Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 107 of 127
Found at i:19838287 original size:22 final size:23
Alignment explanation
Indices: 19838257--19838302 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
19838247 ATATAATATA
19838257 AAAATAATATAATTTAAATTTTT
1 AAAATAATATAATTTAAATTTTT
* *
19838280 AAAA-AATATATTTTATATTTTT
1 AAAATAATATAATTTAAATTTTT
19838302 A
1 A
19838303 TTATCAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAAATAATATAATTTAAATTTTT
Found at i:19838334 original size:32 final size:31
Alignment explanation
Indices: 19838320--19838384 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
19838310 TATAAATTAT
19838320 AATATATAATTTTTATATAAAATATAATATA
1 AATATATAATTTTTATATAAAATATAATATA
* ***
19838351 AATATATAAATTTTAATATTTTATATAATATA
1 AATATAT-AATTTTTATATAAAATATAATATA
19838383 AA
1 AA
19838385 AACAAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AATATATAATTTTTATATAAAATATAATATA
Found at i:19845511 original size:14 final size:13
Alignment explanation
Indices: 19845492--19845545 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
19845482 CTTTCCTTAA
19845492 TCTTTTTTGTTCAT
1 TCTTTTTTGTTC-T
19845506 TCTTTTTT-TT-T
1 TCTTTTTTGTTCT
*
19845517 TTTTTTTTGCTTCT
1 TCTTTTTTG-TTCT
19845531 TCTTTTTTGGTTCT
1 TCTTTTTT-GTTCT
19845545 T
1 T
19845546 TTTCTTTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 8 0.24
13 4 0.12
14 21 0.62
15 1 0.03
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (13 bp):
TCTTTTTTGTTCT
Found at i:19845521 original size:22 final size:22
Alignment explanation
Indices: 19845494--19845538 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19845484 TTCCTTAATC
*
19845494 TTTTTTGTT-CATTCTTTTTTTT
1 TTTTTTGTTGC-TTCTTCTTTTT
*
19845516 TTTTTTTTTGCTTCTTCTTTTT
1 TTTTTTGTTGCTTCTTCTTTTT
19845538 T
1 T
19845539 GGTTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTTGTTGCTTCTTCTTTTT
Found at i:19845547 original size:25 final size:25
Alignment explanation
Indices: 19845492--19845548 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
19845482 CTTTCCTTAA
**
19845492 TCTTTTTTGTTCATTCTTTTTTTTT
1 TCTTTTTTGTTCATTCTTTTTTGGT
*
19845517 TTTTTTTTGCTTC-TTCTTTTTTGGT
1 TCTTTTTTG-TTCATTCTTTTTTGGT
19845542 TCTTTTT
1 TCTTTTT
19845549 CTTTGGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (25 bp):
TCTTTTTTGTTCATTCTTTTTTGGT
Found at i:19845553 original size:14 final size:13
Alignment explanation
Indices: 19845517--19845556 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
19845507 CTTTTTTTTT
*
19845517 TTTTTTTTGCTTC
1 TTTTTTTTGGTTC
19845530 TTCTTTTTTGGTTC
1 TT-TTTTTTGGTTC
19845544 TTTTTCTTTGGTT
1 TTTTT-TTTGGTT
19845557 AAGAATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.75
Consensus pattern (13 bp):
TTTTTTTTGGTTC
Found at i:19848354 original size:13 final size:12
Alignment explanation
Indices: 19848331--19848355 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19848321 AATTTTCTTT
19848331 ATTGTAAAAAAA
1 ATTGTAAAAAAA
19848343 ATTGTAAAAAAA
1 ATTGTAAAAAAA
19848355 A
1 A
19848356 CATATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTGTAAAAAAA
Found at i:19850607 original size:24 final size:22
Alignment explanation
Indices: 19850546--19850609 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
19850536 ACTTATTGAC
19850546 TGTTTTTTTTATTCTATT-TTTTT
1 TGTTTTTTTTATT-T-TTATTTTT
**
19850569 TGTTTTTTTGCTTTTTATTTATT
1 TGTTTTTTTTATTTTTATTT-TT
19850592 TGTTATTTTTTATTTTTA
1 TGTT-TTTTTTATTTTTA
19850610 ATTAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.06
22 4 0.12
23 17 0.50
24 11 0.32
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (22 bp):
TGTTTTTTTTATTTTTATTTTT
Found at i:19851041 original size:18 final size:17
Alignment explanation
Indices: 19850999--19851053 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
19850989 TTTCCAAAAG
19850999 TTTT-TTTTTGTTTAT-T
1 TTTTATTTTTGTTT-TGT
19851015 TATTTATTTTTGTTTTGT
1 T-TTTATTTTTGTTTTGT
19851033 TTTTGATTTTT-TTTTGT
1 TTTT-ATTTTTGTTTTGT
19851050 TTTT
1 TTTT
19851054 CTTGTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.03
17 17 0.49
18 17 0.49
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTATTTTTGTTTTGT
Found at i:19851071 original size:25 final size:22
Alignment explanation
Indices: 19850999--19851072 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
19850989 TTTCCAAAAG
*
19850999 TTTTT-TTTTGTTTATTTATTTA
1 TTTTTGTTTTGTTT-TTGATTTA
*
19851021 TTTTTGTTTTGTTTTTGATTTT
1 TTTTTGTTTTGTTTTTGATTTA
*
19851043 TTTTTGTTTTTCTTGTTTTGATTTA
1 TTTTTG-TTTT-GT-TTTTGATTTA
19851068 TTTTT
1 TTTTT
19851073 TTTGGATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
22 17 0.39
23 12 0.27
24 1 0.02
25 14 0.32
ACGTcount: A:0.08, C:0.01, G:0.09, T:0.81
Consensus pattern (22 bp):
TTTTTGTTTTGTTTTTGATTTA
Found at i:19851388 original size:104 final size:102
Alignment explanation
Indices: 19851243--19851470 Score: 294
Period size: 104 Copynumber: 2.2 Consensus size: 102
19851233 GAGAACGTAG
* * *
19851243 AGATTATGCCCGAAGGTATTATAAATCTCAAAATCTTTGAATGCTCATCGTATTATAGGCATTGA
1 AGATTATG-CCGAAGGTCTTATAAATCTCAAAATCTTTGAATGCTCATCGTATCAGAGGCATTGA
* **
19851308 AACTTTGAAATTTTAAAATGTTTTGTCTAGAAGTCATAA
65 AA-TTTGAAATTTTAAAATATTTTACCTAGAAGTCATAA
* * *
19851347 AGATTATGTCCGAAGGTCTTATAAATCTCAACATCTTTGAATGCTCCTCGTATCGGAGGCATTGA
1 AGATTATG-CCGAAGGTCTTATAAATCTCAAAATCTTTGAATGCTCATCGTATCAGAGGCATTGA
* * * *
19851412 AATTTTAAATTTTAAAATATTTTACCTAGAGGTCTTAC
65 AATTTGAAATTTTAAAATATTTTACCTAGAAGTCATAA
*
19851450 AGATTATGCCTGAAGATCTTA
1 AGATTATGCC-GAAGGTCTTA
19851471 AAGATTATGC
Statistics
Matches: 108, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
102 2 0.02
103 46 0.43
104 60 0.56
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (102 bp):
AGATTATGCCGAAGGTCTTATAAATCTCAAAATCTTTGAATGCTCATCGTATCAGAGGCATTGAA
ATTTGAAATTTTAAAATATTTTACCTAGAAGTCATAA
Found at i:19851475 original size:22 final size:22
Alignment explanation
Indices: 19851444--19851514 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
19851434 TACCTAGAGG
*
19851444 TCTTACAGATTATGCCTGAAGA
1 TCTTAAAGATTATGCCTGAAGA
* * *
19851466 TCTTAAAGATTATGCTTGGAGG
1 TCTTAAAGATTATGCCTGAAGA
* *
19851488 TCTTAGAGATTATGTCT-AGAGA
1 TCTTAAAGATTATGCCTGA-AGA
19851510 TCTTA
1 TCTTA
19851515 CAAATTCTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (22 bp):
TCTTAAAGATTATGCCTGAAGA
Found at i:19851771 original size:22 final size:22
Alignment explanation
Indices: 19851739--19851796 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19851729 GCCCAGAGAC
* *
19851739 CTTAAAAATTATGCT-TGAAGGT
1 CTTAAAGATTATGCTAAG-AGGT
*
19851761 CTTAGAGATTATGCTAAGAGGT
1 CTTAAAGATTATGCTAAGAGGT
19851783 CTTAAAGATTATGC
1 CTTAAAGATTATGC
19851797 CCAAAGGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (22 bp):
CTTAAAGATTATGCTAAGAGGT
Found at i:19851804 original size:22 final size:21
Alignment explanation
Indices: 19851756--19851808 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
19851746 ATTATGCTTG
* *
19851756 AAGGTCTTAGAGATTATGCTA
1 AAGGTCTTAAAGATTATGCCA
19851777 AGAGGTCTTAAAGATTATGCCCA
1 A-AGGTCTTAAAGATTATG-CCA
19851800 AAGGTCTTA
1 AAGGTCTTA
19851809 CAAATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (21 bp):
AAGGTCTTAAAGATTATGCCA
Found at i:19851811 original size:148 final size:147
Alignment explanation
Indices: 19851344--19851977 Score: 571
Period size: 148 Copynumber: 4.3 Consensus size: 147
19851334 CTAGAAGTCA
* * * * * *
19851344 TAAAGATTATGTCCGAAGGTCTTATAAATCTCAACATCTTTGAATGCTCCTCGTATCGGAGGCAT
1 TAAAGATTATGTCCAAAGATCTTACAAATCTTAACATCTTTGAATGCTCTTCGTATCAGAGGCAT
* * * *
19851409 TGAAA-TTTTAAATTTTAAAATATTTTACCTAGAGGTCTTACAGATTATGCCTGAAGATCTTAAA
66 TGAAACTTTGAAAATTTAAAATATTTT-CCTAGAGGTCTTACAGATTATGCTTGAAGGTCTTAAA
*
19851473 GATTATGCTTGGAGGTCT
130 GATTATGCTAGGAGGTCT
* * * *
19851491 TAGAGATTATGTCTAGAGATCTTACAAAT-TCTAACATATTTGAATGCTCTTTC-TATCAGAGGC
1 TAAAGATTATGTCCAAAGATCTTACAAATCT-TAACATCTTTGAATGCTC-TTCGTATCAGAGGC
* * * * * ** *
19851554 ATTGAAACTTTGAAATTTTAAAATATTTTACTGGAGGTTTTACAGATTAT-ATCAAAGGTCATAA
64 ATTGAAACTTTGAAAATTTAAAATATTTTCCTAGAGGTCTTACAGATTATGCTTGAAGGTCTTAA
*
19851618 AGATTATGTTAGGAGGTCT
129 AGATTATGCTAGGAGGTCT
* ** * * * * *
19851637 TAGAGATTATGAGCGAATATCTTACAAATCTTGATATCTTTGAATGCTCATCGTATCAGAGGCAT
1 TAAAGATTATGTCCAAAGATCTTACAAATCTTAACATCTTTGAATGCTCTTCGTATCAGAGGCAT
* * * * ** * * *
19851702 TAAAACTTTAAAAATTTAAAATGTTTTGCCCAGAGACCTTAAAAATTATGCTTGAAGGTCTTAGA
66 TGAAACTTTGAAAATTTAAAATATTTT-CCTAGAGGTCTTACAGATTATGCTTGAAGGTCTTAAA
*
19851767 GATTATGCTAAGAGGTCT
130 GATTATGCTAGGAGGTCT
* * * * * * *
19851785 TAAAGATTATGCCCAAAGGTCTTACAAATTTTAACATTTTTTAACGCTCTTCATATCAGAGGCAT
1 TAAAGATTATGTCCAAAGATCTTACAAATCTTAACATCTTTGAATGCTCTTCGTATCAGAGGCAT
* * * * ** * * *
19851850 TGAAACTTTGAAAATTTAAAATACTTTGCCTAGAGGTATTAGAAATTACACCTAAATGTCTTGAA
66 TGAAACTTTGAAAATTTAAAATA-TTTTCCTAGAGGTCTTACAGATTATGCTTGAAGGTCTT-AA
* *
19851915 A-ATTATGCCTA-GTGGTTT
129 AGATTATG-CTAGGAGGTCT
* * * *
19851933 TATAA-ATTATGCCCCAAGATCTTATAAATCTCAACATCTTTGAAT
1 TA-AAGATTATGTCCAAAGATCTTACAAATCTTAACATCTTTGAAT
19851978 ACTTTGAATT
Statistics
Matches: 386, Mismatches: 90, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
145 2 0.01
146 99 0.26
147 87 0.23
148 188 0.49
149 10 0.03
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (147 bp):
TAAAGATTATGTCCAAAGATCTTACAAATCTTAACATCTTTGAATGCTCTTCGTATCAGAGGCAT
TGAAACTTTGAAAATTTAAAATATTTTCCTAGAGGTCTTACAGATTATGCTTGAAGGTCTTAAAG
ATTATGCTAGGAGGTCT
Found at i:19852979 original size:15 final size:15
Alignment explanation
Indices: 19852959--19852989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19852949 ATCACCTTGA
*
19852959 TCATAACTAGCTTAG
1 TCATAACCAGCTTAG
19852974 TCATAACCAGCTTAG
1 TCATAACCAGCTTAG
19852989 T
1 T
19852990 ATAGGAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (15 bp):
TCATAACCAGCTTAG
Found at i:19853772 original size:9 final size:9
Alignment explanation
Indices: 19853754--19853783 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19853744 AAAATGCCCT
*
19853754 TAAATGTTA
1 TAAATATTA
19853763 TAAATATTA
1 TAAATATTA
19853772 TAAATATTA
1 TAAATATTA
19853781 TAA
1 TAA
19853784 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (9 bp):
TAAATATTA
Found at i:19855181 original size:21 final size:21
Alignment explanation
Indices: 19855140--19855181 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19855130 AAATCTGTCG
**
19855140 TGAAACAGAAAACTATGGCCT
1 TGAAACAGAAAACTACAGCCT
19855161 TGAAATCAG-AAACTACAGCCT
1 TGAAA-CAGAAAACTACAGCCT
19855182 CTCCCATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (21 bp):
TGAAACAGAAAACTACAGCCT
Found at i:19857006 original size:28 final size:29
Alignment explanation
Indices: 19856945--19857032 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
19856935 CAAAATTTTT
* * * *
19856945 GGATTTCAATTCTATGGTTCAGAGGGTTTA
1 GGATTTCAATTTTAAGGTTTAGA-AGTTTA
*
19856975 GGATTT-AATTTTAAGGTTTAGAAGTTTG
1 GGATTTCAATTTTAAGGTTTAGAAGTTTA
* * *
19857003 GGATTTCGATTTTAGGGTTTGGAAGGTTTA
1 GGATTTCAATTTTAAGGTTTAGAA-GTTTA
19857033 AGAATTAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 10 0.21
29 27 0.57
30 10 0.21
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.43
Consensus pattern (29 bp):
GGATTTCAATTTTAAGGTTTAGAAGTTTA
Found at i:19857360 original size:16 final size:15
Alignment explanation
Indices: 19857339--19857368 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19857329 ACAGCTAGAC
19857339 GAAAATATTTCTTTAG
1 GAAAATATTT-TTTAG
19857355 GAAAATATTTTTTA
1 GAAAATATTTTTTA
19857369 TTCCCTCCAA
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:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (15 bp):
GAAAATATTTTTTAG
Found at i:19860891 original size:14 final size:14
Alignment explanation
Indices: 19860869--19860926 Score: 57
Period size: 13 Copynumber: 4.2 Consensus size: 14
19860859 AACTTTTTCA
19860869 TAAAA-ATATTTTT
1 TAAAATATATTTTT
19860882 TAAAATATA-TTTT
1 TAAAATATATTTTT
* * *
19860895 TGAAATCTTTTTTT
1 TAAAATATATTTTT
*
19860909 TAAAATTTATATTTT
1 TAAAATATAT-TTTT
19860924 TAA
1 TAA
19860927 CTTTTCCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 15 0.42
14 14 0.39
15 7 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
TAAAATATATTTTT
Found at i:19861081 original size:63 final size:59
Alignment explanation
Indices: 19861014--19861609 Score: 337
Period size: 63 Copynumber: 9.7 Consensus size: 59
19861004 TTTAAGATAC
*
19861014 ATTTTTTGAAAAATTTTTATTTTTTAAGAAAAATTAATACTTTCAACTTTTTTTCGAAAAAAT
1 ATTTTTT--AAAATTTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTTTTTC-AAAAAAT
*** * *
19861077 ATTTTTTTTATTTTTTTTCATTTTTAAAAAAAATTAATACTTTCAACTTTTCTTT-AAAAAGAT
1 A--TTTTTTAAAATTTTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTT-TTTCAAAAA-AT
* * * * * * *
19861140 TTTTTTTGAAGTTTTTATCTTTTAAGAAAAATTTATACTTTTAAATTTTTCTTAAAAAAAT
1 ATTTTTTAAAATTTTTAT-TTTTAAGAAAAATTGATACTTTCAACTTTTT-TTCAAAAAAT
* * * * *
19861201 ACTTTTTTTAATTTTTTCATTTCTAAGAAAAATTGATAATTTCAA-TTTTTCTCAAAAAAT
1 A-TTTTTTAAAATTTTT-ATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAAAT
* * * **
19861261 ATATTTTAAAATTTTTATTTTTAAGAAATATTGATAC-TTCAAATTTTTCTT--AAATCT
1 ATTTTTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT-TTCAAAAAAT
* * * * * ** * * * **
19861318 CTCTTTTGAAATATTCATTTCCAA-AGAAAATTGATAATCTCAAGTTTTCCTCAAAAAAT
1 ATTTTTTAAAATTTTTATTTTTAAGA-AAAATTGATACTTTCAACTTTTTTTCAAAAAAT
* ** ** * *
19861377 ATATTTTTAAAAATTTTT-TCTCCAA-AAAAATTTGATACTTTCAACATTTCCTTAAAAAGAAA
1 AT-TTTTT-AAAATTTTTATTTTTAAGAAAAA-TTGATACTTTCAAC-TTTTTTTCAAAA-AAT
** * * * * *
19861439 ATTTTGTTTTTAATTTTTATTTTCAAGAAAAATTAAAACTTTTAACTTTTTCTCAAAAAAAT
1 A-TTT-TTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTC-AAAAAAT
* * * * *
19861501 ATTTTTTTTGAAATTTTTATTTTTTAAGAAAAATTTATGCTTTTAACTTTTTCTCAAGACAAAAA
1 A--TTTTTTAAAATTTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTTTTTC---A-AAAAA
*
19861566 C
59 T
* *
19861567 ATTTTTTAAAATTTTTTACTTTTCAGAAAAATTGATA-TTTCAA
1 ATTTTTTAAAA-TTTTTATTTTTAAGAAAAATTGATACTTTCAA
19861610 TCCCTCCTAA
Statistics
Matches: 416, Mismatches: 85, Indels: 64
0.74 0.15 0.11
Matches are distributed among these distances:
56 1 0.00
57 36 0.09
58 31 0.07
59 22 0.05
60 34 0.08
61 61 0.15
62 74 0.18
63 105 0.25
64 33 0.08
65 13 0.03
66 6 0.01
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (59 bp):
ATTTTTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAAAT
Found at i:19861142 original size:61 final size:59
Alignment explanation
Indices: 19861034--19861314 Score: 264
Period size: 61 Copynumber: 4.6 Consensus size: 59
19861024 AAATTTTTAT
*
19861034 TTTTTAAGAAAAATTAATACTTTCAACTTTTTTTCGAAAAAATATTTTTTTTATTTTTTTTCA
1 TTTTTAAGAAAAATTAATACTTTCAACTTTTTTT--AAAAAA-ATTTTTTTTA-ATTTTTTCA
* * *
19861097 TTTTTAAAAAAAATTAATACTTTCAACTTTTCTTTAAAAAGATTTTTTTTGAAGTTTTT-A
1 TTTTTAAGAAAAATTAATACTTTCAACTTTT-TTTAAAAAAATTTTTTTT-AATTTTTTCA
* * *
19861157 TCTTTTAAGAAAAATTTATACTTTTAAATTTTTCTTAAAAAAATACTTTTTTTAATTTTTTCA
1 T-TTTTAAGAAAAATTAATACTTTCAACTTTTT-TTAAAAAAAT--TTTTTTTAATTTTTTCA
* * * * * * * *
19861220 TTTCTAAGAAAAATTGATAATTTCAA-TTTTTCTCAAAAAATATATTTTAAAATTTTT-A
1 TTTTTAAGAAAAATTAATACTTTCAACTTTTTTTAAAAAAAT-TTTTTTTAATTTTTTCA
* * *
19861278 TTTTTAAGAAATATTGATAC-TTCAAATTTTTCTTAAA
1 TTTTTAAGAAAAATTAATACTTTCAACTTTTT-TTAAA
19861315 TCTCTCTTTT
Statistics
Matches: 184, Mismatches: 25, Indels: 22
0.80 0.11 0.10
Matches are distributed among these distances:
57 5 0.03
58 23 0.12
59 15 0.08
60 11 0.06
61 54 0.29
62 34 0.18
63 39 0.21
64 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (59 bp):
TTTTTAAGAAAAATTAATACTTTCAACTTTTTTTAAAAAAATTTTTTTTAATTTTTTCA
Found at i:19863135 original size:22 final size:22
Alignment explanation
Indices: 19863092--19863136 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
19863082 TTTCCTTACA
19863092 TGATTAATTATTAGAATATTTG
1 TGATTAATTATTAGAATATTTG
19863114 TGATTATATGTATTA-AAT-TTTG
1 TGATTA-AT-TATTAGAATATTTG
19863136 T
1 T
19863137 ATTTGATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.52
23 5 0.24
24 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (22 bp):
TGATTAATTATTAGAATATTTG
Found at i:19863545 original size:52 final size:52
Alignment explanation
Indices: 19863472--19863576 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
19863462 TCAGAATTTA
* * * *
19863472 TTTTTTTTTAAGGATCTTTATTTAAGCTTAAATTTAAGTTAACCTTAAAAAG
1 TTTTTTTTAAAAGACCTTTATTTAAGCTTAAATTTAAGCTAACCTTAAAAAG
*
19863524 TTTTTTTTAAAAGACCTTTATTTAAGCTTAAATTTAAGCTAACCTTAGAAAG
1 TTTTTTTTAAAAGACCTTTATTTAAGCTTAAATTTAAGCTAACCTTAAAAAG
19863576 T
1 T
19863577 ATAGATCCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (52 bp):
TTTTTTTTAAAAGACCTTTATTTAAGCTTAAATTTAAGCTAACCTTAAAAAG
Found at i:19865547 original size:26 final size:26
Alignment explanation
Indices: 19865511--19865560 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
19865501 CCCGGTTCTG
19865511 AGATCCTTCTATGTTT-TGTTTATTAA
1 AGATCCTTCTATGTTTAT-TTTATTAA
19865537 AGATCCTTCTATGTTTATTTTATT
1 AGATCCTTCTATGTTTATTTTATT
19865561 TTATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (26 bp):
AGATCCTTCTATGTTTATTTTATTAA
Found at i:19865733 original size:18 final size:18
Alignment explanation
Indices: 19865701--19865753 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
19865691 GAACAACATT
*
19865701 TTTTTTATTA-CTATAAA
1 TTTTTTATTATATATAAA
*
19865718 TTTTTTATTATATATACCA
1 TTTTTTATTATATATA-AA
19865737 -TTTTTATTATGATATAA
1 TTTTTTATTAT-ATATAA
19865754 TATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 10 0.33
18 14 0.47
19 6 0.20
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTTTATTATATATAAA
Found at i:19866816 original size:27 final size:27
Alignment explanation
Indices: 19866754--19866807 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19866744 CATTTTATTA
* **
19866754 AAATCATATTTTATATTTTAATAGTTAC
1 AAATAATA-TTTATATTTTAATAAATAC
19866782 AAATAATATTTATATTTTAATAAATA
1 AAATAATATTTATATTTTAATAAATA
19866808 TAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAC
Found at i:19867484 original size:59 final size:63
Alignment explanation
Indices: 19867400--19867521 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 63
19867390 TAACAAAATA
19867400 AAAAAAAAAATTTAAACCTCAAATGTAAA-A-ATATATAT-T-TGTTTGTATTAAATAGTTAT
1 AAAAAAAAAATTTAAACCTCAAATGTAAATATATATATATATATGTTTGTATTAAATAGTTAT
** *
19867459 AAAAAAAAGTTTTAAACCTCGAATGTAAATATATATATATATATGTTTGTATTAAATAGTTAT
1 AAAAAAAAAATTTAAACCTCAAATGTAAATATATATATATATATGTTTGTATTAAATAGTTAT
19867522 GACAGACACA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 26 0.46
60 1 0.02
61 8 0.14
62 1 0.02
63 20 0.36
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (63 bp):
AAAAAAAAAATTTAAACCTCAAATGTAAATATATATATATATATGTTTGTATTAAATAGTTAT
Found at i:19868863 original size:24 final size:24
Alignment explanation
Indices: 19868836--19868905 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
19868826 TTATTTTTTT
19868836 AATTTTATATATAATTTTTATTAA
1 AATTTTATATATAATTTTTATTAA
*
19868860 AATTTTAAAT-TATATTATTT-TT-A
1 AATTTTATATATA-ATT-TTTATTAA
*
19868883 TATTTT-TATATAATTTTATATTA
1 AATTTTATATATAATTTT-TATTA
19868906 TATTTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 2 0.05
22 6 0.16
23 12 0.32
24 14 0.38
25 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
AATTTTATATATAATTTTTATTAA
Found at i:19868898 original size:46 final size:45
Alignment explanation
Indices: 19868827--19868918 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
19868817 TATAATTTTT
*
19868827 TATTTTTTTAATTTTATATATAATTTT-TATTAAAATTTTAAATTA
1 TATTTTTTTAATTTTATATATAATTTTATATT-AAATTTAAAATTA
*
19868872 TATTATTTTTATATTTT-TATATAATTTTATATTATATTTAAAATTA
1 TATT-TTTTTA-ATTTTATATATAATTTTATATTAAATTTAAAATTA
19868918 T
1 T
19868919 CAAATATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
45 4 0.10
46 29 0.69
47 9 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (45 bp):
TATTTTTTTAATTTTATATATAATTTTATATTAAATTTAAAATTA
Found at i:19869583 original size:21 final size:21
Alignment explanation
Indices: 19869551--19869602 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
19869541 GAATAATTAA
* **
19869551 TAAATTAA-TTAAAATATGAT
1 TAAATAAATTTAAAATAAAAT
*
19869571 TAAATAAATTTAATATAAAAT
1 TAAATAAATTTAAAATAAAAT
19869592 TAAATCAAATT
1 TAAAT-AAATT
19869603 CATTCAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATAAATTTAAAATAAAAT
Found at i:19872504 original size:11 final size:11
Alignment explanation
Indices: 19872476--19872518 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
19872466 AAATCCCATA
19872476 AGAGATTTGTT
1 AGAGATTTGTT
* * *
19872487 TGGGATTTATT
1 AGAGATTTGTT
19872498 AGAGATTTGTT
1 AGAGATTTGTT
*
19872509 TGAGATTTGT
1 AGAGATTTGT
19872519 CAGATATTGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:19872631 original size:17 final size:17
Alignment explanation
Indices: 19872606--19872643 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
19872596 ACTTGTAAGA
19872606 AAAGAATTC-TAAAAGG
1 AAAGAATTCTTAAAAGG
*
19872622 AAAGAGATTCTTAATAGG
1 AAAGA-ATTCTTAAAAGG
19872640 AAAG
1 AAAG
19872644 TTTGACTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 4 0.21
18 10 0.53
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (17 bp):
AAAGAATTCTTAAAAGG
Found at i:19872697 original size:52 final size:52
Alignment explanation
Indices: 19872553--19872699 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
19872543 AACTTGCAAA
* * * *
19872553 AGAAAAATTCTAAGA-GAAAGAGGATTCTTAATAAGTAAGTTTGACTTGTAAG
1 AGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGAAAGTTTGACTTATAAG
* * * *
19872605 AAAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGAAAGTTTGACTTATAGG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGAAAGTTTGACTTATAAG
* * * *
19872657 AGAAGAATTCTAAGAGGAGAGGGATTTTTAATGGGCAAGTTTG
1 AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGAAAGTTTG
19872700 TATGGTTATA
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
52 74 0.94
53 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.28
Consensus pattern (52 bp):
AGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGAAAGTTTGACTTATAAG
Found at i:19873213 original size:40 final size:40
Alignment explanation
Indices: 19873156--19873236 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
19873146 TTCCACTGGT
*
19873156 GTGATTGGATTGGAAGCTTTTAGCCCAACAAATGATATCA
1 GTGATTGGATTGAAAGCTTTTAGCCCAACAAATGATATCA
19873196 GTGATTGGATTGAAAGCTTTTAGCCCAACAAATGATATCA
1 GTGATTGGATTGAAAGCTTTTAGCCCAACAAATGATATCA
19873236 G
1 G
19873237 AGTTGTGGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (40 bp):
GTGATTGGATTGAAAGCTTTTAGCCCAACAAATGATATCA
Found at i:19873266 original size:31 final size:30
Alignment explanation
Indices: 19873219--19873299 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
19873209 AAGCTTTTAG
*
19873219 CCCAACAAATGATATCAGAGTTGTGGTGATC
1 CCCAACAAATG-TATCAGAGCTGTGGTGATC
* *
19873250 CCTAACAAATAGTATCAGAGCTGTGGTGTTC
1 CCCAACAAAT-GTATCAGAGCTGTGGTGATC
*
19873281 CCCAACAAGTGGTATCAGA
1 CCCAACAAAT-GTATCAGA
19873300 ACTGAAGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (30 bp):
CCCAACAAATGTATCAGAGCTGTGGTGATC
Found at i:19873645 original size:11 final size:11
Alignment explanation
Indices: 19873627--19873666 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
19873617 AATCTCATAA
19873627 GAGATTTGTTT
1 GAGATTTGTTT
* *
19873638 GGGATTTGTTA
1 GAGATTTGTTT
19873649 GAGATTTGTTT
1 GAGATTTGTTT
19873660 GAGATTT
1 GAGATTT
19873667 ATCAGATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:19873773 original size:52 final size:52
Alignment explanation
Indices: 19873693--19873849 Score: 165
Period size: 52 Copynumber: 3.0 Consensus size: 52
19873683 TGGACAAGAA
* * *
19873693 GACTTGCAA-AAGAAAAATTCTAAGAG-AAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAA-AAGAATTCTAAAAGAAAAGA-GATTCTTAATAGGCAAGTTT
19873745 GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTT
* * ** * * * * * *
19873797 AACTTACGGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTT
19873849 G
1 G
19873850 TATGGTTATA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 82 0.92
53 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTCTTAATAGGCAAGTTT
Found at i:19877632 original size:2 final size:2
Alignment explanation
Indices: 19877627--19877653 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19877617 ATCTGTATAT
19877627 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
19877654 TTAATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19889101 original size:25 final size:24
Alignment explanation
Indices: 19889060--19889114 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
19889050 CAAAATAAAT
*
19889060 TAGGAAATCA-AGCTGCACTAATG
1 TAGGAAATCAGATCTGCACTAATG
19889083 TAGGAGAATCAGATCTGCACTAATG
1 TAGGA-AATCAGATCTGCACTAATG
19889108 TAGGAAA
1 TAGGAAA
19889115 ATTAGATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 17 0.59
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (24 bp):
TAGGAAATCAGATCTGCACTAATG
Found at i:19889121 original size:25 final size:25
Alignment explanation
Indices: 19889060--19889121 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
19889050 CAAAATAAAT
*
19889060 TAGG-AAATCA-AGCTGCACTAATG
1 TAGGAAAATCAGATCTGCACTAATG
*
19889083 TAGGAGAATCAGATCTGCACTAATG
1 TAGGAAAATCAGATCTGCACTAATG
*
19889108 TAGGAAAATTAGAT
1 TAGGAAAATCAGAT
19889122 TTCTTCACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
25 24 0.73
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (25 bp):
TAGGAAAATCAGATCTGCACTAATG
Found at i:19892002 original size:21 final size:21
Alignment explanation
Indices: 19891978--19892029 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
19891968 TTCGAAATTA
19891978 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19891999 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19892020 ATAAATATAT
1 ATAAA-ATAT
19892030 AAATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:19892046 original size:27 final size:26
Alignment explanation
Indices: 19891993--19892055 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
19891983 ATATTATTTT
* **
19891993 TTAAATATAAAATATTATTTTTTAAA
1 TTAAATATAAAATATTATATTAAAAA
19892019 TATAAATATATAAATA-TATATTAAAAA
1 T-TAAATATA-AAATATTATATTAAAAA
*
19892046 TTAAAAATAA
1 TTAAATATAA
19892056 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 1 0.03
26 8 0.26
27 17 0.55
28 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TTAAATATAAAATATTATATTAAAAA
Found at i:19897646 original size:27 final size:27
Alignment explanation
Indices: 19897589--19897647 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
19897579 AAATCATATT
** *
19897589 TTATATTTTAATAGTTAGAGATAATAT
1 TTATATTTTAATAAATAGAGATAATAA
*
19897616 TTATATTTTAATAAATATA-ATAAATAA
1 TTATATTTTAATAAATAGAGAT-AATAA
19897643 TTATA
1 TTATA
19897648 AATAATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
TTATATTTTAATAAATAGAGATAATAA
Found at i:19898327 original size:18 final size:17
Alignment explanation
Indices: 19898289--19898327 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19898279 TAAAATGATT
* *
19898289 AATTATAAAATTAATCT
1 AATTACAAAATTAATCG
19898306 AATTACAAAATTAAATCG
1 AATTACAAAATT-AATCG
19898324 AATT
1 AATT
19898328 TAGCATCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTACAAAATTAATCG
Found at i:19901224 original size:2 final size:2
Alignment explanation
Indices: 19901217--19901277 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
19901207 CTTACATGGC
* * *
19901217 AT AT AT AT AG AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19901259 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
19901278 ACTATGCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19904701 original size:2 final size:2
Alignment explanation
Indices: 19904694--19904720 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19904684 ATCCAAATCA
19904694 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19904721 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19905362 original size:18 final size:18
Alignment explanation
Indices: 19905339--19905374 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19905329 TGACCAGCAA
19905339 ATGGTTCCTCAACAATGG
1 ATGGTTCCTCAACAATGG
19905357 ATGGTTCCTCAACAATGG
1 ATGGTTCCTCAACAATGG
19905375 GAATTGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
ATGGTTCCTCAACAATGG
Found at i:19907933 original size:17 final size:17
Alignment explanation
Indices: 19907908--19907957 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19907898 TATCCATAAT
*
19907908 CAAATAATAAAAAATAG
1 CAAAAAATAAAAAATAG
*
19907925 CATAAAATAAATAAA-AG
1 CAAAAAATAAA-AAATAG
19907942 CAAAAAATAGAAAAAT
1 CAAAAAATA-AAAAAT
19907958 TATACCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (17 bp):
CAAAAAATAAAAAATAG
Found at i:19910305 original size:34 final size:32
Alignment explanation
Indices: 19910138--19910309 Score: 104
Period size: 34 Copynumber: 5.2 Consensus size: 32
19910128 AAGTGATTAA
*
19910138 GACTAAACTACGAGTCAAAAAATTAAATGACTTG
1 GACTGAAC-ACGAGT-AAAAAATTAAATGACTTG
* * *
19910172 GATTAAAC-CGAGGTAAAAAA-TAAGTGA-TTG
1 GACTGAACACGA-GTAAAAAATTAAATGACTTG
** * * *
19910202 GAACTGAACTGTGAGTTAAAAAATTAAAAGACCTA
1 G-ACTGAAC-ACGAG-TAAAAAATTAAATGACTTG
* *
19910237 CACTGAAC-CAAGGTAAAAAA-TAAATGA-TTGG
1 GACTGAACACGA-GTAAAAAATTAAATGACTT-G
*
19910268 GACTGAATCACGAGTCAAAAAATTAAATGACCTG
1 GACTGAA-CACGAGT-AAAAAATTAAATGACTTG
19910302 GACTGAAC
1 GACTGAAC
19910310 TGAGGTTGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
30 5 0.05
31 23 0.22
32 21 0.20
33 21 0.20
34 34 0.32
35 2 0.02
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (32 bp):
GACTGAACACGAGTAAAAAATTAAATGACTTG
Found at i:19910307 original size:65 final size:65
Alignment explanation
Indices: 19910085--19910324 Score: 239
Period size: 65 Copynumber: 3.7 Consensus size: 65
19910075 CTAAACCACA
* * ** * ** ** *
19910085 AGTCAGAAAGTTAAATGAGTTGGATTGAACCGAGGTTGAAAATAAGTGATTAAGACTAAACTACG
1 AGTCAAAAAATTAAATGACCTGGACTGAACCGAGGTAAAAAATAAGTGATTGGGACTGAACTACG
* * * * **
19910150 AGTCAAAAAATTAAATGACTTGGATTAAACCGAGGTAAAAAATAAGTGATTGGAACTGAACTGTG
1 AGTCAAAAAATTAAATGACCTGGACTGAACCGAGGTAAAAAATAAGTGATTGGGACTGAACTACG
* * ** * *
19910215 AGTTAAAAAATTAAAAGACCTACACTGAACCAAGGTAAAAAATAAATGATTGGGACTGAA-TCAC
1 AGTCAAAAAATTAAATGACCTGGACTGAACCGAGGTAAAAAATAAGTGATTGGGACTGAACT-AC
19910279 G
65 G
* **
19910280 AGTCAAAAAATTAAATGACCTGGACTGAACTGAGGTTGAAAATAA
1 AGTCAAAAAATTAAATGACCTGGACTGAACCGAGGTAAAAAATAA
19910325 CCAAGCTTGA
Statistics
Matches: 142, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
64 1 0.01
65 141 0.99
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (65 bp):
AGTCAAAAAATTAAATGACCTGGACTGAACCGAGGTAAAAAATAAGTGATTGGGACTGAACTACG
Found at i:19910621 original size:9 final size:9
Alignment explanation
Indices: 19910607--19910640 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
19910597 ACTTCTTGTT
19910607 TGTAATGAA
1 TGTAATGAA
19910616 TGTAATGAA
1 TGTAATGAA
*
19910625 TGTCATGAA
1 TGTAATGAA
*
19910634 TGCAATG
1 TGTAATG
19910641 CATGAAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (9 bp):
TGTAATGAA
Found at i:19913307 original size:17 final size:19
Alignment explanation
Indices: 19913284--19913335 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
19913274 TTGAATTTTC
*
19913284 TATTTTTTTATATATT-AT
1 TATTTTTTTATATATTAAG
19913302 TATTTTTGTTAT-T-TTAAG
1 TATTTTT-TTATATATTAAG
19913320 TATTTTTTTATATATT
1 TATTTTTTTATATATT
19913336 TATGTATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.21
18 17 0.59
19 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TATTTTTTTATATATTAAG
Found at i:19913752 original size:15 final size:15
Alignment explanation
Indices: 19913732--19913852 Score: 70
Period size: 15 Copynumber: 7.9 Consensus size: 15
19913722 ATTCATTAAT
19913732 TCCAAACCTCTAAAA
1 TCCAAACCTCTAAAA
*
19913747 TCCAAAACTCCTAAAA
1 TCCAAACCT-CTAAAA
*
19913763 TCCAAAGCCCCCTAAAA
1 TCCAAA--CCTCTAAAA
* *
19913780 TTCAAAATCC-CAAAAA
1 -TCCAAA-CCTCTAAAA
** *
19913796 TTTAAA-CTCTTAAA
1 TCCAAACCTCTAAAA
*
19913810 TCCAAAATCC-CTTAAA
1 TCC-AAA-CCTCTAAAA
19913826 TCCAAACCTCTAAAA
1 TCCAAACCTCTAAAA
*
19913841 TCAAAACC-CTAA
1 TCCAAACCTCTAA
19913853 CCTTTAAAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
13 1 0.01
14 11 0.13
15 30 0.36
16 26 0.31
17 9 0.11
18 6 0.07
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (15 bp):
TCCAAACCTCTAAAA
Found at i:19913778 original size:17 final size:16
Alignment explanation
Indices: 19913735--19913849 Score: 76
Period size: 16 Copynumber: 7.4 Consensus size: 16
19913725 CATTAATTCC
*
19913735 AAACCTCTAAAATCCA
1 AAACCCCTAAAATCCA
*
19913751 AAACTCCTAAAATCCA
1 AAACCCCTAAAATCCA
* *
19913767 AAGCCCCCTAAAATTCA
1 AA-ACCCCTAAAATCCA
* * **
19913784 AAATCCCAAAAAT-TT
1 AAACCCCTAAAATCCA
* *
19913799 AAA-CTCTTAAATCCA
1 AAACCCCTAAAATCCA
* *
19913814 AAATCCCTTAAATCC-
1 AAACCCCTAAAATCCA
*
19913829 AAACCTCTAAAAT-CA
1 AAACCCCTAAAATCCA
19913844 AAACCC
1 AAACCC
19913850 TAACCTTTAA
Statistics
Matches: 75, Mismatches: 20, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
14 7 0.09
15 21 0.28
16 34 0.45
17 13 0.17
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (16 bp):
AAACCCCTAAAATCCA
Found at i:19918455 original size:14 final size:13
Alignment explanation
Indices: 19918432--19918461 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19918422 AGTTTTAAAA
19918432 AAATAAATAAATC
1 AAATAAATAAATC
19918445 AAATAAAATAAATC
1 AAAT-AAATAAATC
19918459 AAA
1 AAA
19918462 AGAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:19919498 original size:17 final size:17
Alignment explanation
Indices: 19919470--19919513 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
19919460 TATCTATAAT
*
19919470 CAAAATAATAAACAAAAG
1 CAAAA-AATAAACAAAAC
* *
19919488 CATAAAATAAATAAAAC
1 CAAAAAATAAACAAAAC
19919505 CAAAAAATA
1 CAAAAAATA
19919514 GAAAACTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.14
Consensus pattern (17 bp):
CAAAAAATAAACAAAAC
Found at i:19934057 original size:27 final size:27
Alignment explanation
Indices: 19934024--19934079 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19934014 TGTACAATTT
19934024 AAAATTGTAAATAACTTAAAAAGTTTA
1 AAAATTGTAAATAACTTAAAAAGTTTA
19934051 AAAATTGTAAATAACTTAAAAAGTTTA
1 AAAATTGTAAATAACTTAAAAAGTTTA
19934078 AA
1 AA
19934080 TCTTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTGTAAATAACTTAAAAAGTTTA
Found at i:19949758 original size:13 final size:13
Alignment explanation
Indices: 19949740--19949765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19949730 AAGTAAGCTT
19949740 TTTTTTTTTTACA
1 TTTTTTTTTTACA
19949753 TTTTTTTTTTACA
1 TTTTTTTTTTACA
19949766 ATACTTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTACA
Found at i:19956307 original size:19 final size:19
Alignment explanation
Indices: 19956283--19956325 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19956273 AATTAAGAAG
19956283 GGACGGTGATGACGGTG-AT
1 GGACGGTGATGAC-GTGCAT
*
19956302 GGACGGTGATTACGTGCAT
1 GGACGGTGATGACGTGCAT
19956321 GGACG
1 GGACG
19956326 TTAAATCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.21, C:0.14, G:0.44, T:0.21
Consensus pattern (19 bp):
GGACGGTGATGACGTGCAT
Found at i:19956308 original size:10 final size:10
Alignment explanation
Indices: 19956283--19956311 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
19956273 AATTAAGAAG
19956283 GGACGGTGAT
1 GGACGGTGAT
19956293 -GACGGTGAT
1 GGACGGTGAT
19956302 GGACGGTGAT
1 GGACGGTGAT
19956312 TACGTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.10, G:0.48, T:0.21
Consensus pattern (10 bp):
GGACGGTGAT
Found at i:19970554 original size:1 final size:1
Alignment explanation
Indices: 19970548--19970573 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
19970538 AGATTTTGAT
19970548 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
19970574 GACCCACCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19971335 original size:19 final size:19
Alignment explanation
Indices: 19971311--19971360 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
19971301 AAAATATATG
19971311 TAAAATATAAATAATAAAA
1 TAAAATATAAATAATAAAA
* *
19971330 TAAAATATCAAATCATAATA
1 TAAAATAT-AAATAATAAAA
*
19971350 -AAAATAAAAAT
1 TAAAATATAAAT
19971361 TTTAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 14 0.52
20 9 0.33
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAATATAAATAATAAAA
Found at i:19977115 original size:28 final size:28
Alignment explanation
Indices: 19977061--19977117 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
19977051 TATAATATAT
**
19977061 AATTATTTTACATTATCAACACTTATTA
1 AATTATTTTACATTATCAACAAATATTA
19977089 AATTATTTTACATT-TCAACAAAATATTA
1 AATTATTTTACATTATCAAC-AAATATTA
19977117 A
1 A
19977118 GAACCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTATTTTACATTATCAACAAATATTA
Found at i:19977656 original size:21 final size:21
Alignment explanation
Indices: 19977631--19977671 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19977621 AGTTTTGTTA
19977631 TATG-TAAATTTGATTTAATTT
1 TATGTTAAATTT-ATTTAATTT
*
19977652 TATGTTAGATTTATTTAATT
1 TATGTTAAATTTATTTAATT
19977672 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (21 bp):
TATGTTAAATTTATTTAATTT
Found at i:19977679 original size:31 final size:30
Alignment explanation
Indices: 19977644--19977707 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
19977634 GTAAATTTGA
* *
19977644 TTTAATTT-TATGTTAGATTTATTTAATTATT
1 TTTAATTTAT-TGATAGA-TTATTTAATGATT
*
19977675 TTTAATTTATTGATCGATTATTTAATGATT
1 TTTAATTTATTGATAGATTATTTAATGATT
19977705 TTT
1 TTT
19977708 TATATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 15 0.52
31 13 0.45
32 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTAATTTATTGATAGATTATTTAATGATT
Found at i:19984819 original size:2 final size:2
Alignment explanation
Indices: 19984812--19984844 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19984802 TCAAATTTCT
19984812 TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19984845 GTCTGCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19986330 original size:18 final size:19
Alignment explanation
Indices: 19986309--19986347 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19986299 CATAAAAGAT
*
19986309 AAAAGAAGAGGAAAA-AAG
1 AAAAGAAGAAGAAAACAAG
*
19986327 AAAATAAGAAGAAAACAAG
1 AAAAGAAGAAGAAAACAAG
19986346 AA
1 AA
19986348 TGGCAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (19 bp):
AAAAGAAGAAGAAAACAAG
Found at i:19989054 original size:21 final size:22
Alignment explanation
Indices: 19989014--19989057 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19989004 AAAAAAAAAG
19989014 ATTATCTTATAAATTAAAATAT
1 ATTATCTTATAAATTAAAATAT
* *
19989036 ATTATTTTA-AAATTGAAATAT
1 ATTATCTTATAAATTAAAATAT
19989057 A
1 A
19989058 AAGATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTATCTTATAAATTAAAATAT
Found at i:20001563 original size:33 final size:33
Alignment explanation
Indices: 20001525--20001622 Score: 106
Period size: 33 Copynumber: 3.2 Consensus size: 33
20001515 TTAAATATAA
20001525 TAATCGAATTTATTTTTACATATTAATCAAACC
1 TAATCGAATTTATTTTTACATATTAATCAAACC
*
20001558 TAATCGAATTT-TTATTA-A-A-T-AT--AA-C
1 TAATCGAATTTATTTTTACATATTAATCAAACC
* *
20001583 -AATCGAGTTTATTTTTACATATCAATCAAACC
1 TAATCGAATTTATTTTTACATATTAATCAAACC
20001615 TAATCGAA
1 TAATCGAA
20001623 CGAGTTCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
24 9 0.18
25 6 0.12
26 3 0.06
27 1 0.02
28 2 0.04
29 3 0.06
30 1 0.02
31 3 0.06
32 6 0.12
33 17 0.33
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (33 bp):
TAATCGAATTTATTTTTACATATTAATCAAACC
Found at i:20001570 original size:57 final size:57
Alignment explanation
Indices: 20001501--20001622 Score: 208
Period size: 57 Copynumber: 2.1 Consensus size: 57
20001491 CAAACACAAA
* * *
20001501 TAATCAAATTTTTATTAAATATAATAATCGAATTTATTTTTACATATTAATCAAACC
1 TAATCGAATTTTTATTAAATATAACAATCGAATTTATTTTTACATATCAATCAAACC
*
20001558 TAATCGAATTTTTATTAAATATAACAATCGAGTTTATTTTTACATATCAATCAAACC
1 TAATCGAATTTTTATTAAATATAACAATCGAATTTATTTTTACATATCAATCAAACC
20001615 TAATCGAA
1 TAATCGAA
20001623 CGAGTTCAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (57 bp):
TAATCGAATTTTTATTAAATATAACAATCGAATTTATTTTTACATATCAATCAAACC
Found at i:20011226 original size:29 final size:28
Alignment explanation
Indices: 20011186--20011252 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
20011176 CATATAATTG
* *
20011186 ATATTTTTTATAAAAATA-ATTTTTTATAA
1 ATATTTTATATAAAAATACA--GTTTATAA
* *
20011215 ATATTTTATATAATATTACAGTTTATAA
1 ATATTTTATATAAAAATACAGTTTATAA
20011243 ATATTTTATA
1 ATATTTTATA
20011253 ATTTTTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 17 0.52
29 15 0.45
30 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (28 bp):
ATATTTTATATAAAAATACAGTTTATAA
Found at i:20011462 original size:16 final size:17
Alignment explanation
Indices: 20011438--20011472 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20011428 TATATATCAT
*
20011438 ATTGTAAAAA-ATTATA
1 ATTGAAAAAATATTATA
20011454 ATTGAAAAAATATTATA
1 ATTGAAAAAATATTATA
20011471 AT
1 AT
20011473 AAATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
ATTGAAAAAATATTATA
Found at i:20012618 original size:15 final size:13
Alignment explanation
Indices: 20012583--20012612 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20012573 ACAAATCTGT
*
20012583 AAATGAATAAAAA
1 AAATGAACAAAAA
20012596 AAATGAACAAAAA
1 AAATGAACAAAAA
20012609 AAAT
1 AAAT
20012613 TTGAACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (13 bp):
AAATGAACAAAAA
Found at i:20019399 original size:29 final size:26
Alignment explanation
Indices: 20019345--20019399 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
20019335 TTCATTTCTA
* *
20019345 ATTCAGTCTTTTTTTTTTAATAAATG
1 ATTCAGTCTTTTTTTGTTAAAAAATG
20019371 ATTCAGTCTAATTTTTTGTTAAAACAATG
1 ATTCAGTCT--TTTTTTGTTAAAA-AATG
20019400 GTGACAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
28 11 0.46
29 4 0.17
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (26 bp):
ATTCAGTCTTTTTTTGTTAAAAAATG
Found at i:20027650 original size:33 final size:33
Alignment explanation
Indices: 20027588--20027650 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
20027578 ATTATTATTT
* * *
20027588 CATTTTATCTATCTTCTTATATACTATACATTC
1 CATTTTATATATCATCTTATATACAATACATTC
20027621 CATTTTATATATCATCTTATATTA-AATACA
1 CATTTTATATATCATCTTATA-TACAATACA
20027651 CGATTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.92
34 2 0.08
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.49
Consensus pattern (33 bp):
CATTTTATATATCATCTTATATACAATACATTC
Found at i:20028880 original size:18 final size:18
Alignment explanation
Indices: 20028859--20028902 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20028849 TTAATTAAAA
20028859 ATTTATATTTTAATATTT
1 ATTTATATTTTAATATTT
* *
20028877 ATTTTTATTTTATTATTT
1 ATTTATATTTTAATATTT
*
20028895 ATATATAT
1 ATTTATAT
20028903 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATATTTTAATATTT
Found at i:20029781 original size:30 final size:30
Alignment explanation
Indices: 20029739--20029797 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
20029729 AAAAAATATT
* * *
20029739 TATTTAGATATAAATTAAATATTAATGATC
1 TATTTAGATATAAACTAAAAAGTAATGATC
20029769 TATTT-GAGTATAAACTAAAAAGTAATGAT
1 TATTTAGA-TATAAACTAAAAAGTAATGAT
20029798 TTTATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (30 bp):
TATTTAGATATAAACTAAAAAGTAATGATC
Found at i:20030007 original size:26 final size:27
Alignment explanation
Indices: 20029973--20030038 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
20029963 TTATATATTG
* *
20029973 TTAATAAATTAAA-TA-ATAATAGTTT
1 TTAATAAATTAAATTAGATAATAATAT
20029998 ATTAATAAATTAAATTAGATAATAATAT
1 -TTAATAAATTAAATTAGATAATAATAT
*
20030026 TTAAAAAATTAAA
1 TTAATAAATTAAA
20030039 AATTTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.37
27 14 0.40
28 8 0.23
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (27 bp):
TTAATAAATTAAATTAGATAATAATAT
Found at i:20030037 original size:27 final size:30
Alignment explanation
Indices: 20029977--20030038 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
20029967 ATATTGTTAA
20029977 TAAATTAAATAATAATAGTTTATTAATAAAT
1 TAAATTAAATAATAATAGTTTA-TAATAAAT
*
20030008 TAAATTAGATAATAATA-TTTA-AA-AAAT
1 TAAATTAAATAATAATAGTTTATAATAAAT
20030035 TAAA
1 TAAA
20030039 AATTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 8 0.27
28 2 0.07
30 4 0.13
31 16 0.53
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAATTAAATAATAATAGTTTATAATAAAT
Found at i:20030223 original size:17 final size:17
Alignment explanation
Indices: 20030201--20030233 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20030191 TCAAGCCTTT
*
20030201 GAAATTCAAAAAGTAAA
1 GAAATTAAAAAAGTAAA
20030218 GAAATTAAAAAAGTAA
1 GAAATTAAAAAAGTAA
20030234 CAACAACGGT
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:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
GAAATTAAAAAAGTAAA
Found at i:20032507 original size:12 final size:12
Alignment explanation
Indices: 20032490--20032514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20032480 GTTAGTGCTC
20032490 TAAAGGACAAAG
1 TAAAGGACAAAG
20032502 TAAAGGACAAAG
1 TAAAGGACAAAG
20032514 T
1 T
20032515 GGCCAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (12 bp):
TAAAGGACAAAG
Found at i:20033672 original size:13 final size:13
Alignment explanation
Indices: 20033654--20033678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20033644 TGATCACCCT
20033654 TTTTAATTTTTTA
1 TTTTAATTTTTTA
20033667 TTTTAATTTTTT
1 TTTTAATTTTTT
20033679 TTAATCCAGT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTAATTTTTTA
Found at i:20034415 original size:104 final size:103
Alignment explanation
Indices: 20034285--20034482 Score: 351
Period size: 104 Copynumber: 1.9 Consensus size: 103
20034275 AACATCTATA
* *
20034285 TTTTATTTTGTACAATGTCTTGTACTCAGTTTTTGTGTATGTTTTCTTACTAGACTAAAAGTTTT
1 TTTTATTTTGTACAATGTCTTATACTCAGTTTTTGTGCATGTTTTCTTACTAGACTAAAAGTTTT
20034350 ATATAACTGGTTTCGAATATCTCTTGTTTCACTTTTATG
66 ATATAACTGGTTTCGAA-ATCTCTTGTTTCACTTTTATG
* *
20034389 TTTTATTTTGTACAATGTCTTATACTCAGTTTTTGTGCATGTTTTCTTAGTAGACTAAAATTTTT
1 TTTTATTTTGTACAATGTCTTATACTCAGTTTTTGTGCATGTTTTCTTACTAGACTAAAAGTTTT
20034454 ATATAACTGGTTTCGAAATCTCTTGTTTC
66 ATATAACTGGTTTCGAAATCTCTTGTTTC
20034483 TTTGAGTGTT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 12 0.13
104 78 0.87
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (103 bp):
TTTTATTTTGTACAATGTCTTATACTCAGTTTTTGTGCATGTTTTCTTACTAGACTAAAAGTTTT
ATATAACTGGTTTCGAAATCTCTTGTTTCACTTTTATG
Found at i:20039842 original size:22 final size:22
Alignment explanation
Indices: 20039817--20039860 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20039807 ATTTTTTGTC
20039817 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
20039839 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
20039861 TAAATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:20045803 original size:2 final size:2
Alignment explanation
Indices: 20045796--20045820 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20045786 GCACCGGTGC
20045796 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20045821 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20056733 original size:6 final size:6
Alignment explanation
Indices: 20056722--20056748 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20056712 AATTACCCAA
20056722 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
20056749 CCTTGATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:20059800 original size:247 final size:248
Alignment explanation
Indices: 20059364--20059861 Score: 847
Period size: 247 Copynumber: 2.0 Consensus size: 248
20059354 TGTTGCTCCG
*
20059364 ACTCTTCATTTTTCCAAAAATACTAATCTCAGTAGACACATATAATAAACCTCAAAGTGGACATT
1 ACTCTTCATTTTTCCAAAAATACTAATCTCAGTAGACACATATAATAAACATCAAAGTGGACATT
* * *
20059429 GTGGGGTCTGAGCTTCCAGGAACATAAAATTTACAAAAGAAAATTGATGACACCTGTGTCTTACA
66 GTGGGGTCTAAGCTCCCAGCAACATAAAATTTACAAAAGAAAATTGATGACACCTGTGTCTTACA
*
20059494 AATACCCATGTCTGACTCACTCCTGAAACCAAGCAACATAGGTTTCGCCACTAACTTGACAAGAC
131 AATACCCATGTCTGACTCACTCCTGAAACCAAGCAACATAGGTTTCACCACTAACTTGACAAGAC
20059559 TGAGTCTGAATGTAA-GGCAAAACTCAAAGATTGTAATCTTCATATAAGGAAA
196 TGAGTCTGAATGTAAGGGCAAAACTCAAAGATTGTAATCTTCATATAAGGAAA
** * *
20059611 ACTCTTCATTTTTCCAAAAATACTTGTCTCAGTAGACACATGTCATAAACATCAAAGTGGACATT
1 ACTCTTCATTTTTCCAAAAATACTAATCTCAGTAGACACATATAATAAACATCAAAGTGGACATT
*
20059676 GTGGGGTCTAAGCTCCCAGCAACATAAAATTTACAAAAGAAAATTGATGGCACCTGTGTCTTACA
66 GTGGGGTCTAAGCTCCCAGCAACATAAAATTTACAAAAGAAAATTGATGACACCTGTGTCTTACA
* * *
20059741 AATACCTATGTCTGACTCAAC-CCTGAAATCAAGCAACATAGGTTTCACCATTAACTTGACAAGA
131 AATACCCATGTCTGACTC-ACTCCTGAAACCAAGCAACATAGGTTTCACCACTAACTTGACAAGA
*
20059805 CTGAGTCTGAATGTAAGGGCAAAACTCAAAGATTGTAATCTTCATATGAGGAAA
195 CTGAGTCTGAATGTAAGGGCAAAACTCAAAGATTGTAATCTTCATATAAGGAAA
20059859 ACT
1 ACT
20059862 TGAGAATAGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
247 194 0.83
248 41 0.17
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (248 bp):
ACTCTTCATTTTTCCAAAAATACTAATCTCAGTAGACACATATAATAAACATCAAAGTGGACATT
GTGGGGTCTAAGCTCCCAGCAACATAAAATTTACAAAAGAAAATTGATGACACCTGTGTCTTACA
AATACCCATGTCTGACTCACTCCTGAAACCAAGCAACATAGGTTTCACCACTAACTTGACAAGAC
TGAGTCTGAATGTAAGGGCAAAACTCAAAGATTGTAATCTTCATATAAGGAAA
Found at i:20061636 original size:40 final size:40
Alignment explanation
Indices: 20061567--20061648 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
20061557 TGCATAGACA
* * *
20061567 ATTTTAGGTTACAAGTGTTAATGCTATATCATCACTCCTT
1 ATTTTAGGTTACAAATGTCAATGCCATATCATCACTCCTT
* *
20061607 ATTTTAGGTTACAAATGTCATTGCCATATCATGACTCCTT
1 ATTTTAGGTTACAAATGTCAATGCCATATCATCACTCCTT
20061647 AT
1 AT
20061649 ATCAACAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.41
Consensus pattern (40 bp):
ATTTTAGGTTACAAATGTCAATGCCATATCATCACTCCTT
Found at i:20064892 original size:2 final size:2
Alignment explanation
Indices: 20064885--20064915 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20064875 AAGAAATAAC
20064885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20064916 AGCACAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20069022 original size:23 final size:20
Alignment explanation
Indices: 20068968--20069021 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
20068958 AAAAGAATTG
*
20068968 ACAACAATATAAATATCAAA
1 ACAACAAAATAAATATCAAA
20068988 ACAACAAAATAAATATCAAA
1 ACAACAAAATAAATATCAAA
20069008 ACAACAAAA-AAATA
1 ACAACAAAATAAATA
20069022 ATTAAATTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (20 bp):
ACAACAAAATAAATATCAAA
Found at i:20071347 original size:22 final size:22
Alignment explanation
Indices: 20071308--20071371 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
20071298 AAATAACAAA
20071308 TATTAAATTT-TAATTTTTTTATT
1 TATT-AATTTATAA-TTTTTTATT
*
20071331 TATTAATTTATAATTTTATATT
1 TATTAATTTATAATTTTTTATT
20071353 TGA--AATTTAATAATTTTTT
1 T-ATTAATTT-ATAATTTTTT
20071372 TATTGTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTAATTTATAATTTTTTATT
Found at i:20074886 original size:21 final size:20
Alignment explanation
Indices: 20074836--20074877 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
20074826 TTCAATTGGT
* *
20074836 TAAA-ATTAAAAGGAAATAA
1 TAAATATTAAAAAGAAAGAA
20074855 TAAATAGTTAAAAAGAAAGAA
1 TAAATA-TTAAAAAGAAAGAA
20074876 TA
1 TA
20074878 TATGATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 1 0.05
21 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (20 bp):
TAAATATTAAAAAGAAAGAA
Found at i:20076306 original size:31 final size:30
Alignment explanation
Indices: 20076271--20076330 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20076261 TATTTATAAA
*
20076271 AGAAAATAAAAATTAAGAAA-AACCCTAATGC
1 AGAAAATAAAAA-CAA-AAAGAACCCTAATGC
*
20076302 AGAAATTAAAAACAAAAAGAACCCTAATG
1 AGAAAATAAAAACAAAAAGAACCCTAATG
20076331 ACTTTCTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 12 0.46
31 11 0.42
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (30 bp):
AGAAAATAAAAACAAAAAGAACCCTAATGC
Found at i:20079883 original size:22 final size:22
Alignment explanation
Indices: 20079857--20079900 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20079847 TGTATATTTA
* * *
20079857 TATTTGTATCTCTAGAATTAAG
1 TATTTATATCCCTAAAATTAAG
20079879 TATTTATATCCCTAAAATTAAG
1 TATTTATATCCCTAAAATTAAG
20079901 GATAGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
TATTTATATCCCTAAAATTAAG
Found at i:20083355 original size:21 final size:22
Alignment explanation
Indices: 20083318--20083360 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
20083308 TGTATATTTA
20083318 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
*
20083340 TATTTGTGTC-CTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
20083361 GACATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:20088247 original size:16 final size:15
Alignment explanation
Indices: 20088196--20088252 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
20088186 CTACGACATA
20088196 AAAAATAATAATTTAT
1 AAAAATAAT-ATTTAT
* *
20088212 AACAAAAGTAATAATCAT
1 -A-AAAA-TAATATTTAT
20088230 AAAAATAATATTTTAT
1 AAAAATAATA-TTTAT
20088246 AAAAATA
1 AAAAATA
20088253 GTAACACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 5 0.15
16 14 0.42
17 2 0.06
18 8 0.24
19 4 0.12
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAAATAATATTTAT
Found at i:20088265 original size:31 final size:33
Alignment explanation
Indices: 20088195--20088273 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 33
20088185 ACTACGACAT
20088195 AAAAAATAATAATTTATAACAAAAGTAATAATC
1 AAAAAATAATAATTTATAACAAAAGTAATAATC
* *
20088228 ATAAAAATAATATTTTATAA-AAATAGTAA-CA-C
1 A-AAAAATAATAATTTATAACAAA-AGTAATAATC
20088260 AAAAAATAATAATT
1 AAAAAATAATAATT
20088274 ATTAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 12 0.29
32 2 0.05
33 5 0.12
34 22 0.54
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (33 bp):
AAAAAATAATAATTTATAACAAAAGTAATAATC
Found at i:20088349 original size:24 final size:23
Alignment explanation
Indices: 20088289--20088350 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
20088279 TAACATGTGC
20088289 TAACACATAATAAAACAAAAAATAA
1 TAACACATAA-AAAA-AAAAAATAA
*
20088314 TAACAC-T-AAAAAAAAAAGTAA
1 TAACACATAAAAAAAAAAAATAA
* *
20088335 TAATACATAACAAAAA
1 TAACACATAAAAAAAA
20088351 GCTACAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.41
22 5 0.16
23 7 0.22
24 1 0.03
25 6 0.19
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.16
Consensus pattern (23 bp):
TAACACATAAAAAAAAAAAATAA
Found at i:20090755 original size:13 final size:14
Alignment explanation
Indices: 20090737--20090771 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
20090727 TAAATTGTAA
20090737 AAAAATTATT-ATT
1 AAAAATTATTAATT
20090750 AAAAA-TATTAATT
1 AAAAATTATTAATT
20090763 AAAAATTAT
1 AAAAATTAT
20090772 ATGTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 13 0.65
14 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATTATTAATT
Found at i:20090866 original size:19 final size:21
Alignment explanation
Indices: 20090834--20090881 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
20090824 TAAATATTAA
20090834 AAATTTTA--AATAAATAA-T
1 AAATTTTATTAATAAATAATT
20090852 -AATTTTATTAATAAATAATT
1 AAATTTTATTAATAAATAATT
20090872 AAATTTTATT
1 AAATTTTATT
20090882 TATTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.27
19 9 0.35
20 1 0.04
21 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATTTTATTAATAAATAATT
Found at i:20090866 original size:23 final size:21
Alignment explanation
Indices: 20090823--20090881 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
20090813 TAAATAATTG
*
20090823 ATAAATATTAAAAATTTTA--A
1 ATAAATAAT-AAAATTTTATTA
20090843 ATAAATAAT--AATTTTATTA
1 ATAAATAATAAAATTTTATTA
*
20090862 ATAAATAATTAAATTTTATT
1 ATAAATAATAAAATTTTATT
20090882 TATTAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 7 0.21
19 10 0.29
20 8 0.24
21 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAATAATAAAATTTTATTA
Found at i:20093773 original size:21 final size:20
Alignment explanation
Indices: 20093671--20093801 Score: 58
Period size: 18 Copynumber: 7.1 Consensus size: 20
20093661 TTTTTGTATT
*
20093671 TTATATATTTTA-TTATTTA
1 TTATATATTTTATTTATATA
* *
20093690 TTAT-TATTATATGTATAT-
1 TTATATATTTTATTTATATA
* *
20093708 TT-T-TA-CTTATTTATTTA
1 TTATATATTTTATTTATATA
*
20093725 TT-T-T-TTTCTATTAATAT-
1 TTATATATTT-TATTTATATA
20093742 TTATAGGTATTTTATTTATATA
1 TTATA--TATTTTATTTATATA
*
20093764 GTTCTATA-TTTA-TTATATA
1 -TTATATATTTTATTTATATA
20093783 TTATA-ATTTT-TTTAT-TA
1 TTATATATTTTATTTATATA
20093800 TT
1 TT
20093802 TTTTTTATTA
Statistics
Matches: 86, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
16 7 0.08
17 15 0.17
18 27 0.31
19 15 0.17
20 4 0.05
21 11 0.13
22 3 0.03
23 4 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATATATTTTATTTATATA
Found at i:20093806 original size:12 final size:12
Alignment explanation
Indices: 20093789--20093819 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
20093779 TATATTATAA
20093789 TTTTTTTATTAT
1 TTTTTTTATTAT
20093801 TTTTTTTATTAT
1 TTTTTTTATTAT
20093813 TTTTTTT
1 TTTTTTT
20093820 CTTGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTATTAT
Found at i:20093946 original size:17 final size:16
Alignment explanation
Indices: 20093926--20093969 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20093916 ATTATTATTA
20093926 TTTTTTATTTATCCTAT
1 TTTTTTATTTAT-CTAT
*
20093943 TTTTTTAATTATCTAT
1 TTTTTTATTTATCTAT
*
20093959 TATTATTATTT
1 T-TTTTTATTT
20093970 TTATTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATTTATCTAT
Found at i:20094367 original size:19 final size:20
Alignment explanation
Indices: 20094343--20094387 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
20094333 TCGGCGAAAA
**
20094343 TTTCGGCCAACCTTGA-AGT
1 TTTCGGCCAACCTACACAGT
20094362 TTTCGG-CAACCTACACAGT
1 TTTCGGCCAACCTACACAGT
20094381 TTTCGGC
1 TTTCGGC
20094388 AAAGAATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (20 bp):
TTTCGGCCAACCTACACAGT
Found at i:20094773 original size:12 final size:11
Alignment explanation
Indices: 20094746--20094896 Score: 63
Period size: 11 Copynumber: 13.2 Consensus size: 11
20094736 GCCGTTCCAG
20094746 TTTTTTTTTTGAA
1 TTTTTTTTTT--A
20094759 TTTTTTTTTTCA
1 TTTTTTTTTT-A
*
20094771 TTTCTTTGTTTA
1 TTT-TTTTTTTA
20094783 TTTGTTTTTTT-
1 TTT-TTTTTTTA
*
20094794 TATTTTTTTTA
1 TTTTTTTTTTA
***
20094805 TTTATTAGATTA
1 TTT-TTTTTTTA
** * *
20094817 GGTTTATTTAA
1 TTTTTTTTTTA
* *
20094828 TATTCTTTTTA
1 TTTTTTTTTTA
*
20094839 TTTTTATTTTTG
1 TTTTT-TTTTTA
** *
20094851 TTTTACTTTTC
1 TTTTTTTTTTA
20094862 TTTATTTTTTTA
1 TTT-TTTTTTTA
*
20094874 -TTTTTATTTA
1 TTTTTTTTTTA
*
20094884 TTTTTTTATTA
1 TTTTTTTTTTA
20094895 TT
1 TT
20094897 CTATTTTCTT
Statistics
Matches: 101, Mismatches: 31, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
10 14 0.14
11 37 0.37
12 34 0.34
13 16 0.16
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:20094797 original size:13 final size:12
Alignment explanation
Indices: 20094746--20094893 Score: 71
Period size: 12 Copynumber: 11.2 Consensus size: 12
20094736 GCCGTTCCAG
*
20094746 TTTTTTTTTTGAA
1 TTTTTTTTTT-TA
*
20094759 TTTTTTTTTTCA
1 TTTTTTTTTTTA
* *
20094771 TTTCTTTGTTTA
1 TTTTTTTTTTTA
20094783 TTTGTTTTTTTTA
1 TTT-TTTTTTTTA
20094796 TTTTTTTTATTTA
1 TTTTTTTT-TTTA
*
20094809 TTAGATTAGGTTTATTTA
1 TT---TT---TTTTTTTA
* * *
20094827 ATATTCTTTTTA
1 TTTTTTTTTTTA
* *
20094839 TTTTTATTTTTG
1 TTTTTTTTTTTA
20094851 TTTTACTTTTCTTTA
1 TTTT--TTTT-TTTA
20094866 TTTTTTTATTTTTA
1 -TTTTTT-TTTTTA
*
20094880 TTTATTTTTTTA
1 TTTTTTTTTTTA
20094892 TT
1 TT
20094894 ATTCTATTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
12 44 0.42
13 31 0.30
14 9 0.09
15 6 0.06
16 6 0.06
18 5 0.05
19 3 0.03
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:20094799 original size:8 final size:9
Alignment explanation
Indices: 20094787--20094890 Score: 59
Period size: 9 Copynumber: 10.8 Consensus size: 9
20094777 TGTTTATTTG
20094787 TTTTTTTTA
1 TTTTTTTTA
20094796 TTTTTTTTA
1 TTTTTTTTA
*
20094805 TTTATTAGATTA
1 TTT-TT--TTTA
*
20094817 GGTTTATTTAATA
1 --TTT-TTT-TTA
*
20094830 TTCTTTTTA
1 TTTTTTTTA
*
20094839 TTTTTATT-
1 TTTTTTTTA
*
20094847 TTTGTTTTA
1 TTTTTTTTA
*
20094856 CTTTTCTTTA
1 -TTTTTTTTA
20094866 -TTTTTTTA
1 TTTTTTTTA
20094874 TTTTTATTTA
1 TTTTT-TTTA
20094884 TTTTTTT
1 TTTTTTT
20094891 ATTATTCTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
8 13 0.18
9 26 0.36
10 21 0.29
11 2 0.03
12 3 0.04
13 2 0.03
14 6 0.08
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:20094844 original size:6 final size:6
Alignment explanation
Indices: 20094833--20094903 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
20094823 TTTAATATTC
* * *
20094833 TTTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT- TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
20094880 TTTATT- TTTTTA TTATTCTA TTTT
1 TTT-TTA TTTTTA TT-TT-TA TTTT
20094904 CTTTAAATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 8 0.15
6 34 0.63
7 8 0.15
8 4 0.07
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:20094854 original size:18 final size:18
Alignment explanation
Indices: 20094828--20094893 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
20094818 GTTTATTTAA
20094828 TATTCTTTTTATTTTTATT
1 TATT-TTTTTATTTTTATT
* * *
20094847 T-TTGTTTTACTTTTCTT
1 TATTTTTTTATTTTTATT
20094864 TATTTTTTTATTTTTATT
1 TATTTTTTTATTTTTATT
20094882 TATTTTTTTATT
1 TATTTTTTTATT
20094894 ATTCTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 12 0.30
18 27 0.68
19 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (18 bp):
TATTTTTTTATTTTTATT
Found at i:20094870 original size:10 final size:9
Alignment explanation
Indices: 20094828--20094890 Score: 58
Period size: 10 Copynumber: 7.0 Consensus size: 9
20094818 GTTTATTTAA
*
20094828 TATTCTTTT
1 TATTTTTTT
*
20094837 TATTTTTAT
1 TATTTTTTT
*
20094846 T-TTTGTTT
1 TATTTTTTT
*
20094854 TACTTTTCTT
1 TA-TTTTTTT
20094864 TA-TTTTTT
1 TATTTTTTT
20094872 TATTTTTATT
1 TATTTTT-TT
20094882 TATTTTTTT
1 TATTTTTTT
20094891 ATTATTCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 13 0.30
9 14 0.33
10 16 0.37
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.81
Consensus pattern (9 bp):
TATTTTTTT
Found at i:20094895 original size:29 final size:29
Alignment explanation
Indices: 20094830--20094903 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
20094820 TTATTTAATA
*
20094830 TTCTTT-TTATTTTTATTTTTGTTTTACTT
1 TTCTTTATT-TTTTTATTTTTGATTTACTT
20094859 TTCTTTATTTTTTTATTTTT-ATTTA-TT
1 TTCTTTATTTTTTTATTTTTGATTTACTT
* *
20094886 TT-TTTATTATTCTATTTT
1 TTCTTTATTTTTTTATTTT
20094904 CTTTAAATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.34
27 4 0.10
28 4 0.10
29 17 0.41
30 2 0.05
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (29 bp):
TTCTTTATTTTTTTATTTTTGATTTACTT
Found at i:20094990 original size:58 final size:56
Alignment explanation
Indices: 20094920--20095420 Score: 607
Period size: 58 Copynumber: 8.8 Consensus size: 56
20094910 ATGAAAATCA
*
20094920 AAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAAT
1 AAATTTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT
** *
20094978 AAATTTT-AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGGAAAT
1 AAATTTTCAAAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAT
* *
20095036 CAAAGTTTCAAAAAAAAAAATTTTTGAGGAAGAA-TTGAAAGTATCAA-TTTTCTTTAAAAAT
1 -AAATTTTC--AAAAAAATATTTTTG-GGAA-AAGTTGAAAGTATCAATTTTTC-TT-AAAAT
* *
20095097 AAATTTTCAAAAAAATATTTTTGAGAAAAGGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTTCAAAAAAATATTTTTGGGAAAA-GTTGAAAGTATCAATTTTTCTT-AAAAT
* *
20095155 CAAAATTTTC-AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTTCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTA-AAAT
* * *
20095214 AAATTTTCAAAAAGAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAT
1 AAATTTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
20095271 AAA-TTTCAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAT
1 AAATTTTCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
20095325 AAA-TTTCAAAAAAA-ATTTTTGGGAAAAGTTGAAAGTATCAA-TTTTC-T-AAAT
1 AAATTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
20095376 AAA-TTTC-AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
1 AAATTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
20095421 CCTCACAAGA
Statistics
Matches: 400, Mismatches: 23, Indels: 46
0.85 0.05 0.10
Matches are distributed among these distances:
50 6 0.01
51 38 0.09
52 4 0.01
53 26 0.06
54 30 0.08
55 26 0.06
56 13 0.03
57 27 0.07
58 117 0.29
59 49 0.12
60 25 0.06
61 30 0.08
62 9 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (56 bp):
AAATTTTCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAT
Found at i:20095050 original size:117 final size:114
Alignment explanation
Indices: 20094913--20095420 Score: 645
Period size: 117 Copynumber: 4.5 Consensus size: 114
20094903 TCTTTAAATG
*
20094913 AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAAT
1 AAAATC-AAA-TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* *
20094978 AAATTTTAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
64 AAATTTTAAAAAAA-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
20095030 GGAAATCAAAGTTTCAAAAAAAAAAATTTTT-GAGGAAGAA-TTGAAAGTATCAA-TTTTCTTTA
1 -AAAATCAAA-TTTC--AAAAAAATATTTTTAG-GGAA-AAGTTGAAAGTATCAATTTTTC-TTA
*
20095092 AAAATAAATTTTCAAAAAAATATTTTTGA-GAAAAGGTTGAAAGTATCAATTTTCCTT
59 AAAATAAATTTT-AAAAAAAGATTTTTGAGGAAAA-GTTGAAAGTATCAATTTTCCTT
* * *
20095149 GAAAATCAAAATTTTC-AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAA
1 -AAAATC-AAA-TTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
*
20095213 TAAATTTTCAAAAAGAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
63 TAAATTTT-AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*
20095266 AAAAT-AAATTTCAAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAA-TTTTCTT-AAAATAA
1 AAAATCAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
*
20095327 ATTTCAAAAAAA-ATTTTTG-GGAAAAGTTGAAAGTATCAATTTT-C-T
66 ATTTTAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
20095372 -AAAT-AAATTTC-AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTT
1 AAAATCAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
20095421 CCTCACAAGA
Statistics
Matches: 353, Mismatches: 22, Indels: 43
0.84 0.05 0.10
Matches are distributed among these distances:
104 32 0.09
105 14 0.04
106 1 0.00
107 1 0.00
108 24 0.07
109 7 0.02
110 6 0.02
111 10 0.03
112 6 0.02
113 23 0.07
114 16 0.05
116 7 0.02
117 86 0.24
118 26 0.07
119 78 0.22
120 16 0.05
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (114 bp):
AAAATCAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
ATTTTAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:20095419 original size:26 final size:26
Alignment explanation
Indices: 20095338--20095420 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
20095328 TTTCAAAAAA
20095338 AATTTTTGGGAAAAGTTGAAAGTATC
1 AATTTTTGGGAAAAGTTGAAAGTATC
** * * **
20095364 AATTTTCT-AAATAAATTTCAAAAAAT-
1 AATTTT-TGGGA-AAAGTTGAAAGTATC
20095390 -ATTTTTGGGAAAAGTTGAAAGTATC
1 AATTTTTGGGAAAAGTTGAAAGTATC
20095415 AATTTT
1 AATTTT
20095421 CCTCACAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 11 0.28
25 6 0.15
26 12 0.30
27 11 0.28
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (26 bp):
AATTTTTGGGAAAAGTTGAAAGTATC
Found at i:20099324 original size:8 final size:8
Alignment explanation
Indices: 20099306--20099355 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
20099296 AAAAGATGAT
20099306 GAAAAAAA
1 GAAAAAAA
20099314 -AAAAGAAA
1 GAAAA-AAA
20099322 -AAAAAAA
1 GAAAAAAA
20099329 GAAAAAAA
1 GAAAAAAA
* *
20099337 TGAGAAAAT
1 -GAAAAAAA
20099346 GAAAAAAA
1 GAAAAAAA
20099354 GA
1 GA
20099356 GATTCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.20
8 22 0.63
9 6 0.17
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (8 bp):
GAAAAAAA
Found at i:20099324 original size:10 final size:11
Alignment explanation
Indices: 20099308--20099336 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
20099298 AAGATGATGA
20099308 AAAAAAAAAAG
1 AAAAAAAAAAG
20099319 AAAAAAAAAAG
1 AAAAAAAAAAG
20099330 AAAAAAA
1 AAAAAAA
20099337 TGAGAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:20099344 original size:17 final size:16
Alignment explanation
Indices: 20099324--20099357 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20099314 AAAAGAAAAA
20099324 AAAAAGAAAAAAATGAG
1 AAAAAGAAAAAAA-GAG
*
20099341 AAAATGAAAAAAAGAG
1 AAAAAGAAAAAAAGAG
20099357 A
1 A
20099358 TTCAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAAAGAAAAAAAGAG
Done.