Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 149 of 297
Found at i:51383611 original size:29 final size:30
Alignment explanation
Indices: 51383574--51383632 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
51383564 TCATAATTAT
*
51383574 ATGCTTTTAAAATAATAA-AAAATTAACAA
1 ATGCCTTTAAAATAATAAGAAAATTAACAA
51383603 ATGCCTTTAAAATAATAAGAAAATTAACAA
1 ATGCCTTTAAAATAATAAGAAAATTAACAA
51383633 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (30 bp):
ATGCCTTTAAAATAATAAGAAAATTAACAA
Found at i:51387019 original size:15 final size:13
Alignment explanation
Indices: 51386992--51387025 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
51386982 CAATTTTTCA
51386992 TATATTAATATAT
1 TATATTAATATAT
51387005 TATATTATATCATAT
1 TATATTA-AT-ATAT
51387020 TATATT
1 TATATT
51387026 TGTATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 2 0.11
15 10 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTAATATAT
Found at i:51387170 original size:56 final size:56
Alignment explanation
Indices: 51387100--51387211 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
51387090 CGATTGCATG
* *
51387100 CTTTGATAAAAATATTTATTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
1 CTTTGACAAAAATATTTACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
* *
51387156 CTTTGACAGAAATATTTACTTGGAAGGACTTATGTCCTATATTAAAATATGTAGGT
1 CTTTGACAAAAATATTTACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
51387212 GTGTTAGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (56 bp):
CTTTGACAAAAATATTTACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
Found at i:51396068 original size:16 final size:17
Alignment explanation
Indices: 51396047--51396081 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51396037 AATTTAAATA
*
51396047 AATT-AATAAATTTTTC
1 AATTAAATAAATTTCTC
51396063 AATTAAATAAATTTCTC
1 AATTAAATAAATTTCTC
51396080 AA
1 AA
51396082 CTCGATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTAAATAAATTTCTC
Found at i:51399202 original size:52 final size:49
Alignment explanation
Indices: 51399146--51399306 Score: 150
Period size: 52 Copynumber: 3.2 Consensus size: 49
51399136 TGCTCCCATA
*
51399146 TAAGACCATAGCTAGACTATGGCATCGGTGTGATAAGATATGTGCTTCTATG
1 TAAGACCATAGCTGGA-TATGGCATCGGTGTGAT--GATATGTGCTTCTATG
* * * *
51399198 TAAGACCATAGCTGGGTTATGGCATCGGTGAGATTTGATTATGTGCTTCCATA
1 TAAGACCATAGCT-GGATATGGCATCGGTGTGA--TGA-TATGTGCTTCTATG
* * *
51399251 TAAGACCAT-TCTGGGATATGGCGTC-G-GTGAT-ATATGTGCTTCTGTG
1 TAAGACCATAGCT-GGATATGGCATCGGTGTGATGATATGTGCTTCTATG
51399297 TAAGACCATA
1 TAAGACCATA
51399307 TCCATATCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
46 20 0.22
47 1 0.01
48 1 0.01
50 3 0.03
51 1 0.01
52 43 0.47
53 22 0.24
54 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (49 bp):
TAAGACCATAGCTGGATATGGCATCGGTGTGATGATATGTGCTTCTATG
Found at i:51401710 original size:2 final size:2
Alignment explanation
Indices: 51401703--51401728 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51401693 ATTTGAAATA
51401703 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
51401729 TTGCTTACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51402175 original size:31 final size:31
Alignment explanation
Indices: 51402127--51402205 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
51402117 CAAAAAAAAA
*
51402127 TTTAGGAAAA-TTCCATTTCCCCCTTGAAATT
1 TTTA-GAAAATTTTCATTTCCCCCTTGAAATT
* * * **
51402158 TTTAGAATATTTTCATTTCTCTCTTGACGTT
1 TTTAGAAAATTTTCATTTCCCCCTTGAAATT
51402189 TTTAGAAAATTTT-ATTT
1 TTTAGAAAATTTTCATTT
51402206 AGGCCCCCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 8 0.20
31 32 0.80
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (31 bp):
TTTAGAAAATTTTCATTTCCCCCTTGAAATT
Found at i:51404073 original size:84 final size:85
Alignment explanation
Indices: 51403925--51404085 Score: 238
Period size: 84 Copynumber: 1.9 Consensus size: 85
51403915 ATCCATGCAA
* * *
51403925 CATCCATCCATTCATACATACACGTACATACATTATCTTAACCGTTTCACAATAGCTCGTCGTTA
1 CATCCATCCATTCATACATACACG-ACATACATTACCCTAACCGTTTCACAATAGCTCGCCGTTA
51403990 CATAGTGTACATCCGTCCATC
65 CATAGTGTACATCCGTCCATC
*
51404011 CATCCATCCATTTATACATACAC-ACATACATTACCCTAACCGTTTCACAAT-GACT-GACCGTT
1 CATCCATCCATTCATACATACACGACATACATTACCCTAACCGTTTCACAATAG-CTCG-CCGTT
51404073 ACATAGTGTACAT
64 ACATAGTGTACAT
51404086 AAATTGAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 45 0.65
86 22 0.32
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (85 bp):
CATCCATCCATTCATACATACACGACATACATTACCCTAACCGTTTCACAATAGCTCGCCGTTAC
ATAGTGTACATCCGTCCATC
Found at i:51406298 original size:6 final size:7
Alignment explanation
Indices: 51406283--51406307 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51406273 TGATGTCATG
51406283 TTTTATT
1 TTTTATT
51406290 TTTTATT
1 TTTTATT
51406297 TTTTATT
1 TTTTATT
51406304 TTTT
1 TTTT
51406308 TTATTTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:51410432 original size:21 final size:22
Alignment explanation
Indices: 51410407--51410456 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
51410397 TTATCAATTT
51410407 TTTAAATAAAATAAAATTT-AA
1 TTTAAATAAAATAAAATTTGAA
**
51410428 TTTAAA-AAAATTCAATTTGAA
1 TTTAAATAAAATAAAATTTGAA
*
51410449 ATTAAATA
1 TTTAAATA
51410457 TTTGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 13 0.54
22 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTAAATAAAATAAAATTTGAA
Found at i:51411031 original size:28 final size:29
Alignment explanation
Indices: 51410992--51411046 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
51410982 ATGGATATTA
*
51410992 TTTTATGAATTTT-ATTTAATATTTAATT
1 TTTTATGAATTTTGATTTAAAATTTAATT
*
51411020 TTTTA-GATATTTTGTTTTAAAATTTAA
1 TTTTATGA-ATTTTGATTTAAAATTTAA
51411047 AATTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 10 0.43
29 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTTATGAATTTTGATTTAAAATTTAATT
Found at i:51415083 original size:115 final size:115
Alignment explanation
Indices: 51414881--51415089 Score: 382
Period size: 115 Copynumber: 1.8 Consensus size: 115
51414871 TGCAAAAGTT
*
51414881 TAGCTTCCTTCTCCACATATTCCGAATTCTTGCTATATTATTAGTATGAACTCTCCATAAAAAAC
1 TAGCTTCCTTCTCCACATATTCCGAATTCTTGCTATATTATAAGTATGAACTCTCCATAAAAAAC
*
51414946 ACCTTGATCTTAGCAGGCACCAATGCATAATGGCATAATGGCCGTTGTAC
66 ACCTTGATCTTAGCAGGCACCAATACATAATGGCATAATGGCCGTTGTAC
*
51414996 TAGCTTCCTTCTCCACATATTCCGAATTCTTGCTATATTATAAGTATGAATTCTCCATAAAAAAC
1 TAGCTTCCTTCTCCACATATTCCGAATTCTTGCTATATTATAAGTATGAACTCTCCATAAAAAAC
*
51415061 ACCTTGATTTTAGCAGGCACCAATACATA
66 ACCTTGATCTTAGCAGGCACCAATACATA
51415090 TCCACTTCCA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 90 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (115 bp):
TAGCTTCCTTCTCCACATATTCCGAATTCTTGCTATATTATAAGTATGAACTCTCCATAAAAAAC
ACCTTGATCTTAGCAGGCACCAATACATAATGGCATAATGGCCGTTGTAC
Found at i:51419345 original size:2 final size:2
Alignment explanation
Indices: 51419340--51419367 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51419330 TATATATACT
51419340 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
51419368 AATTTTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51420918 original size:25 final size:24
Alignment explanation
Indices: 51420882--51420956 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 24
51420872 TTTGTCTCTT
51420882 TTTTAAAACATTTAACACGTGGCA
1 TTTTAAAACATTTAACACGTGGCA
* **
51420906 TTTTATAATCATTGT-GTAC-T---A
1 TTTTA-AAACATT-TAACACGTGGCA
51420927 TCTTTAAAACATTTAACACGTGGCA
1 T-TTTAAAACATTTAACACGTGGCA
51420952 TTTTA
1 TTTTA
51420957 TAATCATTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 1 0.03
21 10 0.27
22 5 0.14
24 10 0.27
25 10 0.27
26 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTAAAACATTTAACACGTGGCA
Found at i:51420933 original size:46 final size:46
Alignment explanation
Indices: 51420883--51420975 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
51420873 TTGTCTCTTT
51420883 TTTAAAACATTTAACACGTGGCATTTTATAATCATTGTGTACTATC
1 TTTAAAACATTTAACACGTGGCATTTTATAATCATTGTGTACTATC
51420929 TTTAAAACATTTAACACGTGGCATTTTATAATCATTGTGTACTATC
1 TTTAAAACATTTAACACGTGGCATTTTATAATCATTGTGTACTATC
51420975 T
1 T
51420976 CCTTAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (46 bp):
TTTAAAACATTTAACACGTGGCATTTTATAATCATTGTGTACTATC
Found at i:51421058 original size:19 final size:20
Alignment explanation
Indices: 51421034--51421071 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51421024 AGTCCGCGTA
51421034 TTTTTA-TTTTCAAATTTTT
1 TTTTTACTTTTCAAATTTTT
*
51421053 TTTTTACTTTTTAAATTTT
1 TTTTTACTTTTCAAATTTT
51421072 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTACTTTTCAAATTTTT
Found at i:51422184 original size:31 final size:31
Alignment explanation
Indices: 51422144--51422211 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
51422134 AAAAAAAGAC
51422144 TAAA-TTACACAATGTGTAAACGTTGAGGGT
1 TAAATTTACACAATGTGTAAACGTTGAGGGT
51422174 TAAATTTACACAATGTGTAAACGTTGAGGGT
1 TAAATTTACACAATGTGTAAACGTTGAGGGT
51422205 TAAATTT
1 TAAATTT
51422212 TTAAAAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (31 bp):
TAAATTTACACAATGTGTAAACGTTGAGGGT
Found at i:51423598 original size:30 final size:30
Alignment explanation
Indices: 51423562--51423647 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
51423552 TTTAAGTAAA
51423562 ATTAAATTATATATTTATAATTTTTAAAAG
1 ATTAAATTATATATTTATAATTTTTAAAAG
* * *
51423592 ATTAAATTA-ATTTTTTTATTATTTTAAAAG
1 ATTAAATTATATATTTATAAT-TTTTAAAAG
* * *
51423622 -TAAAAGTATA-ATTTTATAATTATTAA
1 ATTAAATTATATA-TTTATAATTTTTAA
51423648 TTTAAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
29 19 0.43
30 25 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
ATTAAATTATATATTTATAATTTTTAAAAG
Found at i:51423634 original size:31 final size:32
Alignment explanation
Indices: 51423558--51423654 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 32
51423548 TTTTTTTAAG
* *
51423558 TAAAATTAAATTATATATTTATAATTTTTAAAAGA
1 TAAAATT-AATTTTATA-TTATTA-TTTTAAAAGA
*
51423593 TTAAATTAATTTT-T-TTATTATTTTAAAAG-
1 TAAAATTAATTTTATATTATTATTTTAAAAGA
*
51423622 TAAAAGTATAATTTTATAATTATTAATTTAAAA
1 TAAAA-T-TAATTTTAT-ATTATTATTTTAAAA
51423655 TTTTATAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
29 4 0.08
30 10 0.19
31 12 0.23
32 1 0.02
33 1 0.02
34 18 0.35
35 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
TAAAATTAATTTTATATTATTATTTTAAAAGA
Found at i:51428129 original size:120 final size:120
Alignment explanation
Indices: 51427974--51428840 Score: 1540
Period size: 120 Copynumber: 7.2 Consensus size: 120
51427964 TATATTTAGA
* * * * *
51427974 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGT
* *
51428039 AAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
* * *
51428095 AAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATCATATATTATGATTTGAGT
1 AAAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTCAGT
51428159 AAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
65 AAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
* *
51428215 AAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
* *
51428280 AATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
*
51428335 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
*
51428400 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTTATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
*
51428455 AAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
51428520 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
51428575 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
51428640 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
51428695 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
51428760 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
51428815 AAAATATATTTAATAATAATTATGTT
1 AAAATATATTTAATAATAATTATGTT
51428841 TAAATATGAT
Statistics
Matches: 726, Mismatches: 17, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
119 6 0.01
120 714 0.98
121 6 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
Found at i:51428204 original size:69 final size:69
Alignment explanation
Indices: 51428131--51428324 Score: 165
Period size: 57 Copynumber: 3.1 Consensus size: 69
51428121 AAATTATATT
51428131 TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTAT
51428196 TAAA
66 TAAA
** * * ** *
51428200 TTATA-TATTTTA-ATTA--AATT-A-T-ATTTAATAATAATTATGTTAA-T-TT----A---TA
1 TTATAGTATCATATATTATGATTTGAGTAAATTAAT-ATAAGAATATTAATTATTAAGAATTTTA
51428249 TT---
65 TTAAA
* *
51428251 TTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTT
1 TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTAT
51428316 TAAA
66 TAAA
51428320 TTATA
1 TTATA
51428325 TAGTTTAATT
Statistics
Matches: 88, Mismatches: 17, Indels: 40
0.61 0.12 0.28
Matches are distributed among these distances:
51 4 0.05
52 5 0.06
53 4 0.05
54 4 0.05
55 3 0.03
56 1 0.01
57 12 0.14
58 7 0.08
59 2 0.02
61 2 0.02
62 7 0.08
63 12 0.14
64 1 0.01
65 3 0.03
66 3 0.03
67 4 0.05
68 5 0.06
69 9 0.10
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (69 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTAT
TAAA
Found at i:51428217 original size:18 final size:17
Alignment explanation
Indices: 51428189--51428223 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
51428179 ATTATTAAGA
51428189 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
51428206 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
51428224 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:51428577 original size:18 final size:17
Alignment explanation
Indices: 51428549--51428583 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51428539 ATTATTAAGA
*
51428549 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51428566 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51428584 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51428697 original size:18 final size:17
Alignment explanation
Indices: 51428669--51428703 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51428659 ATTATTAAGA
*
51428669 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51428686 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51428704 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51428817 original size:18 final size:17
Alignment explanation
Indices: 51428789--51428823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51428779 ATTATTAAGA
*
51428789 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51428806 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51428824 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51429037 original size:44 final size:45
Alignment explanation
Indices: 51428988--51429078 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
51428978 ACCTCTATTC
* * *
51428988 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
51429032 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
51429077 CA
1 CA
51429079 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:51429080 original size:16 final size:16
Alignment explanation
Indices: 51429059--51429127 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
51429049 GATTAGCTAT
51429059 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51429075 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
51429092 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
51429108 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
51429124 TACA
1 TACA
51429128 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51429101 original size:33 final size:32
Alignment explanation
Indices: 51429059--51429127 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
51429049 GATTAGCTAT
51429059 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
51429092 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
51429124 TACA
1 TACA
51429128 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:51434549 original size:15 final size:15
Alignment explanation
Indices: 51434529--51434560 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51434519 TACTTGTTCA
*
51434529 ATACCTTGTGTTTTG
1 ATACCTTATGTTTTG
51434544 ATACCTTATGTTTTG
1 ATACCTTATGTTTTG
51434559 AT
1 AT
51434561 GTTCTGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.53
Consensus pattern (15 bp):
ATACCTTATGTTTTG
Found at i:51437664 original size:19 final size:21
Alignment explanation
Indices: 51437640--51437683 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
51437630 TAAAATTTTG
*
51437640 TTTAAA-TATATCTCTATT-T
1 TTTAAAGTATATCTATATTAT
51437659 TTTAAAGTTATATCTATATTAT
1 TTTAAAG-TATATCTATATTAT
51437681 TTT
1 TTT
51437684 TAATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAAAGTATATCTATATTAT
Found at i:51437942 original size:31 final size:30
Alignment explanation
Indices: 51437907--51438009 Score: 91
Period size: 32 Copynumber: 3.3 Consensus size: 30
51437897 TTAACATTTT
*
51437907 ATTTAAAATTTACATTATAATAGTATTATAA
1 ATTTAAAATTTACATTATAA-AATATTATAA
* *
51437938 ATTTAAAATTTATATGTTATAAATTA-TATAA
1 ATTTAAAATTTACA--TTATAAAATATTATAA
* * *
51437969 TATATAAAAATAACATAATATAAAATATTATAA
1 -ATTTAAAATTTACAT--TATAAAATATTATAA
51438002 ATTTAAAA
1 ATTTAAAA
51438010 ACTAAATCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
30 1 0.02
31 18 0.31
32 28 0.48
33 11 0.19
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
ATTTAAAATTTACATTATAAAATATTATAA
Found at i:51440779 original size:25 final size:24
Alignment explanation
Indices: 51440730--51440779 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
51440720 TAAAAATTGC
*
51440730 ATATAAAAATAATTATGTTTCTTTA
1 ATATAAAAATAATTATG-TTATTTA
51440755 ATATAAAAATAAATTGATG-TATTTA
1 ATATAAAAAT-AATT-ATGTTATTTA
51440780 TTTTTTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 15 0.68
26 4 0.18
27 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATAAAAATAATTATGTTATTTA
Found at i:51440834 original size:31 final size:32
Alignment explanation
Indices: 51440799--51440875 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 32
51440789 ATGTATATGA
*
51440799 TTGAATTAAAATTAAAGTTTCATATATACA-T
1 TTGAATTAAAATTAAAGTTTCATATATAAAGT
* *
51440830 TTGAATCACAATTAAAGTTTCATATATAAAGT
1 TTGAATTAAAATTAAAGTTTCATATATAAAGT
*
51440862 TTAATATTAAAATT
1 TTGA-ATTAAAATT
51440876 TATGTATCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.71
32 4 0.11
33 7 0.18
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (32 bp):
TTGAATTAAAATTAAAGTTTCATATATAAAGT
Found at i:51443159 original size:118 final size:117
Alignment explanation
Indices: 51442975--51443269 Score: 378
Period size: 118 Copynumber: 2.5 Consensus size: 117
51442965 AAGTGCAACT
* * *
51442975 GCTATGCTAGTGCAATGAAGAACATATTGACATTGAACTTGAGATATGCAAAAGAATGACAACAT
1 GCTATGCTAGTGCAATGAAGAACATA-TCACATTAAACTTGAGATATGCAAAAGAATAACAACAT
*
51443040 ATGCAGC-AATAGCATAAGAACCGGAAAGAACCATCACCAGTAAACATCAAACC
65 ATGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAA-C
* * * *
51443093 GCTATGCTAGTGCAATGAAGGACATATCACCATTAAAGTCGAGATATGCAAACA-AATAACATCA
1 GCTATGCTAGTGCAATGAAGAACATATCA-CATTAAACTTGAGATATGCAAA-AGAATAACAACA
* ** * * * * *
51443157 TATGCAGCAAATTGTGTAAGAACTGGAAAGAATCATCACTAATATACATCGAAC
64 TATGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAAC
*
51443211 GCTATGCTAGTGCAATGAAGAACATATCAACATTAAACTTGAGATATGCAAATGAATAA
1 GCTATGCTAGTGCAATGAAGAACATATC-ACATTAAACTTGAGATATGCAAAAGAATAA
51443270 TAAGTTAATA
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
117 2 0.01
118 113 0.74
119 37 0.24
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (117 bp):
GCTATGCTAGTGCAATGAAGAACATATCACATTAAACTTGAGATATGCAAAAGAATAACAACATA
TGCAGCAAATAGCATAAGAACCGGAAAGAACCATCACCAATAAACATCAAAC
Found at i:51444801 original size:3 final size:3
Alignment explanation
Indices: 51444793--51444823 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
51444783 ATTGAAGATT
51444793 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
51444824 TACCATGAAG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:51449558 original size:31 final size:31
Alignment explanation
Indices: 51449522--51449585 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
51449512 TCGTAAATAT
* *
51449522 GTCATTAAAATATTTAAATTTTTTTAATTAA
1 GTCATTAAAATATTTAAAGTTTTTCAATTAA
* *
51449553 GTCATTAAAATATTTGAAGTTTTTCATTTAA
1 GTCATTAAAATATTTAAAGTTTTTCAATTAA
51449584 GT
1 GT
51449586 TTCTTAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (31 bp):
GTCATTAAAATATTTAAAGTTTTTCAATTAA
Found at i:51452731 original size:18 final size:18
Alignment explanation
Indices: 51452710--51452821 Score: 97
Period size: 18 Copynumber: 6.4 Consensus size: 18
51452700 AAGTTTTTTT
*
51452710 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
51452728 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
51452744 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
51452761 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* * *
51452778 AACACGACATTTTTTTGGA
1 AACACGAGA-ATTTTTGAA
*
51452797 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
51452815 AACACGA
1 AACACGA
51452822 ATTTTTTTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
16 14 0.19
17 22 0.30
18 30 0.41
19 8 0.11
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:51452741 original size:16 final size:16
Alignment explanation
Indices: 51452722--51452784 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
51452712 CACGGGAATT
*
51452722 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
51452738 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
51452754 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
51452771 TTTTTAAAACACGA
1 -TTTGAAAACACGA
51452785 CATTTTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:51452780 original size:17 final size:17
Alignment explanation
Indices: 51452687--51452822 Score: 80
Period size: 18 Copynumber: 7.9 Consensus size: 17
51452677 GTATTTCTTT
* *
51452687 TTTTTTAAA-ACGAAAG
1 TTTTTAAAACACGAAAA
** **
51452703 TTTTTTTAACACGGGAA
1 TTTTTAAAACACGAAAA
*
51452720 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
51452738 TTTGT-AAACACGAAAA
1 TTTTTAAAACACGAAAA
*
51452754 -TTTTAGAAACATGAAAA
1 TTTTTA-AAACACGAAAA
**
51452771 TTTTTAAAACACGACATT
1 TTTTTAAAACACGA-AAA
* **
51452789 TTTTTGGAAACACGGGAA
1 TTTTT-AAAACACGAAAA
51452807 TTTTTGAAAACACGAA
1 TTTTT-AAAACACGAA
51452823 TTTTTTTTAT
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
15 3 0.03
16 18 0.20
17 26 0.29
18 37 0.41
19 7 0.08
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:51452828 original size:18 final size:18
Alignment explanation
Indices: 51452771--51452829 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
51452761 AACATGAAAA
51452771 TTTTT-AAAACACGACATT
1 TTTTTGAAAACACGA-ATT
*
51452789 TTTTTGGAAACACGGGAA--
1 TTTTTGAAAACAC--GAATT
51452807 TTTTTGAAAACACGAATT
1 TTTTTGAAAACACGAATT
51452825 TTTTT
1 TTTTT
51452830 TATTCACGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 3 0.09
18 22 0.65
19 6 0.18
20 1 0.03
21 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (18 bp):
TTTTTGAAAACACGAATT
Found at i:51452847 original size:36 final size:36
Alignment explanation
Indices: 51452771--51452868 Score: 96
Period size: 36 Copynumber: 2.7 Consensus size: 36
51452761 AACATGAAAA
* *
51452771 TTTTT-AAAACACGACATTTTTTTGGAAACACGGGAA-
1 TTTTTGAAAACACGA-ATTTTTTT-TAAACACGAGAAT
**
51452807 TTTTTGAAAACACGAATTTTTTTTATTCACGAGAATT
1 TTTTTGAAAACACGAATTTTTTTTAAACACGAGAA-T
51452844 TTTTTG-AAACACG-ATTTTTCTTTAA
1 TTTTTGAAAACACGAATTTTT-TTTAA
51452869 CAAATACCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
35 14 0.26
36 24 0.45
37 15 0.28
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (36 bp):
TTTTTGAAAACACGAATTTTTTTTAAACACGAGAAT
Found at i:51452856 original size:19 final size:19
Alignment explanation
Indices: 51452771--51452857 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
51452761 AACATGAAAA
* *
51452771 TTTTTAAAACACGA-CATT
1 TTTTTGAAACACGAGAATT
*
51452789 TTTTTGGAAACACGGGAA--
1 TTTTT-GAAACACGAGAATT
51452807 TTTTTGAAA-AC-ACGAATT
1 TTTTTGAAACACGA-GAATT
* **
51452825 TTTTTTATTCACGAGAATT
1 TTTTTGAAACACGAGAATT
51452844 TTTTTGAAACACGA
1 TTTTTGAAACACGA
51452858 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
16 5 0.10
17 4 0.08
18 16 0.31
19 25 0.48
20 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (19 bp):
TTTTTGAAACACGAGAATT
Found at i:51453460 original size:10 final size:11
Alignment explanation
Indices: 51453435--51453461 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
51453425 TGTTTTTATT
51453435 TTTTTAATTAC
1 TTTTTAATTAC
51453446 TTTTTAATTAC
1 TTTTTAATTAC
51453457 TTTTT
1 TTTTT
51453462 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:51453472 original size:10 final size:10
Alignment explanation
Indices: 51453459--51453512 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
51453449 TTAATTACTT
51453459 TTTTTCTTTC
1 TTTTTCTTTC
51453469 TTTTTCTTTC
1 TTTTTCTTTC
51453479 TCTTTT-TTTC
1 T-TTTTCTTTC
*
51453489 TTTCTTTTTTC
1 TTT-TTCTTTC
*
51453500 TTCTTCTCTTC
1 TTTTTCT-TTC
51453511 TT
1 TT
51453513 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:51453478 original size:14 final size:13
Alignment explanation
Indices: 51453457--51453509 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
51453447 TTTTAATTAC
51453457 TTTT-TTTCTTTCT
1 TTTTCTTTCTTT-T
51453470 TTTTCTTTCTCTTT
1 TTTTCTTTCT-TTT
51453484 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
51453497 TTCTTCTTCTCTT
1 TT-TTCTT-TCTT
51453510 CTTCTTGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:51454121 original size:30 final size:29
Alignment explanation
Indices: 51454081--51454182 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
51454071 ATTTAGGATT
51454081 AAAATGAAATTTAATAAAAGTTTAGGGGTC
1 AAAATGAAATTTAA-AAAAGTTTAGGGGTC
* * *
51454111 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAA-AAAGTTTAGGGGTC
*
51454141 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTA-AAAAAGTTTAGGGGTC
*
51454171 AAAATGCAATTT
1 AAAATGAAATTT
51454183 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.02
30 60 0.97
31 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAAAAAGTTTAGGGGTC
Found at i:51454203 original size:14 final size:15
Alignment explanation
Indices: 51454178--51454212 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
51454168 GTCAAAATGC
51454178 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
51454193 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
51454207 AATTTT
1 AATTTT
51454213 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:51460019 original size:27 final size:27
Alignment explanation
Indices: 51459981--51460037 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
51459971 GGATTTAGTA
*
51459981 CTTAAATTTAATTTGGTCATTCTAGCC
1 CTTAAATTTAATTTGGCCATTCTAGCC
*
51460008 CTTAAATTTAATTTGGCCATTCTAGTC
1 CTTAAATTTAATTTGGCCATTCTAGCC
51460035 CTT
1 CTT
51460038 GGTACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.46
Consensus pattern (27 bp):
CTTAAATTTAATTTGGCCATTCTAGCC
Found at i:51462735 original size:11 final size:11
Alignment explanation
Indices: 51462703--51462750 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
51462693 CAAACCCTTT
*
51462703 CTTCCTCTTCA
1 CTTCCTCTTCC
51462714 CTTCCTCTTCC
1 CTTCCTCTTCC
51462725 CTTCCTCTTCC
1 CTTCCTCTTCC
* *
51462736 CCTCCTCTCCC
1 CTTCCTCTTCC
51462747 CTTC
1 CTTC
51462751 TATGAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (11 bp):
CTTCCTCTTCC
Found at i:51473669 original size:6 final size:6
Alignment explanation
Indices: 51473658--51473691 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
51473648 TACATTTTTC
51473658 TTGCTA TTGCTA TTGCTA TTGCTA TTGCTA TTGC
1 TTGCTA TTGCTA TTGCTA TTGCTA TTGCTA TTGC
51473692 AATAGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.50
Consensus pattern (6 bp):
TTGCTA
Found at i:51474810 original size:22 final size:22
Alignment explanation
Indices: 51474785--51474828 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
51474775 TCGATGCGTG
51474785 TTAGCATACCAAGTAATAGTTA
1 TTAGCATACCAAGTAATAGTTA
51474807 TTAGCATACCAAGTAATAGTTA
1 TTAGCATACCAAGTAATAGTTA
51474829 GCTTAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
TTAGCATACCAAGTAATAGTTA
Found at i:51479776 original size:24 final size:24
Alignment explanation
Indices: 51479744--51479795 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
51479734 TTTTTTTCTT
* *
51479744 TTTTAGTCACCCAGTTAGTAGTTA
1 TTTTAGTCACCAAATTAGTAGTTA
51479768 TTTTAGTCACCAAATTAGTAGTTA
1 TTTTAGTCACCAAATTAGTAGTTA
51479792 TTTT
1 TTTT
51479796 TTTTTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (24 bp):
TTTTAGTCACCAAATTAGTAGTTA
Found at i:51481207 original size:51 final size:51
Alignment explanation
Indices: 51481040--51481204 Score: 294
Period size: 51 Copynumber: 3.2 Consensus size: 51
51481030 GCTGATTAGT
51481040 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
51481091 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* * *
51481142 AGAGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
51481193 AGTGACAAGTGA
1 AGTGACAAGTGA
51481205 TAAATGTGAT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 108 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:51483009 original size:28 final size:29
Alignment explanation
Indices: 51482969--51483024 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
51482959 TAAATACAAA
*
51482969 ATCTAAGGCTTAAAATTA-TTTAATTTTG
1 ATCTAAGGCTTAAAATCATTTTAATTTTG
51482997 ATCTAATGG-TTAAAATCATTTTAATTTT
1 ATCTAA-GGCTTAAAATCATTTTAATTTT
51483025 TATGGTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (29 bp):
ATCTAAGGCTTAAAATCATTTTAATTTTG
Found at i:51483795 original size:6 final size:6
Alignment explanation
Indices: 51483777--51483830 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
51483767 TCCAATAAAC
* * *
51483777 TATACA TACACA TATACA TATTCA TATACATA TATATA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATAC--A TATACA TATACA TATACA
51483827 TATA
1 TATA
51483831 GTAATCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 35 0.88
8 5 0.12
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (6 bp):
TATACA
Found at i:51483811 original size:20 final size:20
Alignment explanation
Indices: 51483777--51483830 Score: 76
Period size: 18 Copynumber: 2.8 Consensus size: 20
51483767 TCCAATAAAC
*
51483777 TATACATACACATATACATA
1 TATACATATACATATACATA
*
51483797 T-T-CATATACATATATATA
1 TATACATATACATATACATA
51483815 TATACATATACATATA
1 TATACATATACATATA
51483831 GTAATCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 13 0.43
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TATACATATACATATACATA
Found at i:51483842 original size:20 final size:19
Alignment explanation
Indices: 51483777--51483843 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
51483767 TCCAATAAAC
* *
51483777 TATA-CATACACATATACA
1 TATATCATATACATATATA
51483795 TAT-TCATATACATATATA
1 TATATCATATACATATATA
51483813 TATATACATATACATATAGTA
1 TATAT-CATATACATATA-TA
51483834 -ATCATCATAT
1 TAT-ATCATAT
51483844 CCAAAAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 18 0.43
19 1 0.02
20 19 0.45
21 4 0.10
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.37
Consensus pattern (19 bp):
TATATCATATACATATATA
Found at i:51483906 original size:6 final size:6
Alignment explanation
Indices: 51483895--51483941 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
51483885 AATAAACTAT
* *
51483895 ACATGC ACATGC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
51483942 TTCATATAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (6 bp):
ACATAC
Found at i:51483984 original size:119 final size:115
Alignment explanation
Indices: 51483695--51484032 Score: 464
Period size: 119 Copynumber: 2.9 Consensus size: 115
51483685 AAAAAAACAT
* *
51483695 ACATATACATATACATATAGTAATCATCATTTAAAAAAACAGATCAAACTAGCATATAGTGTTGA
1 ACATATACATATACATATAGTAATCATCATATAAAAAAAC--ATCAAACTAGCATATAGTATTGA
* * * * * * *
51483760 TCATAGATCCAATAAACTATACATACACATATACATATTCATATACATATAT
64 TCATAGATTCAATAAACTATACATACACACATACACATACACATACACATAC
* **
51483812 ATATATACATATACATATAGTAATCATCATATCCAAAAACATCAAACTAGCATATAGTATTGATC
1 ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
51483877 ATAGATTCAATAAACTATACATGCACATGCACATACACATACACATACACATAC
66 ATAGATTCAATAAACTATACAT--ACA--CACATACACATACACATACACATAC
* *
51483931 ACATACACATATTCATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
1 ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
* *
51483996 ATAGATTGAATAAACTATACATA-A-ACATACATATACA
66 ATAGATTCAATAAACTATACATACACACATACACATACA
51484033 TATATAGTAG
Statistics
Matches: 198, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
113 12 0.06
115 45 0.23
116 1 0.01
117 40 0.20
119 100 0.51
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.29
Consensus pattern (115 bp):
ACATATACATATACATATAGTAATCATCATATAAAAAAACATCAAACTAGCATATAGTATTGATC
ATAGATTCAATAAACTATACATACACACATACACATACACATACACATAC
Found at i:51486876 original size:66 final size:65
Alignment explanation
Indices: 51486791--51486986 Score: 250
Period size: 66 Copynumber: 3.0 Consensus size: 65
51486781 CATGTTTTAT
51486791 ACAATG-TCTATAACTATACATAGCCCATTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGC
1 ACAATGCT-TATAACTATACATAGCCC-TTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGC
51486855 AC
64 AC
* * * * *
51486857 ACAATGCTTATAACAATACATAGCTTCTCCCCAACCCTTAAATAAAAGGATAATGCGCTTCAGCG
1 ACAATGCTTATAACTATACATAGC-CCTTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGCA
51486922 C
65 C
* * * * * *
51486923 ACAATGCCTATAACTTTACATAACCCCTCCTTAACCCTTAAATAAGAGGATAATGCGTTTCAGC
1 ACAATGCTTATAACTATACATAGCCCTTCC-CAACCCTTAAATAAGAGGATAATGCGCTTCAGC
51486987 TCATTCGAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
65 3 0.03
66 107 0.96
67 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.26
Consensus pattern (65 bp):
ACAATGCTTATAACTATACATAGCCCTTCCCAACCCTTAAATAAGAGGATAATGCGCTTCAGCAC
Found at i:51487404 original size:17 final size:20
Alignment explanation
Indices: 51487382--51487433 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
51487372 TAAATTTTTT
51487382 TATATTTT-A-TTAATT-TA
1 TATATTTTAATTTAATTATA
51487399 TATATTTTAATTTTAATTATA
1 TATATTTTAA-TTTAATTATA
51487420 TATATTTTTAATTT
1 TATA-TTTTAATTT
51487434 CATAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
20 6 0.20
21 9 0.30
22 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATATTTTAATTTAATTATA
Found at i:51487411 original size:23 final size:22
Alignment explanation
Indices: 51487391--51487433 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
51487381 TTATATTTTA
51487391 TTAATT-TATATA-TTTTAATT
1 TTAATTATATATATTTTTAATT
51487411 TTAATTATATATATTTTTAATT
1 TTAATTATATATATTTTTAATT
51487433 T
1 T
51487434 CATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTATATATATTTTTAATT
Found at i:51487611 original size:18 final size:18
Alignment explanation
Indices: 51487588--51487636 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
51487578 AAAAATGCTT
*
51487588 TTTTTATTAATTTATATA
1 TTTTTATTAATTTATAAA
51487606 TTTTTA--AAGTTT-TAAA
1 TTTTTATTAA-TTTATAAA
*
51487622 TTTTTTTTAATTTAT
1 TTTTTATTAATTTAT
51487637 GTCTGCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTAATTTATAAA
Found at i:51488917 original size:31 final size:29
Alignment explanation
Indices: 51488879--51488948 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 29
51488869 ATCCCAAAAC
51488879 TATACATGAACTATG-GTTTAATGTGCAATTT
1 TATACATGAACTATGAG-TT--TGTGCAATTT
*
51488910 TATACATGAACTTTGAGTTTGTGCAATTT
1 TATACATGAACTATGAGTTTGTGCAATTT
51488939 TATACATGAA
1 TATACATGAA
51488949 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 20 0.54
31 16 0.43
32 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGAGTTTGTGCAATTT
Found at i:51488967 original size:30 final size:29
Alignment explanation
Indices: 51488904--51488967 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
51488894 GTTTAATGTG
*
51488904 CAATTTTATACATGAACTTTGAGTTTGTG
1 CAATTTTATACATGAACTTTGAGTTTGTC
*
51488933 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTTTATACATG-AACTTTGAGTTTG-TC
51488963 CAATT
1 CAATT
51488968 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTTTATACATGAACTTTGAGTTTGTC
Found at i:51489185 original size:29 final size:30
Alignment explanation
Indices: 51489153--51489211 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
51489143 TCACGTGTAT
*
51489153 AATTG-CATCAAATTAAAGTTCATATATAC
1 AATTGACATCAAATTAAAATTCATATATAC
* *
51489182 AATTGCACATTAAATTAAAATTCATGTATA
1 AATTG-ACATCAAATTAAAATTCATATATA
51489212 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.36
Consensus pattern (30 bp):
AATTGACATCAAATTAAAATTCATATATAC
Found at i:51489214 original size:29 final size:27
Alignment explanation
Indices: 51489148--51489214 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
51489138 GAGTTTCACG
*
51489148 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCATCAAATTAAAATTCA
* *
51489175 TATATACAATTGCACATTAAATTAAAATTCA
1 TGTAT--AATTG--CATCAAATTAAAATTCA
51489206 TGTATAATT
1 TGTATAATT
51489215 TTGAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.12
29 9 0.28
31 19 0.59
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (27 bp):
TGTATAATTGCATCAAATTAAAATTCA
Found at i:51497994 original size:18 final size:19
Alignment explanation
Indices: 51497971--51498008 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
51497961 CTTGGGAAAA
51497971 AGTCTACTAGATTG-CAAG
1 AGTCTACTAGATTGCCAAG
*
51497989 AGTCTACTAGTTTGCCAAG
1 AGTCTACTAGATTGCCAAG
51498008 A
1 A
51498009 CGAGAAGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (19 bp):
AGTCTACTAGATTGCCAAG
Found at i:51505799 original size:11 final size:11
Alignment explanation
Indices: 51505773--51505812 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
51505763 TTTGCTTCCT
51505773 AAAAAACAAAAC
1 AAAAAA-AAAAC
51505785 -AAAAAAAAAC
1 AAAAAAAAAAC
51505795 AAAAAAAAAAC
1 AAAAAAAAAAC
51505806 AAAAAAA
1 AAAAAAA
51505813 CTTTGGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.19
11 22 0.81
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:51507123 original size:44 final size:42
Alignment explanation
Indices: 51507061--51507387 Score: 245
Period size: 44 Copynumber: 7.6 Consensus size: 42
51507051 CAAAGAATTG
*
51507061 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATA
* * *
51507103 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA-A
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATA
* * * * * *
51507145 -GGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCA-C
1 CAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAATA
* * * * *
51507185 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTT
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-T--TGAA-TA
* ***
51507231 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGC
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATA
* *
51507273 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATA
* * * *
51507317 CACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAATA
*
51507361 AAGGATCTTATCTCCCTGA-AGTTACAG
1 CA-GATCTTATCTCCCTGAGA-TTACAG
51507388 CAGAGTAGAT
Statistics
Matches: 226, Mismatches: 43, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 1 0.00
41 27 0.12
42 9 0.04
43 33 0.15
44 96 0.42
45 1 0.00
46 31 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATA
Found at i:51507329 original size:87 final size:82
Alignment explanation
Indices: 51507063--51507354 Score: 259
Period size: 87 Copynumber: 3.4 Consensus size: 82
51507053 AAGAATTGCA
* ** *
51507063 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTG-A-CCAG-AATCTTATCTCCCTGAGATT
* *
51507127 ACAGTGGAGCGGATT-A-AAG
62 ACAGTGGAGCAGATTAAGAAC
* * * * *
51507146 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG-GTCTTATTTCCCTGAGATTACA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG-ACCAGAATCTTATCTCCCTGAGATTACA
* *
51507210 GTGGAACAGACTAAAGAATTTC
65 GTGGAGCAGA-TTAAGAA---C
*
51507232 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTGAGATT
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA--CCAG-AATCTTATCTCCCTGAGATT
*
51507297 ACAGCGGAGCAGATTGAAGACAC
62 ACAGTGGAGCAGATT-AAGA-AC
* * *
51507320 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT
51507355 AAAATAAAGG
Statistics
Matches: 168, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
80 27 0.16
81 1 0.01
82 3 0.02
83 32 0.19
84 2 0.01
86 1 0.01
87 63 0.38
88 5 0.03
89 1 0.01
90 32 0.19
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (82 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGACCAGAATCTTATCTCCCTGAGATTACAG
TGGAGCAGATTAAGAAC
Found at i:51507503 original size:218 final size:214
Alignment explanation
Indices: 51507064--51507485 Score: 494
Period size: 218 Copynumber: 2.0 Consensus size: 214
51507054 AGAATTGCAG
* * *
51507064 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
* * *
51507129 AGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
66 AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
*** * * * * * *
51507194 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
131 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAACAACAGATCATACCCCCCTAAAGTTACAGCG
** *
51507259 GAGCAGATTGAGGCCAGAA
196 GAGCAGACAGAGGACAGAA
51507278 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTA
* *
51507341 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGCATCAA
65 CAGTGGAGCGGA-T----TAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAA
* * * *
51507406 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACTGAA-AACAACA-AGTCATGCCCCCCTAAAG
125 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAGAACAACAGA-TCATACCCCCCTAAAG
** *
51507468 TTGTAGCGGAGCGGACAG
188 TTACAGCGGAGCAGACAG
51507486 TAGATAGCAA
Statistics
Matches: 174, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
212 1 0.01
213 30 0.17
214 41 0.24
216 1 0.01
217 26 0.15
218 72 0.41
219 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (214 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCACCAAGTCTTA
TTTCCCTGAGATTACAGTGGAACAGACTAAAGAACAACAGATCATACCCCCCTAAAGTTACAGCG
GAGCAGACAGAGGACAGAA
Found at i:51509272 original size:3 final size:3
Alignment explanation
Indices: 51509266--51509298 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
51509256 TGTTGTTTAG
*
51509266 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51509299 CCTTACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:51509558 original size:15 final size:15
Alignment explanation
Indices: 51509535--51509566 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51509525 TGTTTATATA
*
51509535 TTATGTTATTTTATT
1 TTATCTTATTTTATT
51509550 TTATCTTATTTTATT
1 TTATCTTATTTTATT
51509565 TT
1 TT
51509567 CCATATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:51511043 original size:79 final size:76
Alignment explanation
Indices: 51510929--51511161 Score: 240
Period size: 77 Copynumber: 3.0 Consensus size: 76
51510919 TAAACTTAAC
* ** * *
51510929 TTGAAAAGCAGATTTTGAAAATACCTC-GATATGTGA-CTCAAGGCTCAACTCACCTCTCACAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG-TGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAAT
51510992 ATGAGTTGATTT
65 ATGAGTTGATTT
* * * *
51511004 TTGAAAAATATAAATTGAAAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGC
1 TTGAAAAACAGAAATTG----AAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGC
51511068 AATATGAGTTGATTTTT
62 AATATGAGTTGA--TTT
* * * * *
51511085 TTGAAAGACAGAAATTGAAAATAGCTTAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAATA
*
51511149 TGAGTCGATTT
66 TGAGTTGATTT
51511160 TT
1 TT
51511162 TTTGAAAGGC
Statistics
Matches: 131, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
75 17 0.13
76 2 0.02
77 45 0.34
79 45 0.34
80 5 0.04
81 17 0.13
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (76 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGTGTGTGAGCTCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTT
Found at i:51511144 original size:77 final size:78
Alignment explanation
Indices: 51510961--51511183 Score: 258
Period size: 77 Copynumber: 2.9 Consensus size: 78
51510951 ACCTCGATAT
* * * *
51510961 GTGA-CTCAAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAATATAAATTGAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--
* *
51511023 AAAAAATACCTCAGTGT
64 --AAAATACCTCAGCGC
* *
51511040 GTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
* *
51511104 AATAGCTTAGCGC
66 AATACCTCAGCGC
* *
51511117 GTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTGAAAGGCAGAAATTGA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGA
51511181 AAA
65 AAA
51511184 ACGGAAATTG
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
76 2 0.02
77 45 0.36
78 25 0.20
79 33 0.26
80 4 0.03
81 17 0.13
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (78 bp):
GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
AATACCTCAGCGC
Found at i:51511273 original size:14 final size:14
Alignment explanation
Indices: 51511254--51511288 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
51511244 GTTGATTTTT
*
51511254 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
51511268 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
51511282 TTGAAAA
1 TTGAAAA
51511289 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:51511291 original size:91 final size:91
Alignment explanation
Indices: 51511085--51511360 Score: 378
Period size: 91 Copynumber: 3.0 Consensus size: 91
51511075 GTTGATTTTT
* * * ** * *
51511085 TTGAAAGACAGAAATTGAAAATAGCTTAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
* *
51511149 TGAGTCGATTTTTTTTGAAAGGCAGAAA
65 TGAGTTGA-TTTTTTTGAAAGACAGAAA
*
51511177 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
51511242 GAGTTGATTTTTTTGAAAGACAGAAA
66 GAGTTGATTTTTTTGAAAGACAGAAA
* *
51511268 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACTCGCCGT-TCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACC-TCTCGCAATA
* *
51511332 CGAGTTGATTTTTTTGACA-ACAGAAA
65 TGAGTTGATTTTTTTGAAAGACAGAAA
51511358 TTG
1 TTG
51511361 TAATTACCTC
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
90 10 0.06
91 95 0.57
92 62 0.37
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (91 bp):
TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGAAAGACAGAAA
Found at i:51511462 original size:76 final size:73
Alignment explanation
Indices: 51511279--51511498 Score: 244
Period size: 76 Copynumber: 2.9 Consensus size: 73
51511269 TGAAAAACGG
* * * *
51511279 AAATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACTCGCCGT-TCGCAATACGAGTTGATTT
1 AAATTG-AAATACCTCAGCGTGT--CCTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTT
*** *
51511343 TTTTGACAACAG
62 TTGAAACAACAA
*
51511355 AAATTGTAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
51511420 AAACATACGAA
65 AAACA-AC-AA
* * * *
51511431 AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTAACCTCTCGCAATATGAATTGAATTTTG
1 AAATTGA-AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
51511496 AAA
65 AAA
51511499 TAAAACATCA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
73 1 0.01
74 39 0.31
75 3 0.02
76 82 0.66
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (73 bp):
AAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AACAACAA
Found at i:51523122 original size:11 final size:11
Alignment explanation
Indices: 51523095--51523137 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
51523085 ATGGCATTAA
*
51523095 AAAATATATAC
1 AAAATATATAT
*
51523106 ATAATATATAT
1 AAAATATATAT
*
51523117 AAAATACATAT
1 AAAATATATAT
*
51523128 AATATATATA
1 AAAATATATA
51523138 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:51528908 original size:22 final size:22
Alignment explanation
Indices: 51528859--51528918 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
51528849 GTAGCAATAT
* * *
51528859 AATAGCGAAATGACAACAAAAT
1 AATAGCAAAATGAGAACAAAAC
*
51528881 AGTAGCAAAATGAGAACAAAAC
1 AATAGCAAAATGAGAACAAAAC
51528903 AATAGCAACAA-GAGAA
1 AATAGCAA-AATGAGAA
51528919 AGTTTAGGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (22 bp):
AATAGCAAAATGAGAACAAAAC
Found at i:51529763 original size:21 final size:23
Alignment explanation
Indices: 51529737--51529785 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
51529727 AAACTAGTTC
51529737 AAGTTTGAGGGCTCAT-AT-TTG
1 AAGTTTGAGGGCTCATGATGTTG
*
51529758 AAGTTT-AGGGTTCATGATGTTG
1 AAGTTTGAGGGCTCATGATGTTG
51529780 -AGTTTG
1 AAGTTTG
51529786 GGGTTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (23 bp):
AAGTTTGAGGGCTCATGATGTTG
Found at i:51538825 original size:66 final size:65
Alignment explanation
Indices: 51538730--51538883 Score: 188
Period size: 66 Copynumber: 2.3 Consensus size: 65
51538720 GTAAAAGAAT
* *
51538730 AAATAAATAAATAAATTGATAAAACAAATATGA-ATAATATCGAATTTAAAT-GTTTTAAAAGTA
1 AAATAAAT-AATAAATAGATAAAACAAATAT-ACATAATATCAAATTTAAATAG-TTTAAAAGTA
51538793 AAA
63 AAA
* *
51538796 AAATAAATAAGTAAATAGATAAAATAAATATACATAATATTAAATTTAAATAGTTTAAAAGTAAA
1 AAATAAATAA-TAAATAGATAAAACAAATATACATAATATCAAATTTAAATAGTTTAAAAGTAAA
51538861 A
65 A
* *
51538862 GAATGAAA-AATAAATAAATAAA
1 AAAT-AAATAATAAATAGATAAA
51538884 TTGATAAAAC
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
65 14 0.18
66 60 0.77
67 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (65 bp):
AAATAAATAATAAATAGATAAAACAAATATACATAATATCAAATTTAAATAGTTTAAAAGTAAAA
Found at i:51538950 original size:73 final size:73
Alignment explanation
Indices: 51538716--51538989 Score: 250
Period size: 73 Copynumber: 3.9 Consensus size: 73
51538706 AAGTATTAAA
* * * **
51538716 AAAAGTAAAAGAAT---AAATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAATTTA
1 AAAAGTAAAAGAATGAAAAACAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTA
51538778 AAT-GTTT
66 AATAGTTT
* * * *
51538785 -----TAAAAGTAA--AAAAATAAATAAGTAAATAGATAAAATAAATATACATAATATTAAATTT
1 AAAAGTAAAAG-AATGAAAAACAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTT
51538843 AAATAGTTT
65 AAATAGTTT
* * * *
51538852 AAAAGTAAAAGAATGAAAAATAAATAAATAAATTGATAAAACAACTATAAATAATATTACATTTA
1 AAAAGTAAAAGAATGAAAAACAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTA
51538917 AATA-TTT
66 AATAGTTT
* * * * * * *
51538924 GAAAGATAAAAGAAT-AACGAACAAATAAATAAATAAATATAATAGATATGAATAATATTAAATT
1 AAAAG-TAAAAGAATGAA-AAACAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATT
51538988 TA
64 TA
51538990 GGTATTAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
64 6 0.04
65 2 0.01
66 44 0.26
67 4 0.02
71 2 0.01
72 15 0.09
73 95 0.57
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (73 bp):
AAAAGTAAAAGAATGAAAAACAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTA
AATAGTTT
Found at i:51541122 original size:27 final size:27
Alignment explanation
Indices: 51541056--51541133 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
51541046 CAAGAAATCC
51541056 CATGTTTAATGTCCTGGTGGACTATCTCA
1 CATGTTT-ATGTCCTGGTGGACTATCT-A
*
51541085 CAT-TTTATGTCCTAGTGGACTATCT-
1 CATGTTTATGTCCTGGTGGACTATCTA
* *
51541110 CGTGTTTACTGTCCCGGTGGACTA
1 CATGTTTA-TGTCCTGGTGGACTA
51541134 CCCCGTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.05
26 4 0.09
27 31 0.72
28 3 0.07
29 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
CATGTTTATGTCCTGGTGGACTATCTA
Found at i:51541144 original size:27 final size:27
Alignment explanation
Indices: 51541099--51541152 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
51541089 TTATGTCCTA
* * * *
51541099 GTGGACTATCTCGTGTTTACTGTCCCG
1 GTGGACTACCCCGTATTTACTATCCCG
51541126 GTGGACTACCCCGTATTTACTATCCCG
1 GTGGACTACCCCGTATTTACTATCCCG
51541153 ACAGGCTCTA
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:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (27 bp):
GTGGACTACCCCGTATTTACTATCCCG
Found at i:51542437 original size:12 final size:13
Alignment explanation
Indices: 51542422--51542450 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
51542412 TTGAATTTTA
51542422 TTAGGATTATT-T
1 TTAGGATTATTAT
51542434 TTAGGATTATTAT
1 TTAGGATTATTAT
51542447 TTAG
1 TTAG
51542451 ATTTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (13 bp):
TTAGGATTATTAT
Found at i:51546831 original size:46 final size:47
Alignment explanation
Indices: 51546771--51546906 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 47
51546761 TTTGACGTGA
* * * * * *
51546771 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
51546817 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
51546863 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
51546907 AGAGCACACT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.05
46 79 0.95
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:51551084 original size:30 final size:31
Alignment explanation
Indices: 51551050--51551113 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
51551040 GTGGCTAGGG
51551050 TTTCTTAGTT-TTTTTTTTTAGGTTAGGTTT
1 TTTCTTAGTTCTTTTTTTTTAGGTTAGGTTT
** *
51551080 TTTCTTTTTTCTTTTTTTTTGGGTTAGGTTT
1 TTTCTTAGTTCTTTTTTTTTAGGTTAGGTTT
51551111 TTT
1 TTT
51551114 TGGGGGGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.06, C:0.05, G:0.16, T:0.73
Consensus pattern (31 bp):
TTTCTTAGTTCTTTTTTTTTAGGTTAGGTTT
Found at i:51555813 original size:13 final size:14
Alignment explanation
Indices: 51555795--51555824 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
51555785 TACCACACTC
51555795 GTTAGTTAA-TTTA
1 GTTAGTTAATTTTA
51555808 GTTAGTTAATTTTA
1 GTTAGTTAATTTTA
51555822 GTT
1 GTT
51555825 TTAATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTAGTTAATTTTA
Found at i:51563405 original size:18 final size:17
Alignment explanation
Indices: 51563384--51563432 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
51563374 TTAGAAAATT
51563384 TATTTTATAATAAGATAA
1 TATTTTATAATAA-ATAA
* *
51563402 TATTTTGTAATAATTAA
1 TATTTTATAATAAATAA
*
51563419 TATATTAT-ATAAAT
1 TATTTTATAATAAAT
51563433 TTTAGAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:51565814 original size:15 final size:14
Alignment explanation
Indices: 51565789--51565827 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
51565779 AAATCACAAA
51565789 TTTAGTTTTTAATAT
1 TTTA-TTTTTAATAT
51565804 TTATATTTTTAATAT
1 TT-TATTTTTAATAT
51565819 TTTATTTTT
1 TTTATTTTT
51565828 TTAGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 14 0.61
16 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTATTTTTAATAT
Found at i:51565830 original size:16 final size:15
Alignment explanation
Indices: 51565794--51565827 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51565784 ACAAATTTAG
51565794 TTTTTAATATTTATA
1 TTTTTAATATTTATA
51565809 TTTTTAATATTT-TA
1 TTTTTAATATTTATA
51565823 TTTTT
1 TTTTT
51565828 TTAGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTAATATTTATA
Found at i:51567341 original size:47 final size:49
Alignment explanation
Indices: 51567289--51567407 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 49
51567279 TGAACTCTAT
*
51567289 ATATAATTTTCGTGATCCTAATACAATTCTAACTAAGATATA-TAT-AA
1 ATATAATTTTCGTAATCCTAATACAATTCTAACTAAGATATATTATAAA
* * *
51567336 ATATAAATTTCGTAATCCTAATTCAATTCTAACTAATATATATTTATAAA
1 ATATAATTTTCGTAATCCTAATACAATTCTAACTAAGATATA-TTATAAA
* *
51567386 ATATAATTTGCATAATCCTAAT
1 ATATAATTTTCGTAATCCTAAT
51567408 TAAGTTCTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 38 0.61
49 3 0.05
50 21 0.34
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (49 bp):
ATATAATTTTCGTAATCCTAATACAATTCTAACTAAGATATATTATAAA
Found at i:51567491 original size:3 final size:3
Alignment explanation
Indices: 51567483--51567518 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
51567473 TATGCTTTAT
51567483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51567519 TAAAAGGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51570664 original size:30 final size:30
Alignment explanation
Indices: 51570630--51570689 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
51570620 TCGCGGAAAG
51570630 AAGGGAAATCGGAGAGTAATTAAAGGCATC
1 AAGGGAAATCGGAGAGTAATTAAAGGCATC
51570660 AAGGGAAATCGGAGAGTAATTAAAGGCATC
1 AAGGGAAATCGGAGAGTAATTAAAGGCATC
51570690 CTCAATTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.30, T:0.17
Consensus pattern (30 bp):
AAGGGAAATCGGAGAGTAATTAAAGGCATC
Found at i:51571951 original size:47 final size:50
Alignment explanation
Indices: 51571895--51572014 Score: 165
Period size: 47 Copynumber: 2.5 Consensus size: 50
51571885 TGAACTCTAT
* * *
51571895 ATATAATTTTCGTGATCTTAATTCAATTCTAGCTAA-A-ATATACAT-AA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATACATAAA
**
51571942 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATTTATAAA
1 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATACATAAA
*
51571992 ATATAATTTTCATAATCCTAATT
1 ATATAATTTTCCTAATCCTAATT
51572015 AAGTTCTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 33 0.52
48 1 0.02
49 6 0.09
50 24 0.38
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (50 bp):
ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATACATAAA
Found at i:51575565 original size:3 final size:3
Alignment explanation
Indices: 51575557--51575587 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
51575547 TGTAAAATTG
51575557 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51575588 AACATTAACA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:51577374 original size:61 final size:59
Alignment explanation
Indices: 51577254--51577377 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 59
51577244 CAGATAATAG
* ***
51577254 CAGGGCCTAACTTGGACAAAAAGAAGTTCATGCCCCAATGTGGAAAAAATTGGGGAGTT
1 CAGGGCCTAACTTGGACAAAAAGAAGTTCAAGCCCCAATGTGGAAAAAATTGCCAAGTT
* *
51577313 CAGGGCCTAACTTGGGACAAAAA-ATTAGTTTAAGCCCCAATGT-GAAAATAGTTGCCAAGTT
1 CAGGGCCTAACTT-GGACAAAAAGA--AGTTCAAGCCCCAATGTGGAAAA-AATTGCCAAGTT
51577374 CAGG
1 CAGG
51577378 CCCCAAAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 14 0.25
60 14 0.25
61 27 0.49
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (59 bp):
CAGGGCCTAACTTGGACAAAAAGAAGTTCAAGCCCCAATGTGGAAAAAATTGCCAAGTT
Found at i:51580453 original size:22 final size:21
Alignment explanation
Indices: 51580408--51580456 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
51580398 TGTTCGGTTG
51580408 TTTTCTTCTTGTTTTACACTA
1 TTTTCTTCTTGTTTTACACTA
*
51580429 TTTTCTTGTTGTTTT-CTTACTA
1 TTTTCTTCTTGTTTTAC--ACTA
51580451 TTTTCT
1 TTTTCT
51580457 CACTGGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.10, C:0.16, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTCTTCTTGTTTTACACTA
Found at i:51582843 original size:19 final size:21
Alignment explanation
Indices: 51582805--51582844 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
51582795 TTACAGTATT
51582805 TTAGATCAATATGATAAAAATA
1 TTAGATCAATAT-ATAAAAATA
51582827 TTAGATCAAT-T-TAAAAAT
1 TTAGATCAATATATAAAAAT
51582845 TTACATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
TTAGATCAATATATAAAAATA
Found at i:51584884 original size:25 final size:23
Alignment explanation
Indices: 51584855--51584937 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 23
51584845 TAAAACCTCT
51584855 TTTTATTTACAAATAGCTAATTATG
1 TTTTA-TTACAAATAG-TAATTATG
* * * * *
51584880 TTTTATTACTAGTA-AAACCTCT-
1 TTTTATTACAAATAGTAA-TTATG
51584902 TTTTATTTACAAATAGATAATTATG
1 TTTTA-TTACAAATAG-TAATTATG
51584927 TTTTATTACAA
1 TTTTATTACAA
51584938 GTAAAACCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
22 7 0.16
23 9 0.21
24 15 0.35
25 12 0.28
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (23 bp):
TTTTATTACAAATAGTAATTATG
Found at i:51584896 original size:47 final size:47
Alignment explanation
Indices: 51584842--51584946 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
51584832 TGCGATTTAG
*
51584842 AAGTAAAACCTCTTTTTATTTACAAATAGCTAATTATGTTTTATTAC
1 AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
*
51584889 TAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
1 AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
51584936 AAGTAAAACCT
1 AAGTAAAACCT
51584947 AATTAACATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (47 bp):
AAGTAAAACCTCTTTTTATTTACAAATAGATAATTATGTTTTATTAC
Found at i:51594034 original size:25 final size:25
Alignment explanation
Indices: 51593986--51594035 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
51593976 ATAGCAGCAA
*
51593986 AATAATAAAAAACAACAACAACAAC
1 AATAATAAAAAACAAAAACAACAAC
*
51594011 AATAATAAAACAGCAAAAAC-ACAAC
1 AATAATAAAA-AACAAAAACAACAAC
51594036 CATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.70, C:0.20, G:0.02, T:0.08
Consensus pattern (25 bp):
AATAATAAAAAACAAAAACAACAAC
Found at i:51595645 original size:72 final size:72
Alignment explanation
Indices: 51595546--51595764 Score: 348
Period size: 72 Copynumber: 3.0 Consensus size: 72
51595536 GAAGGGTTTC
* *
51595546 GGTTTGTAAATAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
51595611 AACCGGT
66 AACCGGT
*
51595618 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGAGGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
51595683 AACCGGT
66 AACCGGT
* * * * * * *
51595690 GGTTTGTAGACAGGAACCGGTGGAGGGAGTGGTTTCTTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
51595755 AACCGGT
66 AACCGGT
51595762 GGT
1 GGT
51595765 GGAAGAGGTT
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 136 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (72 bp):
GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
AACCGGT
Found at i:51600855 original size:27 final size:28
Alignment explanation
Indices: 51600814--51600870 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
51600804 TATTTATTTC
* *
51600814 TTTATAGTATAATAACTAGAACTAATTA
1 TTTATAGTATAATAAATACAACTAATTA
* *
51600842 TTTATA-TTTAATAAATACAATTAATTA
1 TTTATAGTATAATAAATACAACTAATTA
51600869 TT
1 TT
51600871 CCATTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTATAGTATAATAAATACAACTAATTA
Found at i:51608966 original size:9 final size:9
Alignment explanation
Indices: 51608954--51609011 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 9
51608944 TTGTTTTTTG
51608954 TTTTAATATT
1 TTTTAATA-T
51608964 TTTTAATAT
1 TTTTAATAT
51608973 TTTTAAATAT
1 TTTT-AATAT
*
51608983 ATTTAAT-T
1 TTTTAATAT
*
51608991 TATT-ATA-
1 TTTTAATAT
*
51608998 TTTTAATTT
1 TTTTAATAT
51609007 TTTTA
1 TTTTA
51609012 TTTAATGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 5 0.13
8 5 0.13
9 13 0.33
10 16 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:51609260 original size:19 final size:19
Alignment explanation
Indices: 51609236--51609273 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
51609226 CAATGCGTTT
51609236 CAACAGTCTCGAAGCCACA
1 CAACAGTCTCGAAGCCACA
51609255 CAACAGTCTCGAAGCCACA
1 CAACAGTCTCGAAGCCACA
51609274 TACTCTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.37, G:0.16, T:0.11
Consensus pattern (19 bp):
CAACAGTCTCGAAGCCACA
Found at i:51613280 original size:52 final size:51
Alignment explanation
Indices: 51613213--51613383 Score: 134
Period size: 51 Copynumber: 3.3 Consensus size: 51
51613203 TGACACTAGA
*
51613213 CAAATTTTTTTTTAAATCTCGTACCTGGTGCCAGCCATTGACAGGCCAGCAC
1 CAAAATTTTTTTTAAATCTCGTACCTGGTGCCAGCCATTGA-AGGCCAGCAC
* * **
51613265 CAAAATTTTTTTTAAATACTCAT-GCTGGTGCCAG-CATTAGAAGGCCAAAAC
1 CAAAATTTTTTTTAAAT-CTCGTACCTGGTGCCAGCCATT-GAAGGCCAGCAC
* ***** * ** *
51613316 AAAAAAAAAATTAAAATCTCGTACCTAATGCC-GACCATTGATAGGCCAGCAT
1 CAAAATTTTTTTTAAATCTCGTACCTGGTGCCAG-CCATTGA-AGGCCAGCAC
51613368 C-AAATTTTTTTTAAAT
1 CAAAATTTTTTTTAAAT
51613384 ACTTGTGTTG
Statistics
Matches: 87, Mismatches: 26, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
50 5 0.06
51 39 0.45
52 39 0.45
53 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (51 bp):
CAAAATTTTTTTTAAATCTCGTACCTGGTGCCAGCCATTGAAGGCCAGCAC
Found at i:51613463 original size:101 final size:103
Alignment explanation
Indices: 51613226--51613473 Score: 306
Period size: 103 Copynumber: 2.4 Consensus size: 103
51613216 ATTTTTTTTT
*
51613226 AAATCTCGTACCTGGTGCCAGCCATTGACAGGCCAGCACCAAAATTTTTTTTAAATACTCATGCT
1 AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAAATTTTTTTTAAATACTCATGCT
*
51613291 GGTGCCAGCATTAGAAGGCCAAAACAAAAAAAAAATTA
66 GGTGCCACCATTAGAAGGCCAAAACAAAAAAAAAATTA
* * * ** *
51613329 AAATCTCGTACCTAATGCC-GACCATTGATAGGCCAGCATC-AAATTTTTTTTAAATACTTGTGT
1 AAATCTCGTACCTAGTGCCAG-CCATTGACAGGCCAGCACCAAAATTTTTTTTAAATACTCATGC
* ** *
51613392 TGGTGTCGACCATTAGAAGG-TTAAA-ATAAAAAAAATTA
65 TGGTG-CCACCATTAGAAGGCCAAAACAAAAAAAAAATTA
* * * *
51613430 AAATCTCGTGCTTTGTGCCAGCCATTGACAGGCCAGCGCCAAAA
1 AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAAA
51613474 GTATTTGATT
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
101 43 0.35
102 33 0.27
103 46 0.38
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (103 bp):
AAATCTCGTACCTAGTGCCAGCCATTGACAGGCCAGCACCAAAATTTTTTTTAAATACTCATGCT
GGTGCCACCATTAGAAGGCCAAAACAAAAAAAAAATTA
Found at i:51617237 original size:34 final size:34
Alignment explanation
Indices: 51617194--51617266 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
51617184 CTAATACAAG
51617194 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
1 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
51617228 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
1 GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
51617262 GATCT
1 GATCT
51617267 TAGTACAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.47
Consensus pattern (34 bp):
GATCTCTATGATACTTTTACTGTTCCCTTGCTAT
Found at i:51619417 original size:28 final size:28
Alignment explanation
Indices: 51619382--51619436 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
51619372 TTTAAAAAAT
51619382 TAAGATTAA-AGAATTAATTAAAATTTTA
1 TAAGATTAAGAGAATT-ATTAAAATTTTA
*
51619410 TAAGATTAATGAGAATTTTTAAAATTT
1 TAAGATTAA-GAGAATTATTAAAATTT
51619437 GAGAGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
TAAGATTAAGAGAATTATTAAAATTTTA
Found at i:51619965 original size:17 final size:16
Alignment explanation
Indices: 51619934--51619971 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
51619924 AGGTTTGAGA
*
51619934 TAAAATAATAAAATAT
1 TAAAATAAAAAAATAT
51619950 TAAAATGAAAAAAATAT
1 TAAAAT-AAAAAAATAT
51619967 TAAAA
1 TAAAA
51619972 GATTGGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAATAT
Found at i:51621834 original size:12 final size:12
Alignment explanation
Indices: 51621817--51621841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51621807 CTCATAGGGT
51621817 CCTTTTTAAATC
1 CCTTTTTAAATC
51621829 CCTTTTTAAATC
1 CCTTTTTAAATC
51621841 C
1 C
51621842 AACTTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTTTTAAATC
Found at i:51622795 original size:22 final size:23
Alignment explanation
Indices: 51622770--51622823 Score: 56
Period size: 28 Copynumber: 2.2 Consensus size: 23
51622760 ATAACCTTAC
51622770 TCAAAG-GACATCAAATTCCTTT
1 TCAAAGCGACATCAAATTCCTTT
51622792 TCAATATGAAGCGACATCAAATTCCTTT
1 TC---A--AAGCGACATCAAATTCCTTT
51622820 TCAA
1 TCAA
51622824 TATGAAGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 11
0.70 0.00 0.30
Matches are distributed among these distances:
22 2 0.08
23 1 0.04
25 2 0.08
27 3 0.12
28 18 0.69
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (23 bp):
TCAAAGCGACATCAAATTCCTTT
Found at i:51622807 original size:28 final size:28
Alignment explanation
Indices: 51622776--51622832 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51622766 TTACTCAAAG
51622776 GACATCAAATTCCTTTTCAATATGAAGC
1 GACATCAAATTCCTTTTCAATATGAAGC
51622804 GACATCAAATTCCTTTTCAATATGAAGC
1 GACATCAAATTCCTTTTCAATATGAAGC
51622832 G
1 G
51622833 TTGATCGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
GACATCAAATTCCTTTTCAATATGAAGC
Found at i:51623453 original size:13 final size:13
Alignment explanation
Indices: 51623435--51623460 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51623425 TTAAGTTTAA
51623435 ATTAATTTAAAAT
1 ATTAATTTAAAAT
51623448 ATTAATTTAAAAT
1 ATTAATTTAAAAT
51623461 TTTACTTAAG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAATTTAAAAT
Found at i:51624408 original size:518 final size:519
Alignment explanation
Indices: 51623694--51624730 Score: 1495
Period size: 519 Copynumber: 2.0 Consensus size: 519
51623684 TAATATAAAG
51623694 CATTAGAAATTTAAAAAATGGATCAAGCCTGGCCAAGCTTGGGACTTGAATGTTCAAGCCCGAGC
1 CATTAGAAATTTAAAAAATGGATCAAGCCTGGCCAAGCTTGGGACTTGAATGTTCAAGCCCGAGC
*
51623759 CCAACCCTTATTTTAAATAGACCTAATTTTTTTTGCTTAAGCTCATTTTTTCGACCTAATATTTT
66 CCAACCCTTATTTTAAATAGACCTAATTTTTTATGCTTAAGCTCATTTTTTCGACCTAATATTTT
* * *
51623824 TGTCAAAATCCTCTAAAAATTCAAGTCTGATCGGATAACTCAACCCATCAATGGTTGGTATGGAC
131 TGTCAAAATCCTCTAAAAATTCAAGTCTAATCAGATAACCCAACCCATCAATGGTTGGTATGGAC
* * *
51623889 CTTCCCCTTCCCTTTCAATTTTTTTCGATTTCAAAAAAATTAGTAAAGCATTTATTTTGTTTCCC
196 C-TACCCTTCCCTTTC-ATTTTTTTCGATTTCAAAAAAATTAGTAAAACATTTATTTTGTTTACC
* * * *
51623954 TAAAAATTTCGTAATTTGATTTTAG-GTA-CT-ATAATAAAAACAAATTAATTTTGAACTTAATG
259 TAAAAATTTCATAATTTGATTTTAGCATATATAATAATAAAAACAAATTAATTTTGAACTTAATA
* * * * * *
51624016 TTTTATGTTAATTAAGATATATAAGTATTTGTTGGTT-GGGCTATGAATAGTTTTAGGTATTGTG
324 TTTTATGTTAATTAAGATATAT-AGTATTTGTTGATTGGGGCTATGAACAATTCTAGGCATTATG
** *
51624080 TCAAAAAGT-GTTGATA-TGATCAGAACCTATAATAAAATTGTTCAAAAAAATAAACTGGTCGAT
388 TCAAAAA-TAACTGA-AGTGATCAGAACCTATAATAAAATTGTTCAAAAAAA-AAACTAGTCGAT
* * *
51624143 TATAGATTATGGAAATATAATATATTATTTTAAATTTTTATGGAAACATTTAAAGCATAATAAAC
450 TATAGATTATGGAAATATAAAATAGTATTTTAAATTTTTATAGAAACATTTAAAGCATAATAAAC
51624208 TTCTA
515 TTCTA
* * *
51624213 CATTAGAAATTTTAAAAAA-GGGTCGAG-CTGGGCCGAGCTTGGGACTTGAATGTTCAAGCCCGA
1 CATTAGAAA-TTTAAAAAATGGATCAAGCCT-GGCCAAGCTTGGGACTTGAATGTTCAAGCCCGA
51624276 GCCCAACCCTTATTTTAAATAGACCTAAATTTTTTAT-C-TAAGCTCA-TTTTTCTGACCTAATA
64 GCCCAACCCTTATTTTAAATAGACCT-AATTTTTTATGCTTAAGCTCATTTTTTC-GACCTAATA
* *
51624338 TTTTTGTCAAAATCCTCTCAAAATTCAGGTCTAAAT-AGATAACCCAACCCATCAATGGTTGGTA
127 TTTTTGTCAAAATCCTCTAAAAATTCAAGTCT-AATCAGATAACCCAACCCATCAATGGTTGGTA
*
51624402 TGGACCTACCCTTCCCTTTCATTTTTTTCGATTTTAAAAAAATTAGTAAAACATTTATTTTGTTT
191 TGGACCTACCCTTCCCTTTCATTTTTTTCGATTTCAAAAAAATTAGTAAAACATTTATTTTGTTT
*
51624467 ACCTAAAAATTTCATAATTTGATTTTAGCTATATATAATAATAAAAACAAATTGATTTTGAACTT
256 ACCTAAAAATTTCATAATTTGATTTTAGC-ATATATAATAATAAAAACAAATTAATTTTGAACTT
* **
51624532 AATATTTTATGTTAATTAAGATATATAGTATTTGTTGATTGAGGAGGGGTTATGGGCAATTCTAG
320 AATATTTTATGTTAATTAAGATATATAGTATTTGTTGATT-----GGGGCTATGAACAATTCTAG
* * **
51624597 GCATTATGTCAAAAATAACTGAAGTGATCAGAATCTATAATGAAATTGTTCAAAAAAAAATTTAG
380 GCATTATGTCAAAAATAACTGAAGTGATCAGAACCTATAATAAAATTGTTCAAAAAAAAAACTAG
*
51624662 TCGATTATAGATTATGGAAATATAAAATAGTATTTTATATTTTTATAGAAACATTTAAAGCATAA
445 TCGATTATAGATTATGGAAATATAAAATAGTATTTTAAATTTTTATAGAAACATTTAAAGCATAA
51624727 TAAA
510 TAAA
51624731 TAATTATAAG
Statistics
Matches: 463, Mismatches: 38, Indels: 29
0.87 0.07 0.05
Matches are distributed among these distances:
516 69 0.15
517 19 0.04
518 83 0.18
519 90 0.19
520 70 0.15
524 71 0.15
525 61 0.13
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (519 bp):
CATTAGAAATTTAAAAAATGGATCAAGCCTGGCCAAGCTTGGGACTTGAATGTTCAAGCCCGAGC
CCAACCCTTATTTTAAATAGACCTAATTTTTTATGCTTAAGCTCATTTTTTCGACCTAATATTTT
TGTCAAAATCCTCTAAAAATTCAAGTCTAATCAGATAACCCAACCCATCAATGGTTGGTATGGAC
CTACCCTTCCCTTTCATTTTTTTCGATTTCAAAAAAATTAGTAAAACATTTATTTTGTTTACCTA
AAAATTTCATAATTTGATTTTAGCATATATAATAATAAAAACAAATTAATTTTGAACTTAATATT
TTATGTTAATTAAGATATATAGTATTTGTTGATTGGGGCTATGAACAATTCTAGGCATTATGTCA
AAAATAACTGAAGTGATCAGAACCTATAATAAAATTGTTCAAAAAAAAAACTAGTCGATTATAGA
TTATGGAAATATAAAATAGTATTTTAAATTTTTATAGAAACATTTAAAGCATAATAAACTTCTA
Found at i:51628890 original size:31 final size:31
Alignment explanation
Indices: 51628854--51628916 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
51628844 ATTTGGTTAT
* * *
51628854 TGAACTATTTAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
51628885 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
1 TGAACTATTCAAAAGTTCTTATTCAAGTCAC
51628916 T
1 T
51628917 TTACTGTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTCTTATTCAAGTCAC
Found at i:51632972 original size:28 final size:28
Alignment explanation
Indices: 51632932--51632990 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
51632922 GGCATGCCGC
* *
51632932 ATGTAATTGTTTGGTTATTCTGTCAGCA
1 ATGTAATTGTTTGGTAATTCAGTCAGCA
51632960 ATGTAATTGTTTGGTAATTCAGTCAGCA
1 ATGTAATTGTTTGGTAATTCAGTCAGCA
51632988 ATG
1 ATG
51632991 CCAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (28 bp):
ATGTAATTGTTTGGTAATTCAGTCAGCA
Done.