Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 89 of 131
Found at i:16164036 original size:13 final size:13
Alignment explanation
Indices: 16164018--16164042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16164008 AGTCTACCAT
16164018 ATATATATTTTTC
1 ATATATATTTTTC
16164031 ATATATATTTTT
1 ATATATATTTTT
16164043 TCTCTTAGAA
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATATATTTTTC
Found at i:16166718 original size:13 final size:13
Alignment explanation
Indices: 16166700--16166726 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16166690 ACGAATTATG
16166700 CATATTTTCACAT
1 CATATTTTCACAT
16166713 CATATTTTCACAT
1 CATATTTTCACAT
16166726 C
1 C
16166727 TAGGATTTAC
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:0.26, G:0.00, T:0.44
Consensus pattern (13 bp):
CATATTTTCACAT
Found at i:16166790 original size:17 final size:17
Alignment explanation
Indices: 16166768--16166800 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16166758 CAAGACTGAA
16166768 TTTCTTATTTCTTATTC
1 TTTCTTATTTCTTATTC
16166785 TTTCTTATTTCTTATT
1 TTTCTTATTTCTTATT
16166801 ATTGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTTATTTCTTATTC
Found at i:16166939 original size:20 final size:20
Alignment explanation
Indices: 16166911--16166968 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
16166901 ATTGACTTAT
*
16166911 TATTGAATTTATATATTTTA
1 TATTTAATTTATATATTTTA
16166931 TATTTAATTTATATATTTTA
1 TATTTAATTTATATATTTTA
*
16166951 TATATATATTT-TATATTT
1 TATTTA-ATTTATATATTT
16166969 ATAATTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTAATTTATATATTTTA
Found at i:16166945 original size:13 final size:13
Alignment explanation
Indices: 16166925--16166971 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
16166915 GAATTTATAT
16166925 ATTT-TATATTTA
1 ATTTATATATTTA
*
16166937 ATTTATATATTTT
1 ATTTATATATTTA
*
16166950 ATATATATATTTTA
1 ATTTATATA-TTTA
16166964 TATTTATA
1 -ATTTATA
16166972 ATTATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 4 0.14
13 15 0.54
14 3 0.11
15 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTATATATTTA
Found at i:16170171 original size:36 final size:36
Alignment explanation
Indices: 16170129--16170269 Score: 142
Period size: 36 Copynumber: 3.8 Consensus size: 36
16170119 TTTCAGTATA
16170129 ACGAAGATGGTATTGATTATGATCCATTTCGGTTTG
1 ACGAAGATGGTATTGATTATGATCCATTTCGGTTTG
* ** *
16170165 ATGAAGATGGTATTGATTATGATCCATTTTAGTCTG
1 ACGAAGATGGTATTGATTATGATCCATTTCGGTTTG
* ** **
16170201 ACGAAGATGGT-TCTGATGAAGCTGATGAAGAT-GGTTCTG
1 ACGAAGATGGTAT-TGAT-TA--TGATCCATTTCGGTT-TG
16170240 ACGAAGATGGTATTGATTATGATCCATTTC
1 ACGAAGATGGTATTGATTATGATCCATTTC
16170270 AGTCTGACCA
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
35 1 0.01
36 52 0.64
37 1 0.01
38 3 0.04
39 23 0.28
40 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.36
Consensus pattern (36 bp):
ACGAAGATGGTATTGATTATGATCCATTTCGGTTTG
Found at i:16170230 original size:24 final size:24
Alignment explanation
Indices: 16170198--16170245 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16170188 CCATTTTAGT
*
16170198 CTGACGAAGATGGTTCTGATGAAG
1 CTGACGAAGATGGTTCTGACGAAG
*
16170222 CTGATGAAGATGGTTCTGACGAAG
1 CTGACGAAGATGGTTCTGACGAAG
16170246 ATGGTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.25
Consensus pattern (24 bp):
CTGACGAAGATGGTTCTGACGAAG
Found at i:16170345 original size:21 final size:21
Alignment explanation
Indices: 16170321--16170384 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
16170311 GATCCATTTT
16170321 AGTATGATGAAGATAAAGTTC
1 AGTATGATGAAGATAAAGTTC
16170342 AGTATGATGAAGATAAAGTTC
1 AGTATGATGAAGATAAAGTTC
**
16170363 AGTATGACAAAGATAAAGTTC
1 AGTATGATGAAGATAAAGTTC
16170384 A
1 A
16170385 ATTTGACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (21 bp):
AGTATGATGAAGATAAAGTTC
Found at i:16170391 original size:21 final size:21
Alignment explanation
Indices: 16170321--16170401 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
16170311 GATCCATTTT
**
16170321 AGTATGATGAAGATAAAGTTC
1 AGTATGACAAAGATAAAGTTC
**
16170342 AGTATGATGAAGATAAAGTTC
1 AGTATGACAAAGATAAAGTTC
16170363 AGTATGACAAAGATAAAGTTC
1 AGTATGACAAAGATAAAGTTC
* *
16170384 AATTTGACAAAGATAAAG
1 AGTATGACAAAGATAAAG
16170402 ATAAAGATGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTATGACAAAGATAAAGTTC
Found at i:16170426 original size:111 final size:111
Alignment explanation
Indices: 16170295--16170512 Score: 278
Period size: 111 Copynumber: 2.0 Consensus size: 111
16170285 AGCCTTATAT
* * **
16170295 AGATGGTATTGATTTTGATCCATTTTAGTATGATGAAGAT-AAAGTTCAGTA-TGATGAAGATAA
1 AGATGGTATTGATTATGATCCATTTTAGTATAACAAAGATAAAAG-T-AGTATTGATGAAGATAA
*
16170358 AGTTCAGTATGACAAAGATAAAGTTCAATTTGACAAAGATAAAGATAA
64 AGTTCAGTATGACAAAGATAAAGTTCAATATGACAAAGATAAAGATAA
* * * * ** *
16170406 AGATGGTATTGATTATGATCCATTTTAGTTTAACAAAGATAAAAGTGGTATTGATTATGATCCAT
1 AGATGGTATTGATTATGATCCATTTTAGTATAACAAAGATAAAAGTAGTATTGATGAAGATAAAG
* *
16170471 TTTAGTATGACGAAGATAAAGTTCAATATGACAAAGATAAAG
66 TTCAGTATGACAAAGATAAAGTTCAATATGACAAAGATAAAG
16170513 TTCAGTATGA
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
110 3 0.03
111 84 0.92
112 4 0.04
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (111 bp):
AGATGGTATTGATTATGATCCATTTTAGTATAACAAAGATAAAAGTAGTATTGATGAAGATAAAG
TTCAGTATGACAAAGATAAAGTTCAATATGACAAAGATAAAGATAA
Found at i:16170457 original size:42 final size:43
Alignment explanation
Indices: 16170398--16170490 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 43
16170388 TGACAAAGAT
*
16170398 AAAGAT-AAAGATGGTATTGATTATGATCCATTTTAGTTTAAC
1 AAAGATAAAAGATGGTATTGATTATGATCCATTTTAGTATAAC
*
16170440 AAAGATAAAAG-TGGTATTGATTATGATCCATTTTAGTATGAC
1 AAAGATAAAAGATGGTATTGATTATGATCCATTTTAGTATAAC
*
16170482 GAAGATAAA
1 AAAGATAAA
16170491 GTTCAATATG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 43 0.91
43 4 0.09
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.34
Consensus pattern (43 bp):
AAAGATAAAAGATGGTATTGATTATGATCCATTTTAGTATAAC
Found at i:16170502 original size:21 final size:21
Alignment explanation
Indices: 16170476--16170657 Score: 138
Period size: 21 Copynumber: 8.8 Consensus size: 21
16170466 TCCATTTTAG
*
16170476 TATGACGAAGATAAAGTTCAA
1 TATGACAAAGATAAAGTTCAA
*
16170497 TATGACAAAGATAAAGTTCAG
1 TATGACAAAGATAAAGTTCAA
*
16170518 TATGACAAAGATAAAGTTCAG
1 TATGACAAAGATAAAGTTCAA
16170539 TATGAC--AGATAAAGTT-AA
1 TATGACAAAGATAAAGTTCAA
* ** * **
16170557 GTTTGATGAAGATAAAGAT-GG
1 -TATGACAAAGATAAAGTTCAA
**** ** *
16170578 TATTGATTCTGATCCATTTCAA
1 TA-TGACAAAGATAAAGTTCAA
*
16170600 TATGACAAAGATAAAGTTCAG
1 TATGACAAAGATAAAGTTCAA
* *
16170621 CATGACAAAGATAAAGTTCAG
1 TATGACAAAGATAAAGTTCAA
*
16170642 TTTGACAAAGATAAAG
1 TATGACAAAGATAAAG
16170658 ATAAAGATGG
Statistics
Matches: 127, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
18 1 0.01
19 14 0.11
20 1 0.01
21 109 0.86
22 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (21 bp):
TATGACAAAGATAAAGTTCAA
Found at i:16170520 original size:42 final size:42
Alignment explanation
Indices: 16170474--16170657 Score: 176
Period size: 42 Copynumber: 4.4 Consensus size: 42
16170464 GATCCATTTT
* *
16170474 AGTATGACGAAGATAAAGTTCAATATGACAAAGATAAAGTTC
1 AGTATGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
*
16170516 AGTATGACAAAGATAAAGTTCAGTATGAC--AGATAAAGTTA
1 AGTATGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
* ** * * **** ** *
16170556 AGTTTGATGAAGATAAAGAT-GGTATTGATTCTGATCCATTTC
1 AGTATGACAAAGATAAAGTTCAGTA-TGACAAAGATAAAGTTC
* *
16170598 AATATGACAAAGATAAAGTTCAGCATGACAAAGATAAAGTTC
1 AGTATGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
*
16170640 AGTTTGACAAAGATAAAG
1 AGTATGACAAAGATAAAG
16170658 ATAAAGATGG
Statistics
Matches: 108, Mismatches: 30, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
39 3 0.03
40 29 0.27
42 74 0.69
43 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (42 bp):
AGTATGACAAAGATAAAGTTCAGTATGACAAAGATAAAGTTC
Found at i:16170717 original size:42 final size:42
Alignment explanation
Indices: 16170402--16170737 Score: 144
Period size: 42 Copynumber: 7.9 Consensus size: 42
16170392 AAAGATAAAG
* * * *
16170402 ATAAAGATGGTATTGATTATGATCCATTTTAGTTTAACAAAG
1 ATAAAGATGGTATTGATTATGATCCATTTCAGTATGACAAAA
* * *
16170444 ATAAA-AGTGGTATTGATTATGATCCATTTTAGTATGACGAAG
1 ATAAAGA-TGGTATTGATTATGATCCATTTCAGTATGACAAAA
*** ** * ** * *
16170486 ATAAAG-TTCAATATGACAAAGATAAAGTTCAGTATGACAAAG
1 ATAAAGATGGTAT-TGATTATGATCCATTTCAGTATGACAAAA
* * * ** * * * ** *
16170528 ATAAAGTTCAGTA-TGA-CA-GATAAAGTTAAGTTTGATGAAG
1 ATAAAGAT-GGTATTGATTATGATCCATTTCAGTATGACAAAA
* * *
16170568 ATAAAGATGGTATTGATTCTGATCCATTTCAATATGACAAAG
1 ATAAAGATGGTATTGATTATGATCCATTTCAGTATGACAAAA
* * * ** * ** * *
16170610 ATAAAGTTCAGCA-TGACAAAGATAAAGTTCAGTTTGACAAAGATAAA
1 ATAAAGAT-GGTATTGATTATGATCCATTTCAGTATGAC----A-AAA
*
16170657 GATAAAGATGGTATTGATTATGATCCATTTCAGTTTGACAAAA
1 -ATAAAGATGGTATTGATTATGATCCATTTCAGTATGACAAAA
* *
16170700 ATAAATATGGTATTGATTATGATCCATTTTAGTATGAC
1 ATAAAGATGGTATTGATTATGATCCATTTCAGTATGAC
16170738 GAAGATGGTA
Statistics
Matches: 219, Mismatches: 59, Indels: 32
0.71 0.19 0.10
Matches are distributed among these distances:
39 3 0.01
40 28 0.13
41 5 0.02
42 144 0.66
43 6 0.03
44 2 0.01
46 1 0.00
47 4 0.02
48 26 0.12
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (42 bp):
ATAAAGATGGTATTGATTATGATCCATTTCAGTATGACAAAA
Found at i:16170753 original size:36 final size:36
Alignment explanation
Indices: 16170661--16170813 Score: 135
Period size: 36 Copynumber: 4.1 Consensus size: 36
16170651 GATAAAGATA
* * *
16170661 AAGATGGTATTGATTATGATCCATTTCAGTTTGACAAAAATA
1 AAGATGGTATTGATTATGATCCATTTAAGTATGAC------G
* *
16170703 AATATGGTATTGATTATGATCCATTTTAGTATGACG
1 AAGATGGTATTGATTATGATCCATTTAAGTATGACG
* * ** *
16170739 AAGATGGTATTGATTCTAATCTGTTTGAGTATGACG
1 AAGATGGTATTGATTATGATCCATTTAAGTATGACG
* * *
16170775 AAGATGGTATTGATTCTGATCCGTTTAAGTATGATG
1 AAGATGGTATTGATTATGATCCATTTAAGTATGACG
16170811 AAG
1 AAG
16170814 GGCCCTATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
36 65 0.67
42 32 0.33
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (36 bp):
AAGATGGTATTGATTATGATCCATTTAAGTATGACG
Found at i:16171919 original size:45 final size:45
Alignment explanation
Indices: 16171834--16171919 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
16171824 TTTGGTATAA
*
16171834 GCACTTGCCTCGACCACCATCAGCACAGGCTGGCCTTTAGTATGG
1 GCACTTGCCTCGACCACCATCAGCACAGGCTGGCCCTTAGTATGG
* * * *
16171879 GCACTTGCCTTGACCACCATCAGCATATGCTTGCCCTTAGT
1 GCACTTGCCTCGACCACCATCAGCACAGGCTGGCCCTTAGT
16171920 GAAGGTACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.20, C:0.34, G:0.21, T:0.26
Consensus pattern (45 bp):
GCACTTGCCTCGACCACCATCAGCACAGGCTGGCCCTTAGTATGG
Found at i:16175527 original size:32 final size:31
Alignment explanation
Indices: 16175476--16175555 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
16175466 AACATTAAAG
*
16175476 ATTCACAAGAATTTCAGTTTCGCAACAATTTAA
1 ATTCACAAG-ATTTTAGTTTCGCAACAATTT-A
* * * *
16175509 ATTCTCAAGATTTTAGTTTTGCAAGAATTTG
1 ATTCACAAGATTTTAGTTTCGCAACAATTTA
*
16175540 ATTCACAAAATTTTAG
1 ATTCACAAGATTTTAG
16175556 ATTCACAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 14 0.35
32 18 0.45
33 8 0.20
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (31 bp):
ATTCACAAGATTTTAGTTTCGCAACAATTTA
Found at i:16175565 original size:16 final size:17
Alignment explanation
Indices: 16175474--16175563 Score: 64
Period size: 16 Copynumber: 5.6 Consensus size: 17
16175464 AAAACATTAA
*
16175474 AGATTCACAAGAATTTC
1 AGATTCACAAGAATTTT
* * *
16175491 AGTTTCGCAACAA-TTT
1 AGATTCACAAGAATTTT
* *
16175507 AAATTCTCAAG-ATTTT
1 AGATTCACAAGAATTTT
* **
16175523 AGTTTTGCAAGAA-TTT
1 AGATTCACAAGAATTTT
16175539 -GATTCACAA-AATTTT
1 AGATTCACAAGAATTTT
16175554 AGATTCACAA
1 AGATTCACAA
16175564 AAACTCAATT
Statistics
Matches: 54, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
14 2 0.04
15 10 0.19
16 31 0.57
17 11 0.20
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (17 bp):
AGATTCACAAGAATTTT
Found at i:16176085 original size:22 final size:23
Alignment explanation
Indices: 16175994--16176093 Score: 73
Period size: 24 Copynumber: 4.4 Consensus size: 23
16175984 TAAAGAAAAA
*
16175994 ATTCTCACTTAAAACTTCTTAAAG
1 ATTCTCATTTAAAAC-TCTTAAAG
* * * *
16176018 ACTCTTATTCAAAA-T-TGAAAG
1 ATTCTCATTTAAAACTCTTAAAG
* *
16176039 ATTCTTC-TCTAAAATTTCTTAAAG
1 ATTC-TCATTTAAAA-CTCTTAAAG
16176063 ATTCTCATTTAAAACT-TTAAAG
1 ATTCTCATTTAAAACTCTTAAAG
*
16176085 ATTCACATT
1 ATTCTCATT
16176094 ATTTTTAACA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
21 13 0.22
22 16 0.28
23 4 0.07
24 25 0.43
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
ATTCTCATTTAAAACTCTTAAAG
Found at i:16177251 original size:16 final size:17
Alignment explanation
Indices: 16177226--16177292 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
16177216 TTTTTCCACA
16177226 TTTCAGTTTTTTTACTT
1 TTTCAGTTTTTTTACTT
*
16177243 TTTCATTTTTTTTA-TT
1 TTTCAGTTTTTTTACTT
16177259 TTTCA-TTATTTTT-CATT
1 TTTCAGTT-TTTTTAC-TT
**
16177276 TTTCAAATTTTTTACTT
1 TTTCAGTTTTTTTACTT
16177293 CATCTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.05
16 12 0.28
17 27 0.63
18 2 0.05
ACGTcount: A:0.16, C:0.10, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTCAGTTTTTTTACTT
Found at i:16181851 original size:4 final size:4
Alignment explanation
Indices: 16181835--16181874 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
16181825 GACATTTCAA
*
16181835 AAAT AAGT AAAT AAAT AAAT AAACT AAA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT
16181875 GAAAATGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
5 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:16183211 original size:10 final size:9
Alignment explanation
Indices: 16183186--16183210 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16183176 ATTACAATTC
16183186 TTTTTTTCT
1 TTTTTTTCT
16183195 TTTTTTTCT
1 TTTTTTTCT
16183204 TTTTTTT
1 TTTTTTT
16183211 TTTAAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:16183663 original size:47 final size:47
Alignment explanation
Indices: 16183574--16183665 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
16183564 GCCCTTGGTA
* * * *
16183574 TGGGTTATTTCCTTGAACACCTCTTTGGCAAATGCTAGCACTTGGGG
1 TGGGTTATTGCCTTGAACACCTCTTTAGCAAATGCCAACACTTGGGG
* *
16183621 TGGGTTATTGCCTTAGAA-ACCTCTTTAGTAGATGCCAACACTTGG
1 TGGGTTATTGCCTT-GAACACCTCTTTAGCAAATGCCAACACTTGG
16183666 TGCAACATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 35 0.92
48 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (47 bp):
TGGGTTATTGCCTTGAACACCTCTTTAGCAAATGCCAACACTTGGGG
Found at i:16194505 original size:45 final size:45
Alignment explanation
Indices: 16194456--16194557 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 45
16194446 CACATGCCGC
* * * *
16194456 AACCATCATTGACACATGCTAGCCTTTGGTACAAGCACTTACTTT
1 AACCACCATTGACACAAGATAGCCTTTGGTACAAGCACTTACCTT
* * * *
16194501 AACCACCATCGACACAAGATGGCCTTTGGTACGAGTACTTACCTT
1 AACCACCATTGACACAAGATAGCCTTTGGTACAAGCACTTACCTT
*
16194546 GACCACCATTGA
1 AACCACCATTGA
16194558 TATATACTGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (45 bp):
AACCACCATTGACACAAGATAGCCTTTGGTACAAGCACTTACCTT
Found at i:16205332 original size:45 final size:46
Alignment explanation
Indices: 16205267--16205369 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 46
16205257 GATCTAAATT
* * *
16205267 AAGGCATGTGC-CATTACCAAAAGCCAGAATGTGTCGATGGTGGTC
1 AAGGCAGGTGCTCATTACCAAAAGCCAGAATATGCCGATGGTGGTC
* * ***
16205312 GAGGCAGGTGCTCA-TACCAAAGGCCATCTTATGCCGATGGTGGTC
1 AAGGCAGGTGCTCATTACCAAAAGCCAGAATATGCCGATGGTGGTC
*
16205357 AAGGTAGGTGCTC
1 AAGGCAGGTGCTC
16205370 GTGCATGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.22
Consensus pattern (46 bp):
AAGGCAGGTGCTCATTACCAAAAGCCAGAATATGCCGATGGTGGTC
Found at i:16206254 original size:45 final size:45
Alignment explanation
Indices: 16206144--16206247 Score: 199
Period size: 45 Copynumber: 2.3 Consensus size: 45
16206134 TACTTGCATG
16206144 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAAACC
1 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAAACC
*
16206189 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAGACC
1 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAAACC
16206234 AAAGGCCAACATGT
1 AAAGGCCAACATGT
16206248 TTCAATAACG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (45 bp):
AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAAACC
Found at i:16206265 original size:45 final size:45
Alignment explanation
Indices: 16206144--16206268 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
16206134 TACTTGCATG
** *
16206144 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAAACC
1 AAAGGCCAACATGTGCCAATAGACGTCGAAGCATGTGTCAAAACC
** * *
16206189 AAAGGCCAACATGTGCCAATAGTTGTTGAAGCATGTGTCAAGACC
1 AAAGGCCAACATGTGCCAATAGACGTCGAAGCATGTGTCAAAACC
**
16206234 AAAGGCCAACATGTTTCAATA-ACGATCGAAGCATG
1 AAAGGCCAACATGTGCCAATAGACG-TCGAAGCATG
16206269 CACATATGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 72 0.99
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (45 bp):
AAAGGCCAACATGTGCCAATAGACGTCGAAGCATGTGTCAAAACC
Found at i:16212049 original size:22 final size:22
Alignment explanation
Indices: 16211999--16212049 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
16211989 GTCTAGGCCC
*
16211999 AAGAGTTCTTTCTAAGTCAAGG
1 AAGAGTTCTTTCTAAGTCAAGA
*
16212021 AATAGTTCTAGTTCT-A-TCAAGA
1 AAGAGTTCT--TTCTAAGTCAAGA
16212043 AAGAGTT
1 AAGAGTT
16212050 TGACTGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 19 0.79
23 1 0.04
24 4 0.17
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (22 bp):
AAGAGTTCTTTCTAAGTCAAGA
Found at i:16217568 original size:47 final size:47
Alignment explanation
Indices: 16217465--16217559 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
16217455 AATACACATG
*
16217465 CCACACCAAGTGCTAGCATATACGAAAAAGGTTTCTGAGGCAACAAC
1 CCACACCAAGTGCTAGCATATACCAAAAAGGTTTCTGAGGCAACAAC
* * * *
16217512 CCACCCCAAGTGCTAGCATCTGCCAAAGAGGTGTTC-GAGGCAACAAC
1 CCACACCAAGTGCTAGCATATACCAAAAAGGT-TTCTGAGGCAACAAC
16217559 C
1 C
16217560 TGTACCAAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 39 0.93
48 3 0.07
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (47 bp):
CCACACCAAGTGCTAGCATATACCAAAAAGGTTTCTGAGGCAACAAC
Found at i:16219335 original size:4 final size:4
Alignment explanation
Indices: 16219326--16219367 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
16219316 TTTCATTTTC
*
16219326 ATTT ATTT ATTTT AGTTT ATTT ATTT ATTT ACTT ATTT -TTT A
1 ATTT ATTT A-TTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT A
16219368 AATATCTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
3 3 0.09
4 22 0.67
5 8 0.24
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:16219488 original size:19 final size:21
Alignment explanation
Indices: 16219450--16219488 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16219440 AAATAAAACT
*
16219450 TTAATAAATTTTTGAAATGAA
1 TTAATAAATTATTGAAATGAA
16219471 TTAA-AAATTATT-AAATGA
1 TTAATAAATTATTGAAATGA
16219489 TGAGATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (21 bp):
TTAATAAATTATTGAAATGAA
Found at i:16225772 original size:18 final size:18
Alignment explanation
Indices: 16225727--16225773 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
16225717 TTAATCCTTT
16225727 TGAATCTGAAAATTCTTA
1 TGAATCTGAAAATTCTTA
16225745 TAGAA-CTGAAAATTCTTA
1 T-GAATCTGAAAATTCTTA
*
16225763 TGAATTTGAAA
1 TGAATCTGAAA
16225774 GTCTTGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (18 bp):
TGAATCTGAAAATTCTTA
Found at i:16227090 original size:73 final size:73
Alignment explanation
Indices: 16226955--16227090 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 73
16226945 GTGAAATCTT
* * ** * ** *
16226955 ATGGCTTTGACTTTAGATCTAAGACATTGGAGGCTGAGTTTCAAAAATTGGAGCCCAGATTCATG
1 ATGGCTTTGACTCTAGATCTAAGACATTAGAGGCCAAGTTTAAAAAATTAAAGCCCAAATTCATG
16227020 ACAAGAAA
66 ACAAGAAA
* * **
16227028 ATGGCTTTGACTCTAGATTTAAGACATTATAGGCCAAGTTTAAAAAATTAAAGCTGAAATTCA
1 ATGGCTTTGACTCTAGATCTAAGACATTAGAGGCCAAGTTTAAAAAATTAAAGCCCAAATTCA
16227091 AGATTAAGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
73 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (73 bp):
ATGGCTTTGACTCTAGATCTAAGACATTAGAGGCCAAGTTTAAAAAATTAAAGCCCAAATTCATG
ACAAGAAA
Found at i:16227479 original size:4 final size:4
Alignment explanation
Indices: 16227470--16227525 Score: 73
Period size: 4 Copynumber: 14.2 Consensus size: 4
16227460 TTTCATTTTC
16227470 ATTT ATTT A-TT ATTT -TTT AGTTT ATTT ATTT ATTT -TTT AGTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT A-TTT ATTT
16227517 ATTT ATTT A
1 ATTT ATTT A
16227526 CTTAATTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
3 9 0.19
4 30 0.64
5 8 0.17
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:16227504 original size:20 final size:20
Alignment explanation
Indices: 16227471--16227524 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
16227461 TTCATTTTCA
16227471 TTTATTTA-TTATTTTTTAG
1 TTTATTTATTTATTTTTTAG
16227490 TTTATTTATTTATTTTTTAG
1 TTTATTTATTTATTTTTTAG
16227510 TTTATTTATTTATTT
1 TTTATTTATTTATTT
16227525 ACTTAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTATTTATTTATTTTTTAG
Found at i:16227745 original size:13 final size:13
Alignment explanation
Indices: 16227727--16227751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16227717 TCTATATTTG
16227727 ACTCAAATGGTAT
1 ACTCAAATGGTAT
16227740 ACTCAAATGGTA
1 ACTCAAATGGTA
16227752 GAATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
ACTCAAATGGTAT
Found at i:16227812 original size:7 final size:7
Alignment explanation
Indices: 16227802--16227835 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
16227792 TTTAAAAGAA
16227802 AAAAATT
1 AAAAATT
16227809 AAAAATT
1 AAAAATT
16227816 AAAAA-T
1 AAAAATT
*
16227822 AAAACTT
1 AAAAATT
16227829 AAAAATT
1 AAAAATT
16227836 TGGGTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:16237506 original size:22 final size:23
Alignment explanation
Indices: 16237463--16237506 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16237453 AATTGCCCAC
16237463 ACCAAAGGCCAACATGTGCCTAG
1 ACCAAAGGCCAACATGTGCCTAG
*
16237486 ACCAAGGGCCAACATGT-CCTA
1 ACCAAAGGCCAACATGTGCCTA
16237507 TTGGCAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.14
Consensus pattern (23 bp):
ACCAAAGGCCAACATGTGCCTAG
Found at i:16241616 original size:47 final size:47
Alignment explanation
Indices: 16241514--16241619 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
16241504 GTACACATAT
* * *
16241514 CGCACCAAGTGCTAGCATCTACCAAAAAGGTGTTTGATACAACAACC
1 CGCACCAAGGGCTAGCATCTACCAAAAAAGTGTTCGATACAACAACC
* * *
16241561 CACCCCAAGGGCTAGCATCTACCAAAAAAGTG-TCGA-AGGCAACAATC
1 CGCACCAAGGGCTAGCATCTACCAAAAAAGTGTTCGATA--CAACAACC
*
16241608 TGCACCAAGGGC
1 CGCACCAAGGGC
16241620 CCACTTGTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
45 1 0.02
46 3 0.06
47 44 0.92
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (47 bp):
CGCACCAAGGGCTAGCATCTACCAAAAAAGTGTTCGATACAACAACC
Found at i:16257037 original size:17 final size:15
Alignment explanation
Indices: 16257025--16257132 Score: 92
Period size: 17 Copynumber: 6.5 Consensus size: 15
16257015 GCAAAATATT
16257025 TGAAAAATGAAAAATAA
1 TGAAAAATG-AAAA-AA
16257042 TGAAAAATGAAAAAAA
1 TGAAAAATG-AAAAAA
*
16257058 TGAAAAAGTGAAAAAG
1 TGAAAAA-TGAAAAAA
16257074 TGAAAAAAGTGAAAATAA
1 TG-AAAAA-TGAAAA-AA
16257092 TGAAAAAATGAAAAAA
1 TG-AAAAATGAAAAAA
16257108 T-AAGAGATATGGAAAAAA
1 TGAA-A-A-AT-GAAAAAA
16257126 TGAAAAA
1 TGAAAAA
16257133 CAAAAAGAGA
Statistics
Matches: 81, Mismatches: 2, Indels: 17
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.02
15 1 0.01
16 21 0.26
17 37 0.46
18 18 0.22
19 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (15 bp):
TGAAAAATGAAAAAA
Found at i:16257056 original size:9 final size:9
Alignment explanation
Indices: 16257027--16257107 Score: 82
Period size: 9 Copynumber: 9.4 Consensus size: 9
16257017 AAAATATTTG
16257027 AAAAATGAA
1 AAAAATGAA
16257036 AAATAATG--
1 AAA-AATGAA
16257044 AAAAATGAA
1 AAAAATGAA
16257053 AAAAATG-A
1 AAAAATGAA
*
16257061 AAAAGTG-A
1 AAAAATGAA
*
16257069 AAAAGTGAA
1 AAAAATGAA
*
16257078 AAAAGTGAA
1 AAAAATGAA
*
16257087 AATAATG-A
1 AAAAATGAA
16257095 AAAAATGAA
1 AAAAATGAA
16257104 AAAA
1 AAAA
16257108 TAAGAGATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
7 4 0.06
8 25 0.40
9 30 0.48
10 4 0.06
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.14
Consensus pattern (9 bp):
AAAAATGAA
Found at i:16257072 original size:34 final size:32
Alignment explanation
Indices: 16257025--16257132 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 32
16257015 GCAAAATATT
16257025 TGAAAAATGAAAAATAATGAAAAATGAAAAAAA
1 TGAAAAATGAAAAATAA-GAAAAATGAAAAAAA
* *
16257058 TGAAAAAGTGAAAAAGTGAA-AAAAGTGAAAATAA
1 TGAAAAA-TGAAAAA-T-AAGAAAAATGAAAAAAA
* * *
16257092 TGAAAAAATGAAAAAATAAGAGATATGGAAAAAA
1 TG-AAAAATG-AAAAATAAGAAAAATGAAAAAAA
16257126 TGAAAAA
1 TGAAAAA
16257133 CAAAAAGAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
33 14 0.23
34 35 0.56
35 11 0.18
36 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (32 bp):
TGAAAAATGAAAAATAAGAAAAATGAAAAAAA
Found at i:16258467 original size:46 final size:43
Alignment explanation
Indices: 16258416--16258515 Score: 110
Period size: 45 Copynumber: 2.3 Consensus size: 43
16258406 CTTTAAAGCA
*
16258416 TTGGATGTGAATCACCAAAAGCTTTTGAATGAAAAGCTTTGAAAT
1 TTGGATGTGAA-CACCAAAAGCTTTTGAATGAAAACCTTTG-AAT
* * ** *
16258461 TCTGGATGTGAACCCCTAAATTTTTTGAATGAGAACCTTTGAAT
1 T-TGGATGTGAACACCAAAAGCTTTTGAATGAAAACCTTTGAAT
*
16258505 TTAGATGTGAA
1 TTGGATGTGAA
16258516 ACTCTAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 9 0.19
44 4 0.09
45 24 0.51
46 10 0.21
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (43 bp):
TTGGATGTGAACACCAAAAGCTTTTGAATGAAAACCTTTGAAT
Found at i:16258545 original size:44 final size:43
Alignment explanation
Indices: 16258440--16258547 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
16258430 CCAAAAGCTT
* * * * *
16258440 TTGAATGAAAAGCTTTGAAATTCTGGATGTGAACCCCTAAATTTT
1 TTGAATGAGAACCTTTG-AATT-TAGATGTGAAACCCTAAATTTA
*
16258485 TTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTAAAATTTA
1 TTGAATGAGAACCTTTGAATTTAGATGTGAAACCCT-AAATTTA
* *
16258529 TTGAATGTGAATCTTTGAA
1 TTGAATGAGAACCTTTGAA
16258548 CTCAAATTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 12 0.22
44 27 0.50
45 15 0.28
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (43 bp):
TTGAATGAGAACCTTTGAATTTAGATGTGAAACCCTAAATTTA
Found at i:16258800 original size:31 final size:32
Alignment explanation
Indices: 16258765--16258832 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
16258755 TGAAACTGAG
* * * *
16258765 TTCTTGCGAATCTAAAATTTTGAGAA-TCAAA
1 TTCTTGCAAAACTAAAATCTTAAGAATTCAAA
*
16258796 TTCTTGCAAAACTAAAATCTTAAGAATTTAAA
1 TTCTTGCAAAACTAAAATCTTAAGAATTCAAA
16258828 TTCTT
1 TTCTT
16258833 ATGAAACTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (32 bp):
TTCTTGCAAAACTAAAATCTTAAGAATTCAAA
Found at i:16260616 original size:4 final size:4
Alignment explanation
Indices: 16260609--16260638 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
16260599 TTTCCTTTTC
16260609 ATTT ATTT ATTT AGTTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT A
16260639 CTTAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:16260626 original size:13 final size:12
Alignment explanation
Indices: 16260609--16260638 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
16260599 TTTCCTTTTC
16260609 ATTTATTTATTT
1 ATTTATTTATTT
16260621 AGTTTATTTATTT
1 A-TTTATTTATTT
16260634 ATTTA
1 ATTTA
16260639 CTTAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
ATTTATTTATTT
Found at i:16260646 original size:17 final size:17
Alignment explanation
Indices: 16260609--16260646 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16260599 TTTCCTTTTC
* *
16260609 ATTTATTTATTTAGTTT
1 ATTTATTTATTTACTTA
16260626 ATTTATTTATTTACTTA
1 ATTTATTTATTTACTTA
16260643 ATTT
1 ATTT
16260647 TGAAATGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTATTTATTTACTTA
Found at i:16273232 original size:17 final size:17
Alignment explanation
Indices: 16273210--16273249 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
16273200 TGAGGTAAGT
16273210 GCTTGTACAAAAGGCCA
1 GCTTGTACAAAAGGCCA
16273227 GCTTGTACAAAAGGCCA
1 GCTTGTACAAAAGGCCA
16273244 GCTTGT
1 GCTTGT
16273250 GCCGATAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (17 bp):
GCTTGTACAAAAGGCCA
Found at i:16275777 original size:25 final size:25
Alignment explanation
Indices: 16275721--16275777 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
16275711 GCTAAGGGGA
* *
16275721 CCAGGCCTTGAGGCCTACTAAAAGC
1 CCAGGTCTTGAAGCCTACTAAAAGC
* *
16275746 CCAGGTCTTGAAGCTTACTAAAGGC
1 CCAGGTCTTGAAGCCTACTAAAAGC
*
16275771 CCTGGTC
1 CCAGGTC
16275778 ATAGGGAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (25 bp):
CCAGGTCTTGAAGCCTACTAAAAGC
Found at i:16276815 original size:47 final size:47
Alignment explanation
Indices: 16276727--16276816 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
16276717 GGTAAACATA
**
16276727 CCACACCAAGTGCCAGCATCTACCAAAGAGGTGTCTGAGGCAATAAC
1 CCACACCAAGTGCCAGCATCTACCAAAGAGGTGTCCAAGGCAATAAC
* * *
16276774 CCACTCCAAGTGCTAGCATCTATCAAAGAGGTGTCCAAGGCAA
1 CCACACCAAGTGCCAGCATCTACCAAAGAGGTGTCCAAGGCAA
16276817 CAATTTGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (47 bp):
CCACACCAAGTGCCAGCATCTACCAAAGAGGTGTCCAAGGCAATAAC
Found at i:16286188 original size:11 final size:11
Alignment explanation
Indices: 16286172--16286198 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16286162 CCCTTTGACC
16286172 TAGGCCTCTAG
1 TAGGCCTCTAG
16286183 TAGGCCTCTAG
1 TAGGCCTCTAG
16286194 TAGGC
1 TAGGC
16286199 TTCAAGGCTT
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:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (11 bp):
TAGGCCTCTAG
Found at i:16297082 original size:19 final size:19
Alignment explanation
Indices: 16297058--16297100 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
16297048 CTGCCATGAG
*
16297058 GCTTCTGCTGATCCTGTAA
1 GCTTCTGCTGATCCTATAA
16297077 GCTTCTGCTGATCCTATAA
1 GCTTCTGCTGATCCTATAA
16297096 GCTTC
1 GCTTC
16297101 CAGAATGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (19 bp):
GCTTCTGCTGATCCTATAA
Found at i:16304707 original size:46 final size:46
Alignment explanation
Indices: 16304643--16304737 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
16304633 GCTCTTAGTT
* * * *
16304643 TGGGTTTTGCTTCAGACACCTTTTTAGCAATTGCTAACACTTAGGG
1 TGGGTTTTACTTCAGACACCTCTTTAGAAAATGCTAACACTTAGGG
*
16304689 TGGGTTATTACTTC-GACACCTCTTTAGAAAATGCTAACACTTAGTG
1 TGGGTT-TTACTTCAGACACCTCTTTAGAAAATGCTAACACTTAGGG
16304735 TGG
1 TGG
16304738 CATGTTTACC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 37 0.86
47 6 0.14
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (46 bp):
TGGGTTTTACTTCAGACACCTCTTTAGAAAATGCTAACACTTAGGG
Found at i:16307900 original size:17 final size:17
Alignment explanation
Indices: 16307878--16307927 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
16307868 AAAATGTGAC
16307878 ACTAGCACATGCACCAA
1 ACTAGCACATGCACCAA
*
16307895 ACTAGCATATGCACCAA
1 ACTAGCACATGCACCAA
16307912 ACTAGCACATGCACCA
1 ACTAGCACATGCACCA
16307928 TGGCCTAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.40, C:0.34, G:0.12, T:0.14
Consensus pattern (17 bp):
ACTAGCACATGCACCAA
Found at i:16308115 original size:45 final size:45
Alignment explanation
Indices: 16308007--16308115 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 45
16307997 TGCTAGTGCA
* * * * * *
16308007 TGGTGTGGGCACATGCCTCAACCATCATCGACATAAGCTAGGCTT
1 TGGTGAGGGCACATGCCTTAACCACCATCGACACAAGCTAGCCCT
* * *
16308052 TGGT-ACGGGCACCTGCCTTAACCACCATTGACACATGCTAGCCCT
1 TGGTGA-GGGCACATGCCTTAACCACCATCGACACAAGCTAGCCCT
*
16308097 TGGTGAGGGCATATGCCTT
1 TGGTGAGGGCACATGCCTT
16308116 GATTAGCATT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (45 bp):
TGGTGAGGGCACATGCCTTAACCACCATCGACACAAGCTAGCCCT
Found at i:16310319 original size:14 final size:14
Alignment explanation
Indices: 16310300--16310333 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16310290 GGAATGCTAT
16310300 TTTAAATTTATTTG
1 TTTAAATTTATTTG
*
16310314 TTTAAATTTATTTT
1 TTTAAATTTATTTG
16310328 TTTAAA
1 TTTAAA
16310334 AACTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTAAATTTATTTG
Found at i:16310880 original size:13 final size:13
Alignment explanation
Indices: 16310864--16310969 Score: 106
Period size: 13 Copynumber: 8.0 Consensus size: 13
16310854 TTTTTACTTA
16310864 AGGGTTTCAATTT
1 AGGGTTTCAATTT
16310877 AGGGTTTC-ATCCTT
1 AGGGTTTCAAT--TT
*
16310891 AGGGATTTCAACTT
1 AGGG-TTTCAATTT
*
16310905 AGGGTTTTAATTT
1 AGGGTTTCAATTT
*
16310918 AAGGTTTCAATTT
1 AGGGTTTCAATTT
* *
16310931 AAGGTTTCGATTT
1 AGGGTTTCAATTT
* *
16310944 AGAGTTTCAATTC
1 AGGGTTTCAATTT
*
16310957 AGGGTTTTAATTT
1 AGGGTTTCAATTT
16310970 TAAAGTTTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
12 2 0.03
13 57 0.75
14 12 0.16
15 4 0.05
16 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (13 bp):
AGGGTTTCAATTT
Found at i:16317517 original size:17 final size:18
Alignment explanation
Indices: 16317488--16317522 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16317478 TGTTATTAAA
*
16317488 TATTTTTACCTTTTTATG
1 TATTTTTACCTTTATATG
16317506 TATTTTTA-CTTTATATG
1 TATTTTTACCTTTATATG
16317523 AATCCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTTTTACCTTTATATG
Found at i:16319107 original size:178 final size:176
Alignment explanation
Indices: 16318895--16319559 Score: 531
Period size: 177 Copynumber: 3.7 Consensus size: 176
16318885 AACATATTTA
* * * * * *
16318895 TTTTAAAATC-TT-TTATTAATTTTTAAAATATTAATAAATTAATATTATTTTAATCCAAATAGG
1 TTTTTAAATCTTTCTTATTAATTTCT-GAATATTAATAAATTAATATTATTTTATTTCAAATAAG
* * *
16318958 CTTTTATGAAGAAAAACAATTGTGTCATGAGAAAACAAAAGGTCATAACAATTTGAAATAAATAA
65 C-TGTATGAAGAAAAACAATTGTGTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAA
* ** *
16319023 TTGTTCAAATAGTCATAATTATTTAAATTATTCGATAAATAGATTTAT
129 TTATTCAAATAGTCATAATTATTTAAATTGCTCGATAAATAGATTCAT
* * ** * *
16319071 TTTTTAAATCTTTTTTATTAGTTGTCTGAATATTAATAAATTTGTATAATTTTATTTGAAATAAG
1 TTTTTAAATCTTTCTTATTAATT-TCTGAATATTAATAAATTAATATTATTTTATTTCAAATAAG
* * * * * * * *
16319136 CTTGTATGAA-TAGAA-AATTTTGTTTTTGGACAAAACAAAAGGTTATAGCAATTAGAAATAGAT
65 C-TGTATGAAGAAAAACAATTGTG-TTAT-GACAAAACAAAAGGTCATAACAATTTGAAATAAAT
* * * * *
16319199 AATTATTCAAATAATCATAATTCTTTGTACTTGCTCGATAAACAGATTCAT
127 AATTATTCAAATAGTCATAATTATTT-AAATTGCTCGATAAATAGATTCAT
* * *
16319250 TTTTTAAATC--TCTTATTAATTTTTAGAATATTAATAAAATAGA-ATTATATTATTTCAAATAA
1 TTTTTAAATCTTTCTTATTAATTTCT-GAATATTAATAAATTA-ATATTATTTTATTTCAAATAA
* * * * ** * *
16319312 GCTAGTCCA-GACAG--AAACAATTGTTTTGTGATAAAACAAAAGGTAATAATGATTTGAAACAG
64 GCT-GT--ATGA-AGAAAAACAATTGTGTTATGACAAAACAAAAGGTCATAACAATTTGAAATAA
* * * * *** *
16319374 ATAATTATTCAAATAGTCATAACTATTTACACTGGTCAGGCCAATTGATTCAT
125 ATAATTATTCAAATAGTCATAATTATTTAAATTGCTC-GATAAATAGATTCAT
** * * *
16319427 TTTTTAAATCTATTACTTATTAATTTCAAAATATTGATAAATTAATATTACTTTATTTCGAATAA
1 TTTTTAAATCT-TT-CTTATTAATTTCTGAATATTAATAAATTAATATTATTTTATTTCAAATAA
* * * * * * **
16319492 GACTGTATGAACAAAAATAATTATTTTATGACAATACAAATGGTCATAATGATTTGAAATAAATA
64 G-CTGTATGAAGAAAAACAATTGTGTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATA
16319557 ATT
128 ATT
16319560 GTTTGAATAG
Statistics
Matches: 383, Mismatches: 82, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
176 22 0.06
177 121 0.32
178 109 0.28
179 40 0.10
180 78 0.20
181 13 0.03
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (176 bp):
TTTTTAAATCTTTCTTATTAATTTCTGAATATTAATAAATTAATATTATTTTATTTCAAATAAGC
TGTATGAAGAAAAACAATTGTGTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATT
ATTCAAATAGTCATAATTATTTAAATTGCTCGATAAATAGATTCAT
Found at i:16320378 original size:22 final size:22
Alignment explanation
Indices: 16320343--16320387 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16320333 TATTTAACTA
* *
16320343 ATATATATTCATTATTAGTAAT
1 ATATATATTCATTAATAATAAT
16320365 ATATATAATT-ATTAATAATAAT
1 ATATAT-ATTCATTAATAATAAT
16320387 A
1 A
16320388 ATTGAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATATATTCATTAATAATAAT
Found at i:16321260 original size:183 final size:180
Alignment explanation
Indices: 16320931--16321423 Score: 576
Period size: 183 Copynumber: 2.7 Consensus size: 180
16320921 TTAAATGTCT
** ** *
16320931 TATTAATTTTCAAAATATTAATAAATCAAAATTATTTTATTTTGAATAATTTTGTATGAACAGAA
1 TATTAATTTTCAAAATATTAATAAAT-AGTATTATTTTATTTTGAATAAGCTTGTATGAATAGAA
* * * *
16320996 ACAATTATTTTATCATAAAACAAAATGTCATAACAATTTGAAATAGATAATTGTTCT-AATGGAC
65 ACAATTATTTTATGATAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTT-TAAATAGTC
* * * * * *
16321060 ATGATTATTTGAACTTGTTCGGTAAACAAATTTA-TTTTTTAAATCTCTTACC
129 ATCACTATTTAAACTTGTTCGATAAACAAATTCATTTTTTTAAATCTCCTA-C
*
16321112 TATTAATTTGCAAAATATTAATAAAAGTAGTATTATTTTATTTTGAATAAGCTTGTATGAATAGA
1 TATTAATTTTCAAAATATTAAT-AAA-TAGTATTATTTTATTTTGAATAAGCTTGTATGAATAGA
* * *
16321177 AACAATTGTTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATGATTGTTTAAATAGT
64 AACAATT-ATTTTATGATAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGT
* *
16321242 CATCACTATTTAAACTTGTTCGATAAATAGATTCATTTTTTTAAATCTCCTAC
128 CATCACTATTTAAACTTGTTCGATAAACAAATTCATTTTTTTAAATCTCCTAC
* * * * * * * *
16321295 TCGTTAATTTTTAGAATATTAATAAATTAGTAATATTTTATTTCGAATAAGCCTATATGAATTGA
1 T-ATTAATTTTCAAAATATTAATAAA-TAGTATTATTTTATTTTGAATAAGCTTGTATGAATAGA
* * * * ** *
16321360 TAGAATTATTTTATGATAAAACAATAGGTCATGATGATTTGAAATAGATAATTGTTCAAATAGT
64 AACAATTATTTTATGATAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGT
16321424 TATGAATATT
Statistics
Matches: 265, Mismatches: 41, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
181 21 0.08
182 92 0.35
183 120 0.45
184 32 0.12
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (180 bp):
TATTAATTTTCAAAATATTAATAAATAGTATTATTTTATTTTGAATAAGCTTGTATGAATAGAAA
CAATTATTTTATGATAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCAT
CACTATTTAAACTTGTTCGATAAACAAATTCATTTTTTTAAATCTCCTAC
Found at i:16321697 original size:14 final size:15
Alignment explanation
Indices: 16321665--16321698 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16321655 GACTAAAAGT
16321665 CAATAATTATTAATAA
1 CAATAATTATT-ATAA
16321681 CAATAATTATT-TAA
1 CAATAATTATTATAA
16321695 CAAT
1 CAAT
16321699 TTTTTCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
CAATAATTATTATAA
Found at i:16321759 original size:23 final size:23
Alignment explanation
Indices: 16321717--16321760 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16321707 AATTGTATAT
*
16321717 TAATTAATTATAATATTTAATTA
1 TAATTAATTATAATAATTAATTA
16321740 TAATTAATTA-AATTAATTAAT
1 TAATTAATTATAA-TAATTAAT
16321761 ATCCATCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATTAATTATAATAATTAATTA
Found at i:16322520 original size:20 final size:19
Alignment explanation
Indices: 16322491--16322534 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
16322481 AACAATTTTT
16322491 AATTTTAATAATT-ATATAA
1 AATTTTAAT-ATTAATATAA
16322510 AATTGTTAATATTAATATAA
1 AATT-TTAATATTAATATAA
*
16322530 CATTT
1 AATTT
16322535 AACTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTTAATATTAATATAA
Found at i:16322694 original size:16 final size:16
Alignment explanation
Indices: 16322673--16322763 Score: 54
Period size: 15 Copynumber: 6.1 Consensus size: 16
16322663 TTTATTTTTA
16322673 TTAATTATTTAATTAT
1 TTAATTATTTAATTAT
*
16322689 TTAATTA-TTAATGATT
1 TTAATTATTTAATTA-T
* *
16322705 TTAA-TA-ATAA-CAT
1 TTAATTATTTAATTAT
* *
16322718 TTAATTATTTACTGA-
1 TTAATTATTTAATTAT
16322733 TTAATT-TTT-ATTAT
1 TTAATTATTTAATTAT
*
16322747 TATGATTATTT-ATTAT
1 T-TAATTATTTAATTAT
16322763 T
1 T
16322764 AATAGTTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.12
14 7 0.12
15 23 0.39
16 22 0.37
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.58
Consensus pattern (16 bp):
TTAATTATTTAATTAT
Found at i:16323362 original size:8 final size:8
Alignment explanation
Indices: 16323349--16323396 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 8
16323339 TAAACTAAAA
16323349 ATTATAAT
1 ATTATAAT
16323357 ATTATAAT
1 ATTATAAT
16323365 ATTATAA-
1 ATTATAAT
16323372 A-TATAAT
1 ATTATAAT
16323379 ATT-T-AT
1 ATTATAAT
16323385 ATTA-AA-
1 ATTATAAT
16323391 ATTATA
1 ATTATA
16323397 TGTTATACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
6 14 0.40
7 5 0.14
8 16 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTATAAT
Found at i:16323363 original size:22 final size:22
Alignment explanation
Indices: 16323338--16323381 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16323328 TTAATTTATC
16323338 ATAA-ACTAAAAATTATAATATT
1 ATAATACTAAAAA-TATAATATT
* *
16323360 ATAATATTATAAATATAATATT
1 ATAATACTAAAAATATAATATT
16323382 TATATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAATACTAAAAATATAATATT
Found at i:16323378 original size:14 final size:16
Alignment explanation
Indices: 16323349--16323396 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 16
16323339 TAAACTAAAA
16323349 ATTATAATATTATAAT
1 ATTATAATATTATAAT
16323365 ATTATAA-A-TATAAT
1 ATTATAATATTATAAT
16323379 ATT-T-ATATTA-AA-
1 ATTATAATATTATAAT
16323391 ATTATA
1 ATTATA
16323397 TGTTATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 4 0.14
13 5 0.18
14 11 0.39
15 1 0.04
16 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATAATATTATAAT
Found at i:16323397 original size:22 final size:22
Alignment explanation
Indices: 16323344--16323396 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
16323334 TATCATAAAC
16323344 TAAAAATTATAATATTATAATAT
1 TAAAAA-TATAATATTATAATAT
*
16323367 TATAAATATAATATT-T-ATAT
1 TAAAAATATAATATTATAATAT
*
16323387 TAAAATTATA
1 TAAAAATATA
16323397 TGTTATACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.44
21 1 0.04
22 9 0.33
23 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAATATAATATTATAATAT
Found at i:16323456 original size:39 final size:42
Alignment explanation
Indices: 16323413--16323502 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 42
16323403 ACAATATTAA
**
16323413 TAATTATTTGTATTAATTAT-ATTA-ACATAATTA-ATAACT
1 TAATTATTAATATTAATTATAATTATACATAATTATATAACT
* * *
16323452 TAATTATTAATATTTATTATAATTATATATAATTATATTACT
1 TAATTATTAATATTAATTATAATTATACATAATTATATAACT
*
16323494 TAATAATTA
1 TAATTATTA
16323503 TTTTTAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 17 0.40
40 4 0.10
41 8 0.19
42 13 0.31
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (42 bp):
TAATTATTAATATTAATTATAATTATACATAATTATATAACT
Found at i:16324024 original size:18 final size:18
Alignment explanation
Indices: 16323977--16324025 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
16323967 AAAAAAAATT
16323977 ATAATAAAATTATTAATAA
1 ATAAT-AAATTATTAATAA
* **
16323996 GTAATTTATTATTAATAA
1 ATAATAAATTATTAATAA
16324014 ATAATAAATTAT
1 ATAATAAATTAT
16324026 ATTTATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATAAATTATTAATAA
Found at i:16324138 original size:14 final size:14
Alignment explanation
Indices: 16324119--16324168 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
16324109 TATTATTGAA
16324119 AATAATAATTATAT
1 AATAATAATTATAT
*
16324133 AATAATTATTATAT
1 AATAATAATTATAT
* *
16324147 --TATTTATTAT-T
1 AATAATAATTATAT
16324158 AATAATAATTA
1 AATAATAATTA
16324169 ATTTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 1 0.03
12 9 0.30
13 7 0.23
14 13 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATAATTATAT
Found at i:16324184 original size:28 final size:28
Alignment explanation
Indices: 16324126--16324189 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
16324116 GAAAATAATA
*
16324126 ATTATATAATAATTATTATATTATTTATT
1 ATTA-ATAATAATTATTATATTATATATT
16324155 ATTAATAATAATTAATT-TA-TATATACTT
1 ATTAATAATAATT-ATTATATTATATA-TT
*
16324183 ATAAATA
1 ATTAATA
16324190 TACATATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 19 0.61
29 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTAATAATAATTATTATATTATATATT
Found at i:16324584 original size:18 final size:19
Alignment explanation
Indices: 16324560--16324612 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
16324550 TAAGTTAATA
16324560 ATAATTTATATTA-AA-TT
1 ATAATTTATATTATAATTT
16324577 ATTAATTTTATATTATAATTT
1 A-TAA-TTTATATTATAATTT
16324598 ATAA-TTATATTATAA
1 ATAATTTATATTATAA
16324613 ATTAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 14 0.44
19 9 0.28
20 5 0.16
21 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAATTTATATTATAATTT
Found at i:16324625 original size:18 final size:18
Alignment explanation
Indices: 16324514--16324627 Score: 52
Period size: 18 Copynumber: 5.8 Consensus size: 18
16324504 CAATAATTAT
16324514 TTATAATAATA-TATAAAA
1 TTATAATAATATTAT-AAA
* *
16324532 TTTATTAATTAATTATTGTAAG
1 -TTA-TAA-TAA-TATTATAAA
*
16324554 TTAATAATAATTTATATTAAA
1 TT-ATAATAATAT-TA-TAAA
* *
16324575 TTATTAATTTTATATTATAAT
1 TTA-TAA--TAATATTATAAA
*
16324596 TTATAATTATATTATAAA
1 TTATAATAATATTATAAA
16324614 TTA-ACATAATATTA
1 TTATA-ATAATATTA
16324628 AATAAGTATT
Statistics
Matches: 74, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
17 1 0.01
18 22 0.30
19 5 0.07
20 11 0.15
21 22 0.30
22 7 0.09
23 6 0.08
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATAATAATATTATAAA
Found at i:16324769 original size:17 final size:17
Alignment explanation
Indices: 16324740--16324794 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
16324730 TAAATTTTTA
16324740 TAATATATT-AATTATAT
1 TAAT-TATTAAATTATAT
16324757 TAATTATTAAATT-TAAT
1 TAATTATTAAATTAT-AT
*
16324774 TTATTATTATAA-TATAT
1 TAATTATTA-AATTATAT
16324791 TAAT
1 TAAT
16324795 AAGTAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 24 0.75
18 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTATTAAATTATAT
Found at i:16324844 original size:19 final size:19
Alignment explanation
Indices: 16324811--16324855 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16324801 TATTATAATA
*
16324811 AATTATATATATTTTCGAT
1 AATTATATATATTTTCAAT
*
16324830 AATTATAT-TATTTTTTAAT
1 AATTATATATA-TTTTCAAT
16324849 AATTATA
1 AATTATA
16324856 ACAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTATATATATTTTCAAT
Found at i:16324936 original size:16 final size:17
Alignment explanation
Indices: 16324915--16324946 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16324905 GAAAATTAAA
16324915 TATATAAT-TTATAATC
1 TATATAATATTATAATC
16324931 TATATAATATTATAAT
1 TATATAATATTATAAT
16324947 TAAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATAATATTATAATC
Found at i:16325173 original size:13 final size:12
Alignment explanation
Indices: 16325125--16325180 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
16325115 TTATAATTAT
16325125 TATAATTATATA
1 TATAATTATATA
*
16325137 CT-TAATTAAATA
1 -TATAATTATATA
*
16325149 TATTATTGATATA
1 TATAATT-ATATA
16325162 TAATAATTATATA
1 T-ATAATTATATA
16325175 TTATAA
1 -TATAA
16325181 ACAAATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 1 0.03
12 13 0.37
13 15 0.43
14 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
TATAATTATATA
Found at i:16326059 original size:20 final size:20
Alignment explanation
Indices: 16326034--16326072 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16326024 TATAATATCA
*
16326034 AATA-TTATTATAATATTATT
1 AATATTTATAATAA-ATTATT
16326054 AATATTTATAATAAATTAT
1 AATATTTATAATAAATTAT
16326073 ATCTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTATAATAAATTATT
Found at i:16326257 original size:26 final size:25
Alignment explanation
Indices: 16326166--16326258 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 25
16326156 TAGTATATAA
16326166 TATAATAATTAATA-ATATTATTA--
1 TATAATAATTAATATA-ATTATTATC
*
16326189 TAAAATAA-TAATA-AATTATTATC
1 TATAATAATTAATATAATTATTATC
* *
16326212 TAT-TTATTTAAT-T-ATGTATTATC
1 TATAATAATTAATATAAT-TATTATC
16326235 TATAATAATTAATATAAATTATTA
1 TATAATAATTAATAT-AATTATTA
16326259 ATAATTTGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
21 7 0.13
22 10 0.18
23 23 0.42
24 7 0.13
25 1 0.02
26 5 0.09
27 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (25 bp):
TATAATAATTAATATAATTATTATC
Found at i:16326694 original size:9 final size:9
Alignment explanation
Indices: 16326672--16326705 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16326662 TTATAAGTAA
*
16326672 TAATATATT
1 TAATATTTT
*
16326681 AAATATTTT
1 TAATATTTT
16326690 TAATATTTT
1 TAATATTTT
16326699 TAATATT
1 TAATATT
16326706 ACATAGTCAC
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TAATATTTT
Found at i:16327103 original size:33 final size:33
Alignment explanation
Indices: 16327063--16327126 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
16327053 TAAAATAAAT
*
16327063 AATTATAATTATTTATTTA-TAAT-TTAATAATAA
1 AATTATAAGTA-TTA-TTAGTAATATTAATAATAA
16327096 AATTATAAGTATTATTAGTAATATTAATAAT
1 AATTATAAGTATTATTAGTAATATTAATAAT
16327127 TGTATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 3 0.11
32 7 0.25
33 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
AATTATAAGTATTATTAGTAATATTAATAATAA
Found at i:16327299 original size:28 final size:29
Alignment explanation
Indices: 16327267--16327331 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
16327257 AATTACTATA
16327267 TTAAATAAAAATTATAACTTAT-AATTAG
1 TTAAATAAAAATTATAACTTATAAATTAG
* * *
16327295 TTAAATATAATTTATTACTTATAAATTAG
1 TTAAATAAAAATTATAACTTATAAATTAG
16327324 TATAAATA
1 T-TAAATA
16327332 TATATTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 19 0.59
29 7 0.22
30 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTAAATAAAAATTATAACTTATAAATTAG
Found at i:16327382 original size:30 final size:30
Alignment explanation
Indices: 16327348--16327456 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 30
16327338 GAAATTATGT
16327348 TTATTTATATAATATT-TATTAAATAACAAA
1 TTATTTATATAAT-TTATATTAAATAACAAA
* *
16327378 TTATTTATTTAATTTATATTAATTAA-ATATA
1 TTATTTATATAATTTATATTAAATAACA-A-A
16327409 TTATTTAATATCAATTTTATATTAAATAACTAAA
1 TTATTT-ATAT-AA-TTTATATTAAATAAC-AAA
*
16327443 -TATATAT-TAATTTA
1 TTATTTATATAATTTA
16327457 GCTAAAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
29 7 0.11
30 24 0.36
31 8 0.12
32 5 0.08
33 6 0.09
34 14 0.21
35 1 0.02
36 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TTATTTATATAATTTATATTAAATAACAAA
Found at i:16327482 original size:18 final size:19
Alignment explanation
Indices: 16327459--16327508 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
16327449 TTAATTTAGC
16327459 TAAAATATAATAATAT-TA
1 TAAAATATAATAATATATA
*
16327477 TAAAATTTAATAA-ATATA
1 TAAAATATAATAATATATA
16327495 TAAAA-ATTAATAAT
1 TAAAATA-TAATAAT
16327509 TAATAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATATAATAATATATA
Found at i:16327491 original size:27 final size:26
Alignment explanation
Indices: 16327461--16327554 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 26
16327451 AATTTAGCTA
16327461 AAATATAATAATATTATAAAATTTAAT
1 AAATATAATAATATTATAAAA-TTAAT
* *
16327488 AAATAT-ATAAAAATTA-ATAATTAAT
1 AAATATAAT-AATATTATAAAATTAAT
* *
16327513 AAGATATTAT-AT-TTAT-TAATTAAT
1 AA-ATATAATAATATTATAAAATTAAT
*
16327537 AAAT-TAATTATATTATAA
1 AAATATAATAATATTATAA
16327555 TTATAATATT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
22 3 0.05
23 4 0.07
24 17 0.31
25 8 0.15
26 9 0.16
27 14 0.25
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATAATATTATAAAATTAAT
Found at i:16327607 original size:21 final size:21
Alignment explanation
Indices: 16327516--16327615 Score: 61
Period size: 21 Copynumber: 4.8 Consensus size: 21
16327506 AATTAATAAG
*
16327516 ATATTATAT-TTATTAATTAATA
1 ATATTATTTATTA-TAATT-ATA
16327538 A-ATTAATTATATTATAATTATA
1 ATATT-ATT-TATTATAATTATA
*
16327560 ATATT-TGTTA-TA-AA--ACA
1 ATATTAT-TTATTATAATTATA
*
16327577 ATTATAATTTATTATAATTATA
1 A-TATTATTTATTATAATTATA
*
16327599 ATATTATTTGTTATAAT
1 ATATTATTTATTATAAT
16327616 ATTATTTTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 23
0.68 0.07 0.26
Matches are distributed among these distances:
17 3 0.05
18 6 0.10
19 5 0.08
20 4 0.07
21 20 0.33
22 11 0.18
23 9 0.15
24 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTATTTATTATAATTATA
Found at i:16327614 original size:15 final size:15
Alignment explanation
Indices: 16327594--16327622 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16327584 TTTATTATAA
16327594 TTATAATATTATTTG
1 TTATAATATTATTTG
16327609 TTATAATATTATTT
1 TTATAATATTATTT
16327623 TAATTGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATAATATTATTTG
Found at i:16328283 original size:12 final size:13
Alignment explanation
Indices: 16328253--16328295 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
16328243 TAACAAATAT
16328253 TATAATT-A-TAA
1 TATAATTAATTAA
16328264 TATAATTAATTAA
1 TATAATTAATTAA
16328277 T-TAATTAATTAAA
1 TATAATTAATT-AA
16328290 TATAAT
1 TATAAT
16328296 ATCTTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.25
12 10 0.36
13 7 0.25
14 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATTAATTAA
Found at i:16328961 original size:11 final size:11
Alignment explanation
Indices: 16328945--16328986 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
16328935 ATAAATTACC
*
16328945 TTATATTATAG
1 TTATATTATAA
16328956 TTATATTATAA
1 TTATATTATAA
* *
16328967 ATATACTATAA
1 TTATATTATAA
16328978 TTATATTAT
1 TTATATTAT
16328987 CGATAATCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TTATATTATAA
Found at i:16329494 original size:29 final size:30
Alignment explanation
Indices: 16329462--16329536 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
16329452 TAAATATAAA
16329462 TAGTTATATAATATTATT-TATAATTATA-T
1 TAGTTATATAATATTATTATATAA-TATACT
16329491 TAGTTAT-TAAT-TTAATTATATAATATACT
1 TAGTTATATAATATT-ATTATATAATATACT
* *
16329520 TAATTATTAAAATATTA
1 TAGTTA-TATAATATTA
16329537 AGTAGGATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 2 0.05
28 11 0.29
29 18 0.47
30 1 0.03
31 4 0.11
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (30 bp):
TAGTTATATAATATTATTATATAATATACT
Found at i:16329985 original size:18 final size:18
Alignment explanation
Indices: 16329959--16330006 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16329949 ATAAACTAGT
*
16329959 ATTATTAATAATTTAAAA
1 ATTAATAATAATTTAAAA
*
16329977 ATTAATAAT-ATATTAATA
1 ATTAATAATAAT-TTAAAA
16329995 ATT-ATAATAATT
1 ATTAATAATAATT
16330007 AATTATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATAATAATTTAAAA
Found at i:16330229 original size:21 final size:19
Alignment explanation
Indices: 16330180--16330236 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 19
16330170 CTATTTTAAT
16330180 ATTAATT-AATATAATATA
1 ATTAATTAAATATAATATA
16330198 ACTATATATTAAATTATTAATATA
1 A-T-TA-ATTAAA-TA-TAATATA
16330222 ATTAATT-AATATAAT
1 ATTAATTAAATATAAT
16330237 TGAATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 4 0.12
21 6 0.18
22 4 0.12
23 3 0.09
24 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATTAAATATAATATA
Found at i:16330231 original size:13 final size:13
Alignment explanation
Indices: 16330180--16330237 Score: 64
Period size: 13 Copynumber: 4.2 Consensus size: 13
16330170 CTATTTTAAT
16330180 ATTAATTAATATA
1 ATTAATTAATATA
*
16330193 ATATAACTATATATTAA
1 AT-TAATTA-ATA-T-A
16330210 ATT-ATTAATATA
1 ATTAATTAATATA
16330222 ATTAATTAATATA
1 ATTAATTAATATA
16330235 ATT
1 ATT
16330238 GAATATTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 4 0.11
13 15 0.39
14 8 0.21
15 6 0.16
16 2 0.05
17 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTAATATA
Found at i:16330244 original size:37 final size:38
Alignment explanation
Indices: 16330175--16330264 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
16330165 ATTTACTATT
*
16330175 TTAATATTAATTAATATAATATAACTATATATTAAATTA
1 TTAATA-TAATTAATATAATATAACTATATATTAAACTA
* *
16330214 TTAATATAATTAAT-TAATATAATTGA-ATATTAAGCTA
1 TTAATATAATTAATATAATATAACT-ATATATTAAACTA
16330251 TTAAT-TAA-TAATAT
1 TTAATATAATTAATAT
16330265 TGTTTTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
35 4 0.09
36 4 0.09
37 23 0.50
38 9 0.20
39 6 0.13
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (38 bp):
TTAATATAATTAATATAATATAACTATATATTAAACTA
Found at i:16330389 original size:28 final size:30
Alignment explanation
Indices: 16330358--16330414 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
16330348 AAATCATTTA
16330358 AATAATAATAAATAACTAAA-ATA-AATAT
1 AATAATAATAAATAACTAAATATATAATAT
*
16330386 AATAATTATAAATAACTAAATATATAATA
1 AATAATAATAAATAACTAAATATATAATA
16330415 GTTTATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.73
29 3 0.12
30 4 0.15
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (30 bp):
AATAATAATAAATAACTAAATATATAATAT
Found at i:16330414 original size:15 final size:14
Alignment explanation
Indices: 16330365--16330414 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
16330355 TTAAATAATA
16330365 ATAAATAACTAAA-
1 ATAAATAACTAAAT
* *
16330378 ATAAATATAATAATT
1 ATAAATA-ACTAAAT
16330393 ATAAATAACTAAAT
1 ATAAATAACTAAAT
16330407 ATATAATA
1 ATA-AATA
16330415 GTTTATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 7 0.23
14 12 0.40
15 11 0.37
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAACTAAAT
Found at i:16330455 original size:18 final size:19
Alignment explanation
Indices: 16330424--16330462 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16330414 AGTTTATTTC
16330424 AAATCATTAAAATAATAAT
1 AAATCATTAAAATAATAAT
* *
16330443 AAAT-ATTATAATAATTAT
1 AAATCATTAAAATAATAAT
16330461 AA
1 AA
16330463 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATCATTAAAATAATAAT
Found at i:16330482 original size:35 final size:34
Alignment explanation
Indices: 16330437--16330540 Score: 99
Period size: 35 Copynumber: 3.0 Consensus size: 34
16330427 TCATTAAAAT
*
16330437 AATAA-TAAATATTATAATAATTATAATA-ATTTA
1 AATAATTAAATATTATAATAATTATAATATA-ATA
*
16330470 AATAACTTAAATA-TATAATAGTTATTAATATAATA
1 AATAA-TTAAATATTATAATAATTA-TAATATAATA
*
16330505 AATAATAAATATATTAT-ATAATTATATAGTATAATA
1 AATAATTAA-ATATTATAATAATTATA-A-TATAATA
16330541 TATTAATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
33 5 0.08
34 15 0.25
35 28 0.47
36 11 0.19
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (34 bp):
AATAATTAAATATTATAATAATTATAATATAATA
Found at i:16330482 original size:75 final size:75
Alignment explanation
Indices: 16330340--16330530 Score: 245
Period size: 75 Copynumber: 2.6 Consensus size: 75
16330330 TGAACAATTA
* * * *
16330340 TTTATTTCAAATCATTTAAATAATAATAAATAACTAAAATAAATATAATAATTATAAATAACTAA
1 TTTATTTCAAATCATTAAAATAATAATAAAT-ATTATAATAATTATAATAATTATAAATAACTAA
16330405 ATATATAATAG
65 ATATATAATAG
16330416 TTTATTTCAAATCATTAAAATAATAATAAATATTATAATAATTATAATAATT-TAAATAACTTAA
1 TTTATTTCAAATCATTAAAATAATAATAAATATTATAATAATTATAATAATTATAAATAAC-TAA
16330480 ATATATAATAG
65 ATATATAATAG
* *
16330491 -TTA-TT--AAT-ATAATAAATAATAA-ATATATTAT-ATAATTATA
1 TTTATTTCAAATCATTA-AAATAATAATAAATATTATAATAATTATA
16330531 TAGTATAATA
Statistics
Matches: 107, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
69 9 0.08
70 11 0.10
71 12 0.11
73 2 0.02
74 11 0.10
75 32 0.30
76 30 0.28
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (75 bp):
TTTATTTCAAATCATTAAAATAATAATAAATATTATAATAATTATAATAATTATAAATAACTAAA
TATATAATAG
Found at i:16330506 original size:26 final size:25
Alignment explanation
Indices: 16330449--16330552 Score: 80
Period size: 26 Copynumber: 4.2 Consensus size: 25
16330439 TAATAAATAT
*
16330449 TATAAT-AAT-TATAATAAT-TTAA
1 TATAATAAATATATAATATTATTAA
16330471 -ATAACTTAAATATATAATAGTTATTAA
1 TATAA--TAAATATATAATA-TTATTAA
16330498 TATAATAAATA-ATAA-ATATATT-A
1 TATAATAAATATATAATAT-TATTAA
*
16330521 TATAATTATATAGTATAATA-TATTAA
1 TATAA-TAAATA-TATAATATTATTAA
16330547 TATAAT
1 TATAAT
16330553 TTATAAATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
21 4 0.06
23 8 0.12
24 13 0.19
25 16 0.24
26 17 0.25
27 5 0.07
28 4 0.06
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (25 bp):
TATAATAAATATATAATATTATTAA
Found at i:16330800 original size:20 final size:20
Alignment explanation
Indices: 16330777--16330819 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
16330767 TTAAATTTAA
16330777 ATTATAATAATTACTAAT-TT
1 ATTATAATAATTA-TAATATT
*
16330797 ATTATAATTATTATAATATT
1 ATTATAATAATTATAATATT
16330817 ATT
1 ATT
16330820 TTATTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATAATAATTATAATATT
Found at i:16331726 original size:27 final size:25
Alignment explanation
Indices: 16331696--16331751 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
16331686 GTTATATTAT
16331696 TAATAACAATTATTAAATAATTATAAA
1 TAATAACAATTATTAAAT-A-TATAAA
* * *
16331723 TAATTATATTTATTAAATATATAAA
1 TAATAACAATTATTAAATATATAAA
16331748 TAAT
1 TAAT
16331752 TTATATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 1 0.04
27 15 0.58
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAATAACAATTATTAAATATATAAA
Found at i:16331756 original size:13 final size:12
Alignment explanation
Indices: 16331711--16331769 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
16331701 ACAATTATTA
16331711 AATAA-TTATA-
1 AATAATTTATAT
*
16331721 AATAATTATATTT
1 AATAATT-TATAT
* *
16331734 ATTAA-ATATAT
1 AATAATTTATAT
16331745 AAATAATTTATAT
1 -AATAATTTATAT
16331758 AATAATTTATAT
1 AATAATTTATAT
16331770 TGTTATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.13
11 5 0.13
12 19 0.50
13 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATAATTTATAT
Found at i:16331769 original size:25 final size:25
Alignment explanation
Indices: 16331703--16331762 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
16331693 TATTAATAAC
16331703 AATTAT-TA-AAT-AAT-TATAAAT
1 AATTATATATAATAAATATATAAAT
* *
16331724 AATTATATTTATTAAATATATAAAT
1 AATTATATATAATAAATATATAAAT
16331749 AATT-TATATAATAA
1 AATTATATATAATAA
16331763 TTTATATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 6 0.19
22 1 0.03
23 2 0.06
24 11 0.35
25 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATATATAATAAATATATAAAT
Found at i:16332118 original size:14 final size:14
Alignment explanation
Indices: 16332042--16332119 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 14
16332032 TTTTATCTAT
*
16332042 TTTAATAATATCTA
1 TTTAATAATATATA
* *
16332056 TATAATAATAATACCAA
1 TTTAATAAT-ATA--TA
16332073 TTTAATAATATA-A
1 TTTAATAATATATA
16332086 TTTAAT-AT-TATA
1 TTTAATAATATATA
*
16332098 -AT-A-AATATATA
1 TTTAATAATATATA
16332109 TTTAATAATAT
1 TTTAATAATAT
16332120 TTATAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
10 3 0.06
11 7 0.14
12 4 0.08
13 8 0.16
14 13 0.27
15 2 0.04
16 3 0.06
17 9 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAATAATATATA
Found at i:16332192 original size:18 final size:18
Alignment explanation
Indices: 16332171--16332216 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
16332161 TTATAACTTT
16332171 TTAATAATTATTAAAATA
1 TTAATAATTATTAAAATA
16332189 TTAATAATTATTAAAATA
1 TTAATAATTATTAAAATA
16332207 TTAATAATTA
1 TTAATAATTA
16332217 AAATCATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAATTATTAAAATA
Found at i:16332193 original size:15 final size:15
Alignment explanation
Indices: 16332175--16332225 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 15
16332165 AACTTTTTAA
16332175 TAATTATTAAAATATT
1 TAATTATTAAAATA-T
16332191 AATAATTATTAAAATAT
1 --TAATTATTAAAATAT
*
16332208 TAATAATTAAAATCAT
1 TAATTATTAAAAT-AT
16332224 TA
1 TA
16332226 TGACTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 12 0.39
16 4 0.13
17 1 0.03
18 14 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTATTAAAATAT
Found at i:16332260 original size:18 final size:19
Alignment explanation
Indices: 16332233--16332321 Score: 83
Period size: 18 Copynumber: 4.5 Consensus size: 19
16332223 TTATGACTTT
*
16332233 TTAATCATTATTA-AAATA
1 TTAATAATTATTATAAATA
16332251 TTAATAATTATTAATAAATTA
1 TTAATAATTATT-ATAAA-TA
* *
16332272 TTAAATAATAATTTATAATTA
1 TT-AATAATTA-TTATAAATA
16332293 TT-ATAATTATTATAATATA
1 TTAATAATTATTATAA-ATA
*
16332312 TTATTAATTA
1 TTAATAATTA
16332322 AATATATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 17 0.29
19 11 0.19
20 9 0.16
21 8 0.14
22 11 0.19
23 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATAATTATTATAAATA
Found at i:16332282 original size:25 final size:25
Alignment explanation
Indices: 16332252--16332318 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 25
16332242 ATTAAAATAT
16332252 TAATAATTATTAATAAATTATTAAA
1 TAATAATTATTAATAAATTATTAAA
16332277 TAATAA-T-TT-AT-AATTATT--A
1 TAATAATTATTAATAAATTATTAAA
* *
16332296 TAATTATTA-TAATATATTATTAA
1 TAATAATTATTAATAAATTATTAA
16332319 TTAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 9 0.26
22 8 0.24
23 2 0.06
24 1 0.03
25 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATAATTATTAATAAATTATTAAA
Found at i:16332305 original size:62 final size:60
Alignment explanation
Indices: 16332138--16332321 Score: 198
Period size: 62 Copynumber: 3.0 Consensus size: 60
16332128 ATTATCTTTA
*
16332138 ATTAAAATA-TAATAAA-ATTTAATTTATAACTTTTTAATAATTATTAAAATATTAATAATT
1 ATTAAAATATTAATAAATA-ATAATTTATAA-TTTTTAATAATTATTAAAATATTAATAATT
* * *
16332198 ATTAAAATATTAATAATTAA-AATCATTATGACTTTTTAATCATTATTAAAATATTAATAATT
1 ATTAAAATATTAATAAATAATAAT--TTAT-AATTTTTAATAATTATTAAAATATTAATAATT
* * *
16332260 ATTAATAA-ATTATTAAATAATAATTTATAATTATT-ATAATTATTATAATATATTATTAATT
1 ATTAA-AATATTAATAAATAATAATTTATAATTTTTAATAATTATTA-AA-ATATTAATAATT
16332321 A
1 A
16332322 AATATATAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
59 9 0.09
60 19 0.18
61 22 0.21
62 49 0.47
63 6 0.06
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (60 bp):
ATTAAAATATTAATAAATAATAATTTATAATTTTTAATAATTATTAAAATATTAATAATT
Found at i:16332344 original size:16 final size:16
Alignment explanation
Indices: 16332257--16332344 Score: 51
Period size: 15 Copynumber: 5.4 Consensus size: 16
16332247 AATATTAATA
16332257 ATTAT-TAA-TAAATT
1 ATTATATAATTAAATT
* *
16332271 ATTAAATAA-TAATTT
1 ATTATATAATTAAATT
*
16332286 A-TA-ATTATTATAATT
1 ATTATATAATTA-AATT
16332301 ATTATAATATATTATTAATT
1 ATTAT-ATA-ATTA--AATT
*
16332321 AAATATATAATTAAATT
1 -ATTATATAATTAAATT
16332338 ATTATAT
1 ATTATAT
16332345 CAATATTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
13 3 0.05
14 8 0.14
15 13 0.22
16 8 0.14
17 4 0.07
18 2 0.03
19 8 0.14
20 8 0.14
21 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATATAATTAAATT
Found at i:16332352 original size:19 final size:17
Alignment explanation
Indices: 16332329--16332375 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
16332319 TTAAATATAT
16332329 AATTAAATTATTATATCA
1 AATTAAATTATTA-ATCA
*
16332347 ATATTAATTTA-TAATCA
1 A-ATTAAATTATTAATCA
16332364 AATTATAATTAT
1 AATTA-AATTAT
16332376 CATAATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 3 0.12
19 8 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTATTAATCA
Found at i:16333875 original size:14 final size:14
Alignment explanation
Indices: 16333856--16333885 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16333846 GACTATTTCA
*
16333856 ATTAATAAATATTT
1 ATTAATAAATAATT
16333870 ATTAATAAATAATT
1 ATTAATAAATAATT
16333884 AT
1 AT
16333886 CTATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTAATAAATAATT
Found at i:16334140 original size:18 final size:18
Alignment explanation
Indices: 16334080--16334214 Score: 56
Period size: 18 Copynumber: 7.5 Consensus size: 18
16334070 ATTATTAGTA
*
16334080 TATT-ATAACTAATAT-AG
1 TATTAATAA-TAATATAAT
16334097 TATTAATAATCAAGTATAAAT
1 TATTAATAAT-AA-TAT-AAT
*
16334118 AATTAATAATAATATAAT
1 TATTAATAATAATATAAT
* *
16334136 TATT-ATAATTCATTTAAT
1 TATTAATAA-TAATATAAT
*
16334154 T-TTAAAAATAAT-T--T
1 TATTAATAATAATATAAT
*
16334168 TAATAAT-ATAATA-AAT
1 TATTAATAATAATATAAT
16334184 TATATAAATACAATATATATAAT
1 TAT-T-AAT--AATA-ATATAAT
16334207 TA-TAATAA
1 TATTAATAA
16334215 ATTTATTATA
Statistics
Matches: 90, Mismatches: 10, Indels: 35
0.67 0.07 0.26
Matches are distributed among these distances:
14 7 0.08
15 3 0.03
16 4 0.04
17 15 0.17
18 28 0.31
19 6 0.07
20 5 0.06
21 14 0.16
22 3 0.03
23 5 0.06
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
TATTAATAATAATATAAT
Found at i:16334193 original size:21 final size:22
Alignment explanation
Indices: 16334169--16334230 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
16334159 AAATAATTTT
16334169 AATAATATAATAAATTAT-ATA
1 AATAATATAATAAATTATAATA
16334190 AATACA-ATATATATAATTATAATA
1 AATA-ATATA-ATA-AATTATAATA
* *
16334214 AAT-TTATTATAAATTAT
1 AATAATATAATAAATTAT
16334231 TTATCTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 13 0.38
22 7 0.21
23 8 0.24
24 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATATAATAAATTATAATA
Found at i:16334198 original size:23 final size:24
Alignment explanation
Indices: 16334172--16334216 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
16334162 TAATTTTAAT
16334172 AATATA-ATAAATTAT-ATAAATAC
1 AATATATAT-AATTATAATAAATAC
16334195 AATATATATAATTATAATAAAT
1 AATATATATAATTATAATAAAT
16334217 TTATTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATATATAATTATAATAAATAC
Found at i:16334247 original size:19 final size:19
Alignment explanation
Indices: 16334219--16334256 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16334209 TAATAAATTT
16334219 ATTATAAA-TTATTTATCTA
1 ATTATAAATTTA-TTATCTA
*
16334238 ATTATTAATTTATTATCTA
1 ATTATAAATTTATTATCTA
16334257 TCAATAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTATAAATTTATTATCTA
Done.