Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 87 of 141
Found at i:24783820 original size:5 final size:6
Alignment explanation
Indices: 24783804--24783861 Score: 55
Period size: 6 Copynumber: 8.8 Consensus size: 6
24783794 GAGGCAACCC
24783804 ATTTTT ATTTTT ATTTTT ATTTGTTT ATATACTTT ATTTTT ATTTTCT
1 ATTTTT ATTTTT ATTTTT A-TT-TTT AT-T--TTT ATTTTT ATTTT-T
24783852 A-TTTT ATTTT
1 ATTTTT ATTTT
24783862 CTCGCATGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
5 2 0.04
6 27 0.60
7 5 0.11
8 6 0.13
9 5 0.11
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:24789983 original size:23 final size:22
Alignment explanation
Indices: 24789940--24789984 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24789930 TTTTTTTAAA
**
24789940 AATATTTATATTATTTTAATTT
1 AATATTTATATTATTGAAATTT
*
24789962 AATATTTTTATATATTGAAATTT
1 AATATTTATAT-TATTGAAATTT
24789985 TTATATAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AATATTTATATTATTGAAATTT
Found at i:24802759 original size:11 final size:11
Alignment explanation
Indices: 24802743--24802767 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24802733 GTTTAGGTGA
24802743 TTTTTTTATTT
1 TTTTTTTATTT
24802754 TTTTTTTATTT
1 TTTTTTTATTT
24802765 TTT
1 TTT
24802768 GCTTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:24810719 original size:20 final size:20
Alignment explanation
Indices: 24810678--24810714 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24810668 ACAGAAATAA
24810678 TGTCAAGTATATAATATTAT
1 TGTCAAGTATATAATATTAT
24810698 TGTCAAGTA-ATAA-ATTA
1 TGTCAAGTATATAATATTA
24810715 CATTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTCAAGTATATAATATTAT
Found at i:24813316 original size:57 final size:58
Alignment explanation
Indices: 24813248--24813366 Score: 177
Period size: 57 Copynumber: 2.1 Consensus size: 58
24813238 TTTTTTTTGA
* *
24813248 AATAGAATTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTATTAATTT
1 AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
* * * *
24813305 AATAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTT
1 AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
24813363 AATA
1 AATA
24813367 TTAAAGTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 36 0.65
58 19 0.35
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (58 bp):
AATAGAATTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTAATTT
Found at i:24813379 original size:58 final size:56
Alignment explanation
Indices: 24813253--24813386 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 56
24813243 TTTGAAATAG
* *
24813253 AATT-AATATTAAATTAAATTTAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 AATTAAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAAT
* * * *
24813308 AGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAAT
1 A-ATTAAATATTAAATTAAATCTAATACTTATCTTAAT-AGTATTATATTAATTTAAT
*
24813366 -ATTAAAGTGATTAAGTTAAAT
1 AATTAAA-T-ATTAAATTAAAT
24813387 TATAGTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
55 1 0.02
56 8 0.12
57 29 0.44
58 28 0.42
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (56 bp):
AATTAAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAAT
Found at i:24819170 original size:14 final size:15
Alignment explanation
Indices: 24819146--24819174 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24819136 TTTATTTTGG
24819146 TTTCGATTTAATCTT
1 TTTCGATTTAATCTT
24819161 TTTC-ATTTAATCTT
1 TTTCGATTTAATCTT
24819175 GCCTTTTTTT
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:0.21, C:0.14, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTCGATTTAATCTT
Found at i:24819319 original size:14 final size:14
Alignment explanation
Indices: 24819292--24819325 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24819282 TTTTAGTTCA
* *
24819292 TTTTTGTTTTTATT
1 TTTTTATTTATATT
24819306 TTTTTATTTATATT
1 TTTTTATTTATATT
24819320 TTTTTA
1 TTTTTA
24819326 ATGTTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTATTTATATT
Found at i:24823194 original size:17 final size:17
Alignment explanation
Indices: 24823174--24823226 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
24823164 ATAGCAAAAA
24823174 AAAAAAGGAGAAGAGAG
1 AAAAAAGGAGAAGAGAG
24823191 AAAAGAA-GAGAA-AGAAG
1 AAAA-AAGGAGAAGAG-AG
24823208 AAAAAAGGAGGAAGA-AG
1 AAAAAAGGA-GAAGAGAG
24823225 AA
1 AA
24823227 TAGGGAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 4 0.13
17 21 0.68
18 5 0.16
19 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAGAAGAGAG
Found at i:24823316 original size:17 final size:16
Alignment explanation
Indices: 24823306--24823357 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
24823296 AAGAAAAAGG
24823306 AAAGAAAAAG-AAGAA
1 AAAGAAAAAGAAAGAA
24823321 GAAAGGAAAAA-AAAGAA
1 -AAA-GAAAAAGAAAGAA
24823338 AAAGAAAAAGGAAAGAA
1 AAAGAAAAA-GAAAGAA
24823355 AAA
1 AAA
24823358 AACAGTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.19
16 6 0.19
17 20 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:24823323 original size:26 final size:25
Alignment explanation
Indices: 24823287--24823359 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 25
24823277 GTTCGGCCCG
24823287 AAGAAGAAG-AAGAAAAAGGAAAGAAA
1 AAGAAGAAGAAAGAAAAA--AAAGAAA
24823313 AAGAAGAAGAAAGGAAAAAAAAGAAA
1 AAGAAGAAGAAA-GAAAAAAAAGAAA
*
24823339 AAGAAAAAGGAAAGAAAAAAA
1 AAGAAGAA-GAAAGAAAAAAA
24823360 CAGTCGGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 31 0.72
27 6 0.14
28 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AAGAAGAAGAAAGAAAAAAAAGAAA
Found at i:24823449 original size:19 final size:20
Alignment explanation
Indices: 24823425--24823473 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
24823415 GTATCAGCCA
24823425 ACCCAGCAGGCCA-GCCAG-C
1 ACCCAGCAGG-CAGGCCAGAC
*
24823444 ACCCAGCAAGCAGGCCAGAC
1 ACCCAGCAGGCAGGCCAGAC
24823464 AGCCCAGCAG
1 A-CCCAGCAG
24823474 TAGGCAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 2 0.08
21 7 0.28
ACGTcount: A:0.31, C:0.43, G:0.27, T:0.00
Consensus pattern (20 bp):
ACCCAGCAGGCAGGCCAGAC
Found at i:24829000 original size:27 final size:27
Alignment explanation
Indices: 24828962--24829015 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24828952 ATTTAACGAG
24828962 TGGTGGTGGATTTTAAGAAAGTTCTTA
1 TGGTGGTGGATTTTAAGAAAGTTCTTA
24828989 TGGTGGTGGATTTTAAGAAAGTTCTTA
1 TGGTGGTGGATTTTAAGAAAGTTCTTA
24829016 CTGAGCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.41
Consensus pattern (27 bp):
TGGTGGTGGATTTTAAGAAAGTTCTTA
Found at i:24829105 original size:10 final size:10
Alignment explanation
Indices: 24829090--24829119 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
24829080 TCATTGAATG
24829090 TATTGAAGAT
1 TATTGAAGAT
24829100 TATTGAAGAT
1 TATTGAAGAT
24829110 TATTGAAGAT
1 TATTGAAGAT
24829120 GAATTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TATTGAAGAT
Found at i:24830838 original size:15 final size:17
Alignment explanation
Indices: 24830801--24830842 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
24830791 TGAAAATATC
*
24830801 AAAAATAATAAGAAATA
1 AAAAATAACAAGAAATA
24830818 ATAAAATAACAAG-AATA
1 A-AAAATAACAAGAAATA
24830835 AAAAATAA
1 AAAAATAA
24830843 TAACGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAAATAACAAGAAATA
Found at i:24830851 original size:16 final size:16
Alignment explanation
Indices: 24830801--24830858 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
24830791 TGAAAATATC
24830801 AAAAATAATAAGAAATA
1 AAAAATAATAAG-AATA
*
24830818 ATAAAATAACAAGAATA
1 A-AAAATAATAAGAATA
24830835 AAAAATAATAACG-ATA
1 AAAAATAATAA-GAATA
*
24830851 ATAAATAA
1 AAAAATAA
24830859 AAAAATTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 19 0.53
17 7 0.19
18 10 0.28
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAATAATAAGAATA
Found at i:24830959 original size:12 final size:12
Alignment explanation
Indices: 24830928--24830971 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
24830918 GTAATACATA
*
24830928 AATATAAATAGAT
1 AATAAAAATA-AT
24830941 AAT-AAAATAAT
1 AATAAAAATAAT
24830952 AATAAAAATAAT
1 AATAAAAATAAT
24830964 AAATAAAA
1 -AATAAAA
24830972 CAAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 10 0.36
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:24830970 original size:13 final size:13
Alignment explanation
Indices: 24830920--24830983 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
24830910 ATAAAAAAGT
*
24830920 AATACATAAATATA
1 AATA-ATAAATAAA
24830934 AATAGAT-AAT-AA
1 AATA-ATAAATAAA
24830946 AATAAT-AATAAA
1 AATAATAAATAAA
24830958 AATAATAAATAAA
1 AATAATAAATAAA
24830971 ACA-AATAAATAAA
1 A-ATAATAAATAAA
24830984 TGCTCGATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 5 0.11
12 13 0.29
13 20 0.44
14 7 0.16
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:24831097 original size:14 final size:14
Alignment explanation
Indices: 24831078--24831109 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24831068 GCAAATAAAT
24831078 AAAATAATACATAA
1 AAAATAATACATAA
*
24831092 AAAATAATATATAA
1 AAAATAATACATAA
24831106 AAAA
1 AAAA
24831110 ATCTATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATACATAA
Found at i:24834922 original size:14 final size:14
Alignment explanation
Indices: 24834905--24834931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24834895 GATTACTTGT
24834905 TTATGATTTTATGC
1 TTATGATTTTATGC
24834919 TTATGATTTTATG
1 TTATGATTTTATG
24834932 TGCATGGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (14 bp):
TTATGATTTTATGC
Found at i:24843417 original size:14 final size:14
Alignment explanation
Indices: 24843400--24843426 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24843390 TTGGTCCCAC
24843400 AATTTATTTTTATA
1 AATTTATTTTTATA
24843414 AATTTATTTTTAT
1 AATTTATTTTTAT
24843427 TTATATGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTATTTTTATA
Found at i:24844716 original size:101 final size:101
Alignment explanation
Indices: 24844536--24844840 Score: 520
Period size: 101 Copynumber: 3.0 Consensus size: 101
24844526 CAACCACATA
24844536 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
*
24844601 AAATGAAAGATTAGGTGAGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
* *
24844637 GTTAATAGATGATGAAGTAGGCAACTGTGACATGACACCTATCATTTCGAATATTATGTGGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
24844702 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
* * * * * *
24844738 GTTAATAGATGATGAAGTAGGCAACTACGGCATGATACCTACCATTTTGAATATTGTGTAGTCAA
1 GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
*
24844803 AAATGAAAGGTTAGGTGTGATAGAACATGAGGGCAT
66 AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
24844839 GT
1 GT
24844841 ATAGTTTTTC
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 192 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (101 bp):
GTTAATAGATGATGAAGTAGGCAACTGCGACATGACACCTATCATTTCGAATATTGTGTGGTCAA
AAATGAAAGGTTAGGTGAGATAGAACATGAGGGCAT
Found at i:24846632 original size:19 final size:19
Alignment explanation
Indices: 24846608--24846652 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24846598 ATTTATTTTT
*
24846608 TTATTA-ATTGATAATGTAA
1 TTATTATATTCAT-ATGTAA
*
24846627 TTATTATTTTCATATGTAA
1 TTATTATATTCATATGTAA
24846646 TTATTAT
1 TTATTAT
24846653 TTCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTATTATATTCATATGTAA
Found at i:24846686 original size:18 final size:18
Alignment explanation
Indices: 24846663--24846729 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
24846653 TTCTTTTTTA
24846663 TATATATGTATATTTATG
1 TATATATGTATATTTATG
24846681 TATATAT-T-TATTTCCATG
1 TATATATGTATATTT--ATG
*
24846699 TATATATACGTATATTTTTG
1 TATATAT--GTATATTTATG
*
24846719 AATATAATGTA
1 TATAT-ATGTA
24846730 GTTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 6 0.15
21 3 0.08
22 5 0.12
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (18 bp):
TATATATGTATATTTATG
Found at i:24852970 original size:88 final size:88
Alignment explanation
Indices: 24852821--24853189 Score: 472
Period size: 88 Copynumber: 4.2 Consensus size: 88
24852811 AGCAGATCAG
* *
24852821 TAAAAATAACAGATCTTGCCTTCCTTCACCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
24852886 CCTTGGGATACAGCGGAGCAGGT
66 CCTTGGGATACAGCGGAGCAGGT
* * * *
24852909 TAAAAATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
24852974 CCCTGGGTTGCAGCGGAGCAGGT
66 CCTTGGGATACAGCGGAGCAGGT
* * * * * *
24852997 AAAAAACAACAGATCTTGCCTTCCTACACCGATAGCAAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
24853062 CAC-TAGGTTGCAGCGGAGTAGGT
66 C-CTTGGGATACAGCGGAGCAGGT
**
24853085 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTATCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
24853150 CCTTGAGCA-ACAGTGGAGTAGGT
66 CCTTG-GGATACAGCGGAGCAGGT
* *
24853173 TGAAAATTACAGATCTT
1 TAAAAATAACAGATCTT
24853190 ATCTCCCTAA
Statistics
Matches: 242, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
87 1 0.00
88 239 0.99
89 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (88 bp):
TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCTTGGGATACAGCGGAGCAGGT
Found at i:24853209 original size:44 final size:44
Alignment explanation
Indices: 24853143--24853472 Score: 242
Period size: 44 Copynumber: 7.6 Consensus size: 44
24853133 AGACACCAGC
* * *
24853143 CTTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * ** *
24853187 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCCAG-C
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
* *
24853230 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * ** *
24853274 CTTATTTCCCTAAGCAGTAGTGGAGTA-GATCAAAGTCCCCAG-C
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
* **
24853317 CTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
* * * * * **
24853361 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCTAG-T
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTAC-AGAT
* * * * *
24853404 CTTGTCTCCCTGAA-CAGCAATGGAATATGTTGAAAATTACATAT
1 CTTATCTCCCT-AAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
*
24853448 CTTATCTCCCTAAGCAGTAGTGGAG
1 CTTATCTCCCTAAGCAGCAGTGGAG
24853473 CAGATCGAGG
Statistics
Matches: 207, Mismatches: 68, Indels: 22
0.70 0.23 0.07
Matches are distributed among these distances:
43 92 0.44
44 115 0.56
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT
Found at i:24853238 original size:87 final size:87
Alignment explanation
Indices: 24853123--24853480 Score: 563
Period size: 87 Copynumber: 4.1 Consensus size: 87
24853113 CCGACAGCGA
* * * * *
24853123 AGCAGATCGAAGACACCAGCCTTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
24853188 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
24853210 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
*
24853275 TTATTTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* * * *
24853297 AGTAGATCAAAGTCCCCAGCCTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
24853362 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* * * * * * *
24853384 AGCAGATCGAAGTCCCTAGTCTTGTCTCCCTGAACAGCAATGGAATATGTTGAAAATTACATATC
1 AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
24853449 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
24853471 AGCAGATCGA
1 AGCAGATCGA
24853481 GGATGGTAAA
Statistics
Matches: 249, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
AGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
TTATCTCCCTAAGCAGTAGTGG
Found at i:24853240 original size:43 final size:43
Alignment explanation
Indices: 24853186--24853414 Score: 183
Period size: 43 Copynumber: 5.3 Consensus size: 43
24853176 AAATTACAGA
*
24853186 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
* * * * * * * **
24853229 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-TACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGTCCCCAG
* *
24853272 ATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCAAAGTCCCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
* * ** * * * * **
24853316 CCTTCTCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAAT-TACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGTCCCCAG
* *
24853359 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
*
24853403 TCTTGTCTCCCT
1 TCTTATCTCCCT
24853415 GAACAGCAAT
Statistics
Matches: 134, Mismatches: 46, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
43 73 0.54
44 61 0.46
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGTCCCCAG
Found at i:24853586 original size:44 final size:44
Alignment explanation
Indices: 24853489--24853592 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
24853479 GAGGATGGTA
* * * *
24853489 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAAAACCGAT
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
* * * *
24853533 AATCCTATCTCCCTGAGGTTATAGCGGAGCGGATTAAAA-TAAC
1 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
*
24853576 AGATCTTATCTCTCTGA
1 A-ATCTTATCTCCCTGA
24853593 AATTATGGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
43 2 0.04
44 47 0.96
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAACCAAC
Found at i:24853992 original size:13 final size:14
Alignment explanation
Indices: 24853976--24854009 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24853966 GCCCAATAAG
24853976 GCCCAAAT-TGCTA
1 GCCCAAATCTGCTA
*
24853989 GCCCTAATCTGCTA
1 GCCCAAATCTGCTA
24854003 GCCCAAA
1 GCCCAAA
24854010 AAACACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (14 bp):
GCCCAAATCTGCTA
Found at i:24854896 original size:23 final size:24
Alignment explanation
Indices: 24854860--24854904 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24854850 TACAATTAAG
*
24854860 TTTATTTTATTTTTAAATTTCATC
1 TTTAATTTATTTTTAAATTTCATC
24854884 TTTAATTTATTTTT-AATTTCA
1 TTTAATTTATTTTTAAATTTCA
24854905 ATTTGGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTAATTTATTTTTAAATTTCATC
Found at i:24854900 original size:11 final size:11
Alignment explanation
Indices: 24854860--24854902 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
24854850 TACAATTAAG
*
24854860 TTTATTTTATT
1 TTTAATTTATT
*
24854871 TTTAAATTTCATC
1 TTT-AATTT-ATT
24854884 TTTAATTTATT
1 TTTAATTTATT
24854895 TTTAATTT
1 TTTAATTT
24854903 CAATTTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 9 0.33
13 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:24859534 original size:23 final size:24
Alignment explanation
Indices: 24859498--24859542 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24859488 TACAATTAAG
*
24859498 TTTATTTTATTTTTAAATTTCATC
1 TTTAATTTATTTTTAAATTTCATC
24859522 TTTAATTTATTTTT-AATTTCA
1 TTTAATTTATTTTTAAATTTCA
24859543 ATTTGGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTAATTTATTTTTAAATTTCATC
Found at i:24859538 original size:11 final size:11
Alignment explanation
Indices: 24859498--24859540 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
24859488 TACAATTAAG
*
24859498 TTTATTTTATT
1 TTTAATTTATT
*
24859509 TTTAAATTTCATC
1 TTT-AATTT-ATT
24859522 TTTAATTTATT
1 TTTAATTTATT
24859533 TTTAATTT
1 TTTAATTT
24859541 CAATTTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 9 0.33
13 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:24864967 original size:18 final size:19
Alignment explanation
Indices: 24864944--24864982 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24864934 TAAAATAAAA
24864944 TGAT-AAAATGCCACTATT
1 TGATAAAAATGCCACTATT
*
24864962 TGATAAAAATGCCGCTATT
1 TGATAAAAATGCCACTATT
24864981 TG
1 TG
24864983 CTTACCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TGATAAAAATGCCACTATT
Found at i:24865403 original size:21 final size:19
Alignment explanation
Indices: 24865365--24865409 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
24865355 CCCTAACCCT
*
24865365 TAAACACAACCATAAACCA
1 TAAACACAAACATAAACCA
*
24865384 TAAACACTAAACATTAAACCC
1 TAAACAC-AAACA-TAAACCA
24865405 TAAAC
1 TAAAC
24865410 TTACACCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAACACAAACATAAACCA
Found at i:24865419 original size:13 final size:14
Alignment explanation
Indices: 24865384--24865421 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
24865374 CCATAAACCA
*
24865384 TAAACACTAAACAT
1 TAAACCCTAAACAT
24865398 TAAACCCTAAAC-T
1 TAAACCCTAAACAT
*
24865411 TACACCCTAAA
1 TAAACCCTAAA
24865422 TTATAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:24865457 original size:7 final size:7
Alignment explanation
Indices: 24865445--24865597 Score: 82
Period size: 7 Copynumber: 21.9 Consensus size: 7
24865435 ACTCTTAACA
24865445 CTAAACC
1 CTAAACC
24865452 CTAAACC
1 CTAAACC
*
24865459 TTAAACC
1 CTAAACC
* *
24865466 CCAACCCC
1 CTAA-ACC
*
24865474 CTAAATC
1 CTAAACC
24865481 CTAAACC
1 CTAAACC
* *
24865488 TTAAA-A
1 CTAAACC
24865494 CTAAACC
1 CTAAACC
* *
24865501 ATAAACT
1 CTAAACC
*
24865508 CTAAATC
1 CTAAACC
*
24865515 CTAAACT
1 CTAAACC
24865522 CT-AACC
1 CTAAACC
24865528 CTTAAACCC
1 C-TAAA-CC
24865537 CT-AACAC
1 CTAAAC-C
24865544 CTAAACC
1 CTAAACC
*
24865551 TTAAA-C
1 CTAAACC
*
24865557 ATAAAACC
1 CT-AAACC
24865565 CTAAACC
1 CTAAACC
*
24865572 ATAAA-C
1 CTAAACC
*
24865578 ATAAACC
1 CTAAACC
*
24865585 ATAAACC
1 CTAAACC
*
24865592 ATAAAC
1 CTAAAC
24865598 ATACACCCAA
Statistics
Matches: 112, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
6 17 0.15
7 79 0.71
8 13 0.12
9 3 0.03
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:24865463 original size:14 final size:14
Alignment explanation
Indices: 24865446--24865597 Score: 96
Period size: 14 Copynumber: 10.9 Consensus size: 14
24865436 CTCTTAACAC
24865446 TAAACCCTAAACCT
1 TAAACCCTAAACCT
* * *
24865460 TAAACCCCAACCCCC
1 TAAACCCTAA-ACCT
*
24865475 TAAATCCTAAACCT
1 TAAACCCTAAACCT
* *
24865489 TAAA-ACTAAACCA
1 TAAACCCTAAACCT
*
24865502 TAAACTCTAAATCC-
1 TAAACCCTAAA-CCT
* *
24865516 TAAACTCTAACCCT
1 TAAACCCTAAACCT
24865530 TAAACCCCTAACACC-
1 TAAA-CCCTAA-ACCT
* *
24865545 TAAACCTTAAACAT
1 TAAACCCTAAACCT
* *
24865559 AAAACCCTAAACCA
1 TAAACCCTAAACCT
* *
24865573 TAAA-CATAAACCA
1 TAAACCCTAAACCT
*
24865586 TAAACCATAAAC
1 TAAACCCTAAAC
24865598 ATACACCCAA
Statistics
Matches: 109, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
13 27 0.25
14 59 0.54
15 21 0.19
16 2 0.02
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:24865500 original size:29 final size:29
Alignment explanation
Indices: 24865445--24865500 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
24865435 ACTCTTAACA
* *
24865445 CTAAACCCTAAACCTTAAACCCCAACCCC
1 CTAAACCCTAAACCTTAAAACCAAACCCC
* *
24865474 CTAAATCCTAAACCTTAAAACTAAACC
1 CTAAACCCTAAACCTTAAAACCAAACC
24865501 ATAAACTCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (29 bp):
CTAAACCCTAAACCTTAAAACCAAACCCC
Found at i:24865597 original size:20 final size:20
Alignment explanation
Indices: 24865545--24865600 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
24865535 CCCTAACACC
* *
24865545 TAAACCTTAAACATAAAACCC
1 TAAACCATAAACAT-AAACCA
24865566 TAAACCATAAACATAAACCA
1 TAAACCATAAACATAAACCA
24865586 TAAACCATAAACATA
1 TAAACCATAAACATA
24865601 CACCCAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAACCATAAACATAAACCA
Found at i:24865597 original size:63 final size:62
Alignment explanation
Indices: 24865453--24865597 Score: 136
Period size: 63 Copynumber: 2.3 Consensus size: 62
24865443 CACTAAACCC
** * *
24865453 TAAACCTTAAACCCCAACCCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCC
1 TAAACC-TAAACCATAAACCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCA
* * *
24865516 TAAACTCTAACCCTTAAACCCCTAACA-CCTAAACCTT-AAACATAAAACCCTAAAC-CATAAA-
1 TAAAC-CTAAACCATAAACCCCTAA-ATCCTAAACCTTAAAAC-T-AAACCATAAACTC-TAAAT
24865577 CA
61 CA
24865579 TAAACCATAAACCATAAAC
1 TAAACC-TAAACCATAAAC
24865598 ATACACCCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
62 5 0.07
63 47 0.69
64 16 0.24
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (62 bp):
TAAACCTAAACCATAAACCCCTAAATCCTAAACCTTAAAACTAAACCATAAACTCTAAATCA
Found at i:24866340 original size:50 final size:50
Alignment explanation
Indices: 24866225--24866558 Score: 488
Period size: 50 Copynumber: 6.6 Consensus size: 50
24866215 GATAATAACA
* **
24866225 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
24866276 TACCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
24866326 TGCCAATGTCATGTCTCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24866376 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24866426 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-TCTCGG
* * * * *
24866477 TACCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24866527 TGCCAACGCCATGTCCCAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
24866559 NNNNNNNNNN
Statistics
Matches: 255, Mismatches: 27, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
50 178 0.70
51 77 0.30
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24866500 original size:151 final size:151
Alignment explanation
Indices: 24866225--24866558 Score: 526
Period size: 151 Copynumber: 2.2 Consensus size: 151
24866215 GATAATAACA
* ** * *
24866225 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGGTACCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTACCAACGCCATGT
* * * *
24866290 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAATGTCATGTCTCAAACATGGTCTT
66 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAATGCCATGTCCCAAACATGGTCTT
*
24866355 ATATGGGACCTCTCATCTCGG
131 ATAGGGGACCTCTCATCTCGG
*
24866376 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTACCAACGCCATGT
* * *
24866440 CCCAGACATGGTCTTACATGGGACCTCTCATTCTCGGTACCCATGCCATGTCCCAGACATGGTCT
66 CCCAGACATGGTCTTACAGGGGACCTCTCA-TCTCGGTACCAATGCCATGTCCCAAACATGGTCT
24866505 TATAGGGGACCTCTCATCTCGG
130 TATAGGGGACCTCTCATCTCGG
24866527 TGCCAACGCCATGTCCCAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
24866559 NNNNNNNNNN
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 50 0.30
151 118 0.70
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (151 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTACCAACGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAATGCCATGTCCCAAACATGGTCTT
ATAGGGGACCTCTCATCTCGG
Found at i:24870916 original size:50 final size:50
Alignment explanation
Indices: 24870801--24871024 Score: 331
Period size: 50 Copynumber: 4.5 Consensus size: 50
24870791 GATAATAACA
* **
24870801 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
24870852 TACCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
24870902 TGCCAACGTCATGTCTCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24870952 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24871002 TGCCAACGCCATGTCCCAGACAT
1 TGCCAACGCCATGTCCCAGACAT
24871025 TATTCCATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 123 0.79
51 32 0.21
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24874823 original size:12 final size:13
Alignment explanation
Indices: 24874808--24874836 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24874798 GTGTGAATTT
24874808 ATTT-GTGTGAAA
1 ATTTCGTGTGAAA
24874820 ATTTCGTGTGAAA
1 ATTTCGTGTGAAA
24874833 ATTT
1 ATTT
24874837 TATCGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
ATTTCGTGTGAAA
Found at i:24874823 original size:16 final size:15
Alignment explanation
Indices: 24874790--24874818 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24874780 ATTTTATGTG
24874790 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
24874805 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
24874819 AATTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:24875958 original size:41 final size:41
Alignment explanation
Indices: 24875913--24876044 Score: 203
Period size: 41 Copynumber: 3.2 Consensus size: 41
24875903 GCTCGATGCT
24875913 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
1 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
*
24875954 TAGCAGGCTTAATGCCGGTGAATTATTTCAGATTTTATGTC
1 TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
* * * *
24875995 TAGCAGGCTTAAGGCCGGTGAAATGA-TTCGGACTTTAAGTC
1 TAGCAGGCTTAATGCCGGTG-AATTATTTCAGACTTTATGTC
24876036 TAGCAGGCT
1 TAGCAGGCT
24876045 AAGTGTCGGT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 80 0.95
42 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGTC
Found at i:24876055 original size:41 final size:42
Alignment explanation
Indices: 24875913--24876139 Score: 161
Period size: 41 Copynumber: 5.5 Consensus size: 42
24875903 GCTCGATGCT
* * *
24875913 TAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGACTTTATGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGTC
* * * *
24875954 TAGCAGGCTTAA-TGCCGGTG-AATTATTTCAGATTTTATGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGA-TTCGGACTTTAAGTC
24875995 TAGCAGGCTTAAG-GCCGGTGAAATGATTCGGACTTTAAGTC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGTC
* ** * **
24876036 TAGCAGGC-TAAGTGTCGGTGATCTGAATCAGG--TTATAAACC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTT-TAAGTC
** * * *
24876077 TAGCAGGC-TAAGTGCCGGTGATCTGAATCAGG-CTATAAGCC
1 TAGCAGGCTTAAGTGCCGGTGAAATGATTC-GGACTTTAAGTC
*
24876118 TAGCAGGC-TAAGTGCCAGTGAA
1 TAGCAGGCTTAAGTGCCGGTGAA
24876140 TCTGTTAAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
40 6 0.04
41 151 0.92
42 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TAGCAGGCTTAAGTGCCGGTGAAATGATTCGGACTTTAAGTC
Found at i:24881910 original size:12 final size:13
Alignment explanation
Indices: 24881895--24881923 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24881885 GTGTGAATTT
24881895 ATTT-GTGTGAAA
1 ATTTCGTGTGAAA
24881907 ATTTCGTGTGAAA
1 ATTTCGTGTGAAA
24881920 ATTT
1 ATTT
24881924 TATCGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
ATTTCGTGTGAAA
Found at i:24881910 original size:16 final size:15
Alignment explanation
Indices: 24881877--24881905 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24881867 ATTTTATGTG
24881877 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
24881892 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
24881906 AATTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:24886005 original size:25 final size:25
Alignment explanation
Indices: 24885971--24886020 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
24885961 CATTTGTTAC
*
24885971 AATTCAATTTATTTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
*
24885996 AATTTAATTTAATTTATAATATAAT
1 AATTCAATTTAATTTATAATATAAT
24886021 TTTTAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTCAATTTAATTTATAATATAAT
Found at i:24886201 original size:12 final size:12
Alignment explanation
Indices: 24886184--24886212 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24886174 TTTAATTTAT
24886184 TAATAATAATAG
1 TAATAATAATAG
24886196 TAATAATAATAG
1 TAATAATAATAG
24886208 TAATA
1 TAATA
24886213 CATATACCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:24896101 original size:20 final size:18
Alignment explanation
Indices: 24896064--24896116 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
24896054 CAAAAGTTAT
*
24896064 AAAAATTATTAAATTTTA
1 AAAAATTATTAAAATTTA
24896082 AAAAATATATTTAAAATTTA
1 AAAAAT-TA-TTAAAATTTA
24896102 TTAAAAATT-TTAAAA
1 --AAAAATTATTAAAA
24896117 AATATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 9 0.30
21 1 0.03
22 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATTAAAATTTA
Found at i:24896103 original size:30 final size:31
Alignment explanation
Indices: 24896063--24896122 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
24896053 ACAAAAGTTA
24896063 TAAAAATTATT-AAATTTTAAAAAATATATT
1 TAAAAATTATTAAAATTTTAAAAAATATATT
*
24896093 TAAAATTTATTAAAAATTTTAAAAAATATA
1 TAAAAATTATT-AAAATTTTAAAAAATATA
24896123 AATATCGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.37
32 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAAATTATTAAAATTTTAAAAAATATATT
Found at i:24896133 original size:18 final size:17
Alignment explanation
Indices: 24896112--24896163 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
24896102 TTAAAAATTT
*
24896112 TAAAAAATATAAATATCG
1 TAAAAAATATAAA-ATCA
**
24896130 TAAAATTTTATAAAATCA
1 TAAAA-AATATAAAATCA
24896148 TAAATAAATATAAAAT
1 TAAA-AAATATAAAAT
24896164 GTATCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAAATATAAAATCA
Found at i:24896144 original size:37 final size:33
Alignment explanation
Indices: 24896063--24896161 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 33
24896053 ACAAAAGTTA
*
24896063 TAAAAATTATT-AAATTTTAAAAAATAT--ATT
1 TAAAATTTATTAAAATTTTAAAAAATATAAATT
24896093 TAAAATTTATTAAAAATTTTAAAAAATATAAATAT
1 TAAAATTTATT-AAAATTTTAAAAAATATAAAT-T
**
24896128 CGTAAAATTT-TATAAAATCATAAATAAATATAAA
1 --TAAAATTTAT-TAAAATTTTAAA-AAATATAAA
24896162 ATGTATCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
30 10 0.18
32 16 0.28
34 2 0.04
35 1 0.02
36 10 0.18
37 18 0.32
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (33 bp):
TAAAATTTATTAAAATTTTAAAAAATATAAATT
Found at i:24897304 original size:30 final size:31
Alignment explanation
Indices: 24897256--24897318 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
24897246 TTTCTTATGT
24897256 CAATATTTCGAAACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
*
24897287 CAATATTT-GACACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
24897317 CA
1 CA
24897319 TAATATGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (31 bp):
CAATATTTCGAAACCCATATCTTTGACTTTC
Found at i:24897310 original size:15 final size:16
Alignment explanation
Indices: 24897268--24897313 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
24897258 ATATTTCGAA
24897268 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
** *
24897284 TTCCA-ATATTTGAC-
1 ACCCATATCTTTGACT
24897298 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
24897314 TTCCATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (16 bp):
ACCCATATCTTTGACT
Found at i:24901702 original size:27 final size:27
Alignment explanation
Indices: 24901652--24901705 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24901642 GAGGTTCAGC
*
24901652 AAATTTTGCCTACGTCTTCAGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
* * *
24901679 AAATTTTGTCTATGTCCTCGGGCACTA
1 AAATTTTGCCTACGTCCTCAGGCACTA
24901706 CCAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (27 bp):
AAATTTTGCCTACGTCCTCAGGCACTA
Found at i:24901960 original size:30 final size:31
Alignment explanation
Indices: 24901907--24901966 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
24901897 TTTCTTATGC
*
24901907 CAATATTTCGATACCCATTTCTTTGACTTTT
1 CAATATTTCGATACCCATATCTTTGACTTTT
*
24901938 CAATATTT-GATACCTATATCTTTGACTTT
1 CAATATTTCGATACCCATATCTTTGACTTT
24901967 CCATAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (31 bp):
CAATATTTCGATACCCATATCTTTGACTTTT
Found at i:24906004 original size:45 final size:45
Alignment explanation
Indices: 24905764--24906147 Score: 220
Period size: 45 Copynumber: 8.4 Consensus size: 45
24905754 AGCCACCAGC
** * *
24905764 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * ** * * * * *
24905809 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AA---AGATAGCAAAT
* * * * * * *
24905858 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * ** * * * **
24905899 CTTATCTCCCTGAAGTTGTAATAGAGCAAGTTGAAGTTA-TAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* *
24905943 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGGGTAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* * * * * *
24905988 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAAGCTACAAATGACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACT-AAAG----ATA-G-CAAAT
**
24906040 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
* ** * * *
24906085 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGACAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
24906130 CTTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
24906148 TAGCAGAGTA
Statistics
Matches: 254, Mismatches: 69, Indels: 32
0.72 0.19 0.09
Matches are distributed among these distances:
41 29 0.11
42 1 0.00
44 31 0.12
45 114 0.45
46 6 0.02
47 2 0.01
48 1 0.00
49 32 0.13
50 1 0.00
51 5 0.02
52 32 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCAAAT
Found at i:24906377 original size:21 final size:19
Alignment explanation
Indices: 24906351--24906390 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
24906341 TTTTGCCCGG
24906351 ACCCAAAACTAAATAAATAAA
1 ACCCAAAA-TAAA-AAATAAA
24906372 ACCCAAAATAAAAAATAAA
1 ACCCAAAATAAAAAATAAA
24906391 CAGTCCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (19 bp):
ACCCAAAATAAAAAATAAA
Found at i:24908474 original size:21 final size:21
Alignment explanation
Indices: 24908450--24908492 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24908440 GAGAAAAATT
*
24908450 AAAGATAAAGGTGAGGCAATA
1 AAAGATAAAGGTGAGACAATA
* *
24908471 AAAGTTACAGGTGAGACAATA
1 AAAGATAAAGGTGAGACAATA
24908492 A
1 A
24908493 GGCAAATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16
Consensus pattern (21 bp):
AAAGATAAAGGTGAGACAATA
Found at i:24911153 original size:62 final size:57
Alignment explanation
Indices: 24911077--24911223 Score: 179
Period size: 57 Copynumber: 2.5 Consensus size: 57
24911067 AATTGACGGT
24911077 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC--T--TGATATAGCCCTCCCGAAGAATATGTG-G
* *
24911140 AAAAAGATCTAGCCCGGACCGGTGAT-CTTGATATAGCCCTCCTGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCTTGATATAGCCCTCCCGAAGAATATGTGG
** * *
24911196 AAATGGATTTAGCCCGGACGGGTAATCC
1 AAAAAGATCTAGCCCGGACGGGTGATCC
24911224 AAATTAGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 22 0.29
57 27 0.36
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.07
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCTTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:24911451 original size:66 final size:66
Alignment explanation
Indices: 24911345--24911470 Score: 252
Period size: 66 Copynumber: 1.9 Consensus size: 66
24911335 GTTTATATTA
24911345 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
24911410 G
66 G
24911411 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
24911471 CTCTGAAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.26
Consensus pattern (66 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
G
Found at i:24914604 original size:16 final size:16
Alignment explanation
Indices: 24914545--24914614 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
24914535 TTTGGTTCAC
24914545 TGTAATGGAATAG-GAT
1 TGTAATGGAATAGAG-T
* * *
24914561 TGTAATTGAATACAGC
1 TGTAATGGAATAGAGT
***
24914577 TGTAAAAAAATAGAGT
1 TGTAATGGAATAGAGT
*
24914593 TGTAATGGAATATAGT
1 TGTAATGGAATAGAGT
24914609 TGTAAT
1 TGTAAT
24914615 CAGTAATTCA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
16 40 0.98
17 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:24914793 original size:25 final size:26
Alignment explanation
Indices: 24914759--24914810 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
24914749 TTGTAGGTAG
*
24914759 ATGATTATTGTT-ATTAAATTTTAAT
1 ATGATTATTGTTAAATAAATTTTAAT
*
24914784 ATGATTATTGTTAAATATATTTTAAT
1 ATGATTATTGTTAAATAAATTTTAAT
24914810 A
1 A
24914811 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (26 bp):
ATGATTATTGTTAAATAAATTTTAAT
Found at i:24914871 original size:61 final size:57
Alignment explanation
Indices: 24914776--24914912 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 57
24914766 TTGTTATTAA
* * * * * *
24914776 ATTTTAATATGATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAAAT---AATAAATAATTTAATAAC
* *
24914837 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAC
24914894 ATTCTTAATATAATTATTA
1 ATT-TTAATATAATTATTA
24914913 ATAATATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 18 0.27
58 14 0.21
60 5 0.08
61 29 0.44
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATAAC
Found at i:24914890 original size:12 final size:11
Alignment explanation
Indices: 24914863--24914937 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
24914853 TATTAAATAC
24914863 AATTTAATAA-
1 AATTTAATAAT
24914873 AA--TAATATAT
1 AATTTAATA-AT
*
24914883 AATTTAATAAC
1 AATTTAATAAT
*
24914894 ATTCTTAAT-AT
1 AAT-TTAATAAT
24914905 AATTATTAATAAT
1 AA-T-TTAATAAT
24914918 -ATTTAATAAT
1 AATTTAATAAT
24914928 AATTTTAATA
1 AA-TTTAATA
24914938 TAAAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 5 0.10
9 1 0.02
10 12 0.24
11 7 0.14
12 24 0.47
13 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:24914929 original size:13 final size:12
Alignment explanation
Indices: 24914875--24914937 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
24914865 TTTAATAAAA
24914875 TAATATATAA-TT
1 TAATA-ATAATTT
*
24914887 TAATAA-CATTCT
1 TAATAATAATT-T
24914899 TAAT-ATAATTAT
1 TAATAATAATT-T
24914911 TAATAAT-A-TT
1 TAATAATAATTT
24914921 TAATAATAATTT
1 TAATAATAATTT
24914933 TAATA
1 TAATA
24914938 TAAAATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.21
11 5 0.12
12 26 0.62
13 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:24915581 original size:20 final size:20
Alignment explanation
Indices: 24915556--24915594 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24915546 ATCTTGACAA
24915556 CACAAAGGATAAATAATTAG
1 CACAAAGGATAAATAATTAG
24915576 CACAAAGGATAAATAATTA
1 CACAAAGGATAAATAATTA
24915595 ACGACATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (20 bp):
CACAAAGGATAAATAATTAG
Found at i:24918853 original size:43 final size:43
Alignment explanation
Indices: 24918784--24918952 Score: 214
Period size: 43 Copynumber: 3.9 Consensus size: 43
24918774 CTTTTAAGCA
* *
24918784 GCTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACACT
1 GCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACACT
* * * * *
24918827 GCTAAAGAACTTGACCATTAGTGGCGCTTTTATCACAAAC-GT
1 GCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACACT
* * *
24918869 CGTTAAAGAAAATAACCTTTAGCGGCGCTTTTATCACAAACACC
1 -GCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACACT
* *
24918913 GCTAAAGAGCATAACCTTTAGTGGCGCTTTTATCACAAAC
1 GCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAAC
24918953 GTCTCTATAG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 106 0.99
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACACT
Found at i:24918903 original size:86 final size:86
Alignment explanation
Indices: 24918785--24919004 Score: 280
Period size: 86 Copynumber: 2.6 Consensus size: 86
24918775 TTTTAAGCAG
* * * * *
24918785 CTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACACTGCTAAAGAACTTGACCATTAGTG
1 CTAAAGAAAATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACATAACCATTAGTG
24918850 GCGCTTTTATCACAAACGTCGT
66 GCGCTTTTATCACAAACGTC-T
* * *
24918872 -TAAAGAAAATAACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAGCATAACCTTTAGTG
1 CTAAAGAAAATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACATAACCATTAGTG
24918936 GCGCTTTTATCACAAACGTCT
66 GCGCTTTTATCACAAACGTCT
* * * ** * **
24918957 CTATAGAGAATGACTTTTAGCGGCTTTTTTTTCACAAACGTCGCTAAA
1 CTAAAGAAAATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAA
24919005 AGCATCGTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 1 0.01
86 114 0.99
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (86 bp):
CTAAAGAAAATGACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACATAACCATTAGTG
GCGCTTTTATCACAAACGTCT
Found at i:24918976 original size:43 final size:43
Alignment explanation
Indices: 24918797--24919004 Score: 197
Period size: 43 Copynumber: 4.8 Consensus size: 43
24918787 AAAGAACATG
* * * *
24918797 ACCTTTAACGGCGCTTTTATCACAAAC-ACTGCTAAAGA-ACTTG
1 ACCTTTAGCGGCGCTTTTATCACAAACGTCT-CTAAAGAGA-ATA
* * *
24918840 ACCATTAGTGGCGCTTTTATCACAAACGTCGT-TAAAGAAAATA
1 ACCTTTAGCGGCGCTTTTATCACAAACGTC-TCTAAAGAGAATA
** * *
24918883 ACCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAGCATA
1 ACCTTTAGCGGCGCTTTTATCACAAACGTCTCTAAAGAGAATA
* * *
24918926 ACCTTTAGTGGCGCTTTTATCACAAACGTCTCTATAGAGAATG
1 ACCTTTAGCGGCGCTTTTATCACAAACGTCTCTAAAGAGAATA
* ** * *
24918969 ACTTTTAGCGGCTTTTTTTTCACAAACGTCGCTAAA
1 ACCTTTAGCGGCGCTTTTATCACAAACGTCTCTAAA
24919005 AGCATCGTTC
Statistics
Matches: 134, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
43 131 0.98
44 2 0.01
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTATCACAAACGTCTCTAAAGAGAATA
Found at i:24925049 original size:22 final size:23
Alignment explanation
Indices: 24925011--24925059 Score: 82
Period size: 22 Copynumber: 2.1 Consensus size: 23
24925001 ATTATATCGA
24925011 GAAGTGTATGAATATGAAACATTT
1 GAAGTGTA-GAATATGAAACATTT
24925035 GAAGTGTA-AATATGAAACATTT
1 GAAGTGTAGAATATGAAACATTT
24925057 GAA
1 GAA
24925060 ATAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (23 bp):
GAAGTGTAGAATATGAAACATTT
Found at i:24925068 original size:21 final size:22
Alignment explanation
Indices: 24925021--24925068 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24925011 GAAGTGTATG
* *
24925021 AATATGAAACATTTGAAGTGTA
1 AATATGAAACATTTGAAATGAA
24925043 AATATGAAACATTTGAAAT-AA
1 AATATGAAACATTTGAAATGAA
24925064 AATAT
1 AATAT
24925069 ACTATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (22 bp):
AATATGAAACATTTGAAATGAA
Found at i:24926780 original size:16 final size:15
Alignment explanation
Indices: 24926745--24926781 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
24926735 AAATTTTAAA
24926745 TAAAAATGAATATTG
1 TAAAAATGAATATTG
* *
24926760 TAAAAATGGATGTTG
1 TAAAAATGAATATTG
24926775 TAAAAAT
1 TAAAAAT
24926782 CTTGATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
TAAAAATGAATATTG
Found at i:24931491 original size:38 final size:36
Alignment explanation
Indices: 24931436--24931517 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
24931426 TAACCATATT
*
24931436 TTAACATAATTATTATTAAATAT-AATTTAATAAAATTC
1 TTAATATAATTATTATT--ATATGAATTTAATAAAA-TC
*
24931474 TTAATATAATTATTATTATATGAATTTACTAAAATC
1 TTAATATAATTATTATTATATGAATTTAATAAAATC
*
24931510 ATAATATA
1 TTAATATA
24931518 TAATACTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 13 0.32
37 11 0.28
38 16 0.40
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (36 bp):
TTAATATAATTATTATTATATGAATTTAATAAAATC
Found at i:24935923 original size:27 final size:27
Alignment explanation
Indices: 24935882--24936160 Score: 274
Period size: 27 Copynumber: 10.3 Consensus size: 27
24935872 GTAATGGGCC
* * * *
24935882 TAAAATAACCAAAATACCTTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
24935909 TAAAATAACCGAAATACCCTCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24935936 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24935963 TAAAATAACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * **
24935990 TAAAATGATCGAAATATCCTTAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24936017 TAAAATGACTGAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
24936044 TAAAATGACCAAAATA-CCTCCAAAAGG
1 TAAAATGACCGAAATACCCT-CGAAGGG
* * *
24936071 TAAAATAACTGAAATACCCTCGCAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
24936098 TAGAATGACTGAAATACCCTAGCAA-GG
1 TAAAATGACCGAAATACCCTCG-AAGGG
* * * *
24936125 TAAAATGACCGCAATACCCCCAAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
24936152 TAAAATGAC
1 TAAAATGAC
24936161 TGTTATACCC
Statistics
Matches: 209, Mismatches: 39, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.02
27 200 0.96
28 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:24936370 original size:26 final size:26
Alignment explanation
Indices: 24936334--24936410 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
24936324 TTGCCACATA
*
24936334 TACTGTTACTGGCAACTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
24936360 TACTGTTACTGGTAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
24936386 CACTATTATTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
24936411 ATATTGGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:24936556 original size:28 final size:28
Alignment explanation
Indices: 24936516--24936609 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 28
24936506 ACTGCATTAT
* *
24936516 ACTGTTATTGTATTGGGCTAAGGGCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
24936544 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* * * ** *
24936572 GCTGTTGCTGTATAGGGCTTTGGCCCAA
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
24936600 ACTGCTACTG
1 ACTGTTACTG
24936610 CACGTTGTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:24937545 original size:14 final size:14
Alignment explanation
Indices: 24937526--24937555 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24937516 ATCACCCAAA
24937526 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
24937540 AAAGAAAAGAAAAG
1 AAAGAAAAAAAAAG
24937554 AA
1 AA
24937556 TGTGTTTTTG
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:24938158 original size:23 final size:23
Alignment explanation
Indices: 24938100--24938339 Score: 183
Period size: 23 Copynumber: 10.7 Consensus size: 23
24938090 TTTGCAGCAC
* *
24938100 TTAAACACTTCGATTTACATCAT
1 TTAAACACTTCAATTTACAACAT
* * * *
24938123 TTCAGCACCTCAATTTACAACAA
1 TTAAACACTTCAATTTACAACAT
*
24938146 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
24938169 TTAAACACCTCAACTTACAACACT
1 TTAAACACTTCAATTTACAACA-T
* *
24938193 TT-AACA-TCCCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* * *
24938215 TTATACACCTC-A-GT---AC-T
1 TTAAACACTTCAATTTACAACAT
*
24938232 TAAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* *
24938255 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
* *
24938279 TT-AACACTTCAATTCACAGCAT
1 TTAAACACTTCAATTTACAACAT
* * *
24938301 TTAAATACTTCAATTTGCTACAT
1 TTAAACACTTCAATTTACAACAT
*
24938324 TTTAACACTTCAATTT
1 TTAAACACTTCAATTT
24938340 GCAGCACTTT
Statistics
Matches: 166, Mismatches: 39, Indels: 24
0.72 0.17 0.10
Matches are distributed among these distances:
17 9 0.05
18 3 0.02
19 1 0.01
22 9 0.05
23 138 0.83
24 6 0.04
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAACAT
Found at i:24938170 original size:46 final size:46
Alignment explanation
Indices: 24938100--24938427 Score: 174
Period size: 46 Copynumber: 7.3 Consensus size: 46
24938090 TTTGCAGCAC
* * * * *
24938100 TTAAACACTTCGATTTACATCATTTCAGCACCTCAATTTACAACAA
1 TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
*
24938146 TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAC
1 TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
* * * * * *
24938192 TTTAACA-TCCCAATTAACAACATTTATACACCTC-A-GT---AC--
1 TTAAACACT-TCAATTTACAGCATTTAAACACCTCAACTTACAACAA
* * * * * *
24938231 TTAAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCAC
1 TT-AAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
* * * * * * * *
24938278 TTTAACACTTCAATTCACAGCATTTAAATACTTCAATTTGCTACAT
1 TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
* * * * *
24938324 TTTAACACTTCAATTTGCAGCACTTT-AACATCTCTA-TTAACAACAT
1 TTAAACACTTCAATTTACAGCA-TTTAAACACCTCAACTT-ACAACAA
** * * * * * * *
24938370 TTATGCACCTCAA-TTACAGCAATAAAACATCTCAATTTCCAACTA
1 TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
*
24938415 CTAAACACTTCAA
1 TTAAACACTTCAA
24938428 ATTGTAGTAC
Statistics
Matches: 219, Mismatches: 49, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
39 2 0.01
40 25 0.11
41 4 0.02
42 1 0.00
44 2 0.01
45 34 0.16
46 146 0.67
47 5 0.02
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (46 bp):
TTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACAA
Found at i:24938352 original size:23 final size:22
Alignment explanation
Indices: 24938235--24938353 Score: 132
Period size: 23 Copynumber: 5.2 Consensus size: 22
24938225 CAGTACTTAA
* *
24938235 AACACTTCAATTTACAACATTT
1 AACACTTCAATTTGCAGCATTT
24938257 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCA-TTT
**
24938281 AACACTTCAATTCACAGCATTT
1 AACACTTCAATTTGCAGCATTT
*
24938303 AAATACTTCAATTTGCTA-CATTTT
1 -AACACTTCAATTTGC-AGCA-TTT
24938327 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
24938350 AACA
1 AACA
24938354 TCTCTATTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
22 4 0.05
23 71 0.87
24 7 0.09
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (22 bp):
AACACTTCAATTTGCAGCATTT
Found at i:24938371 original size:69 final size:69
Alignment explanation
Indices: 24938238--24938372 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
24938228 TACTTAAAAC
* *
24938238 ACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTCACAGCATTT
1 ACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACATTT
24938303 AAAT
66 AAAT
* * * *
24938307 ACTTCAATTTGCTACATTTTAACACTTCAATTTGCAGCACTTTAACA-TCTCTATTAACAACATT
1 ACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTAACAACATT
24938371 TA
65 TA
24938373 TGCACCTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 1 0.02
69 58 0.98
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (69 bp):
ACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACATTT
AAAT
Found at i:24938383 original size:69 final size:69
Alignment explanation
Indices: 24938234--24938384 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
24938224 TCAGTACTTA
* * *
24938234 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTCACAGC
1 AAACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAAC
24938299 ATTT
66 ATTT
* * * * * *
24938303 AAATACTTCAATTTGCTACATTTTAACACTTCAATTTGCAGCACTTTAACA-TCTCTATTAACAA
1 AAACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTAACAA
24938367 CATTT
65 CATTT
**
24938372 ATGCACCTCAATT
1 AAACACCTCAATT
24938385 ACAGCAATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
68 1 0.01
69 69 0.99
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (69 bp):
AAACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAAC
ATTT
Found at i:24944925 original size:22 final size:22
Alignment explanation
Indices: 24944895--24944937 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24944885 ATAGTAGAAC
* *
24944895 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
*
24944917 AGGTCTTTAGTGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
24944938 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.12, G:0.28, T:0.51
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:24945116 original size:42 final size:43
Alignment explanation
Indices: 24945016--24945237 Score: 290
Period size: 43 Copynumber: 5.2 Consensus size: 43
24945006 TAACTTTTGT
* *
24945016 GGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
1 GGCGCTTAGA-AAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
*
24945060 GGCGCTTTGAAAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
1 GGCGCTTAGAAAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
* *
24945103 GGCGCTTAGAAAAAAAACACCCCTAAATATCATGTTCTTTAGC
1 GGCGCTTAGAAAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
* *
24945146 GGCGCTTAG-AAACAAACGCCACTAAAGATCATGTTCTTTAGC
1 GGCGCTTAGAAAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
*** *
24945188 GGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGC
1 GGCGCTTAGAAAAAAAACGCCCCTAAAGA-TCA-TGTTCTTTAGC
24945230 GGCGCTTA
1 GGCGCTTA
24945238 TTTCACAAAC
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.02
42 68 0.43
43 81 0.51
44 8 0.05
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
GGCGCTTAGAAAAAAAACGCCCCTAAAGATCATGTTCTTTAGC
Found at i:24945183 original size:85 final size:85
Alignment explanation
Indices: 24945016--24945237 Score: 297
Period size: 85 Copynumber: 2.6 Consensus size: 85
24945006 TAACTTTTGT
* *
24945016 GGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAAACGCC
1 GGCGCTTAGA-AAAAAAACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCC
*
24945081 CCTAAAGATCATGTTCTTTAGC
64 ACTAAAGATCATGTTCTTTAGC
* * *
24945103 GGCGCTTAGAAAAAAAACACCCCTAAATATCATGTTCTTTAGCGGCGCTTAG-AAACAAACGCCA
1 GGCGCTTAGAAAAAAAACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCA
24945167 CTAAAGATCATGTTCTTTAGC
65 CTAAAGATCATGTTCTTTAGC
***
24945188 GGCGCTT-GTTCAAAAACGCCGCTAAAAGT-AGTGTTCTTTAGCGGCGCTTA
1 GGCGCTTAGAAAAAAAACGCCGCTAAAA-TCA-TGTTCTTTAGCGGCGCTTA
24945238 TTTCACAAAC
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
83 2 0.02
84 34 0.28
85 38 0.31
86 38 0.31
87 9 0.07
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (85 bp):
GGCGCTTAGAAAAAAAACGCCGCTAAAATCATGTTCTTTAGCGGCGCTTAGAAAAAAAACGCCAC
TAAAGATCATGTTCTTTAGC
Found at i:24945673 original size:12 final size:12
Alignment explanation
Indices: 24945656--24945695 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
24945646 TTTTGAACCT
*
24945656 CTGCTTCTATTG
1 CTGCTTCTATCG
*
24945668 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
24945680 CTGCTTCTCTCG
1 CTGCTTCTATCG
24945692 CTGC
1 CTGC
24945696 GGCCTTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:24945707 original size:21 final size:21
Alignment explanation
Indices: 24945680--24945748 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
24945670 GCTTCTCTCG
*
24945680 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
24945701 TTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
24945722 CTGCTTCCCTCGCTGCCA-CCT
1 CTGCTTCTCTCGCTG-CAGCCT
24945743 CTGCTT
1 CTGCTT
24945749 TAAATTGCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.03, C:0.42, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:24951261 original size:7 final size:7
Alignment explanation
Indices: 24951249--24951302 Score: 63
Period size: 7 Copynumber: 7.1 Consensus size: 7
24951239 TGATATATTT
24951249 TTATGTA
1 TTATGTA
24951256 TTATGTAA
1 TTATGT-A
24951264 GTTATGTAA
1 -TTATGT-A
*
24951273 GTTCTGTA
1 -TTATGTA
24951281 TTATGTA
1 TTATGTA
24951288 TTATGTA
1 TTATGTA
24951295 TTATGTA
1 TTATGTA
24951302 T
1 T
24951303 GCCCCATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 27 0.63
8 2 0.05
9 14 0.33
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:24951270 original size:9 final size:9
Alignment explanation
Indices: 24951256--24951539 Score: 140
Period size: 9 Copynumber: 31.9 Consensus size: 9
24951246 TTTTTATGTA
24951256 TTATGTAAG
1 TTATGTAAG
24951265 TTATGTAAG
1 TTATGTAAG
*
24951274 TTCTGT-A-
1 TTATGTAAG
24951281 TTATGT-A-
1 TTATGTAAG
24951288 TTATGT-A-
1 TTATGTAAG
*
24951295 TTATGTATG
1 TTATGTAAG
**
24951304 CCCCATGTAAG
1 --TTATGTAAG
*
24951315 TAATGTAAG
1 TTATGTAAG
*
24951324 CTATGTAAG
1 TTATGTAAG
*
24951333 TAATGTAAG
1 TTATGTAAG
* * *
24951342 ATATTTAAT
1 TTATGTAAG
24951351 TTATGTAAG
1 TTATGTAAG
24951360 TTATGTAAG
1 TTATGTAAG
* * *
24951369 ATATTTAAT
1 TTATGTAAG
*
24951378 TTATGTAAA
1 TTATGTAAG
*
24951387 TTATGCAAG
1 TTATGTAAG
* * *
24951396 ATATTTAAT
1 TTATGTAAG
*
24951405 TTACT-TAAT
1 TTA-TGTAAG
24951414 TTATGTAAG
1 TTATGTAAG
*
24951423 TTATTTAA-
1 TTATGTAAG
*
24951431 TTAACT-TAAT
1 TT-A-TGTAAG
24951441 TTATGTAAG
1 TTATGTAAG
*
24951450 TTATGCAAG
1 TTATGTAAG
* * *
24951459 ATATTTAAT
1 TTATGTAAG
24951468 TTATGTAAG
1 TTATGTAAG
**
24951477 TTA-CCAAG
1 TTATGTAAG
*
24951485 AATTACT-TAAT
1 --TTA-TGTAAG
24951496 TTATGTAAG
1 TTATGTAAG
24951505 TTATGTAAG
1 TTATGTAAG
* *
24951514 TTATTTAAT
1 TTATGTAAG
*
24951523 TTCTGTAAG
1 TTATGTAAG
24951532 TTATGTAA
1 TTATGTAA
24951540 TTAACCAAAT
Statistics
Matches: 206, Mismatches: 54, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
7 19 0.09
8 9 0.04
9 163 0.79
10 7 0.03
11 8 0.04
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:24951400 original size:27 final size:27
Alignment explanation
Indices: 24951325--24951539 Score: 218
Period size: 27 Copynumber: 7.6 Consensus size: 27
24951315 TAATGTAAGC
*
24951325 TATGTAAGTAATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
24951352 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
24951379 TATGTAAATTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
24951406 TACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TA-TGTAAGTTATGTAAG--A--T-A-T---TTAATT
*
24951442 TATGTAAGTTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
** *
24951469 TATGTAAGTTA-CCAAGAATTACTTAATT
1 TATGTAAGTTATGTAAG-A-TATTTAATT
*
24951497 TATGTAAGTTATGTAAGTTATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
24951524 TCTGTAAGTTATGTAA
1 TATGTAAGTTATGTAA
24951540 TTAACCAAAT
Statistics
Matches: 160, Mismatches: 14, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.03
27 105 0.66
28 20 0.12
29 4 0.03
30 1 0.01
31 2 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 19 0.12
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.47
Consensus pattern (27 bp):
TATGTAAGTTATGTAAGATATTTAATT
Found at i:24951413 original size:63 final size:63
Alignment explanation
Indices: 24951346--24951470 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
24951336 TGTAAGATAT
*
24951346 TTAATTTATGTAAGTTATGTAAGAT-ATTTAATTTATGTAAATTATGCAAGATATTTAATTTAC
1 TTAATTTATGTAAGTTATGTAA-ATAACTTAATTTATGTAAATTATGCAAGATATTTAATTTAC
* * *
24951409 TTAATTTATGTAAGTTATTTAATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
1 TTAATTTATGTAAGTTATGTAAATAACTTAATTTATGTAAATTATGCAAGATATTTAATTTA
24951471 TGTAAGTTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
62 1 0.02
63 56 0.98
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (63 bp):
TTAATTTATGTAAGTTATGTAAATAACTTAATTTATGTAAATTATGCAAGATATTTAATTTAC
Found at i:24951505 original size:55 final size:56
Alignment explanation
Indices: 24951429--24951534 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 56
24951419 TAAGTTATTT
24951429 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
* * *
24951485 AATT-ACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTCTGTAAGTTA
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTA
24951535 TGTAATTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 43 0.91
56 4 0.09
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (56 bp):
AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
Found at i:24952196 original size:13 final size:13
Alignment explanation
Indices: 24952170--24952206 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
24952160 CTCCATGGAA
*
24952170 ACAT-TTTTAGTT
1 ACATATTTTAATT
24952182 ACATATTTTAATT
1 ACATATTTTAATT
24952195 ACATATTTTAAT
1 ACATATTTTAAT
24952207 AAACATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (13 bp):
ACATATTTTAATT
Found at i:24954836 original size:21 final size:20
Alignment explanation
Indices: 24954806--24954844 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24954796 AACACATATT
*
24954806 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
24954826 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
24954845 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:24957796 original size:3 final size:3
Alignment explanation
Indices: 24957788--24957827 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
24957778 ATATGTAGGT
24957788 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
24957828 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:24957803 original size:24 final size:21
Alignment explanation
Indices: 24957787--24957827 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24957777 TATATGTAGG
24957787 TATAATAATAATAATATATAA
1 TATAATAATAATAATATATAA
24957808 TATAATAATAATAATA-ATAA
1 TATAATAATAATAATATATAA
24957828 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATAATAATAATATATAA
Found at i:24957837 original size:24 final size:24
Alignment explanation
Indices: 24957788--24957843 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
24957778 ATATGTAGGT
* *
24957788 ATAATAATAATAATATATAATATA
1 ATAATAATAATAATACAAAATATA
24957812 ATAATAATAATAATAACAAAAT-TA
1 ATAATAATAATAAT-ACAAAATATA
24957836 ATAA-AATA
1 ATAATAATA
24957844 GACTAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATAATACAAAATATA
Found at i:24958274 original size:21 final size:22
Alignment explanation
Indices: 24958248--24958306 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
24958238 TAAAGGGTAT
*
24958248 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCAAATCTTCTAAGA
*
24958269 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCAAATCTTCTAAGA
* *
24958292 TTACATATCACATCT
1 TTACAAATCAAATCT
24958307 AAGAATACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 11 0.34
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TTACAAATCAAATCTTCTAAGA
Found at i:24958309 original size:19 final size:19
Alignment explanation
Indices: 24958262--24958399 Score: 132
Period size: 19 Copynumber: 6.8 Consensus size: 19
24958252 AAATTAAATC
*
24958262 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
24958282 TCTTCTAAGATTACATATCACA
1 ---TCTAAGATTACATATCATA
*
24958304 TCTAAGAATACATATCATA
1 TCTAAGATTACATATCATA
*
24958323 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
24958344 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
24958365 TCTAACATTGCATATCATA
1 TCTAAGATTACATATCATA
*
24958384 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
24958400 CTCGAAGATT
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
19 48 0.47
21 38 0.37
22 6 0.06
23 11 0.11
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:24958330 original size:61 final size:60
Alignment explanation
Indices: 24958262--24958397 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 60
24958252 AAATTAAATC
*
24958262 TCTAAGATTACA-AAATCATATCTTCTAAGATT-ACATATCACATCTAAGAATACATATCATA
1 TCTAAGATTACATAAATCATA---TCTAAGATTCACATATCACATCTAACAATACATATCATA
* * * * * *
24958323 TCTAAGATTGCATATATCATATCTAAGATTGCATATATCATATCTAACATTGCATATCATA
1 TCTAAGATTACATAAATCATATCTAAGATT-CACATATCACATCTAACAATACATATCATA
*
24958384 TCTAAGATTGCATA
1 TCTAAGATTACATA
24958398 TCCTCGAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 9 0.14
61 49 0.75
62 7 0.11
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (60 bp):
TCTAAGATTACATAAATCATATCTAAGATTCACATATCACATCTAACAATACATATCATA
Found at i:24958341 original size:21 final size:21
Alignment explanation
Indices: 24958315--24958398 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
24958305 CTAAGAATAC
24958315 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
24958336 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
24958357 ATATCATATCTAACATTGC--
1 ATATCATATCTAAGATTGCAT
24958376 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
24958397 AT
1 AT
24958399 CCTCGAAGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.31
21 41 0.69
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:24958350 original size:40 final size:38
Alignment explanation
Indices: 24958262--24958399 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 38
24958252 AAATTAAATC
* * * *
24958262 TCTAAGATTACAAAATCATATCTTCTAAGATTACATATCACA
1 TCTAAGATTAC-ATATCATA---TCTAACATTGCATATCATA
* *
24958304 TCTAAGAATACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAACATTGC--ATATCATA
*
24958344 TCTAAGATTGCATATATCATATCTAACATTGCATATCATA
1 TCTAAGATT--ACATATCATATCTAACATTGCATATCATA
*
24958384 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
24958400 CTCGAAGATT
Statistics
Matches: 83, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
38 15 0.18
40 32 0.39
41 7 0.08
42 29 0.35
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAACATTGCATATCATA
Found at i:24959295 original size:44 final size:44
Alignment explanation
Indices: 24959247--24959570 Score: 394
Period size: 44 Copynumber: 7.5 Consensus size: 44
24959237 TTCACCTACC
* * *
24959247 CCACTGCTGCCCAGGGAGATAGGGTTCACGATCTTCAACCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
* * * *
24959291 CCACTGTTGACTAGGGAGATAGGA-CCTACAATCTTCAATCTATT
1 CCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCAACCTATT
*
24959335 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
* * *
24959379 CCACTGCTGTCCAGGGAGATAAGATT--C--T-TT-AATCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
* * *
24959417 CCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
* *
24959461 CCACTACTGACCAGGGAGATAGGATTCACAATCTTTAACCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
* * * * *
24959505 CTACTACTGTCCAGGGAGATA-GATTCATAATCTTTAACCTATT
1 CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
24959548 CCACTGCTGACCAGGGAGATAGG
1 CCACTGCTGACCAGGGAGATAGG
24959571 GCTGGGGTCA
Statistics
Matches: 241, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
38 30 0.12
39 2 0.01
40 2 0.01
42 2 0.01
43 42 0.17
44 162 0.67
45 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATT
Found at i:24959453 original size:170 final size:169
Alignment explanation
Indices: 24959247--24959568 Score: 484
Period size: 170 Copynumber: 1.9 Consensus size: 169
24959237 TTCACCTACC
** * ** *
24959247 CCACTGCTGCCCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGTTGACTAGGGAGATA
1 CCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATA
* *
24959312 GGAC-CTACAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
66 GGACTC-ACAATCTTCAACCTATTCCACTACTGACCAGGGAGATA-GATTCACAATCTTTAACCT
*
24959376 ATTCCACTGCTGTCCAGGGAGATAAGATTCTTTAATCTATT
129 ATTCCACTGCTGACCAGGGAGATAAGATTCTTTAATCTATT
*
24959417 CCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGACCAGGGAGATA
1 CCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATA
* * * * *
24959482 GGATTCACAATCTTTAACCTATTCTACTACTGTCCAGGGAGATAGATTCATAATCTTTAACCTAT
66 GGACTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGATTCACAATCTTTAACCTAT
24959547 TCCACTGCTGACCAGGGAGATA
131 TCCACTGCTGACCAGGGAGATA
24959569 GGGCTGGGGT
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
169 41 0.30
170 94 0.69
171 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (169 bp):
CCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATA
GGACTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGATTCACAATCTTTAACCTAT
TCCACTGCTGACCAGGGAGATAAGATTCTTTAATCTATT
Found at i:24959471 original size:126 final size:129
Alignment explanation
Indices: 24959277--24959569 Score: 423
Period size: 126 Copynumber: 2.3 Consensus size: 129
24959267 AGGGTTCACG
* * * * * *
24959277 ATCTTCAACCTATTCCACTGTTGACTAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGC
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAACCTACAATCTTCAACCTATTCCACTAC
* *
24959342 TGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATA-A-GAT
66 TGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGATCAT
* * *
24959404 -TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCT-CAATCTTCAACCTATTCCACTA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAA-CCTACAATCTTCAACCTATTCCACTA
*
24959467 CTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCTACTACTGTCCAGGGAGATAGATTCA
65 CTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGA-TCA
24959532 T
129 T
24959533 AATCTTTAACCTATTCCACTGCTGACCAGGGAGATAG
1 -ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAG
24959570 GGCTGGGGTC
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
126 108 0.74
127 3 0.02
129 2 0.01
131 33 0.23
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (129 bp):
ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGAACCTACAATCTTCAACCTATTCCACTAC
TGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGATCAT
Found at i:24959650 original size:88 final size:88
Alignment explanation
Indices: 24959570--24959980 Score: 644
Period size: 88 Copynumber: 4.7 Consensus size: 88
24959560 AGGGAGATAG
* * * * *
24959570 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
24959635 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
24959658 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
24959723 TCCGCTGCAACCTAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
24959746 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTCTTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
24959811 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * *
24959834 GGCTAGTGTCTTCAACCTACTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
24959899 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
24959922 GGCTGGTGTC-TCTGATCTCCTTCGTTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTC-GATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
24959981 CTGATCTGCT
Statistics
Matches: 297, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
87 2 0.01
88 295 0.99
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:24959658 original size:44 final size:44
Alignment explanation
Indices: 24959608--24959922 Score: 161
Period size: 44 Copynumber: 7.2 Consensus size: 44
24959598 CGGTGTAGGA
*
24959608 AGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * ** * * * **** *
24959652 AGGCAAG-GCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGA
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
* *
24959696 AGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCTAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * ** * * * ** *
24959740 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
* * *
24959784 AGGCAAGATCTGCTCTTTTTAGCCTGCTCCACTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
* * * * * * * **** *
24959828 AGGCAAG-GCTAG-TGTCTTCAACCTACTTCGTTGTCGGTGCAGGA
1 AGGCAAGATCT-GCTATTTTTAACCTGCTCCGCTG-CAACCCAGGG
*
24959872 AGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
24959916 AGGCAAG
1 AGGCAAG
24959923 GCTGGTGTCT
Statistics
Matches: 177, Mismatches: 86, Indels: 16
0.63 0.31 0.06
Matches are distributed among these distances:
43 48 0.27
44 81 0.46
45 48 0.27
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
Found at i:24962969 original size:174 final size:174
Alignment explanation
Indices: 24962679--24963026 Score: 696
Period size: 174 Copynumber: 2.0 Consensus size: 174
24962669 GCAATCGATT
24962679 TTCTGTACATATTTACACTATTCACCTCATTTTTTTTTTCTTTTGAGGCTTGCCTTCTGTTATTT
1 TTCTGTACATATTTACACTATTCACCTCATTTTTTTTTTCTTTTGAGGCTTGCCTTCTGTTATTT
24962744 CCTCCAGCATCAATCTTTCCACTCCTTATGGCGCTTTCAATCATTTCATCATTCTTGATTATGTC
66 CCTCCAGCATCAATCTTTCCACTCCTTATGGCGCTTTCAATCATTTCATCATTCTTGATTATGTC
24962809 AGAAAAGCTTTTTGTGGCACTCCCTAACATATGTGTGATGAACG
131 AGAAAAGCTTTTTGTGGCACTCCCTAACATATGTGTGATGAACG
24962853 TTCTGTACATATTTACACTATTCACCTCATTTTTTTTTTCTTTTGAGGCTTGCCTTCTGTTATTT
1 TTCTGTACATATTTACACTATTCACCTCATTTTTTTTTTCTTTTGAGGCTTGCCTTCTGTTATTT
24962918 CCTCCAGCATCAATCTTTCCACTCCTTATGGCGCTTTCAATCATTTCATCATTCTTGATTATGTC
66 CCTCCAGCATCAATCTTTCCACTCCTTATGGCGCTTTCAATCATTTCATCATTCTTGATTATGTC
24962983 AGAAAAGCTTTTTGTGGCACTCCCTAACATATGTGTGATGAACG
131 AGAAAAGCTTTTTGTGGCACTCCCTAACATATGTGTGATGAACG
24963027 GAGCTTTCAA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (174 bp):
TTCTGTACATATTTACACTATTCACCTCATTTTTTTTTTCTTTTGAGGCTTGCCTTCTGTTATTT
CCTCCAGCATCAATCTTTCCACTCCTTATGGCGCTTTCAATCATTTCATCATTCTTGATTATGTC
AGAAAAGCTTTTTGTGGCACTCCCTAACATATGTGTGATGAACG
Found at i:24966056 original size:52 final size:51
Alignment explanation
Indices: 24965958--24966062 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
24965948 TTATAAAACT
* * *
24965958 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
24966009 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
24966061 TA
1 TA
24966063 ATATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:24966337 original size:3 final size:3
Alignment explanation
Indices: 24966329--24966368 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
24966319 ATATGTAGGT
24966329 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
24966369 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:24966344 original size:24 final size:21
Alignment explanation
Indices: 24966328--24966368 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24966318 TATATGTAGG
24966328 TATAATAATAATAATATATAA
1 TATAATAATAATAATATATAA
24966349 TATAATAATAATAATA-ATAA
1 TATAATAATAATAATATATAA
24966369 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATAATAATAATATATAA
Found at i:24966378 original size:24 final size:24
Alignment explanation
Indices: 24966329--24966384 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
24966319 ATATGTAGGT
* *
24966329 ATAATAATAATAATATATAATATA
1 ATAATAATAATAATACAAAATATA
24966353 ATAATAATAATAATAACAAAAT-TA
1 ATAATAATAATAAT-ACAAAATATA
24966377 ATAA-AATA
1 ATAATAATA
24966385 GACTAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATAATACAAAATATA
Found at i:24966823 original size:23 final size:22
Alignment explanation
Indices: 24966780--24966837 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
24966770 AAAGGGTATC
* *
24966780 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
24966801 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
24966824 TACATATCATATCT
1 TACAAATCATATCT
24966838 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:24966831 original size:17 final size:17
Alignment explanation
Indices: 24966809--24966861 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
24966799 ATTACAAAAT
24966809 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
24966826 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
* *
24966845 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
24966862 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Done.