Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 159 of 199
Found at i:46677981 original size:6 final size:6
Alignment explanation
Indices: 46677970--46678002 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
46677960 ATTTACTTAC
*
46677970 TTTTAT TTTTAT TTTTAT TTTTA- CTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
46678003 TGAGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:46678003 original size:12 final size:12
Alignment explanation
Indices: 46677966--46678002 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46677956 TTTCATTTAC
46677966 TTACTTTTATTT
1 TTACTTTTATTT
*
46677978 TTATTTTTATTT
1 TTACTTTTATTT
46677990 TTAC-TTTATTT
1 TTACTTTTATTT
46678001 TT
1 TT
46678003 TGAGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTACTTTTATTT
Found at i:46678744 original size:23 final size:22
Alignment explanation
Indices: 46678714--46678756 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46678704 AATAATAATA
46678714 TTATTATTACTATTGATATTAT
1 TTATTATTACTATTGATATTAT
* *
46678736 TTATATATTTCTATTTATATT
1 TTAT-TATTACTATTGATATT
46678757 TATGTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTATTACTATTGATATTAT
Found at i:46679546 original size:20 final size:20
Alignment explanation
Indices: 46679518--46679566 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
46679508 CTCAAGTTTT
*
46679518 TAAACGATCACGGGAATTAA
1 TAAAAGATCACGGGAATTAA
*
46679538 TAAAAGATCTCGGGAATTAA
1 TAAAAGATCACGGGAATTAA
46679558 TAAAAGATC
1 TAAAAGATC
46679567 GTGTCTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAAAGATCACGGGAATTAA
Found at i:46679984 original size:77 final size:77
Alignment explanation
Indices: 46679839--46679991 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 77
46679829 TATCCTTTTT
*
46679839 AAAAAATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAAATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTG
46679904 GGTTTCGATTTA
66 GGTTTCGATTTA
*
46679916 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAATGTGCT
1 AAAAAA-TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCT
46679980 GGGTTTCGATTT
65 GGGTTTCGATTT
46679992 CTCGTTTAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 35 0.48
78 38 0.52
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (77 bp):
AAAAAATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTG
GGTTTCGATTTA
Found at i:46682323 original size:40 final size:41
Alignment explanation
Indices: 46682279--46682393 Score: 160
Period size: 40 Copynumber: 2.8 Consensus size: 41
46682269 TACCTTTCGA
**
46682279 GGCTTTAGCGGCGTTTTTGAAAAAGCGTTGCTAATGCTC-G
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
* * *
46682319 GGCTTTAGTGGCATTTTTGAAAATGCGCCGCTAATGCTCGG
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
* *
46682360 GGTTTTAGCGGCGTTTTTGAAAAAGCGCAGCTAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
46682394 AAACATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
40 34 0.53
41 30 0.47
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGG
Found at i:46682762 original size:15 final size:15
Alignment explanation
Indices: 46682742--46682788 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
46682732 TATTTTAAGG
*
46682742 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
46682757 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
46682771 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
46682785 TTTA
1 TTTA
46682789 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:46682809 original size:21 final size:20
Alignment explanation
Indices: 46682775--46682815 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
46682765 TTATGAATTA
*
46682775 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
46682795 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
46682816 AGGGGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:46682827 original size:7 final size:7
Alignment explanation
Indices: 46682807--46682862 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
46682797 GATTTAAGGT
46682807 TTAGGGG
1 TTAGGGG
46682814 TTAGGGG
1 TTAGGGG
46682821 TTAGGGG
1 TTAGGGG
46682828 TTTAGGGG
1 -TTAGGGG
***
46682836 TTAGACA
1 TTAGGGG
46682843 TTAGGGG
1 TTAGGGG
* *
46682850 TTAAGAG
1 TTAGGGG
46682857 TTAGGG
1 TTAGGG
46682863 ATTTAGGATT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.21, C:0.02, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:46682846 original size:22 final size:22
Alignment explanation
Indices: 46682804--46682851 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
46682794 TGGGATTTAA
***
46682804 GGTTTAGGGGTTAGGGGTTAGG
1 GGTTTAGGGGTTAGACATTAGG
46682826 GGTTTAGGGGTTAGACATTAGG
1 GGTTTAGGGGTTAGACATTAGG
46682848 GGTT
1 GGTT
46682852 AAGAGTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.48, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAGACATTAGG
Found at i:46682876 original size:36 final size:36
Alignment explanation
Indices: 46682807--46682876 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
46682797 GATTTAAGGT
* * * *
46682807 TTAGGGGTTAGGGGTTAGGGGTTTAGGGGTTAGACA
1 TTAGGGGTTAAGAGTTAGGGATTTAGGAGTTAGACA
*
46682843 TTAGGGGTTAAGAGTTAGGGATTTAGGATTTAGA
1 TTAGGGGTTAAGAGTTAGGGATTTAGGAGTTAGA
46682877 GATTTAGAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.33
Consensus pattern (36 bp):
TTAGGGGTTAAGAGTTAGGGATTTAGGAGTTAGACA
Found at i:46683297 original size:19 final size:18
Alignment explanation
Indices: 46683268--46683320 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
46683258 GGACCAAATT
*
46683268 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
46683286 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
46683305 ATAAAAAACTAAAATT
1 ATAAAAAA-TAAAATT
46683321 TATAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:46684058 original size:248 final size:248
Alignment explanation
Indices: 46683616--46684072 Score: 666
Period size: 248 Copynumber: 1.8 Consensus size: 248
46683606 TTTAATGGAT
* * * * * *
46683616 TTAGCGGCGCTAAGATAAAAACGCCTCTAAAGGTGAGCATTAGAGGCGCTACTTGGGAAATGCCA
1 TTAGCGGCACTAAGATAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTACTTGAGAAATGCCA
* * *
46683681 CAAAACTTCATTTTAATTTAAACAAAACTGTGTCATTTTGTTTGTCAAAATTAGCGGCATTAGCG
66 CAAAACTTCATTGTAATTTAAACAAAACGGTGTCATTTTGTTAGTCAAAATTAGCGGCATTAGCG
46683746 GCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCACAAAGC
131 GCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCACAAAGC
46683811 TTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
196 TTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
* * * * *
46683864 TTAGCGGCACTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCTCTATTTTAGAAACT-CC
1 TTAGCGGCACTAAGATAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTACTTGAGAAA-TGCC
* * * * *
46683928 GCAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCGTTTTGTCTAG-CGAAATTAGCGGCATTAG
65 ACAAAACTTCATTGTAATTTAAACAAAACGGTGTCATTTTGT-TAGTCAAAATTAGCGGCATTAG
* * * * *
46683992 CGGCGCTAGGCTAAAAACGCCTCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCTACAAA
129 CGGCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCACAAA
46684057 GCTTCATTGTAGTTTA
194 GCTTCATTGTAGTTTA
46684073 AATAAGATGC
Statistics
Matches: 183, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
248 180 0.98
249 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (248 bp):
TTAGCGGCACTAAGATAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTACTTGAGAAATGCCA
CAAAACTTCATTGTAATTTAAACAAAACGGTGTCATTTTGTTAGTCAAAATTAGCGGCATTAGCG
GCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCACAAAGC
TTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
Found at i:46684091 original size:124 final size:124
Alignment explanation
Indices: 46683616--46684074 Score: 605
Period size: 124 Copynumber: 3.7 Consensus size: 124
46683606 TTTAATGGAT
* * * * * *** *
46683616 TTAGCGGCGCTAAGATAAAAACGCCTCTAAAGGTGAGCATTAGAGGCGCTACTTGGGAAATGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * * * *
46683681 CAAAACTTCATTTTAATTTAAACAAAACTGTGTCATTTTGT-TTGTCAAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAG-CGAAATTAGCGGCA
*
46683740 TTAGCGGCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * *
46683805 CAAAGCTTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * * * * *
46683864 TTAGCGGCACTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCTCTATTTTAGAAACTCCG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
*
46683929 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCGTTTTGTCTAGCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * * *
46683988 TTAGCGGCGCTAGGCTAAAAACGCCTCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCTA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
46684053 CAAAGCTTCATTGTAGTTTAAA
66 CAAAGCTTCATTGTAGTTTAAA
46684075 TAAGATGCTT
Statistics
Matches: 292, Mismatches: 42, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
124 290 0.99
125 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (124 bp):
TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
Found at i:46684276 original size:16 final size:16
Alignment explanation
Indices: 46684255--46684301 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
46684245 GTCCCTTCTG
*
46684255 CCGTCGCACTCCTTTA
1 CCGTCGCACTCCTCTA
*
46684271 CCGTCGCACTCCTCTG
1 CCGTCGCACTCCTCTA
*
46684287 CCGTTGCACTCCTCT
1 CCGTCGCACTCCTCT
46684302 TCATCAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.09, C:0.47, G:0.15, T:0.30
Consensus pattern (16 bp):
CCGTCGCACTCCTCTA
Found at i:46684456 original size:22 final size:21
Alignment explanation
Indices: 46684394--46684461 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
46684384 TTTATATTCT
46684394 CCTGTACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
* **
46684416 CCT-ACTTACGTGTGTTTTACA
1 CCTGACATAAAT-TGTTTTACA
46684437 CCTGCACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
46684459 CCT
1 CCT
46684462 TCATTGATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.14
21 12 0.32
22 15 0.41
23 5 0.14
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
CCTGACATAAATTGTTTTACA
Found at i:46685556 original size:27 final size:26
Alignment explanation
Indices: 46685526--46685576 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
46685516 TCAATTTTAT
46685526 TAATAATAAATTTTATAATTTTAAAAA
1 TAATAATAAATTTTAT-ATTTTAAAAA
** *
46685553 TAATTGTAAATTTTATTTTTTAAA
1 TAATAATAAATTTTATATTTTAAA
46685577 TATTAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATAATAAATTTTATATTTTAAAAA
Found at i:46685789 original size:19 final size:19
Alignment explanation
Indices: 46685765--46685814 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
46685755 ACATAACTTA
46685765 TTAATATTTATATACATTT
1 TTAATATTTATATACATTT
*
46685784 TTAATA--TATATATATTT
1 TTAATATTTATATACATTT
* *
46685801 ATAAAATTTATATA
1 TTAATATTTATATA
46685815 TTTTTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
19 12 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATATTTATATACATTT
Found at i:46685795 original size:17 final size:17
Alignment explanation
Indices: 46685773--46685819 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
46685763 TATTAATATT
* *
46685773 TATATACATTTTTAATA
1 TATATATATTTTTAAAA
*
46685790 TATATATATTTATAAAA
1 TATATATATTTTTAAAA
*
46685807 TTTATATATTTTT
1 TATATATATTTTT
46685820 TCAAAATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATATATTTTTAAAA
Found at i:46685815 original size:19 final size:19
Alignment explanation
Indices: 46685790--46685830 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
46685780 ATTTTTAATA
46685790 TATATATATTTAT-AAAATT
1 TATATAT-TTTATCAAAATT
*
46685809 TATATATTTTTTCAAAATT
1 TATATATTTTATCAAAATT
46685828 TAT
1 TAT
46685831 CAATCATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATTTTATCAAAATT
Found at i:46685885 original size:9 final size:9
Alignment explanation
Indices: 46685867--46686315 Score: 249
Period size: 9 Copynumber: 51.8 Consensus size: 9
46685857 CTTAAATATA
*
46685867 AACTTGCAT
1 AACTTACAT
46685876 AACTTACAT
1 AACTTACAT
*
46685885 AA-TAACATAAT
1 AACTTAC---AT
46685896 AACTTACAT
1 AACTTACAT
46685905 AA--TACAT
1 AACTTACAT
* *
46685912 AGCCTACAT
1 AACTTACAT
46685921 AACTTACAT
1 AACTTACAT
46685930 AACTTACAT
1 AACTTACAT
*
46685939 AA--TACAC
1 AACTTACAT
46685946 AACTTACAT
1 AACTTACAT
*
46685955 AACTTAAAT
1 AACTTACAT
46685964 AACTTACAT
1 AACTTACAT
46685973 AA--TACAT
1 AACTTACAT
* *
46685980 AAATTCCAT
1 AACTTACAT
46685989 AACTTACAT
1 AACTTACAT
* *
46685998 TA--TACAC
1 AACTTACAT
46686005 AACTTACAT
1 AACTTACAT
46686014 AACTTA-ATT
1 AACTTACA-T
* *
46686023 AATATTATACAC
1 -A-ACT-TACAT
46686035 AACTTACAT
1 AACTTACAT
46686044 AA--TACAT
1 AACTTACAT
*
46686051 TACTTACAT
1 AACTTACAT
*
46686060 AGCTTACAT
1 AACTTACAT
* *
46686069 TA--TACAC
1 AACTTACAT
46686076 AACTTACAT
1 AACTTACAT
46686085 AACTTA-ATT
1 AACTTACA-T
* * *
46686094 GCATTATACAC
1 -AACT-TACAT
46686105 AACTTACAT
1 AACTTACAT
46686114 AA--TACAT
1 AACTTACAT
46686121 AACTTACAT
1 AACTTACAT
**
46686130 AACTTGTAT
1 AACTTACAT
* *
46686139 TA--TACAC
1 AACTTACAT
46686146 AACTTACAT
1 AACTTACAT
46686155 AACTTA-ATT
1 AACTTACA-T
*
46686164 ACATTATACACT
1 A-ACT-TACA-T
46686176 -ACTTACAT
1 AACTTACAT
46686184 AACTTACAT
1 AACTTACAT
*
46686193 AGCTTACAT
1 AACTTACAT
* *
46686202 -TC-TACAC
1 AACTTACAT
*
46686209 AACTTACGT
1 AACTTACAT
*
46686218 AACATACAT
1 AACTTACAT
46686227 AA--TACAT
1 AACTTACAT
46686234 AACTTACAT
1 AACTTACAT
*
46686243 AA--TACAC
1 AACTTACAT
46686250 AACTTACAT
1 AACTTACAT
*
46686259 AGCTTACAT
1 AACTTACAT
46686268 AA--TACAT
1 AACTTACAT
46686275 AACTTACAT
1 AACTTACAT
*
46686284 AACTTATAT
1 AACTTACAT
46686293 AA--TACAT
1 AACTTACAT
*
46686300 AGCTTACAT
1 AACTTACAT
*
46686309 AATTTAC
1 AACTTAC
46686316 TTAATACATA
Statistics
Matches: 333, Mismatches: 63, Indels: 88
0.69 0.13 0.18
Matches are distributed among these distances:
7 74 0.22
8 9 0.03
9 219 0.66
10 11 0.03
11 11 0.03
12 8 0.02
13 1 0.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:46685924 original size:25 final size:24
Alignment explanation
Indices: 46685886--46686326 Score: 133
Period size: 25 Copynumber: 18.2 Consensus size: 24
46685876 AACTTACATA
*
46685886 ATAACATA-ATAACTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
* *
46685910 ATAGCCTACATAACTTACATAACTTAC
1 ATAACTTACATAAC-TACATAA--TAC
* *
46685937 ATAA--TACACAACTTACATAACTTAA
1 ATAACTTACATAAC-TACATAA--TAC
*
46685962 ATAACTTACATAA-TACATAAATTCC
1 ATAACTTACATAACTACAT-AA-TAC
* *
46685987 ATAACTTACATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
*
46686012 ATAACTTA-ATTAA-T--ATTATAC
1 ATAACTTACA-TAACTACATAATAC
* *
46686033 ACAACTTACATAA-TACATTACTTAC
1 ATAACTTACATAACTACA-TA-ATAC
* * *
46686058 ATAGCTTACATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
* *
46686083 ATAACTTA-AT---TGCATTATAC
1 ATAACTTACATAACTACATAATAC
*
46686103 ACAACTTACATAA-TACATAACTTAC
1 ATAACTTACATAACTACATAA--TAC
** * *
46686128 ATAACTTGTATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
*
46686153 ATAACTTA-AT---TACATTATAC
1 ATAACTTACATAACTACATAATAC
*
46686173 ACT-ACTTACATAACTTACATAGCTTAC
1 A-TAACTTACATAAC-TACATA--ATAC
* * *
46686200 AT-TC-TACACAACTTACGTAACATAC
1 ATAACTTACATAAC-TACAT-A-ATAC
46686225 ATAA--TACATAACTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
* *
46686248 ACAACTTACATAGCTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
*
46686273 ATAACTTACATAACTTATATAATAC
1 ATAACTTACATAAC-TACATAATAC
* * *
46686298 ATAGCTTACATAATTTACTTAATAC
1 ATAACTTACATAA-CTACATAATAC
46686323 ATAA
1 ATAA
46686327 ATATATATCA
Statistics
Matches: 328, Mismatches: 56, Indels: 65
0.73 0.12 0.14
Matches are distributed among these distances:
20 19 0.06
21 19 0.06
22 10 0.03
23 15 0.05
24 16 0.05
25 228 0.70
26 5 0.02
27 16 0.05
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAACTTACATAACTACATAATAC
Found at i:46685934 original size:34 final size:33
Alignment explanation
Indices: 46685886--46686294 Score: 149
Period size: 34 Copynumber: 12.4 Consensus size: 33
46685876 AACTTACATA
* *
46685886 ATAACATAATAACTTACATAATACATAGCCTAC
1 ATAACTTAATAACTTACATAATACATAACCTAC
* *
46685919 ATAACTTACATAACTTACATAATACACAACTTAC
1 ATAACTTA-ATAACTTACATAATACATAACCTAC
46685953 ATAACTTAAATAACTTACATAATACAT-A---A-
1 ATAACTT-AATAACTTACATAATACATAACCTAC
** * * *
46685982 AT---TCCATAACTTACATTATACACAACTTAC
1 ATAACTTAATAACTTACATAATACATAACCTAC
* *
46686012 ATAACTTAATTAATATTATACACAACTTACATAA--TAC
1 ATAACTTAA-T-A-ACT-TACATAA--TACATAACCTAC
* * * * *
46686049 ATTACTTACATAGCTTACATTATACACAACTTAC
1 ATAACTTA-ATAACTTACATAATACATAACCTAC
* * *
46686083 ATAACTTAATTGCATTATACACAACTTACATAA--TAC
1 ATAACTTAA-T-AACT-TACATAA--TACATAACCTAC
** * * *
46686119 ATAACTTACATAACTTGTATTATACACAACTTAC
1 ATAACTTA-ATAACTTACATAATACATAACCTAC
* *
46686153 ATAAC-T--TAA-TTACATTATACACT-ACTTAC
1 ATAACTTAATAACTTACATAATACA-TAACCTAC
* ** * *
46686182 ATAACTTACATAGCTTACATTCTACACAACTTAC
1 ATAACTTA-ATAACTTACATAATACATAACCTAC
* *
46686216 GTAACATACATAA--TACATAACTTACATAA--TAC
1 ATAACTTA-ATAACTTACATAA--TACATAACCTAC
* * *
46686248 ACAACTTACATAGCTTACATAATACATAACTTAC
1 ATAACTTA-ATAACTTACATAATACATAACCTAC
46686282 ATAACTTATATAA
1 ATAACTTA-ATAA
46686295 TACATAGCTT
Statistics
Matches: 282, Mismatches: 54, Indels: 79
0.68 0.13 0.19
Matches are distributed among these distances:
25 16 0.06
26 2 0.01
29 24 0.09
30 7 0.02
32 36 0.13
33 14 0.05
34 127 0.45
35 6 0.02
36 20 0.07
37 17 0.06
38 7 0.02
39 6 0.02
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (33 bp):
ATAACTTAATAACTTACATAATACATAACCTAC
Found at i:46686126 original size:45 final size:41
Alignment explanation
Indices: 46686029--46686285 Score: 153
Period size: 41 Copynumber: 6.0 Consensus size: 41
46686019 AATTAATATT
* * * *
46686029 ATACACAACTTACATAA--TACATTACTTACATAGCTTACATT
1 ATACACAACTTACATAACTTGCATTA--TACACAACTTACATA
46686070 ATACACAACTTACATAACTTAATTGCATTATACACAACTTACATA
1 ATACACAACTTACATAAC----TTGCATTATACACAACTTACATA
* *
46686115 ATACATAACTTACATAACTTGTATTATACACAACTTACATA
1 ATACACAACTTACATAACTTGCATTATACACAACTTACATA
* * * * * * *
46686156 ACTTA-ATTACATTATACACT-ACTTACATAACTTACATAGCTTACATT
1 A--TACA-CA-ACT-TACA-TAACTTGCATTA--TACACAACTTACATA
* * * * * *
46686203 CTACACAACTTACGTAACATACATAATACATAACTTACATA
1 ATACACAACTTACATAACTTGCATTATACACAACTTACATA
* * * *
46686244 ATACACAACTTACATAGCTTACATAATACATAACTTACATA
1 ATACACAACTTACATAACTTGCATTATACACAACTTACATA
46686285 A
1 A
46686286 CTTATATAAT
Statistics
Matches: 176, Mismatches: 24, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
41 91 0.52
42 2 0.01
43 16 0.09
44 4 0.02
45 43 0.24
46 2 0.01
47 18 0.10
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (41 bp):
ATACACAACTTACATAACTTGCATTATACACAACTTACATA
Found at i:46686273 original size:16 final size:16
Alignment explanation
Indices: 46685873--46686311 Score: 161
Period size: 16 Copynumber: 28.9 Consensus size: 16
46685863 TATAAACTTG
46685873 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
46685890 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
* *
46685909 CATAGCCTACATAACTTA
1 CATAACTTACATAA--TA
46685927 CATAACTTACATAATA
1 CATAACTTACATAATA
*
46685943 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
*
46685961 AATAACTTACATAATA
1 CATAACTTACATAATA
*
46685977 CAT-A---A-AT--TC
1 CATAACTTACATAATA
*
46685986 CATAACTTACATTATA
1 CATAACTTACATAATA
*
46686002 CACAACTTACAT-A-A
1 CATAACTTACATAATA
*
46686016 CTTAA-TTA-ATATTATA
1 CATAACTTACATA--ATA
*
46686032 CACAACTTACATAATA
1 CATAACTTACATAATA
46686048 C---A-TTAC-T--TA
1 CATAACTTACATAATA
* *
46686057 CATAGCTTACATTATA
1 CATAACTTACATAATA
*
46686073 CACAACTTACAT-A-A
1 CATAACTTACATAATA
* * *
46686087 CTTAA-TTGCATTATA
1 CATAACTTACATAATA
*
46686102 CACAACTTACATAATA
1 CATAACTTACATAATA
46686118 CATAACTTACAT-A-A
1 CATAACTTACATAATA
*
46686132 C-T---TGT--ATTATA
1 CATAACT-TACATAATA
*
46686143 CACAACTTACAT-A-A
1 CATAACTTACATAATA
* *
46686157 CTTAA-TTACATTATA
1 CATAACTTACATAATA
46686172 CACT-ACTTACATAACTTA
1 CA-TAACTTACATAA--TA
* **
46686190 CATAGCTTACATTCTA
1 CATAACTTACATAATA
* *
46686206 CACAACTTACGT-A-A
1 CATAACTTACATAATA
46686220 C---A--TACATAATA
1 CATAACTTACATAATA
46686231 CATAACTTACATAATA
1 CATAACTTACATAATA
* *
46686247 CACAACTTACATAGCTTA
1 CATAACTTACATA--ATA
46686265 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
*
46686281 CATAACTTATATAATA
1 CATAACTTACATAATA
*
46686297 CATAGCTTACATAAT
1 CATAACTTACATAAT
46686312 TTACTTAATA
Statistics
Matches: 317, Mismatches: 46, Indels: 119
0.66 0.10 0.25
Matches are distributed among these distances:
9 13 0.04
10 4 0.01
11 9 0.03
12 7 0.02
13 21 0.07
14 23 0.07
15 14 0.04
16 151 0.48
17 5 0.02
18 54 0.17
19 2 0.01
20 14 0.04
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:46686299 original size:41 final size:40
Alignment explanation
Indices: 46686177--46686311 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 40
46686167 TTATACACTA
* ** * *
46686177 CTTACATAACTTACATAGCTTACATTCTACACAACTTACGTAA
1 CTTACATAA--TACATAACTTACATAATACACAAC-TACATAG
*
46686220 CATACATAATACATAACTTACATAATACACAACTTACATAG
1 CTTACATAATACATAACTTACATAATACACAAC-TACATAG
* *
46686261 CTTACATAATACATAACTTACATAACTTATATAA-TACATAG
1 CTTACATAATACATAACTTACATAA--TACACAACTACATAG
46686302 CTTACATAAT
1 CTTACATAAT
46686312 TTACTTAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
41 68 0.84
43 13 0.16
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.32
Consensus pattern (40 bp):
CTTACATAATACATAACTTACATAATACACAACTACATAG
Found at i:46689839 original size:11 final size:11
Alignment explanation
Indices: 46689813--46689890 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
46689803 AATTAATCCT
46689813 CTCTCAAATTTA
1 CTCTC-AATTTA
*
46689825 CTCTCAATTTC
1 CTCTCAATTTA
*
46689836 CTCTCAATTTG
1 CTCTCAATTTA
46689847 CTCTCAA---A
1 CTCTCAATTTA
46689855 -TC-CATATTTA
1 CTCTCA-ATTTA
* *
46689865 ATCTCAATTTG
1 CTCTCAATTTA
*
46689876 CTCTCAATTTT
1 CTCTCAATTTA
46689887 CTCT
1 CTCT
46689891 TAAATTTCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.04
7 3 0.06
10 1 0.02
11 41 0.76
12 7 0.13
ACGTcount: A:0.24, C:0.28, G:0.03, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTA
Found at i:46689864 original size:40 final size:40
Alignment explanation
Indices: 46689820--46689895 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
46689810 CCTCTCTCAA
*
46689820 ATTTACTCTCAATTTCCTCTCAATTTGCTCTCAAATCCAT
1 ATTTAATCTCAATTTCCTCTCAATTTGCTCTCAAATCCAT
* * *
46689860 ATTTAATCTCAATTTGCTCTCAATTTTCTCTTAAAT
1 ATTTAATCTCAATTTCCTCTCAATTTGCTCTCAAAT
46689896 TTCTCTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (40 bp):
ATTTAATCTCAATTTCCTCTCAATTTGCTCTCAAATCCAT
Found at i:46689881 original size:51 final size:52
Alignment explanation
Indices: 46689814--46689914 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 52
46689804 ATTAATCCTC
*
46689814 TCTCAAATTTACTCTCAATTTCCTC-TCAATTTGCTCTCAAATCCATATTTAA
1 TCTCAAATTTACTCTCAATTTCCTCTTAAATTT-CTCTCAAATCCATATTTAA
* * * *
46689866 TCTC-AATTTGCTCTCAATTTTCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTTACTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTT
46689915 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 33 0.77
52 10 0.23
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.47
Consensus pattern (52 bp):
TCTCAAATTTACTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:46691934 original size:13 final size:13
Alignment explanation
Indices: 46691893--46691935 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46691883 TAGATTTTTC
46691893 CTAAATATTATCA
1 CTAAATATTATCA
*
46691906 CCAAATA--ATC-
1 CTAAATATTATCA
46691916 CTAAATATTATCA
1 CTAAATATTATCA
46691929 CTAAATA
1 CTAAATA
46691936 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:46691944 original size:23 final size:23
Alignment explanation
Indices: 46691891--46691937 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46691881 GTTAGATTTT
46691891 TCCTAAATATTATCACCAAATAA
1 TCCTAAATATTATCACCAAATAA
*
46691914 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACCAAATAA
46691937 T
1 T
46691938 TTAAAATTTA
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:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (23 bp):
TCCTAAATATTATCACCAAATAA
Found at i:46692672 original size:19 final size:19
Alignment explanation
Indices: 46692650--46692699 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
46692640 AAAAATAATC
*
46692650 CAAAATAATTT-TTAAAATT
1 CAAAAT-ATTTATAAAAATT
46692669 CAAAATATTTATAAAAATT
1 CAAAATATTTATAAAAATT
*
46692688 CTAAA-ATTTATA
1 CAAAATATTTATA
46692700 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
CAAAATATTTATAAAAATT
Found at i:46714538 original size:13 final size:13
Alignment explanation
Indices: 46714520--46714545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46714510 ATAAGAGTTA
46714520 AAATATCAAATTT
1 AAATATCAAATTT
46714533 AAATATCAAATTT
1 AAATATCAAATTT
46714546 GAGTGAAATA
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:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATATCAAATTT
Found at i:46717076 original size:9 final size:10
Alignment explanation
Indices: 46717058--46717087 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46717048 AAAAGGTTAA
46717058 AAATATTTTT
1 AAATATTTTT
46717068 AAATATTTTT
1 AAATATTTTT
46717078 AAA-ATTTTT
1 AAATATTTTT
46717087 A
1 A
46717088 GAGTTAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AAATATTTTT
Found at i:46718063 original size:15 final size:15
Alignment explanation
Indices: 46718037--46718075 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
46718027 GTGGTATCAA
46718037 AACATA-TC-AATTC
1 AACATATTCAAATTC
*
46718050 AACTTATTCAAATTC
1 AACATATTCAAATTC
46718065 AACATATTCAA
1 AACATATTCAA
46718076 TCATTCACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 5 0.23
14 2 0.09
15 15 0.68
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (15 bp):
AACATATTCAAATTC
Found at i:46727243 original size:33 final size:36
Alignment explanation
Indices: 46727176--46727262 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 36
46727166 AAAAAAAGAA
*
46727176 ATATA-ATATATAT-AAATATGCACGTTTATATAAT
1 ATATATATATATATAAAATATACACGTTTATATAAT
*
46727210 ATATATATATATATAAAATATACATGTTTTAATATATAT
1 ATATATATATATATAAAATATACACG-TTT-ATATA-AT
*
46727249 AAATATATATATAT
1 ATATATATATATAT
46727263 GAATAGGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 5 0.11
35 8 0.18
36 9 0.20
37 3 0.07
38 5 0.11
39 15 0.33
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
ATATATATATATATAAAATATACACGTTTATATAAT
Found at i:46727247 original size:35 final size:35
Alignment explanation
Indices: 46727176--46727259 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
46727166 AAAAAAAGAA
*
46727176 ATATAATATATAT-AAATATGCACGTTTATATAAT
1 ATATAATATATATAAAATATACACGTTTATATAAT
*
46727210 ATATATATATATATAAAATATACATGTTT-TA-ATAT
1 ATATA-ATATATATAAAATATACACGTTTATATA-AT
46727245 ATATAAATATATATA
1 ATAT-AATATATATA
46727260 TATGAATAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 6 0.14
35 25 0.57
36 13 0.30
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (35 bp):
ATATAATATATATAAAATATACACGTTTATATAAT
Found at i:46727333 original size:18 final size:18
Alignment explanation
Indices: 46727306--46727340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46727296 ATAAGAGAAA
* *
46727306 TAACAGTAATATTAATAC
1 TAACAATAATAGTAATAC
46727324 TAACAATAATAGTAATA
1 TAACAATAATAGTAATA
46727341 ATAATAACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (18 bp):
TAACAATAATAGTAATAC
Found at i:46727342 original size:3 final size:3
Alignment explanation
Indices: 46727312--46727406 Score: 86
Period size: 3 Copynumber: 32.0 Consensus size: 3
46727302 GAAATAACAG
* * * * **
46727312 TAA TAT TAA TAC TAA CAA TAA TAG TAA TAA TAA TAA CCA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
46727360 TAA TAG TAA -AC TAA TAA TAA TAA TATT TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
46727404 TAA
1 TAA
46727407 CGTAAAATTG
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
2 3 0.04
3 66 0.93
4 2 0.03
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46727348 original size:21 final size:20
Alignment explanation
Indices: 46727312--46727406 Score: 100
Period size: 21 Copynumber: 4.6 Consensus size: 20
46727302 GAAATAACAG
* *
46727312 TAATATTAATACTAACAATAA
1 TAATAATAATAATAA-AATAA
* *
46727333 TAGTAATAATAATAACCATAA
1 TAATAATAATAATAA-AATAA
* *
46727354 TAATAATAATAGTAAACTAA
1 TAATAATAATAATAAAATAA
*
46727374 TAATAATAATATTTAAAATAA
1 TAATAATAATA-ATAAAATAA
46727395 TAATAATAATAA
1 TAATAATAATAA
46727407 CGTAAAATTG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
20 14 0.23
21 48 0.77
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
TAATAATAATAATAAAATAA
Found at i:46727474 original size:29 final size:29
Alignment explanation
Indices: 46727418--46727482 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
46727408 GTAAAATTGC
*
46727418 TAAAATATGGGTTAAATCGAAATAAAAACA
1 TAAAATATGGGTGAAATCGAAATAAAAA-A
* *
46727448 -AAAATATAGGGTGAAATTGAAA-GAAAAA
1 TAAAATAT-GGGTGAAATCGAAATAAAAAA
46727476 TAAAATA
1 TAAAATA
46727483 AAAGGGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.57
30 12 0.40
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.22
Consensus pattern (29 bp):
TAAAATATGGGTGAAATCGAAATAAAAAA
Found at i:46735673 original size:21 final size:20
Alignment explanation
Indices: 46735632--46735677 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
46735622 TAAGTAGCTC
**
46735632 AAAAAATATTAAAAGGGTAT
1 AAAAAATATTAAAAGAATAT
*
46735652 AAAAAATAGTTAAAATAATAT
1 AAAAAATA-TTAAAAGAATAT
46735673 AAAAA
1 AAAAA
46735678 TAACCATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (20 bp):
AAAAAATATTAAAAGAATAT
Found at i:46735978 original size:24 final size:24
Alignment explanation
Indices: 46735899--46736025 Score: 83
Period size: 24 Copynumber: 5.5 Consensus size: 24
46735889 ACACAAAAAA
* * *
46735899 ATAGTACATGATAAA-TCTAAATA
1 ATAGTATATGATAAATTTTAAATT
* *
46735922 AT-G-ATATGATAAGTTTAAAATT
1 ATAGTATATGATAAATTTTAAATT
*
46735944 ATAGTACATGATAAATTTTAAATT
1 ATAGTATATGATAAATTTTAAATT
*
46735968 AT-GATATATGATAGA-TTTAAA-T
1 ATAG-TATATGATAAATTTTAAATT
* *
46735990 AGTACT-TATGAT-AA-TTTAAGATA
1 A-TAGTATATGATAAATTTTAA-ATT
46736013 ATAGTATATGATA
1 ATAGTATATGATA
46736026 TTAAAATAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
21 14 0.17
22 20 0.25
23 19 0.24
24 27 0.34
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (24 bp):
ATAGTATATGATAAATTTTAAATT
Found at i:46740044 original size:354 final size:354
Alignment explanation
Indices: 46739395--46740107 Score: 1095
Period size: 354 Copynumber: 2.0 Consensus size: 354
46739385 ATATGACAAT
* * ** *
46739395 TGATGCTACATGAGCATGCGCTCGCTCGTGTGGAAATTCAAACGCATAAAATGTGAGCGTTAGAC
1 TGATGCTACACGAGCATGCGCTCGCTCGTGTAGAAATTCAAACGCATAAAACATGAGCGTCAGAC
* *
46739460 TATTGAGGCCACCGTGAGCGAATCGTGGTCTTCGGCCGTTTTACGCCATGTTGGGCCAAAATGGA
66 TATTGAGGCCACCATGAGCGAATCATGGTCTTCGGCCGTTTTACGCCATGTTGGGCCAAAATGGA
* ** ** *
46739525 CTGTGTGGGCCCAATAGGCTTGTGGGCCTCACATGGGTAAATGAAATGAACGTGACAAGATTATT
131 CCGTGTGGGCCCAATAGGCTTGTGGGAATCACATGGGTAAACCAAACGAACGTGACAAGATTATT
46739590 AGGCCAAACTATGTGGTTTTCATGACAAAGACCAATTTTGGGCTATGTGGGCCACACGGGCGTGT
196 AGGCCAAACTATGTGGTTTTCATGACAAAGACCAATTTTGGGCTATGTGGGCCACACGGGCGTGT
* *
46739655 GGACCCGCATGAGCTCGCATTATAGGCATTTGGCCCAATTTCACTGTTTGACTATTAAGGTTGCA
261 GGACCCGCATGAGCTCGCATTATAGGCATTTGGCCCAATTTCACTATTTGACTACTAAGGTTGCA
** *
46739720 CAGGTTGCCCGAGAGGACTGTGGACCTAC
326 CAAATAGCCCGAGAGGACTGTGGACCTAC
* * * *
46739749 TGATGCTACACGAGCGTGTGCTTGCTCGTGTAGAAATTCATACGCATAAAACAT-AGGCGTCAGA
1 TGATGCTACACGAGCATGCGCTCGCTCGTGTAGAAATTCAAACGCATAAAACATGA-GCGTCAGA
* ** *
46739813 CTATTGAGGGCACCATGAGCGAATCATGGTCTTCGGCCGTTTTGGGCCATGTTGGGCCGAAATGG
65 CTATTGAGGCCACCATGAGCGAATCATGGTCTTCGGCCGTTTTACGCCATGTTGGGCCAAAATGG
* * * * *
46739878 GCCGTGTGGGCCCAATGGGCTTGTGGGAATCACATGGGTAAACCACACGAATGTGACGAGATTAT
130 ACCGTGTGGGCCCAATAGGCTTGTGGGAATCACATGGGTAAACCAAACGAACGTGACAAGATTAT
* * *
46739943 TAGGCCAAACTATGTGGTTTTCATGACCAAGACCAATTTTTGGCTATGTGGGCCATACGGGCGTG
195 TAGGCCAAACTATGTGGTTTTCATGACAAAGACCAATTTTGGGCTATGTGGGCCACACGGGCGTG
*
46740008 TGGACCCGCATGAGCTCGCATTATAGGCATTTGGCCCAATTTTACTATTTGACTACTAAGGTTGC
260 TGGACCCGCATGAGCTCGCATTATAGGCATTTGGCCCAATTTCACTATTTGACTACTAAGGTTGC
46740073 ACAAATAGCCCGAGAGGACTGTGGACCTAC
325 ACAAATAGCCCGAGAGGACTGTGGACCTAC
46740103 TGATG
1 TGATG
46740108 GGTCGATAAG
Statistics
Matches: 323, Mismatches: 35, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
353 1 0.00
354 322 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (354 bp):
TGATGCTACACGAGCATGCGCTCGCTCGTGTAGAAATTCAAACGCATAAAACATGAGCGTCAGAC
TATTGAGGCCACCATGAGCGAATCATGGTCTTCGGCCGTTTTACGCCATGTTGGGCCAAAATGGA
CCGTGTGGGCCCAATAGGCTTGTGGGAATCACATGGGTAAACCAAACGAACGTGACAAGATTATT
AGGCCAAACTATGTGGTTTTCATGACAAAGACCAATTTTGGGCTATGTGGGCCACACGGGCGTGT
GGACCCGCATGAGCTCGCATTATAGGCATTTGGCCCAATTTCACTATTTGACTACTAAGGTTGCA
CAAATAGCCCGAGAGGACTGTGGACCTAC
Found at i:46740198 original size:27 final size:27
Alignment explanation
Indices: 46740140--46740205 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
46740130 CCCAAACTGA
* *
46740140 TATAAAGTGACTGTTATGCCCCCACGT
1 TATAAAATGACTGTTATGCCCCCACAT
* ** *
46740167 GATAAAATGACTGTTATGCCCTTATAT
1 TATAAAATGACTGTTATGCCCCCACAT
46740194 TATAAAATGACT
1 TATAAAATGACT
46740206 ATATGCTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTGTTATGCCCCCACAT
Found at i:46740542 original size:32 final size:32
Alignment explanation
Indices: 46740494--46740554 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
46740484 TTACTGTCAC
46740494 TGTAATGGGCTAAGG-CCACACTGATACTGATAT
1 TGTAATGGGCTAAGGCCCA-ACTGA-ACTGATAT
46740527 TGTAAT-GGCTAAGGCCCAACTGAACTGA
1 TGTAATGGGCTAAGGCCCAACTGAACTGA
46740555 ACTATTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (32 bp):
TGTAATGGGCTAAGGCCCAACTGAACTGATAT
Found at i:46745948 original size:46 final size:44
Alignment explanation
Indices: 46745889--46746003 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
46745879 ACAGGACAGA
* *
46745889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
46745935 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
46745979 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
46746004 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:46745984 original size:44 final size:45
Alignment explanation
Indices: 46745889--46746022 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
46745879 ACAGGACAGA
* *
46745889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
46745935 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
46745979 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
46746023 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:46747877 original size:30 final size:31
Alignment explanation
Indices: 46747841--46747908 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
46747831 TTTTATAAAT
*
46747841 TATTTAAATAA-TG-AAAAATAATTTTATTTA
1 TATTTAAATAATTGAAAAAAT-ACTTTATTTA
46747871 TATTTAAATAATTTGAAAAAATACTTTATTTA
1 TATTTAAATAA-TTGAAAAAATACTTTATTTA
*
46747903 AATTTA
1 TATTTA
46747909 TCACCTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 11 0.33
32 16 0.48
33 6 0.18
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (31 bp):
TATTTAAATAATTGAAAAAATACTTTATTTA
Found at i:46748319 original size:16 final size:16
Alignment explanation
Indices: 46748298--46748355 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
46748288 TTCGCTGTAT
*
46748298 TGGAATAAAGGCGTAA
1 TGGAATAGAGGCGTAA
46748314 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
46748330 TGAAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
46748346 TGGAATAGAG
1 TGGAATAGAG
46748356 TTGTAATAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.34, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:46748360 original size:16 final size:16
Alignment explanation
Indices: 46748293--46748362 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
46748283 TTTGGTTCGC
* *
46748293 TGTATTGGAATAAAGG
1 TGTAATGGAATAGAGG
*
46748309 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
46748325 CGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
*
46748341 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGG
46748357 TGTAAT
1 TGTAAT
46748363 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:46748745 original size:14 final size:15
Alignment explanation
Indices: 46748696--46748747 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46748686 ATAAAATATA
46748696 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46748711 TATTAAATATATTAT
1 AATTAAATATATTAT
46748726 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46748739 AATTTAATA
1 AATTAAATA
46748748 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46748801 original size:120 final size:120
Alignment explanation
Indices: 46748579--46749111 Score: 908
Period size: 120 Copynumber: 4.4 Consensus size: 120
46748569 ATCATATTTA
* *
46748579 AACATAATTATTACTAAATATATTATAATTAAAATATATAATTTAATAAATTTCCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-CTTAATAATCA
*
46748644 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
46748700 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
46748765 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
*
46748820 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
46748885 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* * * *
46748940 GACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
46749005 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* * *
46749060 GAA-ATAATTA-AATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
46749112 TAAAATAATT
Statistics
Matches: 399, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 39 0.10
120 308 0.77
121 52 0.13
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
Found at i:46748865 original size:14 final size:15
Alignment explanation
Indices: 46748816--46748867 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46748806 ATAAAATATA
46748816 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
46748831 TATTAAATATATTAT
1 AATTAAATATATTAT
46748846 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
46748859 AATTTAATA
1 AATTAAATA
46748868 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:46749093 original size:16 final size:17
Alignment explanation
Indices: 46749070--46749110 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
46749060 GAAATAATTA
46749070 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
46749085 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
46749103 AA-TAAAAT
1 AATTAAAAT
46749111 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:46751442 original size:12 final size:12
Alignment explanation
Indices: 46751425--46751451 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46751415 AGCGACGAAA
46751425 CAATTGCTCAAC
1 CAATTGCTCAAC
46751437 CAATTGCTCAAC
1 CAATTGCTCAAC
46751449 CAA
1 CAA
46751452 AATTAGCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (12 bp):
CAATTGCTCAAC
Found at i:46757699 original size:16 final size:16
Alignment explanation
Indices: 46757664--46757700 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
46757654 TGTTATTTCA
46757664 AAAATTGATTATCTTT
1 AAAATTGATTATCTTT
46757680 -AAATTGATTTAT-TTT
1 AAAATTGA-TTATCTTT
46757695 AAAATT
1 AAAATT
46757701 CCTCTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
AAAATTGATTATCTTT
Found at i:46757731 original size:21 final size:20
Alignment explanation
Indices: 46757707--46757745 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
46757697 AATTCCTCTT
46757707 TTATATATTATATTTAACTCA
1 TTATATATTAT-TTTAACTCA
*
46757728 TTATATGTTATTTTAACT
1 TTATATATTATTTTAACT
46757746 TGCTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (20 bp):
TTATATATTATTTTAACTCA
Found at i:46757799 original size:27 final size:28
Alignment explanation
Indices: 46757760--46757818 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
46757750 TTGTAAAGGA
*
46757760 TTTATTTTAAGTTATTTTATATATT-AT
1 TTTATTTTAAGTTACTTTATATATTAAT
* *
46757787 TTTATTTTTAGTTGCTTTATATATTAAT
1 TTTATTTTAAGTTACTTTATATATTAAT
46757815 TTTA
1 TTTA
46757819 AAATTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTATTTTAAGTTACTTTATATATTAAT
Found at i:46758194 original size:18 final size:17
Alignment explanation
Indices: 46758167--46758210 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46758157 GATTATTGCT
*
46758167 CTTATGTGTATTGTAATG
1 CTTATTTGTATTG-AATG
*
46758185 CTTATTTGTATTGATTG
1 CTTATTTGTATTGAATG
*
46758202 ATTATTTGT
1 CTTATTTGT
46758211 GTTCATTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57
Consensus pattern (17 bp):
CTTATTTGTATTGAATG
Found at i:46759689 original size:15 final size:15
Alignment explanation
Indices: 46759669--46759701 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46759659 TGTGTTTTGT
46759669 TTTGATTGCATGGCA
1 TTTGATTGCATGGCA
*
46759684 TTTGATTGCATTGCA
1 TTTGATTGCATGGCA
46759699 TTT
1 TTT
46759702 TCATCATAAA
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:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTGATTGCATGGCA
Found at i:46776738 original size:44 final size:44
Alignment explanation
Indices: 46776686--46777041 Score: 164
Period size: 44 Copynumber: 7.6 Consensus size: 44
46776676 GAAATTACAG
46776686 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* * ** ** ** *
46776730 ATCCTATCTCCCTAAGATTACAATGGAGTGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTA
* * * *
46776774 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGAATCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTGAAGCTAGTA
46776828 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* ** * ** *
46776872 ATCCTATCTCCCTGAGATTACAGTAGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGTA
* * * * *
46776916 ATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAGATTAC---AGCG--GA--G---CAGATTGAAGCTAGTA
* * *
46776970 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAACCAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* * * *
46777014 ACCCTATCTCACTGAGATTACAGTGGAG
1 ATCTTATCTCCCTGAGATTACAGCGGAG
46777042 TGGATTAAAA
Statistics
Matches: 230, Mismatches: 52, Indels: 60
0.67 0.15 0.18
Matches are distributed among these distances:
43 7 0.03
44 143 0.62
45 4 0.02
47 6 0.03
49 8 0.03
51 7 0.03
53 4 0.02
54 46 0.20
55 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
Found at i:46777034 original size:98 final size:98
Alignment explanation
Indices: 46776856--46777042 Score: 232
Period size: 98 Copynumber: 1.9 Consensus size: 98
46776846 TACAGCGGAG
* * * * * * *
46776856 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCAGAGCAGATTAAAATAAAGAACCCT
*
46776921 ATCTCTCTGAAATTACAGTAGAGTAGATCGCAT
66 ATCTCACTGAAATTACAGTAGAGTAGATCGCAT
* * **
46776954 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAA-CCAGTAACCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCAGAGCAGATTAAAATAAAG-AACCC
* *
46777018 TATCTCACTGAGATTACAGTGGAGT
65 TATCTCACTGAAATTACAGTAGAGT
46777043 GGATTAAAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
97 2 0.03
98 72 0.97
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (98 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCAGAGCAGATTAAAATAAAGAACCCT
ATCTCACTGAAATTACAGTAGAGTAGATCGCAT
Found at i:46777092 original size:142 final size:142
Alignment explanation
Indices: 46776686--46777098 Score: 684
Period size: 142 Copynumber: 2.9 Consensus size: 142
46776676 GAAATTACAG
*
46776686 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
46776751 AATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGA
66 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
46776816 TTGAAGCCAGAA
131 TTGAAGCCAGAA
46776828 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
46776893 AGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
46776958 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* * * * *
46776970 ATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAACCAGTAACCCTATCTCACTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * *
46777035 AGTGGAGTGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACCGTAGA-AAGGATCGCATCAG
66 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA-GATCGCATCAG
46777099 GTCTTATCTC
Statistics
Matches: 253, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 1 0.00
142 252 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (142 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:46780705 original size:18 final size:17
Alignment explanation
Indices: 46780682--46780718 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
46780672 AATTATTATT
46780682 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
46780698 AAATATATGATTTAATA
1 AAATATATGATTTAATA
46780715 AAAT
1 AAAT
46780719 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:46780707 original size:59 final size:59
Alignment explanation
Indices: 46780553--46780958 Score: 274
Period size: 59 Copynumber: 6.8 Consensus size: 59
46780543 ATTTTAACAC
* * * * *
46780553 AATTATTATTAAATATA-TTAAATTAAAATATATAATTTAATAAAATTCTTAATAAT-CAAT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAAAT
* * * * ** * *
46780613 -ATTCTTATATGAATTTACTCAAATCATAATATATGATATT-ATAAAATATAATTTGAAAT
1 AATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAAAT
* * *
46780672 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT-CAAT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAAAT
* * * * ** * * *
46780733 -ATTCTTATATGAATTTACTCAAATCATAATATATGATACT-ATAAAATATAATTTGAAAT
1 AATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAAAT
* * *
46780792 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT-CAAT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAAAT
* * * **** * *
46780853 -ATTCTTATATGAATTTACCAAAATCAAAATATATGATACT-ATAAAATATAATTTGAAAT
1 AATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAAAT
46780912 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
46780959 TCTTAATAAT
Statistics
Matches: 258, Mismatches: 66, Indels: 45
0.70 0.18 0.12
Matches are distributed among these distances:
58 7 0.03
59 110 0.43
60 46 0.18
61 89 0.34
62 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (59 bp):
AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAATTTGAAAT
Found at i:46780712 original size:120 final size:120
Alignment explanation
Indices: 46780553--46780968 Score: 773
Period size: 120 Copynumber: 3.5 Consensus size: 120
46780543 ATTTTAACAC
* *
46780553 AATTATTATTAAATATA-TTAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTC
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
*
46780617 TTATATGAATTTACTCAAATCATAATATATGATATTATAAAATATAATTTGAAAT
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAAAT
46780672 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
46780737 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAAAT
66 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAAAT
46780792 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
*
46780857 TTATATGAATTTAC-CAAAATCAAAATATATGATACTATAAAATATAATTTGAAAT
66 TTATATGAATTTACTC-AAATCATAATATATGATACTATAAAATATAATTTGAAAT
46780912 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
46780969 TATTACTAAT
Statistics
Matches: 291, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
119 18 0.06
120 273 0.94
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTC
TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAAAT
Found at i:46780825 original size:18 final size:17
Alignment explanation
Indices: 46780802--46780838 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
46780792 AATTATTATT
46780802 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
46780818 AAATATATGATTTAATA
1 AAATATATGATTTAATA
46780835 AAAT
1 AAAT
46780839 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:46780897 original size:61 final size:60
Alignment explanation
Indices: 46780572--46780899 Score: 245
Period size: 61 Copynumber: 5.5 Consensus size: 60
46780562 TAAATATATT
* *
46780572 AAATTAAAATATATAAT-TTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTC
1 AAATCAAAATATATGATATT-ATAAAATTCTTAATAATCAATATTCTTATATGAATTTAC-C
* * * * *
46780633 AAATCATAATATATGATATTATAAAATATAATTTGA-AAT-AATTATTATTAAAT-ATATTT---
1 AAATCAAAATATATGATATTATAAAAT-T--CTTAATAATCAA-TATTCTTATATGA-ATTTACC
* *
46780692 TAATTAAAATATATGAT-TTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTC
1 AAATCAAAATATATGATATT-ATAAAATTCTTAATAATCAATATTCTTATATGAATTTAC-C
* * * * * *
46780753 AAATCATAATATATGATACTATAAAATATAATTTGA-AAT-AATTATTATTAAAT-ATATTT---
1 AAATCAAAATATATGATATTATAAAAT-T--CTTAATAATCAA-TATTCTTATATGA-ATTTACC
* *
46780812 TAATTAAAATATATGAT-TTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACC
1 AAATCAAAATATATGATATT-ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACC
*
46780872 AAAATCAAAATATATGATACTATAAAAT
1 -AAATCAAAATATATGATATTATAAAAT
46780900 ATAATTTGAA
Statistics
Matches: 205, Mismatches: 33, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
56 6 0.03
57 32 0.16
58 11 0.05
59 42 0.20
61 64 0.31
62 12 0.06
63 32 0.16
64 6 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (60 bp):
AAATCAAAATATATGATATTATAAAATTCTTAATAATCAATATTCTTATATGAATTTACC
Found at i:46780945 original size:18 final size:17
Alignment explanation
Indices: 46780922--46780958 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
46780912 AATTATTATT
46780922 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
46780938 AAATATATGATTTAATA
1 AAATATATGATTTAATA
46780955 AAAT
1 AAAT
46780959 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:46786037 original size:28 final size:28
Alignment explanation
Indices: 46786004--46786067 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
46785994 AATTTAAACA
46786004 AAAATTAACGTTAGCATTTTAATCGGTT
1 AAAATTAACGTTAGCATTTTAATCGGTT
46786032 AAAATTAACGTTAGCATTTTAATCGGTT
1 AAAATTAACGTTAGCATTTTAATCGGTT
46786060 AAAATTAA
1 AAAATTAA
46786068 ACAAAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (28 bp):
AAAATTAACGTTAGCATTTTAATCGGTT
Found at i:46792242 original size:47 final size:48
Alignment explanation
Indices: 46792144--46792242 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 48
46792134 TCACATGAAG
* **
46792144 AAAAAAAGAACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTTCTTA
1 AAAAAAAGAACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAA
*
46792192 AAAAAAAG-ACCAATGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAA
1 AAAAAAAGAACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAA
46792239 AAAA
1 AAAA
46792243 TAAAAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 39 0.83
48 8 0.17
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.14
Consensus pattern (48 bp):
AAAAAAAGAACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAA
Found at i:46793916 original size:45 final size:44
Alignment explanation
Indices: 46793854--46794083 Score: 166
Period size: 45 Copynumber: 5.2 Consensus size: 44
46793844 CCTAAATTTA
*
46793854 CAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 CAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * * *
46793898 CCAGCGAAGCT-GATTGAAGACA-CA-AGTCTTGCCTCCCTG-AGTTTG
1 -CAGCGAAG-TAGACTGAAGATAGCAGA-TCTTGTCTTCCTGTA--TTG
* * * *
46793943 CAGCGGAGTAGACTAAAGATAGCAGATCTTATCTTTCTGTATTG
1 CAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * ** * *
46793987 CCAGCGAAGTAGATTGAAGACATAAG-TCTTGCCTCCCTG-AGTTTG
1 -CAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTA--TTG
* * * *
46794032 CAGCGGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGG
1 CAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATT-G
46794077 CAGCGAA
1 CAGCGAA
46794084 ACAGATCGAA
Statistics
Matches: 138, Mismatches: 33, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
43 4 0.03
44 61 0.44
45 69 0.50
46 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTG
Found at i:46794130 original size:89 final size:89
Alignment explanation
Indices: 46793592--46794139 Score: 586
Period size: 89 Copynumber: 6.2 Consensus size: 89
46793582 AAGCTACAAT
** * * * * *
46793592 GGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTATAATGGCAGCAAAGCAGATTGAAGACACCA
1 GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA
46793657 GTCTTGCCTCCCTGAGTTTGCAGC
66 GTCTTGCCTCCCTGAGTTTGCAGC
* * * * *
46793681 GGAGTAGATTGAAGATAACATATCTTGGTTTT-CTGTATTGGCAGTGAAGTAGATCGAAGACACC
1 GGAGCAGACTGAAGATAACAGATCTT-GTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACC
* **
46793745 AG-CTTTGCCTCCCTGAGTTTGTAAT
65 AGTC-TTGCCTCCCTGAGTTTGCAGC
* * * * ** * *
46793770 AGAACAGACT-AAAAAAACAGATCTTGTTTTCCTGTATTGGCAGCGAATTAGATCGAAGATACTA
1 GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA
* * * *
46793834 G-CTTTGCCACCCTAAATTTACAGC
66 GTC-TTGCCTCCCTGAGTTTGCAGC
* * * * * * *
46793858 GGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGCCAGCGAAGCTGATTGAAGACACAA
1 GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA
46793923 GTCTTGCCTCCCTGAGTTTGCAGC
66 GTCTTGCCTCCCTGAGTTTGCAGC
* * * * * * * **
46793947 GGAGTAGACTAAAGATAGCAGATCTTATCTTT-CTGTATTGCCAGCGAAGTAGATTGAAGACATA
1 GGAGCAGACTGAAGATAACAGATCTTGT-TTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACC
46794011 AGTCTTGCCTCCCTGAGTTTGCAGC
65 AGTCTTGCCTCCCTGAGTTTGCAGC
*
46794036 GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAACAGATCGAAGACACCA
1 GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA
*
46794101 G-CTTTGCCTCCCTGAGTTTGCAAC
66 GTC-TTGCCTCCCTGAGTTTGCAGC
* *
46794125 AGAGCAGACTAAAGA
1 GGAGCAGACTGAAGA
46794140 GAGCAAATGT
Statistics
Matches: 381, Mismatches: 70, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
87 5 0.01
88 70 0.18
89 299 0.78
90 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (89 bp):
GGAGCAGACTGAAGATAACAGATCTTGTTTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA
GTCTTGCCTCCCTGAGTTTGCAGC
Found at i:46795822 original size:20 final size:21
Alignment explanation
Indices: 46795785--46795823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46795775 AATTCCTCTT
46795785 TTATATATTATGTTTAACTCA
1 TTATATATTATGTTTAACTCA
*
46795806 TTATATGTTAT-TTTAACT
1 TTATATATTATGTTTAACT
46795824 TGCTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATATATTATGTTTAACTCA
Found at i:46795877 original size:27 final size:28
Alignment explanation
Indices: 46795838--46795896 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
46795828 TTGTAAAGGA
*
46795838 TTTATTTTAAGTTATTTTATATATT-AT
1 TTTATTTTAAGTTACTTTATATATTAAT
* *
46795865 TTTATTTTTAGTTGCTTTATATATTAAT
1 TTTATTTTAAGTTACTTTATATATTAAT
46795893 TTTA
1 TTTA
46795897 AAATTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTATTTTAAGTTACTTTATATATTAAT
Found at i:46796270 original size:18 final size:17
Alignment explanation
Indices: 46796243--46796286 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46796233 GATTATTGCT
*
46796243 CTTATGTGTATTGTAATG
1 CTTATTTGTATTG-AATG
*
46796261 CTTATTTGTATTGATTG
1 CTTATTTGTATTGAATG
*
46796278 ATTATTTGT
1 CTTATTTGT
46796287 GTTCATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57
Consensus pattern (17 bp):
CTTATTTGTATTGAATG
Found at i:46810225 original size:29 final size:31
Alignment explanation
Indices: 46810193--46810258 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
46810183 TTAACAAAAC
*
46810193 ATATAAGGGTCTAACCTTT-T-AAAATGCTT
1 ATATAAAGGTCTAACCTTTATAAAAATGCTT
* *
46810222 ATATAAAGGTCTAACTTTTATAAAAATGTTT
1 ATATAAAGGTCTAACCTTTATAAAAATGCTT
46810253 ATATAA
1 ATATAA
46810259 TGACTTTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 17 0.53
30 1 0.03
31 14 0.44
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (31 bp):
ATATAAAGGTCTAACCTTTATAAAAATGCTT
Found at i:46810873 original size:27 final size:27
Alignment explanation
Indices: 46810835--46810889 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
46810825 AAACTTCTAC
46810835 TTAGCTTTAGGTCAGTATTCTTTCCTG
1 TTAGCTTTAGGTCAGTATTCTTTCCTG
46810862 TTAGCTTTAGGTCAGTATTCTTTCCTG
1 TTAGCTTTAGGTCAGTATTCTTTCCTG
46810889 T
1 T
46810890 CAAGAATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.49
Consensus pattern (27 bp):
TTAGCTTTAGGTCAGTATTCTTTCCTG
Found at i:46811112 original size:16 final size:16
Alignment explanation
Indices: 46811091--46811135 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
46811081 TTGGTTCGCT
*
46811091 GTAATGGAATAGATGC
1 GTAATGGAATAGAAGC
46811107 GTAATGGAATAGAAGC
1 GTAATGGAATAGAAGC
46811123 GTAATGGAATAGA
1 GTAATGGAATAGA
46811136 GACGTAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:46811141 original size:16 final size:16
Alignment explanation
Indices: 46811091--46811143 Score: 74
Period size: 16 Copynumber: 3.3 Consensus size: 16
46811081 TTGGTTCGCT
46811091 GTAATGGAATAGATG-C
1 GTAATGGAATAGA-GAC
46811107 GTAATGGAATAGA-AGC
1 GTAATGGAATAGAGA-C
46811123 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
46811139 GTAAT
1 GTAAT
46811144 AGGTAATCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 33 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:46811176 original size:46 final size:44
Alignment explanation
Indices: 46811123--46811208 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 44
46811113 GAATAGAAGC
*
46811123 GTAATGGAATAGAGACGTAATAGGTAATCCTTTTGTTTGGTTCGCT
1 GTAATGGAATAGAGACGTAATA-GT-ATCCTTGTGTTTGGTTCGCT
* *
46811169 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTT
1 GTAATGGAATAGAGACGTAATAGTATCCTTGTGTTTGGTT
46811209 GAATGGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 14 0.38
45 2 0.05
46 21 0.57
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGTATCCTTGTGTTTGGTTCGCT
Found at i:46811417 original size:17 final size:17
Alignment explanation
Indices: 46811377--46811410 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46811367 TTATTATTAA
46811377 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46811394 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46811411 TATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46814243 original size:131 final size:131
Alignment explanation
Indices: 46813955--46815183 Score: 1907
Period size: 131 Copynumber: 9.4 Consensus size: 131
46813945 CTTTCTTCTG
* * * * * *
46813955 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGC-CCAG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGC-CCACCAG
46814019 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
65 GGAGA-TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
46814083 TTGA
128 TTGA
*
46814087 TCTGCCCCACCACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
* * *
46814152 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAAGCACAGGGAGGTAAAA-TCTGCCATCTTC
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTT
46814216 GA
130 GA
* * ** * *
46814218 TTTGCTCCACTAATGCCTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
* **
46814283 GAGATAGCATTACAACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
46814348 A
131 A
* *
46814349 TCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGTCCACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
* * *
46814414 GAGATAGACTTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGCCATCTTC
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTT
46814478 GA
130 GA
* ** * *
46814480 TCTGCTCCACTAATGCCTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
* *
46814545 GAGATAGCATTACGACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
46814610 A
131 A
* *
46814611 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGC-CTA-
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGC-CCACCAG
*
46814674 GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
65 GGAGA-TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
46814739 TTGA
128 TTGA
*
46814743 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
46814808 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
46814873 A
131 A
*
46814874 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
*
46814939 GAGATAGAATTACGGCTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
66 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
46815004 A
131 A
*
46815005 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGC-CCAG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGC-CCACCAG
* * * *
46815069 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCT
65 GGAGA-TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
46815133 TTGA
128 TTGA
* *
46815137 TCTGCTCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCT
46815184 GCTCTATTGC
Statistics
Matches: 1014, Mismatches: 69, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
130 9 0.01
131 716 0.71
132 284 0.28
133 5 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (131 bp):
TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACCAGG
GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
A
Found at i:46814415 original size:44 final size:44
Alignment explanation
Indices: 46814105--46814548 Score: 114
Period size: 44 Copynumber: 10.2 Consensus size: 44
46814095 ACCACCGCTT
* * *
46814105 AGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCACC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTCCACC
* *** * *
46814149 AGGGAGA-TAGAAT-T-ACGGCTTCAATGTACTCCACTGT-AAGCAC
1 AGGGAGACAAG-ATCTGAAATCTTCAATCTACTCCACTGTCCA-C-C
** * ** * * * * * *
46814192 AGGGAGGTAAAATCTGCCATCTTCGATTTGCTCCACTAATGC-CT
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACT-GTCCACC
* *
46814236 AGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTG-CCAACC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTCC-ACC
* *
46814280 AGGGAGA-TAGCAT-T-ACAA-CTTCAATGTACTCCACTGTAACCA-C
1 AGGGAGACAAG-ATCTGA-AATCTTCAATCTACTCCACTGT--CCACC
** * * * ** * * * * **
46814323 AGGGAGGTAAAAT-TCACCATCTTTGATCTGCCCCACTACTGC-TT
1 AGGGAGACAAGATCTGA-AATCTTCAATCTACTCCACT-GTCCACC
* *
46814367 AGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGTCCACC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTCCACC
* * *** *
46814411 AGGGAGA-TAGA-CTTACGGCTTCAATGTACTCCACTGTAACCA-C
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGT--CCACC
** * ** * * * * *
46814454 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGC-CT
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACT-GTCCACC
* *
46814498 AGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTG-CCAACC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTCC-ACC
46814542 AGGGAGA
1 AGGGAGA
46814549 TAGCATTACG
Statistics
Matches: 274, Mismatches: 96, Indels: 60
0.64 0.22 0.14
Matches are distributed among these distances:
41 1 0.00
42 54 0.20
43 39 0.14
44 128 0.47
45 49 0.18
46 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGTCCACC
Found at i:46814859 original size:394 final size:391
Alignment explanation
Indices: 46813955--46815183 Score: 1955
Period size: 394 Copynumber: 3.1 Consensus size: 391
46813945 CTTTCTTCTG
* * * *
46813955 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGC-CCAG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC--CACCAG
46814019 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
64 GGAGA-TAGAATTAC-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
* *
46814083 TTGATCTGCCCCACCACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCCAC
127 TTGATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAAC
* *
46814148 CAGGGAGATAGAATTACGGCTTCAATGTACTCCACTGTAAGCACAGGGAGGTAAAA-TCTGCCAT
192 CAGGGAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCAT
* * * ** * *
46814212 CTTCGATTTGCTCCACTAATGCCTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCA
256 CTTTGATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTG-CT
* * * **
46814277 ACCAGGGAGATAGCATTAC-AACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACC
320 GCCAGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACC
46814341 ATCTTTGA
384 ATCTTTGA
* *
46814349 TCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGTCCACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTG-CCACCAGG
* * *
46814414 GAGATAGACTTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGCCATCTTC
65 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTT
* ** *
46814478 GATCTGCTCCACTAATGCCTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCA
129 GATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCA
* *
46814543 GGGAGATAGCATTACGACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
194 GGGAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTT
46814608 TGATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCT
259 TGATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCC-
46814673 AGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATC
323 AGG-AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATC
46814738 TTTGA
387 TTTGA
*
46814743 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCC-ACCAGG
46814808 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
65 GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
46814873 ATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAG
130 ATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAG
*
46814938 GGAGATAGAATTACGGCTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTT
195 GGAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTT
46815003 GATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCA
260 GATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTG-CCA
* * * *
46815068 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCT
324 -GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
46815133 TTGA
388 TTGA
*
46815137 TCTGCTCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
1 TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
46815184 GCTCTATTGC
Statistics
Matches: 777, Mismatches: 46, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
392 5 0.01
393 230 0.30
394 534 0.69
395 8 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (391 bp):
TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCCACCAGGG
AGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGA
TCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCCAACCAGG
GAGATAGAATTACGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
ATCTGCCCCACTACCGCTTAGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCAGG
AAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTG
A
Found at i:46816486 original size:13 final size:14
Alignment explanation
Indices: 46816458--46816490 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46816448 TTAGCCTCTC
*
46816458 CATTTTTACTTCTT
1 CATTTTCACTTCTT
46816472 CATTTTCACTT-TT
1 CATTTTCACTTCTT
46816485 CATTTT
1 CATTTT
46816491 TTCCGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTTCACTTCTT
Found at i:46824180 original size:58 final size:58
Alignment explanation
Indices: 46824057--46824195 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 58
46824047 AAAGTTGCTA
* *
46824057 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGAATTAAATT
1 TGTTTTGGCACTAAAAGAAACCACAAGCCACAACTACCAGCATGTCAAGAATTAAATT
* * *
46824115 TGTTTTGGCACTAAAAGTAAACCACAAGTCACAA-TAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-AAACCACAAGCCACAACT-ACCAGCATGTCAAGAATTAAATT
* * *
46824174 TGTTTGGGTACTAAAAGCAACC
1 TGTTTTGGCACTAAAAGAAACC
46824196 GCAACCGTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
58 22 0.31
59 49 0.69
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGAAACCACAAGCCACAACTACCAGCATGTCAAGAATTAAATT
Found at i:46828656 original size:8 final size:10
Alignment explanation
Indices: 46828630--46828655 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
46828620 GTTCCACAAA
46828630 AAATATATTT
1 AAATATATTT
46828640 AAATATATTT
1 AAATATATTT
46828650 AAATAT
1 AAATAT
46828656 TGGTTTTCTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAATATATTT
Found at i:46832742 original size:14 final size:14
Alignment explanation
Indices: 46832723--46832749 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46832713 TGTCTGGGGC
46832723 CCAAAACCCAAACA
1 CCAAAACCCAAACA
46832737 CCAAAACCCAAAC
1 CCAAAACCCAAAC
46832750 CAACCCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (14 bp):
CCAAAACCCAAACA
Found at i:46835223 original size:32 final size:32
Alignment explanation
Indices: 46835187--46835249 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
46835177 GTTTTCAGAC
46835187 AGCTCATTTTTGAGGAGGTGAAAAATCATGCA
1 AGCTCATTTTTGAGGAGGTGAAAAATCATGCA
46835219 AGCTCATTTTTGAGGAGGTGAAAAATCATGC
1 AGCTCATTTTTGAGGAGGTGAAAAATCATGC
46835250 CTAACTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (32 bp):
AGCTCATTTTTGAGGAGGTGAAAAATCATGCA
Found at i:46837351 original size:24 final size:24
Alignment explanation
Indices: 46837324--46837374 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
46837314 ATATTTTACA
*
46837324 TTTTAAATCATTTTATATT-TTTAT
1 TTTTAAATCACTTTAT-TTATTTAT
* *
46837348 TTTTACATTACTTTATTTATTTAT
1 TTTTAAATCACTTTATTTATTTAT
46837372 TTT
1 TTT
46837375 AAACTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAAATCACTTTATTTATTTAT
Found at i:46837763 original size:114 final size:113
Alignment explanation
Indices: 46837563--46837794 Score: 338
Period size: 114 Copynumber: 2.0 Consensus size: 113
46837553 TAGAAAACGC
* * *
46837563 CGTTTTCAATAAAGCGCCGCTAATGCTGAGGAATTTAGCGGCATTTTTGTGAAAGCACCACAGAA
1 CGTTTCCAATAAAGCGCCGCTAATGCTGAGGAATTTAGCGGCATTTTTATGAAAGCACCACAAAA
* *
46837628 GAACTAAGCACAACGACGCCGTTTACTGAGCTTTCGGGAGGTTTAGCGG
66 AAACTAAACACAACGACGCCGTTTACTGAGCTTTCGGG-GGTTTAGCGG
* * ** * *
46837677 CGTTTCCAATAATGCGCCGCTAATGGTGAGGGCTTTAGCGGCATTTTTATGAAAGCGCCGCAAAA
1 CGTTTCCAATAAAGCGCCGCTAATGCTGAGGAATTTAGCGGCATTTTTATGAAAGCACCACAAAA
* *
46837742 AAATTAAACCCAACGACGCCGTTTACTGAGCTTTCGGGGGTTTAGCGG
66 AAACTAAACACAACGACGCCGTTTACTGAGCTTTCGGGGGTTTAGCGG
46837790 CGTTT
1 CGTTT
46837795 TTGATCAAAC
Statistics
Matches: 105, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 15 0.14
114 90 0.86
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (113 bp):
CGTTTCCAATAAAGCGCCGCTAATGCTGAGGAATTTAGCGGCATTTTTATGAAAGCACCACAAAA
AAACTAAACACAACGACGCCGTTTACTGAGCTTTCGGGGGTTTAGCGG
Found at i:46838109 original size:115 final size:113
Alignment explanation
Indices: 46837844--46838224 Score: 514
Period size: 114 Copynumber: 3.4 Consensus size: 113
46837834 TTTCGGGGGG
* * * *
46837844 GGGGGTTTAGCAGCATTTTCAATAATGCACCGCTAATGTTGGGGCTTTAGCGGCGTTTTTATGAA
1 GGGGGTTTAGCAGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGTTTTTATGAA
* * *
46837909 AGCGCCGCAAAAAAAAATTAAACCCAACGATGCCATTTTCTTAGCTTTC
66 AGCGCCGC-AAAAAAAATTAAACCCAACGACGCCGTTTTCTGAGCTTTC
* * * * * *
46837958 GGGGGTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTGAGGCTTTAACGGCATTTTTGAT-C
1 GGGGGTTTAGCAGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGTTTTT-ATGA
* * *
46838022 AAGCGCCACAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTC
65 AAGCGCCGCAAAAAAAATTAAACCCAACGACGCCGTTTTCTGAGCTTTC
* *
46838071 GGGGGGGTTTAGCGGCGTTTTCAATAATGCGCCGCTAATGCTGGGGCTTTAGCGGCGTTTTTATG
1 --GGGGGTTTAGCAGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGTTTTTATG
46838136 AAAGCGCCGC-AAAAAAATTAAACCCAACGACGCCGTTTTCTGAGCTTTC
64 AAAGCGCCGCAAAAAAAATTAAACCCAACGACGCCGTTTTCTGAGCTTTC
* * * *
46838185 GGGGGTTTTGCAGTGTTTTTAATAAAGGGCCGCTAATGCT
1 GGGGGTTTAGCAGCGTTTTCAATAAAGCGCCGCTAATGCT
46838225 TAGGGATTTA
Statistics
Matches: 232, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
112 34 0.15
113 35 0.15
114 98 0.42
115 65 0.28
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (113 bp):
GGGGGTTTAGCAGCGTTTTCAATAAAGCGCCGCTAATGCTGGGGCTTTAGCGGCGTTTTTATGAA
AGCGCCGCAAAAAAAATTAAACCCAACGACGCCGTTTTCTGAGCTTTC
Found at i:46838720 original size:26 final size:26
Alignment explanation
Indices: 46838689--46838776 Score: 108
Period size: 26 Copynumber: 3.3 Consensus size: 26
46838679 ATATTATATG
46838689 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAACTTGCTTTGTAAATTAT
*
46838715 TTATTTTAACTTGCTTTGTATATTATT
1 TTATTTTAACTTGCTTTGTAAATTA-T
* *
46838742 TTATTTTAAGTT--TTTGTATATATTAA
1 TTATTTTAACTTGCTTTGTA-A-ATTAT
46838768 TTATTTTAA
1 TTATTTTAA
46838777 AATTATCCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.11
26 33 0.60
27 16 0.29
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (26 bp):
TTATTTTAACTTGCTTTGTAAATTAT
Found at i:46842186 original size:114 final size:114
Alignment explanation
Indices: 46841869--46842295 Score: 511
Period size: 114 Copynumber: 3.8 Consensus size: 114
46841859 GAAAATGCCA
* ** * * *
46841869 CAAAAAAACCTAAGACCAACGACGCCATTTTTTGAGTTTTTGGGGATTTAGCGGCGTTTTTAAGA
1 CAAAAAAACCTAAGCCCAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGT
* * * **
46841934 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTTTCGGTAAAGTGCAA
66 AAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGATTTT-GGGAAAGCGCCG
* * * *
46841983 CAAAAGAACCTAAGCCAAACGACGCCGTTTACTGAGC-TTCGGGGCTTTAGCGGCGTTTTTAAGT
1 CAAAAAAACCTAAGCCCAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGT
* * *
46842047 AAGCGCCGTTAATGCTCCGGGCTTTAGTGGCGATTCTGGGAAAGCGCCG
66 AAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGATTTTGGGAAAGCGCCG
* * * * *
46842096 CAAAAAAACCTAAGCCCAACGACACCGTTTACTGAGCTTTCGGGGCTTTAGTGGCATTTTTAAGT
1 CAAAAAAACCTAAGCCCAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGT
*
46842161 AAGCGCCGCTAATGCTTAGGGCTTTAGTGGC-ATTTTTGGGAAAGCGCCG
66 AAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGA-TTTTGGGAAAGCGCCG
*** * * * *
46842210 CAAAGGGACCTAAGCCCAACGACGCCATTTTCTTAGCTTTTGGGGATTTAGTGGCGTTTTT-AGT
1 CAAAAAAACCTAAGCCCAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGT
*
46842274 AAAGCGCCGCTAATGCTTAGGG
66 -AAGCGCCGCTAATGCTCAGGG
46842296 ATTGAAAATA
Statistics
Matches: 272, Mismatches: 37, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
113 99 0.36
114 173 0.64
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
CAAAAAAACCTAAGCCCAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGT
AAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGATTTTGGGAAAGCGCCG
Found at i:46842235 original size:227 final size:228
Alignment explanation
Indices: 46841869--46842290 Score: 560
Period size: 227 Copynumber: 1.9 Consensus size: 228
46841859 GAAAATGCCA
* ** * * *
46841869 CAAAAAAACCTAAGACCAACGACGCCATTTTTTGAGTTTTTGGGGATTTAGCGGCGTTTTTAAGA
1 CAAAAAAACCTAAGACCAACGACACCATTTACTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGA
* * *
46841934 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCGGTAAAGTGCAACAAAAGAACCTAAGCC
66 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTCGGGAAAGCGCAACAAAAGAACCTAAGCC
* * *
46841999 AAACGACGCCGTTTACTGAGC-TTCGGGGCTTTAGCGGCGTTTTTAAGT-AAGCGCCGTTAATGC
131 AAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTT-AGTAAAGCGCCGCTAATGC
46842062 TCCGGGCTTTAGTGGCGATTCTGGGAAAGCGCCG
195 TCCGGGCTTTAGTGGCGATTCTGGGAAAGCGCCG
* * * * *
46842096 CAAAAAAACCTAAGCCCAACGACACCGTTTACTGAGCTTTCGGGGCTTTAGTGGCATTTTTAAGT
1 CAAAAAAACCTAAGACCAACGACACCATTTACTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGA
* * * ** * *
46842161 AAGCGCCGCTAATGCTTAGGGCTTTAGTGGCATTTTTGGGAAAGCGCCGCAAAGGGACCTAAGCC
66 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTCGGGAAAGCGCAACAAAAGAACCTAAGCC
* * * * *
46842226 CAACGACGCCATTTTCTTAGCTTTTGGGGATTTAGTGGCGTTTTTAGTAAAGCGCCGCTAATGCT
131 AAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCT
46842291 TAGGGATTGA
Statistics
Matches: 164, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
227 129 0.79
228 35 0.21
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (228 bp):
CAAAAAAACCTAAGACCAACGACACCATTTACTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGA
AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTCGGGAAAGCGCAACAAAAGAACCTAAGCC
AAACGACGCCATTTACTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCT
CCGGGCTTTAGTGGCGATTCTGGGAAAGCGCCG
Found at i:46842761 original size:20 final size:21
Alignment explanation
Indices: 46842720--46842763 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46842710 TATCATTATA
*
46842720 GTTTAGGGTTTAATAAATATG
1 GTTTAGGGTATAATAAATATG
*
46842741 GTTTAGGGTAT-ATATATATG
1 GTTTAGGGTATAATAAATATG
46842761 GTT
1 GTT
46842764 AATTAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTATAATAAATATG
Found at i:46843033 original size:14 final size:14
Alignment explanation
Indices: 46843014--46843047 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46843004 TAAATAAGGT
*
46843014 TTAGGGGTTATGAG
1 TTAGGGGTTAAGAG
*
46843028 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGAG
46843042 TTAGGG
1 TTAGGG
46843048 ATTTAGGATC
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:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:46843167 original size:88 final size:89
Alignment explanation
Indices: 46843026--46843292 Score: 341
Period size: 88 Copynumber: 3.1 Consensus size: 89
46843016 AGGGGTTATG
* * * ** * *
46843026 AGTT-AGGGGTTAAGGGTTAGGGATTTAGGATCGGGTTATGGTTTAGGGTTTAGATTAATTAGTG
1 AGTTCAGGGGTTAGGGGTTAGGGATTTGGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTG
46843090 TTTTTTAA-TT-TATATTAAATAA
66 TTTTTTAATTTATATATTAAATAA
46843112 AGTTCAGGGGTTAGGGGTTAGGGATTTGGGGTCAAGTTTAGGGTTTAGGATTTAGATTAATTAGT
1 AGTTCAGGGGTTAGGGGTTAGGGATTTGGGGTCAAG-TTAGGGTTTAGGATTTAGATTAATTAGT
*
46843177 GTTTGTTAATTTATATATTAAATAA
65 GTTTTTTAATTTATATATTAAATAA
* * * * *
46843202 A-TTTAGGGGTTAGGGGTTAAAGG-TTAGGAGTCAAGTTAGGGTTTAAGATTTAGATTAATTAGT
1 AGTTCAGGGGTTAGGGGTT-AGGGATTTGGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGT
*
46843265 G-CTTTTAATTTATATATTAAAT-A
65 GTTTTTTAATTTATATATTAAATAA
46843288 AGTTC
1 AGTTC
46843293 TTTATGTAAT
Statistics
Matches: 159, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
86 6 0.04
87 47 0.30
88 62 0.39
89 28 0.18
90 16 0.10
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (89 bp):
AGTTCAGGGGTTAGGGGTTAGGGATTTGGGGTCAAGTTAGGGTTTAGGATTTAGATTAATTAGTG
TTTTTTAATTTATATATTAAATAA
Found at i:46843570 original size:84 final size:84
Alignment explanation
Indices: 46843476--46843641 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 84
46843466 TTTTCCAAAG
* * * * *
46843476 CGGCGTCGTTTCTTTACTGGAATAAAATCTTTTAGAGGCGTTTTGTAGGAAAACGCCGCAAAAGT
1 CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGAGGCGTTTTGTAAGAAAACGCCGCAAAAGT
46843541 GAATTAATGTTGGCCAACA
66 GAATTAATGTTGGCCAACA
* * * *
46843560 CGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGAGT
1 CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGAGGCGTTTTGTAAGAAAACGCCGCAAAAGT
*
46843625 GAATTAATGTTTGCCAA
66 GAATTAATGTTGGCCAA
46843642 TGTGACACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (84 bp):
CGGCGCCGTTTCTCTACTCGAATAAAATCTTATAGAGGCGTTTTGTAAGAAAACGCCGCAAAAGT
GAATTAATGTTGGCCAACA
Found at i:46844064 original size:84 final size:84
Alignment explanation
Indices: 46843984--46844186 Score: 225
Period size: 84 Copynumber: 2.4 Consensus size: 84
46843974 CATTTTTCAT
* * *
46843984 AAAAACGCTGCAAGGA-TGTATTAAAATTTGCCAA-AGCGATGCCGTTTCTCTACTAGAATAAAA
1 AAAAACGCCGCAAGGAGTGAATTAAAATTTGCCAATA-CGACGCCGTTTCTCTACTAGAATAAAA
46844047 TCTTATAGCGGCGTTTTTTA
65 TCTTATAGCGGCGTTTTTTA
* ** * * *
46844067 GGAAAACGCCGCAA-GAGTGAATTAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAA
1 -AAAAACGCCGCAAGGAGTGAATTAAAATTTGCCAATACGACGCCGTTTCTCTACTAGAATAAAA
**
46844131 TCTTATATTGGCGTTTTTTA
65 TCTTATAGCGGCGTTTTTTA
* **
46844151 AGAAAACGCCGCAA-GTGTGAATTAATGTTTGCCAAT
1 A-AAAACGCCGCAAGGAGTGAATTAAAATTTGCCAAT
46844187 GCGCACCGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
83 2 0.02
84 100 0.97
85 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (84 bp):
AAAAACGCCGCAAGGAGTGAATTAAAATTTGCCAATACGACGCCGTTTCTCTACTAGAATAAAAT
CTTATAGCGGCGTTTTTTA
Found at i:46844212 original size:84 final size:84
Alignment explanation
Indices: 46844025--46844230 Score: 251
Period size: 84 Copynumber: 2.5 Consensus size: 84
46844015 CAAAGCGATG
* * *
46844025 CCGTTTCTCTACT-AGAATAAAATCTTATAGC-GGCGTTTTTTAGGAAAACGCCGCAAGAGTGAA
1 CCGTTTCGCTACTGA-AATGAAATCTTATA-CTGGCGTTTTTTAAGAAAACGCCGCAAGAGTGAA
*
46844088 TTAATGTTTGCCAATACGGCG
64 TTAATGTTTGCCAATACGGCA
* * * *
46844109 CCGTTTCTCTACTGGAATGAAATCTTATATTGGCGTTTTTTAAGAAAACGCCGCAAGTGTGAATT
1 CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCCGCAAGAGTGAATT
*
46844174 AATGTTTGCCAATGC-GCA
66 AATGTTTGCCAATACGGCA
* *
46844192 CCGTTTCGCTTCATGAAATG-AAT-TTATACTGGCATTTTT
1 CCGTTTCGCTAC-TGAAATGAAATCTTATACTGGCGTTTTT
46844231 GCTAGAAATG
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
82 14 0.13
83 15 0.14
84 78 0.73
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (84 bp):
CCGTTTCGCTACTGAAATGAAATCTTATACTGGCGTTTTTTAAGAAAACGCCGCAAGAGTGAATT
AATGTTTGCCAATACGGCA
Found at i:46844582 original size:84 final size:81
Alignment explanation
Indices: 46844455--46844705 Score: 243
Period size: 84 Copynumber: 3.0 Consensus size: 81
46844445 CGCCGTTCTT
* * * * *** * *
46844455 ATGTTTTAAAATTTATCAAAACGGCGCCGTTTATCTTGAGGAATGAAATATTTTTGTGGCGATTT
1 ATGTATTAAAATTT-GCCAAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGC-ATTT
*
46844520 TGATA-AAAATGCCGCAATG
64 T-ATAGAAAACGCCGCAA-G
* *
46844539 ATGTATTAAAATTTGCCAAAGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCATTTT
1 ATGTATTAAAATTTGCCAAA-CGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTTT
*
46844604 TTAGGAAAACGCCGCAAG
65 ATA-GAAAACGCCGCAAG
* ** * *
46844622 AGTGAATTAATGTTTGCCAATACGGCGTCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTT
1 A-TGTATTAAAATTTGCCAA-ACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTT
*
46844687 TTTAAGAAAACGCCGCAAG
64 TAT-AGAAAACGCCGCAAG
46844706 TGTGAATTAA
Statistics
Matches: 143, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
82 2 0.01
83 11 0.08
84 128 0.90
85 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (81 bp):
ATGTATTAAAATTTGCCAAACGGCGCCGTTTCTCTACTGGAATGAAATATTATAGTGGCATTTTA
TAGAAAACGCCGCAAG
Found at i:46844617 original size:540 final size:540
Alignment explanation
Indices: 46843416--46844927 Score: 2393
Period size: 540 Copynumber: 2.8 Consensus size: 540
46843406 TAAAATTGTA
* ** * *
46843416 AAATATTTTTGTGGCGTTTTTAATAAAAACATCGTAAGGAT-TCATTAAAATTTTCCAAAGCGGC
1 AAATATTTTTGTGGCGATTTTAATAAAAACGCCGCAAGGATGT-ATTAAAATTTGCCAAAGCGGC
* * * * *
46843480 GTCGTTTCTTTACTGGAATAAAATCTTTTAGAGGCGTTTTGTAGGAAAACGCCGCAAAAGTGAAT
65 GCCGTTTCTCTACTGGAATAAAATCTTATAGAGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAAT
* * *
46843545 TAATGTTGGCCAACACGGCGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGA
130 TAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGA
* * *
46843610 AAACGCCGCAAGAGTGAATTAATGTTTGCCAATGTGACACCATTTCGCTTCATGAAATGAA-TTA
195 AAACGCCGCAAGTGTGAATTAATGTTTGCCAATGCG-CACCGTTTCGCTTCATGAAATGAATTTA
* * * *
46843674 TACTGGCGTTTTTGCTAGAAACACCAGAAATATGCATTAAAGTTTAGTAAAATGGCACCGTCTTT
259 TACTGGCATTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTT
46843739 TGTTCAGTACTTTATTTTGGTGGCGTTTTTTTATTAAAACGCTGCAAATATCGGAAGCAATAGCG
324 TGTTCAGTACTTTATTTTGGTGGCG-TTTTTTATTAAAACGCTGCAAATATCGGAAGCAATAGCG
*
46843804 GCGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGTCGTCGTTTCAGTTGA
388 GCGTTTTGGCCTAAAACGCCGCAAATATATATTCAAA---TTTTATACGCCGTCGTTTCAGTTGA
46843869 GGAATTTAATTTTTTTAGTGGCATTTTTCGAGAAAACGCCGTTCTTATGTTTTAAAATTTATCAA
450 GGAATTTAATTTTTTTAGTGGCATTTTTCGAGAAAACGCCGTTCTTATGTTTTAAAATTTATCAA
* *
46843934 AACGGTGCTGTTTATCTTGAGGAATG
515 AACGGCGCCGTTTATCTTGAGGAATG
* * **
46843960 AAATATTTTTGTGGC-ATTTTTCATAAAAACGCTGCAAGGATGTATTAAAATTTGCCAAAGCGAT
1 AAATATTTTTGTGGCGA-TTTTAATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGC
* *
46844024 GCCGTTTCTCTACTAGAATAAAATCTTATAGCGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAAT
65 GCCGTTTCTCTACTGGAATAAAATCTTATAGAGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAAT
*
46844089 TAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATATTGGCGTTTTTTAAGA
130 TAATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGA
46844154 AAACGCCGCAAGTGTGAATTAATGTTTGCCAATGCGCACCGTTTCGCTTCATGAAATGAATTTAT
195 AAACGCCGCAAGTGTGAATTAATGTTTGCCAATGCGCACCGTTTCGCTTCATGAAATGAATTTAT
* *
46844219 ACTGGCATTTTTGCTAGAAATGCTGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
260 ACTGGCATTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
* *
46844284 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGTTGAAAATATCGGAAGCAATAGCGGC
325 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCGGAAGCAATAGCGGC
* *
46844349 GTTTTGGCCTAAAATGCTGCAAATATATATTCAAATTTTATACGCCGTCGTTTCAGTTGAGGAAT
390 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTTTATACGCCGTCGTTTCAGTTGAGGAAT
*
46844414 TTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTATCAAAACGG
455 TTAATTTTTTTAGTGGCATTTTTCGAGAAAACGCCGTTCTTATGTTTTAAAATTTATCAAAACGG
46844479 CGCCGTTTATCTTGAGGAATG
520 CGCCGTTTATCTTGAGGAATG
* * *
46844500 AAATATTTTTGTGGCGATTTTGATAAAAATGCCGCAATGATGTATTAAAATTTGCCAAAGCGGCG
1 AAATATTTTTGTGGCGATTTTAATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
* *
46844565 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGAGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* *
46844630 AATGTTTGCCAATACGGCGTCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTTTTTAAGAA
131 AATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
*
46844695 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGCCAATGC-GCACCGTTTCGCTTCATGAAATGAATTTAT
* *
46844760 ACTGGCATTTTTTCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACTGT-TTTC
260 ACTGGCATTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTT-
* * * * * *
46844824 TATTCAGTACTCTATTTTGGTGGCATTTTCTATTAAAACGCCGCAAATATCGAAAGCAATAGCGG
324 TGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCGGAAGCAATAGCGG
* * * * *
46844889 CGTTTTTGCTTAAAACACCGCAAATATATCTTAAAATTT
389 CGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTT
46844928 CTCTAAACGG
Statistics
Matches: 893, Mismatches: 69, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
540 329 0.37
541 176 0.20
543 95 0.11
544 292 0.33
545 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (540 bp):
AAATATTTTTGTGGCGATTTTAATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
CCGTTTCTCTACTGGAATAAAATCTTATAGAGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
AATGTTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
AACGCCGCAAGTGTGAATTAATGTTTGCCAATGCGCACCGTTTCGCTTCATGAAATGAATTTATA
CTGGCATTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTTG
TTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTGCAAATATCGGAAGCAATAGCGGCG
TTTTGGCCTAAAACGCCGCAAATATATATTCAAATTTTATACGCCGTCGTTTCAGTTGAGGAATT
TAATTTTTTTAGTGGCATTTTTCGAGAAAACGCCGTTCTTATGTTTTAAAATTTATCAAAACGGC
GCCGTTTATCTTGAGGAATG
Found at i:46844711 original size:84 final size:84
Alignment explanation
Indices: 46844550--46844772 Score: 308
Period size: 84 Copynumber: 2.7 Consensus size: 84
46844540 TGTATTAAAA
* *
46844550 TTTGCCAA-AGCGGCGCCGTTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAAC
1 TTTGCCAATA-CGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTTTTTAAGAAAAC
46844614 GCCGCAAGAGTGAATTAATG
65 GCCGCAAGAGTGAATTAATG
*
46844634 TTTGCCAATACGGCGTCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTTTTTAAGAAAACG
1 TTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTTTTTAAGAAAACG
*
46844699 CCGCAAGTGTGAATTAATG
66 CCGCAAGAGTGAATTAATG
* * * * * * *
46844718 TTTGTCAATGCGGCACCGTTTCGCTTCATGAAATG-AAT-TTATACTGGCATTTTTT
1 TTTGCCAATACGGCGCCGTTTCTCTAC-TGGAATGAAATCTTATAGTGGCATTTTTT
46844773 CTAGAAACGC
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
83 16 0.13
84 102 0.82
85 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (84 bp):
TTTGCCAATACGGCGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCATTTTTTAAGAAAACG
CCGCAAGAGTGAATTAATG
Found at i:46846372 original size:47 final size:45
Alignment explanation
Indices: 46846295--46846408 Score: 162
Period size: 47 Copynumber: 2.5 Consensus size: 45
46846285 TTGTTTCATA
46846295 TACTTACATTACTT--AAATATATATTCTTAAGTATATATTACAT
1 TACTTACATTACTTACAAATATATATTCTTAAGTATATATTACAT
*
46846338 TACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACAT
1 TACTTACATTACTTA-C-AAATATATATTCTTAAGTATATATTACAT
*
46846385 TACTTATATTACTTACTAAA-ATAT
1 TACTTACATTACTTAC-AAATATAT
46846409 GTTACATTAC
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
43 14 0.22
45 4 0.06
46 4 0.06
47 42 0.66
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (45 bp):
TACTTACATTACTTACAAATATATATTCTTAAGTATATATTACAT
Found at i:46846415 original size:31 final size:33
Alignment explanation
Indices: 46846374--46846482 Score: 105
Period size: 39 Copynumber: 3.1 Consensus size: 33
46846364 ATTTTTAAGT
46846374 ATATATTACATTAC-T-TATATTACTTACTAAA
1 ATATATTACATTACTTATATATTACTTACTAAA
*
46846405 ATATGTTACATTACTTAAATATATTACTTACTAAA
1 ATATATTACATTACTT--ATATATTACTTACTAAA
46846440 ATTTATAATTTACATTACTTAAATATATTACATTACTTAAA
1 A--TAT-A-TTACATTACTT--ATATATTAC-TTAC-TAAA
46846481 AT
1 AT
46846483 TTTTATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
31 13 0.20
32 1 0.02
35 17 0.26
37 3 0.05
39 23 0.35
40 4 0.06
41 5 0.08
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (33 bp):
ATATATTACATTACTTATATATTACTTACTAAA
Found at i:46846418 original size:18 final size:18
Alignment explanation
Indices: 46846374--46846482 Score: 104
Period size: 18 Copynumber: 6.1 Consensus size: 18
46846364 ATTTTTAAGT
46846374 ATATATTACATTACT---
1 ATATATTACATTACTAAA
46846389 -TATATTAC-TTACTAAA
1 ATATATTACATTACTAAA
* *
46846405 ATATGTTACATTACTTAA
1 ATATATTACATTACTAAA
46846423 ATATATTAC-TTACTAAA
1 ATATATTACATTACTAAA
*
46846440 ATTTATAATTTACATTACTTAA
1 A--TAT-A-TTACATTACTAAA
46846462 ATATATTACATTACTTAAA
1 ATATATTACATTAC-TAAA
46846481 AT
1 AT
46846483 TTTTATATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.06
14 8 0.10
17 15 0.19
18 24 0.31
19 9 0.12
20 4 0.05
21 4 0.05
22 8 0.10
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (18 bp):
ATATATTACATTACTAAA
Found at i:46846453 original size:39 final size:37
Alignment explanation
Indices: 46846389--46846484 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 37
46846379 TTACATTACT
46846389 TATATTACTTACTAAAA--TATGTTACATTACTTAAA
1 TATATTACTTACTAAAATTTATGTTACATTACTTAAA
*
46846424 TATATTACTTACTAAAATTTATAATTTACATTACTTAAA
1 TATATTACTTACTAAAATTTAT--GTTACATTACTTAAA
46846463 TATATTACATTACTTAAAATTT
1 TATATTAC-TTAC-TAAAATTT
46846485 TTATATATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
35 17 0.31
37 3 0.06
39 22 0.41
40 4 0.07
41 8 0.15
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (37 bp):
TATATTACTTACTAAAATTTATGTTACATTACTTAAA
Found at i:46846624 original size:30 final size:30
Alignment explanation
Indices: 46846585--46846642 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
46846575 TTATAAATAA
46846585 TATACATAAAAGTG-ATATACTTACATAACT
1 TATACATAAAAGTGCATA-ACTTACATAACT
* **
46846615 TATATATAAACTTGCATAACTTACATAA
1 TATACATAAAAGTGCATAACTTACATAA
46846643 TAACATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TATACATAAAAGTGCATAACTTACATAACT
Found at i:46846635 original size:9 final size:9
Alignment explanation
Indices: 46846603--46847000 Score: 116
Period size: 9 Copynumber: 45.3 Consensus size: 9
46846593 AAAGTGATAT
46846603 ACTTACATA
1 ACTTACATA
*
46846612 ACTTATATATAA
1 AC-T-TACAT-A
*
46846624 ACTTGCATA
1 ACTTACATA
46846633 ACTTACATA
1 ACTTACATA
*
46846642 A-TAACATAATA
1 ACTTAC---ATA
46846653 ACTTACATA
1 ACTTACATA
*
46846662 A--TACACA
1 ACTTACATA
46846669 ACTTACATA
1 ACTTACATA
* *
46846678 ATTTAAATA
1 ACTTACATA
46846687 ACTTACAT-
1 ACTTACATA
*
46846695 A-GTACATA
1 ACTTACATA
**
46846703 ACTTTGATA
1 ACTTACATA
* *
46846712 ACTAACATT
1 ACTTACATA
46846721 A--TACA-A
1 ACTTACATA
46846727 TACTTACATA
1 -ACTTACATA
*
46846737 ACATACACTTA
1 ACTTACA--TA
*
46846748 A-ATACATA
1 ACTTACATA
46846756 ACTTACATA
1 ACTTACATA
*
46846765 A--TACACA
1 ACTTACATA
46846772 ACTTA-ATTAA
1 ACTTACA-T-A
*
46846782 TATTATACATA
1 -ACT-TACATA
* *
46846793 ACATAAATA
1 ACTTACATA
46846802 A--TACATA
1 ACTTACATA
*
46846809 A--TACACA
1 ACTTACATA
46846816 ACTTA-ATTAA
1 ACTTACA-T-A
*
46846826 TATTATACATA
1 -ACT-TACATA
*
46846837 A-TACACATA
1 ACT-TACATA
46846846 ACTTACAT-
1 ACTTACATA
*
46846854 A-GTACATA
1 ACTTACATA
*
46846862 ACTAACATA
1 ACTTACATA
*
46846871 A--TACACA
1 ACTTACATA
*
46846878 ACTTACGTA
1 ACTTACATA
*
46846887 ACTTAAATA
1 ACTTACATA
46846896 ACTTACATA
1 ACTTACATA
*
46846905 GCTTACATA
1 ACTTACATA
46846914 A--TACATA
1 ACTTACATA
*
46846921 ACTTAAATA
1 ACTTACATA
*
46846930 ACTTATATA
1 ACTTACATA
46846939 A--TACATA
1 ACTTACATA
46846946 ACTTACATA
1 ACTTACATA
* *
46846955 ATTTACCTA
1 ACTTACATA
46846964 A--TACATA
1 ACTTACATA
* *
46846971 A-ATATATA
1 ACTTACATA
* *
46846979 TCATATCATA
1 ACTTA-CATA
46846989 ACTTACATA
1 ACTTACATA
46846998 ACT
1 ACT
46847001 CATTTATAGT
Statistics
Matches: 286, Mismatches: 59, Indels: 88
0.66 0.14 0.20
Matches are distributed among these distances:
7 62 0.22
8 17 0.06
9 154 0.54
10 21 0.07
11 18 0.06
12 12 0.04
13 2 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:46846705 original size:16 final size:16
Alignment explanation
Indices: 46846629--46846956 Score: 130
Period size: 16 Copynumber: 19.9 Consensus size: 16
46846619 TATAAACTTG
46846629 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
46846646 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
46846665 CACAACTTACATAATTTA
1 CATAACTTACATAA--TA
* *
46846683 AATAACTTACATAGTA
1 CATAACTTACATAATA
**
46846699 CATAACTTTGATAACTAA
1 CATAACTTACATAA-T-A
* *
46846717 CATTA--TACAATACTTA
1 CATAACTTAC-ATA-ATA
*
46846733 CATAACATACACTTAAATA
1 CATAACTTACA--T-AATA
46846752 CATAACTTACATAATA
1 CATAACTTACATAATA
*
46846768 CACAACTTA-AT--TA
1 CATAACTTACATAATA
*
46846781 -AT-ATTATACAT-A-A
1 CATAACT-TACATAATA
*
46846794 CATAAATAATACATAATA
1 CATAACT--TACATAATA
*
46846812 CACAACTTA-AT--TA
1 CATAACTTACATAATA
*
46846825 -AT-ATTATACATAATACA
1 CATAACT-TACATAAT--A
*
46846842 CATAACTTACATAGTA
1 CATAACTTACATAATA
*
46846858 CATAACTAACATAATA
1 CATAACTTACATAATA
* *
46846874 CACAACTTACGTAACTTA
1 CATAACTTACATAA--TA
* *
46846892 AATAACTTACATAGCTTA
1 CATAACTTACATA--ATA
46846910 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
* *
46846926 AATAACTTATATAATA
1 CATAACTTACATAATA
46846942 CATAACTTACATAAT
1 CATAACTTACATAAT
46846957 TTACCTAATA
Statistics
Matches: 233, Mismatches: 40, Indels: 77
0.67 0.11 0.22
Matches are distributed among these distances:
11 4 0.02
12 6 0.03
13 9 0.04
14 2 0.01
15 7 0.03
16 103 0.44
17 10 0.04
18 60 0.26
19 17 0.07
20 15 0.06
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:46846776 original size:44 final size:46
Alignment explanation
Indices: 46846749--46846864 Score: 173
Period size: 44 Copynumber: 2.6 Consensus size: 46
46846739 ATACACTTAA
46846749 ATACATAACTTACATAATACACAACTTAATTAATATTATACATAAC
1 ATACATAACTTACATAATACACAACTTAATTAATATTATACATAAC
* *
46846795 ATAAATAA--TACATAATACACAACTTAATTAATATTATACATAAT
1 ATACATAACTTACATAATACACAACTTAATTAATATTATACATAAC
* * *
46846839 ACACATAACTTACATAGTACATAACT
1 ATACATAACTTACATAATACACAACT
46846865 AACATAATAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 41 0.66
46 21 0.34
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (46 bp):
ATACATAACTTACATAATACACAACTTAATTAATATTATACATAAC
Found at i:46846803 original size:21 final size:21
Alignment explanation
Indices: 46846765--46846834 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
46846755 AACTTACATA
46846765 ATACACAACTTAATTAATATT
1 ATACACAACTTAATTAATATT
* * * *
46846786 ATACATAACATAAATAATACATA
1 ATACACAACTTAATTAAT--ATT
46846809 ATACACAACTTAATTAATATT
1 ATACACAACTTAATTAATATT
46846830 ATACA
1 ATACA
46846835 TAATACACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 22 0.56
23 17 0.44
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATACACAACTTAATTAATATT
Found at i:46846955 original size:25 final size:25
Alignment explanation
Indices: 46846603--46846971 Score: 126
Period size: 25 Copynumber: 15.0 Consensus size: 25
46846593 AAAGTGATAT
*
46846603 ACTTACATAACTT--AT-ATATA-A
1 ACTTACATAACTTACATAATACATA
*
46846624 ACTTGCATAACTTACATAATAACATAATA
1 ACTTACATAACTTACATAAT-AC---ATA
*
46846653 ACTTACATAA--TACACAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* * *
46846678 ATTTAAATAACTTACATAGTACATA
1 ACTTACATAACTTACATAATACATA
** * *
46846703 ACTTTGATAACTAACATTATACA-A
1 ACTTACATAACTTACATAATACATA
*
46846727 TACTTACATAACATACACTTAAATACATA
1 -ACTTACATAACTTACA--T-AATACATA
* *
46846756 ACTTACATAA--TACA-CA-ACTTA
1 ACTTACATAACTTACATAATACATA
*
46846777 A-TTA-AT-ATTATACAT-A-ACATA
1 ACTTACATAACT-TACATAATACATA
* * *
46846798 AATAATACATAA--TACA-CA-ACTTA
1 ACT--TACATAACTTACATAATACATA
*
46846821 A-TTA-AT-ATTATACATAATACACATA
1 ACTTACATAACT-TACATAAT--ACATA
*
46846846 ACTTACAT-A-GTACATAACTAACATA
1 ACTTACATAACTTACATAA-T-ACATA
* * *
46846871 A--TACACAACTTACGTAACTTAAATA
1 ACTTACATAACTTACATAA--TACATA
*
46846896 ACTTACATAGCTTACATAATACATA
1 ACTTACATAACTTACATAATACATA
* *
46846921 ACTTAAATAACTTATATAATACATA
1 ACTTACATAACTTACATAATACATA
* *
46846946 ACTTACATAATTTACCTAATACATA
1 ACTTACATAACTTACATAATACATA
46846971 A
1 A
46846972 ATATATATCA
Statistics
Matches: 263, Mismatches: 43, Indels: 80
0.68 0.11 0.21
Matches are distributed among these distances:
18 2 0.01
19 4 0.02
20 5 0.02
21 31 0.12
22 4 0.02
23 16 0.06
24 6 0.02
25 127 0.48
26 10 0.04
27 28 0.11
28 18 0.07
29 12 0.05
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:46849228 original size:43 final size:43
Alignment explanation
Indices: 46849176--46849470 Score: 349
Period size: 43 Copynumber: 6.9 Consensus size: 43
46849166 ATTTGTGAGG
* *
46849176 GAAGCGCCGCTAAAGAACATGACCTGTAGCGGTGTTTGTTATA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
* *
46849219 GAAGTGCCGCTAAAGAACATGACCTTTAGCGGCATTTGTTATA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
* * *
46849262 GAAGCTCCGCTAAAGAACACGACCTTTAGCGGCGTATGTTATA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
* *
46849305 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGACA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
* * ***
46849348 GAGGCGCCGCTAAAGAACATGACCATTAGCGGCGTTTGTGGGA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
* * ** * **
46849391 AAAGCACCGCTAAAGAACATGTTCTTTAGCGGCATTT-TTGGGA
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTT-ATA
* * **
46849434 AAAGCGCCGCTAAATAACATGGTCTTTAGCGGCGTTT
1 GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
46849471 ATAAAAATAA
Statistics
Matches: 221, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 1 0.00
43 220 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATA
Found at i:46851857 original size:14 final size:14
Alignment explanation
Indices: 46851833--46851865 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46851823 AAAATCTAAA
46851833 AAAAT-AAAAAACT
1 AAAATAAAAAAACT
*
46851846 TAAATAAAAAAACT
1 AAAATAAAAAAACT
46851860 AAAATA
1 AAAATA
46851866 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAATAAAAAAACT
Found at i:46852647 original size:36 final size:36
Alignment explanation
Indices: 46852582--46852651 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
46852572 TTAATTAATT
*
46852582 TTTATATTTTTAATAACTTTTAAATTTTAAAAATATA
1 TTTATATTTTT-ATAACTTTTAAAATTTAAAAATATA
*
46852619 TTTATATTTTT-TGAATTTTTAAAATTTAAAAAT
1 TTTATATTTTTAT-AACTTTTAAAATTTAAAAAT
46852652 TAATTAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 1 0.03
36 18 0.60
37 11 0.37
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (36 bp):
TTTATATTTTTATAACTTTTAAAATTTAAAAATATA
Found at i:46852800 original size:22 final size:21
Alignment explanation
Indices: 46852751--46852804 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
46852741 AAGGTAATTT
*
46852751 AATAAATAAAATAAATTTAAAA
1 AATAAA-AAAATAAAATTAAAA
**
46852773 GCTAAAAAAATAAAATTAATAA
1 AATAAAAAAATAAAATTAA-AA
46852795 AATAAAAAAA
1 AATAAAAAAA
46852805 AACTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAAAAAAATAAAATTAAAA
Done.