Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 144 of 349
Found at i:45985686 original size:22 final size:20
Alignment explanation
Indices: 45985651--45985695 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
45985641 AATATAATAT
45985651 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
45985671 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
45985693 AAA
1 AAA
45985696 CCAAACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:45986807 original size:45 final size:45
Alignment explanation
Indices: 45986757--45986863 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
45986747 CGACTACTGT
**
45986757 TACTGTTACCGTTACTGTTATTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
*
45986802 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
45986847 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
45986864 CTACTGCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:45986878 original size:18 final size:18
Alignment explanation
Indices: 45986847--45986881 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45986837 GTGTGTTGAA
* *
45986847 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
45986865 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
45986882 ATTACTGATT
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:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:45994148 original size:47 final size:45
Alignment explanation
Indices: 45994036--45994158 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 45
45994026 AGGTTATTGT
45994036 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGG-C-CATTATGA
*
45994082 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTTTGGGACATGGCATCGGCCATT-ATGA
*
45994127 CGAGTGCTAGTGTAAGACATGTTTGGCACATG
1 -GA--GCTAGTGTAAGACATGTTTGGGACATG
45994159 CATTTGCTAC
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
45 6 0.09
46 16 0.24
47 28 0.41
48 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGGCCATTATGA
Found at i:45995609 original size:26 final size:26
Alignment explanation
Indices: 45995573--45995624 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45995563 TGGGCAATGT
45995573 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
45995599 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
45995625 ATGCCTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TTGTGTGCATAAGATCGAGTTAAGTA
Found at i:45995957 original size:32 final size:32
Alignment explanation
Indices: 45995911--45995988 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
45995901 TAACACAGAA
*
45995911 TAAGTATTTAAGCTTAGTAAGTTCATATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
* *
45995943 TAAGCATTTAAGCTTAGTAAGTTCGTATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
45995975 T-AGAATTTAA-CTTA
1 TAAGAATTTAAGCTTA
45995989 CCATTTACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 4 0.09
31 8 0.19
32 31 0.72
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (32 bp):
TAAGAATTTAAGCTTAGTAAGTTCATATAACT
Found at i:45996403 original size:25 final size:25
Alignment explanation
Indices: 45996348--45996409 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
45996338 GTACATGTAT
*
45996348 GCTCATACGAGC-GATAAACGGTAA
1 GCTCATACGAGCTGATAAACGATAA
*
45996372 GCTCATACGAGCTGAGT-ATCGATAA
1 GCTCATACGAGCTGA-TAAACGATAA
*
45996397 GCTCATAAGAGCT
1 GCTCATACGAGCT
45996410 AAAATCGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.36
25 20 0.61
26 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCTGATAAACGATAA
Found at i:45999707 original size:22 final size:23
Alignment explanation
Indices: 45999682--45999727 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45999672 CAACCAAACC
45999682 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
45999704 AATTCATTCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
45999727 A
1 A
45999728 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:45999733 original size:23 final size:23
Alignment explanation
Indices: 45999689--45999733 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45999679 ACCAATTCAA
*
45999689 CATATTTTCAAGATAAATTCATT
1 CATATTTTCAAGATAAAGTCATT
*
45999712 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
45999734 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATT
Found at i:46004541 original size:39 final size:38
Alignment explanation
Indices: 46004485--46004587 Score: 134
Period size: 39 Copynumber: 2.7 Consensus size: 38
46004475 CGAATATAAT
*
46004485 AATTATAATTACCATAATTATAATAATATTTGACCAAAA
1 AATTATAATTACAATAATTATAATAATATTTGACC-AAA
* * **
46004524 AATTTTAATTACAATAATTATAATAATATTTGATCGTA
1 AATTATAATTACAATAATTATAATAATATTTGACCAAA
* *
46004562 AATTATAATTATAATAACTATAATAA
1 AATTATAATTACAATAATTATAATAA
46004588 GGATTTCGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 24 0.43
39 32 0.57
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCAAA
Found at i:46005950 original size:14 final size:14
Alignment explanation
Indices: 46005931--46005957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46005921 CCTTTTAACT
46005931 TAAGCATAACTTCC
1 TAAGCATAACTTCC
46005945 TAAGCATAACTTC
1 TAAGCATAACTTC
46005958 TTAGGAAATT
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:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAGCATAACTTCC
Found at i:46006137 original size:34 final size:35
Alignment explanation
Indices: 46006092--46006158 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
46006082 CCTTTATAAA
*
46006092 AAAAAAGATTCTTATTATATCACATGATAATACTT
1 AAAAAAGATTCTTATTATATCACACGATAATACTT
46006127 AAAAAA-ATTCTTATTATATCACACGATAATAC
1 AAAAAAGATTCTTATTATATCACACGATAATAC
46006159 CTACATCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 25 0.81
35 6 0.19
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.34
Consensus pattern (35 bp):
AAAAAAGATTCTTATTATATCACACGATAATACTT
Found at i:46009044 original size:29 final size:29
Alignment explanation
Indices: 46008980--46009044 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
46008970 AAAATTACAT
46008980 TATTTATATTAATTATATTATAAAAATAA
1 TATTTATATTAATTATATTATAAAAATAA
* * **
46009009 AAATTATATTAATTATA-TATGTTAAATAA
1 TATTTATATTAATTATATTAT-AAAAATAA
46009038 TATTTAT
1 TATTTAT
46009045 GTATTTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATTTATATTAATTATATTATAAAAATAA
Found at i:46011314 original size:26 final size:26
Alignment explanation
Indices: 46011283--46011349 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
46011273 TATTCTGACC
46011283 TACAGCTCGTGTGAGCAAGCCCATTT
1 TACAGCTCGTGTGAGCAAGCCCATTT
46011309 TACAGCTCGTGTGAGCAAGCCCATTT
1 TACAGCTCGTGTGAGCAAGCCCATTT
46011335 TACAGCTCGTGTGAG
1 TACAGCTCGTGTGAG
46011350 TATTGATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (26 bp):
TACAGCTCGTGTGAGCAAGCCCATTT
Found at i:46015876 original size:171 final size:169
Alignment explanation
Indices: 46015643--46016119 Score: 650
Period size: 171 Copynumber: 2.8 Consensus size: 169
46015633 TAATTTATTC
* *
46015643 TACAAAAGATGGAACTTGAACTTGGGACCCTTAACTAAATTTCATGCTTCCACATTTAATAACTA
1 TACAAGAGATGGAACTTGAACTT-GGACCC-CAACTAAATTTCATGCTTCCACA-TTAATAACTA
* *
46015708 ACCATTAGGCAAATTACTTATTTTTGATATATTTTTACATTTTTATTAAGCTAAATTTTGGGATG
63 ACCATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATG
* *
46015773 TTAAGCCTTGGATGGCAACATATTAAAAAAAAT-AAGGGAATTT
128 TTAAGCCTTAGATGGCAACATATT--AAAAAATCAAGAGAATTT
* * ** *
46015816 TGCAAGAGATGGAACTTAAACTTGGACCCCATTTAACTTTCATGCTTCCACCATTAATAACTAAC
1 TACAAGAGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCA-CATTAATAACTAAC
**
46015881 CATTAGAAAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTT
65 CATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTT
46015946 AAGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
130 AAGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
* * * * *
46015986 TACAAGAGATGAAACTTGAACTTGAGACCTTCAACTAAAGTTCATGTTTCCATCTTTAATAACTA
1 TACAAGAGATGGAACTTGAACTTG-GACC-CCAACTAAATTTCATGCTTCCA-CATTAATAACTA
* * * * * *
46016051 ATCATTAAGCCAATTCCTTATTTTTGATACATTCCTACATTTTTATTTAGCTAAATTTTGGGATG
63 ACCATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATG
46016116 TTAA
128 TTAA
46016120 AGCTATTTTT
Statistics
Matches: 268, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
169 7 0.03
170 30 0.11
171 115 0.43
172 96 0.36
173 20 0.07
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (169 bp):
TACAAGAGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCACATTAATAACTAACC
ATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTA
AGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
Found at i:46019019 original size:48 final size:47
Alignment explanation
Indices: 46018961--46019055 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
46018951 ATTACATTTT
46018961 AAAATAAAATAATACAAATGTATTAAAATCATTAATTA-AAA-ATTTAA
1 AAAATAAAATAATACAAATGTATTAAAATC--TAATTACAAATATTTAA
* * *
46019008 AAAATTAAAATAATACAACTGTGTTAATATCTAATTACAAATATTTAA
1 AAAA-TAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
46019056 TGATTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 6 0.14
47 7 0.17
48 29 0.69
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (47 bp):
AAAATAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
Found at i:46020038 original size:16 final size:17
Alignment explanation
Indices: 46020017--46020050 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46020007 AAATAACATT
*
46020017 TTAAAAA-TAAATTATA
1 TTAAAAATTAAAATATA
46020033 TTAAAAATTAAAATATA
1 TTAAAAATTAAAATATA
46020050 T
1 T
46020051 AAATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATTAAAATATA
Found at i:46021966 original size:26 final size:26
Alignment explanation
Indices: 46021916--46021967 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
46021906 TAAATAATTA
**
46021916 TAATAAATTTAATTTTTTATATTATT
1 TAATAAATTTAATTTTAAATATTATT
46021942 TAATAAAATTTAATTTTAAAT-TTATT
1 TAAT-AAATTTAATTTTAAATATTATT
46021968 GTATTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATAAATTTAATTTTAAATATTATT
Found at i:46022901 original size:21 final size:21
Alignment explanation
Indices: 46022875--46022919 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
46022865 CAACATCTGA
46022875 TCAAATTTTAAACTAAATTGG
1 TCAAATTTTAAACTAAATTGG
46022896 TCAAATTTTAAACTAAATTGG
1 TCAAATTTTAAACTAAATTGG
46022917 TCA
1 TCA
46022920 TTATGCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAAATTTTAAACTAAATTGG
Found at i:46027394 original size:3 final size:3
Alignment explanation
Indices: 46027388--46027413 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46027378 TTTTTTTCTT
46027388 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
46027414 TACTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:46027806 original size:7 final size:7
Alignment explanation
Indices: 46027796--46027922 Score: 51
Period size: 7 Copynumber: 17.6 Consensus size: 7
46027786 GGGTTTTATA
46027796 ATTTAGG
1 ATTTAGG
46027803 ATTTAGG
1 ATTTAGG
*
46027810 GTTTAAGG
1 ATTT-AGG
*
46027818 -TTTAAG
1 ATTTAGG
46027824 ATTTAGAG
1 ATTTAG-G
* *
46027832 CTTTATG
1 ATTTAGG
*
46027839 ATTTATG
1 ATTTAGG
* *
46027846 ATTTTGT
1 ATTTAGG
46027853 ATTTAAGGG
1 ATTT-A-GG
* *
46027862 CTTAAGG
1 ATTTAGG
*
46027869 GTTTAGTG
1 ATTTAG-G
*
46027877 ATTCAGG
1 ATTTAGG
46027884 -TTTAGG
1 ATTTAGG
* *
46027890 GTTTAAG
1 ATTTAGG
46027897 ATTTAGAG
1 ATTTAG-G
*
46027905 TTTTAGG
1 ATTTAGG
*
46027912 ATTTAAG
1 ATTTAGG
46027919 ATTT
1 ATTT
46027923 TATATTTAAG
Statistics
Matches: 88, Mismatches: 24, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 7 0.08
7 58 0.66
8 20 0.23
9 3 0.03
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (7 bp):
ATTTAGG
Found at i:46027890 original size:102 final size:102
Alignment explanation
Indices: 46027723--46027918 Score: 256
Period size: 102 Copynumber: 1.9 Consensus size: 102
46027713 ATTTTTACGG
* * * *
46027723 TTTAGAGTTTTAGGATTTAGGATTTTTTATTTAAGGGTTTAAGGGTTTAGTGCCTATAGTTTAGG
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATATAGTTTAGG
*
46027788 GTTTTATA-ATTTAG-GATTTAGGGTTTAAGGTTTAAGA
66 G-TTTA-AGATTTAGAGATTTAGGATTTAAGGTTTAAGA
* *
46027825 TTTAGAGCTTTATGATTTATGATTTTGTATTTAAGGGCTTAAGGGTTTAGTG-AT-TCAGGTTTA
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATAT-A-GTTTA
*
46027888 GGGTTTAAGATTTAGAGTTTTAGGATTTAAG
64 GGGTTTAAGATTTAGAGATTTAGGATTTAAG
46027919 ATTTTATATT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
100 2 0.02
101 12 0.15
102 68 0.83
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.46
Consensus pattern (102 bp):
TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATATAGTTTAGG
GTTTAAGATTTAGAGATTTAGGATTTAAGGTTTAAGA
Found at i:46027900 original size:51 final size:50
Alignment explanation
Indices: 46027731--46027900 Score: 134
Period size: 51 Copynumber: 3.3 Consensus size: 50
46027721 GGTTTAGAGT
* * *
46027731 TTTAGGATTTAGGATTTTTTATTTAAGGGTTTAAGGGTTTAGTGCCTATA-G
1 TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTG-AT-TAGG
* * * *
46027782 TTTAGGGTTTTATA-ATTTAGGATTT-AGGGTTTAA-GGTTTA-AGATTTAGAG
1 TTTA-GGATTTA-AGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGA-TTAG-G
* * *
46027832 CTTTATGATTTATGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGATTCAGG
1 -TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGATT-AGG
*
46027884 TTTAGGGTTTAAGATTT
1 TTTAGGATTTAAGATTT
46027901 AGAGTTTTAG
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 21 0.23
51 39 0.43
52 23 0.25
53 4 0.04
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (50 bp):
TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGATTAGG
Found at i:46027937 original size:51 final size:51
Alignment explanation
Indices: 46027882--46027994 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
46027872 TAGTGATTCA
* *
46027882 GGTTTAGGGTTTA-AGATTT-AGAGTTTTAGGATTTAAGATTTTATATTTAAG
1 GGTTTAGGGATTAGAG-TTTAAGAGTTTAAGG-TTTAAGATTTTATATTTAAG
* * * *
46027933 GGTTTAGTGATTCGAGTTTAAGGGTTTAAGGTTTAAGATTTTGTATTTAAG
1 GGTTTAGGGATTAGAGTTTAAGAGTTTAAGGTTTAAGATTTTATATTTAAG
46027984 GGTTTAAGGGA
1 GGTTT-AGGGA
46027995 GTGTTTATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
51 37 0.71
52 15 0.29
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (51 bp):
GGTTTAGGGATTAGAGTTTAAGAGTTTAAGGTTTAAGATTTTATATTTAAG
Found at i:46027938 original size:22 final size:22
Alignment explanation
Indices: 46027863--46027967 Score: 83
Period size: 22 Copynumber: 4.8 Consensus size: 22
46027853 ATTTAAGGGC
* *
46027863 TTAAGGGTTTAGTGATTCAG-GT
1 TTAAGGGTTTA-AGATTTAGAGT
46027885 TT-AGGGTTTAAGATTTAGAGT
1 TTAAGGGTTTAAGATTTAGAGT
* * *
46027906 TTTAGGATTTAAGATTTTATA-T
1 TTAAGGGTTTAAGA-TTTAGAGT
* *
46027928 TTAAGGGTTTAGTGA-TTCGAGT
1 TTAAGGGTTTA-AGATTTAGAGT
*
46027950 TTAAGGGTTTAAGGTTTA
1 TTAAGGGTTTAAGATTTA
46027968 AGATTTTGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
20 6 0.09
21 16 0.25
22 36 0.55
23 7 0.11
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (22 bp):
TTAAGGGTTTAAGATTTAGAGT
Found at i:46027959 original size:73 final size:74
Alignment explanation
Indices: 46027798--46027973 Score: 214
Period size: 73 Copynumber: 2.4 Consensus size: 74
46027788 GTTTTATAAT
* * * *
46027798 TTAG-GATTTAGGGTTTAAGGTTTAAGATTTAGAGCTTTATGATTTATGATTTTGTATTTAAGGG
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
*
46027862 CTTAAGGGT
66 CTTAAGGGA
* * * *
46027871 TTAGTGATTCA-GGTTTAGGGTTTAAGATTTAGAGTTTTAGGATTTAAGATTTTATATTTAAGGG
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
* *
46027935 -TTTAGTGA
66 CTTAAGGGA
* *
46027943 TTCGAGTTTAAGGGTTTAAGGTTTAAGATTT
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTT
46027974 TGTATTTAAG
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
72 12 0.14
73 70 0.80
74 5 0.06
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.45
Consensus pattern (74 bp):
TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
CTTAAGGGA
Found at i:46028402 original size:40 final size:40
Alignment explanation
Indices: 46028311--46028484 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
46028301 AATGTTTTTT
* *
46028311 GCGGCATTTTTCAGAAAGCGCCGCTAATGCTCAAATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTC-AATCTATA
* **
46028352 GCGGCGTTTTTTAAAAAGCGCTACTAATGCTCAATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
** *
46028392 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGTCTTTA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
** * * *
46028432 GCTACGTTTTTTAAAAAGCGCCTCTAATGCTCGATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
*
46028472 GCGACATTTTTTA
1 GCGGCATTTTTTA
46028485 TCCAAATGCC
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 87 0.76
41 27 0.24
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (40 bp):
GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
Found at i:46028472 original size:80 final size:81
Alignment explanation
Indices: 46028311--46028484 Score: 244
Period size: 80 Copynumber: 2.2 Consensus size: 81
46028301 AATGTTTTTT
* * *
46028311 GCGGCATTTTTCAGAAAGCGCCGCTAATGCTCAAATCTATAGCGGCGTTTTTTAAAAAGCGCTAC
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCGCTAC
46028376 TAATGCTCAATCTATA
66 TAATGCTCAATCTATA
** * *
46028392 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTC-GGTCTTTAGCTACGTTTTTTAAAAAGCGCCT-
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCG-CTA
*
46028455 CTAATGCTCGATCTATA
65 CTAATGCTCAATCTATA
*
46028472 GCGACATTTTTTA
1 GCGGCATTTTTTA
46028485 TCCAAATGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
80 51 0.61
81 32 0.39
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (81 bp):
GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCGCTAC
TAATGCTCAATCTATA
Found at i:46039873 original size:26 final size:26
Alignment explanation
Indices: 46039841--46039924 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
46039831 AGTTCTAGTA
46039841 ATGGTTATTTGGTGTTTGAGAAGTTG
1 ATGGTTATTTGGTGTTTGAGAAGTTG
*
46039867 ATGGTTAGGTTTGGTAGTTCT----AG-TA
1 ATGGTTA--TTTGGT-GTT-TGAGAAGTTG
*
46039892 ATGGTTATTTGGTGCTTGAGAAGTTG
1 ATGGTTATTTGGTGTTTGAGAAGTTG
46039918 ATGGTTA
1 ATGGTTA
46039925 AAATGTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 18
0.69 0.04 0.27
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 6 0.13
25 10 0.22
26 17 0.37
28 6 0.13
29 3 0.07
30 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (26 bp):
ATGGTTATTTGGTGTTTGAGAAGTTG
Found at i:46039885 original size:51 final size:51
Alignment explanation
Indices: 46039825--46039924 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
46039815 CTTGAATAGA
*
46039825 TTTGGTAGTTCTAGTAATGGTTATTTGGTGTTTGAGAAGTTGATGGTTAGG
1 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTAGG
46039876 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTA
1 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTA
46039925 AAATGTCATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (51 bp):
TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTAGG
Found at i:46049870 original size:46 final size:47
Alignment explanation
Indices: 46049817--46049943 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 47
46049807 TGATATGTGT
*
46049817 GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATT-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGACGAGA
* *
46049863 GCTAGTGTAAGACATGTCTGGGATATGCATC-G--ACATTGAGACGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT--GACGAGA
*
46049909 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
46049944 TCGAGATATT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 63 0.90
47 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGACGAGA
Found at i:46054472 original size:10 final size:10
Alignment explanation
Indices: 46054443--46054536 Score: 56
Period size: 10 Copynumber: 9.7 Consensus size: 10
46054433 TATTTAAGCC
46054443 TAAAAA-TTA
1 TAAAAATTTA
46054452 TTAAAATATTTA
1 -TAAAA-ATTTA
46054464 TAAAAATTTA
1 TAAAAATTTA
* *
46054474 -GAAAA-TCA
1 TAAAAATTTA
**
46054482 TAAAAAACTA
1 TAAAAATTTA
*
46054492 T-ATAATTTA
1 TAAAAATTTA
*
46054501 TTAAAATATTA
1 TAAAAAT-TTA
46054512 T-AAAATTTA
1 TAAAAATTTA
*
46054521 -GAAAATTTA
1 TAAAAATTTA
46054530 TAAAAAT
1 TAAAAAT
46054537 ATTGAAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
8 2 0.03
9 25 0.38
10 26 0.39
11 10 0.15
12 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:46054525 original size:19 final size:20
Alignment explanation
Indices: 46054503--46054581 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 20
46054493 ATAATTTATT
46054503 AAAATATTAT-AAAATTTAG
1 AAAATATTATAAAAATTTAG
46054522 AAAAT-TTATAAAAATATT-G
1 AAAATATTATAAAAAT-TTAG
* * *
46054541 AAAA-ACTATAAAAA-TGAT
1 AAAATATTATAAAAATTTAG
*
46054559 TAAATATTATAAAAATTTAG
1 AAAATATTATAAAAATTTAG
46054579 AAA
1 AAA
46054582 TTATAGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.02
18 7 0.15
19 32 0.70
20 6 0.13
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAAAATTTAG
Found at i:46054527 original size:9 final size:9
Alignment explanation
Indices: 46054459--46054534 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 9
46054449 TTATTAAAAT
46054459 ATTTATAAAA
1 ATTTAT-AAA
*
46054469 ATTTAGAAA
1 ATTTATAAA
*
46054478 A-TCATAAAA
1 ATTTAT-AAA
** *
46054487 AACTATATA
1 ATTTATAAA
46054496 ATTTATTAAA
1 ATTTA-TAAA
46054506 ATATTATAAA
1 AT-TTATAAA
*
46054516 ATTTAGAAA
1 ATTTATAAA
46054525 ATTTATAAA
1 ATTTATAAA
46054534 A
1 A
46054535 ATATTGAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.04
9 28 0.55
10 18 0.35
11 3 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
ATTTATAAA
Found at i:46054528 original size:29 final size:29
Alignment explanation
Indices: 46054498--46054627 Score: 94
Period size: 29 Copynumber: 4.6 Consensus size: 29
46054488 ACTATATAAT
46054498 TTATTAAAATATTATAAAA-TTTAGAAAA
1 TTATTAAAATATTATAAAACTTTAGAAAA
* *
46054526 TTTATAAAAATATTGA-AAAACTATA-AAAA
1 -TTATTAAAATATT-ATAAAACTTTAGAAAA
* *
46054555 TGATT-AAATATTATAAAAATTTAG-AAA
1 TTATTAAAATATTATAAAACTTTAGAAAA
* * *
46054582 TTATAGAAAAGTATT-TAAAATTTTAAAAAA
1 TTAT-TAAAA-TATTATAAAACTTTAGAAAA
*
46054612 GTTATTGAAA-ATTATA
1 -TTATTAAAATATTATA
46054628 TGAAATTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
26 1 0.01
27 20 0.25
28 6 0.08
29 34 0.43
30 14 0.18
31 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (29 bp):
TTATTAAAATATTATAAAACTTTAGAAAA
Found at i:46054536 original size:57 final size:56
Alignment explanation
Indices: 46054443--46054581 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 56
46054433 TATTTAAGCC
* * * * * *
46054443 TAAAAATTATTAAAATATTTATAAAAATTTAGAAAATCA-TAAAAAACTATATAATTTAT
1 TAAATATTA-TAAAA-ATTTA-GAAAATTTAAAAAAT-ATTAAAAAACTATAAAAATGAT
*
46054502 TAAAATATTAT-AAAATTTAGAAAATTTATAAAAATATTGAAAAACTATAAAAATGAT
1 T-AAATATTATAAAAATTTAGAAAATTTA-AAAAATATTAAAAAACTATAAAAATGAT
46054559 TAAATATTATAAAAATTTAGAAA
1 TAAATATTATAAAAATTTAGAAA
46054582 TTATAGAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
56 18 0.26
57 39 0.57
58 3 0.04
59 2 0.03
60 7 0.10
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (56 bp):
TAAATATTATAAAAATTTAGAAAATTTAAAAAATATTAAAAAACTATAAAAATGAT
Found at i:46054611 original size:20 final size:21
Alignment explanation
Indices: 46054573--46054627 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
46054563 TATTATAAAA
*
46054573 ATTTAGAAATTATAGAAAAG-T
1 ATTTA-AAATTATAAAAAAGTT
*
46054594 ATTTAAAATTTTAAAAAAGTT
1 ATTTAAAATTATAAAAAAGTT
*
46054615 ATTGAAAATTATA
1 ATTTAAAATTATA
46054628 TGAAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTTAAAATTATAAAAAAGTT
Found at i:46056141 original size:22 final size:23
Alignment explanation
Indices: 46056110--46056152 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46056100 GTAGATTTGT
46056110 TATTCTATTTTAATTATTTTAGC
1 TATTCTATTTTAATTATTTTAGC
*
46056133 TATT-TATTTTAATTGTTTTA
1 TATTCTATTTTAATTATTTTA
46056153 TTTGGCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (23 bp):
TATTCTATTTTAATTATTTTAGC
Found at i:46058024 original size:93 final size:93
Alignment explanation
Indices: 46057912--46058083 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46057902 CGCCCATAAG
* *
46057912 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46057977 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
46058005 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
46058070 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
46058084 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:46058080 original size:46 final size:46
Alignment explanation
Indices: 46057905--46058080 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
46057895 TGTAACCCGC
* * *
46057905 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
46057951 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
46057997 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
46058044 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
46058081 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:46058099 original size:46 final size:46
Alignment explanation
Indices: 46057913--46058099 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
46057903 GCCCATAAGC
** * *
46057913 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
46057959 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
46058006 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
46058052 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
46058098 GA
1 GA
46058100 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 62 0.55
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:46060487 original size:29 final size:29
Alignment explanation
Indices: 46060448--46060535 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
46060438 CAAAGATAAC
*
46060448 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
46060477 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
46060506 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
46060536 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:46060506 original size:15 final size:15
Alignment explanation
Indices: 46060448--46060526 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
46060438 CAAAGATAAC
*
46060448 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
46060462 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
46060477 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
46060491 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
46060506 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
46060521 AAGAAA
1 AAGAAA
46060527 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:46060535 original size:15 final size:15
Alignment explanation
Indices: 46060459--46060535 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
46060449 AGAAAACCGA
46060459 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
46060474 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
46060488 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
46060502 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
46060518 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46060533 ATA
1 ATA
46060536 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46063498 original size:45 final size:45
Alignment explanation
Indices: 46063434--46063607 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 45
46063424 TGTAACCCGC
* *
46063434 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGCAT
*
46063479 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGC-A--T
* *** * *
46063525 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-GATTCGCAT
*
46063572 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
46063608 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 33 0.31
46 33 0.31
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGCAT
Found at i:46063599 original size:93 final size:92
Alignment explanation
Indices: 46063441--46063611 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
46063431 CGCCCATAAG
**
46063441 CGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46063506 CGAGCTCGGATGCCTAGTTACATCTCT
66 CGAGCTCGGATGCCTAGTTACATCTCT
*
46063533 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
46063598 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
46063612 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 28 0.38
93 46 0.62
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCT
Found at i:46063627 original size:46 final size:46
Alignment explanation
Indices: 46063442--46063627 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
46063432 GCCCATAAGC
* * *
46063442 GAACTCGGACTCAACTCAACGAGCTCGG-GGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
46063487 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
46063534 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
46063580 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
46063626 GA
1 GA
46063628 CATGTCACTT
Statistics
Matches: 113, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
44 9 0.08
45 29 0.26
46 34 0.30
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:46065552 original size:33 final size:33
Alignment explanation
Indices: 46065488--46065552 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
46065478 GATACATTTG
* * ***
46065488 AGGCCAATTTGACTAAGTGTCAAATGGAACTAT
1 AGGCCAATTCGACTAAGTGCCAAACAAAACTAT
*
46065521 AGGCCAATTCGACTAAGTGCCGAACAAAACTA
1 AGGCCAATTCGACTAAGTGCCAAACAAAACTA
46065553 CAAGAGAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (33 bp):
AGGCCAATTCGACTAAGTGCCAAACAAAACTAT
Found at i:46068095 original size:18 final size:18
Alignment explanation
Indices: 46068074--46068151 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
46068064 TACGGGTCCT
* *
46068074 CCTGCAAGTACAGATGCA
1 CCTGCAACTACAGATCCA
*
46068092 CCTGCAACTACGGATCCA
1 CCTGCAACTACAGATCCA
* * * *
46068110 CCTACAACAACTGATCCG
1 CCTGCAACTACAGATCCA
* * *
46068128 CCTACAAGTACAGAGCCA
1 CCTGCAACTACAGATCCA
46068146 CCTGCA
1 CCTGCA
46068152 GGTGATGTAG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.32, C:0.36, G:0.17, T:0.15
Consensus pattern (18 bp):
CCTGCAACTACAGATCCA
Found at i:46070010 original size:81 final size:80
Alignment explanation
Indices: 46069905--46070129 Score: 193
Period size: 81 Copynumber: 2.8 Consensus size: 80
46069895 GAAACCGAAA
* * * * * *
46069905 ATTCCGAAGCAAAGCCGCCGTCACAAGAGTCCCCACCTTTAAAGAAAGAGAGTGAAGAAGCTTCC
1 ATTCTGAAGCAAACCCACCATCACAAGAGT-CCCACCATCAAAGAAAGAGAGTGAAGAAGCTTCC
* *
46069970 AAAAATGAAGTCGAAG
65 AAAAATGAAATCAAAG
* * * * * * *
46069986 -TTCCTGAAGCCAACCCAGCTTCACAAGAAGTTCCACCATCGAAGAAAGATAGTGAAGAAGCTTG
1 ATT-CTGAAGCAAACCCACCATCACAAG-AGTCCCACCATCAAAGAAAGAGAGTGAAGAAGCTTC
*
46070050 CAAAACTGAAATCAAAG
64 CAAAAATGAAATCAAAG
* *** * *
46070067 ATTCTGAAGCAAAGCCACCATCACAAGAAGTTGAACCAGT-AAAGAAAGATAGTGAACAAGCTT
1 ATTCTGAAGCAAACCCACCATCACAAG-AGTCCCACCA-TCAAAGAAAGAGAGTGAAGAAGCTT
46070130 TGAAAACTGT
Statistics
Matches: 117, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
80 2 0.02
81 109 0.93
82 6 0.05
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.16
Consensus pattern (80 bp):
ATTCTGAAGCAAACCCACCATCACAAGAGTCCCACCATCAAAGAAAGAGAGTGAAGAAGCTTCCA
AAAATGAAATCAAAG
Found at i:46070136 original size:81 final size:80
Alignment explanation
Indices: 46069944--46070138 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 80
46069934 TCCCCACCTT
* ** * * * * * *
46069944 TAAAGAAAGAGAGTGAAGAAGCTTCCAAAAATGAAGTCGAAGTTCCTGAAGCCAACCCAGCTTCA
1 TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATCAAAGTTCCTGAAGCAAACCCACCATCA
*
46070009 CAAGAAGTTCCACCA
66 CAAGAAGTTCAACCA
* *
46070024 TCGAAGAAAGATAGTGAAGAAGC-TTGCAAAACTGAAATCAAAGATT-CTGAAGCAAAGCCACCA
1 T-AAAGAAAGATAGTGAAGAAGCTTTG-AAAACTGAAATCAAAG-TTCCTGAAGCAAACCCACCA
*
46070087 TCACAAGAAGTTGAACCA
63 TCACAAGAAGTTCAACCA
*
46070105 GTAAAGAAAGATAGTGAACAAGCTTTGAAAACTG
1 -TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTG
46070139 TTGTCAAGGA
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
80 2 0.02
81 87 0.92
82 6 0.06
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (80 bp):
TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATCAAAGTTCCTGAAGCAAACCCACCATCA
CAAGAAGTTCAACCA
Found at i:46070833 original size:35 final size:35
Alignment explanation
Indices: 46070792--46070862 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
46070782 GTAAAGAACC
46070792 ATTCAATAAATCATATAAAATCAAACCATTATAGA
1 ATTCAATAAATCATATAAAATCAAACCATTATAGA
46070827 ATTCAATAAATCATATAAAATCAAACCATTATAGA
1 ATTCAATAAATCATATAAAATCAAACCATTATAGA
46070862 A
1 A
46070863 AAAATGCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (35 bp):
ATTCAATAAATCATATAAAATCAAACCATTATAGA
Found at i:46070864 original size:18 final size:18
Alignment explanation
Indices: 46070808--46070864 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
46070798 TAAATCATAT
46070808 AAAATCAAACCATTATAG
1 AAAATCAAACCATTATAG
* * * *
46070826 -AATTCAATA-AATCATAT
1 AAAATCAA-ACCATTATAG
46070843 AAAATCAAACCATTATAG
1 AAAATCAAACCATTATAG
46070861 AAAA
1 AAAA
46070865 AATGCCATAG
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATCAAACCATTATAG
Found at i:46078968 original size:29 final size:29
Alignment explanation
Indices: 46078935--46079008 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
46078925 GTTGTGAGAT
* *
46078935 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
46078964 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
46078993 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46079009 CTGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:46080884 original size:40 final size:40
Alignment explanation
Indices: 46080814--46081031 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
46080804 AAACCAAGTA
* * *
46080814 CCTTCGGGATTTAG-TCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
46080853 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46080893 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46080933 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46080973 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46081013 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46081032 TTATCATCCG
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46088066 original size:14 final size:14
Alignment explanation
Indices: 46088049--46088078 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46088039 TTAAACCTGG
46088049 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
46088063 ACCAATCCAATTCA
1 ACCAATCCAAATCA
46088077 AC
1 AC
46088079 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:46090105 original size:49 final size:50
Alignment explanation
Indices: 46090025--46090257 Score: 247
Period size: 49 Copynumber: 4.7 Consensus size: 50
46090015 ATCTATTGTG
*
46090025 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
* * * * *
46090075 -GGTCGCATGTGTAGTACTAACTGCAGGCTACTATGCGTACTCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT
* * ** * * **
46090125 CGATCATGTGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATT
* * ** *
46090175 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACAAGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
*
46090225 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
46090258 TGCGTACTAG
Statistics
Matches: 148, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 71 0.48
50 43 0.29
51 34 0.23
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
Found at i:46090234 original size:101 final size:98
Alignment explanation
Indices: 46090032--46090267 Score: 255
Period size: 101 Copynumber: 2.4 Consensus size: 98
46090022 GTGAGGTCAC
* *
46090032 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAACT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAACT
* ***
46090097 GCAGGCTACTATGCGTACTCGATAACTTCGATCA
66 GCAGGCTACAACAAGTACTCGATAACTTCGA-CA
* ** *
46090131 TGTGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTACTA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT-GGTCACATGTGTAGTACTA
* *
46090195 AGTGCAGGCTACAACAAGTAC-CGGATAATTGGTCG-CA
63 ACTGCAGGCTACAACAAGTACTC-GATAACT--TCGACA
* *
46090232 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG
46090268 GTAGCCTTGT
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
99 32 0.28
100 39 0.34
101 41 0.36
103 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAACT
GCAGGCTACAACAAGTACTCGATAACTTCGACA
Found at i:46104096 original size:30 final size:30
Alignment explanation
Indices: 46104060--46104119 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
46104050 TTTAAGAGTA
46104060 GATCATCCATAATTAAGTGGGGTTGCATGC
1 GATCATCCATAATTAAGTGGGGTTGCATGC
46104090 GATCATCCATAATTAAGTGGGGTTGCATGC
1 GATCATCCATAATTAAGTGGGGTTGCATGC
46104120 AATCTTAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
GATCATCCATAATTAAGTGGGGTTGCATGC
Found at i:46112008 original size:33 final size:33
Alignment explanation
Indices: 46111965--46112028 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
46111955 CCCTGTTTAA
**
46111965 GAGTAGATCATCCATAATTAAGTAGAGTTGCGT
1 GAGTAGATCATCCATAATTAAACAGAGTTGCGT
*
46111998 GAGTATATCATCCATAATTAAACAGAGTTGC
1 GAGTAGATCATCCATAATTAAACAGAGTTGC
46112029 ATACAATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (33 bp):
GAGTAGATCATCCATAATTAAACAGAGTTGCGT
Found at i:46112222 original size:27 final size:27
Alignment explanation
Indices: 46112184--46112238 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46112174 CTCGAAAGTG
46112184 ATAGTAACATAAATCAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
*
46112211 ATAGTAACATAAATTAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
46112238 A
1 A
46112239 GATTAAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
ATAGTAACATAAATCAGGGATTTCTAC
Found at i:46113684 original size:33 final size:33
Alignment explanation
Indices: 46113621--46113684 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
46113611 CCCTTTTTAA
** *
46113621 GAGTAGATCATCCATAATTAAGTAGTGTTGCGT
1 GAGTAGATCATCCATAATTAAACAGAGTTGCGT
*
46113654 GAGTATATCATCCATAATTAAACAGAGTTGC
1 GAGTAGATCATCCATAATTAAACAGAGTTGC
46113685 ATGCAATCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
GAGTAGATCATCCATAATTAAACAGAGTTGCGT
Found at i:46113878 original size:27 final size:27
Alignment explanation
Indices: 46113840--46113893 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46113830 CTCGAAAGAG
46113840 ATAGTAACATAAATCAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
*
46113867 ATAGTAACATAAATTAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
46113894 GGATTAAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
ATAGTAACATAAATCAGGGATTTCTAC
Found at i:46128946 original size:483 final size:485
Alignment explanation
Indices: 46128123--46129006 Score: 1429
Period size: 483 Copynumber: 1.8 Consensus size: 485
46128113 AACACAATAA
* * *
46128123 TACACTTGTAAATAATCTTGATTAAACTAGATGTATGGAAACCTCATATCATTGGTTTCATACAT
1 TACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACCTCATATCATTGGTTTCATACAT
*
46128188 GATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACTTTAATTCATCCGAAATTGGCT
66 AATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACTTTAATTCATCCGAAATTGGCT
*
46128253 CGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGTAAATAAAACCATACATAAATT
131 CGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGTAAATAAAACCATACATAAAAT
*
46128318 CCTAGGTCATAGCCTACTTCAATTAAGCCAATTTTCGTAGCCATATACAAAGAGACAAACATATT
196 CCTAGGTCA-AGCCTACTTCAATTAAGCCAATTTTCATAGCCATATACAAAGAGACAAACATATT
* * * *
46128383 CTTACATGCCTTCATTTGGCAAATCAAATAAGACATTTAACAAAATACTCAAAAATACTATACAT
260 CTTACATGCCTTCACTTCGCAAATCAAATAACACATATAACAAAATACTCAAAAATACTATACAT
46128448 GCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTAGTTGATAGTGTGTTGACTCT
325 GCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTAGTTGATAGTGTGTTGACTCT
*
46128513 CCAATCGTCTTCTAATAGGCTATTTTCCAAGCCTTTAGTCACCCCTTTCTACTACTTGTGCTTAG
390 CCAATCATCTTCTAATAGGCTATTTTCCAAGCCTTTAGTCACCCCTTTCTACTACTTGTGCTTAG
46128578 TGGTTACCAAGTTTGAGAGAAAACATAATTT
455 TGGTTACCAAGTTTGAGAGAAAACATAATTT
* * *
46128609 TACACTTGTAAATAATCTTAATGAAATTAGTTGCATGGAAATCTCATATCATTGGTTTCATACAT
1 TACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACCTCATATCATTGGTTTCATACAT
* *
46128674 AA-ATGGTTATTTCCC-CTTTAGTG-TTATGGGTTCCCATGTTACTTTAATTCGTCCGAAATTGG
66 AATA-GGTTATTTCCCAC-TTAGTGTTTATGGGTTCCCATGTCACTTTAATTCATCCGAAATTGG
* * *
46128736 CTCGTTCATGT-AGCTCATTGCCAATTGGTAACGACCCATCACTTGTAATTAAAACCATGCATAA
129 CTCGTTCATGTGA-CTCATTGCCAATTGGTAACGACCAATCACTTGTAAATAAAACCATACATAA
* * * *
46128800 AATCGTAGGTC-AGCCTACTT-ATATTGAGCCAATTTTCATGGCCATATACAAAGAGATAAACAT
193 AATCCTAGGTCAAGCCTACTTCA-ATTAAGCCAATTTTCATAGCCATATACAAAGAGACAAACAT
* * *
46128863 ATTTTTACATGCCTTTACTTCGCAAATCAAATGACACATATAACAAAATACTCAAAAATACTATA
257 ATTCTTACATGCCTTCACTTCGCAAATCAAATAACACATATAACAAAATACTCAAAAATACTATA
*
46128928 CATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTAGTTGATAGTGTGTTGAT
322 CATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTAGTTGATAGTGTGTTGAC
*
46128993 TTTCCAATCATCTT
387 TCTCCAATCATCTT
46129007 TCAATCCTTT
Statistics
Matches: 366, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
482 1 0.00
483 180 0.49
484 1 0.00
485 107 0.29
486 77 0.21
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (485 bp):
TACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACCTCATATCATTGGTTTCATACAT
AATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACTTTAATTCATCCGAAATTGGCT
CGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGTAAATAAAACCATACATAAAAT
CCTAGGTCAAGCCTACTTCAATTAAGCCAATTTTCATAGCCATATACAAAGAGACAAACATATTC
TTACATGCCTTCACTTCGCAAATCAAATAACACATATAACAAAATACTCAAAAATACTATACATG
CCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTAGTTGATAGTGTGTTGACTCTC
CAATCATCTTCTAATAGGCTATTTTCCAAGCCTTTAGTCACCCCTTTCTACTACTTGTGCTTAGT
GGTTACCAAGTTTGAGAGAAAACATAATTT
Found at i:46129550 original size:26 final size:26
Alignment explanation
Indices: 46129514--46129565 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46129504 GCTAAATTCA
46129514 GACCCTAATCGGATTACCCGTCTGGG
1 GACCCTAATCGGATTACCCGTCTGGG
46129540 GACCCTAATCGGATTACCCGTCTGGG
1 GACCCTAATCGGATTACCCGTCTGGG
46129566 CTAAATCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (26 bp):
GACCCTAATCGGATTACCCGTCTGGG
Found at i:46130741 original size:9 final size:9
Alignment explanation
Indices: 46130727--46130751 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46130717 TCAAGTTTTG
46130727 CAATTTATT
1 CAATTTATT
46130736 CAATTTATT
1 CAATTTATT
46130745 CAATTTA
1 CAATTTA
46130752 GTCCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:46133609 original size:48 final size:48
Alignment explanation
Indices: 46133536--46133802 Score: 174
Period size: 48 Copynumber: 5.6 Consensus size: 48
46133526 CAAGGTAGGG
* * * * *
46133536 TGCCAATTCCATATCCCAAATATGGTCTTACATAGGACCATATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * *
46133584 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-CA-TA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * * * * *
46133630 TG-GAA-GCCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTCATTATGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACA-TAGGACCACATAACGA
* * *
46133677 TGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * * **
46133725 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCACATGTC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* *
46133772 CTGCCGAA-GCCATATCCCAGATATGGTCTTA
1 -TGCC-AATGCCATGTCCCAGACATGGTCTTA
46133803 TACGGGAGCT
Statistics
Matches: 174, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
44 4 0.02
45 24 0.14
46 6 0.03
47 7 0.04
48 127 0.73
49 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
Found at i:46141278 original size:24 final size:24
Alignment explanation
Indices: 46141251--46141297 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
46141241 TTTTTTAAAT
*
46141251 TTGAATTATATAA-TATTAGTATAG
1 TTGAATTATA-AATTAATAGTATAG
*
46141275 TTGACTTATAAATTAATAGTATA
1 TTGAATTATAAATTAATAGTATA
46141298 TGTATAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
TTGAATTATAAATTAATAGTATAG
Found at i:46142917 original size:21 final size:22
Alignment explanation
Indices: 46142884--46142944 Score: 83
Period size: 20 Copynumber: 2.9 Consensus size: 22
46142874 TTCACATCTC
46142884 AAAAAATTATAAAAAAAAC-T-
1 AAAAAATTATAAAAAAAACTTA
*
46142904 AAAGAA-TATATAAAAAAACTTA
1 AAAAAATTATA-AAAAAAACTTA
46142926 AAAAAATTATAAAAAAAAC
1 AAAAAATTATAAAAAAAAC
46142945 ACCTTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.11
20 13 0.37
21 1 0.03
22 13 0.37
23 4 0.11
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAAATTATAAAAAAAACTTA
Found at i:46144381 original size:3 final size:3
Alignment explanation
Indices: 46144373--46144408 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46144363 ATATAACAAG
46144373 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46144409 CCCTTAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46149108 original size:21 final size:23
Alignment explanation
Indices: 46149067--46149109 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46149057 ATTCTATGGA
46149067 AAAATGTGATGAGATAAGTTATT
1 AAAATGTGATGAGATAAGTTATT
*
46149090 AAAATGTGGT-AGA-AAGTTAT
1 AAAATGTGATGAGATAAGTTAT
46149110 CTGTGGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (23 bp):
AAAATGTGATGAGATAAGTTATT
Found at i:46149816 original size:23 final size:23
Alignment explanation
Indices: 46149767--46149816 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
46149757 TTTGATTTGT
* *
46149767 ACTTCGGTACTTTTGTTACTTAC
1 ACTTCAGTACTTTTGTTACTTAA
*
46149790 ACTTCAGTGCTTTTGTT-CTTGAA
1 ACTTCAGTACTTTTGTTACTT-AA
46149813 ACTT
1 ACTT
46149817 TATTATGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (23 bp):
ACTTCAGTACTTTTGTTACTTAA
Found at i:46150542 original size:20 final size:20
Alignment explanation
Indices: 46150517--46150554 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46150507 TTGTAATTAA
46150517 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
46150537 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
46150555 ATTGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:46150601 original size:20 final size:18
Alignment explanation
Indices: 46150565--46150601 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
46150555 ATTGTAATTT
46150565 ATATTAATTATAAATAAG
1 ATATTAATTATAAATAAG
46150583 ATATTATATTATGAAATAA
1 ATATTA-ATTAT-AAATAA
46150602 ATCAAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATTAATTATAAATAAG
Found at i:46150894 original size:18 final size:18
Alignment explanation
Indices: 46150859--46150911 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
46150849 TAAAAGATAT
*
46150859 TTATTAATTAAATAATTA
1 TTATAAATTAAATAATTA
* *
46150877 TTATAAATTATATTATTA
1 TTATAAATTAAATAATTA
*
46150895 TAATATAAAGTAAATAA
1 T--TATAAATTAAATAA
46150912 ATAAAAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTATAAATTAAATAATTA
Found at i:46151387 original size:13 final size:14
Alignment explanation
Indices: 46151366--46151405 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
46151356 ATTTGATTGG
46151366 AAAATGAATTAAA-
1 AAAATGAATTAAAC
*
46151379 AATATGAATTAAAC
1 AAAATGAATTAAAC
46151393 AAAAGTGAATTAA
1 AAAA-TGAATTAA
46151406 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (14 bp):
AAAATGAATTAAAC
Found at i:46161928 original size:30 final size:30
Alignment explanation
Indices: 46161894--46161954 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
46161884 TTGAAAGACT
46161894 AATGTTGTAAGGTTTTAGATATGGAATAGA
1 AATGTTGTAAGGTTTTAGATATGGAATAGA
46161924 AATGTTGTAAGGTTTTAGATATGGAATAGA
1 AATGTTGTAAGGTTTTAGATATGGAATAGA
46161954 A
1 A
46161955 TAAGTTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (30 bp):
AATGTTGTAAGGTTTTAGATATGGAATAGA
Found at i:46164657 original size:5 final size:5
Alignment explanation
Indices: 46164647--46164680 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
46164637 TTATTTATAT
46164647 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAA
46164681 TAAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:46165218 original size:23 final size:26
Alignment explanation
Indices: 46165169--46165225 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 26
46165159 AAATATTAAA
*
46165169 TATTTTAATTATTTATAATTTAAATT
1 TATTTTAATTAATTATAATTTAAATT
46165195 TATTTTAA-TAATTA-AA-TTAAATT
1 TATTTTAATTAATTATAATTTAAATT
46165218 TATTTTAA
1 TATTTTAA
46165226 ACTATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 15 0.50
24 2 0.07
25 5 0.17
26 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTAATTAATTATAATTTAAATT
Found at i:46165219 original size:18 final size:19
Alignment explanation
Indices: 46165179--46165219 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
46165169 TATTTTAATT
*
46165179 ATTT-ATAATTTAAATTTA
1 ATTTAATAATTTAAATTAA
*
46165197 TTTTAATAA-TTAAATTAA
1 ATTTAATAATTTAAATTAA
46165215 ATTTA
1 ATTTA
46165220 TTTTAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATAATTTAAATTAA
Found at i:46168379 original size:14 final size:14
Alignment explanation
Indices: 46168360--46168387 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46168350 ATCTAATACT
46168360 AATAGAATAGAAAA
1 AATAGAATAGAAAA
46168374 AATAGAATAGAAAA
1 AATAGAATAGAAAA
46168388 TACTAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:46174567 original size:25 final size:25
Alignment explanation
Indices: 46174519--46174567 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46174509 TCAATTTATT
* *
46174519 TCATAAACAATAAATATCCCTTAAC
1 TCATAAACAATAAATAGCCATTAAC
* *
46174544 TCATAATCACTAAATAGCCATTAA
1 TCATAAACAATAAATAGCCATTAA
46174568 TATGACTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (25 bp):
TCATAAACAATAAATAGCCATTAAC
Found at i:46175854 original size:16 final size:17
Alignment explanation
Indices: 46175833--46175867 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46175823 TTTCATCCTT
*
46175833 TTATTTTTATC-TTTTC
1 TTATTTTAATCATTTTC
46175849 TTATTTTAATCATTTTC
1 TTATTTTAATCATTTTC
46175866 TT
1 TT
46175868 TTCCATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTAATCATTTTC
Found at i:46177254 original size:8 final size:8
Alignment explanation
Indices: 46177241--46177274 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
46177231 AATTTAGTTT
46177241 TTTTTAAA
1 TTTTTAAA
46177249 TTTTTAAA
1 TTTTTAAA
*
46177257 ATTTTAAA
1 TTTTTAAA
46177265 -TTTTAAA
1 TTTTTAAA
46177272 TTT
1 TTT
46177275 GATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:46177265 original size:7 final size:7
Alignment explanation
Indices: 46177242--46177284 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
46177232 ATTTAGTTTT
46177242 TTTTAAA
1 TTTTAAA
46177249 TTTTTAAAA
1 -TTTT-AAA
46177258 TTTTAAA
1 TTTTAAA
46177265 TTTTAAA
1 TTTTAAA
* *
46177272 TTTGATA
1 TTTTAAA
46177279 TTTTAA
1 TTTTAA
46177285 GAAGTAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 19 0.63
8 8 0.27
9 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (7 bp):
TTTTAAA
Found at i:46181499 original size:19 final size:19
Alignment explanation
Indices: 46181475--46181524 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
46181465 GGACACAGGG
46181475 ACACGCCCGTGTGTCTTCA
1 ACACGCCCGTGTGTCTTCA
*
46181494 ACACGCCCGCGTGTCTTCA
1 ACACGCCCGTGTGTCTTCA
46181513 ACACGCCCGTGT
1 ACACGCCCGTGT
46181525 CCTCAGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.40, G:0.22, T:0.22
Consensus pattern (19 bp):
ACACGCCCGTGTGTCTTCA
Found at i:46183414 original size:48 final size:48
Alignment explanation
Indices: 46183343--46183666 Score: 400
Period size: 48 Copynumber: 6.8 Consensus size: 48
46183333 TAAAGTACCA
** * *
46183343 ATGCCATGTCCCCTACATGGTCTTACA-T-GAATCCATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCG
* * *
46183391 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * * * *
46183439 ATGCCATGTTCGAGACATGATCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
46183487 ATGCCATGTCCCAAACATGGTTTTACACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * * * *
46183535 ATGCCGTGTCCCAAACATGGTCTTACATTGGCACACATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
46183583 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
46183631 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
46183667 GTTAACATGG
Statistics
Matches: 237, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
48 234 0.99
49 1 0.00
50 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
Found at i:46183658 original size:96 final size:96
Alignment explanation
Indices: 46183343--46183666 Score: 445
Period size: 96 Copynumber: 3.4 Consensus size: 96
46183333 TAAAGTACCA
* * *
46183343 ATGCCATGTCCCCTACATGGTCTTACA-T-GAATCCATATATCATCGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCA--CACATATCATCGCCGATGCCATGTCCCAGA
* *
46183406 CATGGTCTTACACTAGCACACATATCATTGCTG
64 CATGGTCTTACACTGGCACACATATCATCGCTG
* * * * ** * *
46183439 ATGCCATGTTCGAGACATGATCTTACACAGGCACATATATCATCGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
*
46183504 TGGTTTTACACTGGCACACATATCATCGCTG
66 TGGTCTTACACTGGCACACATATCATCGCTG
* * * *
46183535 ATGCCGTGTCCCAAACATGGTCTTACATTGGCACACATATCATTGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
*
46183600 TGGTCTTACACTGGCACACATATCATCACTG
66 TGGTCTTACACTGGCACACATATCATCGCTG
46183631 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
46183667 GTTAACATGG
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 198 0.99
98 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCACACATATCATCGCTG
Found at i:46184966 original size:47 final size:47
Alignment explanation
Indices: 46184897--46185022 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
46184887 TTGTGAGAGC
* *
46184897 TAGTGTAAGACCATGTCCGGGACATGGCATCGGC-ATTGAGACGA-AGG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGACGATA-G
*
46184944 ATAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGACGATAG
*
46184990 TCAGAGTAAGACCATGTCTGGGACATGGCATCG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCG
46185023 ACACCTTACC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 1 0.01
46 23 0.33
47 29 0.42
48 16 0.23
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGACGATAG
Found at i:46188666 original size:23 final size:24
Alignment explanation
Indices: 46188628--46188672 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
46188618 TTTGCTCTTC
*
46188628 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
*
46188652 TAGCAT-AACTCGTCTTGCCTT
1 TAGCATGAACTCGTCTTACCTT
46188673 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:46188930 original size:55 final size:54
Alignment explanation
Indices: 46188798--46188995 Score: 210
Period size: 55 Copynumber: 3.7 Consensus size: 54
46188788 AACTTACTAT
46188798 TGCCATGTCTTGACATGGTCTTACATG-GTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAA
* * * *
46188851 TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCC-TTGCCTTAT-G-AACTCACCAA
* * *
46188906 TGCCAAGTCTTGACATGGTCTTACATGA-TTTCCTTGCCTTA-GAAACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATG-AA-CTCACCAA
* **
46188960 TTGCCATGCCTTGGTATGGTCTTACATG-GTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGAGTATCCTT
46188996 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
52 2 0.02
53 38 0.31
54 9 0.07
55 70 0.58
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAA
Found at i:46191927 original size:21 final size:21
Alignment explanation
Indices: 46191903--46191955 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
46191893 GCATGTCTAA
* *
46191903 TGGCCATACGGATGTGTCCCT
1 TGGCCACACGGATATGTCCCT
*
46191924 TGGCCACACGGGTATGTCCCT
1 TGGCCACACGGATATGTCCCT
*
46191945 TGACCACACGG
1 TGGCCACACGG
46191956 GCATGTGACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (21 bp):
TGGCCACACGGATATGTCCCT
Found at i:46191956 original size:21 final size:21
Alignment explanation
Indices: 46191917--46191961 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
46191907 CATACGGATG
* *
46191917 TGTCCCTTGGCCACACGGGTA
1 TGTCCCTTGACCACACGGGCA
46191938 TGTCCCTTGACCACACGGGCA
1 TGTCCCTTGACCACACGGGCA
46191959 TGT
1 TGT
46191962 GACCCCAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (21 bp):
TGTCCCTTGACCACACGGGCA
Found at i:46222244 original size:27 final size:26
Alignment explanation
Indices: 46222191--46222249 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
46222181 CAGAAATAGT
*
46222191 ATCAGGTGGCCTTAGCCCATTAACAGA
1 ATCAGGTGGCCTAAGCCCATT-ACAGA
46222218 ATCAGGTGGGCCTAAGCCCAATT-CAGA
1 ATCAGGT-GGCCTAAGCCC-ATTACAGA
46222245 ATCAG
1 ATCAG
46222250 TGTTAGATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 16 0.55
28 10 0.34
29 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (26 bp):
ATCAGGTGGCCTAAGCCCATTACAGA
Found at i:46225755 original size:30 final size:30
Alignment explanation
Indices: 46225721--46225782 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
46225711 TTCCCGAGCC
46225721 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
46225751 TAGGGGGAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
46225781 TA
1 TA
46225783 AGTTAAGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:46226598 original size:64 final size:63
Alignment explanation
Indices: 46226511--46226682 Score: 175
Period size: 67 Copynumber: 2.7 Consensus size: 63
46226501 AGACATTATG
* * *
46226511 ATGTAGCTAGGTCGTATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCAT-GGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
46226575 ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
46226640 AA
62 AA
* * * * *
46226642 AT-TGGCTAGGTCACATAGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCAT-GGTGATACTATGTGTACACCATGT
46226683 GTACAACAGA
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
63 10 0.11
64 24 0.28
66 20 0.23
67 33 0.38
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:46227955 original size:31 final size:31
Alignment explanation
Indices: 46227917--46227979 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46227907 TTTTAAATAT
46227917 GAATGCTTGATGATTAAGCTGAAGATATTTG
1 GAATGCTTGATGATTAAGCTGAAGATATTTG
46227948 GAATGCTTGATGATTAAGCTGAAGATATTTG
1 GAATGCTTGATGATTAAGCTGAAGATATTTG
46227979 G
1 G
46227980 TAAGATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (31 bp):
GAATGCTTGATGATTAAGCTGAAGATATTTG
Found at i:46228995 original size:31 final size:31
Alignment explanation
Indices: 46228957--46229016 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
46228947 TTCACACTTC
*
46228957 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTTTT
**
46228988 ATATTTCATATTACTAGGCCGAAGCCTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTT
46229017 ACTTAAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTAGGCCGAAGCCTTTTT
Found at i:46229315 original size:25 final size:24
Alignment explanation
Indices: 46229209--46229354 Score: 188
Period size: 25 Copynumber: 6.0 Consensus size: 24
46229199 GCTTTATCAT
* *
46229209 ATAACTGGAGGCCT-AGCCTCTTTTG
1 ATAACTGG-GGCATAAGCC-CTTTTA
46229234 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46229257 ATAACTGGGGTATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46229281 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
46229306 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
46229331 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46229355 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 16 0.15
24 40 0.36
25 54 0.49
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46229428 original size:20 final size:20
Alignment explanation
Indices: 46229403--46229449 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
46229393 TTACGAATAC
46229403 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46229423 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46229443 ACCATGT
1 ATCATGT
46229450 TTACTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46240653 original size:30 final size:30
Alignment explanation
Indices: 46240619--46240679 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
46240609 TTCCTGAGCC
46240619 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
46240649 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
46240679 T
1 T
46240680 GAGTTAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:46241494 original size:64 final size:64
Alignment explanation
Indices: 46241414--46241585 Score: 193
Period size: 67 Copynumber: 2.7 Consensus size: 64
46241404 AGACATTATG
* *
46241414 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
46241478 ATGTAACTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
46241543 AA
63 AA
* * * * *
46241545 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
46241586 GTACAACAGA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 20 0.23
67 32 0.37
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:46244023 original size:46 final size:44
Alignment explanation
Indices: 46243937--46244059 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 44
46243927 GCATATCTGT
*
46243937 GCCGATGCCATGTCCTAGGCATAGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTCG-AG
*
46243983 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGAC--ACATCTCGAG
46244029 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTCTTACACT
46244060 AGCACTCGTC
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
44 12 0.17
45 14 0.19
46 46 0.64
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGACACATCTCGAG
Found at i:46244082 original size:46 final size:46
Alignment explanation
Indices: 46243937--46244156 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 46
46243927 GCATATCTGT
* * *
46243937 GCCGATGCCATGTCCTAGGCATAGTCTTACACT-GAC-ACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCTACATCTC-AAG
* * *
46243983 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACATCTCAAG
* *
46244029 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-CTACATCTCAAG
* * * **
46244075 GCTGATGCCATGTTCC-AGACATGGTTTTACACTAGCTCT-CATAAT-GTG
1 GCCGATG-CATG-TCCTAGACAT-GTCTTACACTAGC-CTACAT-CTCAAG
* * *
46244123 GCCGATGCATGTCCCAAACACGTCTTACACTAGC
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
46244157 TCACACAAGT
Statistics
Matches: 144, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 74 0.51
47 19 0.13
48 25 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACATCTCAAG
Found at i:46244105 original size:94 final size:92
Alignment explanation
Indices: 46243937--46244161 Score: 219
Period size: 94 Copynumber: 2.4 Consensus size: 92
46243927 GCATATCTGT
* *
46243937 GCCGATGCCATGTCCTAGGCATAGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCTAG
* *
46244000 ACATGTCTTACACTGGCT-TACAT-CTCGAG
64 ACATGTCTTACACTAGCTCT-CATAAT-GAG
* * *
46244029 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCA-ATGCTGATGCCATGTTCC-A
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATG-TCCTA
* *
46244092 GACATGGTTTTACACTAGCTCTCATAATGTG
63 GACAT-GTCTTACACTAGCTCTCATAATGAG
* * * *
46244123 GCCGATGCATGTCCCAAACACGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACA
46244162 CAAGTGACCC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
90 10 0.09
91 15 0.14
92 20 0.18
93 10 0.09
94 53 0.48
95 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCTAGAC
ATGTCTTACACTAGCTCTCATAATGAG
Found at i:46246061 original size:55 final size:52
Alignment explanation
Indices: 46245953--46246199 Score: 229
Period size: 55 Copynumber: 4.7 Consensus size: 52
46245943 ATTAGGGTTT
* * **
46245953 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-GCATT-GTAA-G-TTCATAAGGC
* *
46246008 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTG-TAAGTT-C-ATAAGGC
* * * *
46246063 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GTAAGTTCATAAGGC
46246116 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGTAAGTTCAT-AAGGC
* * *
46246165 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
46246200 ATGGAAAGGT
Statistics
Matches: 164, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
49 31 0.19
51 1 0.01
52 8 0.05
53 42 0.26
54 10 0.06
55 66 0.40
56 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGTAAGTTCATAAGGC
Found at i:46246159 original size:108 final size:110
Alignment explanation
Indices: 46245960--46246160 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
46245950 TTTAAGGATA
*
46245960 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
46246025 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
** * *
46246070 CCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
46246132 ACCATGTCAAGACATGGCAATTG-TAAGTT
65 ACCATGTCAAGACATGGC-ATTGATAAGTT
46246161 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 3 0.04
108 45 0.54
109 11 0.13
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
Found at i:46253587 original size:53 final size:53
Alignment explanation
Indices: 46253404--46253611 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 53
46253394 ATTAGGGTTT
* *
46253404 AAGGATACCATGTAAGATCATGCCAATG-CATGGCATTTGGTAAGGTTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCA-TTGGTAA-G-TTCATAAGGC
* * * * * *
46253459 AAGGAAATCGTGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
46253514 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
46253567 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
46253612 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 8 0.06
55 64 0.51
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:46253610 original size:108 final size:110
Alignment explanation
Indices: 46253411--46253611 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
46253401 TTTAAGGATA
* * * * *
46253411 CCATGTAAGATCATGCCAATGCATGGCATTTGGTAAGGTTTCTAAGGTAAGGAAATCGTGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
46253476 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGACAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
* *
46253521 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
46253583 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
46253612 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
Found at i:46259297 original size:41 final size:41
Alignment explanation
Indices: 46259201--46259298 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
46259191 ACACGGCCAG
* **
46259201 ACACACGGGCGTGTGACTGGACCGTGTGAGACACACGGCTA
1 ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
* * *
46259242 ATAGACGGGTGTGTGACTGGACCGAGTGAGACACACAACTA
1 ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
*
46259283 ACACACGAGCGTGTGA
1 ACACACGGGCGTGTGA
46259299 TTTGGTCGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.15
Consensus pattern (41 bp):
ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
Found at i:46263842 original size:80 final size:79
Alignment explanation
Indices: 46263737--46263901 Score: 197
Period size: 80 Copynumber: 2.1 Consensus size: 79
46263727 AGCTCCTCCA
* * * *
46263737 TGAGCTAAGGATAAGCTGTGTATCAACATAGCTCCTCCGTGAGCTTATGGACAAGTTGTGTATCA
1 TGAGCTAAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGC-TAAGGACAAGTTGTGTATCA
*
46263802 ACGAAGATCC-CCTG
65 ACGAAGATCCTCATG
* * * **
46263816 TGAGCTCATGGATAAGCTGTGTATCAATAAAGCTCCTATATGAGCTAAGGGTAAGTTGTGTATCA
1 TGAGCT-AAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGCTAAGGACAAGTTGTGTATCA
* *
46263881 GCGAAGCTCCTCATG
65 ACGAAGATCCTCATG
46263896 TGAGCT
1 TGAGCT
46263902 TAAGTGATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 31 0.43
80 41 0.57
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (79 bp):
TGAGCTAAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGCTAAGGACAAGTTGTGTATCAA
CGAAGATCCTCATG
Found at i:46263900 original size:40 final size:40
Alignment explanation
Indices: 46263710--46263901 Score: 162
Period size: 40 Copynumber: 4.8 Consensus size: 40
46263700 ACGGTTTTAC
*
46263710 AAGTTGTGTA-CTAGCAAAGCTCCTCCA--TGAGCTAAGGAT
1 AAGTTGTGTATC-AACAAAGCTCCT-CATGTGAGCTAAGGAT
* * * * *
46263749 AAGCTGTGTATCAACATAGCTCCTC-CGTGAGCTTATGGAC
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGC-TAAGGAT
* * * *
46263789 AAGTTGTGTATCAACGAAGATCC-CCTGTGAGCTCATGGAT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCT-AAGGAT
* * * *
46263829 AAGCTGTGTATCAATAAAGCTCCT-ATATGAGCTAAGGGT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCTAAGGAT
* *
46263868 AAGTTGTGTATCAGCGAAGCTCCTCATGTGAGCT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCT
46263902 TAAGTGATTA
Statistics
Matches: 121, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 50 0.41
40 70 0.58
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCTAAGGAT
Found at i:46265086 original size:13 final size:13
Alignment explanation
Indices: 46265059--46265092 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46265049 AGATAACTTT
* *
46265059 AAAAAATAACTTG
1 AAAACATAACATG
46265072 AAAACATAACATG
1 AAAACATAACATG
46265085 AAAACATA
1 AAAACATA
46265093 GTTTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAACATAACATG
Found at i:46267613 original size:42 final size:43
Alignment explanation
Indices: 46267559--46267662 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 43
46267549 ATCGATTTGA
46267559 GATTTACATGTAAGACCATGTCTGGGACATCA-GCATCG-TATTT
1 GATTT-CATGTAAGACCATGTCTGGGACA-CAGGCATCGATATTT
* *
46267602 GATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTT
1 GATTTCATGTAAGACCATGTCTGGGACACAGGCATCGATATTT
* *
46267645 GATTACAAGTAAGACCAT
1 GATTTCATGTAAGACCAT
46267663 ATCTTGAACG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 28 0.52
43 25 0.46
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
GATTTCATGTAAGACCATGTCTGGGACACAGGCATCGATATTT
Found at i:46267679 original size:43 final size:43
Alignment explanation
Indices: 46267527--46267679 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
46267517 ATTTTGTGTC
* * *
46267527 AGACCATATCTAGGACGTTGGAATCGAT-TTGAGATTTACATGTA
1 AGACCATATCTGGGACGTTGGCATCGATATT-TGA-TTACATGTA
* * ** *
46267571 AGACCATGTCTGGGACATCAGCATCG-TATTTGATTTCATGTA
1 AGACCATATCTGGGACGTTGGCATCGATATTTGATTACATGTA
* * * *
46267613 AGACCCTGTCTGGGACAG-AGGCATCGATATTTGATTACAAGTA
1 AGACCATATCTGGGAC-GTTGGCATCGATATTTGATTACATGTA
* *
46267656 AGACCATATCTTGAACGTTGGCAT
1 AGACCATATCTGGGACGTTGGCAT
46267680 TGTACGAGCT
Statistics
Matches: 86, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 30 0.35
43 34 0.40
44 22 0.26
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
AGACCATATCTGGGACGTTGGCATCGATATTTGATTACATGTA
Found at i:46268033 original size:13 final size:13
Alignment explanation
Indices: 46268015--46268040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46268005 AAGTAATCGT
46268015 ACACGGGCGTGTC
1 ACACGGGCGTGTC
46268028 ACACGGGCGTGTC
1 ACACGGGCGTGTC
46268041 CCTGCAGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:46273123 original size:46 final size:46
Alignment explanation
Indices: 46273073--46273245 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
46273063 TGGTTGAGCA
*
46273073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
46273119 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
46273166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46273212 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46273246 GGGGCGGGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46273229 original size:93 final size:93
Alignment explanation
Indices: 46273070--46273240 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
46273060 GGATGGTTGA
* *
46273070 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46273135 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
46273163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
46273228 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
46273241 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46273503 original size:19 final size:20
Alignment explanation
Indices: 46273466--46273503 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46273456 ATAAGGTGGT
46273466 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
46273486 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
46273504 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:46279529 original size:13 final size:13
Alignment explanation
Indices: 46279511--46279535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46279501 TAATGGTATA
46279511 TTGAATCCATGAC
1 TTGAATCCATGAC
46279524 TTGAATCCATGA
1 TTGAATCCATGA
46279536 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Done.