Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 57 of 185
Found at i:17821667 original size:29 final size:30
Alignment explanation
Indices: 17821616--17821687 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
17821606 TAAATGGCTA
* *
17821616 GCCCGTGTGGCTCCACATAGCCTGGCACAC
1 GCCCGTGTGTCTCCACATAGCCTGACACAC
* *
17821646 GCCCGTGTGTCT-CACATGGCCTGACACAT
1 GCCCGTGTGTCTCCACATAGCCTGACACAC
*
17821675 GCTCGTGTCGTCT
1 GCCCGTGT-GTCT
17821688 GCCCGTGTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (30 bp):
GCCCGTGTGTCTCCACATAGCCTGACACAC
Found at i:17821866 original size:24 final size:24
Alignment explanation
Indices: 17821827--17821876 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17821817 CCACACGACT
* *
17821827 TGGCATATGACTGTGTGGTGCACA
1 TGGCATACGACCGTGTGGTGCACA
17821851 TGGCATACGACCGTGTGGTGCACA
1 TGGCATACGACCGTGTGGTGCACA
17821875 TG
1 TG
17821877 ACCTATAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (24 bp):
TGGCATACGACCGTGTGGTGCACA
Found at i:17830027 original size:21 final size:21
Alignment explanation
Indices: 17829995--17830035 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17829985 AGGCTCGAGG
17829995 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
17830016 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
17830036 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:17841216 original size:3 final size:3
Alignment explanation
Indices: 17841208--17841241 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17841198 AACCTTTTAC
17841208 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17841242 TATGTACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17841390 original size:24 final size:23
Alignment explanation
Indices: 17841336--17841404 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
17841326 CATGTTTTCG
* *
17841336 AAATCATTGTGTATTATTATTCCA
1 AAATTATTATGTATTATTATT-CA
17841360 AAATTATTATGTATTATTACTT-A
1 AAATTATTATGTATTATTA-TTCA
*
17841383 AAAGTTA-TACTATATTATTATT
1 AAA-TTATTA-TGTATTATTATT
17841405 ATTTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 8 0.21
24 29 0.74
25 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (23 bp):
AAATTATTATGTATTATTATTCA
Found at i:17846623 original size:7 final size:7
Alignment explanation
Indices: 17846613--17846645 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
17846603 AAGAGAGAAG
17846613 ATGAAAA
1 ATGAAAA
17846620 ATG-AAA
1 ATGAAAA
17846626 ATGAAAA
1 ATGAAAA
17846633 ATGAAAA
1 ATGAAAA
*
17846640 TTGAAA
1 ATGAAA
17846646 GAGTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (7 bp):
ATGAAAA
Found at i:17846631 original size:13 final size:13
Alignment explanation
Indices: 17846613--17846645 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17846603 AAGAGAGAAG
17846613 ATGAAAAATGAAA
1 ATGAAAAATGAAA
17846626 ATGAAAAATGAAA
1 ATGAAAAATGAAA
17846639 ATTGAAA
1 A-TGAAA
17846646 GAGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:17848020 original size:44 final size:45
Alignment explanation
Indices: 17847924--17848503 Score: 189
Period size: 44 Copynumber: 12.6 Consensus size: 45
17847914 GAAATTACAG
* * * * * *
17847924 ATCTTGTCTTCCTGAGATTACAGCGGAGCAGATTGAAGT-TAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
* * *
17847968 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
* * * * * *
17848012 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT----T-AAAAT-AA---AGTA
* * * **
17848066 ATCTTATCTCCTTGAGATTACAGCGGAGCAGATGGAAGCT--AGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAAATAAAGTA
* * *
17848110 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAA-TG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
* * * * *
17848154 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTA-A--A-A-T-AA---AGTA
* **
17848208 ATCTTATCTCCCTGAGATTACA-TCGGAGCAGATGGAAGCT--AGTA
1 ATCTTATCTCCCTGAGATTACAGT-GGAGCAGAT-TAAAATAAAGTA
* * * *
17848252 ATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
* * * * * *
17848296 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT----T-AAAAT-AA---AGTA
* * **
17848350 ATCTTATCTCCCTGAGGTTACA-TCGGAGCAGATGGAAGCT--AGTA
1 ATCTTATCTCCCTGAGATTACAGT-GGAGCAGAT-TAAAATAAAGTA
* * * *
17848394 ATCCTATCTCTCTAAGATTACAGTGGAGCAGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
* *** *
17848438 ATCTTATCT--CTGA-AGTTACAGTAGAGCAGA-TCGTATCAAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAAGTA
17848478 -TCTTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
17848504 ATAGACCGAA
Statistics
Matches: 392, Mismatches: 92, Indels: 107
0.66 0.16 0.18
Matches are distributed among these distances:
39 8 0.02
41 20 0.05
42 18 0.05
43 12 0.03
44 213 0.54
45 10 0.03
47 1 0.00
48 3 0.01
49 7 0.02
50 11 0.03
53 7 0.02
54 79 0.20
55 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGTA
Found at i:17848180 original size:142 final size:142
Alignment explanation
Indices: 17847924--17848475 Score: 946
Period size: 142 Copynumber: 3.9 Consensus size: 142
17847914 GAAATTACAG
* * * *
17847924 ATCTTGTCTTCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
17847989 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
17848054 TTGAAGCCAGAA
131 TTGAAGCCAGAA
*
17848066 ATCTTATCTCCTTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
17848131 AGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
17848196 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* *
17848208 ATCTTATCTCCCTGAGATTACATCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGATATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
17848273 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
17848338 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* * * *
17848350 ATCTTATCTCCCTGAGGTTACATCGGAGCAGATGGAAGCTAGTAATCCTATCTCTCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
17848415 AGTGGAGCAGATTAAAATAAAGGATCTTA--TCTCTGAAGTTACAGTAGAGCAGATCGTATCA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
17848476 AGTCTTATCT
Statistics
Matches: 391, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
140 30 0.08
142 361 0.92
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:17848583 original size:50 final size:50
Alignment explanation
Indices: 17848526--17848632 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
17848516 AATTATAGAC
* * *
17848526 CTTACTTCCCT-AGCAATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAAT
1 CTTACTTCCCTGA-CAATGCAGTGAAAAAGATTAAAGCCACGAT-GGCGAAT
* * *
17848576 CTTACTTCCCTGACATTGCGGTTAAAAAGATTAAAGCCACGATGGCGAAT
1 CTTACTTCCCTGACAATGCAGTGAAAAAGATTAAAGCCACGATGGCGAAT
17848626 CTTACTT
1 CTTACTT
17848633 GCCAAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 46 0.94
51 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (50 bp):
CTTACTTCCCTGACAATGCAGTGAAAAAGATTAAAGCCACGATGGCGAAT
Found at i:17850173 original size:24 final size:23
Alignment explanation
Indices: 17850137--17850247 Score: 73
Period size: 24 Copynumber: 4.8 Consensus size: 23
17850127 CATGTTTTCG
* *
17850137 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTATT-TA
*
17850161 AAATTATTATGTATTATTACTTA
1 AAATTATTATGTATTATTATTTA
** * *
17850184 AAAGTTATGCTATATTATTATTTT
1 AAA-TTATTATGTATTATTATTTA
* * * * *
17850208 TATTTGTCA--TATTATTATACTA
1 AAATTATTATGTATTATTAT-TTA
17850230 AAATTATTATGTATTATT
1 AAATTATTATGTATTATT
17850248 TCATTTTATT
Statistics
Matches: 64, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
21 9 0.14
22 6 0.09
23 8 0.12
24 41 0.64
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.53
Consensus pattern (23 bp):
AAATTATTATGTATTATTATTTA
Found at i:17852503 original size:42 final size:42
Alignment explanation
Indices: 17852443--17852631 Score: 213
Period size: 42 Copynumber: 4.5 Consensus size: 42
17852433 GATACTGAAC
* *
17852443 TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCTTCGTTA
1 TGTGATT-CGTGTAAGACCATGTCTAGGACATTGGCATCGATA
* * *
17852486 TGTGATTCATGTAAGACCATGTCTGGGACATTGGCATTGATA
1 TGTGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
* *
17852528 TGAGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
1 TGTGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
* *
17852570 TGGGAATCGTGTAAGACCATAG-CTA-G-CTATTGGCATCGATA
1 TGTGATTCGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCGATA
* * *
17852611 TATGATAGCATGTAAGACCAT
1 TGTGAT-TCGTGTAAGACCAT
17852632 ATCTGGGATA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 17 0.13
42 101 0.80
43 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
Found at i:17864234 original size:21 final size:21
Alignment explanation
Indices: 17864195--17864237 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17864185 TTTTCCTAAG
*
17864195 ATATGAATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
**
17864216 ATATGAATTTTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
17864237 A
1 A
17864238 CTAAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:17864655 original size:24 final size:25
Alignment explanation
Indices: 17864602--17864649 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17864592 TTGGCTCTCA
* *
17864602 CGAGCTTTCCGTTATATGGTTCTTG
1 CGAGCTTTCCGTTATATAGCTCTTG
17864627 CGAGCTTTCCGTTA-ATAGCTCTT
1 CGAGCTTTCCGTTATATAGCTCTT
17864650 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (25 bp):
CGAGCTTTCCGTTATATAGCTCTTG
Found at i:17864886 original size:25 final size:25
Alignment explanation
Indices: 17864830--17864886 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
17864820 TTACGGCTTT
*
17864830 AATGAGCTTCCCGTTATATCGCTCG
1 AATGAGCTTCCCATTATATCGCTCG
* *
17864855 AAAGAGCTTCCCATT-TATGTGCTCG
1 AATGAGCTTCCCATTATAT-CGCTCG
*
17864880 TATGAGC
1 AATGAGC
17864887 ATTCTCGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (25 bp):
AATGAGCTTCCCATTATATCGCTCG
Found at i:17873453 original size:23 final size:22
Alignment explanation
Indices: 17873378--17873507 Score: 178
Period size: 21 Copynumber: 6.0 Consensus size: 22
17873368 CCTGATCAGT
*
17873378 ATACGACACAT-AAGTGCCTGC
1 ATACGACACATAAAGTGCCTGA
**
17873399 A-ACGACACACGAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
17873420 A-ACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
*
17873441 GATATGACACATAAAGTGCCT-A
1 -ATACGACACATAAAGTGCCTGA
17873463 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
17873485 GATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
17873508 TCGACAAAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
20 8 0.08
21 48 0.49
22 3 0.03
23 39 0.40
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:17873458 original size:44 final size:45
Alignment explanation
Indices: 17873378--17873507 Score: 189
Period size: 44 Copynumber: 3.0 Consensus size: 45
17873368 CCTGATCAGT
* **
17873378 ATACGACACAT-AAGTGCCTG-CA-ACGACACACGAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGA
*
17873420 A-ACGACACATAAAGTGCCTGAGATATGACACATAAAGTGCCT-A
1 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGA
17873463 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGA
17873508 TCGACAAAGC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
41 9 0.12
42 10 0.13
43 3 0.04
44 55 0.71
45 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (45 bp):
ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGA
Found at i:17874400 original size:21 final size:22
Alignment explanation
Indices: 17874360--17874400 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17874350 CCTTTCCTTC
* *
17874360 ATTTCTTTTTCGTCTGTTCTCT
1 ATTTCTTTTTAGTCTATTCTCT
17874382 ATTTCTTTTTAG-CTATTCT
1 ATTTCTTTTTAGTCTATTCT
17874401 GTTTCTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.10, C:0.20, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTTCTTTTTAGTCTATTCTCT
Found at i:17874434 original size:17 final size:18
Alignment explanation
Indices: 17874400--17874435 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17874390 TTAGCTATTC
*
17874400 TGTTTCTATTTCTTCTTT
1 TGTTTCTATTTATTCTTT
17874418 TGTTTCT-TTTATTCTTT
1 TGTTTCTATTTATTCTTT
17874435 T
1 T
17874436 ATTTTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (18 bp):
TGTTTCTATTTATTCTTT
Found at i:17878877 original size:23 final size:24
Alignment explanation
Indices: 17878848--17878893 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
17878838 AGATAGACTA
17878848 AAATTTTTTTC-TTC-TTTTTTTT
1 AAATTTTTTTCATTCATTTTTTTT
17878870 AAATTTTTTTCATTCATTTTTTTT
1 AAATTTTTTTCATTCATTTTTTTT
17878894 CACAATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 3 0.14
24 8 0.36
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (24 bp):
AAATTTTTTTCATTCATTTTTTTT
Found at i:17879857 original size:17 final size:16
Alignment explanation
Indices: 17879833--17879874 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
17879823 TGAGGAGGGG
17879833 AAAGAAAAAGAAAGAA
1 AAAGAAAAAGAAAGAA
*
17879849 AATAGAAAAATAAAGAA
1 AA-AGAAAAAGAAAGAA
*
17879866 GAAGAAAAA
1 AAAGAAAAA
17879875 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:17879889 original size:15 final size:15
Alignment explanation
Indices: 17879847--17879904 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
17879837 AAAAAGAAAG
*
17879847 AAAATAGAAAAATAAA
1 AAAATAAAAAAAT-AA
* *
17879863 GAAGAAGAAAAAACAAAA
1 -AA-AATAAAAAA-ATAA
17879881 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
17879896 AAAATAAAA
1 AAAATAAAA
17879905 CGAGAAGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 12 0.35
16 8 0.24
17 4 0.12
18 9 0.26
19 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.09
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:17880056 original size:17 final size:17
Alignment explanation
Indices: 17879994--17880061 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
17879984 AAAGGGGATG
*
17879994 TAAAAAGAAAATGAAGGGA
1 TAAAAAGAAAATGAA--AA
17880013 -AAAAAG-AAA-GAAAAA
1 TAAAAAGAAAATG-AAAA
*
17880028 TAAAAAATAAAATGAAAA
1 T-AAAAAGAAAATGAAAA
17880046 TAAAAAGAAAATGAAA
1 TAAAAAGAAAATGAAA
17880062 TGGTGCGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 24 0.59
18 14 0.34
19 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (17 bp):
TAAAAAGAAAATGAAAA
Found at i:17885758 original size:22 final size:22
Alignment explanation
Indices: 17885730--17885773 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17885720 TAAGGTGTAG
17885730 AACATATCAGATAT-AGATGCAA
1 AACATATCAGA-ATCAGATGCAA
17885752 AACATATCAGAATCAGATGCAA
1 AACATATCAGAATCAGATGCAA
17885774 TTTCTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (22 bp):
AACATATCAGAATCAGATGCAA
Found at i:17897260 original size:9 final size:9
Alignment explanation
Indices: 17897246--17897339 Score: 127
Period size: 9 Copynumber: 10.4 Consensus size: 9
17897236 TTTGGTTAAA
17897246 AATTAACCG
1 AATTAACCG
17897255 AATTAACCG
1 AATTAACCG
*
17897264 AATTACCCG
1 AATTAACCG
17897273 AATTAACCG
1 AATTAACCG
17897282 AATTAACCG
1 AATTAACCG
* *
17897291 GATTACCCG
1 AATTAACCG
**
17897300 AATTAACTA
1 AATTAACCG
17897309 AATT-ACTCG
1 AATTAAC-CG
17897318 AATTAACCG
1 AATTAACCG
17897327 AATTAACCG
1 AATTAACCG
17897336 AATT
1 AATT
17897340 GAATCACTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 2 0.03
9 69 0.95
10 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:17901561 original size:22 final size:22
Alignment explanation
Indices: 17901518--17901576 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
17901508 GGGTAGGAAA
*
17901518 CTGCATCTGAT-TCTAATATGTT
1 CTGCATCT-ATATCTGATATGTT
*
17901540 CTGCATCTATATCTGATTTGTT
1 CTGCATCTATATCTGATATGTT
* *
17901562 TTGCACCT-TATCTGA
1 CTGCATCTATATCTGA
17901577 ACTATTATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (22 bp):
CTGCATCTATATCTGATATGTT
Found at i:17902602 original size:16 final size:18
Alignment explanation
Indices: 17902566--17902605 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
17902556 GAAACATTTA
*
17902566 TTTTAATGTTTTTAGTAT
1 TTTTAATGTTATTAGTAT
17902584 TTTTAATG-TATTA-TAT
1 TTTTAATGTTATTAGTAT
17902600 TTTTAA
1 TTTTAA
17902606 AAAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTAATGTTATTAGTAT
Found at i:17906061 original size:168 final size:167
Alignment explanation
Indices: 17905783--17906285 Score: 695
Period size: 168 Copynumber: 3.0 Consensus size: 167
17905773 CTTTCGAGGC
* * *
17905783 TTAGAACATTGTGATTGCGGTTTCTTCTTCCTAGTTTCCTTGCATGGAGGAGTCTCATACAAGGT
1 TTAGAACATTGTGATTGTGATTTCTTCCTCCTAGTTTCCTTGCATGGAGGAGTCTCATACAAGG-
* * * * *
17905848 TTTATGACAAACATCATCTTTAGCTTCTTCTTTGACGGGTTTTAGACTCACTTGATCTTTACTCT
65 TTTATCACAAACATCATCTTTAGCTTCTTCCTTGACGGGTTTTAGACACACTTGATCATCACTCT
* *
17905913 TGTGATCTTCAATATGGCTCTTGCATGGATATTCAATT
130 TATGATCTTCAATATGGCTCTTGCATGGATATTCAATG
**
17905951 TTAGAACATTGTGATTGTGATTTAGTCCTCCTAGCTTT-CTTGCATGGAGGAGTCTCATACAAGG
1 TTAGAACATTGTGATTGTGATTTCTTCCTCCTAG-TTTCCTTGCATGGAGGAGTCTCATACAAGG
* *
17906015 TTTCATCATAAACACCATCTTTAGCTTCTTCCTTGACGGGTTTTAGACACAAC-TGATCATCACT
65 TTT-ATCACAAACATCATCTTTAGCTTCTTCCTTGACGGGTTTTAGACAC-ACTTGATCATCACT
* * **
17906079 CTTATGATCTTCAATATAGCTCTTGCATAGATATTCTGTG
128 CTTATGATCTTCAATATGGCTCTTGCATGGATATTCAATG
* * * * * *
17906119 TTAGAACATAGTGATCGTGATTTCTTCCTCTTAGTTTCCTTGCATGAAGGAGTCCCATGCAAGGG
1 TTAGAACATTGTGATTGTGATTTCTTCCTCCTAGTTTCCTTGCATGGAGGAGTCTCATACAA-GG
* * *
17906184 TTTATCACAAACATCATCTTTAGGTTCTTCCTTGACAGGTTTTAGACACATTTGATCATCACTCT
65 TTTATCACAAACATCATCTTTAGCTTCTTCCTTGACGGGTTTTAGACACACTTGATCATCACTCT
*
17906249 TCTGATCTTCAATATGGCTCTTGCATGGATATTCAAT
130 TATGATCTTCAATATGGCTCTTGCATGGATATTCAAT
17906286 CTCTGATGCA
Statistics
Matches: 293, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
167 7 0.02
168 276 0.94
169 10 0.03
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (167 bp):
TTAGAACATTGTGATTGTGATTTCTTCCTCCTAGTTTCCTTGCATGGAGGAGTCTCATACAAGGT
TTATCACAAACATCATCTTTAGCTTCTTCCTTGACGGGTTTTAGACACACTTGATCATCACTCTT
ATGATCTTCAATATGGCTCTTGCATGGATATTCAATG
Found at i:17913165 original size:31 final size:28
Alignment explanation
Indices: 17913127--17913222 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 28
17913117 AAATTTTAAA
17913127 TTTTAAAAATTCAAAAAATTA-TAAAATTTAT
1 TTTTAAAAATT---AAAATTATTAAAA-TTAT
17913158 TTTTAAAAATTAAAATTATTAAAATTAT
1 TTTTAAAAATTAAAATTATTAAAATTAT
** * *
17913186 TTGAAAAAATATAAAATTTATAAAAAATA-
1 TTTTAAAAAT-TAAAA-TTATTAAAATTAT
17913215 TTTTAAAA
1 TTTTAAAA
17913223 TTCTTAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 19 0.34
29 16 0.29
30 10 0.18
31 11 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTTAAAAATTAAAATTATTAAAATTAT
Found at i:17914161 original size:16 final size:17
Alignment explanation
Indices: 17914130--17914174 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
17914120 CCGATATAAT
* * *
17914130 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
17914147 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
17914163 AAATATTTTTAA
1 AAATATTTTTAA
17914175 AATACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:17914172 original size:11 final size:11
Alignment explanation
Indices: 17914158--17914285 Score: 113
Period size: 11 Copynumber: 11.4 Consensus size: 11
17914148 AATTTTTTAA
17914158 TTTTAAAATAT
1 TTTTAAAATAT
17914169 TTTTAAAATACT
1 TTTTAAAATA-T
* *
17914181 TTTT-TATTAT
1 TTTTAAAATAT
*
17914191 TTTT----TAA
1 TTTTAAAATAT
17914198 TTTTAAAATAT
1 TTTTAAAATAT
17914209 TTTTAAAATACT
1 TTTTAAAATA-T
*
17914221 TTTTAAAAAAAATTAA
1 TTTT----AAAA-TAT
17914237 TTTTAAAATAT
1 TTTTAAAATAT
17914248 TTTTAAAATAT
1 TTTTAAAATAT
17914259 TTTTAAAATAT
1 TTTTAAAATAT
17914270 TTTTAAAATACT
1 TTTTAAAATA-T
17914282 TTTT
1 TTTT
17914286 TTAATTTTTA
Statistics
Matches: 99, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
7 6 0.06
10 5 0.05
11 59 0.60
12 19 0.19
16 8 0.08
17 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:17914223 original size:29 final size:29
Alignment explanation
Indices: 17914169--17914226 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17914159 TTTAAAATAT
* * *
17914169 TTTTAAAATACTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTTAA
17914198 TTTTAAAATA-TTTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTT-AAATACTTTTTAA
17914227 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAATACTTTTTAA
Found at i:17914224 original size:39 final size:39
Alignment explanation
Indices: 17914141--17914275 Score: 182
Period size: 39 Copynumber: 3.4 Consensus size: 39
17914131 AATATATTTA
*
17914141 TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
**
17914180 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 -TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
****
17914220 TTTTTAAAAAAAATTAATTTTAAAATATTTTTAAAATA-
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
17914258 TTTTTAAAATATTTTTAA
1 TTTTTAAAAT-TTTTTAA
17914276 AATACTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 9 0.11
39 36 0.44
40 36 0.44
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:17914294 original size:22 final size:21
Alignment explanation
Indices: 17914198--17914300 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 21
17914188 TATTTTTTAA
17914198 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAA-ATTTTTAAAATA-T
* *
17914221 TTTTAAAAA-----AAATTAA
1 TTTTAAAAATTTTTAAAATAT
17914237 TTTTAAAATATTTTTAAAATAT
1 TTTTAAAA-ATTTTTAAAATAT
17914259 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAA-ATTTTTAAAATA-T
**
17914282 TTTT-TTAATTTTTAAAATA
1 TTTTAAAAATTTTTAAAATA
17914301 AATTTTTGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
16 8 0.12
17 6 0.09
21 12 0.18
22 28 0.42
23 13 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAAAAATTTTTAAAATAT
Found at i:17914306 original size:21 final size:21
Alignment explanation
Indices: 17914268--17914307 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17914258 TTTTTAAAAT
**
17914268 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
17914289 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
17914308 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:17914314 original size:22 final size:21
Alignment explanation
Indices: 17914267--17914325 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
17914257 ATTTTTAAAA
* *
17914267 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
17914287 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
17914310 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
17914326 AGGCCGAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:17920214 original size:40 final size:42
Alignment explanation
Indices: 17920129--17920226 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 42
17920119 GCGTTTGGAC
* * * **
17920129 AAAAAACACCACTAATA-ATCGAGCATTAGCGGCATTTTAC-
1 AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCATTACACA
* * *
17920169 GAAAAACGCCG-TAAAATATCGAGCATTAGCGGCGTTACATA
1 AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCATTACACA
17920210 AAAAAACGCCGCTAAAA
1 AAAAAACGCCGCTAAAA
17920227 CCAATTATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.09
40 27 0.59
41 10 0.22
42 5 0.11
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.18
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCATTACACA
Found at i:17920624 original size:41 final size:41
Alignment explanation
Indices: 17920546--17920624 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
17920536 GCTAATGTTC
* * **
17920546 CGGTCTATAGCGGCGTTTGTGTAACAGCACCGGTAATTCTT
1 CGGTCTATAGCGGCGTTTGTGTAAAAACACCACTAATTCTT
*
17920587 CGGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAATT
1 CGGTCTATAGCGGCGTTTGTGTAAAAACACCACTAATT
17920625 AGAAAATCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
CGGTCTATAGCGGCGTTTGTGTAAAAACACCACTAATTCTT
Found at i:17922866 original size:16 final size:16
Alignment explanation
Indices: 17922842--17922872 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17922832 ATTTTTCCTC
17922842 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
17922858 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
17922873 CTCCATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:17925373 original size:87 final size:87
Alignment explanation
Indices: 17925270--17925464 Score: 277
Period size: 87 Copynumber: 2.2 Consensus size: 87
17925260 CAACTTAAAT
* *
17925270 CAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTA
1 CAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCAGC-AGCAACTTA
*
17925333 AAGCAGATGCGGCAGCGAGAGAAA
64 AAGCAGATGCGACAGCGAGAGAAA
* *
17925357 CAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCAGCAGTAACTTAAA
1 CAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAA
*
17925422 GCAGATGCGACAGCGAGAGAAG
66 GCAGATGCGACAGCGAGAGAAA
** *
17925444 CAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCAACAGCGAGAGAAG
17925465 TAGATGCTGC
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 92 0.95
88 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.30, T:0.11
Consensus pattern (87 bp):
CAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAA
GCAGATGCGACAGCGAGAGAAA
Found at i:17925446 original size:21 final size:21
Alignment explanation
Indices: 17925420--17925489 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
17925410 CAGTAACTTA
*
17925420 AAGCAGATGC-GACAGCGAGAG
1 AAGCAGATGCTG-CAGCGAGGG
*
17925441 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGATGCTGCAGCGAGGG
*
17925462 AAGTAGATGCTGCAGCGAGGG
1 AAGCAGATGCTGCAGCGAGGG
17925483 AAGCAGA
1 AAGCAGA
17925490 ACAGCTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.41, T:0.07
Consensus pattern (21 bp):
AAGCAGATGCTGCAGCGAGGG
Found at i:17925857 original size:43 final size:43
Alignment explanation
Indices: 17925808--17925963 Score: 190
Period size: 43 Copynumber: 3.6 Consensus size: 43
17925798 GTTTTTCTAA
* * * *
17925808 AAGCGCCGCTAAAAACCATGAG-CTATAGCGACGTTTGTTTGTT
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGTTGGAT
* * *
17925851 AAGCGCCGCTAAAGACCAAGGTCTATAGCGGCGTTTGATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
* * *
17925894 AAGCACCGCGAAAGATCATGGTCTATAGCGGCGTTT-TATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGT-TGGAT
17925937 AAGCGCCGCTAAAGACCATGGTCTATA
1 AAGCGCCGCTAAAGACCATGGTCTATA
17925964 CATTACAATG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
Found at i:17927308 original size:25 final size:24
Alignment explanation
Indices: 17927261--17927317 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
17927251 ATTAATTATT
17927261 AATATAATTTATTTTCAAGTTAATA
1 AATATAATTTATTTTCAAGTTAA-A
* *
17927286 AATATAAGTTTATTTT-TATTTAAA
1 AATATAA-TTTATTTTCAAGTTAAA
17927310 AATA-AATT
1 AATATAATT
17927318 AGTAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 5 0.17
25 12 0.41
26 8 0.28
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
AATATAATTTATTTTCAAGTTAAA
Found at i:17929485 original size:51 final size:51
Alignment explanation
Indices: 17929395--17929504 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
17929385 AACGTTACAG
* * *
17929395 CTAAATTTGTTAAATCAAGATTAAATTCATAAAACATGTAAA-TGTTGTGGA
1 CTAAATTTGTTAAATCAAGACTAAATTCACAAAACATGTAAACT-TTGAGGA
* * *
17929446 CTAAATTTGTTAAATCAA-AGCTAACTTTACAAAATATGTAAACTTTGAGGA
1 CTAAATTTGTTAAATCAAGA-CTAAATTCACAAAACATGTAAACTTTGAGGA
17929497 CTAAATTT
1 CTAAATTT
17929505 ATTATTATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
50 1 0.02
51 49 0.96
52 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (51 bp):
CTAAATTTGTTAAATCAAGACTAAATTCACAAAACATGTAAACTTTGAGGA
Found at i:17935368 original size:42 final size:42
Alignment explanation
Indices: 17935321--17935432 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
17935311 GAGTATGCAC
* * * *
17935321 AGGTGTTTTTAACCTTTCATCCTTTTTACTTGGTGTATTTACT
1 AGGTGTTTTTAACCTTTCATCCCTTTTACTAGGGGTATGTA-T
**
17935364 -GGTGTTTTTAACCTTTCATCCCTTACACTAGGGGTATGTAT
1 AGGTGTTTTTAACCTTTCATCCCTTTTACTAGGGGTATGTAT
17935405 AGGTGTTTTTAACCTTTCATCCCTTTTA
1 AGGTGTTTTTAACCTTTCATCCCTTTTA
17935433 GAAGGCGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (42 bp):
AGGTGTTTTTAACCTTTCATCCCTTTTACTAGGGGTATGTAT
Found at i:17936364 original size:34 final size:34
Alignment explanation
Indices: 17936326--17936393 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
17936316 GAAAAAGGGG
17936326 ACAAAAAAAGA-AAAGGAAAGAAAAGAGGGAAAGA
1 ACAAAAAAAGATAAA-GAAAGAAAAGAGGGAAAGA
*
17936360 ACAAAAAAAGATAAAGAAAGTAAAGAGGGAAAGA
1 ACAAAAAAAGATAAAGAAAGAAAAGAGGGAAAGA
17936394 GATCCTTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.69, C:0.03, G:0.25, T:0.03
Consensus pattern (34 bp):
ACAAAAAAAGATAAAGAAAGAAAAGAGGGAAAGA
Found at i:17936366 original size:17 final size:17
Alignment explanation
Indices: 17936341--17936393 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
17936331 AAAAGAAAAG
17936341 GAAAGAAAAGAGGGAAA
1 GAAAGAAAAGAGGGAAA
* **
17936358 GAACA-AAAAAAGATAAA
1 GAA-AGAAAAGAGGGAAA
*
17936375 GAAAGTAAAGAGGGAAA
1 GAAAGAAAAGAGGGAAA
17936392 GA
1 GA
17936394 GATCCTTGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.28, T:0.04
Consensus pattern (17 bp):
GAAAGAAAAGAGGGAAA
Found at i:17943067 original size:17 final size:18
Alignment explanation
Indices: 17943037--17943075 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
17943027 GAGCACTAGA
*
17943037 TAATTTTATAAATTGTAT
1 TAATTTTATAAATTATAT
17943055 TAATTTT-TAAATTATAT
1 TAATTTTATAAATTATAT
17943072 TAAT
1 TAAT
17943076 AATAAGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAATTTTATAAATTATAT
Found at i:17946402 original size:103 final size:103
Alignment explanation
Indices: 17946223--17946635 Score: 790
Period size: 103 Copynumber: 4.0 Consensus size: 103
17946213 GAAAATCGAG
17946223 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
1 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
17946288 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
66 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
17946326 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
1 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
17946391 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
66 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
17946429 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
1 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
17946494 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
66 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
*
17946532 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAG
1 AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
* **
17946597 ACTGTTTATAGGCTGAAATATTACCAGCCGAATAGACA
66 ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
17946635 A
1 A
17946636 TGTAAAAAAA
Statistics
Matches: 306, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 306 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (103 bp):
AGTGAATAACTCACAAAGTTTATATATGTCAAAAGTAATGTAACCTTCAAATTTTTACAAGATAA
ACTATTTATAGGCTGAAATATTACCAGTTGAATAGACA
Found at i:17947541 original size:20 final size:19
Alignment explanation
Indices: 17947516--17947554 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17947506 GTCGCATTAC
*
17947516 AAGGGTACATGGTCGTGTGG
1 AAGGGTACA-GGCCGTGTGG
*
17947536 AAGGGTCCAGGCCGTGTGG
1 AAGGGTACAGGCCGTGTGG
17947555 TCTAGGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.15, G:0.46, T:0.21
Consensus pattern (19 bp):
AAGGGTACAGGCCGTGTGG
Found at i:17948729 original size:15 final size:15
Alignment explanation
Indices: 17948709--17948738 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17948699 AGTTAAAAAA
17948709 ATAGACTTGCTATAG
1 ATAGACTTGCTATAG
17948724 ATAGACTTGCTATAG
1 ATAGACTTGCTATAG
17948739 CTCTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
ATAGACTTGCTATAG
Found at i:17950056 original size:26 final size:27
Alignment explanation
Indices: 17949983--17950073 Score: 166
Period size: 28 Copynumber: 3.4 Consensus size: 27
17949973 ATAAAAAATA
17949983 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
17950010 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
17950038 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
17950064 ACCAAAATAT
1 ACCAAAATAT
17950074 AACAAAAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.33
27 16 0.25
28 26 0.41
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:17950160 original size:27 final size:27
Alignment explanation
Indices: 17950130--17950208 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
17950120 CACCCTGGTC
* *
17950130 GTGCCAATGTGATTGGCGGTACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
17950157 GTGCCAAAGTGATTGGCGGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
** *
17950184 GTGCCAAAGACATTGACGGCACCAA
1 GTGCCAAAGTGATTGGCGGCACCAA
17950209 TGTTATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.16
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:17950259 original size:4 final size:4
Alignment explanation
Indices: 17950252--17950385 Score: 72
Period size: 4 Copynumber: 34.0 Consensus size: 4
17950242 GAAGGAGAGG
* *
17950252 GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* * *
17950300 GAAA GAAAA GGAAA G-GA GAAG GGAA -AAA -AAA GAAA G-AA G-AA GAAGA
1 GAAA G-AAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A
*
17950346 GGAAA GGAGAA GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
17950386 AGGAAAGGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
3 24 0.23
4 55 0.53
5 17 0.17
6 7 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:17950304 original size:36 final size:37
Alignment explanation
Indices: 17950257--17950446 Score: 161
Period size: 36 Copynumber: 5.2 Consensus size: 37
17950247 AGAGGGAAAG
*
17950257 AAAGAAAGAAAGAAA-GAAAGGAG-AGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAGGAAAGGAGAAGGAAAGAAA-AA
17950293 AAAGAAGGAAAGAAAAGGAAAGGAGAAGGGAAA-AAAAA
1 AAAGAAGGAAAG-AAAGGAAAGGAGAA-GGAAAGAAAAA
*
17950331 GAAAGAA-G-AAGAAGAGGAAAGGAGAAGAAAAAAGAAAGAA
1 -AAAGAAGGAAAGAA-AGGAAAGGAGAAG--GAAAGAAA-AA
17950371 AAAGAAGGAAAGAAAAGGAAAGGAG-A--AAAG-AAAA
1 AAAGAAGGAAAG-AAAGGAAAGGAGAAGGAAAGAAAAA
* *
17950405 AAAGAA-G-AAGAAGAAGAAGAGG-GAAGGAAGGAAAAA
1 AAAGAAGGAAAGAA-AGGAA-AGGAGAAGGAAAGAAAAA
17950441 AAAGAA
1 AAAGAA
17950447 AAAAAGGTAA
Statistics
Matches: 131, Mismatches: 4, Indels: 38
0.76 0.02 0.22
Matches are distributed among these distances:
31 2 0.02
32 8 0.06
33 5 0.04
34 8 0.06
35 5 0.04
36 28 0.21
37 18 0.14
38 14 0.11
39 19 0.15
40 9 0.07
41 13 0.10
42 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (37 bp):
AAAGAAGGAAAGAAAGGAAAGGAGAAGGAAAGAAAAA
Found at i:17950339 original size:3 final size:3
Alignment explanation
Indices: 17950333--17950424 Score: 54
Period size: 3 Copynumber: 32.3 Consensus size: 3
17950323 AAAAAAAAGA
* * *
17950333 AAG AAG AAG AAG AGG AAAG GAG AAG AA- AA- AAG AAAG AAA AAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG
* * * *
17950378 GA- AAG AA- AAG GA- AAG GAG AA- AAG AA- AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17950421 AAG A
1 AAG A
17950425 GGGAAGGAAG
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
2 12 0.18
3 51 0.75
4 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17950379 original size:78 final size:80
Alignment explanation
Indices: 17950283--17950451 Score: 258
Period size: 78 Copynumber: 2.1 Consensus size: 80
17950273 AAAGGAGAGG
* *
17950283 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-AAGGGAAAAAA-AAGAAAGAAGAAGAAGA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAAAGAAAAAAAGAAG-AAGAAGAAGAAGA
17950346 GGAAAGG-A-GAAGAAA
65 GGAAAGGAAGGAA-AAA
17950361 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAAAGAAAAAAAGAAGAAGAAGAAGAAGAG
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAAAGAAAAAAAGAAGAAGAAGAAGAAGAG
*
17950426 GGAAGGAAGGAAAAA
66 GAAAGGAAGGAAAAA
17950441 AAAGAAA-AAAA
1 AAAGAAAGAAAA
17950452 GGTAATTTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
78 35 0.42
79 32 0.38
80 14 0.17
81 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (80 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAAAGAAAAAAAGAAGAAGAAGAAGAAGAG
GAAAGGAAGGAAAAA
Found at i:17950388 original size:10 final size:10
Alignment explanation
Indices: 17950256--17950392 Score: 61
Period size: 10 Copynumber: 14.5 Consensus size: 10
17950246 GAGAGGGAAA
17950256 GAAAG-AAA-
1 GAAAGAAAAG
17950264 GAAAG-AAA-
1 GAAAGAAAAG
* *
17950272 GAAAGGAGAG
1 GAAAGAAAAG
17950282 GAAAG-AAA-
1 GAAAGAAAAG
17950290 GAAA-AAGAAG
1 GAAAGAA-AAG
17950300 GAAAGAAAAG
1 GAAAGAAAAG
*
17950310 GAAAGGAGAAGG
1 GAAA-GA-AAAG
*
17950322 GAAA-AAAAA
1 GAAAGAAAAG
17950331 GAAAGAAGAA-
1 GAAAGAA-AAG
*
17950341 GAAGAGGAAAG
1 GAA-AGAAAAG
17950352 GAGAAG-AAA-
1 GA-AAGAAAAG
17950361 -AAAG-AAA-
1 GAAAGAAAAG
17950368 GAAA-AAGAAG
1 GAAAGAA-AAG
17950378 GAAAGAAAAG
1 GAAAGAAAAG
17950388 GAAAG
1 GAAAG
17950393 GAGAAAAGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 34
0.72 0.04 0.23
Matches are distributed among these distances:
7 6 0.06
8 23 0.22
9 14 0.13
10 39 0.37
11 15 0.14
12 8 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:17950432 original size:43 final size:41
Alignment explanation
Indices: 17950253--17950433 Score: 132
Period size: 39 Copynumber: 4.5 Consensus size: 41
17950243 AAGGAGAGGG
* * * *
17950253 AAAGAAAGAAAGAAAGAAAGAAAGGAG-AGGAAAGAAAG-A-A
1 AAAG-AAG-AAGAGAGAAGGAAAGGAGAAAGAAAAAAAGAAGA
* * *
17950293 AAAGAAGGAA-AGAAAAGGAAAGGAGAAGGGAAAAAA-AAG-
1 AAAGAA-GAAGAGAGAAGGAAAGGAGAAAGAAAAAAAGAAGA
17950332 AAAGAAGAAGA-AG-AGGAAAGGAG-AAG-AAAAAAGAAAGAA
1 AAAGAAGAAGAGAGAAGGAAAGGAGAAAGAAAAAAAG-AAG-A
*
17950371 AAAGAAGGAA-AGAAAAGGAAAGGAGAAAAGAAAAAAAGAAGA
1 AAAGAA-GAAGAGAGAAGGAAAGGAG-AAAGAAAAAAAGAAGA
*
17950413 AGAAGAAGAAGAGGGAAGGAA
1 A-AAGAAGAAGAGAGAAGGAA
17950434 GGAAAAAAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 31
0.74 0.06 0.20
Matches are distributed among these distances:
35 6 0.05
36 2 0.02
37 13 0.11
38 16 0.14
39 27 0.24
40 9 0.08
41 10 0.09
42 5 0.04
43 19 0.17
44 7 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (41 bp):
AAAGAAGAAGAGAGAAGGAAAGGAGAAAGAAAAAAAGAAGA
Found at i:17950449 original size:43 final size:45
Alignment explanation
Indices: 17950261--17950450 Score: 115
Period size: 47 Copynumber: 4.2 Consensus size: 45
17950251 GGAAAGAAAG
* * * * *
17950261 AAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAG-AAGGAAAGAA
1 AAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAAA-AA
* ** * * *
17950307 AAGGAAAGGAGAAGGGAAAAA-AAAGAAAGAAGAA-GAAGAGGAAAGGA
1 AAAGAAAAAAGAA-AGAAAAAGAAGGAAAGAA-AAGGAA-AGGAAA-AA
* *
17950354 GAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAA
1 AAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAAAAA
* * **
17950399 AGA-AAAAAAG-AAGAAGAAGAA-GAAGAGGGAAGG-AAGGAAAAA
1 AAAGAAAAAAGAAAGAAAAAGAAGGAA-AGAAAAGGAAAGGAAAAA
17950441 AAAGAAAAAA
1 AAAGAAAAAA
17950451 AGGTAATTTT
Statistics
Matches: 113, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
42 13 0.12
43 22 0.19
44 7 0.06
45 17 0.15
46 25 0.22
47 29 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (45 bp):
AAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAAAAA
Found at i:17953958 original size:11 final size:11
Alignment explanation
Indices: 17953942--17953968 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17953932 TTTATAACTT
17953942 AATTTGGATAC
1 AATTTGGATAC
17953953 AATTTGGATAC
1 AATTTGGATAC
17953964 AATTT
1 AATTT
17953969 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:17960853 original size:19 final size:20
Alignment explanation
Indices: 17960812--17960853 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
17960802 ATTTCTATGC
* *
17960812 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
17960832 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
17960851 CAT
1 CAT
17960854 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:17961412 original size:25 final size:25
Alignment explanation
Indices: 17961378--17961427 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
17961368 AATTAATTAA
17961378 CTAGGTACCAATTTTTGGGCGTTAT
1 CTAGGTACCAATTTTTGGGCGTTAT
17961403 CTAGGTACCAATTTTTGGGCGTTAT
1 CTAGGTACCAATTTTTGGGCGTTAT
17961428 GAGGGTGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (25 bp):
CTAGGTACCAATTTTTGGGCGTTAT
Found at i:17964266 original size:24 final size:24
Alignment explanation
Indices: 17964230--17964292 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
17964220 ATTTTTGAAC
* * *
17964230 TTATTGTGCATTATTATTCTAAAA-
1 TTATTATGTATTATTACT-TAAAAG
17964254 TTATTATGTATTATTACTTAAAAG
1 TTATTATGTATTATTACTTAAAAG
17964278 TTA-TACTGTATTATT
1 TTATTA-TGTATTATT
17964293 TTTTTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
TTATTATGTATTATTACTTAAAAG
Found at i:17970909 original size:31 final size:31
Alignment explanation
Indices: 17970868--17970971 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
17970858 CTACACCATA
*
17970868 GGTCATCCAACTATTGTCCCTTTTCTTTTTT
1 GGTCACCCAACTATTGTCCCTTTTCTTTTTT
* **
17970899 GGTCACCCAACTATTAAT---TATTT-TAGTTT
1 GGTCACCCAACTATT-GTCCCT-TTTCTTTTTT
* *
17970928 GGTCACCTAACTAGTG-CCTCTTTTCTTTTTT
1 GGTCACCCAACTATTGTCC-CTTTTCTTTTTT
17970959 GGTCACCCAACTA
1 GGTCACCCAACTA
17970972 ATCGAGATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
29 18 0.32
30 6 0.11
31 31 0.55
32 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (31 bp):
GGTCACCCAACTATTGTCCCTTTTCTTTTTT
Found at i:17979650 original size:27 final size:29
Alignment explanation
Indices: 17979610--17979667 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
17979600 AGGGTAAATT
17979610 AGGGGGGGGGGGGG-GGAGAGACAATCAG
1 AGGGGGGGGGGGGGAGGAGAGACAATCAG
*
17979638 NGGGGGGGGGGGGGAGGAGAGACAATCAG
1 AGGGGGGGGGGGGGAGGAGAGACAATCAG
17979667 A
1 A
17979668 CAAGTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.26, C:0.07, G:0.62, T:0.03
Consensus pattern (29 bp):
AGGGGGGGGGGGGGAGGAGAGACAATCAG
Found at i:17980337 original size:15 final size:15
Alignment explanation
Indices: 17980317--17980368 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
17980307 TAAGAGATGA
17980317 AACATCATCAGCAAC
1 AACATCATCAGCAAC
**
17980332 AACATCAGGAG-ATGA-
1 AACATCATCAGCA--AC
17980347 AACATCATCAGCAAC
1 AACATCATCAGCAAC
17980362 AACATCA
1 AACATCA
17980369 GTTTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 2 0.07
15 25 0.86
16 2 0.07
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.13
Consensus pattern (15 bp):
AACATCATCAGCAAC
Found at i:17980346 original size:30 final size:30
Alignment explanation
Indices: 17980310--17980369 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17980300 TCTCTTCTAA
17980310 GAGATGAAACATCATCAGCAACAACATCAG
1 GAGATGAAACATCATCAGCAACAACATCAG
17980340 GAGATGAAACATCATCAGCAACAACATCAG
1 GAGATGAAACATCATCAGCAACAACATCAG
17980370 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (30 bp):
GAGATGAAACATCATCAGCAACAACATCAG
Found at i:17980376 original size:1 final size:1
Alignment explanation
Indices: 17980370--17980394 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17980360 ACAACATCAG
17980370 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
17980395 ATTCTTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17983811 original size:10 final size:10
Alignment explanation
Indices: 17983796--17983842 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
17983786 TGTGTGTCGT
17983796 CTCTTTCTTC
1 CTCTTTCTTC
17983806 CTCTTTCTCTC
1 CTCTTTCT-TC
17983817 CT-TTTCTTTC
1 CTCTTTC-TTC
* *
17983827 CTCTTTGTTG
1 CTCTTTCTTC
17983837 CTCTTT
1 CTCTTT
17983843 GCAGTAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.00, C:0.34, G:0.04, T:0.62
Consensus pattern (10 bp):
CTCTTTCTTC
Found at i:17984064 original size:2 final size:2
Alignment explanation
Indices: 17984057--17984099 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
17984047 GCCTCACCTA
* *
17984057 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG GG AG -G AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
17984098 AG
1 AG
17984100 GAAAAAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17984485 original size:21 final size:21
Alignment explanation
Indices: 17984461--17984504 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
17984451 ATGAATCTGT
* *
17984461 ATTTCATTATATATTTTTAAA
1 ATTTCATGAAATATTTTTAAA
* *
17984482 ATTTTATGAAATATTTTTTAA
1 ATTTCATGAAATATTTTTAAA
17984503 AT
1 AT
17984505 AATTTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTCATGAAATATTTTTAAA
Found at i:18000113 original size:34 final size:34
Alignment explanation
Indices: 18000068--18000143 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
18000058 ATTTGCTTAT
*
18000068 TTTTATTTTTGGGAATGAAAGGCAATGTGGTAAA
1 TTTTATGTTTGGGAATGAAAGGCAATGTGGTAAA
18000102 TTTTATGTTTGGGAATGAAAGGCAATGTGGTAAA
1 TTTTATGTTTGGGAATGAAAGGCAATGTGGTAAA
18000136 TTTTATGT
1 TTTTATGT
18000144 CTTTTTGCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.30, C:0.03, G:0.26, T:0.41
Consensus pattern (34 bp):
TTTTATGTTTGGGAATGAAAGGCAATGTGGTAAA
Found at i:18000915 original size:41 final size:41
Alignment explanation
Indices: 18000858--18001007 Score: 210
Period size: 41 Copynumber: 3.7 Consensus size: 41
18000848 AGGTGTTACA
*
18000858 AAGCCTGCTAGGCACAAAGCATGAATCAATACACTGGCACT
1 AAGCCTGCTAGGCACAAAGCATGAATCAATACACCGGCACT
* *
18000899 AAGCCTGCTAGGCACAAAGCCTAAATCAATACACCGGCACT
1 AAGCCTGCTAGGCACAAAGCATGAATCAATACACCGGCACT
* * ** *
18000940 AAGCCTGCTAGGCACAAAGCTTGAATCAACACACCAACATT
1 AAGCCTGCTAGGCACAAAGCATGAATCAATACACCGGCACT
**
18000981 AAGATTGCTAGGCACAAAGCATGAATC
1 AAGCCTGCTAGGCACAAAGCATGAATC
18001008 GCTATCTACA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (41 bp):
AAGCCTGCTAGGCACAAAGCATGAATCAATACACCGGCACT
Found at i:18005434 original size:27 final size:26
Alignment explanation
Indices: 18005393--18005590 Score: 245
Period size: 27 Copynumber: 7.4 Consensus size: 26
18005383 CCCTAAAATA
*
18005393 GGTAAAATGACCAAAATACTCCCATAT
1 GGTAAAATGACCAAAATAC-CCCATAG
*
18005420 GGTAAAATGATCAAAATACCCCCATAG
1 GGTAAAATGACCAAAATA-CCCCATAG
*
18005447 GGTAAAATGACCAAAATGCCCCATAG
1 GGTAAAATGACCAAAATACCCCATAG
*
18005473 GGTAAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCAAAATACCCC-ATAG
18005500 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACC-CCATAG
* * * *
18005527 GGTAGAATGACCGAAATTCTCCCATAA
1 GGTAAAATGACCAAAATAC-CCCATAG
*
18005554 GGTAAAATGACCGAAATA-CCCATATTG
1 GGTAAAATGACCAAAATACCCCATA--G
18005581 GGTAAAATGA
1 GGTAAAATGA
18005591 ATGTTATACC
Statistics
Matches: 151, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
25 6 0.04
26 29 0.19
27 112 0.74
28 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCAAAATACCCCATAG
Found at i:18005526 original size:80 final size:81
Alignment explanation
Indices: 18005392--18005590 Score: 276
Period size: 80 Copynumber: 2.5 Consensus size: 81
18005382 ACCCTAAAAT
* *
18005392 AGGTAAAATGACCAAAATACTCCC-ATATGGTAAAATGATCAAAATACCCCCATAGGGTAAAATG
1 AGGTAAAATGACCAAAATAC-CCCTATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATG
18005456 ACCAAAATGC-CCCATA
65 ACCAAAATGCTCCCATA
* * *
18005472 GGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCTCCATAGGGTAGAATGA
1 AGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
* *
18005537 CCGAAATTCTCCCATA
66 CCAAAATGCTCCCATA
* * **
18005553 AGGTAAAATGACCGAAATACCCATATTGGGTAAAATGA
1 AGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGA
18005591 ATGTTATACC
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
79 3 0.03
80 63 0.60
81 39 0.37
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (81 bp):
AGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
CCAAAATGCTCCCATA
Found at i:18006906 original size:18 final size:18
Alignment explanation
Indices: 18006885--18006919 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18006875 TGTATTACTT
*
18006885 TTTCTTTTTGAATTTTTC
1 TTTCGTTTTGAATTTTTC
*
18006903 TTTCGTTTTGCATTTTT
1 TTTCGTTTTGAATTTTT
18006920 AGGCTGATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTCGTTTTGAATTTTTC
Found at i:18009367 original size:13 final size:13
Alignment explanation
Indices: 18009349--18009373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18009339 TCATCTTCAG
18009349 CCTCTTGAGGATT
1 CCTCTTGAGGATT
18009362 CCTCTTGAGGAT
1 CCTCTTGAGGAT
18009374 CGTCATCCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
CCTCTTGAGGATT
Found at i:18012925 original size:16 final size:17
Alignment explanation
Indices: 18012896--18012928 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18012886 TAGGCCAGGC
*
18012896 AAAAATGTACGAAAAAG
1 AAAAATCTACGAAAAAG
18012913 AAAAATCTA-GAAAAAG
1 AAAAATCTACGAAAAAG
18012929 TCAAAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.67, C:0.06, G:0.15, T:0.12
Consensus pattern (17 bp):
AAAAATCTACGAAAAAG
Found at i:18016021 original size:41 final size:41
Alignment explanation
Indices: 18015964--18016046 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
18015954 AATCAAAGTG
18015964 AGCATTTAATTCAAATCCTTCGATGGATAATTATGTCGTCT
1 AGCATTTAATTCAAATCCTTCGATGGATAATTATGTCGTCT
18016005 AGCATTTAATTCAAATCCTTCGATGGATAATTATGTCGTCT
1 AGCATTTAATTCAAATCCTTCGATGGATAATTATGTCGTCT
18016046 A
1 A
18016047 CAATTCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (41 bp):
AGCATTTAATTCAAATCCTTCGATGGATAATTATGTCGTCT
Found at i:18021258 original size:19 final size:18
Alignment explanation
Indices: 18021226--18021271 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
18021216 AATTTCATAG
*
18021226 TTTATTATTATTTTATTCA
1 TTTATT-TTATTTTATTAA
18021245 TTTATTTTATTTTTATTAA
1 TTTATTTTA-TTTTATTAA
18021264 TATTATTT
1 T-TTATTT
18021272 GTGTTCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTTATTAA
Found at i:18021271 original size:24 final size:24
Alignment explanation
Indices: 18021226--18021271 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18021216 AATTTCATAG
*
18021226 TTTATTATTATTTTATTCATTTAT
1 TTTATTATTATTATATTCATTTAT
*
18021250 TTTATTTTTATTAATATT-ATTT
1 TTTATTATTATT-ATATTCATTT
18021272 GTGTTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTATTATTATATTCATTTAT
Found at i:18033199 original size:12 final size:12
Alignment explanation
Indices: 18033173--18033211 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18033163 GGCTTCTTCT
* *
18033173 TTACTTACTTTC
1 TTACTTGCTTAC
*
18033185 TTACTTGTTTAC
1 TTACTTGCTTAC
18033197 TTACTTGCTTAC
1 TTACTTGCTTAC
18033209 TTA
1 TTA
18033212 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:18033553 original size:49 final size:50
Alignment explanation
Indices: 18033473--18033588 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 50
18033463 CCAATGCTAA
* * ** *
18033473 TCCCAGATATGGTCTTACATGGAAGTTCTCATATCGGTGCCCA-TGCCATG
1 TCCCAGACATGGTCTTACAGGGAACCTCTCATATCGGTGCCAACT-CCATG
* * *
18033523 TCCTAGA-ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACTCCATG
1 TCCCAGACATGGTCTTACAGGGAACCTCTCATATCGGTGCCAACTCCATG
18033572 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
18033589 TGTGGGACCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 40 0.71
50 16 0.29
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGGAACCTCTCATATCGGTGCCAACTCCATG
Found at i:18033603 original size:50 final size:49
Alignment explanation
Indices: 18033473--18033604 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
18033463 CCAATGCTAA
* * *** *
18033473 TCCCAGATATGGTCTTACATGGAAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGA-ATGGTCTTACAGGGGACCACTCATATCGGTGCCAATGCCATG
* * *
18033523 TCCTAGAATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACT-CCATG
1 TCCCAGAATGGTCTTACAGGGGACCACTCATATCGGTGCCAA-TGCCATG
*
18033572 TCCCAGACATGGTCTTA-TGTGGGACCACTCATA
1 TCCCAGA-ATGGTCTTACAG-GGGACCACTCATA
18033605 ATCTCAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 41 0.60
50 27 0.40
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (49 bp):
TCCCAGAATGGTCTTACAGGGGACCACTCATATCGGTGCCAATGCCATG
Found at i:18035012 original size:16 final size:15
Alignment explanation
Indices: 18034987--18035016 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18034977 TTTTAAAGCC
18034987 TTTTTATAAATGATT
1 TTTTTATAAATGATT
18035002 TTTTGTATAAATGAT
1 TTTT-TATAAATGAT
18035017 GTCTTCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTTTATAAATGATT
Found at i:18035164 original size:31 final size:32
Alignment explanation
Indices: 18035105--18035172 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
18035095 TTTTTCAAAA
*
18035105 AGTTTCGTTATATCAAAAAGGGGGAGATTGTT
1 AGTTTCGTTATATCAAAAAGGGGCAGATTGTT
* *
18035137 AGTTTTGTTATAT-AAAAAGGTGCAGATTGTT
1 AGTTTCGTTATATCAAAAAGGGGCAGATTGTT
18035168 AGTTT
1 AGTTT
18035173 AGATTTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (32 bp):
AGTTTCGTTATATCAAAAAGGGGCAGATTGTT
Found at i:18044798 original size:17 final size:17
Alignment explanation
Indices: 18044776--18044808 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18044766 TTTAGTGTAC
*
18044776 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
18044793 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
18044809 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:18050867 original size:17 final size:17
Alignment explanation
Indices: 18050809--18050867 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
18050799 GATAGTTTGC
*
18050809 ATAAAATAACAATTCAT
1 ATAAAATAACAGTTCAT
* *
18050826 ATGAAATAATAGTTCAT
1 ATAAAATAACAGTTCAT
** *
18050843 GCATAATAACAGTTCAT
1 ATAAAATAACAGTTCAT
*
18050860 TTAAAATA
1 ATAAAATA
18050868 GTAGTTCGTA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (17 bp):
ATAAAATAACAGTTCAT
Found at i:18051886 original size:33 final size:33
Alignment explanation
Indices: 18051835--18051925 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 33
18051825 CATTACAAAA
18051835 ACCCATATA-CATATATATTATATA-AAACAAG
1 ACCCATATATCATATATATTATATATAAACAAG
* *
18051866 ACTCATATATGCATATATATTATATATAACCAAG
1 ACCCATATAT-CATATATATTATATATAAACAAG
**
18051900 ACCCATGCAT-ATATATATTATATATA
1 ACCCATATATCATATATATTATATATA
18051926 TAAGAAAACC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.15
32 16 0.31
33 15 0.29
34 13 0.25
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.34
Consensus pattern (33 bp):
ACCCATATATCATATATATTATATATAAACAAG
Found at i:18051910 original size:30 final size:31
Alignment explanation
Indices: 18051874--18051948 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
18051864 AGACTCATAT
* *
18051874 ATGCATATATATTATATATA-ACCAAGACCC
1 ATGCATATATATTATATATATAACAAAACCC
*
18051904 ATGCATATATATATTATATATATAAGAAAACCC
1 ATGC--ATATATATTATATATATAACAAAACCC
*
18051937 ACGCATATATAT
1 ATGCATATATAT
18051949 ATTCTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 8 0.21
32 16 0.42
33 10 0.26
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (31 bp):
ATGCATATATATTATATATATAACAAAACCC
Found at i:18051943 original size:33 final size:32
Alignment explanation
Indices: 18051878--18051958 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 32
18051868 TCATATATGC
* * *
18051878 ATATATATTATATATAACCAAGACCCATGCAT
1 ATATATATTATATATAAACAAAACCCACGCAT
*
18051910 ATATATATTATATATATAAGAAAACCCACGCAT
1 ATATATATTATATATA-AACAAAACCCACGCAT
*
18051943 ATATATATTCTATATA
1 ATATATATTATATATA
18051959 CACATACCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 16 0.37
33 27 0.63
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.35
Consensus pattern (32 bp):
ATATATATTATATATAAACAAAACCCACGCAT
Found at i:18062139 original size:12 final size:12
Alignment explanation
Indices: 18062122--18062151 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18062112 TCAGTGACTT
18062122 ACACGGCCTAGC
1 ACACGGCCTAGC
*
18062134 ACACGGCCTGGC
1 ACACGGCCTAGC
18062146 ACACGG
1 ACACGG
18062152 GCGTGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:18067539 original size:67 final size:67
Alignment explanation
Indices: 18067431--18067575 Score: 290
Period size: 67 Copynumber: 2.2 Consensus size: 67
18067421 TTTACAAGCA
18067431 GCCCTCAAAGATGACAAACTTTAGAAGCTTCTATCTTTCTTAACTAGAATCAAAAGCAAAATCAA
1 GCCCTCAAAGATGACAAACTTTAGAAGCTTCTATCTTTCTTAACTAGAATCAAAAGCAAAATCAA
18067496 TG
66 TG
18067498 GCCCTCAAAGATGACAAACTTTAGAAGCTTCTATCTTTCTTAACTAGAATCAAAAGCAAAATCAA
1 GCCCTCAAAGATGACAAACTTTAGAAGCTTCTATCTTTCTTAACTAGAATCAAAAGCAAAATCAA
18067563 TG
66 TG
18067565 GCCCTCAAAGA
1 GCCCTCAAAGA
18067576 CTTAGGCTCA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (67 bp):
GCCCTCAAAGATGACAAACTTTAGAAGCTTCTATCTTTCTTAACTAGAATCAAAAGCAAAATCAA
TG
Found at i:18068482 original size:13 final size:13
Alignment explanation
Indices: 18068464--18068490 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18068454 TTTCAAAACC
18068464 TAGTAGGTATCGA
1 TAGTAGGTATCGA
18068477 TAGTAGGTATCGA
1 TAGTAGGTATCGA
18068490 T
1 T
18068491 CCAGTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (13 bp):
TAGTAGGTATCGA
Found at i:18069778 original size:13 final size:13
Alignment explanation
Indices: 18069755--18069790 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
18069745 ACCAAATCGA
18069755 CCACGCACTTTCTC
1 CCAC-CACTTTCTC
*
18069769 CCACCACTTTTTC
1 CCACCACTTTCTC
18069782 CCACCACTT
1 CCACCACTT
18069791 GGGGATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.17, C:0.50, G:0.03, T:0.31
Consensus pattern (13 bp):
CCACCACTTTCTC
Found at i:18071330 original size:11 final size:11
Alignment explanation
Indices: 18071289--18071333 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
18071279 AAGACAAGCA
18071289 TTTTCATTAAG
1 TTTTCATTAAG
* *
18071300 TTTTAATTATG
1 TTTTCATTAAG
18071311 TTTTC-TTAAG
1 TTTTCATTAAG
*
18071321 TTTTCTTTAAG
1 TTTTCATTAAG
18071332 TT
1 TT
18071334 AATAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (11 bp):
TTTTCATTAAG
Found at i:18075328 original size:334 final size:334
Alignment explanation
Indices: 18074719--18075381 Score: 1308
Period size: 334 Copynumber: 2.0 Consensus size: 334
18074709 GGTAAAGAGC
18074719 TCTACTCTAAGGGGGCAAGTTCAGGATTTGTCAGAGGCTTTTACTAGTTTGCGAGCTCACAACAT
1 TCTACTCTAAGGGGGCAAGTTCAGGATTTGTCAGAGGCTTTTACTAGTTTGCGAGCTCACAACAT
18074784 GAAATTAAACCTGGAGAAATGTGTTTTCGCTATTAGAGCGGGCAAATTTTTAGACTTCTTGGTTT
66 GAAATTAAACCTGGAGAAATGTGTTTTCGCTATTAGAGCGGGCAAATTTTTAGACTTCTTGGTTT
18074849 TAGAAAGAGGGATAGAAGTAAACCCAGAGAAGATTTGAACTATTTTGGATATGCCTCCCTTAAGG
131 TAGAAAGAGGGATAGAAGTAAACCCAGAGAAGATTTGAACTATTTTGGATATGCCTCCCTTAAGG
18074914 ACTATCAAGGATATTCAGCGTATAATGAGGAGGGTGGTTGCGCTCAACAGGTTCACCTCCAAGAT
196 ACTATCAAGGATATTCAGCGTATAATGAGGAGGGTGGTTGCGCTCAACAGGTTCACCTCCAAGAT
18074979 GGCAGACATCTTTAAAGCTTTAAGAACTTCTTTTACATGGACAGAAGAATGCCAAGTTGCTTTTG
261 GGCAGACATCTTTAAAGCTTTAAGAACTTCTTTTACATGGACAGAAGAATGCCAAGTTGCTTTTG
18075044 AGAACTTCT
326 AGAACTTCT
18075053 TCTACTCTAAGGGGGCAAGTTCAGGATTTGTCAGAGGCTTTTACTAGTTTGCGAGCTCACAACAT
1 TCTACTCTAAGGGGGCAAGTTCAGGATTTGTCAGAGGCTTTTACTAGTTTGCGAGCTCACAACAT
18075118 GAAATTAAACCTGGAGAAATGTGTTTTCGCTATTAGAGCGGGCAAATTTTTAGACTTCTTGGTTT
66 GAAATTAAACCTGGAGAAATGTGTTTTCGCTATTAGAGCGGGCAAATTTTTAGACTTCTTGGTTT
18075183 TAGAAAGAGGGATAGAAGTAAACCCAGAGAAGATTTGAACTATTTTGGATATGCCTCCCTTAAGG
131 TAGAAAGAGGGATAGAAGTAAACCCAGAGAAGATTTGAACTATTTTGGATATGCCTCCCTTAAGG
* *
18075248 ACTATCAAGGATATTCAGCGTATAATGAGGAGGGTGGTTGTGCTCAACAGGTTCACCTCCAGGAT
196 ACTATCAAGGATATTCAGCGTATAATGAGGAGGGTGGTTGCGCTCAACAGGTTCACCTCCAAGAT
18075313 GGCAGACATCTTTAAAGCTTTAAGAACTTCTTTTACATGGACAGAAGAATGCCAAGTTGCTTTTG
261 GGCAGACATCTTTAAAGCTTTAAGAACTTCTTTTACATGGACAGAAGAATGCCAAGTTGCTTTTG
18075378 AGAA
326 AGAA
18075382 GCTTAAGTCA
Statistics
Matches: 327, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
334 327 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (334 bp):
TCTACTCTAAGGGGGCAAGTTCAGGATTTGTCAGAGGCTTTTACTAGTTTGCGAGCTCACAACAT
GAAATTAAACCTGGAGAAATGTGTTTTCGCTATTAGAGCGGGCAAATTTTTAGACTTCTTGGTTT
TAGAAAGAGGGATAGAAGTAAACCCAGAGAAGATTTGAACTATTTTGGATATGCCTCCCTTAAGG
ACTATCAAGGATATTCAGCGTATAATGAGGAGGGTGGTTGCGCTCAACAGGTTCACCTCCAAGAT
GGCAGACATCTTTAAAGCTTTAAGAACTTCTTTTACATGGACAGAAGAATGCCAAGTTGCTTTTG
AGAACTTCT
Found at i:18077990 original size:132 final size:132
Alignment explanation
Indices: 18077751--18078686 Score: 947
Period size: 132 Copynumber: 7.1 Consensus size: 132
18077741 CAAGGTTTAT
* * * * ** * *
18077751 TGATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAATTGGCATCATCAAGGTTC
1 TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
* * * * * *
18077816 GCCT-ATTTAAGATTGCAACCTAATGTTCATTCTATTTGAGATCATGAACAATTCTATTTAAGTT
66 G-TTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTT
*
18077880 AGT
130 AGC
* * * * * * *
18077883 TGATTTAATATAGTAGCTCCAAAAAACTTGTTGATTTAAGATCACAGCTGGTATGATCAAGGTTC
1 TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
** * *
18077948 ACTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTGACTTA
66 GTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTTA
18078013 GC
131 GC
* * * * * * * *
18078015 TAATTTAAGATTGCAACTCTGAACAGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTC
1 TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
* * * *
18078080 GTTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTTAGATCATGAACAATTTTAGTTGAGTTA
66 GTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTTA
18078145 GC
131 GC
* * * * * * * * * *
18078147 TAATTTAAGATTGCAACTCTGAATAGCTTGCTGATTTAAGATCGTAGCTGGTATCATCAAGGTTC
1 TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
* * * * *
18078212 GTTGATTTAAGATCCCAACTTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTATTGAAGTTA
66 GTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTTA
18078277 GC
131 GC
* * *
18078279 TGATTTAATATCA-CAACTCCGAACAACTCGCTGATTTAAGATCATCA-CTAGTATTATCAAGGT
1 TGATTTAATAT-AGCAACTCCGAACAACTCGTTGATTTAAGATC-GCAGCTGGTATTATCAAGGT
** * * * * *
18078342 TTTTTTAGTTAAGATCACAACGTAAAGTTCATTTGATTTCAGATCATGAACAATTTTATTTAAGT
64 TCGTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGT
18078407 TAGC
129 TAGC
* * * * * * *
18078411 TTATTTAATATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAGTTGGTATTATCAAGGTTC
1 TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
* * * * * * *
18078476 ATTGATTTAAGATTGCAACCTAAAGTTCATTTC-ATTTCAAATCATGAAAAAATTTAATTGAGTT
66 GTTGATTTAAGATCGCAACCTAAAGTTCA-TTCGATTTCAGATCATGAACAATTTTATTTAAGTT
* *
18078540 TGT
130 AGC
* * * *
18078543 TGATTTAAGATCA-CAACTCCGAACAACTCATTGATTTAATATCGCAACTGGTATTATCAAGGTT
1 TGATTTAATAT-AGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTT
* * * * * *
18078607 CGTTGATTTAATAT--C-A-C-AAAGTTCGTTAGATTTGAAATCATGAACAATTTTATTTAAGGT
65 CGTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTT
18078667 AGC
130 AGC
*
18078670 TGATTTAATATTGCAAC
1 TGATTTAATATAGCAAC
18078687 CTAAAATTTA
Statistics
Matches: 671, Mismatches: 124, Indels: 23
0.82 0.15 0.03
Matches are distributed among these distances:
126 2 0.00
127 47 0.07
128 1 0.00
129 1 0.00
130 1 0.00
131 4 0.01
132 612 0.91
133 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (132 bp):
TGATTTAATATAGCAACTCCGAACAACTCGTTGATTTAAGATCGCAGCTGGTATTATCAAGGTTC
GTTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAAGTTA
GC
Found at i:18078021 original size:65 final size:65
Alignment explanation
Indices: 18077952--18078163 Score: 189
Period size: 65 Copynumber: 3.2 Consensus size: 65
18077942 AGGTTCACTG
* *
18077952 ATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTGACTTAGCTA
1 ATTTAAGATCGCAACCTAAAGTTCATTCGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTA
* * * * * * **
18078017 ATTTAAGATTGCAACTCTGAACAGCTCGTT-GATTTAAGATCGT-AGC--TTGTATCATCAAGGT
1 ATTTAAGATCGCAAC-CT-AA-AGTTCATTCGATTTAAGATCATGAACAATTTTAT--TTGA-GT
* * *
18078078 TCGTTG
60 TAGCTA
* * *
18078084 ATTTAAGATCTCAACCTAAAGTTCATTCGATTTTAGATCATGAACAATTTTAGTTGAGTTAGCTA
1 ATTTAAGATCGCAACCTAAAGTTCATTCGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTA
*
18078149 ATTTAAGATTGCAAC
1 ATTTAAGATCGCAAC
18078164 TCTGAATAGC
Statistics
Matches: 108, Mismatches: 29, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
64 11 0.10
65 45 0.42
66 12 0.11
67 30 0.28
68 10 0.09
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (65 bp):
ATTTAAGATCGCAACCTAAAGTTCATTCGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTA
Found at i:18078088 original size:67 final size:66
Alignment explanation
Indices: 18078017--18078224 Score: 178
Period size: 67 Copynumber: 3.1 Consensus size: 66
18078007 GACTTAGCTA
18078017 ATTTAAGATTGCAACTCTGAACAGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTCGT
1 ATTTAAGATTGCAACTCTGAA-AGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTCGT
18078082 TG
65 TG
* * * * * **
18078084 ATTTAAGATCT-CAAC-CT-AAAGTTCATTCGATTTTAGATCATGAACAATT-T-T-AGTTGA-G
1 ATTTAAGAT-TGCAACTCTGAAAGCTCGTT-GATTTAAGATCGT-AGC--TTGTATCA-TCAAGG
* * *
18078142 TTAGCTA
60 TTCGTTG
* * *
18078149 ATTTAAGATTGCAACTCTGAATAGCTTGCTGATTTAAGATCGTAGCTGGTATCATCAAGGTTCGT
1 ATTTAAGATTGCAACTCTGAA-AGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTCGT
18078214 TG
65 TG
18078216 ATTTAAGAT
1 ATTTAAGAT
18078225 CCCAACTTAA
Statistics
Matches: 104, Mismatches: 23, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
64 8 0.08
65 33 0.32
66 14 0.13
67 42 0.40
68 7 0.07
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (66 bp):
ATTTAAGATTGCAACTCTGAAAGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTCGTT
G
Found at i:18078223 original size:264 final size:262
Alignment explanation
Indices: 18077751--18078686 Score: 1060
Period size: 264 Copynumber: 3.6 Consensus size: 262
18077741 CAAGGTTTAT
** * * *
18077751 TGATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAATTGGCATCATCAAGGTTC
1 TGATTTAAGATCACAACTCCGAACAACTCGCTGATTTAAGATCGCACTT-GTATCATCAAGGTTC
* * * *
18077816 GCCT-ATTTAAGAT-TGCAACCTAATGTTCATTCTATTTGAGATCATGAACAATTCTATTTAAGT
65 G-TTGATTTAAGATCT-CAACCTAAAGTTCATTCGATTTGAGATCATGAACAATTTTATTTAAGT
* * * * * * *
18077879 TAGTTGATTTAATATAGTAGCTCCAAAAAACTTGTTGATTTAAGATCACAGCTGGTATGATCAAG
128 TAGCTGATTTAATATTGCAACTCCAAAAAGCTTGTTGATTTAAGATCGCAGCTGGTATCATCAAG
* * *
18077944 GTTCACTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTGA
193 GTTCATTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTA-TTGA
*
18078009 CTTAGC
257 GTTAGC
* ** * * * *
18078015 TAATTTAAGATTGCAACTCTGAACAGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGGTTC
1 TGATTTAAGATCACAACTCCGAACAACTCGCTGATTTAAGATCGCA-CTTGTATCATCAAGGTTC
* * *
18078080 GTTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTTAGATCATGAACAATTTTAGTTGAGTTA
65 GTTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTGAGATCATGAACAATTTTATTTAAGTTA
* * ** * * *
18078145 GCTAATTTAAGATTGCAACTCTGAATAGCTTGCTGATTTAAGATCGTAGCTGGTATCATCAAGGT
130 GCTGATTTAATATTGCAACTCCAAAAAGCTTGTTGATTTAAGATCGCAGCTGGTATCATCAAGGT
* * *
18078210 TCGTTGATTTAAGATCCCAACTTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTATTGAAGT
195 TCATTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTATTG-AGT
18078275 TAGC
259 TAGC
* * * * *
18078279 TGATTTAATATCACAACTCCGAACAACTCGCTGATTTAAGATCATCACTAGTATTATCAAGGTTT
1 TGATTTAAGATCACAACTCCGAACAACTCGCTGATTTAAGATC-GCACTTGTATCATCAAGGTTC
* * * * * * *
18078344 TTTTAGTTAAGATCACAACGTAAAGTTCATTTGATTTCAGATCATGAACAATTTTATTTAAGTTA
65 GTTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTGAGATCATGAACAATTTTATTTAAGTTA
* * * ** * * *
18078409 GCTTATTTAATATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAGTTGGTATTATCAAGGT
130 GCTGATTTAATATTGCAACTCCAAAAAGCTTGTTGATTTAAGATCGCAGCTGGTATCATCAAGGT
* *
18078474 TCATTGATTTAAGATTGCAACCTAAAGTTCATTTC-ATTTCAAATCATGAAAAAATTTAATTGAG
195 TCATTGATTTAAGATCGCAACCTAAAGTTCA-TTCGATTTCAAATCATG-AAAAATTTTATTGAG
* *
18078538 TTTGT
258 TTAGC
** * * *
18078543 TGATTTAAGATCACAACTCCGAACAACTCATTGATTTAATATCGCAACTGGTATTATCAAGGTTC
1 TGATTTAAGATCACAACTCCGAACAACTCGCTGATTTAAGATCGC-ACTTGTATCATCAAGGTTC
* * * * *
18078608 GTTGATTT-A-ATATC-A-C-AAAGTTCGTTAGATTTGAAATCATGAACAATTTTATTTAAGGTA
65 GTTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTGAGATCATGAACAATTTTATTTAAGTTA
18078668 GCTGATTTAATATTGCAAC
130 GCTGATTTAATATTGCAAC
18078687 CTAAAATTTA
Statistics
Matches: 567, Mismatches: 97, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
259 56 0.10
261 1 0.00
262 3 0.01
263 6 0.01
264 482 0.85
265 19 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (262 bp):
TGATTTAAGATCACAACTCCGAACAACTCGCTGATTTAAGATCGCACTTGTATCATCAAGGTTCG
TTGATTTAAGATCTCAACCTAAAGTTCATTCGATTTGAGATCATGAACAATTTTATTTAAGTTAG
CTGATTTAATATTGCAACTCCAAAAAGCTTGTTGATTTAAGATCGCAGCTGGTATCATCAAGGTT
CATTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTATTGAGTTA
GC
Found at i:18078485 original size:396 final size:393
Alignment explanation
Indices: 18077753--18078686 Score: 1128
Period size: 396 Copynumber: 2.4 Consensus size: 393
18077743 AGGTTTATTG
* *
18077753 ATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAATTGGCATCATCAAGGTTCGC
1 ATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAACTGGTATCATCAAGGTTCG-
* * * * *
18077818 CT-ATTTAAGATTGCAACCTAATGTTCATTCTATTTGAGATCATGAACAATTCTATTTAAGTTAG
65 TTGATTTAAGA-T-CAA-CTAAAGTTCATTCGATTTGAAATCATGAACAATTTTATTTAAGTTAG
* * * * * *
18077882 TTGATTTAATATAGTAGCTCCAAAAAACTTGTTGATTTAAGATCACAGCTGGTATGATCAAGGTT
127 CTGATTTAATATAGCAACTCCAAAAAACTCGCTGATTTAAGATCACAGCTAGTATGATCAAGGTT
* * *
18077947 CACTGATTTAAGATCGCAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTGACTT
192 CACTGAGTTAAGATCACAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAACTT
* ** * * *
18078012 AGCTAATTTAAGATTGCAACTCTGAACAGCTCGTTGATTTAAGATCGTAGCTTGTATCATCAAGG
257 AGCTAATTTAAGATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAGCTTGTATCATCAAGG
* * * * * *
18078077 TTCGTTGATTTAAGATCT-CAACCTAAAGTTCA-TTCGATTTTAGATCATGAACAATTTTAGTTG
322 TTCATTGATTTAAGAT-TGCAACCTAAAGTTCATTTC-ATTTCAAATCATGAAAAAATTTAATTG
18078140 AGTTAGCTA
385 AGTTAGCTA
* * * * * * *
18078149 ATTTAAGATTGCAACTCTGAATAGCTTGCTGATTTAAGATCGTAGCTGGTATCATCAAGGTTCGT
1 ATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAACTGGTATCATCAAGGTTCGT
* * *
18078214 TGATTTAAGATCCCAACTTAAAGTTCATTCGATTTCAAATCATGAAAAATTTTATTGAAGTTAGC
66 TGATTTAAGAT--CAAC-TAAAGTTCATTCGATTTGAAATCATGAACAATTTTATTTAAGTTAGC
* * *
18078279 TGATTTAATATCA-CAACTCCGAACAACTCGCTGATTTAAGATCATCA-CTAGTATTATCAAGGT
128 TGATTTAATAT-AGCAACTCCAAAAAACTCGCTGATTTAAGATCA-CAGCTAGTATGATCAAGGT
*** * * * *
18078342 TTTTTTAGTTAAGATCACAACGTAAAGTTCATTTGATTTCAGATCATGAACAATTTTATTTAAGT
191 TCACTGAGTTAAGATCACAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAACT
* * *
18078407 TAGCTTATTTAATATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAG-TTGGTATTATCAA
256 TAGCTAATTTAAGATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAGCTT-GTATCATCAA
18078471 GGTTCATTGATTTAAGATTGCAACCTAAAGTTCATTTCATTTCAAATCATGAAAAAATTTAATTG
320 GGTTCATTGATTTAAGATTGCAACCTAAAGTTCATTTCATTTCAAATCATGAAAAAATTTAATTG
* * *
18078536 AGTTTGTTG
385 AGTTAGCTA
** ** *
18078545 ATTTAAGATCACAACTCCGAACAACTCATTGATTTAATATCGCAACTGGTATTATCAAGGTTCGT
1 ATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAACTGGTATCATCAAGGTTCGT
* * * *
18078610 TGATTTAATATC-AC-AAAGTTCGTTAGATTTGAAATCATGAACAATTTTATTTAAGGTAGCTGA
66 TGATTTAAGATCAACTAAAGTTCATTCGATTTGAAATCATGAACAATTTTATTTAAGTTAGCTGA
*
18078673 TTTAATATTGCAAC
131 TTTAATATAGCAAC
18078687 CTAAAATTTA
Statistics
Matches: 454, Mismatches: 75, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
391 55 0.12
393 2 0.00
394 1 0.00
395 6 0.01
396 384 0.85
397 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (393 bp):
ATTTAAGATTGCAACTCCGAACAACTCGCTGATTTAATATCGCAACTGGTATCATCAAGGTTCGT
TGATTTAAGATCAACTAAAGTTCATTCGATTTGAAATCATGAACAATTTTATTTAAGTTAGCTGA
TTTAATATAGCAACTCCAAAAAACTCGCTGATTTAAGATCACAGCTAGTATGATCAAGGTTCACT
GAGTTAAGATCACAACCTAAAGTTCATTCGATTTCAGATCATGAACAATTTTATTTAACTTAGCT
AATTTAAGATCGCAACTCCAAACAGCTCATTAATTTAAGATCGCAGCTTGTATCATCAAGGTTCA
TTGATTTAAGATTGCAACCTAAAGTTCATTTCATTTCAAATCATGAAAAAATTTAATTGAGTTAG
CTA
Found at i:18081745 original size:16 final size:16
Alignment explanation
Indices: 18081724--18081755 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18081714 GTTTTGTTGC
*
18081724 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
18081740 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
18081756 CTTTCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:18082048 original size:51 final size:51
Alignment explanation
Indices: 18081985--18082173 Score: 233
Period size: 51 Copynumber: 3.7 Consensus size: 51
18081975 GGTTCACATG
*
18081985 GTAGCCTCCACATAGTACTACACATGTGACCATCACTATCTGATACACGTA
1 GTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTA
* * * * *
18082036 GTAGCCTGCACATAGTACTACATAAGTGATCGA--AGCTATCTGATACGCATA
1 GTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTATCTGATACACGTA
* * *
18082087 GTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTA
1 GTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGATACACGTA
*
18082137 GTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 GTAGCCTGCACATAGTACTACACATGTGACCATCACT
18082174 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.36
51 67 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
GTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTA
Found at i:18082188 original size:101 final size:102
Alignment explanation
Indices: 18081977--18082199 Score: 247
Period size: 101 Copynumber: 2.2 Consensus size: 102
18081967 ATGATACCGG
* *
18081977 TTCACATGGTAGCCTCCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCC
1 TTCACATAGTAGCCTCCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCC
* * **
18082042 TGCACATAGTACTACATAAGTGATCGAAGCTATCTGA
66 TGCACATAGTACTACACAAGTGATCCAAGCTATCACA
* * * * *
18082079 TACGCATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGC
1 TTCACATAGTAGCCTCCACATAGTACTACACATGCGACC-ATCACTATCTGATACACGTAGTAGC
* * *
18082142 CTGCACATAGTACTACACACGTGA-CCATCA-CTTTCACT
65 CTGCACATAGTACTACACAAGTGATCCA--AGCTATCACA
* *
18082180 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTCCACA
18082200 CAGTCCATGC
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
100 2 0.02
101 58 0.59
102 35 0.35
103 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
TTCACATAGTAGCCTCCACATAGTACTACACATGCGACCATCACTATCTGATACACGTAGTAGCC
TGCACATAGTACTACACAAGTGATCCAAGCTATCACA
Found at i:18087451 original size:26 final size:25
Alignment explanation
Indices: 18087405--18087458 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
18087395 CAGTGACTGG
*
18087405 TTTGACCAAATGATTCTATTAACTTA
1 TTTGACCAAATGATTCCATTAAC-TA
*
18087431 TTTGACCAACT-AGTTCCATTAACTA
1 TTTGACCAAATGA-TTCCATTAACTA
18087456 TTT
1 TTT
18087459 ATTTAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (25 bp):
TTTGACCAAATGATTCCATTAACTA
Found at i:18088887 original size:30 final size:30
Alignment explanation
Indices: 18088788--18088893 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
18088778 AAACACCCGA
*
18088788 TCTTCACAAGCTCCTGAACGAGATATCAGG
1 TCTTCCCAAGCTCCTGAACGAGATATCAGG
* * *
18088818 TCTTTTCAATCCCAAGATCCTGAATGAGATAT-TGAG
1 TC---T---TCCCAAGCTCCTGAACGAGATATCAG-G
*
18088854 TCTTCCCAAGCCCCTGAACGAGATATCAGG
1 TCTTCCCAAGCTCCTGAACGAGATATCAGG
*
18088884 TCTTCTCAAG
1 TCTTCCCAAG
18088894 TACTTGAACG
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
30 32 0.54
31 1 0.02
33 2 0.03
35 1 0.02
36 23 0.39
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (30 bp):
TCTTCCCAAGCTCCTGAACGAGATATCAGG
Found at i:18095059 original size:62 final size:62
Alignment explanation
Indices: 18094962--18095147 Score: 354
Period size: 62 Copynumber: 3.0 Consensus size: 62
18094952 TATCAATTAC
18094962 AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
1 AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
18095024 AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
1 AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
* *
18095086 AATCTTCTATAGTTTGTATTACTTTTAAGAGTTAATTACACTAAATATTCTCAAACTATGAT
1 AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
18095148 GCTCATTTTA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 122 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (62 bp):
AATCTTCTATAGTTTGTATTACTTTTAAGATTTAATTACACTAAACATTCTCAAACTATGAT
Found at i:18096504 original size:55 final size:55
Alignment explanation
Indices: 18096292--18096511 Score: 271
Period size: 55 Copynumber: 3.9 Consensus size: 55
18096282 TAGACGTGCT
* *
18096292 ACATAACAATCGATTTAAACATATAAACAATCA-ATTCAAAAGAAGCATTATTATTCTA
1 ACATAACAATCGATTTAAACATATAAACAAT-ATATTCAAAAGAAGC---AGTATTCCA
** * ** *
18096350 ATTTAACAATTGATTTAAACATATAAACAATCGATTCAAAAGAAACAGTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
* * *
18096405 ACATGATAATCGATTTAAACATATAAACAATTTATTCAAAAGAAGCAGTATTCCA
1 ACATAACAATCGATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
* * *
18096460 ACATAACAATCGATTTAAACATAAAAACAATATATCCAAAAGAAGCAATATT
1 ACATAACAATCGATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATT
18096512 TTTGGGAAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
55 100 0.71
58 40 0.29
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATATAAACAATATATTCAAAAGAAGCAGTATTCCA
Found at i:18097641 original size:30 final size:30
Alignment explanation
Indices: 18097595--18097683 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
18097585 ATTTCTTATG
*
18097595 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
18097626 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
18097655 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18097681 CCA
1 CCA
18097684 TAAATATGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
25 23 0.43
26 2 0.04
29 2 0.04
30 19 0.36
31 7 0.13
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:18097650 original size:15 final size:15
Alignment explanation
Indices: 18097605--18097651 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18097595 CCAATATCTC
18097605 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18097620 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18097635 GATACCCATATCTTT
1 GATACCCATATCTTT
18097650 GA
1 GA
18097652 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:18099828 original size:33 final size:33
Alignment explanation
Indices: 18099791--18099857 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18099781 AAAATATGTA
*
18099791 AAGAATCATAATCAGTCGCAGGTTTACGAACCC
1 AAGAATCATAATCAGTCGCAGGTTTACCAACCC
18099824 AAGAATCATAATCAGTCGCAGGTTTACCAACCC
1 AAGAATCATAATCAGTCGCAGGTTTACCAACCC
18099857 A
1 A
18099858 CCTCTCCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (33 bp):
AAGAATCATAATCAGTCGCAGGTTTACCAACCC
Found at i:18102341 original size:30 final size:30
Alignment explanation
Indices: 18102295--18102383 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
18102285 ATTTCTTATG
*
18102295 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
18102326 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
18102355 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18102381 CCA
1 CCA
18102384 TAAATATGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
25 23 0.43
26 2 0.04
29 2 0.04
30 19 0.36
31 7 0.13
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:18102350 original size:15 final size:15
Alignment explanation
Indices: 18102305--18102351 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18102295 CCAATATCTC
18102305 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18102320 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18102335 GATACCCATATCTTT
1 GATACCCATATCTTT
18102350 GA
1 GA
18102352 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:18103508 original size:22 final size:22
Alignment explanation
Indices: 18103478--18103525 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
18103468 GCCACAACCA
* *
18103478 CTCCCGCACATTGCACTCGTCG
1 CTCCCGCACATCGCACTCGCCG
* *
18103500 CTCCTGCACGTCGCACTCGCCG
1 CTCCCGCACATCGCACTCGCCG
18103522 CTCC
1 CTCC
18103526 GTGCGCATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.50, G:0.19, T:0.21
Consensus pattern (22 bp):
CTCCCGCACATCGCACTCGCCG
Found at i:18104365 original size:3 final size:3
Alignment explanation
Indices: 18104357--18104416 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
18104347 TAGTCCCCAT
* * * * *
18104357 TTA TTA TTA TTT TTA TTT TTA TTT TTA TCA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18104405 TTA TTA TTA TTA
1 TTA TTA TTA TTA
18104417 CTACTACTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18109320 original size:14 final size:13
Alignment explanation
Indices: 18109303--18109349 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
18109293 GATGAGATGA
18109303 AAAATGAAAAAGTG
1 AAAATG-AAAAGTG
*
18109317 AAAATGAAAATTG
1 AAAATGAAAAGTG
18109330 AAAAATGCAAAAGT-
1 -AAAATG-AAAAGTG
18109344 AAAATG
1 AAAATG
18109350 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 12 0.41
14 12 0.41
15 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:18109341 original size:8 final size:7
Alignment explanation
Indices: 18109299--18109341 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
18109289 AAATGATGAG
18109299 ATGAAAA
1 ATGAAAA
18109306 ATGAAAA
1 ATGAAAA
18109313 AGTG-AAA
1 A-TGAAAA
18109320 ATGAAAA
1 ATGAAAA
*
18109327 TTGAAAA
1 ATGAAAA
*
18109334 ATGCAAA
1 ATGAAAA
18109341 A
1 A
18109342 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
6 2 0.06
7 27 0.87
8 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.16
Consensus pattern (7 bp):
ATGAAAA
Found at i:18110685 original size:44 final size:44
Alignment explanation
Indices: 18110615--18111891 Score: 1748
Period size: 44 Copynumber: 29.0 Consensus size: 44
18110605 GTTGAAAAGC
* * *
18110615 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA-AGAA
* * * * * *
18110659 AGTAGATCTTATCTTCATGTACTGACATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * *
18110703 GGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *** * *
18110747 AGTAGATCCTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
18110792 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
*
18110836 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18110880 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18110924 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18110968 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111012 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111056 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111100 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111144 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111188 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111232 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111276 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111320 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111364 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111408 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111452 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111496 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* *
18111540 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* **
18111584 AGTAGATCTTGTCTTCATGTATCAGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * *
18111628 AGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
*** * * *
18111672 AGCAGATCTTGTCTTCCCATACTGGTGATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCG-TGAAGTAGATCGAAGAA
**
18111717 AGCAGATCTTGTCTTCATGTATCCGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * *
18111761 AGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
* * * * *
18111805 AGCAGATCTTGTTTTCCTATATTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAA
18111850 AGCAGATCTTGTCTTCATGTATTGG-GTGAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
18111892 TACAAATCTT
Statistics
Matches: 1079, Mismatches: 150, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
43 17 0.02
44 951 0.88
45 111 0.10
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
Done.