTAAAAT
47570033 ATAAATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 13 0.41
9 14 0.44
10 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:47570002 original size:16 final size:16
Alignment explanation
Indices: 47569981--47570032 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
47569971 TTTGTGACAT
*
47569981 TTTTAAACCTTTAAAA
1 TTTTAAAACTTTAAAA
*
47569997 TTTTAAAATTTTAAAATA
1 TTTTAAAACTTT-AAA-A
*
47570015 TTTTAAAATATTTAAAA
1 TTTTAAAA-CTTTAAAA
47570032 T
1 T
47570033 ATAAATATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.33
17 5 0.17
18 12 0.40
19 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAACTTTAAAA
Found at i:47570030 original size:9 final size:9
Alignment explanation
Indices: 47569990--47570034 Score: 67
Period size: 8 Copynumber: 5.1 Consensus size: 9
47569980 TTTTTAAACC
47569990 TTTAAAAT-
1 TTTAAAATA
47569998 TTTAAAAT-
1 TTTAAAATA
47570006 TTTAAAATA
1 TTTAAAATA
47570015 TTTTAAAATA
1 -TTTAAAATA
47570025 TTTAAAATA
1 TTTAAAATA
47570034 T
1 T
47570035 AAATATGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.46
9 10 0.29
10 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTTAAAATA
Found at i:47570030 original size:19 final size:18
Alignment explanation
Indices: 47569996--47570034 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 18
47569986 AACCTTTAAA
47569996 ATTTTAAAATTTTAAAAT
1 ATTTTAAAATTTTAAAAT
47570014 ATTTTAAAATATTTAAAAT
1 ATTTTAAAAT-TTTAAAAT
47570033 AT
1 AT
47570035 AAATATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTAAAATTTTAAAAT
Found at i:47571830 original size:16 final size:15
Alignment explanation
Indices: 47571809--47571838 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47571799 CAAACATGCT
47571809 TTAACACATTATCAAA
1 TTAACACATT-TCAAA
47571825 TTAACACATTTCAA
1 TTAACACATTTCAA
47571839 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAACACATTTCAAA
Found at i:47575185 original size:17 final size:16
Alignment explanation
Indices: 47575165--47575224 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
47575155 CTTTCTCATT
47575165 TTTTTCCTTTTTCTTTC
1 TTTTT-CTTTTTCTTTC
* *
47575182 TTTTTCCCTTTTGTTTC
1 TTTTT-CTTTTTCTTTC
* *
47575199 GTTTGT-TATTTCTTTC
1 -TTTTTCTTTTTCTTTC
47575215 TTTTTCTTTT
1 TTTTTCTTTT
47575225 ATTTTATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 4 0.12
16 10 0.30
17 15 0.45
18 4 0.12
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTC
Found at i:47578865 original size:422 final size:423
Alignment explanation
Indices: 47578081--47578926 Score: 1480
Period size: 422 Copynumber: 2.0 Consensus size: 423
47578071 ACTAATAGTA
* *
47578081 ACCCGATCTCAAATCAATCTTTAAAAAGACAAAAGCTCCTTTTAGTTGATCAAATAAGTCATCGA
1 ACCCGATCTCAAATCAATCTTTAAAAAGACAAAAGCTCCTTTTAGTTGATCAAATAAGTAATCAA
** * *
47578146 TACGGGGGGTAGGATATCGATTCTTAATCGTTAACTTATTTAATTACTGATAATGAATACAAAGT
66 TACGGGGAATAGGATATCGATTCTCAATCGTCAACTTATTTAATTACTGATAATGAATACAAAGT
* *
47578211 CGCATCTAACCATCTTTCTTTTTAACAAAAAGTACTGGAGCTCCCCAAGGCGATACACTGGGGCG
131 CGCATCGAACCATCTTTCTTTTTAACAAAAAGTACTGGAGCTCCCCAAGGCGATACACTGGGGCA
* *
47578276 TATAAAACCACGATCCAATAAGTTTTGCAATTTTACTTTTAATTCTTTCAACTCTGTAGGTGACA
196 TATAAAACCACGATCCAATAAGTTTTACAATTGTACTTTTAATTCTTTCAACTCTGTAGGTGACA
* * *
47578341 TACGATAGGGGGCATTGACACTAGAGCCATACTAGGAGACACTTCAATTGCAAACTCAATCTCTC
261 TACGATAGGGGGCATTGACACTAGAGCCATACTAGAAAACACTTCAATTGCAAACTCAACCTCTC
47578406 GATCCGATGGTAATCTCGGTAATTTCTCGGGAAACATATCAGGGAATTCACAAACAATTTAAATT
326 GATCCGATGGTAATCTCGGTAATTTCTCGGGAAACATATCAGGGAATTCACAAACAATTTAAATT
47578471 TTACTACA-TGACTATCAACAGAATTCGAATTG
391 TTACTACACTGACTATCAACAGAATTCGAATTG
* *
47578503 ACCCGATCTCAAATCAATCTTTAAAAAGACAGAAGCTCTTTTTAGTTGATCAAATAAGTAATCAA
1 ACCCGATCTCAAATCAATCTTTAAAAAGACAAAAGCTCCTTTTAGTTGATCAAATAAGTAATCAA
47578568 TACGGGGAATAGGATATCGATTCTCAATCGTCAACTTATTTAATTACTGATAATGAATACAAAGT
66 TACGGGGAATAGGATATCGATTCTCAATCGTCAACTTATTTAATTACTGATAATGAATACAAAGT
47578633 CGCATCGAACCATCTTTCTTTTTAACAAAAAGTACTGGAGCTCCCCAAGGCGATACACTGGGGCA
131 CGCATCGAACCATCTTTCTTTTTAACAAAAAGTACTGGAGCTCCCCAAGGCGATACACTGGGGCA
47578698 TATAAAACCACGATCCAATAAGTTTTACAATTGTACTTTTAATTCTTTCAACTCTGTAGGTGACA
196 TATAAAACCACGATCCAATAAGTTTTACAATTGTACTTTTAATTCTTTCAACTCTGTAGGTGACA
* * *
47578763 TACGTTAGGGGGCATTGACACTGGAGCCGTACTAGAAAACACTTCAATTGCAAACTCAACCTC-C
261 TACGATAGGGGGCATTGACACTAGAGCCATACTAGAAAACACTTCAATTGCAAACTCAACCTCTC
* *
47578827 TGATCCGATGGTAATCTCGGTAATTTCTCGGGAAACATATCAGGGAATTCATAAGCAATTTAAAT
326 -GATCCGATGGTAATCTCGGTAATTTCTCGGGAAACATATCAGGGAATTCACAAACAATTTAAAT
*
47578892 TTTACTGCACTGACTATCAACAGAATTCGAATTG
390 TTTACTACACTGACTATCAACAGAATTCGAATTG
47578926 A
1 A
47578927 TGACATAGGC
Statistics
Matches: 401, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
421 1 0.00
422 375 0.94
423 25 0.06
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (423 bp):
ACCCGATCTCAAATCAATCTTTAAAAAGACAAAAGCTCCTTTTAGTTGATCAAATAAGTAATCAA
TACGGGGAATAGGATATCGATTCTCAATCGTCAACTTATTTAATTACTGATAATGAATACAAAGT
CGCATCGAACCATCTTTCTTTTTAACAAAAAGTACTGGAGCTCCCCAAGGCGATACACTGGGGCA
TATAAAACCACGATCCAATAAGTTTTACAATTGTACTTTTAATTCTTTCAACTCTGTAGGTGACA
TACGATAGGGGGCATTGACACTAGAGCCATACTAGAAAACACTTCAATTGCAAACTCAACCTCTC
GATCCGATGGTAATCTCGGTAATTTCTCGGGAAACATATCAGGGAATTCACAAACAATTTAAATT
TTACTACACTGACTATCAACAGAATTCGAATTG
Found at i:47582435 original size:29 final size:30
Alignment explanation
Indices: 47582398--47582457 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
47582388 AGCTTTGGTC
*
47582398 TTTCTCCTTTTCTTTCCTTTTTTCTTTCTT
1 TTTCTCCTTTTCTTTCCTTTGTTCTTTCTT
* *
47582428 TTTC-CCTTTTGTTTCGTTTGTTCTTTCTT
1 TTTCTCCTTTTCTTTCCTTTGTTCTTTCTT
47582457 T
1 T
47582458 CTTTTTCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (30 bp):
TTTCTCCTTTTCTTTCCTTTGTTCTTTCTT
Found at i:47584735 original size:21 final size:19
Alignment explanation
Indices: 47584703--47584744 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
47584693 ATTCATTTTC
47584703 TATTTATTGTAAATTGGAAAA
1 TATTTATTGTAAA-T-GAAAA
47584724 TATTT-TTGGTAAATGAAAA
1 TATTTATT-GTAAATGAAAA
47584743 TA
1 TA
47584745 GAAATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TATTTATTGTAAATGAAAA
Found at i:47585521 original size:23 final size:23
Alignment explanation
Indices: 47585488--47585553 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
47585478 ATATATATAT
*
47585488 ATATATATATATTAATTTAATAA
1 ATATATTTATATTAATTTAATAA
* **
47585511 ATATATTTATATTATTTTTAATTT
1 ATATATTTATATTA-ATTTAATAA
47585535 A-ATATTTA-A-TAATTTAATA
1 ATATATTTATATTAATTTAATA
47585554 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 6 0.17
21 2 0.06
22 1 0.03
23 20 0.56
24 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTTATATTAATTTAATAA
Found at i:47585531 original size:29 final size:29
Alignment explanation
Indices: 47585480--47585569 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 29
47585470 GTCCACCCAT
* *
47585480 ATATATATATATATATATATTAATTTAATAA
1 ATATATTTATAT-TAT-TTTTAATTTAATAA
47585511 ATATATTTATATTATTTTTAATTTAATATTTA
1 ATATATTTATATTATTTTTAATTTAATA---A
*
47585543 ATA-ATTTA-A-TATTTTTAATTTATTAA
1 ATATATTTATATTATTTTTAATTTAATAA
47585569 A
1 A
47585570 ATTATATATA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
26 2 0.04
29 27 0.51
30 4 0.08
31 16 0.30
32 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATATTTATATTATTTTTAATTTAATAA
Found at i:47585682 original size:16 final size:17
Alignment explanation
Indices: 47585650--47585682 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47585640 TGTTATAAAT
47585650 TTACATAATGCATAAAAA
1 TTACATAAT-CATAAAAA
47585668 TTACATAAT-ATAAAA
1 TTACATAATCATAAAA
47585683 CAAGCCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
TTACATAATCATAAAAA
Found at i:47588871 original size:19 final size:20
Alignment explanation
Indices: 47588836--47588873 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
47588826 ATTTCGTATG
47588836 TATTATATTTGTGATATTAT
1 TATTATATTTGTGATATTAT
47588856 TATTA-ATTT-TGAATATTA
1 TATTATATTTGTG-ATATTA
47588874 CATTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 10 0.59
20 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TATTATATTTGTGATATTAT
Found at i:47593516 original size:2 final size:2
Alignment explanation
Indices: 47593509--47593541 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47593499 CATCTTTCCC
47593509 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 T
47593542 TGCTTTTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47595860 original size:13 final size:14
Alignment explanation
Indices: 47595842--47595870 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47595832 GATGCTTATG
47595842 TTTAATTCA-TGAT
1 TTTAATTCATTGAT
47595855 TTTAATTCATTGAT
1 TTTAATTCATTGAT
47595869 TT
1 TT
47595871 CATTGTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTAATTCATTGAT
Found at i:47597983 original size:135 final size:134
Alignment explanation
Indices: 47597741--47598011 Score: 488
Period size: 135 Copynumber: 2.0 Consensus size: 134
47597731 TTTAGCTATG
*
47597741 TTAGTTTTTAATAGAAGAAATTGATGGAAATTTTAATAAAAATATCAATTTGTTCTTTGATGTAA
1 TTAGTTTTTAATAGAAGAAATTGATGAAAATTTTAATAAAAATATCAATTTGTTCTTTGATGTAA
* * * *
47597806 TATACAGGGACTTATTTGTCTAAATTTAAGTAAAATGAGCAAAATATAATCTGACTCTTAATACA
66 TATACAGGGACTTATTTGTCCAAATTTAAATAAAATGAGCAAAATATAATC-AACTCCTAATACA
47597871 AAGAT
130 AAGAT
47597876 TTAGTTTTTAATAGAAGAAATTGATGAAAATTTTAATAAAAATATCAATTTGTTCTTTGATGTAA
1 TTAGTTTTTAATAGAAGAAATTGATGAAAATTTTAATAAAAATATCAATTTGTTCTTTGATGTAA
47597941 TATACAGGGACTTATTTGTCCAAATTTAAATAAAATGAGCAAAATATAATCAACTCCTAATACAA
66 TATACAGGGACTTATTTGTCCAAATTTAAATAAAATGAGCAAAATATAATCAACTCCTAATACAA
47598006 AGAT
131 AGAT
47598010 TT
1 TT
47598012 TCGTGATATT
Statistics
Matches: 131, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
134 18 0.14
135 113 0.86
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (134 bp):
TTAGTTTTTAATAGAAGAAATTGATGAAAATTTTAATAAAAATATCAATTTGTTCTTTGATGTAA
TATACAGGGACTTATTTGTCCAAATTTAAATAAAATGAGCAAAATATAATCAACTCCTAATACAA
AGAT
Found at i:47603670 original size:17 final size:16
Alignment explanation
Indices: 47603624--47603670 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47603614 CATATTTGAC
47603624 TTTTTTTAAATTAGT-T
1 TTTTTTTAAA-TAGTAT
*
47603640 TTTATTTAAA-AGTAT
1 TTTTTTTAAATAGTAT
47603655 TTTTTTTAATATAGTA
1 TTTTTTTAA-ATAGTA
47603671 AACTAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 10 0.38
17 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTTTAAATAGTAT
Found at i:47604740 original size:28 final size:28
Alignment explanation
Indices: 47604687--47604740 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
47604677 ATTACCATTA
*
47604687 CACCATTATTCCACACTAGTTCCACTAG
1 CACCATTATTCCACACTAATTCCACTAG
*
47604715 CACCATTATTCCACACTAATTTCACT
1 CACCATTATTCCACACTAATTCCACT
47604741 GGCAGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.35, G:0.04, T:0.31
Consensus pattern (28 bp):
CACCATTATTCCACACTAATTCCACTAG
Found at i:47604885 original size:46 final size:45
Alignment explanation
Indices: 47604803--47604896 Score: 170
Period size: 46 Copynumber: 2.1 Consensus size: 45
47604793 ACAAAACCCC
47604803 CCTCTCTATAATTATTTTTTTATTCATTTTACAGTTCATATTTGA
1 CCTCTCTATAATTATTTTTTTATTCATTTTACAGTTCATATTTGA
*
47604848 CCTCTCTATAATTATTTTCTTTATTCGTTTTACAGTTCATATTTGA
1 CCTCTCTATAATTATTTT-TTTATTCATTTTACAGTTCATATTTGA
47604894 CCT
1 CCT
47604897 TCGTGGTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 18 0.38
46 29 0.62
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.54
Consensus pattern (45 bp):
CCTCTCTATAATTATTTTTTTATTCATTTTACAGTTCATATTTGA
Found at i:47609012 original size:14 final size:15
Alignment explanation
Indices: 47608986--47609014 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47608976 TGATTTATGT
47608986 AAATATGTTGAAAAA
1 AAATATGTTGAAAAA
47609001 AAATAT-TTGAAAAA
1 AAATATGTTGAAAAA
47609015 TTATGTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
AAATATGTTGAAAAA
Found at i:47612356 original size:37 final size:36
Alignment explanation
Indices: 47612293--47612405 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 36
47612283 ATTTCAAAAA
*
47612293 TAATATTATTTTAATAGATTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGATTAATATT-AATTTAATAT
*
47612329 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAG-ATTAATATTAATTTAATAT
*
47612366 TAAAGCGATTATCTTAAT--ATTAA-ATTTAATTTAATAT
1 T-AA--TATTATCTTAATAGATTAATA-TTAATTTAATAT
47612403 TAA
1 TAA
47612406 AGTGATTAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
36 19 0.29
37 30 0.46
38 5 0.08
39 10 0.15
40 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (36 bp):
TAATATTATCTTAATAGATTAATATTAATTTAATAT
Done.