Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 120 of 313
Found at i:38674308 original size:27 final size:27
Alignment explanation
Indices: 38674278--38674333 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
38674268 AAAAAATAAA
* *
38674278 AATAAAAATTATGATAATTATATATTT
1 AATAAAAATTATAATAATTACATATTT
* * *
38674305 AATAGACATTGTAATAATTACATATTT
1 AATAAAAATTATAATAATTACATATTT
38674332 AA
1 AA
38674334 AAATAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (27 bp):
AATAAAAATTATAATAATTACATATTT
Found at i:38674673 original size:3 final size:3
Alignment explanation
Indices: 38674661--38674703 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
38674651 AAAAAGAAAA
* *
38674661 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AGG AAG CAAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG
38674704 TAGATGTGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:38676877 original size:3 final size:3
Alignment explanation
Indices: 38676862--38676907 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
38676852 AGTTTTAAAA
* * * *
38676862 AAT AAT GAT AAT AAT AAT GAT AAT AAT AAT AGT AAT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
38676908 TTATAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38676897 original size:12 final size:13
Alignment explanation
Indices: 38676862--38676927 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 13
38676852 AGTTTTAAAA
38676862 AATAAT-GATAAT
1 AATAATAGATAAT
38676874 AATAAT-GATAAT
1 AATAATAGATAAT
38676886 AATAATAG-TAAT
1 AATAATAGATAAT
*
38676898 AGTAATA-ATATTAT
1 AATAATAGATA--AT
*
38676912 AAAAATAAGATAAT
1 AATAAT-AGATAAT
38676926 AA
1 AA
38676928 ATAAGTAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 30 0.67
13 1 0.02
14 10 0.22
15 1 0.02
16 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
AATAATAGATAAT
Found at i:38677105 original size:12 final size:11
Alignment explanation
Indices: 38677086--38677115 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
38677076 AAAAATGAAG
38677086 AATAATAGACA
1 AATAATAGACA
38677097 AATTAATAGACA
1 AA-TAATAGACA
38677109 AATAATA
1 AATAATA
38677116 AAATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (11 bp):
AATAATAGACA
Found at i:38681399 original size:20 final size:21
Alignment explanation
Indices: 38681374--38681421 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
38681364 TTTATCCCTG
*
38681374 TAAAAAGCCAACA-TTTCCTA
1 TAAAAACCCAACATTTTCCTA
*
38681394 TAAAAACCCAATATTTTCCTA
1 TAAAAACCCAACATTTTCCTA
38681415 TAAAAAC
1 TAAAAAC
38681422 TTAGATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAACCCAACATTTTCCTA
Found at i:38694619 original size:12 final size:12
Alignment explanation
Indices: 38694602--38694629 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38694592 TTACATGCAA
38694602 ACCATGAAGCAG
1 ACCATGAAGCAG
38694614 ACCATGAAGCAG
1 ACCATGAAGCAG
38694626 ACCA
1 ACCA
38694630 AGTTGCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (12 bp):
ACCATGAAGCAG
Found at i:38700624 original size:6 final size:6
Alignment explanation
Indices: 38700604--38700638 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
38700594 TAAAAACAAC
* *
38700604 TAAAAA TAACAA TAAACA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
38700639 CAAATAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:38700624 original size:12 final size:12
Alignment explanation
Indices: 38700590--38700636 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
38700580 TAAGAAAGTG
*
38700590 ACAATAAAAACA
1 ACAATAAAAATA
38700602 AC--TAAAAATA
1 ACAATAAAAATA
*
38700612 ACAATAAACATA
1 ACAATAAAAATA
*
38700624 AAAATAAAAATA
1 ACAATAAAAATA
38700636 A
1 A
38700637 AACAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (12 bp):
ACAATAAAAATA
Found at i:38702389 original size:7 final size:7
Alignment explanation
Indices: 38702377--38702413 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
38702367 AAATAAATAC
38702377 AATAAGA
1 AATAAGA
38702384 AATAAGA
1 AATAAGA
38702391 AATAAGA
1 AATAAGA
38702398 AATAAGA
1 AATAAGA
38702405 AATAA-A
1 AATAAGA
38702411 AAT
1 AAT
38702414 GAAATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AATAAGA
Found at i:38702401 original size:21 final size:18
Alignment explanation
Indices: 38702377--38702420 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
38702367 AAATAAATAC
38702377 AATAAGAAATAAGAAATAAGA
1 AATAAGAAATAA-AAAT--GA
38702398 AATAAGAAATAAAAATGA
1 AATAAGAAATAAAAATGA
38702416 AATAA
1 AATAA
38702421 AATAAAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
20 4 0.17
21 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (18 bp):
AATAAGAAATAAAAATGA
Found at i:38707063 original size:23 final size:21
Alignment explanation
Indices: 38707037--38707088 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
38707027 CTAGAGAAAC
*
38707037 AGAAGAAATAAGAAGGAAGCAGA
1 AGAA-AAATAAGAAGGAA-AAGA
*
38707060 AGAAAAAAAAGGAAGGAAAAGA
1 AGAAAAATAA-GAAGGAAAAGA
38707082 AGAAAAA
1 AGAAAAA
38707089 AATAAGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (21 bp):
AGAAAAATAAGAAGGAAAAGA
Found at i:38707073 original size:19 final size:19
Alignment explanation
Indices: 38707036--38707089 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
38707026 ACTAGAGAAA
*
38707036 CAGAAGAAATAAGAAGGAAG
1 CAGAAGAAA-AAAAAGGAAG
38707056 CAGAAGAAAAAAAAGGAAG
1 CAGAAGAAAAAAAAGGAAG
* *
38707075 GAAAAGAAGAAAAAA
1 CAGAAGAA-AAAAAA
38707090 ATAAGGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.69, C:0.04, G:0.26, T:0.02
Consensus pattern (19 bp):
CAGAAGAAAAAAAAGGAAG
Found at i:38707085 original size:22 final size:23
Alignment explanation
Indices: 38707048--38707090 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
38707038 GAAGAAATAA
*
38707048 GAAGGAAGCAGAAGAAAAAAAAG
1 GAAGGAAGAAGAAGAAAAAAAAG
38707071 GAAGGAA-AAGAAGAAAAAAA
1 GAAGGAAGAAGAAGAAAAAAA
38707091 TAAGGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (23 bp):
GAAGGAAGAAGAAGAAAAAAAAG
Found at i:38707089 original size:23 final size:24
Alignment explanation
Indices: 38707037--38707095 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
38707027 CTAGAGAAAC
* *
38707037 AGAAGAAATAA-GAAGGAAGCAGA
1 AGAAAAAATAAGGAAGGAAGAAGA
38707060 AGAAAAAA-AAGGAAGGAA-AAGA
1 AGAAAAAATAAGGAAGGAAGAAGA
38707082 AGAAAAAAATAAGG
1 AG-AAAAAATAAGG
38707096 TATTTTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 20 0.65
24 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (24 bp):
AGAAAAAATAAGGAAGGAAGAAGA
Found at i:38709726 original size:247 final size:247
Alignment explanation
Indices: 38709290--38709783 Score: 979
Period size: 247 Copynumber: 2.0 Consensus size: 247
38709280 GCACGCATTT
38709290 CCCCACTACAAACCATTTGTGCAAGTAGATGGAACCTGGCTATATGGAAAATACACACAGATCTT
1 CCCCACTACAAACCATTTGTGCAAGTAGATGGAACCTGGCTATATGGAAAATACACACAGATCTT
38709355 ACTTCTTACGGTTGCTCAAGACGGCAACAGGAACGTGCTCCCGATAGTATTTGCCATCATGGATA
66 ACTTCTTACGGTTGCTCAAGACGGCAACAGGAACGTGCTCCCGATAGTATTTGCCATCATGGATA
38709420 AGAAGAACATGGAATCGTGGGAGTTCTTTCTTACCAACCTGCGGAGGTATGTTATTAGCAACGAT
131 AGAAGAACATGGAATCGTGGGAGTTCTTTCTTACCAACCTGCGGAGGTATGTTATTAGCAACGAT
38709485 AATATTTGCATCATCTCCGATAAAGGGAAAGGATTAATTGCAGCCATTAGAC
196 AATATTTGCATCATCTCCGATAAAGGGAAAGGATTAATTGCAGCCATTAGAC
*
38709537 CCCCACTGCAAACCATTTGTGCAAGTAGATGGAACCTGGCTATATGGAAAATACACACAGATCTT
1 CCCCACTACAAACCATTTGTGCAAGTAGATGGAACCTGGCTATATGGAAAATACACACAGATCTT
38709602 ACTTCTTACGGTTGCTCAAGACGGCAACAGGAACGTGCTCCCGATAGTATTTGCCATCATGGATA
66 ACTTCTTACGGTTGCTCAAGACGGCAACAGGAACGTGCTCCCGATAGTATTTGCCATCATGGATA
38709667 AGAAGAACATGGAATCGTGGGAGTTCTTTCTTACCAACCTGCGGAGGTATGTTATTAGCAACGAT
131 AGAAGAACATGGAATCGTGGGAGTTCTTTCTTACCAACCTGCGGAGGTATGTTATTAGCAACGAT
38709732 AATATTTGCATCATCTCCGATAAAGGGAAAGGATTAATTGCAGCCATTAGAC
196 AATATTTGCATCATCTCCGATAAAGGGAAAGGATTAATTGCAGCCATTAGAC
38709784 GTTCTGGTGT
Statistics
Matches: 246, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 246 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (247 bp):
CCCCACTACAAACCATTTGTGCAAGTAGATGGAACCTGGCTATATGGAAAATACACACAGATCTT
ACTTCTTACGGTTGCTCAAGACGGCAACAGGAACGTGCTCCCGATAGTATTTGCCATCATGGATA
AGAAGAACATGGAATCGTGGGAGTTCTTTCTTACCAACCTGCGGAGGTATGTTATTAGCAACGAT
AATATTTGCATCATCTCCGATAAAGGGAAAGGATTAATTGCAGCCATTAGAC
Found at i:38711762 original size:21 final size:21
Alignment explanation
Indices: 38711730--38711818 Score: 56
Period size: 21 Copynumber: 4.0 Consensus size: 21
38711720 AAATTACAAT
38711730 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
* * *
38711751 ATTGCATTATTCAT--ATAAA
1 ATTACAATATTCATACAAAAA
*
38711770 ATTATAATATTACAATATTCATACAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA
38711798 AATTACAATATTCATACAAAA
1 -ATTACAATATTCATACAAAA
38711819 TACTAATCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 19
0.65 0.10 0.25
Matches are distributed among these distances:
19 12 0.24
20 1 0.02
21 14 0.28
22 3 0.06
23 1 0.02
25 1 0.02
27 4 0.08
28 4 0.08
29 10 0.20
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:38711779 original size:48 final size:48
Alignment explanation
Indices: 38711695--38711819 Score: 187
Period size: 48 Copynumber: 2.5 Consensus size: 48
38711685 AATTAATTAT
38711695 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
* * * *
38711746 AAAAAATTGCATTATTCATATAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
38711794 AAAAAATTACAATATTCATACAAAAT
1 AAAAAATTACAATATTCATACAAAAT
38711820 ACTAATCCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 49 0.73
50 14 0.21
51 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:38711886 original size:19 final size:19
Alignment explanation
Indices: 38711852--38711922 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
38711842 AAATTTAATT
38711852 ATAAAATAATTACAATATTC
1 ATAAAA-AATTACAATATTC
*
38711872 ATAAAAAATTTCAATATTC
1 ATAAAAAATTACAATATTC
* *
38711891 ATACAAAAAAAATAGAATATTC
1 AT---AAAAAATTACAATATTC
*
38711913 ATACAAAATT
1 ATAAAAAATT
38711923 CTAATCCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.48
20 6 0.14
22 16 0.38
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAAATTACAATATTC
Found at i:38711899 original size:22 final size:22
Alignment explanation
Indices: 38711854--38711920 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
38711844 ATTTAATTAT
*
38711854 AAAATAATTACAATATTCAT--
1 AAAAAAATTACAATATTCATAC
*
38711874 -AAAAAATTTCAATATTCATAC
1 AAAAAAATTACAATATTCATAC
* *
38711895 AAAAAAAATAGAATATTCATAC
1 AAAAAAATTACAATATTCATAC
38711917 AAAA
1 AAAA
38711921 TTCTAATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 17 0.44
22 22 0.56
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:38711981 original size:102 final size:101
Alignment explanation
Indices: 38711782--38711980 Score: 253
Period size: 102 Copynumber: 2.0 Consensus size: 101
38711772 TATAATATTA
* * *
38711782 CAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAATT
1 CAATATTCATACAAAAAAATACAATATTCATACAAAATACTAATCCAAAACTATAAACACAAATA
* *
38711847 TAATTATAAAATAATTACAATATTCATAAAAAATTT
66 TAATAATAAAATAATTACAATATTAATAAAAAATTT
* *
38711883 CAATATTCATACAAAAAAAATAGAATATTCATACAAAATTCTAATCC-AAACTATAAACACTAAA
1 CAATATTCATAC-AAAAAAATACAATATTCATACAAAATACTAATCCAAAACTATAAACAC-AAA
**
38711947 TATAGATAAT-TTATAATT--AATAATTAATAAAAAA
64 TATA-ATAATAAAATAATTACAAT-ATTAATAAAAAA
38711981 ACTCACAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
100 3 0.04
101 35 0.41
102 43 0.51
103 4 0.05
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (101 bp):
CAATATTCATACAAAAAAATACAATATTCATACAAAATACTAATCCAAAACTATAAACACAAATA
TAATAATAAAATAATTACAATATTAATAAAAAATTT
Found at i:38712004 original size:12 final size:12
Alignment explanation
Indices: 38711987--38712012 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38711977 AAAAACTCAC
38711987 AATATCTTCTAA
1 AATATCTTCTAA
38711999 AATATCTTCTAA
1 AATATCTTCTAA
38712011 AA
1 AA
38712013 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:38712098 original size:3 final size:3
Alignment explanation
Indices: 38712075--38712149 Score: 107
Period size: 3 Copynumber: 24.7 Consensus size: 3
38712065 AATACATTAC
*
38712075 CTT CTT TTT CTTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT C-TT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
38712122 CTT CTT CTT CTT CTC CTT C-T CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
38712150 GCTTTCTCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 57 0.86
4 7 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:38712359 original size:27 final size:27
Alignment explanation
Indices: 38712284--38712348 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
38712274 AGAAGGCCAC
38712284 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCTATGAGGCACCTT
*
38712311 CATTGACGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCTATGAGGCACCTT
38712338 CATTGGCGCCT
1 CATTGGCGCCT
38712349 ACCTGATAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.34, G:0.22, T:0.29
Consensus pattern (27 bp):
CATTGGCGCCTCTCTATGAGGCACCTT
Found at i:38718343 original size:6 final size:6
Alignment explanation
Indices: 38718332--38718405 Score: 130
Period size: 6 Copynumber: 12.3 Consensus size: 6
38718322 TGGAGCTGGT
* *
38718332 GCAGGA GCAGGA GCAGCA GCAGGA GCAGGA GCAGAA GCAGGA GCAGGA
1 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA
38718380 GCAGGA GCAGGA GCAGGA GCAGGA GC
1 GCAGGA GCAGGA GCAGGA GCAGGA GC
38718406 CACAACCGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (6 bp):
GCAGGA
Found at i:38720603 original size:2 final size:2
Alignment explanation
Indices: 38720596--38720643 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
38720586 TCCTCCTATG
*
38720596 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
38720638 CT CT CT
1 CT CT CT
38720644 AACAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:38721457 original size:8 final size:8
Alignment explanation
Indices: 38721444--38721474 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
38721434 GCTCCTTCTT
38721444 CCTCTCTC
1 CCTCTCTC
38721452 CCTCTCTC
1 CCTCTCTC
38721460 CCTCTCTC
1 CCTCTCTC
*
38721468 TCTCTCT
1 CCTCTCT
38721475 TTATAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (8 bp):
CCTCTCTC
Found at i:38726374 original size:22 final size:22
Alignment explanation
Indices: 38726346--38726396 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
38726336 ACCTCAAGAG
38726346 TTGGTGTTGCAACACCAACACC
1 TTGGTGTTGCAACACCAACACC
38726368 TTGGTGTTGCAACACCAACACC
1 TTGGTGTTGCAACACCAACACC
38726390 TTGGTGT
1 TTGGTGT
38726397 CGCTTCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (22 bp):
TTGGTGTTGCAACACCAACACC
Found at i:38728416 original size:19 final size:19
Alignment explanation
Indices: 38728392--38728430 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38728382 GCTTTAATGT
38728392 TGTAAAGATTTGTTTTGCA
1 TGTAAAGATTTGTTTTGCA
38728411 TGTAAAGATTTGTTTTGCA
1 TGTAAAGATTTGTTTTGCA
38728430 T
1 T
38728431 AATTTGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (19 bp):
TGTAAAGATTTGTTTTGCA
Found at i:38729756 original size:6 final size:6
Alignment explanation
Indices: 38729745--38729822 Score: 120
Period size: 6 Copynumber: 13.0 Consensus size: 6
38729735 GAGCTCGTGG
* * *
38729745 AGGAGC AGGAGC AGCAGC AGGAGC AGGAGC AGAAGC AGGAGC AGAAGC
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
*
38729793 AGGAGC AGAAGC AGGAGC AGGAGC AGGAGC
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
38729823 CACAACCGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.37, C:0.18, G:0.45, T:0.00
Consensus pattern (6 bp):
AGGAGC
Found at i:38732020 original size:2 final size:2
Alignment explanation
Indices: 38732013--38732060 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
38732003 TCCTCCTATG
*
38732013 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
38732055 CT CT CT
1 CT CT CT
38732061 AACAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:38732873 original size:8 final size:8
Alignment explanation
Indices: 38732860--38732894 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
38732850 TAATGCTCCT
38732860 TCTCCCTC
1 TCTCCCTC
38732868 TCTCCCTC
1 TCTCCCTC
38732876 TCTCCCTC
1 TCTCCCTC
*
38732884 TCTCTCTC
1 TCTCCCTC
38732892 TCT
1 TCT
38732895 TTATAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (8 bp):
TCTCCCTC
Found at i:38733635 original size:829 final size:830
Alignment explanation
Indices: 38731904--38733690 Score: 2211
Period size: 829 Copynumber: 2.1 Consensus size: 830
38731894 TCGTGTTTGC
* * * * *
38731904 TTATCAGATTTTAAAATTGTTA-TTTGT-TTTTCTTTTTAAGTTAATTTTAGGTCGGTATTATGA
1 TTATAAGACTTTAAAATTGTTACTTT-TCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGA
* *
38731967 AAGTGTAAATGACTCTCTTGGCAATTTTGAGAAAAATCCTCCT-ATGCTCTCTCTCTCTCTCTCT
65 AAGTGTAAGTGACTCTCTT-G-AATTTTGAGAAGAATCCTCCTAATGCTC-CT-TCTCTCTCTCT
* * *
38732031 CTCTCTCTCTCTCTCTCTCTCTCCCTCTCTAACAAAATATATATCTTGAAATACACTAAATTCAT
126 CTCCCTCTCTCCCTCTCTCTCTCCCTCTATAACAAAATATATATCTTGAAATACACTAAATTCAT
* * *
38732096 AACACCAACATACCAGACTGTTTAGAAATCGATGATTATATATATTTGGTATTTTTCATGTTTAT
191 AACACCAACATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCAT
* * * * *
38732161 TTTACTGTCCATGTTTAAGTTCGTAACTGTCTCTCCCAATAATGTCGTTCAAGGTTAGTAATTAT
256 TTTACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTAT
* * * *
38732226 ATCTATGTCATTTTTTTTTGGGAGGGGTGTATGATGGTTTCATCCCTCTCTTTTGTAGGTTCCTC
321 ATC-ATGTCA----TTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTT-CTC
* *
38732291 CATGAAAAAAAGAAGACCAACCCAATTGGTTTAGTAAATGTGAAGTAGTGGTTAATTGCATAAGC
380 CATGAAAAAAAGAAGACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGC
* ** * * *
38732356 GTTTTAACACACGACTTGCTTGTTTTTAATACTCCAGAATTGTTATTTGTCTTTTTTTCAGTTAA
445 GTTTTAACACACGACTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGTCTTTTTTTAAGTTAA
* * *
38732421 TTGTAAGTCACTATTAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAGAAGAATCCTCCTAAT
510 TTATAAGTCAATATTAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAAAAGAATCCTCCTAAT
38732486 GCTCTTCCACATGTCCTCTCTCTCTCTATAAAAAGATCGTGGTTACCTCCCCCCCCCACAATATC
575 GCTCTTCCACATGTCCTCTCTCTCTCTATAAAAAGATCGTGGTTA-CTCCCCCCCCCACAATATC
* * *
38732551 GTTCAAGGTTAGTAATTATATGACATAGGGTTGATTGAATTAGTGTGTTTTTTTTTTTTGCGGGG
639 ATCCAAGGTTAGTAATTATATGACATAAGGTTGATTGAATTAG-GTGTTTTTTTTTTTTGCGGGG
* *
38732616 GGGTATATGATGCTTTCATCCTTATCTTTTGCTAGTTCCTCCATGAAGACAAGAAGACCAAGCCA
703 GGGTATATGATGCTTTCATCCTTATCTTTTGCTAGCTCCTCCATGAAGACAAGAAGACCAAACCA
* * *
38732681 ATTGGTTTAGTAAATTGACGTAGTGGTTAATTGTATAAGCATTTTAACAAAAGTCTTGCTTGT
768 ATTGGTTTAGTAAATTGAAGTAGTAGTTAATTGCATAAGCATTTTAACAAAAGTCTTGCTTGT
** * * **
38732744 TTATAAGACTCCAAAATTGTTACTTGTCTCTTCTATTTAAGCAAATTGTAAGTCGGTATTATGAA
1 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
* *
38732809 AGTATAAGTGATTCTCTTGATAGTTTTGAGAAGAATCCTCCTAATGCTCCTTCTC-C-CTCTCTC
66 AGTGTAAGTGACTCTCTTGA-A-TTTTGAGAAGAATCCTCCTAATGCTCCTTCTCTCTCTCTCTC
* * * * * *
38732872 CCTCTCTCCCTCTCTCTCTCTCTTTATAAGAAAATATATATTTTGACATACAGTAAATTCAT-AC
129 CCTCTCTCCCTCTCTCTCTCCCTCTATAACAAAATATATATCTTGAAATACACTAAATTCATAAC
* * * *
38732936 TACCAACATACCGGATTGTTTAGATATCGGTAATTATATATATTTAGTATTTTTCATGTTCATTT
194 -ACCAACATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCATTT
* *
38733001 TACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAGCAATGTCATTCAAGGTTAGTAATTTTAT
258 TACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTATAT
*
38733066 C-TGTCA-TTTT-GTA-GGGTGTATGATGGGTTCATCACTCTCTTTTGCAAG-T-TCCATGAAGA
323 CATGTCATTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTTCTCCATGAA-A
* * * * * * *
38733125 CAAA-AAGACCAAGCCAATTAGTTTAGTAAATGCGAAGTTGTTGTTGATTGCATAAGTGTTTTTA
387 AAAAGAAGACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGCGTTTTAA
* *
38733189 TACACGTCTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGCATCTTCTTTTTAAGTTAATTAT
452 CACACGACTTACTTGTTTAAAAGACTCCAGAATTGCTATTTG--TCTT-TTTTTAAGTTAATTAT
*
38733254 AAGTCAATATTAAGAAAGTGTAAGTGACT-CTCTTGGCAATTTTGAAAAGAATCCTCCTAATGCT
514 AAGTCAATATTAAGAAAATGTAAGTGACTGC-CTTGGCAATTTTGAAAAGAATCCTCCTAATGCT
* * * * * * *
38733318 TTTCTACATGTCCTCTCTCTCTCTCTCTAAGAAA-ATTGTGGTTA-T-CTCTCCCCAGAATATCA
578 CTTCCACATGT-C-CTCTCTCTCTCTATAA-AAAGATCGTGGTTACTCCCCCCCCCACAATATCA
*** * *
38733380 TCCAAGGTTAGTAATTATATCTATGTTGTAAGGTTGATTGCATTA-G-GTTTTTTTTTTTTG-GT
640 TCCAAGGTTAGTAA-T-TA--TATGACATAAGGTTGATTGAATTAGGTGTTTTTTTTTTTTGCGG
* * * *
38733442 TGGGGTGTATGATGGTTTCATCGC-TATCTTTTGC-AGGCTCCTCCATGAAGACAATAAGACCAA
701 GGGGGTATATGATGCTTTCATC-CTTATCTTTTGCTA-GCTCCTCCATGAAGACAAGAAGACCAA
* *
38733505 ACCGAA-TGGTTTAGTAAATATGAAGTAGTAGTTAATTGCATAAGTATTTTAA-AACATGTCTTG
764 ACC-AATTGGTTTAGTAAAT-TGAAGTAGTAGTTAATTGCATAAGCATTTTAACAA-AAGTCTTG
38733568 CTTGT
826 CTTGT
* * *
38733573 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTTGATATTATGAG
1 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
* * * *
38733638 AGTGTAAGTGACTGTGCTGGCAATTTTCAGAAGAATCTTCCTAATGCT-CTTCT
66 AGTGTAAGTGACTCT-CTTG-AATTTTGAGAAGAATCCTCCTAATGCTCCTTCT
38733691 ACATGTCTTT
Statistics
Matches: 817, Mismatches: 105, Indels: 62
0.83 0.11 0.06
Matches are distributed among these distances:
826 95 0.12
827 5 0.01
828 109 0.13
829 263 0.32
830 10 0.01
831 29 0.04
832 22 0.03
836 5 0.01
837 2 0.00
838 176 0.22
839 2 0.00
840 25 0.03
841 68 0.08
842 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (830 bp):
TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
AGTGTAAGTGACTCTCTTGAATTTTGAGAAGAATCCTCCTAATGCTCCTTCTCTCTCTCTCTCCC
TCTCTCCCTCTCTCTCTCCCTCTATAACAAAATATATATCTTGAAATACACTAAATTCATAACAC
CAACATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCATTTTAC
TGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTATATCAT
GTCATTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTTCTCCATGAAAAAAA
GAAGACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGCGTTTTAACACA
CGACTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGTCTTTTTTTAAGTTAATTATAAGTCAA
TATTAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAAAAGAATCCTCCTAATGCTCTTCCACA
TGTCCTCTCTCTCTCTATAAAAAGATCGTGGTTACTCCCCCCCCCACAATATCATCCAAGGTTAG
TAATTATATGACATAAGGTTGATTGAATTAGGTGTTTTTTTTTTTTGCGGGGGGGTATATGATGC
TTTCATCCTTATCTTTTGCTAGCTCCTCCATGAAGACAAGAAGACCAAACCAATTGGTTTAGTAA
ATTGAAGTAGTAGTTAATTGCATAAGCATTTTAACAAAAGTCTTGCTTGT
Found at i:38733719 original size:829 final size:827
Alignment explanation
Indices: 38731904--38733902 Score: 2184
Period size: 829 Copynumber: 2.4 Consensus size: 827
38731894 TCGTGTTTGC
* * * * *
38731904 TTATCAGATTTTAAAATTGTTA-TTTGT-TTTTCTTTTTAAGTTAATTTTAGGTCGGTATTATGA
1 TTATAAGACTTTAAAATTGTTACTTT-TCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGA
* *
38731967 AAGTGTAAATGACTCTCTTGGCAATTTTGAGAAAAATCCTCCT-ATGCTCTCTCTCTCTCTCTCT
65 AAGTGTAAGTGACTCTC-TGGCAATTTTGAGAAGAATCCTCCTAATG--CTCT-TCTCTCTCTCT
*
38732031 CTCTCTCTCTCTCTCTCTCTCTCCCTCTCTAACAAAATATATATCTTGAAATACACTAAATTCAT
126 -T-TCTCTCTCTCTCTCTCTCT-CCTCTATAACAAAATATATATCTTGAAATACACTAAATTCAT
* * *
38732096 AACACCAACATACCAGACTGTTTAGAAATCGATGATTATATATATTTGGTATTTTTCATGTTTAT
188 AACACCAACATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCAT
* * * * *
38732161 TTTACTGTCCATGTTTAAGTTCGTAACTGTCTCTCCCAATAATGTCGTTCAAGGTTAGTAATTAT
253 TTTACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTAT
* * * *
38732226 ATCTATGTCATTTTTTTTTGGGAGGGGTGTATGATGGTTTCATCCCTCTCTTTTGTAGGTTCCTC
318 ATC-ATGTCA----TTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTT-CTC
* *
38732291 CATGAAAAAAAGAAGACCAACCCAATTGGTTTAGTAAATGTGAAGTAGTGGTTAATTGCATAAGC
377 CATGAAAAAAAGAAGACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGC
* ** * * *
38732356 GTTTTAACACACGACTTGCTTGTTTTTAATACTCCAGAATTGTTATTTGTCTTTTTTTCAGTTAA
442 GTTTTAACACACGACTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGTCTTTTTTTAAGTTAA
* * *
38732421 TTGTAAGTCACTATTAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAGAAGAATCCTCCTAAT
507 TTATAAGTCAATATTAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAAAAGAATCCTCCTAAT
38732486 GCTCTTCCACATGTCCTCTCTCTCTCTATAAAAAGATCGTGGTTACCTCCCCCCCCCACAATATC
572 GCTCTTCCACATGTCCTCTCTCTCTCTATAAAAAGATCGTGGTTA-CTCCCCCCCCCACAATATC
* * *
38732551 GTTCAAGGTTAGTAATTATATGACATAGGGTTGATTGAATTAGTGTGTTTTTTTTTTTTGCGGGG
636 ATCCAAGGTTAGTAATTATATGACATAAGGTTGATTGAATTAG-GTGTTTTTTTTTTTTGCGGGG
* *
38732616 GGGTATATGATGCTTTCATCCTTATCTTTTGCTAGTTCCTCCATGAAGACAAGAAGACCAAGCCA
700 GGGTATATGATGCTTTCATCCTTATCTTTTGCTAGCTCCTCCATGAAGACAAGAAGACCAAACCA
* * *
38732681 ATTGGTTTAGTAAATTGACGTAGTGGTTAATTGTATAAGCATTTTAACAAAAGTCTTGCTTGT
765 ATTGGTTTAGTAAATTGAAGTAGTAGTTAATTGCATAAGCATTTTAACAAAAGTCTTGCTTGT
** * * **
38732744 TTATAAGACTCCAAAATTGTTACTTGTCTCTTCTATTTAAGCAAATTGTAAGTCGGTATTATGAA
1 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
* * * * **
38732809 AGTATAAGTGATTCTCTTG-ATAGTTTTGAGAAGAATCCTCCTAATGCTCCTTCTCCCTCTCTCC
66 AGTGTAAGTGACTCTCTGGCA-A-TTTTGAGAAGAATCCTCCTAATGCT-CTTCTCTCTCTCTTT
* * * * * *
38732873 CTCTCTCCCTCTCTCTCTCTCTTTATAAGAAAATATATATTTTGACATACAGTAAATTCAT-ACT
128 CTCTCTCTCTCTCTCTCTC-CTCTATAACAAAATATATATCTTGAAATACACTAAATTCATAAC-
* * * *
38732937 ACCAACATACCGGATTGTTTAGATATCGGTAATTATATATATTTAGTATTTTTCATGTTCATTTT
191 ACCAACATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCATTTT
* *
38733002 ACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAGCAATGTCATTCAAGGTTAGTAATTTTATC
256 ACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTATATC
* *
38733067 -TGTCA-TTTT-GTA-GGGTGTATGATGGGTTCATCACTCTCTTTTGCAAG-T-TCCATGAAGAC
321 ATGTCATTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTTCTCCATGAA-AA
* * * * * * *
38733126 AAA-AAGACCAAGCCAATTAGTTTAGTAAATGCGAAGTTGTTGTTGATTGCATAAGTGTTTTTAT
385 AAAGAAGACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGCGTTTTAAC
*
38733190 ACACGTCTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGCATCTTCTTTTTAAGTTAATTATA
450 ACACGACTTACTTGTTTAAAAGACTCCAGAATTGCTATTTG--TCTT-TTTTTAAGTTAATTATA
* *
38733255 AGTCAATATTAAGAAAGTGTAAGTGACT-CTCTTGGCAATTTTGAAAAGAATCCTCCTAATGCTT
512 AGTCAATATTAAGAAAATGTAAGTGACTGC-CTTGGCAATTTTGAAAAGAATCCTCCTAATGCTC
* * * * * *
38733319 TTCTACATGTCCTCTCTCTCTCTCTCTAAGAAA-ATTGTGGTTA-T-CTCTCCCCAGAATATCAT
576 TTCCACATGT-C-CTCTCTCTCTCTATAA-AAAGATCGTGGTTACTCCCCCCCCCACAATATCAT
*** * **
38733381 CCAAGGTTAGTAATTATATCTATGTTGTAAGGTTGATTGCATTA-G-GTTTTTTTTTTTTG-GTT
638 CCAAGGTTAGTAA-T-TA--TATGACATAAGGTTGATTGAATTAGGTGTTTTTTTTTTTTGCGGG
* * *
38733443 GGGGTGTATGATGGTTTCATCGC-TATCTTTTGC-AGGCTCCTCCATGAAGACAATAAGACCAAA
699 GGGGTATATGATGCTTTCATC-CTTATCTTTTGCTA-GCTCCTCCATGAAGACAAGAAGACCAAA
* *
38733506 CCGAA-TGGTTTAGTAAATATGAAGTAGTAGTTAATTGCATAAGTATTTTAA-AACATGTCTTGC
762 CC-AATTGGTTTAGTAAAT-TGAAGTAGTAGTTAATTGCATAAGCATTTTAACAA-AAGTCTTGC
38733569 TTGT
824 TTGT
* * *
38733573 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTTGATATTATGAG
1 TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
* * * * *
38733638 AGTGTAAGTGACTGTGCTGGCAATTTTCAGAAGAATCTTCCTAATGCTCTTCTAC-ATGTCTTT-
66 AGTGTAAGTGACTCT-CTGGCAATTTTGAGAAGAATCCTCCTAATGCTCTTCT-CTCTCTCTTTC
*** * * *
38733701 TCTCTCTCTAAGTCTCT-CT-T-TAAGAAAATATATATTTAAAACGGGATTTTGGAATACATTAA
129 TCTCTCTCTCTCTCTCTCCTCTATAACAAAATATATA--T----C------TTGAAATACACTAA
* ** * * * *
38733763 ATTCATAATACCAACATACCAGGGTATTTAGATATCTATAATTATATATACATTTGGTATTTTTC
182 ATTCATAACACCAACATACCAGACTGTTTAGAAATCGATAATTATATAT--ATTTAGTATTTTTC
* * * * * *** ** * *
38733828 ATGTTCGTTTTATTGT-CATGTTTGAGTTTGTGGTTATCCCTCCCCACAATGTCGTTCAAGGTTA
245 ATGTTCATTTTACTGTCCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTA
38733892 GTAATTATATC
310 GTAATTATATC
38733903 TTTTTTTAGA
Statistics
Matches: 975, Mismatches: 141, Indels: 90
0.81 0.12 0.07
Matches are distributed among these distances:
823 14 0.01
824 1 0.00
825 3 0.00
826 95 0.10
827 18 0.02
828 113 0.12
829 264 0.27
830 10 0.01
831 29 0.03
832 22 0.02
835 51 0.05
836 53 0.05
837 30 0.03
838 168 0.17
839 1 0.00
840 34 0.03
841 66 0.07
842 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (827 bp):
TTATAAGACTTTAAAATTGTTACTTTTCTCTTCTTTTTAAGTTAATTGTAAGTCGGTATTATGAA
AGTGTAAGTGACTCTCTGGCAATTTTGAGAAGAATCCTCCTAATGCTCTTCTCTCTCTCTTTCTC
TCTCTCTCTCTCTCTCCTCTATAACAAAATATATATCTTGAAATACACTAAATTCATAACACCAA
CATACCAGACTGTTTAGAAATCGATAATTATATATATTTAGTATTTTTCATGTTCATTTTACTGT
CCATATTTAAGTTCGTAACTGCCCCTCCCAACAATGTCATTCAAGGTTAGTAATTATATCATGTC
ATTTTTGGGAGGGGTGTATGATGGGTTCATCACTCTCTTTTGCAAGTTCTCCATGAAAAAAAGAA
GACCAACCCAATTAGTTTAGTAAATGCGAAGTAGTGGTTAATTGCATAAGCGTTTTAACACACGA
CTTACTTGTTTAAAAGACTCCAGAATTGCTATTTGTCTTTTTTTAAGTTAATTATAAGTCAATAT
TAAGAAAATGTAAGTGACTGCCTTGGCAATTTTGAAAAGAATCCTCCTAATGCTCTTCCACATGT
CCTCTCTCTCTCTATAAAAAGATCGTGGTTACTCCCCCCCCCACAATATCATCCAAGGTTAGTAA
TTATATGACATAAGGTTGATTGAATTAGGTGTTTTTTTTTTTTGCGGGGGGGTATATGATGCTTT
CATCCTTATCTTTTGCTAGCTCCTCCATGAAGACAAGAAGACCAAACCAATTGGTTTAGTAAATT
GAAGTAGTAGTTAATTGCATAAGCATTTTAACAAAAGTCTTGCTTGT
Found at i:38764014 original size:15 final size:16
Alignment explanation
Indices: 38763984--38764024 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
38763974 AAATCATTTG
*
38763984 AACCCAAAATGGCCCA
1 AACCCAAAATGACCCA
38764000 AACCC-AAATGACCCA
1 AACCCAAAATGACCCA
38764015 AACCCTAAAA
1 AACCC-AAAA
38764025 ACCTGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 14 0.64
16 5 0.23
17 3 0.14
ACGTcount: A:0.49, C:0.37, G:0.07, T:0.07
Consensus pattern (16 bp):
AACCCAAAATGACCCA
Found at i:38764523 original size:18 final size:19
Alignment explanation
Indices: 38764476--38764523 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
38764466 TGTAACTAGT
*
38764476 GGTTTTATTTTCTTTTTAA
1 GGTTCTATTTTCTTTTTAA
*
38764495 GGTTTTATTTTCTTTTTAA
1 GGTTCTATTTTCTTTTTAA
*
38764514 -GTTCTCTTTT
1 GGTTCTATTTT
38764524 TCTAGGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (19 bp):
GGTTCTATTTTCTTTTTAA
Found at i:38764526 original size:19 final size:19
Alignment explanation
Indices: 38764476--38764514 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38764466 TGTAACTAGT
38764476 GGTTTTATTTTCTTTTTAA
1 GGTTTTATTTTCTTTTTAA
38764495 GGTTTTATTTTCTTTTTAA
1 GGTTTTATTTTCTTTTTAA
38764514 G
1 G
38764515 TTCTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.13, T:0.67
Consensus pattern (19 bp):
GGTTTTATTTTCTTTTTAA
Found at i:38775372 original size:31 final size:31
Alignment explanation
Indices: 38775337--38775434 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
38775327 ATCATTAAAC
*
38775337 TTTAAAAAAATATAATTTGGTCACTAATATT
1 TTTAAAAAAATATAATTTGATCACTAATATT
* * * * *
38775368 TTTAAGATAATCTGATTTGATCACTAA-A-C
1 TTTAAAAAAATATAATTTGATCACTAATATT
** * * *
38775397 TTTAAAAAGTTACAATTTAATCACTTATATT
1 TTTAAAAAAATATAATTTGATCACTAATATT
38775428 TTTAAAA
1 TTTAAAA
38775435 TGATTTTTAA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 18 0.37
30 2 0.04
31 29 0.59
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTAAAAAAATATAATTTGATCACTAATATT
Found at i:38792563 original size:27 final size:27
Alignment explanation
Indices: 38792533--38792586 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
38792523 AAAAACATTA
*
38792533 ACTCTGTATTAATATACTATAAATCCT
1 ACTCTATATTAATATACTATAAATCCT
38792560 ACTCTATATTAATATACTATAAATCCT
1 ACTCTATATTAATATACTATAAATCCT
38792587 TCTATTGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.41
Consensus pattern (27 bp):
ACTCTATATTAATATACTATAAATCCT
Found at i:38796558 original size:30 final size:30
Alignment explanation
Indices: 38796519--38796598 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
38796509 GAGACATTTG
38796519 CAATTGTAGTTGCTGCA-TGTAAGAATATCA
1 CAATTGTAGTTGCTG-ATTGTAAGAATATCA
* *
38796549 CAATCGTAGTTGCTGATTGTAAGAATATCC
1 CAATTGTAGTTGCTGATTGTAAGAATATCA
38796579 CAATTGTAGTTGCTGATTGT
1 CAATTGTAGTTGCTGATTGT
38796599 TGACCAAGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.02
30 45 0.98
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (30 bp):
CAATTGTAGTTGCTGATTGTAAGAATATCA
Found at i:38805553 original size:22 final size:22
Alignment explanation
Indices: 38805526--38805568 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38805516 TTAAGAATTA
*
38805526 ATTTAAGATTTTTTGAATTATT
1 ATTTAAGATTTATTGAATTATT
*
38805548 ATTTAAGGTTTATTGAATTAT
1 ATTTAAGATTTATTGAATTAT
38805569 AATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (22 bp):
ATTTAAGATTTATTGAATTATT
Found at i:38817337 original size:37 final size:39
Alignment explanation
Indices: 38817251--38817346 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
38817241 CACTCCAGTA
* *
38817251 TGGCACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGT
1 TGGCACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGT
* *
38817290 TGGCATCCAGTGTCTCATCGGCAAAG-CCGAAG-AA-AGT
1 TGGCACCCAGTGCCTCATCGG-AAAGTCCGAAGCAATAGT
* *
38817327 TGGTACCCAGTACCTCATCG
1 TGGCACCCAGTGCCTCATCG
38817347 AATCTATCCG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (39 bp):
TGGCACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGT
Found at i:38819692 original size:125 final size:125
Alignment explanation
Indices: 38819470--38819719 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
38819460 TGTTGAAAAA
*
38819470 TGCAATACCTGTATGTTGACTAAAATTACAAGAAATCCTTTCCCTAAGGTTAAAAGGAAAACAAA
1 TGCAATACATGTATGTTGACTAAAATTACAAGAAATCCTTTCCCTAAGGTTAAAAGGAAAACAAA
38819535 ATTGCTTGATTTGATACATAGTGATTTATGTGACTTGCATAATACTCCTACATTAGGTGG
66 ATTGCTTGATTTGATACATAGTGATTTATGTGACTTGCATAATACTCCTACATTAGGTGG
38819595 TGCAATACATGTATGTTGACTAAAATTACAAGAAATCCTTTCCCTAAGGTTAAAAGGAAAACAAA
1 TGCAATACATGTATGTTGACTAAAATTACAAGAAATCCTTTCCCTAAGGTTAAAAGGAAAACAAA
38819660 ATTGCTTGATTTGATACATAGTGATTTATGTGACTTGCATAATACTCCTACATTAGGTGG
66 ATTGCTTGATTTGATACATAGTGATTTATGTGACTTGCATAATACTCCTACATTAGGTGG
38819720 AAAGAAATAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (125 bp):
TGCAATACATGTATGTTGACTAAAATTACAAGAAATCCTTTCCCTAAGGTTAAAAGGAAAACAAA
ATTGCTTGATTTGATACATAGTGATTTATGTGACTTGCATAATACTCCTACATTAGGTGG
Found at i:38820151 original size:30 final size:30
Alignment explanation
Indices: 38820115--38820171 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
38820105 ATAACCCCTA
*
38820115 TGAACAATGGAAGAAAATGAAACCAAACAT
1 TGAACAATGGAAGAAAAGGAAACCAAACAT
38820145 TGAACAATGGAAGAAAAGGAAACCAAA
1 TGAACAATGGAAGAAAAGGAAACCAAA
38820172 TCTTAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.19, T:0.11
Consensus pattern (30 bp):
TGAACAATGGAAGAAAAGGAAACCAAACAT
Found at i:38823364 original size:15 final size:14
Alignment explanation
Indices: 38823344--38823385 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
38823334 CATAAGCATA
38823344 ATTTAATTCACTTTT
1 ATTTAATTCA-TTTT
*
38823359 ATTTAATTCATATT
1 ATTTAATTCATTTT
38823373 -TTTAATTCATTTT
1 ATTTAATTCATTTT
38823386 CCAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 3 0.12
15 10 0.40
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTAATTCATTTT
Found at i:38824267 original size:16 final size:17
Alignment explanation
Indices: 38824237--38824269 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38824227 TTGTTTATTA
*
38824237 TTTAATAAATGTAATAT
1 TTTAATAAATATAATAT
38824254 TTTAAT-AATATAATAT
1 TTTAATAAATATAATAT
38824270 AATAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAATAAATATAATAT
Found at i:38840202 original size:19 final size:21
Alignment explanation
Indices: 38840162--38840202 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
38840152 AAATAAAATG
*
38840162 ATTGTGTTAAACAAATATAAA
1 ATTGTGTTAAACAAATACAAA
38840183 ATTGTG-TAAA-AAATACAAA
1 ATTGTGTTAAACAAATACAAA
38840202 A
1 A
38840203 AGCAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (21 bp):
ATTGTGTTAAACAAATACAAA
Found at i:38842846 original size:14 final size:14
Alignment explanation
Indices: 38842827--38842856 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38842817 ATTCCAAACA
38842827 TACATACATATATG
1 TACATACATATATG
*
38842841 TACATATATATATG
1 TACATACATATATG
38842855 TA
1 TA
38842857 TATGACGAAA
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:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (14 bp):
TACATACATATATG
Found at i:38843272 original size:31 final size:31
Alignment explanation
Indices: 38843236--38843302 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
38843226 TATTCCATAT
38843236 AGAGAAAGAATGCAGAAAAATAGTTAAAAAG
1 AGAGAAAGAATGCAGAAAAATAGTTAAAAAG
*
38843267 AGAGAAAGAATGCAGTAAAATAGTTAAAAAG
1 AGAGAAAGAATGCAGAAAAATAGTTAAAAAG
38843298 AGAGA
1 AGAGA
38843303 CACTTCACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.60, C:0.03, G:0.24, T:0.13
Consensus pattern (31 bp):
AGAGAAAGAATGCAGAAAAATAGTTAAAAAG
Found at i:38850632 original size:23 final size:23
Alignment explanation
Indices: 38850588--38850637 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
38850578 CAATTTTTTA
* *
38850588 AATATATTTTAAAGAAACAATAT
1 AATATATTGTAAAGAAACAATAC
*
38850611 AATATATTGTAATAGATA-AATAC
1 AATATATTGTAA-AGAAACAATAC
38850634 AATA
1 AATA
38850638 AGCCTGCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
AATATATTGTAAAGAAACAATAC
Found at i:38853170 original size:83 final size:83
Alignment explanation
Indices: 38853051--38853216 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
38853041 GAAGAAAAAG
*
38853051 AAGGTTAAAATGAGATACACGCACACTTAGATGAAAAGAAAAGAAAAATTGCAAAACAAGCAACA
1 AAGGTTAAAATGAGATACACACACACTTAGATGAAAAGAAAAGAAAAATTGCAAAACAAGCAACA
38853116 CGAAACAAACTTTCAGAC
66 CGAAACAAACTTTCAGAC
38853134 AAGGTTAAAATGAGATACACACACACTTAGATGAAAAGAAAAGAAAAATTGCAAAACAAGCAACA
1 AAGGTTAAAATGAGATACACACACACTTAGATGAAAAGAAAAGAAAAATTGCAAAACAAGCAACA
38853199 CGAAACAAACTTTCAGAC
66 CGAAACAAACTTTCAGAC
38853217 TACTAGAGAC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (83 bp):
AAGGTTAAAATGAGATACACACACACTTAGATGAAAAGAAAAGAAAAATTGCAAAACAAGCAACA
CGAAACAAACTTTCAGAC
Found at i:38866953 original size:12 final size:12
Alignment explanation
Indices: 38866938--38866968 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38866928 TTCTCTTTTA
38866938 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
38866950 TTTTTCTTTCGC
1 TTTTTCTTTCCC
38866962 TTTTTCT
1 TTTTTCT
38866969 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:38867577 original size:11 final size:13
Alignment explanation
Indices: 38867552--38867582 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38867542 GGTTAATAAT
38867552 TATAATATTTATA
1 TATAATATTTATA
38867565 TATAATATTTATA
1 TATAATATTTATA
38867578 TATAA
1 TATAA
38867583 CTTAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATATTTATA
Found at i:38871952 original size:113 final size:114
Alignment explanation
Indices: 38871811--38872038 Score: 422
Period size: 113 Copynumber: 2.0 Consensus size: 114
38871801 GAGCTTAGTA
38871811 AAAGGTTAGGATATGTATGGCATGTCATTAGGGTTATACTCATATTTGATCAGGGATTTACATGT
1 AAAGGTTAGGATATGTATGGCATGTCATTAGGGTTATACTCATATTTGATCAGGGATTTACATGT
*
38871876 TATTATGAGATCCAACATTTGTTGCAGATTCTCAAGTTAAATTTATTGT
66 TATTATGAGATCCAACATTTGTTGCAGATTCTCAAGTTAAATGTATTGT
*
38871925 AAAGGTTAGGATAT-TATGGCATGTCATTAGGGTTATACTCGTATTTGATCAGGGATTTACATGT
1 AAAGGTTAGGATATGTATGGCATGTCATTAGGGTTATACTCATATTTGATCAGGGATTTACATGT
*
38871989 TATTATGAGATCCAGCATTTGTTGCAGATTCTCAAGTTAAATGTATTGT
66 TATTATGAGATCCAACATTTGTTGCAGATTCTCAAGTTAAATGTATTGT
38872038 A
1 A
38872039 GGTTTAGTCA
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
113 97 0.87
114 14 0.13
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (114 bp):
AAAGGTTAGGATATGTATGGCATGTCATTAGGGTTATACTCATATTTGATCAGGGATTTACATGT
TATTATGAGATCCAACATTTGTTGCAGATTCTCAAGTTAAATGTATTGT
Found at i:38872090 original size:30 final size:29
Alignment explanation
Indices: 38872054--38872145 Score: 112
Period size: 30 Copynumber: 3.1 Consensus size: 29
38872044 AGTCAGGACA
*
38872054 AGTAACCTCAATATAATGACAGCTTGTGTG
1 AGTAACCT-AATATAATGTCAGCTTGTGTG
*
38872084 AGTAACCTAGTTATAATGTCAGCTTGTGTG
1 AGTAACCTA-ATATAATGTCAGCTTGTGTG
* * *
38872114 AGCAATCCTGATATACTGTCAGCTTGTGTG
1 AGTAA-CCTAATATAATGTCAGCTTGTGTG
38872144 AG
1 AG
38872146 CATTACATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.02
30 50 0.93
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (29 bp):
AGTAACCTAATATAATGTCAGCTTGTGTG
Found at i:38872146 original size:30 final size:30
Alignment explanation
Indices: 38872064--38872147 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
38872054 AGTAACCTCA
* *
38872064 ATATAATGACAGCTTGTGTGAGTAACCTAG
1 ATATAATGTCAGCTTGTGTGAGCAACCTAG
*
38872094 TTATAATGTCAGCTTGTGTGAGCAATCCT-G
1 ATATAATGTCAGCTTGTGTGAGCAA-CCTAG
*
38872124 ATATACTGTCAGCTTGTGTGAGCA
1 ATATAATGTCAGCTTGTGTGAGCA
38872148 TTACATTCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (30 bp):
ATATAATGTCAGCTTGTGTGAGCAACCTAG
Found at i:38873870 original size:40 final size:39
Alignment explanation
Indices: 38873826--38873903 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
38873816 CAAATATAAT
*
38873826 AAATAAATTATTTTTA-TTTTTTAATTTTAAAATACTTTTA
1 AAAT-AATT-TTTTTACTTTTTTAATTTTAAAATAATTTTA
*
38873866 AAATAATTTTTTTACTTTTTTATTTTTAAAATAATTTT
1 AAATAATTTTTTTACTTTTTTAATTTTAAAATAATTTT
38873904 TTAATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 6 0.17
39 25 0.71
40 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (39 bp):
AAATAATTTTTTTACTTTTTTAATTTTAAAATAATTTTA
Found at i:38873913 original size:26 final size:28
Alignment explanation
Indices: 38873861--38873923 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
38873851 TTTAAAATAC
* *
38873861 TTTTAAAATAATTTTTTTACTTTTTTAT
1 TTTTAAAATAATTTTTTTACATGTTTAT
38873889 TTTTAAAATAA-TTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTTACATGTTTAT
*
38873915 TTTAAAAAT
1 TTTTAAAAT
38873924 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.44
27 7 0.22
28 11 0.34
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTAAAATAATTTTTTTACATGTTTAT
Found at i:38874800 original size:8 final size:8
Alignment explanation
Indices: 38874789--38874820 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
38874779 TAAGTTATTA
38874789 TATTATAT
1 TATTATAT
*
38874797 TATTATAA
1 TATTATAT
38874805 TATTATAT
1 TATTATAT
38874813 TATTATAT
1 TATTATAT
38874821 AGATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:38874807 original size:16 final size:16
Alignment explanation
Indices: 38874783--38874819 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
38874773 AATAAGTAAG
*
38874783 TTATTATATTATATTA
1 TTATAATATTATATTA
38874799 TTATAATATTATATTA
1 TTATAATATTATATTA
38874815 TTATA
1 TTATA
38874820 TAGATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAATATTATATTA
Found at i:38875834 original size:25 final size:25
Alignment explanation
Indices: 38875806--38875911 Score: 142
Period size: 25 Copynumber: 4.3 Consensus size: 25
38875796 ACTTTAGCGC
38875806 GCTCTCTAATTATTAGCACGTTGGT
1 GCTCTCTAATTATTAGCACGTTGGT
*
38875831 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTAATTATTAGCACGTTGGT
* *
38875856 GCTCTCTAACTACTAGCACGTTGGT
1 GCTCTCTAATTATTAGCACGTTGGT
* * **
38875881 GCTCTATGATT-TTAGCACGTCAGT
1 GCTCTCTAATTATTAGCACGTTGGT
38875905 GCTCTCT
1 GCTCTCT
38875912 GTTTAGCACA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
24 16 0.23
25 54 0.77
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTCTAATTATTAGCACGTTGGT
Found at i:38875873 original size:50 final size:49
Alignment explanation
Indices: 38875806--38875911 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 49
38875796 ACTTTAGCGC
* * * **
38875806 GCTCTCTAATTATTAGCACGTTGGTGCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTAACTACTAGCACGTTGGTGCTCTATGATT-TTAGCACGTCAGT
38875856 GCTCTCTAACTACTAGCACGTTGGTGCTCTATGATTTTAGCACGTCAGT
1 GCTCTCTAACTACTAGCACGTTGGTGCTCTATGATTTTAGCACGTCAGT
38875905 GCTCTCT
1 GCTCTCT
38875912 GTTTAGCACA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 18 0.35
50 33 0.65
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (49 bp):
GCTCTCTAACTACTAGCACGTTGGTGCTCTATGATTTTAGCACGTCAGT
Found at i:38875919 original size:22 final size:22
Alignment explanation
Indices: 38875891--38875936 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
38875881 GCTCTATGAT
**
38875891 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACACCAGTGCTCTCTG
*
38875913 TTTAGCACACCTGTGCTCTCTG
1 TTTAGCACACCAGTGCTCTCTG
38875935 TT
1 TT
38875937 CATTAGTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (22 bp):
TTTAGCACACCAGTGCTCTCTG
Found at i:38880948 original size:14 final size:15
Alignment explanation
Indices: 38880931--38880959 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38880921 CGAACCAAAA
38880931 AGAAAAGAGA-AGTT
1 AGAAAAGAGAGAGTT
38880945 AGAAAAGAGAGAGTT
1 AGAAAAGAGAGAGTT
38880960 CGAGCACCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.31, T:0.14
Consensus pattern (15 bp):
AGAAAAGAGAGAGTT
Found at i:38883469 original size:3 final size:3
Alignment explanation
Indices: 38883450--38883544 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
38883440 CCTATTTTAT
* * * * *
38883450 TTA TTA TT- TT- TTA -TA TTA TTA CTA CTA CTA TTA CTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
38883495 CTA GTA TTA -TA TTTA TTA TTA TTA CTTA CT- TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
38883540 TTA TT
1 TTA TT
38883545 TACTCATTCG
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
2 9 0.12
3 59 0.81
4 5 0.07
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:38883528 original size:24 final size:25
Alignment explanation
Indices: 38883463--38883548 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 25
38883453 TTATTTTTTA
* *
38883463 TATTATTAC-TACTACTATTACTAT
1 TATTATTACTTACTATTATTATTAT
* *
38883487 TACTATTAC-TAGTATTA-TATTTAT
1 TATTATTACTTACTATTATTA-TTAT
38883511 TATTATTACTTACT-TTATTATTAT
1 TATTATTACTTACTATTATTATTAT
* *
38883535 TATAATTATTTACT
1 TATTATTACTTACT
38883549 CATTCGTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.04
24 44 0.86
25 5 0.10
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (25 bp):
TATTATTACTTACTATTATTATTAT
Found at i:38898596 original size:29 final size:27
Alignment explanation
Indices: 38898564--38898625 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 27
38898554 TTTAATCATA
38898564 TAATAAATTATTGATATAATTTAGTATTT
1 TAATAAATTATTGA-ATAATTTAGT-TTT
* *
38898593 TAATAAATTATTTAATATTTTAGTTTT
1 TAATAAATTATTGAATAATTTAGTTTT
38898620 TAATAA
1 TAATAA
38898626 TAAACTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 9 0.29
28 9 0.29
29 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (27 bp):
TAATAAATTATTGAATAATTTAGTTTT
Found at i:38898871 original size:20 final size:20
Alignment explanation
Indices: 38898834--38898871 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38898824 ATCTAAACAT
*
38898834 AAAAAAATATTAACTTTTTC
1 AAAAAAATAGTAACTTTTTC
38898854 AAAAAAATAAGTAA-TTTT
1 AAAAAAAT-AGTAACTTTT
38898872 CTAAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAAAAATAGTAACTTTTTC
Found at i:38900861 original size:14 final size:14
Alignment explanation
Indices: 38900842--38900869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38900832 TTGAATCTAT
38900842 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
38900856 ACTTTGCTTGCTCA
1 ACTTTGCTTGCTCA
38900870 GAAGACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
ACTTTGCTTGCTCA
Found at i:38906207 original size:16 final size:16
Alignment explanation
Indices: 38906147--38906211 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
38906137 GAAAAAAAAC
38906147 TAGAAAATATAATGAT
1 TAGAAAATATAATGAT
* *
38906163 TAGGAACA-AGAAT-AT
1 TA-GAAAATATAATGAT
* * *
38906178 AAG-AATTTTAATGAT
1 TAGAAAATATAATGAT
38906193 TAGAAAATATAATGAT
1 TAGAAAATATAATGAT
38906209 TAG
1 TAG
38906212 GAACAATAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
13 1 0.03
14 4 0.11
15 7 0.20
16 19 0.54
17 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.31
Consensus pattern (16 bp):
TAGAAAATATAATGAT
Found at i:38916406 original size:20 final size:19
Alignment explanation
Indices: 38916363--38916406 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
38916353 CAACAAAAAC
38916363 AAAAATGAAAAAGAGAAAG
1 AAAAATGAAAAAGAGAAAG
* * *
38916382 GAAAATAGAAAGAGAGAATG
1 AAAAAT-GAAAAAGAGAAAG
38916402 AAAAA
1 AAAAA
38916407 AATGACAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (19 bp):
AAAAATGAAAAAGAGAAAG
Found at i:38922566 original size:3 final size:3
Alignment explanation
Indices: 38922558--38922582 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38922548 GTATTGTCAG
38922558 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
38922583 CGGAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:38929928 original size:12 final size:12
Alignment explanation
Indices: 38929898--38929930 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38929888 AGTATTTTTT
38929898 AAAATT-ATATA
1 AAAATTAATATA
38929909 AAAA-TAATATA
1 AAAATTAATATA
38929920 AAAATTAATAT
1 AAAATTAATAT
38929931 GGACGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:38938048 original size:40 final size:40
Alignment explanation
Indices: 38938004--38938091 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
38937994 TAATAAAATA
*
38938004 ATATTAACTTTA-AATAATAGTTAAAAAATATTGAAA-TTAG
1 ATATTAAATTTATAATAATA-TTAAAAAATATT-AAATTTAG
* *
38938044 ATATTAAATTTATATTAATATTAAAAAATATTAAATTTAT
1 ATATTAAATTTATAATAATATTAAAAAATATTAAATTTAG
38938084 ATATTAAA
1 ATATTAAA
38938092 GTCATTAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 3 0.07
40 34 0.79
41 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (40 bp):
ATATTAAATTTATAATAATATTAAAAAATATTAAATTTAG
Found at i:38942380 original size:75 final size:75
Alignment explanation
Indices: 38942294--38942505 Score: 307
Period size: 75 Copynumber: 2.8 Consensus size: 75
38942284 ATTGAATATA
* *
38942294 AAGGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCCAAGTGCTGATTCCACCGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
38942359 TTTAAATGTG
66 CTTAAATGTG
* * * * * *
38942369 AAGGGGGTTGCTAAGTGCCGATTCCTCGACTTATTGGTGGTTGCTAAGTGCTGATCCCATCGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
38942434 CTTAAATGTG
66 CTTAAATGTG
* * * *
38942444 AAAGGGGTTACTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
38942506 ATAACGGACA
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 118 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (75 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
CTTAAATGTG
Found at i:38943828 original size:34 final size:34
Alignment explanation
Indices: 38943785--38943856 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
38943775 TAAAATATGC
*
38943785 GTGAGAGTCTATCTATACATGTCATAATTATATT
1 GTGAGAGTCTATCTATACATGCCATAATTATATT
38943819 GTGAGAGTCTATCTATACATGCCATAATTATATT
1 GTGAGAGTCTATCTATACATGCCATAATTATATT
38943853 GTGA
1 GTGA
38943857 TAGTGTGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (34 bp):
GTGAGAGTCTATCTATACATGCCATAATTATATT
Found at i:38949176 original size:17 final size:17
Alignment explanation
Indices: 38949154--38949186 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38949144 TTTGAATTAG
38949154 TGAATTTTGTGATTTAT
1 TGAATTTTGTGATTTAT
38949171 TGAATTTTGTGATTTA
1 TGAATTTTGTGATTTA
38949187 AAAAGAATTT
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:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (17 bp):
TGAATTTTGTGATTTAT
Found at i:38952206 original size:33 final size:33
Alignment explanation
Indices: 38952169--38952367 Score: 130
Period size: 33 Copynumber: 5.5 Consensus size: 33
38952159 TCCCCCAAGG
38952169 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * *
38952202 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
* *
38952244 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
38952277 GGTTGCTAAGTGCTGA-TCCCATCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC--CGAATC----AT-TG---GT
* *
38952319 GGTTGCTAAGTGCTGATTCCCCAAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
38952352 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
38952368 ATCCACCGGT
Statistics
Matches: 131, Mismatches: 15, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
32 4 0.03
33 53 0.40
34 7 0.05
35 1 0.01
36 3 0.02
37 4 0.03
38 5 0.04
39 3 0.02
40 1 0.01
41 7 0.05
42 39 0.30
43 4 0.03
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:38952261 original size:42 final size:41
Alignment explanation
Indices: 38952202--38952338 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 41
38952192 AATCATTGGT
*
38952202 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTGAAGGG
* * * *
38952244 GGTTGCTAAGTGTTGATTCC-CCG-A-CT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
* * *
38952277 GGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTGAAGGG
38952319 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
38952339 CCAAATCACT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
33 20 0.27
34 2 0.03
35 1 0.01
36 1 0.01
37 3 0.04
38 3 0.04
39 1 0.01
40 1 0.01
41 3 0.04
42 40 0.53
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAAGGG
Found at i:38952303 original size:75 final size:75
Alignment explanation
Indices: 38952165--38952375 Score: 325
Period size: 75 Copynumber: 2.8 Consensus size: 75
38952155 TAATTCCCCC
* * *
38952165 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
38952230 TTAAATGTGA
66 TTAAATGTGA
* * * *
38952240 AGGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCATCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
38952305 TTAAATGTGA
66 TTAAATGTGA
* *
38952315 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCACTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCCACCG
38952376 GTAACAGACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
75 120 0.98
76 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGA
Found at i:38953173 original size:16 final size:16
Alignment explanation
Indices: 38953152--38953184 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38953142 CTATGTAATC
38953152 TTGTGAAAAATTTATT
1 TTGTGAAAAATTTATT
38953168 TTGTGAAAAATTTATT
1 TTGTGAAAAATTTATT
38953184 T
1 T
38953185 ACTTGTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTGTGAAAAATTTATT
Found at i:38953367 original size:24 final size:24
Alignment explanation
Indices: 38953335--38953382 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38953325 ATCAACACTT
38953335 TTGAAACATGACATGTATAGATGA
1 TTGAAACATGACATGTATAGATGA
*
38953359 TTGAAACATGGCATGTATAGATGA
1 TTGAAACATGACATGTATAGATGA
38953383 CTTTATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (24 bp):
TTGAAACATGACATGTATAGATGA
Found at i:38978687 original size:62 final size:62
Alignment explanation
Indices: 38978589--38978733 Score: 220
Period size: 62 Copynumber: 2.3 Consensus size: 62
38978579 TAATACTTCG
* *
38978589 AAAATGTCTAATATGATACCTGAACTATCAAATTGTATATTATTTGGTACTTATACTTTCA-T
1 AAAATGTCTAATATGATACTTGAACTATCAAATTGTATATTATTTGATACTTATACTTT-AGT
* * *
38978651 AAAATGTCTAATATGGTACTTGAACTATCAATTTGTATATTATTTGATACTTGTACTTTAGT
1 AAAATGTCTAATATGATACTTGAACTATCAAATTGTATATTATTTGATACTTATACTTTAGT
*
38978713 AAAATGTCTAATGTGATACTT
1 AAAATGTCTAATATGATACTT
38978734 ATATTTTGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
61 1 0.01
62 74 0.99
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (62 bp):
AAAATGTCTAATATGATACTTGAACTATCAAATTGTATATTATTTGATACTTATACTTTAGT
Found at i:38978730 original size:31 final size:29
Alignment explanation
Indices: 38978695--38978759 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
38978685 GTATATTATT
* *
38978695 TGATACTTGTACTTTAGTAAAATGTCTAATG
1 TGATACTTATA-TTTAG-AAAATATCTAATG
* *
38978726 TGATACTTATATTTTGAAAATATTTAATG
1 TGATACTTATATTTAGAAAATATCTAATG
38978755 TGATA
1 TGATA
38978760 TCTGAAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (29 bp):
TGATACTTATATTTAGAAAATATCTAATG
Found at i:38984401 original size:9 final size:9
Alignment explanation
Indices: 38984376--38984415 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
38984366 AATAAATATT
38984376 ATTAAATTA
1 ATTAAATTA
* *
38984385 TTTTAATTA
1 ATTAAATTA
38984394 ATTAAATTA
1 ATTAAATTA
*
38984403 ACTAAATTA
1 ATTAAATTA
38984412 ATTA
1 ATTA
38984416 CCAATTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAAATTA
Found at i:38989656 original size:21 final size:22
Alignment explanation
Indices: 38989630--38989679 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
38989620 TTATAATTAC
38989630 ATAATAAATATATTTA-TAAAA
1 ATAATAAATATATTTAGTAAAA
* * *
38989651 ATAAT-AATGTCTTTAGTTAAA
1 ATAATAAATATATTTAGTAAAA
38989672 ATAATAAA
1 ATAATAAA
38989680 GTTGAGACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
21 14 0.58
22 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATAAATATATTTAGTAAAA
Found at i:38989991 original size:28 final size:28
Alignment explanation
Indices: 38989938--38989991 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
38989928 TCAGAAAATT
*
38989938 ATTTATTTAGAAAAATTAATTAATTTAA
1 ATTTATTTAGAAAAATAAATTAATTTAA
* *
38989966 ATTTATTTA-ATAAATAATATTTATTT
1 ATTTATTTAGAAAAATAA-ATTAATTT
38989992 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTATTTAGAAAAATAAATTAATTTAA
Found at i:38996463 original size:6 final size:6
Alignment explanation
Indices: 38996452--38996490 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
38996442 TAGAAACTAC
38996452 TGTTCA TGTTCA TGTTCA TGTTCA TGTTCA TGTTCA TGT
1 TGTTCA TGTTCA TGTTCA TGTTCA TGTTCA TGTTCA TGT
38996491 ATGTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (6 bp):
TGTTCA
Found at i:38996746 original size:30 final size:30
Alignment explanation
Indices: 38996712--38996786 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
38996702 TTAGTAAAGG
*
38996712 TAAAATTATACTTTAACCCTTTTAAAAA-TA
1 TAAAATTATAATTTAACCC-TTTAAAAATTA
**
38996742 TAAAAATT-TAATTTAATTCTTTAAAAATTA
1 T-AAAATTATAATTTAACCCTTTAAAAATTA
*
38996772 TAAAAATATAATTTA
1 TAAAATTATAATTTA
38996787 TTAAAATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 13 0.34
30 19 0.50
31 6 0.16
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (30 bp):
TAAAATTATAATTTAACCCTTTAAAAATTA
Found at i:39004274 original size:40 final size:41
Alignment explanation
Indices: 39004209--39004315 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 41
39004199 ATTTATTTTT
* *
39004209 AAAATTAAAAAAATTTATTTTAAAAATATTTTAAAATTAAAA
1 AAAATTTAAAAAA-GTATTTTAAAAATATTTTAAAATTAAAA
*
39004251 AAAATTT-AAAAAGTATTTTAAAAATATTTTAAAATTACAA
1 AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
*
39004291 AAATTTTAAAAAAAGTATTTTAAAA
1 AAAATTT-AAAAAAGTATTTTAAAA
39004316 TTTAAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 32 0.54
41 5 0.08
42 22 0.37
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (41 bp):
AAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAA
Found at i:39004303 original size:11 final size:11
Alignment explanation
Indices: 39004224--39004284 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
39004214 TAAAAAAATT
39004224 TATTTTAAAAA
1 TATTTTAAAAA
39004235 TATTTT--AAA
1 TATTTTAAAAA
39004244 -A--TTAAAAA
1 TATTTTAAAAA
* *
39004252 AAATTTAAAAA
1 TATTTTAAAAA
39004263 GTATTTTAAAAA
1 -TATTTTAAAAA
39004275 TATTTTAAAA
1 TATTTTAAAA
39004285 TTACAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 4 0.10
11 23 0.55
12 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:39004324 original size:31 final size:28
Alignment explanation
Indices: 39004251--39004324 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 28
39004241 AAAATTAAAA
39004251 AAAATTTAAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAA--ATTTTAAAAATATTTT
39004281 AAAA-TTACAAAAATTTTAAAAAAAGTATTTT
1 AAAATTTA-AAAAATTTT--AAAAA-TATTTT
39004312 AAAATTTAAAAAA
1 AAAATTTAAAAAA
39004325 AATAAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
28 5 0.13
29 3 0.08
30 13 0.33
31 15 0.38
32 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTTAAAAAATTTTAAAAATATTTT
Found at i:39004331 original size:30 final size:30
Alignment explanation
Indices: 39004270--39004333 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
39004260 AAAGTATTTT
**
39004270 AAAAATATTTTAAAATTACAAAAATTTTAA
1 AAAAATATTTTAAAATTACAAAAATAATAA
39004300 AAAAAGTATTTTAAAATTTA-AAAAA-AATAA
1 AAAAA-TATTTTAAAA-TTACAAAAATAATAA
39004330 AAAA
1 AAAA
39004334 TTTATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.40
31 15 0.50
32 3 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTACAAAAATAATAA
Found at i:39004353 original size:5 final size:5
Alignment explanation
Indices: 39004345--39004376 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
39004335 TTATTATATT
39004345 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC C
39004377 AAAAAAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:39016726 original size:106 final size:105
Alignment explanation
Indices: 39016601--39016796 Score: 252
Period size: 106 Copynumber: 1.8 Consensus size: 105
39016591 GTTAACAGGA
* * * **
39016601 AAATAATCATCATTATGATGATTTTATAAAGTTTCATACAGGCAATAAATGC-ATCATTTAATAA
1 AAATAATAACCATTATGATGATTTTATAAAGTTACAT---GGCAATAAACACAATCATTTAATAA
*
39016665 ATTTCCAGAAAGGCATC-CTTTACCTACAGCGGAGAAGGGGGG
63 ATGTCCAGAAAGGCATCTCTTTACCTACAGCGGAGAAGGGGGG
* * *
39016707 AAATAATAACCATTATGATGGTTTTATAAAGTTACATGGTAATAAACACAAATTATTTAATAAAT
1 AAATAATAACCATTATGATGATTTTATAAAGTTACATGGCAATAAACAC-AATCATTTAATAAAT
*
39016772 GTCCAGAAAGGCATCTTTTTACCTA
65 GTCCAGAAAGGCATCTCTTTACCTA
39016797 AATTCCATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 9 0.12
105 27 0.35
106 41 0.53
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (105 bp):
AAATAATAACCATTATGATGATTTTATAAAGTTACATGGCAATAAACACAATCATTTAATAAATG
TCCAGAAAGGCATCTCTTTACCTACAGCGGAGAAGGGGGG
Found at i:39018113 original size:3 final size:3
Alignment explanation
Indices: 39018105--39018133 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
39018095 AGCTTCATAC
39018105 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
39018134 TGGTGGTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:39021988 original size:31 final size:31
Alignment explanation
Indices: 39021953--39022054 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 31
39021943 AAAATTTTAA
*
39021953 AATTTGAAAAGTATAAGGACAAAAATTGACC
1 AATTTTAAAAGTATAAGGACAAAAATTGACC
** * *
39021984 AATTTTAAAAGTCCAAGGGCCAAAATTGACC
1 AATTTTAAAAGTATAAGGACAAAAATTGACC
* **
39022015 AA-ATT--AAGTAT-AGTGATTAAAATTGACC
1 AATTTTAAAAGTATAAG-GACAAAAATTGACC
39022043 AATTTTAAAAGT
1 AATTTTAAAAGT
39022055 CCAAGGGCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.04
28 17 0.31
29 2 0.04
30 2 0.04
31 32 0.58
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (31 bp):
AATTTTAAAAGTATAAGGACAAAAATTGACC
Found at i:39022037 original size:59 final size:59
Alignment explanation
Indices: 39021974--39022085 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
39021964 TATAAGGACA
39021974 AAAATTGACCAATTTTAAAAGTCCAAGGGCCAAAATTGACCAAATTAAGTATAGTGATT
1 AAAATTGACCAATTTTAAAAGTCCAAGGGCCAAAATTGACCAAATTAAGTATAGTGATT
* * *
39022033 AAAATTGACCAATTTTAAAAGTCCAAGGGCTACAATTGATCAAATTAAGTATA
1 AAAATTGACCAATTTTAAAAGTCCAAGGGCCAAAATTGACCAAATTAAGTATA
39022086 AGGACTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (59 bp):
AAAATTGACCAATTTTAAAAGTCCAAGGGCCAAAATTGACCAAATTAAGTATAGTGATT
Found at i:39024142 original size:19 final size:19
Alignment explanation
Indices: 39024118--39024157 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
39024108 TTAAAGCACT
39024118 TAGAAAAATTCATAACTTA
1 TAGAAAAATTCATAACTTA
39024137 TAGAAAAATTCATAACTTA
1 TAGAAAAATTCATAACTTA
39024156 TA
1 TA
39024158 AATCAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
TAGAAAAATTCATAACTTA
Found at i:39024238 original size:112 final size:112
Alignment explanation
Indices: 39024025--39024250 Score: 267
Period size: 112 Copynumber: 2.0 Consensus size: 112
39024015 TTAAGGCATT
* ** * *
39024025 TAGAAAAATTCACAAGTTATAAAGCAAACACCCCAAGAGGTAAACTGGTCGCTAAGTTTAATAGT
1 TAGAAAAATTCACAACTTATAAAGCAAACACCCCAAGAGGTAAACTACTCACTAAGTTTAATAGC
* *
39024090 AGATAAATTGCTAGCCTCTTAAAGCACTTAGAAAAATTCATAACTTA
66 AGATAAACTGCTAGCCTCTTAAAGCACTTAGAAAAATTCACAACTTA
* * * * **
39024137 TAGAAAAATTCATAACTTATAAATCAAACATCTCAAGAGGTAAACTACTCACTAAGTTTGCTAGC
1 TAGAAAAATTCACAACTTATAAAGCAAACACCCCAAGAGGTAAACTACTCACTAAGTTTAATAGC
* * * *
39024202 AGATGAACTGCTAGCCT-TTTAAG-ACGTTTAGCAAAATTCACAAGTTA
66 AGATAAACTGCTAGCCTCTTAAAGCAC--TTAGAAAAATTCACAACTTA
39024249 TA
1 TA
39024251 AAGCAGACAC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
110 2 0.02
111 5 0.05
112 88 0.93
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (112 bp):
TAGAAAAATTCACAACTTATAAAGCAAACACCCCAAGAGGTAAACTACTCACTAAGTTTAATAGC
AGATAAACTGCTAGCCTCTTAAAGCACTTAGAAAAATTCACAACTTA
Found at i:39024300 original size:93 final size:94
Alignment explanation
Indices: 39024141--39024386 Score: 284
Period size: 93 Copynumber: 2.6 Consensus size: 94
39024131 AACTTATAGA
* * * * * **
39024141 AAAATTCATAACTTATAAATCAAACA-TCTCAAGAGGTAAACTACTCACTAAGTTTGCTAGCAGA
1 AAAATTCACAAGTTATAAAACAGACACTCTCAAGAGATAAACTACTCACTAAGTTTAATAGCAGA
* **
39024205 TGAACTGCTAGCCTTTTAAGACGTTTAGC
66 TGAACTACTAGCCACTTAAGACGTTTAGC
* * *
39024234 AAAATTCACAAGTTATAAAGCAGACACTC-CGAGAGATAAACTACTCACTATGTTTAATAGCAGA
1 AAAATTCACAAGTTATAAAACAGACACTCTCAAGAGATAAACTACTCACTAAGTTTAATAGCAGA
*
39024298 TGAACTACTAGCCACTTAAGGCGTTTAGC
66 TGAACTACTAGCCACTTAAGACGTTTAGC
* * * * *
39024327 AAAACTCACAAGTTATAAAACAGACAC-CTCGAA-AGGTAAATTGCTCGCTAAGTTTAATAG
1 AAAATTCACAAGTTATAAAACAGACACTCTC-AAGAGATAAACTACTCACTAAGTTTAATAG
39024387 TAGGTGGTGT
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
92 1 0.01
93 125 0.97
94 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (94 bp):
AAAATTCACAAGTTATAAAACAGACACTCTCAAGAGATAAACTACTCACTAAGTTTAATAGCAGA
TGAACTACTAGCCACTTAAGACGTTTAGC
Found at i:39030602 original size:104 final size:104
Alignment explanation
Indices: 39030434--39030645 Score: 390
Period size: 104 Copynumber: 2.0 Consensus size: 104
39030424 GGGTTACTGT
*
39030434 GTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
39030499 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
39030538 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAA
39030602 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
39030642 GTGC
1 GTGC
39030646 GATATCCATT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
104 104 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAA
GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:39030697 original size:71 final size:72
Alignment explanation
Indices: 39030564--39030715 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
39030554 TCATTGGTGG
* *
39030564 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39030629 GAGGGGT
66 GAGGGGT
***
39030636 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
39030700 GAGGGGT
66 GAGGGGT
39030707 TGCTAAGTG
1 TGCTAAGTG
39030716 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:39035132 original size:12 final size:13
Alignment explanation
Indices: 39035115--39035143 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39035105 CTCTCACATT
39035115 GAAAGAAAGAA-A
1 GAAAGAAAGAAGA
39035127 GAAAGAAAGAAGA
1 GAAAGAAAGAAGA
39035140 GAAA
1 GAAA
39035144 ATTTGCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAGA
Found at i:39052321 original size:255 final size:255
Alignment explanation
Indices: 39051870--39052379 Score: 1020
Period size: 255 Copynumber: 2.0 Consensus size: 255
39051860 AATGTCCTCA
39051870 AACATTTCCACTTAAATTCAATACTTCAATGGACCTAAAACACTATCTTCCACTTTCATAACAAT
1 AACATTTCCACTTAAATTCAATACTTCAATGGACCTAAAACACTATCTTCCACTTTCATAACAAT
39051935 TTTATACCTATATACATGCCACTTTAATTCCATAATTTAACTTCACAATTCATAATCCATACCTT
66 TTTATACCTATATACATGCCACTTTAATTCCATAATTTAACTTCACAATTCATAATCCATACCTT
39052000 ATTGAAGATGGGATATGATTCGTCAAGCCTTACATTGTAACACCCCTAACCCGTATCCATCTCCA
131 ATTGAAGATGGGATATGATTCGTCAAGCCTTACATTGTAACACCCCTAACCCGTATCCATCTCCA
39052065 GAATAGGGTTATAGAGCATTACCGGAGTTTATAAATTAATTTACAGACATTTCATTTTAT
196 GAATAGGGTTATAGAGCATTACCGGAGTTTATAAATTAATTTACAGACATTTCATTTTAT
39052125 AACATTTCCACTTAAATTCAATACTTCAATGGACCTAAAACACTATCTTCCACTTTCATAACAAT
1 AACATTTCCACTTAAATTCAATACTTCAATGGACCTAAAACACTATCTTCCACTTTCATAACAAT
39052190 TTTATACCTATATACATGCCACTTTAATTCCATAATTTAACTTCACAATTCATAATCCATACCTT
66 TTTATACCTATATACATGCCACTTTAATTCCATAATTTAACTTCACAATTCATAATCCATACCTT
39052255 ATTGAAGATGGGATATGATTCGTCAAGCCTTACATTGTAACACCCCTAACCCGTATCCATCTCCA
131 ATTGAAGATGGGATATGATTCGTCAAGCCTTACATTGTAACACCCCTAACCCGTATCCATCTCCA
39052320 GAATAGGGTTATAGAGCATTACCGGAGTTTATAAATTAATTTACAGACATTTCATTTTAT
196 GAATAGGGTTATAGAGCATTACCGGAGTTTATAAATTAATTTACAGACATTTCATTTTAT
39052380 CAAGCATTGA
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (255 bp):
AACATTTCCACTTAAATTCAATACTTCAATGGACCTAAAACACTATCTTCCACTTTCATAACAAT
TTTATACCTATATACATGCCACTTTAATTCCATAATTTAACTTCACAATTCATAATCCATACCTT
ATTGAAGATGGGATATGATTCGTCAAGCCTTACATTGTAACACCCCTAACCCGTATCCATCTCCA
GAATAGGGTTATAGAGCATTACCGGAGTTTATAAATTAATTTACAGACATTTCATTTTAT
Found at i:39058789 original size:36 final size:37
Alignment explanation
Indices: 39058742--39058831 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 37
39058732 TCAACCGTGG
* * *
39058742 TTTAG-CTTTTGGCGTAACACTTCGATGTGATACTGT
1 TTTAGCCTTTGGGCATAACACTTCGATGTGATACTGA
* * * *
39058778 TTTAGCCTTTGGGCATATCACTTTGGTGTGATATTGA
1 TTTAGCCTTTGGGCATAACACTTCGATGTGATACTGA
*
39058815 TTTAGCCTTCGGGCATA
1 TTTAGCCTTTGGGCATA
39058832 GCATTTCGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 5 0.11
37 40 0.89
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (37 bp):
TTTAGCCTTTGGGCATAACACTTCGATGTGATACTGA
Found at i:39058809 original size:37 final size:37
Alignment explanation
Indices: 39058762--39058844 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
39058752 GGCGTAACAC
* * * *
39058762 TTCGATGTGATACTGTTTTAGCCTTTGGGCATATCACT
1 TTCGGTGTGATACTGATTTAGCCTTCGGGCATAGCA-T
*
39058800 TT-GGTGTGATATTGATTTAGCCTTCGGGCATAGCAT
1 TTCGGTGTGATACTGATTTAGCCTTCGGGCATAGCAT
39058836 TTCGGTGTG
1 TTCGGTGTG
39058845 TTTTATTACT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 3 0.08
37 34 0.87
38 2 0.05
ACGTcount: A:0.17, C:0.16, G:0.27, T:0.41
Consensus pattern (37 bp):
TTCGGTGTGATACTGATTTAGCCTTCGGGCATAGCAT
Found at i:39065089 original size:35 final size:35
Alignment explanation
Indices: 39065024--39065112 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
39065014 ATTGTTTTGT
39065024 TATAAA-ATTTTAATAAGATTATTAAAATAATATAA
1 TATAAATATTTTAATAAGATTATTAAAATAAT-TAA
* * * *
39065059 TATAAATATTTTAATCATATT-TTAACATAATTAT
1 TATAAATATTTTAATAAGATTATTAAAATAATTAA
39065093 TATTAAATATAATTTAATAA
1 TA-TAAATAT--TTTAATAA
39065113 AAAATATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.09
35 22 0.49
36 12 0.27
37 7 0.16
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (35 bp):
TATAAATATTTTAATAAGATTATTAAAATAATTAA
Found at i:39070582 original size:9 final size:9
Alignment explanation
Indices: 39070556--39070605 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
39070546 ATTCAAGATT
39070556 TTATT-TAA
1 TTATTATAA
39070564 GTTATATATAA
1 -TTAT-TATAA
39070575 TTATTAT-A
1 TTATTATAA
39070583 TGTA-TATAA
1 T-TATTATAA
39070592 TTATTATAA
1 TTATTATAA
39070601 TTATT
1 TTATT
39070606 TATTCAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 5 0.14
11 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (9 bp):
TTATTATAA
Found at i:39071604 original size:39 final size:40
Alignment explanation
Indices: 39071532--39071704 Score: 156
Period size: 45 Copynumber: 4.2 Consensus size: 40
39071522 TTTGCAAGGC
* *
39071532 TTACTGA-TCAGGCAC-TTATGTGTCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
39071570 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
* * *
39071609 TTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGAT-TC-A---GGCACTTTGTGTGTCGAATACTGTTACTG
* *
39071654 TTACT-ATTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTA
1 TTACTGATT-CA-G----GCACTTTGTGTGTCGAATACTGTTACTG
39071699 TTACTG
1 TTACTG
39071705 TTACTGCTAC
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
38 12 0.11
39 30 0.27
40 2 0.02
41 1 0.01
43 2 0.02
44 2 0.02
45 61 0.55
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:39071631 original size:45 final size:45
Alignment explanation
Indices: 39071559--39071708 Score: 196
Period size: 45 Copynumber: 3.3 Consensus size: 45
39071549 ATGTGTCGAC
* *
39071559 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
*
39071604 TACTGTTACTGTTATC-GACTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTA-CAGATTCGACACTTTGTGTGTCGAATACTGT
* * * *
39071649 TACCGTTACTATTACAGGTTC-AGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
*
39071694 TACTATTACTGTTAC
1 TACTGTTACTGTTAC
39071709 TGCTACCGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.02
45 89 0.97
46 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:39071702 original size:6 final size:6
Alignment explanation
Indices: 39071688--39071736 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
39071678 GTGTGTTGAA
* * *
39071688 TACTGT TACTAT TACTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
39071737 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:39072302 original size:39 final size:40
Alignment explanation
Indices: 39072230--39072402 Score: 156
Period size: 45 Copynumber: 4.2 Consensus size: 40
39072220 TTTGCAAGGC
* *
39072230 TTACTGA-TCAGGCAC-TTATGTGTCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
39072268 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
* * *
39072307 TTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGAT-TC-A---GGCACTTTGTGTGTCGAATACTGTTACTG
* *
39072352 TTACT-ATTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTA
1 TTACTGATT-CA-G----GCACTTTGTGTGTCGAATACTGTTACTG
39072397 TTACTG
1 TTACTG
39072403 TTACTGCTAC
Statistics
Matches: 110, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
38 12 0.11
39 30 0.27
40 2 0.02
41 1 0.01
43 2 0.02
44 2 0.02
45 61 0.55
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:39072329 original size:45 final size:45
Alignment explanation
Indices: 39072257--39072406 Score: 196
Period size: 45 Copynumber: 3.3 Consensus size: 45
39072247 ATGTGTCGAC
* *
39072257 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
*
39072302 TACTGTTACTGTTATC-GACTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTA-CAGATTCGACACTTTGTGTGTCGAATACTGT
* * * *
39072347 TACCGTTACTATTACAGGTTC-AGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGT
*
39072392 TACTATTACTGTTAC
1 TACTGTTACTGTTAC
39072407 TGCTACCGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.02
45 89 0.97
46 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:39072400 original size:6 final size:6
Alignment explanation
Indices: 39072386--39072434 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
39072376 GTGTGTTGAA
* * *
39072386 TACTGT TACTAT TACTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
39072435 GTGTGTTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
6 23 0.66
7 12 0.34
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:39072677 original size:698 final size:698
Alignment explanation
Indices: 39071341--39072736 Score: 2774
Period size: 698 Copynumber: 2.0 Consensus size: 698
39071331 AATATTGTTA
39071341 TGTATAATGCATTGAATTGTGAAATTACTGTAATACTGTGAAACTGATTGAAATAAGGAATTTAT
1 TGTATAATGCATTGAATTGTGAAATTACTGTAATACTGTGAAACTGATTGAAATAAGGAATTTAT
39071406 AATCAATACTGAACTAAAATGGAAATTGTACTGAAAAGTAAATTAAATGCCCTATTAACTAGTCG
66 AATCAATACTGAACTAAAATGGAAATTGTACTGAAAAGTAAATTAAATGCCCTATTAACTAGTCG
39071471 GGCTAGTCGGATATAGTTGGTATGCCATAAGATATGGAAAAGTACGGGGTATTTGCAAGGCTTAC
131 GGCTAGTCGGATATAGTTGGTATGCCATAAGATATGGAAAAGTACGGGGTATTTGCAAGGCTTAC
39071536 TGATCAGGCACTTATGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC
196 TGATCAGGCACTTATGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC
39071601 TGTTACTGTTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCGTTACTATTACAG
261 TGTTACTGTTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCGTTACTATTACAG
39071666 GTTCAGCACTTTGTGTGTTGAATACTGTTACTATTACTGTTACTGCTACCGTTACTGATTACTGT
326 GTTCAGCACTTTGTGTGTTGAATACTGTTACTATTACTGTTACTGCTACCGTTACTGATTACTGT
*
39071731 TTACTGGTGTGTTTGGTTGGAATCTGTGTATCCGCCGAGTCCGAGTCAAGTTAATAGGGATAAAT
391 TTACTGGTGTGTTTGGTTGGAATCCGTGTATCCGCCGAGTCCGAGTCAAGTTAATAGGGATAAAT
39071796 AAAATAAATTTACTGATAAAACTAATCTCGTATGATATAGTATATGTGAAAAGTGAAATTTGAAA
456 AAAATAAATTTACTGATAAAACTAATCTCGTATGATATAGTATATGTGAAAAGTGAAATTTGAAA
39071861 TAAAGAAATAAAAATGATATATATAATTAATTGATAATATTAAAAGATTGAATTGTTTATTTGTG
521 TAAAGAAATAAAAATGATATATATAATTAATTGATAATATTAAAAGATTGAATTGTTTATTTGTG
39071926 GTGATAATTGTAATGAAAAGTATGTGTGCGATTTAATGTATTTAATTATAAATTGAATTATAGTG
586 GTGATAATTGTAATGAAAAGTATGTGTGCGATTTAATGTATTTAATTATAAATTGAATTATAGTG
39071991 ATACCACTGAGTATATGCATACTCAGCGTACGGTTGTTTTCGTGCGCG
651 ATACCACTGAGTATATGCATACTCAGCGTACGGTTGTTTTCGTGCGCG
39072039 TGTATAATGCATTGAATTGTGAAATTACTGTAATACTGTGAAACTGATTGAAATAAGGAATTTAT
1 TGTATAATGCATTGAATTGTGAAATTACTGTAATACTGTGAAACTGATTGAAATAAGGAATTTAT
39072104 AATCAATACTGAACTAAAATGGAAATTGTACTGAAAAGTAAATTAAATGCCCTATTAACTAGTCG
66 AATCAATACTGAACTAAAATGGAAATTGTACTGAAAAGTAAATTAAATGCCCTATTAACTAGTCG
39072169 GGCTAGTCGGATATAGTTGGTATGCCATAAGATATGGAAAAGTACGGGGTATTTGCAAGGCTTAC
131 GGCTAGTCGGATATAGTTGGTATGCCATAAGATATGGAAAAGTACGGGGTATTTGCAAGGCTTAC
39072234 TGATCAGGCACTTATGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC
196 TGATCAGGCACTTATGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC
39072299 TGTTACTGTTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCGTTACTATTACAG
261 TGTTACTGTTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCGTTACTATTACAG
39072364 GTTCAGCACTTTGTGTGTTGAATACTGTTACTATTACTGTTACTGCTACCGTTACTGATTACTGT
326 GTTCAGCACTTTGTGTGTTGAATACTGTTACTATTACTGTTACTGCTACCGTTACTGATTACTGT
39072429 TTACTGGTGTGTTTGGTTGGAATCCGTGTATCCGCCGAGTCCGAGTCAAGTTAATAGGGATAAAT
391 TTACTGGTGTGTTTGGTTGGAATCCGTGTATCCGCCGAGTCCGAGTCAAGTTAATAGGGATAAAT
*
39072494 AAAATAAATTTACTGATTAAACTAATCTCGTATGATATAGTATATGTGAAAAGTGAAATTTGAAA
456 AAAATAAATTTACTGATAAAACTAATCTCGTATGATATAGTATATGTGAAAAGTGAAATTTGAAA
39072559 TAAAGAAATAAAAATGATATATATAATTAATTGATAATATTAAAAGATTGAATTGTTTATTTGTG
521 TAAAGAAATAAAAATGATATATATAATTAATTGATAATATTAAAAGATTGAATTGTTTATTTGTG
39072624 GTGATAATTGTAATGAAAAGTATGTGTGCGATTTAATGTATTTAATTATAAATTGAATTATAGTG
586 GTGATAATTGTAATGAAAAGTATGTGTGCGATTTAATGTATTTAATTATAAATTGAATTATAGTG
39072689 ATACCACTGAGTATATGCATACTCAGCGTACGGTTGTTTTCGTGCGCG
651 ATACCACTGAGTATATGCATACTCAGCGTACGGTTGTTTTCGTGCGCG
39072737 GGTTGTAGAA
Statistics
Matches: 696, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
698 696 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (698 bp):
TGTATAATGCATTGAATTGTGAAATTACTGTAATACTGTGAAACTGATTGAAATAAGGAATTTAT
AATCAATACTGAACTAAAATGGAAATTGTACTGAAAAGTAAATTAAATGCCCTATTAACTAGTCG
GGCTAGTCGGATATAGTTGGTATGCCATAAGATATGGAAAAGTACGGGGTATTTGCAAGGCTTAC
TGATCAGGCACTTATGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC
TGTTACTGTTACTGTTATCGACTCGACACTTTGTGTGTCGAATACTGTTACCGTTACTATTACAG
GTTCAGCACTTTGTGTGTTGAATACTGTTACTATTACTGTTACTGCTACCGTTACTGATTACTGT
TTACTGGTGTGTTTGGTTGGAATCCGTGTATCCGCCGAGTCCGAGTCAAGTTAATAGGGATAAAT
AAAATAAATTTACTGATAAAACTAATCTCGTATGATATAGTATATGTGAAAAGTGAAATTTGAAA
TAAAGAAATAAAAATGATATATATAATTAATTGATAATATTAAAAGATTGAATTGTTTATTTGTG
GTGATAATTGTAATGAAAAGTATGTGTGCGATTTAATGTATTTAATTATAAATTGAATTATAGTG
ATACCACTGAGTATATGCATACTCAGCGTACGGTTGTTTTCGTGCGCG
Found at i:39073138 original size:10 final size:9
Alignment explanation
Indices: 39073122--39073154 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
39073112 GAAATTTTGT
39073122 AAAAATAAA
1 AAAAATAAA
39073131 ATAAAAT-AA
1 A-AAAATAAA
39073140 AAAAATAAA
1 AAAAATAAA
39073149 AAAAAT
1 AAAAAT
39073155 TTAGAGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 12 0.55
10 5 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:39073988 original size:18 final size:18
Alignment explanation
Indices: 39073961--39074053 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
39073951 TACGACCGTT
39073961 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
39073979 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* **
39073997 TACGGTACTATTTATATA
1 TACGGTACTATTCACGTA
*
39074015 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
39074033 TACTGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
39074051 TAC
1 TAC
39074054 AGTAGTTGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:39074008 original size:36 final size:36
Alignment explanation
Indices: 39073961--39074053 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
39073951 TACGACCGTT
39073961 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
* **
39073997 TACGGTACTATTTATATATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
* *
39074033 TACTGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
39074054 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:39085024 original size:2 final size:2
Alignment explanation
Indices: 39085017--39085045 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39085007 TATAAAATGT
39085017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39085046 GTTGCAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.