Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 42
Found at i:8692468 original size:2 final size:2
Alignment explanation
Indices: 8692463--8692510 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8692453 TATTCGCTTC
8692463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8692505 AT AT AT
1 AT AT AT
8692511 TGTAGGCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8707954 original size:24 final size:24
Alignment explanation
Indices: 8707922--8707968 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8707912 CTATTCTTTC
* *
8707922 GCTTCAATTGAGTTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
8707946 GCTTCAATTAAGCTCAAATTTTA
1 GCTTCAATTAAGCTCAAATTTTA
8707969 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (24 bp):
GCTTCAATTAAGCTCAAATTTTAG
Found at i:8717241 original size:45 final size:45
Alignment explanation
Indices: 8717187--8717367 Score: 209
Period size: 45 Copynumber: 4.2 Consensus size: 45
8717177 TTTTTATATA
* *
8717187 AAAAAAAATTAGAGGTCTCAATTATAAAGGTAGAAAGTAAGATTG
1 AAAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
* *
8717232 AAAAAAAATTAGAGACCTCAATTATAAA-GTAAAAAGTGAGATT-
1 AAAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
**
8717275 --AAAAAATTAG-GAGTTTCAATTATAAAGGTAGAAAGTGAGATTG
1 AAAAAAAATTAGAG-GCCTCAATTATAAAGGTAGAAAGTGAGATTG
*
8717318 AAAAAAACTTA-AGGACCTCAATTATAAAGGTA-AAA-TGAGATT-
1 AAAAAAAATTAGAGG-CCTCAATTATAAAGGTAGAAAGTGAGATTG
*
8717360 ATAAAAAA
1 AAAAAAAA
8717368 CATAGACTTA
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 21 0.18
42 20 0.17
43 7 0.06
44 17 0.15
45 50 0.43
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (45 bp):
AAAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
Found at i:8717316 original size:86 final size:85
Alignment explanation
Indices: 8717189--8717366 Score: 263
Period size: 86 Copynumber: 2.1 Consensus size: 85
8717179 TTTATATAAA
8717189 AAAAAATTAGAGGTCTCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAAATT-AGAGACCTCAA
1 AAAAAATTAGAGGTCTCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAAATTAAG-GACCTCAA
8717253 TTATAAA-GTAAAAAGTGAGATT
65 TTATAAAGGT-AAAA-TGAGATT
* * *
8717275 AAAAAATTAG-GAGTTTCAATTATAAAGGTAGAAAGTGAGATTGAAAAAAACTTAAGGACCTCAA
1 AAAAAATTAGAG-GTCTCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAAATTAAGGACCTCAA
8717339 TTATAAAGGTAAAATGAGATT
65 TTATAAAGGTAAAATGAGATT
8717360 ATAAAAA
1 A-AAAAA
8717367 ACATAGACTT
Statistics
Matches: 85, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
85 9 0.11
86 72 0.85
87 4 0.05
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (85 bp):
AAAAAATTAGAGGTCTCAATTATAAAGGTAGAAAGTAAGATTGAAAAAAAATTAAGGACCTCAAT
TATAAAGGTAAAATGAGATT
Found at i:8717382 original size:86 final size:86
Alignment explanation
Indices: 8717206--8717411 Score: 242
Period size: 86 Copynumber: 2.4 Consensus size: 86
8717196 TAGAGGTCTC
*
8717206 AATTATAAAGGTAGAAAGTAAGATTGAAAAAAAATTAGAGACCTCAATTATAAAGTAAAAAGTGA
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAAAAATTAGAGACCTCAATTATAAAGTAAAAAGTGA
* * *
8717271 GATTAAAAAATTAGGAGTTTC
66 GATTAAAAAAATAGGAGCTTA
*
8717292 AATTATAAAGGTAGAAAGTGAGATTGAAAAAAACTTA-AGGACCTCAATTATAAAGGT-AAAA-T
1 AATTATAAAGGTAGAAAGTGAGATTGAAAAAAAATTAGA-GACCTCAATTATAAA-GTAAAAAGT
8717354 GAGATTATAAAAAACATA-GA-CTTA
64 GAGA-T-TAAAAAA-ATAGGAGCTTA
** * *
8717378 AATTATAAAAATAAAAAAGTGAAATTGAAAAAAA
1 AATTATAAAGGT-AGAAAGTGAGATTGAAAAAAA
8717412 TAGGACAATT
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
85 6 0.06
86 67 0.64
87 30 0.29
88 2 0.02
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (86 bp):
AATTATAAAGGTAGAAAGTGAGATTGAAAAAAAATTAGAGACCTCAATTATAAAGTAAAAAGTGA
GATTAAAAAAATAGGAGCTTA
Found at i:8717520 original size:29 final size:29
Alignment explanation
Indices: 8717465--8717522 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8717455 AGGGGCCTTC
* *
8717465 ATTACAGAGATGAAAAAATAGATGCCCTA
1 ATTACAAAGATGAAAAAATAGAGGCCCTA
8717494 ATTACAAAGATGAAAAAAT-GAGGGCCCTA
1 ATTACAAAGATGAAAAAATAGA-GGCCCTA
8717523 GGCAATCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (29 bp):
ATTACAAAGATGAAAAAATAGAGGCCCTA
Found at i:8720532 original size:5 final size:5
Alignment explanation
Indices: 8720522--8720547 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8720512 AGTGAATGCA
8720522 TATAG TATAG TATAG TATAG TATAG T
1 TATAG TATAG TATAG TATAG TATAG T
8720548 TGTGAGGCAT
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:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TATAG
Found at i:8724616 original size:21 final size:22
Alignment explanation
Indices: 8724575--8724634 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
8724565 TCCCCTGTGG
8724575 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCCTTCAAA
*
8724598 GGGGGAATCGGTT-CCTTC-AT
1 GGGGGAATCGGTTCCCTTCAAA
* *
8724618 GGGGGGATCGATTCCCT
1 GGGGGAATCGGTTCCCT
8724635 CCGCACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.36
21 8 0.24
23 13 0.39
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCTTCAAA
Found at i:8741740 original size:32 final size:31
Alignment explanation
Indices: 8741701--8741906 Score: 178
Period size: 32 Copynumber: 7.4 Consensus size: 31
8741691 CAATTCATAT
8741701 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATC-ATACTAATAAATTA
8741733 TTTAAAATAAATC-A--AT-C-AAT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
8741755 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
8741787 TTTAAAATAAATC-A--ATAC--AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
8741809 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
8741841 TTTAAAATAAATC-A--AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCATACTAATAAATTA
*
8741863 TTTAAAACAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-CATACTAATAAATTA
8741895 TTTAAAATAAAT
1 TTTAAAATAAAT
8741907 TATTTTAAAA
Statistics
Matches: 142, Mismatches: 2, Indels: 60
0.70 0.01 0.29
Matches are distributed among these distances:
22 38 0.27
23 6 0.04
24 3 0.02
26 15 0.11
27 6 0.04
28 15 0.11
30 3 0.02
31 6 0.04
32 50 0.35
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATCATACTAATAAATTA
Found at i:8741743 original size:54 final size:54
Alignment explanation
Indices: 8741684--8742010 Score: 434
Period size: 54 Copynumber: 6.3 Consensus size: 54
8741674 CAACTACAAT
*
8741684 AATAAATCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
8741738 AATAAATCAA-TCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATTC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
8741792 AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
8741846 AATAAATCAA-TCTATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATTC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
8741900 AAT--A--AA-T--TATTTTAAAATAAATCAATCTATAC-AACTACA--A--T--
1 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* *
8741941 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
8741995 AATAAATTAATCCATA
1 AATAAATCAATTCATA
8742011 CAACTACAAT
Statistics
Matches: 243, Mismatches: 12, Indels: 36
0.84 0.04 0.12
Matches are distributed among these distances:
41 3 0.01
43 2 0.01
45 3 0.01
46 2 0.01
47 26 0.11
48 26 0.11
49 2 0.01
50 4 0.02
52 2 0.01
53 3 0.01
54 169 0.70
55 1 0.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:8741784 original size:22 final size:22
Alignment explanation
Indices: 8741735--8741783 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8741725 ATAAATTATT
**
8741735 TAAAATAAATCAATCAATATTT
1 TAAAATAAATCAATCAATATAA
*
8741757 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCAATA-TAA
8741780 TAAA
1 TAAA
8741784 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:8741803 original size:22 final size:22
Alignment explanation
Indices: 8741778--8741824 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
8741768 AATCCATACT
8741778 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
8741800 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
8741822 AAT
1 AAT
8741825 CCATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:8741829 original size:22 final size:22
Alignment explanation
Indices: 8741787--8741829 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8741777 TAATAAATTA
8741787 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
8741809 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATACATA
8741830 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:8741838 original size:22 final size:22
Alignment explanation
Indices: 8741789--8741837 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8741779 ATAAATTATT
**
8741789 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
8741811 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATACATA-TAA
8741834 TAAA
1 TAAA
8741838 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:8741867 original size:22 final size:22
Alignment explanation
Indices: 8741841--8741978 Score: 78
Period size: 22 Copynumber: 6.0 Consensus size: 22
8741831 TAATAAATTA
*
8741841 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
*
8741863 TTTAAAACAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
8741886 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
* *
8741910 TTTAAAATAAATCAATCTATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
8741935 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
*
8741958 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
8741979 CTAATAAATT
Statistics
Matches: 82, Mismatches: 27, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
22 35 0.43
23 15 0.18
24 12 0.15
25 6 0.07
26 14 0.17
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:8741905 original size:14 final size:15
Alignment explanation
Indices: 8741886--8741921 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
8741876 AATCCATACT
8741886 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
8741900 AATAAATTATTTTAA
1 AATAAATTATTTTAA
8741915 AATAAAT
1 AATAAAT
8741922 CAATCTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:8742077 original size:32 final size:30
Alignment explanation
Indices: 8742038--8742135 Score: 95
Period size: 32 Copynumber: 3.4 Consensus size: 30
8742028 CAGTCCATAT
*
8742038 TTTAAAATAAATTAATCTGTACTAATAAATTA
1 TTTAAAATAAATCAATC--TACTAATAAATTA
8742070 TTTAAAATAAATCAA--T-C-AAT--A-T-
1 TTTAAAATAAATCAATCTACTAATAAATTA
8742092 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAAT-C-TACTAATAAATTA
8742124 TTTAAAATAAAT
1 TTTAAAATAAAT
8742136 TATTTTAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 20
0.72 0.01 0.26
Matches are distributed among these distances:
22 15 0.27
23 1 0.02
24 1 0.02
26 4 0.07
27 2 0.04
28 4 0.07
30 1 0.02
31 1 0.02
32 26 0.47
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (30 bp):
TTTAAAATAAATCAATCTACTAATAAATTA
Found at i:8742083 original size:54 final size:54
Alignment explanation
Indices: 8742021--8742135 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
8742011 CAACTACAAT
* * * **
8742021 AATAAATCAGTCCATATTTTAAAATAAATTAATCTGTACTAATAAATTATTTAA
1 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
8742075 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
8742129 AATAAAT
1 AATAAAT
8742136 TATTTTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (54 bp):
AATAAATCAATCAATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:8742095 original size:22 final size:22
Alignment explanation
Indices: 8742070--8742170 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
8742060 TAATAAATTA
8742070 TTTAAAATAAATCAATCAATAT
1 TTTAAAATAAATCAATCAATAT
*
8742092 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCAATA-T
** * ** * *
8742115 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCAA-TAT
*
8742139 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCAATAT
*
8742161 TTTATAATAA
1 TTTAAAATAA
8742171 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCAATAT
Found at i:8742144 original size:15 final size:15
Alignment explanation
Indices: 8742115--8742202 Score: 70
Period size: 15 Copynumber: 5.5 Consensus size: 15
8742105 AATCCATACT
8742115 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
8742129 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
8742144 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
8742166 AATAATTTATTTTAA
1 AATAAATTATTTTAA
**
8742181 AATATTTTATTTTAA
1 AATAAATTATTTTAA
8742196 AATAAAT
1 AATAAAT
8742203 AACCTTATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.15
15 34 0.57
17 1 0.02
18 2 0.03
19 3 0.05
20 1 0.02
22 10 0.17
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:8742202 original size:52 final size:47
Alignment explanation
Indices: 8742089--8742225 Score: 149
Period size: 52 Copynumber: 2.9 Consensus size: 47
8742079 AATCAATCAA
*
8742089 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
* **
8742136 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATATTT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAATTA-TTTAAAATAAAT
*
8742188 TATTTTAAAATAAAT-AA-CC-T--TATTAAATTATTTAAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAAT
8742226 TATTTTAATA
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
42 8 0.10
43 8 0.10
47 24 0.30
49 1 0.01
50 2 0.03
51 11 0.14
52 25 0.32
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.45
Consensus pattern (47 bp):
TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
Found at i:8744315 original size:17 final size:17
Alignment explanation
Indices: 8744293--8744327 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8744283 ATCATCTTAA
*
8744293 TTAAATTATTTTATATT
1 TTAAATAATTTTATATT
8744310 TTAAATAATTTTATATT
1 TTAAATAATTTTATATT
8744327 T
1 T
8744328 CTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAAATAATTTTATATT
Found at i:8750761 original size:22 final size:22
Alignment explanation
Indices: 8750725--8750784 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
8750715 ACTGAGCTAC
*
8750725 TAAAATATATATATTAAAAAT-T
1 TAAAAT-TAAATATTAAAAATAT
**
8750747 TAAAATTAAATTATTATTAATAT
1 TAAAATTAAA-TATTAAAAATAT
*
8750770 TAACATTAAATATTA
1 TAAAATTAAATATTA
8750785 TTTTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATTAAATATTAAAAATAT
Found at i:8750794 original size:22 final size:23
Alignment explanation
Indices: 8750745--8750796 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
8750735 ATATTAAAAA
8750745 TTTAAAATTAAATTATTATTAAT
1 TTTAAAATTAAATTATTATTAAT
* * **
8750768 ATTAACATTAAA-TATTATTTTT
1 TTTAAAATTAAATTATTATTAAT
8750790 TTTAAAA
1 TTTAAAA
8750797 ATACAATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAAAATTAAATTATTATTAAT
Found at i:8751461 original size:7 final size:7
Alignment explanation
Indices: 8751449--8751484 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
8751439 GGTCTCGTCT
8751449 CATATCC
1 CATATCC
8751456 CATATCC
1 CATATCC
8751463 CATATCC
1 CATATCC
8751470 CATATCC
1 CATATCC
8751477 CATATCC
1 CATATCC
8751484 C
1 C
8751485 TGGGTTCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
CATATCC
Found at i:8754313 original size:14 final size:14
Alignment explanation
Indices: 8754286--8754325 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
8754276 AATAAGAGAT
8754286 TAAAAATAAAATAA
1 TAAAAATAAAATAA
8754300 TAAAAAT--AAT-A
1 TAAAAATAAAATAA
8754311 TAAAAATAAACATAA
1 TAAAAATAAA-ATAA
8754326 AATTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.36
12 3 0.14
13 1 0.05
14 9 0.41
15 1 0.05
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAATAA
Found at i:8754385 original size:14 final size:14
Alignment explanation
Indices: 8754350--8754379 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8754340 CAAGTTACAT
8754350 AAATTATTTTCTGA
1 AAATTATTTTCTGA
*
8754364 AAATTATTTTTTGA
1 AAATTATTTTCTGA
8754378 AA
1 AA
8754380 TCTATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (14 bp):
AAATTATTTTCTGA
Found at i:8767050 original size:2 final size:2
Alignment explanation
Indices: 8767038--8767076 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
8767028 GTCTAATCAA
*
8767038 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8767077 ATTAGTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8767576 original size:20 final size:18
Alignment explanation
Indices: 8767551--8767590 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
8767541 TAATAAATTA
8767551 TAAATTTAGTTTTTATATTT
1 TAAATTTA-TTTTT-TATTT
8767571 TAAATTTATTTTTTATTT
1 TAAATTTATTTTTTATTT
8767589 TA
1 TA
8767591 TATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 5 0.25
20 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TAAATTTATTTTTTATTT
Found at i:8767597 original size:20 final size:21
Alignment explanation
Indices: 8767548--8767597 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
8767538 TTATAATAAA
8767548 TTATAAATTTAGTTTTTATATT
1 TTAT-AATTTAGTTTTTATATT
8767570 TTA-AATTTA-TTTTT-TATT
1 TTATAATTTAGTTTTTATATT
8767588 TTATATATTT
1 TTATA-ATTT
8767598 TTAGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.27
19 6 0.23
20 10 0.38
22 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTATAATTTAGTTTTTATATT
Found at i:8778863 original size:2 final size:2
Alignment explanation
Indices: 8778856--8778895 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8778846 GGTATTGGTG
8778856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8778896 CTGTAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8779258 original size:29 final size:27
Alignment explanation
Indices: 8779219--8779286 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
8779209 TTATAATTTT
*
8779219 TTTTTAATTATAATAATTTATTTTTATAA
1 TTTTAAATTATAATAA-TTA-TTTTATAA
** *
8779248 TTTTAAATTATTTTAATTATTTTATCA
1 TTTTAAATTATAATAATTATTTTATAA
8779275 TTTTATAATTAT
1 TTTTA-AATTAT
8779287 TTAAGTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 12 0.35
28 9 0.26
29 13 0.38
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTAAATTATAATAATTATTTTATAA
Found at i:8779289 original size:27 final size:29
Alignment explanation
Indices: 8779240--8779300 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
8779230 AATAATTTAT
8779240 TTTTATAATTTTAAATTATTTTAA-T-TA
1 TTTTATAATTTTAAATTATTTTAAGTATA
*
8779267 TTTTATCATTTTATAATTA-TTTAAGTATA
1 TTTTATAATTTTA-AATTATTTTAAGTATA
8779296 TTTTA
1 TTTTA
8779301 ATTTTTAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 17 0.57
28 6 0.20
29 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTATAATTTTAAATTATTTTAAGTATA
Found at i:8779302 original size:19 final size:19
Alignment explanation
Indices: 8779256--8779307 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
8779246 AATTTTAAAT
*
8779256 TATTTTAATTATTTTATCA
1 TATTTTAATTATTTAATCA
8779275 T-TTTATAATTATTTAAGT-A
1 TATTT-TAATTATTTAA-TCA
8779294 TATTTTAATT-TTTA
1 TATTTTAATTATTTA
8779308 GTTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 18 0.62
20 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTAATTATTTAATCA
Found at i:8779516 original size:2 final size:2
Alignment explanation
Indices: 8779509--8779556 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8779499 ATTGTACACA
8779509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8779551 AT AT AT
1 AT AT AT
8779557 CTAAAATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8782405 original size:25 final size:25
Alignment explanation
Indices: 8782363--8782410 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8782353 ATAAAGACAT
*
8782363 AAAAATAAATATTATAAGAATATAA
1 AAAAATAAAAATTATAAGAATATAA
* *
8782388 AAAAATAAAAATTGTAAGCATAT
1 AAAAATAAAAATTATAAGAATAT
8782411 TTATTTAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAAATAAAAATTATAAGAATATAA
Found at i:8782530 original size:34 final size:34
Alignment explanation
Indices: 8782486--8782567 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
8782476 GAAATACCTG
* * * *
8782486 ACATTTATACATAGAACTTCAATCAAGATAAGTT
1 ACATTAATACAAACAACTTCAATCAAGACAAGTT
*
8782520 ACATTAATACAAACTACTTCAATCAAGACAAGTT
1 ACATTAATACAAACAACTTCAATCAAGACAAGTT
*
8782554 ACATTAATATAAAC
1 ACATTAATACAAAC
8782568 TTTGAAGACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (34 bp):
ACATTAATACAAACAACTTCAATCAAGACAAGTT
Found at i:8782568 original size:34 final size:34
Alignment explanation
Indices: 8782501--8782568 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
8782491 TATACATAGA
*
8782501 ACTTCAATCAAGATAAGTTACATTAATACAAACT
1 ACTTCAATCAAGACAAGTTACATTAATACAAACT
*
8782535 ACTTCAATCAAGACAAGTTACATTAATATAAACT
1 ACTTCAATCAAGACAAGTTACATTAATACAAACT
8782569 TTGAAGACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (34 bp):
ACTTCAATCAAGACAAGTTACATTAATACAAACT
Found at i:8784195 original size:21 final size:20
Alignment explanation
Indices: 8784122--8784196 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
8784112 CAGTTTCCAG
* * *
8784122 ATTCGCAACGCGATTATGACT
1 ATTCGCAATGCGATT-TTACA
8784143 A-TCGCAATGCGATTTTACA
1 ATTCGCAATGCGATTTTACA
** *
8784162 ATTCCGCGTTGCGATTTTCCCA
1 ATT-CGCAATGCGATTTT-ACA
8784184 ATTCGCAATGCGA
1 ATTCGCAATGCGA
8784197 ATAAGTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.09
20 13 0.30
21 21 0.49
22 5 0.12
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (20 bp):
ATTCGCAATGCGATTTTACA
Found at i:8784211 original size:20 final size:21
Alignment explanation
Indices: 8784186--8784237 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8784176 TTTTCCCAAT
*
8784186 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
8784206 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
8784227 TCGCAATGCGA
1 TCGCAATGCGA
8784238 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:8784250 original size:41 final size:42
Alignment explanation
Indices: 8784205--8784298 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 42
8784195 GAATAAGTAA
* ** *
8784205 ATCGCAATGCGAAT-TTGGAAAATCGCAATGCGATACTGACT
1 ATCGCAATGCGAATAATACAAAATCGCAACGCGATACTGACT
*
8784246 ATCGCAACGCG-ATAATACAAAATCGCAACGCGATACTGACT
1 ATCGCAATGCGAATAATACAAAATCGCAACGCGATACTGACT
*
8784287 TTCGCAATGCGA
1 ATCGCAATGCGA
8784299 TTCTGACTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
ATCGCAATGCGAATAATACAAAATCGCAACGCGATACTGACT
Found at i:8784251 original size:20 final size:20
Alignment explanation
Indices: 8784226--8784335 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
8784216 AATTTGGAAA
*
8784226 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
8784246 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
8784267 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
8784287 TTCGCAATGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
8784307 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
8784327 TTCGCAACG
1 ATCGCAACG
8784336 AGATTCTGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.03
20 59 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:8784299 original size:41 final size:42
Alignment explanation
Indices: 8784223--8784335 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 42
8784213 GCGAATTTGG
* *
8784223 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-AC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
* **
8784264 AAAATCGCAACGCGATACTGACTTTCGCAATGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
** *
8784306 --TTTCGCAACGCGATTCTGACTTTCGCAACG
1 AAAATCGCAACGCGATACTGACTTTCGCAACG
8784336 AGATTCTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 26 0.42
41 34 0.55
42 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
Found at i:8784340 original size:20 final size:20
Alignment explanation
Indices: 8784268--8784344 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
8784258 TAATACAAAA
*
8784268 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
8784288 TCGCAATGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
8784308 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
8784328 TCGCAACGAGATTCTGA
1 TCGCAACGCGATTCTGA
8784345 AATTCACAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:8784592 original size:20 final size:20
Alignment explanation
Indices: 8784567--8784662 Score: 183
Period size: 20 Copynumber: 4.8 Consensus size: 20
8784557 CAACGGGGAA
8784567 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
8784587 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
8784607 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
8784627 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
8784647 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
8784663 CGCAATGCGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:8784594 original size:34 final size:36
Alignment explanation
Indices: 8784551--8784638 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
8784541 ATTCATTTGA
8784551 CTATCGCAACG-G-GGAAATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAGGAAATCGCAACGCGAAAATGG
**
8784585 CTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAATGG
1 CTATCGCAACGCG---A-GGAAATCGCAACGCGAAAATGG
8784625 CTATCGCAACGCGA
1 CTATCGCAACGCGA
8784639 AAATGGCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
34 11 0.24
35 1 0.02
37 1 0.02
40 33 0.72
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.14
Consensus pattern (36 bp):
CTATCGCAACGCGAGGAAATCGCAACGCGAAAATGG
Found at i:8784724 original size:34 final size:34
Alignment explanation
Indices: 8784681--8784760 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
8784671 GAAATGAAAA
* * *
8784681 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
* *
8784715 TCGCGTTGCGATTCTCTCGTTGCGATTGTCAGTT
1 TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
*
8784749 TCGTGTTGCGAT
1 TCGCGTTGCGAT
8784761 AGTTTGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.11, C:0.23, G:0.25, T:0.41
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCGATAGCCAGTT
Found at i:8786355 original size:41 final size:42
Alignment explanation
Indices: 8786310--8786401 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
8786300 CCTCTTCAAC
* *
8786310 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
8786351 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
8786393 GATGACAGG
1 GATGACAGG
8786402 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:8786366 original size:21 final size:21
Alignment explanation
Indices: 8786337--8786397 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
8786327 GAACGGTGGG
*
8786337 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
8786358 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
8786379 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
8786398 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:8786763 original size:20 final size:20
Alignment explanation
Indices: 8786738--8786776 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8786728 GAATAATAGT
8786738 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
8786758 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
8786777 ATGGCTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:8786805 original size:19 final size:18
Alignment explanation
Indices: 8786783--8786879 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 18
8786773 GAAAATGGCT
8786783 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAT-AAA
8786802 ATCGCAA--CG-AA-AAA
1 ATCGCAATGCGAAATAAA
*
8786816 ATCACAATGCGAAATAAAA
1 ATCGCAATGCGAAAT-AAA
*
8786835 ATCGCAA--CG--ACAAA
1 ATCGCAATGCGAAATAAA
* *
8786849 ATCGCAACGCGAAACACAA
1 ATCGCAATGCGAAATA-AA
8786868 ATCGCAATGCGA
1 ATCGCAATGCGA
8786880 TTTGTGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 19 0.30
15 1 0.02
16 6 0.09
17 6 0.09
18 3 0.05
19 29 0.45
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.11
Consensus pattern (18 bp):
ATCGCAATGCGAAATAAA
Found at i:8786818 original size:14 final size:14
Alignment explanation
Indices: 8786799--8786857 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
8786789 ATGCGAAATG
8786799 AAAATCGCAACGAA
1 AAAATCGCAACGAA
*
8786813 AAAATCACAATGCGAAATA
1 AAAATCGCAA--CG--A-A
*
8786832 AAAATCGCAACGAC
1 AAAATCGCAACGAA
8786846 AAAATCGCAACG
1 AAAATCGCAACG
8786858 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.54, C:0.22, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:8786825 original size:33 final size:33
Alignment explanation
Indices: 8786787--8786874 Score: 122
Period size: 33 Copynumber: 2.7 Consensus size: 33
8786777 ATGGCTATCG
*
8786787 CAATGCGAAATGAAAATCGCAACGAAAAAATCA
1 CAATGCGAAATAAAAATCGCAACGAAAAAATCA
* *
8786820 CAATGCGAAATAAAAATCGCAACGACAAAATCG
1 CAATGCGAAATAAAAATCGCAACGAAAAAATCA
* * *
8786853 CAACGCGAAACACAAATCGCAA
1 CAATGCGAAATAAAAATCGCAA
8786875 TGCGATTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.52, C:0.23, G:0.15, T:0.10
Consensus pattern (33 bp):
CAATGCGAAATAAAAATCGCAACGAAAAAATCA
Found at i:8786891 original size:19 final size:19
Alignment explanation
Indices: 8786869--8786911 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
8786859 GAAACACAAA
*
8786869 TCGCAATGCGATTTGTGTT
1 TCGCAATGCGATTTGTATT
** *
8786888 TCGCGTTGCGATTTTTATT
1 TCGCAATGCGATTTGTATT
8786907 TCGCA
1 TCGCA
8786912 TTACGATAGC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCAATGCGATTTGTATT
Found at i:8786926 original size:19 final size:20
Alignment explanation
Indices: 8786904--8786946 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8786894 TGCGATTTTT
8786904 ATTT-CGCATTACGATAGCC
1 ATTTCCGCATTACGATAGCC
* * *
8786923 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTACGATAGCC
8786943 ATTT
1 ATTT
8786947 TCGTGTTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTACGATAGCC
Found at i:8787492 original size:18 final size:18
Alignment explanation
Indices: 8787469--8787516 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
8787459 CGGGTCGATC
8787469 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
8787487 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
8787505 AGGTGATGGCTC
1 AGGTGATGGCTC
8787517 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:8788884 original size:20 final size:20
Alignment explanation
Indices: 8788836--8788894 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
8788826 AATAGTTTCT
* *
8788836 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
8788856 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
8788876 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
8788895 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:8789183 original size:22 final size:22
Alignment explanation
Indices: 8789157--8789200 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8789147 GATTGAGATA
8789157 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
8789179 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
8789201 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:8789415 original size:20 final size:20
Alignment explanation
Indices: 8789387--8789456 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
8789377 GATTATGTAT
*
8789387 TATCTCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
* *
8789407 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTACGAAAGTCAG
8789427 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
8789447 TATCGCGTTA
1 TATCGCGTTA
8789457 TGATTTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGCGTTACGAAAGTCAG
Found at i:8789442 original size:40 final size:41
Alignment explanation
Indices: 8789387--8789500 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
8789377 GATTATGTAT
*
8789387 TATCTCGTTACGAAAGTCAGTATCGCGTTGCGAAAGTA-AG
1 TATCGCGTTACGAAAGTCAGTATCGCGTTGCGAAAGTATAG
** *** *
8789427 TATCGCGTTACGAAAGTCAGTATCGCGTTATGATTTTATAT
1 TATCGCGTTACGAAAGTCAGTATCGCGTTGCGAAAGTATAG
* * *
8789468 TATCGCGTTGCGATAGTCAGTATTGCGTTGCGA
1 TATCGCGTTACGAAAGTCAGTATCGCGTTGCGA
8789501 TTTTCCAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 32 0.52
41 29 0.48
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TATCGCGTTACGAAAGTCAGTATCGCGTTGCGAAAGTATAG
Found at i:8789497 original size:20 final size:20
Alignment explanation
Indices: 8789387--8789501 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
8789377 GATTATGTAT
* * *
8789387 TATCTCGTTACGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
8789407 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* *
8789427 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
** ** * *
8789447 TATCGCGTTATGATTTTATAT
1 TATCGCGTTGCGATAGT-CAG
8789468 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
8789488 TATTGCGTTGCGAT
1 TATCGCGTTGCGAT
8789502 TTTCCAAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
20 62 0.82
21 14 0.18
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:8789503 original size:41 final size:41
Alignment explanation
Indices: 8789367--8789504 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
8789357 CGCTTTGAAA
* * * *
8789367 ATCGCATTGCGATTATGTATTATCTCGTTACGAAAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTACGAAAGTCAGT
*** *
8789408 ATCGCGTTGCGAAAGTA-AGTATCGCGTTACGAAAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTACGAAAGTCAGT
** * *
8789448 ATCGCGTTATGATTTTATATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTATATTATCGCGTTACGAAAGTCAGT
*
8789489 ATTGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
8789505 CCAAATTTGC
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 33 0.42
41 45 0.58
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTATATTATCGCGTTACGAAAGTCAGT
Found at i:8789519 original size:21 final size:21
Alignment explanation
Indices: 8789490--8789545 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
8789480 ATAGTCAGTA
*
8789490 TTGCGTTGCGATTTTCCAAAT
1 TTGCATTGCGATTTTCCAAAT
8789511 TTGCATTGCGATTTTCCAAAT
1 TTGCATTGCGATTTTCCAAAT
*
8789532 TCGCATTGCGATTT
1 TTGCATTGCGATTT
8789546 ACTTATTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (21 bp):
TTGCATTGCGATTTTCCAAAT
Found at i:8789604 original size:21 final size:22
Alignment explanation
Indices: 8789555--8789604 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
8789545 TACTTATTCA
8789555 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
**
8789576 CAACGCGAAATT-GGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
8789597 CATTGCGA
1 CATTGCGA
8789605 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCG
Found at i:8791911 original size:28 final size:28
Alignment explanation
Indices: 8791879--8791961 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
8791869 CTCTATTTAT
*
8791879 ATTATGTCGTCAAGCCAGTTCTTGAAAC
1 ATTATGTTGTCAAGCCAGTTCTTGAAAC
* ** *
8791907 ATTATGTTATCGGGCCAGTTCTTAAAAC
1 ATTATGTTGTCAAGCCAGTTCTTGAAAC
* * *
8791935 ATTATGTTGTCCAGCAAGTTTTTGAAA
1 ATTATGTTGTCAAGCCAGTTCTTGAAA
8791962 GTAACGACAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (28 bp):
ATTATGTTGTCAAGCCAGTTCTTGAAAC
Found at i:8793651 original size:35 final size:32
Alignment explanation
Indices: 8793585--8793681 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 32
8793575 ATTTAGTAAA
*** *
8793585 TTAAATAAATAAGTATAGATAATTCTTTTTAT
1 TTAAATAAATAAGTATAGATAAAAATGTTTAT
*
8793617 TTATAATCCTAATAAGTATAGATAAAAATGTTTAT
1 TTA-AAT--AAATAAGTATAGATAAAAATGTTTAT
*
8793652 TTAAATAAATAAGTAAAGATAAAAAATGTT
1 TTAAATAAATAAGTATAGAT-AAAAATGTT
8793682 CGAAGAAGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
32 15 0.28
33 12 0.22
34 3 0.06
35 24 0.44
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (32 bp):
TTAAATAAATAAGTATAGATAAAAATGTTTAT
Found at i:8808177 original size:28 final size:27
Alignment explanation
Indices: 8808138--8808202 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 27
8808128 ATAAGGTTCT
8808138 ATTGATTGTGTAAATTCAGGATTTCAA
1 ATTGATTGTGTAAATTCAGGATTTCAA
*
8808165 ATTGATCTGTGTAAATTTAGGATTTCAA
1 ATTGAT-TGTGTAAATTCAGGATTTCAA
*
8808193 GTTGAATTGT
1 ATTG-ATTGT
8808203 ACAACTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 6 0.18
28 26 0.76
29 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTGATTGTGTAAATTCAGGATTTCAA
Found at i:8811839 original size:11 final size:11
Alignment explanation
Indices: 8811823--8811870 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
8811813 AATTTTTTTC
8811823 AAATAATTATA
1 AAATAATTATA
*
8811834 AAATAATTATT
1 AAATAATTATA
* *
8811845 AAATTATTTTA
1 AAATAATTATA
*
8811856 AAATAATTATT
1 AAATAATTATA
8811867 AAAT
1 AAAT
8811871 TATATTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAATAATTATA
Found at i:8811860 original size:33 final size:33
Alignment explanation
Indices: 8811775--8811870 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
8811765 AATAATTTTT
* *
8811775 TAATTATTAAA--A-TTTAAAA-AGTTACAAAA
1 TAATTATTAAATTATTTTAAAATAATTATAAAA
* * * *
8811804 TAATCATTTAATTTTTTTCAAATAATTATAAAA
1 TAATTATTAAATTATTTTAAAATAATTATAAAA
*
8811837 TAATTATTAAATTATTTTAAAATAATTATTAAA
1 TAATTATTAAATTATTTTAAAATAATTATAAAA
8811870 T
1 T
8811871 TATATTTAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 9 0.17
32 6 0.12
33 37 0.71
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (33 bp):
TAATTATTAAATTATTTTAAAATAATTATAAAA
Found at i:8811880 original size:33 final size:33
Alignment explanation
Indices: 8811787--8811882 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
8811777 ATTATTAAAA
* * *
8811787 TTTAAAA-AGTTACAAAATAATCATTT-AATTTT
1 TTTAAAATAATTATAAAATAAT-ATTTAAATTAT
*
8811819 TTTCAAATAATTATAAAATAAT-TATTAAATTAT
1 TTTAAAATAATTATAAAATAATAT-TTAAATTAT
* *
8811852 TTTAAAATAATTATTAAATTATATTTAAATT
1 TTTAAAATAATTATAAAATAATATTTAAATT
8811883 TATCACTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
31 1 0.02
32 8 0.15
33 43 0.81
34 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (33 bp):
TTTAAAATAATTATAAAATAATATTTAAATTAT
Found at i:8811881 original size:22 final size:22
Alignment explanation
Indices: 8811823--8811880 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
8811813 AATTTTTTTC
* *
8811823 AAATAATTATAAAATAATTATT
1 AAATTATTTTAAAATAATTATT
8811845 AAATTATTTTAAAATAATTATT
1 AAATTATTTTAAAATAATTATT
8811867 AAATTATATTTAAA
1 AAATTAT-TTTAAA
8811881 TTTATCACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTATTTTAAAATAATTATT
Found at i:8812465 original size:20 final size:20
Alignment explanation
Indices: 8812442--8812504 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
8812432 AACCAATTTA
8812442 TTTTATACACCCAACATTGT
1 TTTTATACACCCAACATTGT
8812462 TTTTAATTA-A-CC-A-ATT-T
1 TTTT-A-TACACCCAACATTGT
8812479 ATTTTATACACCCAACATTGT
1 -TTTTATACACCCAACATTGT
8812500 TTTTA
1 TTTTA
8812505 AGATTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 9 0.26
19 2 0.06
20 14 0.40
21 3 0.09
22 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTTATACACCCAACATTGT
Found at i:8812478 original size:38 final size:38
Alignment explanation
Indices: 8812430--8812505 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8812420 TTTTTAATAC
8812430 TTAACCAATTTATTTTATACACCCAACATTGTTTTTAA
1 TTAACCAATTTATTTTATACACCCAACATTGTTTTTAA
8812468 TTAACCAATTTATTTTATACACCCAACATTGTTTTTAA
1 TTAACCAATTTATTTTATACACCCAACATTGTTTTTAA
8812506 GATTATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (38 bp):
TTAACCAATTTATTTTATACACCCAACATTGTTTTTAA
Found at i:8812493 original size:18 final size:18
Alignment explanation
Indices: 8812434--8812493 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
8812424 TAATACTTAA
8812434 CCAATTTATTTTATACAC
1 CCAATTTATTTTATACAC
8812452 CCAACATTGT-TTTTAATTA-A-
1 CC-A-ATT-TATTTT-A-TACAC
8812472 CCAATTTATTTTATACAC
1 CCAATTTATTTTATACAC
8812490 CCAA
1 CCAA
8812494 CATTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 13 0.38
19 2 0.06
20 9 0.26
21 3 0.09
22 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (18 bp):
CCAATTTATTTTATACAC
Found at i:8818073 original size:34 final size:34
Alignment explanation
Indices: 8818031--8818096 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
8818021 ACTATAAAAG
*
8818031 AAAGGTAAATTTGAAACAATATTTCAACCTTACA
1 AAAGGTAAATTTGAAACAATATTACAACCTTACA
*
8818065 AAAGGTAAATTTGAATCAATATTACAACCTTA
1 AAAGGTAAATTTGAAACAATATTACAACCTTA
8818097 GAACCTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (34 bp):
AAAGGTAAATTTGAAACAATATTACAACCTTACA
Found at i:8818466 original size:2 final size:2
Alignment explanation
Indices: 8818461--8818485 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8818451 TCTATCCATC
8818461 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8818486 TTCCAGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8821709 original size:30 final size:30
Alignment explanation
Indices: 8821674--8821730 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
8821664 GTGTATGTTT
*
8821674 GAGAGAGTTGAAAATAGAGCCTAAGAGAAA
1 GAGAGAGTTCAAAATAGAGCCTAAGAGAAA
8821704 GAGAGAGTTCAAAATAGAGCCTAAGAG
1 GAGAGAGTTCAAAATAGAGCCTAAGAG
8821731 GTCATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (30 bp):
GAGAGAGTTCAAAATAGAGCCTAAGAGAAA
Found at i:8837349 original size:3 final size:3
Alignment explanation
Indices: 8837333--8837388 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
8837323 TTATCGTATA
* * *
8837333 ATT ATT -TT -TT ATT ATT ATT ATT ATT ATT ATT GTT AAT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8837379 AATT A-T ATT A
1 -ATT ATT ATT A
8837389 ATGATTTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8838150 original size:22 final size:22
Alignment explanation
Indices: 8838122--8838167 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
8838112 AGAGAAGATC
8838122 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
8838144 TGCCTAGTGGAGGGAGCAGTGG
1 TGCCTAGTGGAGGGAGCAGTGG
8838166 TG
1 TG
8838168 GAAATTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.50, T:0.20
Consensus pattern (22 bp):
TGCCTAGTGGAGGGAGCAGTGG
Found at i:8838449 original size:19 final size:20
Alignment explanation
Indices: 8838426--8838484 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
8838416 TTCTTTGTTA
8838426 TTTATT-ATATTTATTTTTT
1 TTTATTAATATTTATTTTTT
8838445 CTTATATTAATATTT-TTTTCTT
1 -TT-TATTAATATTTATTTT-TT
*
8838467 TTT-TTCATATTTATTTTT
1 TTTATTAATATTTATTTTT
8838485 ACTTTACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 10 0.29
22 8 0.24
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTAATATTTATTTTTT
Found at i:8838451 original size:16 final size:17
Alignment explanation
Indices: 8838430--8838462 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8838420 TTGTTATTTA
8838430 TTATATT-TATTTTTTC
1 TTATATTATATTTTTTC
8838446 TTATATTAATATTTTTT
1 TTATATT-ATATTTTTT
8838463 TCTTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTATATTTTTTC
Found at i:8838489 original size:22 final size:21
Alignment explanation
Indices: 8838426--8838489 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
8838416 TTCTTTGTTA
8838426 TTTATT-ATATTTATTTTTTCT
1 TTTATTAATATTTA-TTTTTCT
*
8838447 TATATTAATA-TT-TTTTTCT
1 TTTATTAATATTTATTTTTCT
* *
8838466 TTTTTTCATATTTATTTTTACT
1 TTTATTAATATTTATTTTT-CT
8838488 TT
1 TT
8838490 ACAATCTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 14 0.40
20 2 0.06
21 12 0.34
22 7 0.20
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTAATATTTATTTTTCT
Found at i:8842524 original size:106 final size:106
Alignment explanation
Indices: 8842387--8844027 Score: 2446
Period size: 106 Copynumber: 15.6 Consensus size: 106
8842377 AAAAGTTGTC
* * *
8842387 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8842452 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
8842493 TGTCAATAACCAACTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
8842558 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
8842599 TGTCAATAACCAACATCTCAAATTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
8842664 AGACAACGTAAGTTCAACTTCACGACAAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
8842705 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
8842770 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
8842811 TTTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8842876 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
8842917 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
8842982 AGACAACGTAAGTTCAACTTCACGACAAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
8843023 TGTCAATAACCAACTTCTCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
8843088 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
8843129 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8843194 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
8843235 TGTCAATAACCAACTTCTTAATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCT
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8843300 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* ** * * * * *
8843341 TGTCAATAAACAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCT
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8843406 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* ** * * *
8843447 TGTCAATAAACAGTTTC-CTAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTC
1 TGTCAATAACCAACTTCTC-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
8843511 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* ** * * * * *
8843553 TGTCAATAAACAGTTTCCCAATCTCAGGGCCGATTTCAACTTCACAACGAAGGATATTGGACTCT
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8843618 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * * * *
8843659 TGTCAATAAACAATTTCCCAATTTTAGAGCCAATTTCAACTTCTCAGCAAAAGATATTGGACTCC
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
8843724 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * *
8843765 TGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCGACTTCTCAGCGAAGGATCTTGGAC-CT
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC-
* * * * * *
8843829 AAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGAT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * * *
8843871 TGTCAACAA--AA-TT-T-TA-TTCAAAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCG
1 TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * *
8843930 AGACAGCACAAGTTCAACTTCACAAACGAAGGGA-CGATTGGT
66 AGACAACGCAAGTTCAACTTCAC-GACGAAGGGACCG-CTGGT
* * * *
8843972 TGTC---AACAAACTT-TCCAGTTTC-GAAGGCAATTTCAACTTCACAGCGAAGGATATTG
1 TGTCAATAACCAACTTCT-CAATTTCAG-AGCCAATTTCAACTTCACAACGAAGGATATTG
8844028 ACATCGAAAC
Statistics
Matches: 1441, Mismatches: 81, Indels: 28
0.93 0.05 0.02
Matches are distributed among these distances:
98 2 0.00
100 58 0.04
101 20 0.01
103 2 0.00
104 35 0.02
105 2 0.00
106 1321 0.92
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TGTCAATAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:8845427 original size:21 final size:20
Alignment explanation
Indices: 8845366--8845428 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
8845356 TTCTTTGTTA
8845366 TTTATT-ATATTTATTTTTC
1 TTTATTAATATTTATTTTTC
8845385 TTATATTAATA-TT-TTTTTC
1 TT-TATTAATATTTATTTTTC
* *
8845404 TTTTTTCATATTTATTTTTAC
1 TTTATTAATATTTATTTTT-C
8845425 TTTA
1 TTTA
8845429 CAATCTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 6 0.17
19 12 0.33
20 11 0.31
21 7 0.19
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTAATATTTATTTTTC
Found at i:8846240 original size:19 final size:19
Alignment explanation
Indices: 8846218--8846254 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8846208 TAATCATTGA
8846218 GGTATTGTCTAATCCTTAG
1 GGTATTGTCTAATCCTTAG
8846237 GGTATTGTCTAATCCTTA
1 GGTATTGTCTAATCCTTA
8846255 TTGTACGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (19 bp):
GGTATTGTCTAATCCTTAG
Found at i:8846634 original size:18 final size:18
Alignment explanation
Indices: 8846608--8846645 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8846598 AAGCAATAAA
* *
8846608 TAAATATAATGATTTGTT
1 TAAAAATAATAATTTGTT
8846626 TAAAAATAATAATTTGTT
1 TAAAAATAATAATTTGTT
8846644 TA
1 TA
8846646 TGACCAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
TAAAAATAATAATTTGTT
Found at i:8850107 original size:5 final size:5
Alignment explanation
Indices: 8850098--8850157 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
8850088 ATTGGATGAA
* * *
8850098 AAAAT GAAAT AAAAT AAAAT AAAAT -AAAT GAAGAT AAAAT ATATAT ATAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT A-AAAT
8850149 AAAAT AAAA
1 AAAAT AAAA
8850158 AAGGTAAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 7 0.16
5 28 0.62
6 10 0.22
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:8850259 original size:18 final size:17
Alignment explanation
Indices: 8850224--8850277 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 17
8850214 AATATAATGA
* *
8850224 AAATAAATAAATAGTAT
1 AAATAAATAAAAAATAT
8850241 AAATAAAATAAAAAATAT
1 AAAT-AAATAAAAAATAT
* *
8850259 ATATATAT-AAAAATAT
1 AAATAAATAAAAAATAT
8850275 AAA
1 AAA
8850278 AATGTATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 10 0.32
17 7 0.23
18 14 0.45
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:8850263 original size:22 final size:23
Alignment explanation
Indices: 8850215--8850280 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
8850205 GAAACTAAAA
*
8850215 ATAT-AATGAAAATAAATAAATA-
1 ATATAAATAAAAATAAA-AAATAT
*
8850237 GTATAAAT-AAAATAAAAAATAT
1 ATATAAATAAAAATAAAAAATAT
*
8850259 ATATATATAAAAATATAAAAAT
1 ATATAAATAAAAATA-AAAAAT
8850281 GTATGTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.14
22 17 0.46
23 9 0.24
24 6 0.16
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (23 bp):
ATATAAATAAAAATAAAAAATAT
Found at i:8850278 original size:24 final size:23
Alignment explanation
Indices: 8850215--8850289 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
8850205 GAAACTAAAA
*
8850215 ATATA-ATGAAAATAAATAAATAGT
1 ATATATATAAAAATAAA-AAATA-T
8850239 ATA-A-AT-AAAATAAAAAATAT
1 ATATATATAAAAATAAAAAATAT
*
8850259 ATATATATAAAAATATAAAAATGT
1 ATATATATAAAAATA-AAAAATAT
*
8850283 ATGTATA
1 ATATATA
8850290 ATATAATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 4 0.09
21 6 0.13
22 10 0.22
23 9 0.20
24 16 0.36
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (23 bp):
ATATATATAAAAATAAAAAATAT
Found at i:8850568 original size:23 final size:23
Alignment explanation
Indices: 8850534--8850580 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
8850524 ACGCAAAGAA
8850534 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
8850557 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
8850580 A
1 A
8850581 TATACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:8851092 original size:37 final size:37
Alignment explanation
Indices: 8850999--8851099 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
8850989 ATGATTGTGG
* ** ** * *
8850999 ATCTTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCTTATCTTTAGGAGTTTGAATCCTAACAAAACTAT
* *
8851036 ATCTTATTTTTAGGAGTTTGAATCCTAACAAAATTAT
1 ATCTTATCTTTAGGAGTTTGAATCCTAACAAAACTAT
8851073 ATCTTATCTTTAGGAGTTTGAATCCTA
1 ATCTTATCTTTAGGAGTTTGAATCCTA
8851100 GTAGGACGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCTTATCTTTAGGAGTTTGAATCCTAACAAAACTAT
Found at i:8852035 original size:106 final size:106
Alignment explanation
Indices: 8851853--8852988 Score: 1734
Period size: 106 Copynumber: 10.7 Consensus size: 106
8851843 AGCATTGTTC
* * * * * *
8851853 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
* * * *
8851918 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
8851959 CGAGTCCAATATCATTTGTTGTGAAGTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
8852024 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
8852065 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
* * *
8852130 ATCAGTGGTCCCTTCGTCGTGAAGTTGAAATTGCGTTGTC-
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
8852170 CGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC
1 C-GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAC
* * *
8852235 AACCAGCAGTCCCTTCGTCGTGAAGTTGAACTGGCGTTGCCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
8852277 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
*
8852342 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * ** * * *
8852383 GGAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCAGAAATTAGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
8852448 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
8852489 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
*
8852554 ACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
8852595 GGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
*
8852660 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
8852701 GGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
8852766 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
8852807 CGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
8852872 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * **
8852913 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGATGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
*
8852978 ACTAGCGGTCC
66 ACCAGCGGTCC
8852989 TTGCGTTATC
Statistics
Matches: 949, Mismatches: 79, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
105 1 0.00
106 948 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:8852229 original size:212 final size:212
Alignment explanation
Indices: 8851854--8853845 Score: 2882
Period size: 212 Copynumber: 9.5 Consensus size: 212
8851844 GCATTGTTCC
* * * * *
8851854 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * * *
8851919 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTC-GAGTCCAATATCATTTGTTGTGA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG-TCCGGAGTCCAATATCCTTCGCTGTGA
* * *
8851983 AGTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
8852048 TTGAACTTGCGTTGTCTC
195 TTGAACTTGCGTTGTCTG
* *
8852066 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
8852131 TCAGTGGTCCCTTCGTCGTGAAGTTGAAATTGCGTTGTCCGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
* *
8852196 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
8852261 TGAACTGGCGTTGCCTG
196 TGAACTTGCGTTGTCTG
*
8852278 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGACA
* * * *
8852342 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCTTTCACTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGA
* * * *
8852407 AGTTGAAATTGGCTCAGAAATTAGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
8852472 TTGAACTTGCGTTGTCTC
195 TTGAACTTGCGTTGTCTG
* * *
8852490 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8852555 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
* * *
8852620 GTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
8852685 TGAACTTGCATTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
8852702 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
8852767 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC-GAGTCCAATATTCTTCGCTGTGA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-CGGAGTCCAATATCCTTCGCTGTGA
*
8852831 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
8852896 TTGAACTTGCGTTGTCTG
195 TTGAACTTGCGTTGTCTG
* **
8852914 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGATGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
8852979 CTAGCGGT-CCTT-G-C-----GTT--A--T-C----T--GGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
** *
8853025 GTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
8853090 TGAACTTGCGTTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
8853107 GAGTCCAATATCTTTCGTTGTGAACTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8853172 CCATCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTC-GAGTCCAATATCATTCGCTGTGA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-CGGAGTCCAATATCCTTCGCTGTGA
* ** *
8853236 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTAACAACTGGCAGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
8853301 TTGAACTTGCGTTGTCTG
195 TTGAACTTGCGTTGTCTG
* * *
8853319 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8853384 CCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
* * *
8853449 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAACCAGCGGTCCCTTCGTCATGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
8853514 TGAACTTGCGTTGTCTT
196 TGAACTTGCGTTGTCTG
* * * * *
8853531 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGACTCTGAAATT-TGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * *
8853595 CCAGCGGTCCCTTCGTCATGAAATTGAACTTGCGCTGTCTGGAGTCCAATATCCTTCGTTGTAAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
* *
8853660 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCTTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
8853725 TGAACTTGTGTTGTCTG
196 TGAACTTGCGTTGTCTG
* * *
8853742 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
8853807 CCAGTC-GTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
8853846 TCAAGTGGCA
Statistics
Matches: 1601, Mismatches: 151, Indels: 56
0.89 0.08 0.03
Matches are distributed among these distances:
193 166 0.10
194 4 0.00
195 1 0.00
196 1 0.00
199 1 0.00
200 1 0.00
201 3 0.00
202 1 0.00
203 1 0.00
204 3 0.00
205 1 0.00
206 1 0.00
209 1 0.00
210 2 0.00
211 196 0.12
212 1216 0.76
213 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTG
Found at i:8852444 original size:318 final size:318
Alignment explanation
Indices: 8851854--8853846 Score: 2911
Period size: 318 Copynumber: 6.3 Consensus size: 318
8851844 GCATTGTTCC
* * * * *
8851854 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * * * * *
8851918 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTCGAGTCCAATATCATTTGTTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* *
8851983 AGTTGAAATTGGCTCCGAAGTTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * *
8852048 TTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGG
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * * *
8852113 GAAGTTGTTTGTTGACAATCAGTGGTCCCTTCGTCGTGAAGTTGAAATTGCGTTGTCCG
260 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
* *
8852172 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
8852237 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTGGCGTTGCCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
8852302 GTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
131 GTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * * * *
8852366 TTGAACTTGTGTTGTCTGGAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCAGAAATTAG
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
8852431 GAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC-
260 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-CG
*
8852490 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
8852555 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
8852620 GTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
8852685 TGAACTTGCATTGTCTGGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
8852750 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC-
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-CG
* *
8852808 GAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
8852873 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* ** *
8852938 GTTGAAATTGGCTCTGAAATTGAGATGTTGTTTGTTGACAACTAGCGGT-CCTT-G-C-----GT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
**
8852995 T--A---------TCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGGG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
8853049 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
* * * * *
8853107 GAGTCCAATATCTTTCGTTGTGAACTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
8853172 CCATCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCATTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * ** *
8853237 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTAACAACTGGCAGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
8853302 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * *
8853367 AAGTTGTTTGTTGAAAACCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
* * *
8853425 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
8853490 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTTGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * * * *
8853555 GTTGAAATTGACTCTGAAATT-TGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAAT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * *
8853619 TGAACTTGCGCTGTCTGGAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * *
8853684 AAGTTGTTTGTTGACAACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
261 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
* *
8853742 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
8853807 CCAGTC-GTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
8853847 CAAGTGGCAC
Statistics
Matches: 1531, Mismatches: 119, Indels: 51
0.90 0.07 0.03
Matches are distributed among these distances:
299 268 0.18
300 4 0.00
301 1 0.00
302 1 0.00
307 3 0.00
308 1 0.00
309 1 0.00
310 3 0.00
315 1 0.00
316 1 0.00
317 249 0.16
318 996 0.65
319 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (318 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCG
Found at i:8853056 original size:87 final size:87
Alignment explanation
Indices: 8852901--8853075 Score: 278
Period size: 87 Copynumber: 2.0 Consensus size: 87
8852891 TGAAGTTGAA
* * ** **
8852901 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGATGT
1 CTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGAGAAAT
*
8852966 TGTTTGTTGACAACTAGCGGTC
66 TGTTTGTTGACAACCAGCGGTC
*
8852988 CTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAAT
1 CTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGAGAAAT
8853053 TGTTTGTTGACAACCAGCGGTC
66 TGTTTGTTGACAACCAGCGGTC
8853075 C
1 C
8853076 CTTCGTCGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (87 bp):
CTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGAGAAAT
TGTTTGTTGACAACCAGCGGTC
Found at i:8853173 original size:106 final size:106
Alignment explanation
Indices: 8852988--8853846 Score: 1299
Period size: 106 Copynumber: 8.1 Consensus size: 106
8852978 ACTAGCGGTC
* ** *
8852988 CTTGCGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
8853053 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * * *
8853094 CTTGCGTTGTCTGGAGTCCAATATCTTTCGTTGTGAACTTAAAATTGGCTCTGAAATTGGGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* *
8853159 TGTTTGTTGACAACCATCGGTCCCTTCTTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
8853200 CTTGCGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* ** *
8853265 TGTTTGTTAACAACTGGCAGTCCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
8853306 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* *
8853371 TGTTTGTTGAAAACCAGCGGTTCCTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
8853412 CTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * *
8853477 TGTTTATTGAAAACCAGCGGTCCCTTCGTCATGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * * *
8853518 CTTGCGTTGTCTTGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGACTCTGAAATT-TGAAAT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * *
8853582 TGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAATTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * * *
8853623 CTTGCGCTGTCTGGAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
8853688 TGTTTGTTGACAACCAGCGGTCCTTTCGTCGTGAAGTTGAA
66 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
8853729 CTTGTGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* *
8853794 TGTTTGTTGACAACCAGTC-GTTCCTTCGTTGTGAAGTTGAA
66 TGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAA
*
8853835 CTTGTGTTGTCT
1 CTTGCGTTGTCT
8853847 CAAGTGGCAC
Statistics
Matches: 685, Mismatches: 66, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
105 95 0.14
106 589 0.86
107 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (106 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
Found at i:8854391 original size:18 final size:19
Alignment explanation
Indices: 8854364--8854400 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8854354 TGTTGAATCC
*
8854364 CCAAATGATGCCCTAATAT
1 CCAAATGATGCCCCAATAT
8854383 CCAAA-GATGCCCCAATAT
1 CCAAATGATGCCCCAATAT
8854401 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.22
Consensus pattern (19 bp):
CCAAATGATGCCCCAATAT
Found at i:8855475 original size:11 final size:12
Alignment explanation
Indices: 8855459--8855509 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 12
8855449 TTCTTTTTGA
8855459 TTTTTG-TTCTT
1 TTTTTGCTTCTT
*
8855470 TTTTTGTTTTCTTCT
1 TTTTTG-CTTC-T-T
8855485 TTTTTGCTTC-T
1 TTTTTGCTTCTT
8855496 TTTTTGCTTCTT
1 TTTTTGCTTCTT
8855508 TT
1 TT
8855510 CTTTTTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 17 0.50
12 3 0.09
13 3 0.09
14 4 0.12
15 7 0.21
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTTTGCTTCTT
Found at i:8855497 original size:27 final size:26
Alignment explanation
Indices: 8855459--8855519 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
8855449 TTCTTTTTGA
8855459 TTTTTGTTCTTTTTTTG-TT-TTCTTCT
1 TTTTTGTTC-TTTTTTGCTTCTT-TTCT
8855485 TTTTTGCTTCTTTTTTGCTTCTTTTCT
1 TTTTTG-TTCTTTTTTGCTTCTTTTCT
8855512 TTTTTGTT
1 TTTTTGTT
8855520 TTTGCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 15 0.47
27 15 0.47
28 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (26 bp):
TTTTTGTTCTTTTTTGCTTCTTTTCT
Found at i:8859860 original size:15 final size:15
Alignment explanation
Indices: 8859835--8859875 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8859825 AAATAATTAG
8859835 ATGAAAA-AAAATGAA
1 ATGAAAATAAAAT-AA
8859850 AT-AAAATAAAATAA
1 ATGAAAATAAAATAA
*
8859864 ATGAAGATAAAA
1 ATGAAAATAAAA
8859876 ATATATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (15 bp):
ATGAAAATAAAATAA
Found at i:8859999 original size:18 final size:17
Alignment explanation
Indices: 8859964--8860011 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
8859954 AATATAATGA
8859964 AAATAAATAAATAGTAT
1 AAATAAATAAATAGTAT
8859981 AAATAAAATAATATA-TAT
1 AAAT-AAATAA-ATAGTAT
* *
8859999 ATATATATAAATA
1 AAATAAATAAATA
8860012 TAAAAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 12 0.44
19 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATAAATAAATAGTAT
Found at i:8860012 original size:14 final size:14
Alignment explanation
Indices: 8859970--8860015 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
8859960 ATGAAAATAA
8859970 ATAAATAGTATAAAT
1 ATAAATA-TATAAAT
*
8859985 A-AAATA-ATATAT
1 ATAAATATATAAAT
*
8859997 ATATATATATAAAT
1 ATAAATATATAAAT
8860011 ATAAA
1 ATAAA
8860016 AATGTATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 14 0.56
15 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAAATATATAAAT
Found at i:8860221 original size:8 final size:9
Alignment explanation
Indices: 8860210--8860276 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 9
8860200 AGATAAAAAA
8860210 ATAATA-AT
1 ATAATATAT
8860218 ATAATATAT
1 ATAATATAT
8860227 AT-ATATAT
1 ATAATATAT
8860235 AT-ATATAT
1 ATAATATAT
8860243 ATATATATAT
1 ATA-ATATAT
*
8860253 ATAATAGA-
1 ATAATATAT
*
8860261 AAAATA-AT
1 ATAATATAT
8860269 ATAATATA
1 ATAATATA
8860277 ACGTAAAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
7 1 0.02
8 32 0.63
9 9 0.18
10 9 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (9 bp):
ATAATATAT
Found at i:8860226 original size:2 final size:2
Alignment explanation
Indices: 8860216--8860255 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8860206 AAAAATAATA
8860216 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8860256 ATAGAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8860333 original size:24 final size:25
Alignment explanation
Indices: 8860286--8860335 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
8860276 AACGTAAAGA
8860286 AAAATGAAAAAAAATTATAATAAAT
1 AAAATGAAAAAAAATTATAATAAAT
*
8860311 AAAAT-AAATAAAA-TATAATTAAAT
1 AAAATGAAAAAAAATTATAA-TAAAT
8860335 A
1 A
8860336 TATACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (25 bp):
AAAATGAAAAAAAATTATAATAAAT
Found at i:8860794 original size:37 final size:37
Alignment explanation
Indices: 8860753--8860856 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
8860743 ATGCTTGTGG
* *
8860753 ATCTTATCTTTAAGAGTTTAAATAATT-GTAGAATTTT
1 ATCTTATCTTTAAGAGTTTAAAT-ATTAATAAAATTTT
* *
8860790 ATCTTAAT-TTTAAGAGTTTGAATCTTAATAAAATTTT
1 ATCTT-ATCTTTAAGAGTTTAAATATTAATAAAATTTT
* *
8860827 ATCTTATCTTTAAAAGTTTAAATCTTAATA
1 ATCTTATCTTTAAGAGTTTAAATATTAATA
8860857 GAACGAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
36 4 0.07
37 52 0.90
38 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (37 bp):
ATCTTATCTTTAAGAGTTTAAATATTAATAAAATTTT
Found at i:8862938 original size:14 final size:14
Alignment explanation
Indices: 8862919--8862952 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8862909 AATATATAAG
*
8862919 TGAGCTCTGAAGTT
1 TGAGCTCCGAAGTT
8862933 TGAGCTCCGAAGTT
1 TGAGCTCCGAAGTT
8862947 TGAGCT
1 TGAGCT
8862953 TTGGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (14 bp):
TGAGCTCCGAAGTT
Found at i:8864959 original size:21 final size:21
Alignment explanation
Indices: 8864933--8864977 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8864923 GATTTCTGGG
* *
8864933 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
8864954 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
8864975 CAA
1 CAA
8864978 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:8866612 original size:149 final size:149
Alignment explanation
Indices: 8866427--8866730 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
8866417 GAGTCGAGGG
8866427 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAAGACACAT
*
8866492 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
8866557 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
8866576 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAAGACACAT
8866641 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
8866706 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
8866725 TCTACG
1 TCTACG
8866731 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:8866753 original size:23 final size:23
Alignment explanation
Indices: 8866709--8866753 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8866699 ATCATTATAT
*
8866709 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
8866732 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8866754 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:8872169 original size:23 final size:23
Alignment explanation
Indices: 8872143--8872220 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
8872133 CACCACAACT
8872143 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
8872166 CATATAATTGCACCGAAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
8872189 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
8872212 TATAATAAT
1 CAT-ATAAT
8872221 GTCCATAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:8872432 original size:121 final size:121
Alignment explanation
Indices: 8872230--8872480 Score: 475
Period size: 121 Copynumber: 2.1 Consensus size: 121
8872220 TGTCCATAAG
*
8872230 GACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCAGAC
8872295 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
*
8872351 GACCGCATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCAGAC
*
8872416 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
8872472 GACCACATA
1 GACCACATA
8872481 GACCCTCGAC
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 126 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (121 bp):
GACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
Found at i:8872466 original size:18 final size:18
Alignment explanation
Indices: 8872443--8872478 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8872433 GAATACATAT
8872443 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
8872461 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
8872479 TAGACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:8877982 original size:23 final size:23
Alignment explanation
Indices: 8877956--8878033 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8877946 CACCACAGCT
8877956 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
** *
8877979 CATATAATTATACCGAAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
8878002 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
8878025 TATAATAAT
1 CAT-ATAAT
8878034 GTCCATAAGG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 38 0.90
24 4 0.10
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:8878243 original size:121 final size:121
Alignment explanation
Indices: 8878040--8878293 Score: 445
Period size: 121 Copynumber: 2.1 Consensus size: 121
8878030 TAATGTCCAT
* *
8878040 AAGGGCCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCA
* *
8878105 GACTTCATACATGTTCCAAAGAATACATATATGTCCCGAAAGACCATAATGCCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAAGACCACAATGCCCCG
*
8878161 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCA
* *
8878226 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAAGACCACAATGCCCCG
8878282 AAGGACCACATA
1 AAGGACCACATA
8878294 GACCCTCGAC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 126 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (121 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGCCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAAGACCACAATGCCCCG
Found at i:8878279 original size:18 final size:18
Alignment explanation
Indices: 8878256--8878291 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8878246 GAATACATAT
8878256 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
8878274 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
8878292 TAGACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:8880355 original size:18 final size:19
Alignment explanation
Indices: 8880320--8880356 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8880310 CACGGAATGT
8880320 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
8880340 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
8880357 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:8885383 original size:2 final size:2
Alignment explanation
Indices: 8885376--8885444 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
8885366 CCTGTAACAT
8885376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8885418 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 T
8885445 CTGTTAATGG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8887031 original size:24 final size:24
Alignment explanation
Indices: 8886954--8887017 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
8886944 GGATTGTACT
*
8886954 ACAAGAGCATAGAAAATTCATGCC
1 ACAAGAGCATAGAAAATTCATGTC
8886978 ACAAGAGCATAGAAAATTCATGTC
1 ACAAGAGCATAGAAAATTCATGTC
8887002 ACAAGAGCATAGAAAA
1 ACAAGAGCATAGAAAA
8887018 ACGTGTCACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (24 bp):
ACAAGAGCATAGAAAATTCATGTC
Done.