Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 105 of 310
Found at i:33513965 original size:15 final size:15
Alignment explanation
Indices: 33513945--33513974 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33513935 CATTTTATTT
*
33513945 ATATTAGGATAATTA
1 ATATTAAGATAATTA
33513960 ATATTAAGATAATTA
1 ATATTAAGATAATTA
33513975 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:33514002 original size:27 final size:26
Alignment explanation
Indices: 33513941--33514003 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
33513931 ACTCCATTTT
33513941 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
33513968 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
33513996 ATTTTATT
1 ATTTTATT
33514004 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:33514716 original size:127 final size:127
Alignment explanation
Indices: 33514490--33514741 Score: 477
Period size: 127 Copynumber: 2.0 Consensus size: 127
33514480 GACAAAATAT
33514490 CGTGGGATTCGCCAATGAGAAGCGTTGATCTAGCATAGATTATTGGCTAGAGTCAAGTTCCCTAA
1 CGTGGGATTCGCCAATGAGAAGCGTTGATCTAGCATAGATTATTGGCTAGAGTCAAGTTCCCTAA
33514555 AAATCGTAAGTCTAATCTTTGGAACTGGTGGTCGTAGGCGTCCTTTTCCACTATAACTAGGG
66 AAATCGTAAGTCTAATCTTTGGAACTGGTGGTCGTAGGCGTCCTTTTCCACTATAACTAGGG
* *
33514617 CGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAGATTATTGGCTAGAGTCAGGTTCCCTAA
1 CGTGGGATTCGCCAATGAGAAGCGTTGATCTAGCATAGATTATTGGCTAGAGTCAAGTTCCCTAA
*
33514682 AAATCGTAAGTCTAATCTTTGGAGCTGGTGGTCGTAGGCGTCCTTTTCCACTATAACTAG
66 AAATCGTAAGTCTAATCTTTGGAACTGGTGGTCGTAGGCGTCCTTTTCCACTATAACTAG
33514742 CTTACTTGAG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (127 bp):
CGTGGGATTCGCCAATGAGAAGCGTTGATCTAGCATAGATTATTGGCTAGAGTCAAGTTCCCTAA
AAATCGTAAGTCTAATCTTTGGAACTGGTGGTCGTAGGCGTCCTTTTCCACTATAACTAGGG
Found at i:33514897 original size:18 final size:19
Alignment explanation
Indices: 33514869--33514911 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
33514859 ATTTTTCCTC
33514869 ATTTCAATTTCTGC-AATTT-
1 ATTT-AATTTC-GCAAATTTA
33514888 ATTTAATTTCGCAAATTTA
1 ATTTAATTTCGCAAATTTA
33514907 ATTTA
1 ATTTA
33514912 CTTTAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.09
18 11 0.50
19 9 0.41
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTTAATTTCGCAAATTTA
Found at i:33519069 original size:19 final size:19
Alignment explanation
Indices: 33519045--33519093 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
33519035 AATTGTTGTT
*
33519045 TTTTTTTTCTGTTTTCTTG-
1 TTTTTTTT-TATTTTCTTGC
33519064 TTTTTTTATTATTTTCTTGC
1 TTTTTTT-TTATTTTCTTGC
*
33519084 TATTTTTTTA
1 TTTTTTTTTA
33519094 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTATTTTCTTGC
Found at i:33522590 original size:3 final size:3
Alignment explanation
Indices: 33522584--33522614 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33522574 TTTTTCTTTC
33522584 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33522615 AGCAGCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33523283 original size:17 final size:18
Alignment explanation
Indices: 33523263--33523297 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33523253 AATTTTTTTC
33523263 CTAAATTCTATTT-TTAT
1 CTAAATTCTATTTATTAT
*
33523280 CTAAATTTTATTTATTAT
1 CTAAATTCTATTTATTAT
33523298 TATTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
CTAAATTCTATTTATTAT
Found at i:33527825 original size:18 final size:19
Alignment explanation
Indices: 33527803--33527855 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
33527793 ATTTTTTTAA
33527803 AAAAAGTATAAAATTTATT
1 AAAAAGTATAAAATTTATT
* **
33527822 AAAAA-TTTAAAAAATATT
1 AAAAAGTATAAAATTTATT
33527840 AAAAAGTATTAAAATT
1 AAAAAGTA-TAAAATT
33527856 ATAAATTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 15 0.58
19 6 0.23
20 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAAAGTATAAAATTTATT
Found at i:33527842 original size:28 final size:29
Alignment explanation
Indices: 33527802--33527880 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
33527792 AATTTTTTTA
33527802 AAAAAAGTA-TAAAATTTATTAAAAATT-T
1 AAAAAA-TATTAAAATTTATTAAAAATTAT
**
33527830 AAAAAATATTAAAAAGTATT-AAAATTAT
1 AAAAAATATTAAAATTTATTAAAAATTAT
*
33527858 AAATTAAA-ATTAAAATTAATTAA
1 AAA--AAATATTAAAATTTATTAA
33527881 TTGCAAACGT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 8 0.20
28 19 0.46
29 10 0.24
30 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAAATATTAAAATTTATTAAAAATTAT
Found at i:33527860 original size:18 final size:19
Alignment explanation
Indices: 33527803--33527857 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
33527793 ATTTTTTTAA
33527803 AAAAAGTA-TAAAATTTATT
1 AAAAAGTATTAAAA-TTATT
*
33527822 AAAAA-T-TTAAAAAATATT
1 AAAAAGTATT-AAAATTATT
33527840 AAAAAGTATTAAAATTAT
1 AAAAAGTATTAAAATTAT
33527858 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 11 0.37
19 17 0.57
20 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAAGTATTAAAATTATT
Found at i:33527865 original size:13 final size:12
Alignment explanation
Indices: 33527847--33527876 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
33527837 ATTAAAAAGT
33527847 ATTAAAATTATAA
1 ATTAAAATTA-AA
33527860 ATTAAAATTAAA
1 ATTAAAATTAAA
33527872 ATTAA
1 ATTAA
33527877 TTAATTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTAAAATTAAA
Found at i:33527867 original size:6 final size:6
Alignment explanation
Indices: 33527847--33527876 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
33527837 ATTAAAAAGT
33527847 ATTAAA ATTATAA ATTAAA ATTAAA ATTAA
1 ATTAAA ATTA-AA ATTAAA ATTAAA ATTAA
33527877 TTAATTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:33528270 original size:23 final size:23
Alignment explanation
Indices: 33528244--33528290 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33528234 TTTTATCTCA
*
33528244 ATTTTTAATAAAATAAGTTTTAT
1 ATTTTTAATAAAATAAGTTCTAT
33528267 ATTTTTAATAAAATAAGTTCTAT
1 ATTTTTAATAAAATAAGTTCTAT
33528290 A
1 A
33528291 CTTAAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTTTTAATAAAATAAGTTCTAT
Found at i:33533419 original size:15 final size:15
Alignment explanation
Indices: 33533399--33533428 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33533389 CCCACATCAT
33533399 CACACACACTCCAAA
1 CACACACACTCCAAA
*
33533414 CACACAGACTCCAAA
1 CACACACACTCCAAA
33533429 ATCAAGTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (15 bp):
CACACACACTCCAAA
Found at i:33535538 original size:10 final size:10
Alignment explanation
Indices: 33535520--33535569 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
33535510 AAATATATAC
*
33535520 ATATTAAAAT
1 ATATAAAAAT
33535530 ATATAAAAAT
1 ATATAAAAAT
*
33535540 AGA-AATAAAT
1 ATATAA-AAAT
33535550 ATATAAAAAT
1 ATATAAAAAT
33535560 -TCATAAAAAT
1 AT-ATAAAAAT
33535570 GCATAGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 3 0.09
10 29 0.85
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:33535701 original size:19 final size:18
Alignment explanation
Indices: 33535679--33535736 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
33535669 TTTAAATACC
33535679 TTTTAATTTTTTATAATTT
1 TTTTAA-TTTTTATAATTT
33535698 TTTTCAATTTTTATATATTAT
1 TTTT-AATTTTTATA-ATT-T
* * *
33535719 TTTGACTTTTTAAAATTT
1 TTTTAATTTTTATAATTT
33535737 ATAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 1 0.03
19 15 0.45
20 13 0.39
21 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTTATAATTT
Found at i:33535728 original size:20 final size:19
Alignment explanation
Indices: 33535686--33535735 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
33535676 ACCTTTTAAT
*
33535686 TTTTTATAATTTTTTTCAA
1 TTTTTATAATTATTTTCAA
* *
33535705 TTTTTATATATTATTTTGAC
1 TTTTTATA-ATTATTTTCAA
*
33535725 TTTTTAAAATT
1 TTTTTATAATT
33535736 TATAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTATTTTCAA
Found at i:33536003 original size:29 final size:28
Alignment explanation
Indices: 33535924--33535997 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 28
33535914 TCAAAAGTGT
33535924 TTTTTTATATTTAAATATTTAATATTATAA
1 TTTTTTAT-TTTAAATA-TTAATATTATAA
33535954 TTTTTTAAATTTTAAAT-TTAA-ATT-TAA
1 TTTTTT--ATTTTAAATATTAATATTATAA
33535981 TCTTTTTATTTTAAATA
1 T-TTTTTATTTTAAATA
33535998 ACTTAATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 9 0.22
27 4 0.10
28 8 0.20
29 4 0.10
30 6 0.15
31 7 0.17
32 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTATTTTAAATATTAATATTATAA
Found at i:33538383 original size:21 final size:20
Alignment explanation
Indices: 33538344--33538382 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33538334 TTACAAAAAG
33538344 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
*
33538364 AAAAATTCAAAATTATTTT
1 AAAAATTCAAAATAATTTT
33538383 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:33538432 original size:26 final size:26
Alignment explanation
Indices: 33538383--33538438 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
33538373 AAATTATTTT
* *
33538383 TAAATTTTAAAATATTTATGAAAATTC
1 TAAATTTTAAAATATTTA-AAAAAATC
*
33538410 TAAATTTT-ATATATTTAAAAAAATC
1 TAAATTTTAAAATATTTAAAAAAATC
33538435 TAAA
1 TAAA
33538439 AAAATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 8 0.31
27 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATTTTAAAATATTTAAAAAAATC
Found at i:33544410 original size:25 final size:28
Alignment explanation
Indices: 33544358--33544411 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
33544348 TTATCACTAT
* *
33544358 TATGTGTTGAATGATTGATTTTGCATAA
1 TATGTGTTGAATGATTGATTATGAATAA
33544386 TATG-GTTGAAT-A-TGATTATGAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
33544411 T
1 T
33544412 GCATGACGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 1 0.04
27 7 0.29
28 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.44
Consensus pattern (28 bp):
TATGTGTTGAATGATTGATTATGAATAA
Found at i:33544694 original size:48 final size:48
Alignment explanation
Indices: 33544498--33544675 Score: 196
Period size: 48 Copynumber: 3.7 Consensus size: 48
33544488 TGATATGTGT
* *
33544498 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACAATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAATATGAGA
* * * * *
33544546 ACCAGTGTAAGACCATGTTTGGAACATGGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAATATGAGA
* * * * ** * *
33544594 GCCAGTGTAAGACCATGTCTAGGACATGGCAT-TAGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CAATATGAGA
*
33544642 GCTAGAGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
33544676 GGCTTAACAT
Statistics
Matches: 106, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
47 3 0.03
48 103 0.97
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAATATGAGA
Found at i:33544763 original size:71 final size:71
Alignment explanation
Indices: 33544638--33544770 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 71
33544628 GCATTGAGAC
* * * * * *
33544638 GAGAGCTAGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTAACCA
1 GAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGAGCTTAACACGAGAGCTAGAGTAACCA
33544703 CATTAT
66 CATTAT
* * * *
33544709 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCAT-TAGCATTGAGACGAGAGCTAGAGTAA
1 GAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGAGC-TTAACACGAGAGCTAGAGTAA
33544771 GACCATGTCT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
70 2 0.04
71 49 0.96
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (71 bp):
GAGAGCCAGAGTAAGACCATGTCTAGGACATGGCATCGAGCTTAACACGAGAGCTAGAGTAACCA
CATTAT
Found at i:33544771 original size:48 final size:47
Alignment explanation
Indices: 33544709--33544841 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 47
33544699 ACCACATTAT
* * * *
33544709 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGC-TTAACAC
* ** *
33544757 GAGAGCTAGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TAGCTTAACAC
* *
33544805 GTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATT
33544842 GGCAATTTAC
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 70 0.97
49 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCTTAACAC
Found at i:33544791 original size:119 final size:119
Alignment explanation
Indices: 33544580--33544818 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
33544570 CATGGCATCG
33544580 ACCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGACGAGAGCT
1 ACCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGACGAGAGCT
33544645 AGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTA
66 AGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTA
33544699 ACCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGACGAGAGCT
1 ACCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGACGAGAGCT
33544764 AGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTA
66 AGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTA
33544818 A
1 A
33544819 GACCATGTTT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (119 bp):
ACCACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCATTGAGACGAGAGCT
AGAGTAAGACCATGTCTGGGACATGGCATCGGGCTTAACATGTGAGCTAGTGTA
Found at i:33547787 original size:48 final size:47
Alignment explanation
Indices: 33547716--33547941 Score: 176
Period size: 48 Copynumber: 4.7 Consensus size: 47
33547706 TATGTGTGCT
* *
33547716 AGTGTAAGACCATGTTTGGGACATGACATCAGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCATATTATGAGAGCC
* * * *
33547764 AGTGTAAGACCATGTCTGGGACATGGAATCG--GTATTGAGATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCATATT---ATGAGAGCC
* * *
33547812 AGTGTAAGACCATGTACT-GGACATGGCATCGCCAT-TGAGATAAGAGCT
1 AGTGTAAGACCATGT-CTGGGACATGGCATCGCCATAT--TATGAGAGCC
* * * *
33547860 AGCGTAAGACAATGTCTGGGACATGGCATCGGCC-TCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCAT--ATTATGAGAGCC
* * *
33547908 AGCGTAATACCATGTCTGAGACATGGCATCGCCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCA
33547942 ATTTACCCTC
Statistics
Matches: 144, Mismatches: 20, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
45 4 0.03
47 6 0.04
48 127 0.88
49 6 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCATATTATGAGAGCC
Found at i:33547877 original size:96 final size:94
Alignment explanation
Indices: 33547713--33547941 Score: 244
Period size: 96 Copynumber: 2.4 Consensus size: 94
33547703 TGATATGTGT
* * * * * *
33547713 GCTAGTGTAAGACCATGTTTGGGACATGACATCAGCCATATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCT-GGACATGGCATC-GCCATATGATAAGAGCCAGCGTAAGACAATG
* * *
33547778 TCTGGGACATGGAATCGGTATTGAGATGAAA
64 TCTGGGACATGGAATCGGCATCGACATGAAA
*
33547809 GCTAGTGTAAGACCATGTACTGGACATGGCATCGCCAT-TGAGATAAGAGCTAGCGTAAGACAAT
1 GCTAGTGTAAGACCATGT-CTGGACATGGCATCGCCATAT--GATAAGAGCCAGCGTAAGACAAT
* * **
33547873 GTCTGGGACATGGCATCGGCCTCGACATGTGA
63 GTCTGGGACATGGAATCGGCATCGACATGAAA
* * *
33547905 GCCAGCGTAATACCATGTCTGAGACATGGCATCGCCA
1 GCTAGTGTAAGACCATGTCTG-GACATGGCATCGCCA
33547942 ATTTACCCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
94 1 0.01
95 8 0.07
96 102 0.91
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACCATGTCTGGACATGGCATCGCCATATGATAAGAGCCAGCGTAAGACAATGTC
TGGGACATGGAATCGGCATCGACATGAAA
Found at i:33559063 original size:40 final size:40
Alignment explanation
Indices: 33558987--33559210 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
33558977 CAAACCCAAG
* * *
33558987 TACCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAA
1 TACCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* *
33559026 TACCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TACCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
33559066 -AGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
1 TA-CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
33559106 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
1 TACCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
33559146 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TACCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
33559186 TGCCTTCGGGACTTAACCCGGATAT
1 TACCTTCGGGACTTAGCCCGGATAT
33559211 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.09
40 150 0.89
41 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
TACCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:33559121 original size:80 final size:80
Alignment explanation
Indices: 33558989--33559210 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
33558979 AACCCAAGTA
* * * * *
33558989 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
33559052 GTCAATAGCACAAAAG
65 ATCAATAGCACAAAAG
33559068 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
33559133 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
* *
33559148 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33559211 CATTCGAATA
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 13 0.10
80 117 0.89
81 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TCAATAGCACAAAAG
Found at i:33568789 original size:150 final size:150
Alignment explanation
Indices: 33568518--33568817 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
33568508 AAATTATTAG
33568518 CATAAAATGTTGACACAAAATAATTATAATATGCTTTAGTCCATAACATGGCCGGCCACCATCTA
1 CATAAAATGTTGACACAAAATAATTATAATATGCTTTAGTCCATAACATGGCCGGCCACCATCTA
33568583 GAATTTGGCCAATTTGACATGCAAGTACAAGCATTTCTAACATGCATCAATAGGCCACTTTAACA
66 GAATTTGGCCAATTTGACATGCAAGTACAAGCATTTCTAACATGCATCAATAGGCCACTTTAACA
33568648 TTTGCCTAGCACATTTCTAA
131 TTTGCCTAGCACATTTCTAA
33568668 CATAAAATGTTGACACAAAATAATTATAATATGCTTTAGTCCATAACATGGCCGGCCACCATCTA
1 CATAAAATGTTGACACAAAATAATTATAATATGCTTTAGTCCATAACATGGCCGGCCACCATCTA
*
33568733 GAATTTGGCCAATTTGACATGCAAGTACAAGCATTTTTAACATGCATCAATAGGCCACTTTAACA
66 GAATTTGGCCAATTTGACATGCAAGTACAAGCATTTCTAACATGCATCAATAGGCCACTTTAACA
33568798 TTTGCCTAGCACATTTCTAA
131 TTTGCCTAGCACATTTCTAA
33568818 ATTTTCTCAC
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (150 bp):
CATAAAATGTTGACACAAAATAATTATAATATGCTTTAGTCCATAACATGGCCGGCCACCATCTA
GAATTTGGCCAATTTGACATGCAAGTACAAGCATTTCTAACATGCATCAATAGGCCACTTTAACA
TTTGCCTAGCACATTTCTAA
Found at i:33569926 original size:45 final size:45
Alignment explanation
Indices: 33569867--33570048 Score: 170
Period size: 45 Copynumber: 4.1 Consensus size: 45
33569857 CTTGGGCCCA
* * * *
33569867 TTTACCATGGTGCCATAGCATCTTTCAACCATGGTTTTACTCATT
1 TTTATCATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
** *
33569912 TCTTAT-ATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT
1 T-TTATCATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
* * * *
33569957 TTTTTCATGGTGCCACAGCATCTTTCAACTATGGTCTTACACATT
1 TTTATCATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
** * * * * * *
33570002 TGAATCGTGATGTCATAGCGTCTTTCAGCTAT-GTTTTACTCGTT
1 TTTATCATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
33570046 TTT
1 TTT
33570049 CAACCAACAA
Statistics
Matches: 107, Mismatches: 28, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
44 13 0.12
45 91 0.85
46 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTATCATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
Found at i:33577134 original size:114 final size:114
Alignment explanation
Indices: 33576929--33577134 Score: 295
Period size: 114 Copynumber: 1.8 Consensus size: 114
33576919 AACACACTTG
* * *
33576929 AAAACGATTCACAATTGCATAAAACTGAAAGAATACTTACGCACCACAGTCCGAGCAAGTATTAC
1 AAAACGATTCACAATTCCATAAAACTGAAAGAATACTTACCCACCACAGTCCGAGCAAGGATTAC
33576994 AAAACCCAAAACACAGTGATTGAACAATAGTGTGGCGATCATAAATAAA
66 AAAACCCAAAACACAGTGATTGAACAATAGTGTGGCGATCATAAATAAA
* * ** * *
33577043 AAAATGATTCCCAATTCCATAAAACTTCAAGAATACTTACCCACCATAGTCCGAGCAGGGATTAC
1 AAAACGATTCACAATTCCATAAAACTGAAAGAATACTTACCCACCACAGTCCGAGCAAGGATTAC
** * *
33577108 GGAACCTAAAATACAGTGATTGAACAA
66 AAAACCCAAAACACAGTGATTGAACAA
33577135 CAGTATAGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 79 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (114 bp):
AAAACGATTCACAATTCCATAAAACTGAAAGAATACTTACCCACCACAGTCCGAGCAAGGATTAC
AAAACCCAAAACACAGTGATTGAACAATAGTGTGGCGATCATAAATAAA
Found at i:33580602 original size:47 final size:47
Alignment explanation
Indices: 33580533--33581378 Score: 1604
Period size: 47 Copynumber: 18.0 Consensus size: 47
33580523 TTGAATTTAG
* * * **
33580533 AGCTTGCTAAA-TTGCTCTTAATATTTGCAAATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
*
33580579 AGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580626 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580673 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580720 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580767 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580814 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580861 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580908 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33580955 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581002 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581049 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581096 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581143 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581190 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581237 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581284 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
* * *
33581331 AGCTTGTTAAATTTGCCCTTATTATTTCCAGATATGTTACTTAGTTA
1 AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
33581378 A
1 A
33581379 AGAAAATTTT
Statistics
Matches: 791, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
46 10 0.01
47 781 0.99
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (47 bp):
AGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTA
Found at i:33582265 original size:45 final size:44
Alignment explanation
Indices: 33582197--33582352 Score: 208
Period size: 45 Copynumber: 3.5 Consensus size: 44
33582187 CACAGTATTG
* * *
33582197 TTCGGGCCTTTAAGCCTAACAGGCTATAATGCCGGTGAGATACTA
1 TTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTA
33582242 TTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTA
1 TTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTA
* *
33582287 TTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCAGTGAAATGA-TA
1 TTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCAGTGAGAT-ACTA
*
33582332 TT-GGGCTTCGAGCCTAGCAGG
1 TTCGGGCTTTGAGCCTAGCAGG
33582353 TGAAATGCCG
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
43 11 0.11
44 10 0.10
45 80 0.78
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (44 bp):
TTCGGGCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGATACTA
Found at i:33583445 original size:19 final size:19
Alignment explanation
Indices: 33583409--33583445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33583399 TAACTAGGCT
* *
33583409 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
33583428 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
33583446 GAAAAATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:33583612 original size:3 final size:3
Alignment explanation
Indices: 33583597--33583656 Score: 50
Period size: 3 Copynumber: 18.7 Consensus size: 3
33583587 TATATAAATA
*
33583597 TAT TAT AAT TAT TAT TAT GGT-T TAT ATAT TAGT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT --TAT TAT -TAT TA-T TAT T-AT TAT TAT
*
33583643 TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
33583657 AATAAATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 1 0.02
3 35 0.74
4 10 0.21
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:33583813 original size:31 final size:32
Alignment explanation
Indices: 33583773--33583836 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
33583763 ATTTAGTGAA
*
33583773 AGATATTTAT-TAATTAAATA-ATTATATTATG
1 AGATATTTATGTAA-TAAATATATTAAATTATG
*
33583804 AGATTTTTATGTAATAAATATATTAAATTATG
1 AGATATTTATGTAATAAATATATTAAATTATG
33583836 A
1 A
33583837 CAAACCTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATGTAATAAATATATTAAATTATG
Found at i:33584688 original size:15 final size:14
Alignment explanation
Indices: 33584670--33584719 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
33584660 TTTATTGGAT
33584670 TTATATTGATTGAA
1 TTATATTGATTGAA
*
33584684 GTTATTTTGATTGAAA
1 -TTATATTGATTG-AA
33584700 TTATATTGATTGAA
1 TTATATTGATTGAA
33584714 TTATAT
1 TTATAT
33584720 AATATATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 8 0.25
15 22 0.69
16 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TTATATTGATTGAA
Found at i:33586221 original size:46 final size:45
Alignment explanation
Indices: 33586165--33586340 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 45
33586155 TGGTTGAGCA
33586165 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATG-GAATG
* *
33586211 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGGAA-T--G
* *
33586256 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATG-GAATG
* * *
33586304 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
33586341 GCGAGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 1 0.01
46 63 0.57
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGGAATG
Found at i:33586321 original size:93 final size:93
Alignment explanation
Indices: 33586162--33586332 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
33586152 GGATGGTTGA
* *
33586162 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
33586227 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
33586255 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
33586320 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33586333 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33593808 original size:46 final size:46
Alignment explanation
Indices: 33593758--33593930 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
33593748 TGGTTGAGCA
*
33593758 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
33593804 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
33593851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
33593897 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33593931 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:33593914 original size:93 final size:93
Alignment explanation
Indices: 33593755--33593925 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
33593745 GGATGGTTGA
* *
33593755 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
33593820 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
33593848 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
33593913 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
33593926 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33594192 original size:19 final size:20
Alignment explanation
Indices: 33594155--33594192 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33594145 ATAAGGTGGT
33594155 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
33594175 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
33594193 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:33599015 original size:30 final size:30
Alignment explanation
Indices: 33598953--33599015 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
33598943 ATCGATTTTC
* **
33598953 AAGTATAGTGGCAAAATGGTCATTTTGTCA
1 AAGTATAGGGGCAAAATGGTCATTTTACCA
*
33598983 AAGTCTAGGGGCAAAATGGTCATTTTACCA
1 AAGTATAGGGGCAAAATGGTCATTTTACCA
33599013 AAG
1 AAG
33599016 ATGTGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (30 bp):
AAGTATAGGGGCAAAATGGTCATTTTACCA
Found at i:33599428 original size:47 final size:46
Alignment explanation
Indices: 33599355--33599716 Score: 197
Period size: 47 Copynumber: 7.7 Consensus size: 46
33599345 TGATTTGTGT
* *
33599355 GCCAGTGTAAGACATGTCTGGAACATGCCTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* * * *
33599401 GCCAGTGTAATACCATGTCTGGGACATGGCATCGG-CATC-TAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAT-TATGAGA
* * * * * * *
33599449 GCTAGTGTAAGACATGTCTGTGACATGCGT-AGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* * ** *
33599494 ACCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TTATGAGA
* * * * *
33599542 GCCAGTGTGAGACATGTCTGGGACATACACCGGCCTCGACA-GA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGA
* * * * *
33599589 GCCAGTGTAAGACGTGT-TGGGGACACGCATCGGCTA-A-TA-GTTGT
1 GCCAGTGTAAGACATGTCT-GGGACATGCATCGGCCACATTATG-AGA
* * * *
33599633 GCTAGTGTAAAACATGTCTGGGACATGCATCAG-CATGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCA--CAT-TATGAGA
*
33599681 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33599717 ATTATATCCC
Statistics
Matches: 235, Mismatches: 55, Indels: 47
0.70 0.16 0.14
Matches are distributed among these distances:
43 4 0.02
44 27 0.11
45 15 0.06
46 34 0.14
47 79 0.34
48 51 0.22
49 16 0.07
50 9 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:33599518 original size:93 final size:93
Alignment explanation
Indices: 33599355--33599567 Score: 259
Period size: 93 Copynumber: 2.3 Consensus size: 93
33599345 TGATTTGTGT
* * * *
33599355 GCCAGTGTAAGACATGTCTGGAACATGCCTCGGCCACATTATGAGAGCCAGTGTAATACCATGTC
1 GCCAGTGTAAGACATGTCTGG-ACATGCCTCAGCCACACTATGAGAACCAGTGTAAGACCATGTC
* *
33599420 TGGGACATGGCATCGGCATC-TAGACGAGG
65 TGGGACATGGCATCGACA-CAGAGACGAGG
* * * *
33599449 GCTAGTGTAAGACATGTCTGTGACATGCGT-AGCCATACTATGATAACCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTG-GACATGCCTCAGCCACACTATGAGAACCAGTGTAAGACCATGTC
* *
33599513 TGGGACATGGCATCGACACAGAGATGAGT
65 TGGGACATGGCATCGACACAGAGACGAGG
*
33599542 GCCAGTGTGAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCT-GGACAT
33599568 ACACCGGCCT
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 1 0.01
93 73 0.72
94 27 0.26
95 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGACATGCCTCAGCCACACTATGAGAACCAGTGTAAGACCATGTCT
GGGACATGGCATCGACACAGAGACGAGG
Found at i:33601902 original size:21 final size:21
Alignment explanation
Indices: 33601886--33601926 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33601876 TATCAAACTG
33601886 AGCCAAACCCAAGTCAAAATA
1 AGCCAAACCCAAGTCAAAATA
* *
33601907 AGCCAAACCTAAGTTAAAAT
1 AGCCAAACCCAAGTCAAAAT
33601927 GCAAGTGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.15
Consensus pattern (21 bp):
AGCCAAACCCAAGTCAAAATA
Found at i:33607318 original size:50 final size:50
Alignment explanation
Indices: 33607247--33607352 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
33607237 TAAAAAGACC
*
33607247 ACTTTCCACTTCCTTTCATTGATCAAATGTTAGAATGTTTAGCGGGAAAA
1 ACTTACCACTTCCTTTCATTGATCAAATGTTAGAATGTTTAGCGGGAAAA
*
33607297 ACTTACCACTTCCTTTCATTGATCAAATGTTAGAATGTTTAGTGGGAAAA
1 ACTTACCACTTCCTTTCATTGATCAAATGTTAGAATGTTTAGCGGGAAAA
33607347 ACTTAC
1 ACTTAC
33607353 TACTATTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (50 bp):
ACTTACCACTTCCTTTCATTGATCAAATGTTAGAATGTTTAGCGGGAAAA
Found at i:33610657 original size:22 final size:22
Alignment explanation
Indices: 33610613--33610657 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33610603 AAGCACCAAC
* *
33610613 GTTGCTGTTGCACATCGCTATT
1 GTTGCTGTCGCACATCGCCATT
*
33610635 GTTGCTGTCGCACATTGCCATT
1 GTTGCTGTCGCACATCGCCATT
33610657 G
1 G
33610658 CTGTCGCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.38
Consensus pattern (22 bp):
GTTGCTGTCGCACATCGCCATT
Found at i:33610675 original size:19 final size:19
Alignment explanation
Indices: 33610636--33610677 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33610626 ATCGCTATTG
*
33610636 TTGCTGTCGCACATTGCCA
1 TTGCTGTCGCACACTGCCA
* *
33610655 TTGCTGTCGCACGCTGTCA
1 TTGCTGTCGCACACTGCCA
33610674 TTGC
1 TTGC
33610678 CACCACACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.33
Consensus pattern (19 bp):
TTGCTGTCGCACACTGCCA
Found at i:33618124 original size:66 final size:66
Alignment explanation
Indices: 33618032--33618188 Score: 208
Period size: 66 Copynumber: 2.4 Consensus size: 66
33618022 CCCCAAACAT
* * * * *
33618032 GCCTGTGT-CTCAGGCCATGTGGAAACAGTGCATACATACTGACTTGTATCACACGGTCGAGGAC
1 GCCTGTGTGC-CAGGCCATGTGAAAACAGGGCATACATACTGAATTGTATCACACGGCCAAGGAC
33618096 AC
65 AC
* * *
33618098 GCCTGTGTGCCAGGCCGTGTAAAAACAGGGCATACATACTGAATTTTATCACACGGCCAAGGACA
1 GCCTGTGTGCCAGGCCATGTGAAAACAGGGCATACATACTGAATTGTATCACACGGCCAAGGACA
33618163 C
66 C
* *
33618164 GCCCGTATGCCAGGCCATGTGAAAA
1 GCCTGTGTGCCAGGCCATGTGAAAA
33618189 TTGGAGGGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 77 0.99
67 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.20
Consensus pattern (66 bp):
GCCTGTGTGCCAGGCCATGTGAAAACAGGGCATACATACTGAATTGTATCACACGGCCAAGGACA
C
Found at i:33622549 original size:19 final size:19
Alignment explanation
Indices: 33622510--33622549 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33622500 ATGAAATTTT
*
33622510 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGAAAA
* *
33622529 AATTATTATTATTAGAAAA
1 AATTAGTATTATGAGAAAA
33622548 AA
1 AA
33622550 ATTACTCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATTAGTATTATGAGAAAA
Found at i:33622663 original size:15 final size:14
Alignment explanation
Indices: 33622639--33622670 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
33622629 TTAGATATAT
33622639 TTATAAAATTATTA
1 TTATAAAATTATTA
33622653 TTATAATAATTATTA
1 TTATAA-AATTATTA
33622668 TTA
1 TTA
33622671 GATATGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAAATTATTA
Found at i:33622728 original size:15 final size:15
Alignment explanation
Indices: 33622710--33622742 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33622700 TTTATAAAAG
33622710 TTATAATAATTATTA
1 TTATAATAATTATTA
*
33622725 TTATAATTATTATTA
1 TTATAATAATTATTA
33622740 TTA
1 TTA
33622743 GATAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATAATTATTA
Found at i:33622738 original size:12 final size:12
Alignment explanation
Indices: 33622710--33622740 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33622700 TTTATAAAAG
*
33622710 TTATAATAATTA
1 TTATTATAATTA
33622722 TTATTATAATTA
1 TTATTATAATTA
33622734 TTATTAT
1 TTATTAT
33622741 TAGATAGGAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:33629329 original size:13 final size:13
Alignment explanation
Indices: 33629311--33629353 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33629301 GATTTTAAAT
33629311 TATTTAGTGATAA
1 TATTTAGTGATAA
33629324 TATTTAG-GAT--
1 TATTTAGTGATAA
*
33629334 TATTTAGTGACAA
1 TATTTAGTGATAA
33629347 TATTTAG
1 TATTTAG
33629354 GAAAATATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:33629335 original size:23 final size:23
Alignment explanation
Indices: 33629309--33629355 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33629299 TTGATTTTAA
*
33629309 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGACAATATTTAGG
33629332 ATTATTTAGTGACAATATTTAGG
1 ATTATTTAGTGACAATATTTAGG
33629355 A
1 A
33629356 AAATATAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (23 bp):
ATTATTTAGTGACAATATTTAGG
Found at i:33630309 original size:28 final size:29
Alignment explanation
Indices: 33630255--33630322 Score: 111
Period size: 28 Copynumber: 2.3 Consensus size: 29
33630245 GAATTTGTTT
33630255 TTATTTTATTTTATTACACTTTGTATTTCC
1 TTATTTTA-TTTATTACACTTTGTATTTCC
*
33630285 TTATTTTATTT-TTACACTTTTTATTTCC
1 TTATTTTATTTATTACACTTTGTATTTCC
33630313 TTATTTTATT
1 TTATTTTATT
33630323 ATCTTAATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 26 0.70
29 3 0.08
30 8 0.22
ACGTcount: A:0.19, C:0.12, G:0.01, T:0.68
Consensus pattern (29 bp):
TTATTTTATTTATTACACTTTGTATTTCC
Found at i:33636042 original size:16 final size:16
Alignment explanation
Indices: 33636021--33636055 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33636011 TGTTGTTTGT
33636021 ACTTTAAAATAAGCCA
1 ACTTTAAAATAAGCCA
33636037 ACTTTAAAATAAGCCA
1 ACTTTAAAATAAGCCA
33636053 ACT
1 ACT
33636056 AAACAAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (16 bp):
ACTTTAAAATAAGCCA
Found at i:33638569 original size:25 final size:25
Alignment explanation
Indices: 33638537--33638591 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
33638527 TTTTTCAAAT
33638537 ATATATTATTTTAA-AAATTATAAA-A
1 ATATATTA-TTTAATAAATT-TAAAGA
33638562 ATATATTATTTAATAAATTTAAAGA
1 ATATATTATTTAATAAATTTAAAGA
33638587 ATATA
1 ATATA
33638592 CACGTAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
ATATATTATTTAATAAATTTAAAGA
Found at i:33639325 original size:11 final size:11
Alignment explanation
Indices: 33639309--33639368 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
33639299 TTGAATAATG
33639309 AATTAAAAATT
1 AATTAAAAATT
33639320 AATT-AAAA-T
1 AATTAAAAATT
33639329 AATTAAAAATAT
1 AATTAAAAAT-T
*
33639341 ATTATTTAAAAACT
1 A--A-TTAAAAATT
33639355 AATTAAAAAGTT
1 AATTAAAAA-TT
33639367 AA
1 AA
33639369 AAGTGAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 11 0.28
12 6 0.15
14 3 0.08
15 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
AATTAAAAATT
Found at i:33651435 original size:18 final size:18
Alignment explanation
Indices: 33651389--33651431 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
33651379 GGCCCAGAAT
33651389 CCCACACGCCCGTATGGA
1 CCCACACGCCCGTATGGA
* *
33651407 CTCACATGCCCGTATGG-
1 CCCACACGCCCGTATGGA
33651424 CCCACACG
1 CCCACACG
33651432 GCCCAAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTATGGA
Found at i:33659451 original size:13 final size:13
Alignment explanation
Indices: 33659433--33659458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33659423 TTGAGCAAGC
33659433 GTAAGGCTTAAGT
1 GTAAGGCTTAAGT
33659446 GTAAGGCTTAAGT
1 GTAAGGCTTAAGT
33659459 TAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
GTAAGGCTTAAGT
Found at i:33677508 original size:17 final size:17
Alignment explanation
Indices: 33677486--33677528 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
33677476 TTAATTGGTA
33677486 TATATATTTTGAAATT-T
1 TATATATTTTG-AATTAT
*
33677503 TATATATTTAGAATTAT
1 TATATATTTTGAATTAT
33677520 T-TATATTTT
1 TATATATTTT
33677529 ATATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATATTTTGAATTAT
Found at i:33677575 original size:18 final size:18
Alignment explanation
Indices: 33677527--33677578 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
33677517 TATTTATATT
33677527 TTATATAATTTATTAAAAA
1 TTATATAATTT-TTAAAAA
* * *
33677546 -AATAGAAATTTTAAAAA
1 TTATATAATTTTTAAAAA
33677563 TTATATAATTTTTAAA
1 TTATATAATTTTTAAA
33677579 CTTTTTTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTATATAATTTTTAAAAA
Found at i:33678010 original size:22 final size:23
Alignment explanation
Indices: 33677970--33678015 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
33677960 ACCCCAATAT
*
33677970 TTTAAATGATTTAAATTTTTTTA
1 TTTAAAAGATTTAAATTTTTTTA
33677993 TTTAAAAG-TTT-AATTTTTTTA
1 TTTAAAAGATTTAAATTTTTTTA
33678014 TT
1 TT
33678016 CAAACTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTAAAAGATTTAAATTTTTTTA
Found at i:33687417 original size:42 final size:42
Alignment explanation
Indices: 33687366--33687448 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
33687356 CAAGGACAAG
*
33687366 TTTTATATGCATAATCAAAACCATTATTATTCAAATGACCTA
1 TTTTATATGCATAATCAAAACCATTATCATTCAAATGACCTA
33687408 TTTTATATGCATAATCAAAACCATTATCATTCAAATGACCT
1 TTTTATATGCATAATCAAAACCATTATCATTCAAATGACCT
33687449 TTATACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (42 bp):
TTTTATATGCATAATCAAAACCATTATCATTCAAATGACCTA
Found at i:33689855 original size:9 final size:10
Alignment explanation
Indices: 33689840--33689865 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33689830 CTTATTTTTT
33689840 CATTTTTTCA
1 CATTTTTTCA
33689850 CATTTTTTCA
1 CATTTTTTCA
33689860 CATTTT
1 CATTTT
33689866 AACCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (10 bp):
CATTTTTTCA
Found at i:33690880 original size:22 final size:22
Alignment explanation
Indices: 33690855--33690902 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
33690845 AACGCTTTAA
33690855 AGTAGGCACCAAAGTGCAAATC
1 AGTAGGCACCAAAGTGCAAATC
* *
33690877 AGTAGGCACCATAGTGTAAATC
1 AGTAGGCACCAAAGTGCAAATC
33690899 AGTA
1 AGTA
33690903 TATATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (22 bp):
AGTAGGCACCAAAGTGCAAATC
Found at i:33696546 original size:6 final size:6
Alignment explanation
Indices: 33696527--33696591 Score: 66
Period size: 6 Copynumber: 11.5 Consensus size: 6
33696517 TTATTTTATC
** * *
33696527 AAAATA AATTTA AAAATA AAAA-A CAAA-A AACA-A AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
33696572 AAAATA AAAATA AAAA-A AAA
1 AAAATA AAAATA AAAATA AAA
33696592 CCTGAACCGA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
5 15 0.30
6 35 0.70
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:33696574 original size:33 final size:34
Alignment explanation
Indices: 33696527--33696590 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
33696517 TTATTTTATC
** *
33696527 AAAATAAATTTAAAAATAAAAA-ACAAAAAACAA
1 AAAATAAAAATAAAAATAAAAATAAAAAAAACAA
33696560 AAAATAAAAATAAAAATAAAAATAAAAAAAA
1 AAAATAAAAATAAAAATAAAAATAAAAAAAA
33696591 ACCTGAACCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (34 bp):
AAAATAAAAATAAAAATAAAAATAAAAAAAACAA
Found at i:33696575 original size:7 final size:7
Alignment explanation
Indices: 33696538--33696588 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
33696528 AAATAAATTT
33696538 AAAAATA
1 AAAAATA
*
33696545 AAAAACA
1 AAAAATA
*
33696552 AAAAACA
1 AAAAATA
33696559 AAAAAT-
1 AAAAATA
33696565 AAAAAT-
1 AAAAATA
33696571 AAAAAT-
1 AAAAATA
33696577 AAAAATA
1 AAAAATA
33696584 AAAAA
1 AAAAA
33696589 AAACCTGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 18 0.44
7 23 0.56
ACGTcount: A:0.86, C:0.04, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAAATA
Found at i:33696917 original size:35 final size:36
Alignment explanation
Indices: 33696850--33696920 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
33696840 CAATGATATG
33696850 CAATCTTAGATATGATATGCAATCTTAAATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAATATGATA
*
33696886 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAATATGATA
33696921 TGCAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAAATATGATA
Found at i:33696939 original size:17 final size:19
Alignment explanation
Indices: 33696842--33696932 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
33696832 ATAATCTTCA
33696842 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
33696861 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
33696880 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33696897 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
33696915 ATGATATGCAATTTTAGA
1 ATGATATGCAATCTTAGA
33696933 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33699314 original size:18 final size:19
Alignment explanation
Indices: 33699281--33699333 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
33699271 AATCTTCAAG
33699281 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33699300 GATATGTAA-CTTAGATAT
1 GATATGCAATCTTAGATAT
*
33699318 GATATGCAATTTTAGA
1 GATATGCAATCTTAGA
33699334 AGATATGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33699643 original size:18 final size:17
Alignment explanation
Indices: 33699620--33699653 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33699610 TTTCCCTAAT
*
33699620 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
33699638 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
33699654 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:33709094 original size:111 final size:111
Alignment explanation
Indices: 33708900--33709121 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
33708890 GTATAAAGGG
* *
33708900 TGGTTTAGTAGGAGAGTCAATGATAATGTCCCTAGGCCAATTTTGGGAGTGGCTCGATCATTAGA
1 TGGTTTAGTAGGAAAGTCAATCATAATGTCCCTAGGCCAATTTTGGGAGTGGCTCGATCATTAGA
*
33708965 GGAGAGCTTACGAATGATTCCATCAGAGTTGGAGGTTATGAAGCAA
66 GGAGAACTTACGAATGATTCCATCAGAGTTGGAGGTTATGAAGCAA
*
33709011 TGGTTTAGTATGAAAGTCAA-CACTAATGTCCCTAGGCCAATTTTGGGAGTGGCTCGATCATTAG
1 TGGTTTAGTAGGAAAGTCAATCA-TAATGTCCCTAGGCCAATTTTGGGAGTGGCTCGATCATTAG
*
33709075 AGGAGAACTTACGAGTGATTCCATCAGAGTTGGAGGTTATGAAGCAA
65 AGGAGAACTTACGAATGATTCCATCAGAGTTGGAGGTTATGAAGCAA
33709122 GAGTTCGAGA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 1 0.01
111 104 0.99
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (111 bp):
TGGTTTAGTAGGAAAGTCAATCATAATGTCCCTAGGCCAATTTTGGGAGTGGCTCGATCATTAGA
GGAGAACTTACGAATGATTCCATCAGAGTTGGAGGTTATGAAGCAA
Found at i:33714565 original size:90 final size:88
Alignment explanation
Indices: 33714409--33714605 Score: 270
Period size: 90 Copynumber: 2.2 Consensus size: 88
33714399 NNAAGAAATA
** * *
33714409 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGT
* *
33714474 TTTCACATCGAAGTAGATCCAAGAT
66 TTACAC-T-GAAGCAGATCCAAGAT
* *
33714499 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTAACCTTCACG-TG
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATG
*
33714563 TTTACACTGAAGCAGATCTAAGAT
65 TTTACACTGAAGCAGATCCAAGAT
*
33714587 TATTTGGCATCTCTGTATT
1 GATTTGGCATCTCTGTATT
33714606 GTCAGAGAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 32 0.33
89 1 0.01
90 62 0.65
91 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (88 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGT
TTACACTGAAGCAGATCCAAGAT
Found at i:33714864 original size:220 final size:221
Alignment explanation
Indices: 33714401--33714987 Score: 824
Period size: 220 Copynumber: 2.7 Consensus size: 221
33714391 NNNNNNNNNN
33714401 AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCT
1 AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCT
* * **
33714466 TCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAG
66 TCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTCTGCATTAGACAAGGAGTAG
* *
33714531 ATCGAAGACATAGCAGATCTAACCTTCACGTGTTTACACTGAAGCAGATCTAAGATTATTTGGCA
131 ATCGAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCTAAGATGATTTGGCA
*
33714596 TCTCTGTATTGTCAGAGAACAAATCG
196 TCTCTGTACTGTCAGAGAACAAATCG
* * *
33714622 AAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAACACATAGCAGATCTAACCT
1 AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCT
*
33714687 TCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATC-CTTGCGTT-GACAAGGAGTA
66 TCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTC-TGCATTAGACAAGGAGTA
* * ** * **
33714750 GATCGAAGGCATAGCAGATTTGGCTTTCACATGTTTATGCTGAAGCAGATCTAAGATGATTTGGC
130 GATCGAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCTAAGATGATTTGGC
33714815 ATCTCTGTACTGTCAGAGAACAAATCG
195 ATCTCTGTACTGTCAGAGAACAAATCG
*
33714842 AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCT
1 AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCT
* * * *
33714907 TC--A-----T----T-GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAG
66 TCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTCTGCATTAGACAAGGAGTAG
* * * *
33714960 ATCGAAGACACAACAGATATGACCTTCA
131 ATCGAAGACATAGCAGATCTAACCTTCA
33714988 TTGAAGCAGA
Statistics
Matches: 330, Mismatches: 33, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
208 30 0.09
209 34 0.10
213 1 0.00
218 1 0.00
220 155 0.47
221 109 0.33
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (221 bp):
AAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCT
TCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCTCTGCATTAGACAAGGAGTAG
ATCGAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCTAAGATGATTTGGCA
TCTCTGTACTGTCAGAGAACAAATCG
Found at i:33714960 original size:78 final size:78
Alignment explanation
Indices: 33714850--33715378 Score: 812
Period size: 78 Copynumber: 6.8 Consensus size: 78
33714840 CGAAGAAATA
** * *
33714850 GATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGG-GAGCAGATCGAAGACATAACAGATCTGACCTTCATTGA
33714914 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
33714928 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATATGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33714993 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
33715006 GATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
33715070 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
33715084 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33715149 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
33715162 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATATGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
33715227 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
33715240 GATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
33715304 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
33715318 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
33715379 GTGTTTACAT
Statistics
Matches: 412, Mismatches: 34, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
77 2 0.00
78 406 0.99
79 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:33715259 original size:234 final size:234
Alignment explanation
Indices: 33714850--33715378 Score: 1004
Period size: 234 Copynumber: 2.3 Consensus size: 234
33714840 CGAAGAAATA
** * *
33714850 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
33714915 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATAT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATAT
33714980 GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAG
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAG
33715045 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
196 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
33715084 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
33715149 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATAT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATAT
33715214 GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAG
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAG
33715279 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
196 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
* *
33715318 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
33715379 GTGTTTACAT
Statistics
Matches: 289, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 289 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (234 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATAT
GACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTTTGTACTAGACGGGGAGCAGATTGAAG
ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
Found at i:33715471 original size:45 final size:46
Alignment explanation
Indices: 33715401--33715592 Score: 223
Period size: 45 Copynumber: 4.3 Consensus size: 46
33715391 AAGCAGATCC
* *
33715401 AAGATGACAGATTTGGCATCTCTGTATTAAATGGGGAGCAAATCAG
1 AAGATAACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCAG
* * *
33715447 -AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAAGCAGAT-TG
1 AAGATAACAGATTTGGCATCTCTGTATTAAACGGGG-AGCAAATCAG
* ** *
33715492 AAGA-AGCAGATTTGGTGTCTCTGTATTAAACGGGGAGCAGATC-G
1 AAGATAACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCAG
* * *
33715536 AAGATAACAGATTTGGCGTCTCTGTATTAGACGGGAAGCAAATCA-
1 AAGATAACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCAG
*
33715581 AAGATAGCAGAT
1 AAGATAACAGAT
33715593 ATCGCCTTGC
Statistics
Matches: 126, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.10
45 105 0.83
46 9 0.07
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (46 bp):
AAGATAACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCAG
Found at i:33715521 original size:90 final size:90
Alignment explanation
Indices: 33715390--33715592 Score: 268
Period size: 90 Copynumber: 2.3 Consensus size: 90
33715380 TGTTTACATC
* *
33715390 GAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAAATGGGGAGCAAATC-AGAGATAAC
1 GAAGCAGATCCAAGAAGACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCGA-AGATAAC
33715454 AGATTTGGCATCTCTGTATTAGACGGG
65 AGATTTGGCATCTCTGTATTAGAC-GG
** ** *
33715481 GAAGCAGATTGAAGAAG-CAGATTTGGTGTCTCTGTATTAAACGGGGAGCAGATCGAAGATAACA
1 GAAGCAGATCCAAGAAGACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCGAAGATAACA
*
33715545 GATTTGGCGTCTCTGTATTAGACGG
66 GATTTGGCATCTCTGTATTAGACGG
* *
33715570 GAAGCAAATCAAAGATAG-CAGAT
1 GAAGCAGATCCAAGA-AGACAGAT
33715593 ATCGCCTTGC
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
89 14 0.14
90 70 0.71
91 15 0.15
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (90 bp):
GAAGCAGATCCAAGAAGACAGATTTGGCATCTCTGTATTAAACGGGGAGCAAATCGAAGATAACA
GATTTGGCATCTCTGTATTAGACGG
Found at i:33716014 original size:35 final size:37
Alignment explanation
Indices: 33715943--33716040 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
33715933 ATAATCTTCA
33715943 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
33715981 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
33716016 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
33716041 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:33716040 original size:17 final size:19
Alignment explanation
Indices: 33715943--33716033 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
33715933 ATAATCTTCA
33715943 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33715962 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33715981 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33715998 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33716016 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
33716034 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33716059 original size:22 final size:22
Alignment explanation
Indices: 33715943--33716056 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
33715933 ATAATCTTCA
33715943 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
33715962 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
33715981 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
33715998 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
33716016 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
33716038 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
33716057 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:33716346 original size:18 final size:17
Alignment explanation
Indices: 33716323--33716356 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33716313 TTTCCCTAAT
*
33716323 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
33716341 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
33716357 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:33729191 original size:81 final size:81
Alignment explanation
Indices: 33729056--33729218 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
33729046 ATTCCCATTA
*
33729056 CAAAACTTATCATTTAACACTTAAGCATAATCAAACATGTATCAGCAAATAACAAAACAGAGCAT
1 CAAAACTTATCATTTAACACTTAAGCATAATCAAACATGTATAAGCAAATAACAAAACAGAGCAT
*
33729121 GTGATAGAATATCTAT
66 GTGATAAAATATCTAT
*
33729137 CAAAACTTATCATTTAACACTTAAGCATAATCAAACATGTATAAGCAAATAACAAAATAGAGCAT
1 CAAAACTTATCATTTAACACTTAAGCATAATCAAACATGTATAAGCAAATAACAAAACAGAGCAT
33729202 GTGATAAAATATCTAT
66 GTGATAAAATATCTAT
33729218 C
1 C
33729219 TTATTAGTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (81 bp):
CAAAACTTATCATTTAACACTTAAGCATAATCAAACATGTATAAGCAAATAACAAAACAGAGCAT
GTGATAAAATATCTAT
Found at i:33732173 original size:95 final size:94
Alignment explanation
Indices: 33732008--33732181 Score: 249
Period size: 95 Copynumber: 1.8 Consensus size: 94
33731998 ACTTGTGTGA
* * *
33732008 GCTAGAGTAAGACATGTCTGGGACATGCGTTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGAGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTC
33732073 TGGGACATGGCATCAGCATTGAGACTAGT
66 TGGGACATGGCATCAGCATTGAGACTAGT
* * ** * **
33732102 GCTAGAGTGAGACGTGTCTGGGACATGCATCGGCTTCGATAATGATAGTTAGTGTAAGACCATGT
1 GCTAGAGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAGTGTAAGACCATGT
33732167 CTGGGACATGGCATC
65 CTGGGACATGGCATC
33732182 GACTTGAGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
94 31 0.45
95 38 0.55
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGAGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATTGAGACTAGT
Found at i:33732214 original size:47 final size:46
Alignment explanation
Indices: 33732053--33732231 Score: 150
Period size: 47 Copynumber: 3.8 Consensus size: 46
33732043 ACATTATGAG
33732053 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGACTAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGA-T-GT
* * * * * *
33732102 -GCTAGAGTGAGA-CGTGTCTGGGACAT-GCATCGGCTTCGATAATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTT-GA-GATG-T
**
33732148 AGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
* ** *
33732194 GAGCCAGTGTAAGACTATGTCCAGGACATAGCATCGAC
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
33732232 ACCTTACCCC
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
45 3 0.03
46 11 0.11
47 57 0.55
48 24 0.23
49 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT
Found at i:33732221 original size:95 final size:96
Alignment explanation
Indices: 33732057--33732229 Score: 221
Period size: 95 Copynumber: 1.8 Consensus size: 96
33732047 TATGAGAGCC
* * * **
33732057 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACTAGTGCTAGAGTGAGACGTGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACTAGTGCCAGAGTAAGACATGTCCA
33732122 GGACAT-GCATCGGCTTCGATAATGATAGTT
66 GGACATAGCATCGGCTTCGATAATGATAGTT
*
33732152 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAGA-T-GTGAGCCAGTGTAAGACTATG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA-TTGAGACTAGT--GCCAGAGTAAGAC-ATG
33732213 TCCAGGACATAGCATCG
62 TCCAGGACATAGCATCG
33732230 ACACCTTACC
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
92 2 0.03
93 2 0.03
94 17 0.25
95 40 0.60
96 6 0.09
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACTAGTGCCAGAGTAAGACATGTCCA
GGACATAGCATCGGCTTCGATAATGATAGTT
Found at i:33733841 original size:42 final size:42
Alignment explanation
Indices: 33733750--33733899 Score: 176
Period size: 42 Copynumber: 3.5 Consensus size: 42
33733740 GTCCTAGGCG
* * * * *
33733750 TGGTCTTACATGTAATCACATATCGGTACC-ACTGTCCCAGATA
1 TGGTCTTACACGAAATCACATAT-GATGCCGA-TGTCCCAGACA
* * *
33733793 GGGTCTTACACGAAATCACATATGATGCCGATGTCCTAGGCA
1 TGGTCTTACACGAAATCACATATGATGCCGATGTCCCAGACA
* *
33733835 TGGTCTTACACGAAGTCACATACGATGCCGATGTCCCAGACA
1 TGGTCTTACACGAAATCACATATGATGCCGATGTCCCAGACA
*
33733877 TGGTCTTACATGAAATCACATAT
1 TGGTCTTACACGAAATCACATAT
33733900 AAGAATCCTA
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 69 0.77
43 21 0.23
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
TGGTCTTACACGAAATCACATATGATGCCGATGTCCCAGACA
Found at i:33739229 original size:22 final size:25
Alignment explanation
Indices: 33739204--33739251 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
33739194 GAAATACATT
*
33739204 AGTGAAA-GA-TTCTTGG-ACTCAA
1 AGTGAAAGGAGTTCCTGGAACTCAA
33739226 AGTGAAAGGAGTTCCTGGAACTCAA
1 AGTGAAAGGAGTTCCTGGAACTCAA
33739251 A
1 A
33739252 CAAGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 6 0.27
25 7 0.32
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (25 bp):
AGTGAAAGGAGTTCCTGGAACTCAA
Found at i:33744851 original size:101 final size:101
Alignment explanation
Indices: 33744718--33744915 Score: 297
Period size: 101 Copynumber: 2.0 Consensus size: 101
33744708 TAGGGTCTGA
* * * *
33744718 ATTTAGCCTTGACTGGTAATTCAGATCCGAGCTCATTATAGGTGTTTGTCGTTACAAGGGATTTA
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTACAGGTGTTTGTCGCTACAAGGGATTCA
* * *
33744783 GCCTAGATTGGTAATCCAGACATCACCTTATGGGGG
66 GACTAGACTGGTAATCCAGACATCACCCTATGGGGG
* * *
33744819 ATTTAGCCTGGACTGGTAATTCAGATCTGAGCTCATTACGGGTGTTTGTTGCTACAAGGGATTCA
1 ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTACAGGTGTTTGTCGCTACAAGGGATTCA
*
33744884 GACTAGACTGGTAATCCTGACATCACCCTATG
66 GACTAGACTGGTAATCCAGACATCACCCTATG
33744916 AGTTGATATT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (101 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTACAGGTGTTTGTCGCTACAAGGGATTCA
GACTAGACTGGTAATCCAGACATCACCCTATGGGGG
Found at i:33747902 original size:17 final size:17
Alignment explanation
Indices: 33747880--33747940 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
33747870 TTTGATTGCC
33747880 TAATTAAATTAATTCTA
1 TAATTAAATTAATTCTA
*
33747897 TAATTAATTTAATTC--
1 TAATTAAATTAATTCTA
33747912 --ATT-AATTAATTCTA
1 TAATTAAATTAATTCTA
*
33747926 TAATTAATTTAATTC
1 TAATTAAATTAATTC
33747941 ATGTGACAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
16 3 0.08
17 22 0.61
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAATTAATTCTA
Found at i:33747919 original size:29 final size:29
Alignment explanation
Indices: 33747886--33747942 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
33747876 TGCCTAATTA
33747886 AATTAATTCTATAATTAATTTAATTCATT
1 AATTAATTCTATAATTAATTTAATTCATT
33747915 AATTAATTCTATAATTAATTTAATTCAT
1 AATTAATTCTATAATTAATTTAATTCAT
33747943 GTGACAGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
AATTAATTCTATAATTAATTTAATTCATT
Found at i:33758624 original size:13 final size:15
Alignment explanation
Indices: 33758595--33758626 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
33758585 GAGAAAGGTT
33758595 GATTCAGAGGCAAGA
1 GATTCAGAGGCAAGA
33758610 GATTC-GAGG-AAGA
1 GATTCAGAGGCAAGA
33758623 GATT
1 GATT
33758627 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (15 bp):
GATTCAGAGGCAAGA
Found at i:33761150 original size:26 final size:26
Alignment explanation
Indices: 33761121--33761239 Score: 114
Period size: 26 Copynumber: 4.5 Consensus size: 26
33761111 ATAAAAGATC
*
33761121 TAAAATAAATAATAAATGAAACAGCT
1 TAAAATAAATAATAAATAAAACAGCT
* * * *
33761147 TAAAGTAAATAATATAAAAAAAATAGTT
1 TAAAATAAAT-A-ATAAATAAAACAGCT
* * * *
33761175 TCAAATAAATAATATATAAAAAAACT
1 TAAAATAAATAATAAATAAAACAGCT
* *
33761201 TAAAATAAATAA-CAATAAAGCAGCT
1 TAAAATAAATAATAAATAAAACAGCT
33761226 TAAAATAAATAATA
1 TAAAATAAATAATA
33761240 TAAAAATTTT
Statistics
Matches: 71, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
25 20 0.28
26 30 0.42
27 2 0.03
28 19 0.27
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.25
Consensus pattern (26 bp):
TAAAATAAATAATAAATAAAACAGCT
Found at i:33761358 original size:26 final size:26
Alignment explanation
Indices: 33761315--33761365 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
33761305 ATAGAAAATA
33761315 TATAGAATAGTTTAAAATAAATAATG
1 TATAGAATAGTTTAAAATAAATAATG
*
33761341 TATAGAAATA-TTTGAAATAAATAAT
1 TATAG-AATAGTTTAAAATAAATAAT
33761366 ATACAAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (26 bp):
TATAGAATAGTTTAAAATAAATAATG
Found at i:33761384 original size:26 final size:26
Alignment explanation
Indices: 33761355--33761421 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
33761345 GAAATATTTG
33761355 AAATAAATAATATACAAAG-CAATCTA
1 AAATAAATAATATA-AAAGACAATCTA
* *
33761381 AAATAAATAATATATAAGACAATTTA
1 AAATAAATAATATAAAAGACAATCTA
33761407 AAAT-AAT-ATATAAAA
1 AAATAAATAATATAAAA
33761422 ATGTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.19
25 6 0.16
26 24 0.65
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (26 bp):
AAATAAATAATATAAAAGACAATCTA
Found at i:33764286 original size:23 final size:23
Alignment explanation
Indices: 33764246--33764333 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 23
33764236 AGCTTATTGT
*
33764246 TTTCAGCTC-ATTGCAGCTTACCA
1 TTTCAGCTCGATAG-AGCTTACCA
* *
33764269 TTTTAGCTCG-TATGAGC-TACTA
1 TTTCAGCTCGATA-GAGCTTACCA
*
33764291 -TTCAGGTCGATAGAGCTTACCA
1 TTTCAGCTCGATAGAGCTTACCA
33764313 TTTCAGCTC-ATTAGAGCTTAC
1 TTTCAGCTCGA-TAGAGCTTAC
33764334 TATTCATCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
21 11 0.21
22 11 0.21
23 29 0.56
24 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCGATAGAGCTTACCA
Found at i:33782565 original size:14 final size:14
Alignment explanation
Indices: 33782543--33782576 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33782533 CTTTCTCTTC
*
33782543 TCTTCCTTTATTTT
1 TCTTTCTTTATTTT
*
33782557 TCTTTCTTTCTTTT
1 TCTTTCTTTATTTT
33782571 TCTTTC
1 TCTTTC
33782577 CCTTTCTTCT
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:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (14 bp):
TCTTTCTTTATTTT
Found at i:33785073 original size:49 final size:51
Alignment explanation
Indices: 33785001--33785140 Score: 194
Period size: 49 Copynumber: 2.8 Consensus size: 51
33784991 AGCCGAAGCT
*
33785001 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
* * * *
33785050 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
* * *
33785101 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACG
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
33785141 TGACCTCACA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 40 0.50
50 1 0.01
51 39 0.49
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCACAATA
Found at i:33785130 original size:51 final size:49
Alignment explanation
Indices: 33785005--33785145 Score: 192
Period size: 51 Copynumber: 2.8 Consensus size: 49
33784995 GAAGCTATCT
* * *
33785005 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
* * **
33785054 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATAATCG
*
33785105 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
33785146 TCACAATAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 37 0.46
50 2 0.02
51 42 0.52
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
Found at i:33790828 original size:43 final size:43
Alignment explanation
Indices: 33790713--33790841 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 43
33790703 TTTGGTAATC
* * ** *
33790713 CAAAGCAATTATACT-AGCATACG-AGGTACATCATCAAATTAAT
1 CAAAGCAATTATACTGA-CACACGCA-GTGCATCATCGGATAAAT
* ** * * *
33790756 CAAAGCAATTATATTGGTACATGCCGTGCATCATTGGATAAAT
1 CAAAGCAATTATACTGACACACGCAGTGCATCATCGGATAAAT
*
33790799 CAAAGCAATTATACTGACACACGTAGTGCATCATCGGATAAAT
1 CAAAGCAATTATACTGACACACGCAGTGCATCATCGGATAAAT
33790842 TGAAGTAATC
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (43 bp):
CAAAGCAATTATACTGACACACGCAGTGCATCATCGGATAAAT
Found at i:33791840 original size:62 final size:62
Alignment explanation
Indices: 33791760--33791883 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
33791750 AAATTACAAG
* * * *
33791760 AAAAAGACCTAAATGAACTTACCAATTTTTGCCGAATGTTTTCAAAACTTCCACAAGGTTTT
1 AAAAAGACCGAAACGAACTTACCAATTTTGGCCGAATATTTTCAAAACTTCCACAAGGTTTT
*
33791822 AAAAAGACCGAAACGAACTTACCAATTTTGGCCGAATATTTTCAAAGCTTCCACAAGGTTTT
1 AAAAAGACCGAAACGAACTTACCAATTTTGGCCGAATATTTTCAAAACTTCCACAAGGTTTT
33791884 TCTTTGTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (62 bp):
AAAAAGACCGAAACGAACTTACCAATTTTGGCCGAATATTTTCAAAACTTCCACAAGGTTTT
Found at i:33794196 original size:12 final size:12
Alignment explanation
Indices: 33794179--33794204 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33794169 CATTCCGAAG
33794179 TATATATATACA
1 TATATATATACA
33794191 TATATATATACA
1 TATATATATACA
33794203 TA
1 TA
33794205 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:33794719 original size:27 final size:27
Alignment explanation
Indices: 33794688--33794865 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33794678 TAAATTGTAC
33794688 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
33794715 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33794741 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33794769 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33794797 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33794824 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33794851 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33794866 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33794802 original size:82 final size:81
Alignment explanation
Indices: 33794689--33794844 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33794679 AAATTGTACA
* *
33794689 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTA-GCACTAAGTG
33794753 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
33794770 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTG
*
33794835 TGCGAGTTGA
65 TGCGAATTGA
33794845 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33794856 original size:82 final size:81
Alignment explanation
Indices: 33794685--33794865 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
33794675 GATTAAATTG
* *
33794685 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
33794750 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
33794766 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
33794830 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33794848 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33794866 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33806854 original size:13 final size:13
Alignment explanation
Indices: 33806838--33806862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33806828 ATATAAGTTA
33806838 ATATGATAAAAAT
1 ATATGATAAAAAT
33806851 ATATGATAAAAA
1 ATATGATAAAAA
33806863 ACATTAGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
ATATGATAAAAAT
Found at i:33813831 original size:50 final size:49
Alignment explanation
Indices: 33813773--33813871 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 49
33813763 TGTCAAATGT
33813773 GGTCTCTACTATGGTAGCAGATAAGATTGTTCGAAAAGGATGTAAGAAA
1 GGTCTCTACTATGGTAGCAGATAAGATTGTTCGAAAAGGATGTAAGAAA
33813822 NGGTCTCTACTATGGTAGCAGATAAGATTGTTCGAAAAGGATGTAAGAAA
1 -GGTCTCTACTATGGTAGCAGATAAGATTGTTCGAAAAGGATGTAAGAAA
33813872 TTTCAGACCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.26
Consensus pattern (49 bp):
GGTCTCTACTATGGTAGCAGATAAGATTGTTCGAAAAGGATGTAAGAAA
Found at i:33826109 original size:32 final size:33
Alignment explanation
Indices: 33826073--33826195 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 33
33826063 TACACTTGAG
*
33826073 GTGTACAT-TCCTTTCCAAGTGGTACACACAAA
1 GTGTACATAACCTTTCCAAGTGGTACACACAAA
* ** * *
33826105 GTGTACCTTTCCTTTTCATA-TGGTATACACAAA
1 GTGTACATAACCTTTCCA-AGTGGTACACACAAA
* * *
33826138 GTATACCTAACATTTCCAAGT-GTACACACAAA
1 GTGTACATAACCTTTCCAAGTGGTACACACAAA
* *
33826170 GTGTACATAACCTTTTCAAGTCGTAC
1 GTGTACATAACCTTTCCAAGTGGTAC
33826196 CATTTGGGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
32 35 0.47
33 38 0.51
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (33 bp):
GTGTACATAACCTTTCCAAGTGGTACACACAAA
Found at i:33830559 original size:48 final size:48
Alignment explanation
Indices: 33830504--33830617 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
33830494 TATATATGTG
33830504 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
33830552 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
*
33830600 TGTGGTAAAGCCAAATGG
1 TGTGGTAAAGCCGAATGG
33830618 TGAGATATGT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
Found at i:33830625 original size:31 final size:31
Alignment explanation
Indices: 33830587--33830648 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
33830577 GAAATATGTA
33830587 TGAGATATGTATATGTGGTAAAGCCAAATGG
1 TGAGATATGTATATGTGGTAAAGCCAAATGG
*
33830618 TGAGATATGTATATGTGGTAAAGCCGAATGG
1 TGAGATATGTATATGTGGTAAAGCCAAATGG
33830649 CTAGTGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (31 bp):
TGAGATATGTATATGTGGTAAAGCCAAATGG
Found at i:33830634 original size:79 final size:79
Alignment explanation
Indices: 33830539--33830696 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
33830529 GAAATATATA
* *
33830539 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGCATATGTG
33830604 GTAAAGCCAAATGG
66 GTAAAGCCAAATGG
33830618 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGCATATGTG
1 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGCATATGTG
*
33830683 GTAAAGCCGAATGG
66 GTAAAGCCAAATGG
33830697 CTAGCGTGAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (79 bp):
TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGCATATGTG
GTAAAGCCAAATGG
Found at i:33830673 original size:48 final size:48
Alignment explanation
Indices: 33830618--33830711 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
33830608 AGCCAAATGG
* *
33830618 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAA
1 TGAGATATGCATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATGAA
33830666 TGAGATATGCATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATG
1 TGAGATATGCATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATG
33830712 TAGGAGATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
TGAGATATGCATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATGAA
Found at i:33830910 original size:37 final size:37
Alignment explanation
Indices: 33830860--33830962 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
33830850 GGAAATATAT
33830860 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
33830897 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
33830934 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
33830963 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:33833342 original size:13 final size:13
Alignment explanation
Indices: 33833326--33833383 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
33833316 TCACATTTCT
33833326 ATTTCAAGA-ATCC
1 ATTTCAA-ATATCC
33833339 ATTTCAAATATCC
1 ATTTCAAATATCC
* *
33833352 ATTTTCATATAACC
1 A-TTTCAAATATCC
**
33833366 ATTTCTTATATCC
1 ATTTCAAATATCC
33833379 ATTTC
1 ATTTC
33833384 CACAGTATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
12 1 0.03
13 27 0.69
14 11 0.28
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTTCAAATATCC
Found at i:33835555 original size:6 final size:6
Alignment explanation
Indices: 33835537--33835649 Score: 81
Period size: 6 Copynumber: 18.3 Consensus size: 6
33835527 AAGAAACATT
* *
33835537 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
33835586 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
33835636 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
33835650 GTGAGTGCAA
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 9 0.11
8 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Done.