Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 142 of 222
Found at i:46029336 original size:14 final size:14
Alignment explanation
Indices: 46029319--46029379 Score: 77
Period size: 14 Copynumber: 4.3 Consensus size: 14
46029309 ATCATTATAA
*
46029319 TTTAGGGTTTATGG
1 TTTAGGGATTATGG
*
46029333 TTTATGGATTATGTG
1 TTTAGGGATTATG-G
46029348 TTTAGGGATTATGG
1 TTTAGGGATTATGG
* *
46029362 ATTATGGATTATGG
1 TTTAGGGATTATGG
46029376 TTTA
1 TTTA
46029380 AGGGTTGGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTAGGGATTATGG
Found at i:46029350 original size:22 final size:21
Alignment explanation
Indices: 46029324--46029379 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
46029314 TATAATTTAG
46029324 GGTTTATGGTTTATGGATTAT
1 GGTTTATGGTTTATGGATTAT
* *
46029345 GTGTTTAGGGATTATGGATTAT
1 G-GTTTATGGTTTATGGATTAT
*
46029367 GGATTATGGTTTA
1 GGTTTATGGTTTA
46029380 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
GGTTTATGGTTTATGGATTAT
Found at i:46029352 original size:29 final size:28
Alignment explanation
Indices: 46029319--46029385 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
46029309 ATCATTATAA
*
46029319 TTTAGGGTTTATGGTTTATGGATTATGTG
1 TTTAGGGTTTATGGATTATGGATTATG-G
*
46029348 TTTAGGGATTATGGATTATGGATTATGG
1 TTTAGGGTTTATGGATTATGGATTATGG
46029376 TTTAAGGGTT
1 TTT-AGGGTT
46029386 GGGGGTTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTATGGATTATGGATTATGG
Found at i:46029391 original size:7 final size:7
Alignment explanation
Indices: 46029381--46029436 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
46029371 TATGGTTTAA
*
46029381 GGGTTGG
1 GGGTTAG
46029388 GGGTTAG
1 GGGTTAG
46029395 GGGTTAG
1 GGGTTAG
*
46029402 AGGTTAG
1 GGGTTAG
*
46029409 GGGTTAA
1 GGGTTAG
46029416 GGGTTAG
1 GGGTTAG
46029423 GGGTTTAG
1 GGG-TTAG
46029431 GGGTTA
1 GGGTTA
46029437 AGGTTTATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 36 0.84
8 7 0.16
ACGTcount: A:0.16, C:0.00, G:0.54, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:46029464 original size:7 final size:7
Alignment explanation
Indices: 46029319--46029466 Score: 50
Period size: 7 Copynumber: 20.9 Consensus size: 7
46029309 ATCATTATAA
46029319 TTTAGGG
1 TTTAGGG
*
46029326 TTTATGG
1 TTTAGGG
*
46029333 TTTATGG
1 TTTAGGG
* *
46029340 ATTATGTG
1 TTTA-GGG
46029348 TTTAGGG
1 TTTAGGG
* *
46029355 ATTATGG
1 TTTAGGG
* *
46029362 ATTATGG
1 TTTAGGG
* *
46029369 ATTATGG
1 TTTAGGG
46029376 TTTAAGGG
1 TTT-AGGG
*
46029384 -TTGGGG
1 TTTAGGG
*
46029390 GTTAGGG
1 TTTAGGG
*
46029397 GTTAGAGG
1 TTTAG-GG
46029405 -TTAGGGG
1 TTTA-GGG
*
46029412 TTAAGGG
1 TTTAGGG
46029419 -TTAGGGG
1 TTTA-GGG
46029426 TTTAGGG
1 TTTAGGG
* *
46029433 GTTAAGG
1 TTTAGGG
* *
46029440 TTTATGT
1 TTTAGGG
* *
46029447 TTTATGA
1 TTTAGGG
46029454 TTTAGGG
1 TTTAGGG
46029461 TTTAGG
1 TTTAGG
46029467 AGATAGGGGT
Statistics
Matches: 111, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 5 0.05
7 91 0.82
8 15 0.14
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:46031704 original size:31 final size:31
Alignment explanation
Indices: 46031669--46031731 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46031659 TATTGGGTCT
46031669 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
46031700 AATTATATGTGTTTTTTGGACTTTTAACCCA
1 AATTATATGTGTTTTTTGGACTTTTAACCCA
46031731 A
1 A
46031732 CACTTTATAA
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:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
AATTATATGTGTTTTTTGGACTTTTAACCCA
Found at i:46060467 original size:55 final size:56
Alignment explanation
Indices: 46060349--46060562 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 56
46060339 TTCATATAGA
* * * * *
46060349 CATTTCATATAATGCCAGGGGTCTTAACCACATGGTTTTACATACATTCTTTCAAT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * *
46060405 CATTTCATATATTGTAATGGGTTTTAACCACATGTTTTTA-ATTCATTCATTCAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
** * * * * * *
46060460 CATTTCATAGCTCGTCATGGGTCTTAACCATATGGTCTTACA-TCATTAATTTAGT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
* * * *
46060515 CATTTCATATCTTGCCATGGGTTTTAACCACATGGTCTTACATACATT
1 CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATT
46060563 TATGTATCGT
Statistics
Matches: 131, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
55 92 0.70
56 39 0.30
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (56 bp):
CATTTCATATATTGCCATGGGTCTTAACCACATGGTTTTACATTCATTCATTCAGT
Found at i:46064843 original size:18 final size:18
Alignment explanation
Indices: 46064816--46064850 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46064806 GAATTTGTCA
*
46064816 TTTATTTTTGTGTCCATC
1 TTTATCTTTGTGTCCATC
*
46064834 TTTATCTTTGTTTCCAT
1 TTTATCTTTGTGTCCAT
46064851 TTCCAACCTT
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:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTATCTTTGTGTCCATC
Found at i:46066815 original size:27 final size:27
Alignment explanation
Indices: 46066769--46066997 Score: 205
Period size: 27 Copynumber: 8.5 Consensus size: 27
46066759 GGGTATAACA
* * *
46066769 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
46066796 GTCATTTTACCATTTAGGGGAATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
46066823 ATCATTTTACCCTTCAGGGGTATTTTG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
46066850 GTCATTTTACCCTTT-GAAGGTATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* ** *
46066877 GTTATTTTACCCTTCGGGGGTATTTTG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * *
46066904 ATCATTTTACCC-TTCGAGGGTGTTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* *
46066931 GTTATTTTACCCTTT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* **
46066958 GTCATTTTACCCTTCAAAGGTA-TTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
46066984 GTCATTTTACCCTT
1 GTCATTTTACCCTT
46066998 CGAGGGTGTT
Statistics
Matches: 162, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
26 20 0.12
27 139 0.86
28 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:46066884 original size:81 final size:81
Alignment explanation
Indices: 46066769--46067009 Score: 279
Period size: 81 Copynumber: 3.0 Consensus size: 81
46066759 GGGTATAACA
* * *
46066769 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCATTTAGGGGAATTTCGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
46066834 CTTC-AGGGGTATTTTG
66 CTTCGA-GGGTATTTCG
* * * * * *
46066850 GTCATTTTACCCTTTGAAGGTATTTCAGTTATTTTACCCTTCGGGGGTATTTTGATCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
46066915 CTTCGAGGGTGTTTCG
66 CTTCGAGGGTATTTCG
* ** * ** * *
46066931 GTTATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAAGGTA-TTCGGTCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
*
46066995 CTTCGAGGGTGTTTC
66 CTTCGAGGGTATTTC
46067010 AGTTATTTAC
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 28 0.20
81 109 0.79
82 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCATTCAGGGGAATTTCGATCATTTTACC
CTTCGAGGGTATTTCG
Found at i:46067626 original size:15 final size:16
Alignment explanation
Indices: 46067603--46067635 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46067593 GCACTAGAAT
46067603 GAAGAGGAGAAGAAGA
1 GAAGAGGAGAAGAAGA
*
46067619 GAAG-GGAGGAGAAGA
1 GAAGAGGAGAAGAAGA
46067634 GA
1 GA
46067636 TGAGAAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (16 bp):
GAAGAGGAGAAGAAGA
Found at i:46067632 original size:10 final size:10
Alignment explanation
Indices: 46067605--46067648 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
46067595 ACTAGAATGA
46067605 AGAGGAGAAG
1 AGAGGAGAAG
46067615 A-A-GAGAAG
1 AGAGGAGAAG
*
46067623 GGAGGAGAAG
1 AGAGGAGAAG
*
46067633 AGATGAGAAG
1 AGAGGAGAAG
46067643 AGAGGA
1 AGAGGA
46067649 TTCGGTAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 20 0.71
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (10 bp):
AGAGGAGAAG
Found at i:46070989 original size:25 final size:25
Alignment explanation
Indices: 46070928--46070989 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
46070918 ACCTACCGCT
* *
46070928 CCTTCAAAGTTCGCCACACACTGTC
1 CCTTCAGAGTTTGCCACACACTGTC
46070953 CCTTCAGAGTTTGCCACACACTGTC
1 CCTTCAGAGTTTGCCACACACTGTC
46070978 CCTTCAGAGTTT
1 CCTTCAGAGTTT
46070990 ATCACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (25 bp):
CCTTCAGAGTTTGCCACACACTGTC
Found at i:46070995 original size:25 final size:25
Alignment explanation
Indices: 46070941--46070997 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
46070931 TCAAAGTTCG
*
46070941 CCACACACTGTCCCTTCAGAGTTTG
1 CCACACACTGTCCCTTCAGAGTTTA
46070966 CCACACACTGTCCCTTCAGAGTTTA
1 CCACACACTGTCCCTTCAGAGTTTA
*
46070991 TCACACA
1 CCACACA
46070998 TTCTAACCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.12, T:0.26
Consensus pattern (25 bp):
CCACACACTGTCCCTTCAGAGTTTA
Found at i:46071171 original size:28 final size:28
Alignment explanation
Indices: 46071130--46071185 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
46071120 TTCATCATTT
46071130 GCCACAAAAGCTTTCCTTTCCTTAGATC
1 GCCACAAAAGCTTTCCTTTCCTTAGATC
46071158 GCCA-AAAAGGCTTTCCTTTCCTTAGATC
1 GCCACAAAA-GCTTTCCTTTCCTTAGATC
46071186 ACTATAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (28 bp):
GCCACAAAAGCTTTCCTTTCCTTAGATC
Found at i:46071194 original size:28 final size:28
Alignment explanation
Indices: 46071135--46071198 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
46071125 CATTTGCCAC
*
46071135 AAAA-GCTTTCCTTTCCTTAGATCGCCA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
46071162 AAAAGGCTTTCCTTTCCTTAGATCACTA
1 AAAAGGCTTTCCTTTCCTTAGATCACCA
*
46071190 TAAAGGCTT
1 AAAAGGCTT
46071199 CGATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (28 bp):
AAAAGGCTTTCCTTTCCTTAGATCACCA
Found at i:46075796 original size:39 final size:38
Alignment explanation
Indices: 46075745--46075884 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 38
46075735 TGTAATTATA
*
46075745 CCCTGATTGCATATACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTA-TTCGGTAC
* * * *
46075784 CCCTGAATGCATATATGTGGCCCTATTGTAATTCGATAC
1 CCCTGATTGCATATATGTGCCCCTGTTGT-ATTCGGTAC
* * **
46075823 CCTTGATTGCACATATGTGCCTGTGTTGTATTGCGGTAC
1 CCCTGATTGCATATATGTGCCCCTGTTGTATT-CGGTAC
*
46075862 CTCTGATTTGCACT-TATGTGCCC
1 CCCTGA-TTGCA-TATATGTGCCC
46075885 TTCATTACAT
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 3 0.04
39 63 0.79
40 14 0.17
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (38 bp):
CCCTGATTGCATATATGTGCCCCTGTTGTATTCGGTAC
Found at i:46080578 original size:49 final size:49
Alignment explanation
Indices: 46080520--46080634 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
46080510 TCATTAGGGA
* * *
46080520 TTACTGATTCTTAGCTCGTATGAGCTTACC-AATTGCAGCTCGTGAGAG
1 TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
* * * * *
46080568 CTTACCGATTCTCAACTCATATGAGCATACCGATTTACAGCTCTTGAGAG
1 -TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
*
46080618 TATACTGATTCATAGCT
1 T-TACTGATTCTTAGCT
46080635 TGTCTAAGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 26 0.50
50 26 0.50
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
TTACTGATTCTTAGCTCATATGAGCATACCGAATTACAGCTCGTGAGAG
Found at i:46086950 original size:25 final size:25
Alignment explanation
Indices: 46086862--46086951 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
46086852 CATTAGGGAC
*
46086862 TACCGATTCTCAGCTCAT-ATGAGCT
1 TACCGATTCACAGCTCATGA-GAGCT
* *
46086887 TACCAATT-GCAGCTCATGAGAGCT
1 TACCGATTCACAGCTCATGAGAGCT
* *
46086911 TACCGATTTACAGCTCTTGAGAG-T
1 TACCGATTCACAGCTCATGAGAGCT
*
46086935 ATACCGATTCATAGCTC
1 -TACCGATTCACAGCTC
46086952 GTATAAGCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 21 0.38
25 34 0.62
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (25 bp):
TACCGATTCACAGCTCATGAGAGCT
Found at i:46087151 original size:30 final size:30
Alignment explanation
Indices: 46087112--46087173 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
46087102 TACATGAAAT
46087112 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
46087143 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
46087172 AC
1 AC
46087174 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:46094689 original size:27 final size:27
Alignment explanation
Indices: 46094634--46094685 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
46094624 AAATTGCAAA
46094634 AAGGAAAAAGAGCCAAAGAAAAGAAAG
1 AAGGAAAAAGAGCCAAAGAAAAGAAAG
* *
46094661 AAGG-AAAATAGCCAAAGAGAAGAAA
1 AAGGAAAAAGAGCCAAAGAAAAGAAA
46094686 AGAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.65, C:0.08, G:0.25, T:0.02
Consensus pattern (27 bp):
AAGGAAAAAGAGCCAAAGAAAAGAAAG
Found at i:46095961 original size:7 final size:7
Alignment explanation
Indices: 46095944--46095973 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
46095934 ATTAACTTTT
46095944 ACTATCTA
1 ACTA-CTA
46095952 ACTACTA
1 ACTACTA
46095959 ACTACTA
1 ACTACTA
46095966 ACTACTA
1 ACTACTA
46095973 A
1 A
46095974 AAGTGCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
ACTACTA
Found at i:46097006 original size:17 final size:17
Alignment explanation
Indices: 46096984--46097021 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
46096974 TCATGTCTGG
46096984 TTCATCAAGAAAATGGA
1 TTCATCAAGAAAATGGA
*
46097001 TTCATCATGAAAATGGA
1 TTCATCAAGAAAATGGA
46097018 TTCA
1 TTCA
46097022 AACTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (17 bp):
TTCATCAAGAAAATGGA
Found at i:46107841 original size:21 final size:19
Alignment explanation
Indices: 46107817--46107866 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 19
46107807 TGAAGTGCAA
46107817 TCTTCATCTTTCCTCAATTG
1 TCTTCATCTTTCCTC-ATTG
46107837 CTCTTCCATACTTTCCTCATTG
1 -TCTT-CAT-CTTTCCTCATTG
46107859 TCTTCATC
1 TCTTCATC
46107867 CACCTCGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 8 0.30
22 7 0.26
23 8 0.30
ACGTcount: A:0.14, C:0.34, G:0.04, T:0.48
Consensus pattern (19 bp):
TCTTCATCTTTCCTCATTG
Found at i:46118027 original size:27 final size:28
Alignment explanation
Indices: 46117981--46118034 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
46117971 AATAAATACC
*
46117981 AAAAATTTATTTTAAAAATAAAAAATAA
1 AAAAAATTATTTTAAAAATAAAAAATAA
*
46118009 AAAAAATTATTTT-AGAATAAAAAATA
1 AAAAAATTATTTTAAAAATAAAAAATA
46118035 TATATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAATTATTTTAAAAATAAAAAATAA
Found at i:46118528 original size:16 final size:16
Alignment explanation
Indices: 46118509--46118557 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
46118499 TAATCTTTTG
46118509 AAAATTATAAAAATAT
1 AAAATTATAAAAATAT
*
46118525 AAAA-TATTAAAATATT
1 AAAATTATAAAAATA-T
* *
46118541 AAAATAATAAAATTAT
1 AAAATTATAAAAATAT
46118557 A
1 A
46118558 TTTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAATAT
Found at i:46127377 original size:4 final size:4
Alignment explanation
Indices: 46127368--46127393 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
46127358 AATTTACAAC
46127368 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
46127394 GGTCCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:46141311 original size:21 final size:20
Alignment explanation
Indices: 46141265--46141313 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
46141255 ATGCCAAAAT
*
46141265 GATATCGAT-ATTTATATGA
1 GATATCGATAATTTATATAA
*
46141284 G-TATCGATAATTTTTCATAA
1 GATATCGATAATTTAT-ATAA
46141304 GATATCGATA
1 GATATCGATA
46141314 CTCTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 4 0.16
21 8 0.32
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (20 bp):
GATATCGATAATTTATATAA
Found at i:46142497 original size:38 final size:38
Alignment explanation
Indices: 46142446--46142522 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
46142436 GCGTGGTGGG
* *
46142446 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGATATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
*
46142484 GGAGTGTTTGAGTGACTTTAGGAGGAAAATATGAGATT
1 GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
46142522 G
1 G
46142523 TGGAGTTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.01, G:0.35, T:0.32
Consensus pattern (38 bp):
GGAGTGTTGGAGTGACTTTAGGAGGAAAATATGAGATT
Found at i:46143343 original size:17 final size:18
Alignment explanation
Indices: 46143321--46143357 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46143311 TTTTGGGCCG
46143321 TGTGGGCC-ACACGAGCT
1 TGTGGGCCTACACGAGCT
*
46143338 TGTGGGCCTACATGAGCT
1 TGTGGGCCTACACGAGCT
46143356 TG
1 TG
46143358 CAACATGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.24, G:0.35, T:0.24
Consensus pattern (18 bp):
TGTGGGCCTACACGAGCT
Found at i:46149423 original size:38 final size:38
Alignment explanation
Indices: 46149368--46149441 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
46149358 TGGTGGGGGC
* *
46149368 GTGTTGGAGTGATTTTAGGAGGAAAATATGATATTGGA
1 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGA
46149406 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
1 GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTG
46149442 TAGAGTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.01, G:0.35, T:0.32
Consensus pattern (38 bp):
GTGTTGGAGTGACTTTAGGAGGAAAATATGAGATTGGA
Found at i:46150220 original size:23 final size:23
Alignment explanation
Indices: 46150190--46150245 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
46150180 TTAACCACAC
*
46150190 GAGCGTGTGGGAATATTAGGCCA
1 GAGCGTGTGAGAATATTAGGCCA
*
46150213 GAGCGTGTGAGAATATTAGGGCA
1 GAGCGTGTGAGAATATTAGGCCA
*
46150236 GACCGTGTGA
1 GAGCGTGTGA
46150246 ACCACACGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.21
Consensus pattern (23 bp):
GAGCGTGTGAGAATATTAGGCCA
Found at i:46152573 original size:46 final size:46
Alignment explanation
Indices: 46152510--46152629 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 46
46152500 GCAACTAAAT
* *
46152510 TTGCAGTTAAACTGCCAGATCAGATATATGTGGTCAAGCCACTAT-A
1 TTGCAGTCAAGCTGCCAGAT-AGATATATGTGGTCAAGCCACTATAA
* *
46152556 TTGTAGTCAAGCTGCCAGAGTAGATATATGTGGTCTAGCCACTATAA
1 TTGCAGTCAAGCTGCCAGA-TAGATATATGTGGTCAAGCCACTATAA
*
46152603 TTGCAGTCAAGCCGCCAGAATAGATAT
1 TTGCAGTCAAGCTGCCAG-ATAGATAT
46152630 GTGGTTAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
46 39 0.60
47 25 0.38
48 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TTGCAGTCAAGCTGCCAGATAGATATATGTGGTCAAGCCACTATAA
Found at i:46152629 original size:47 final size:46
Alignment explanation
Indices: 46152523--46152644 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
46152513 CAGTTAAACT
* * *
46152523 GCCAG-ATCAGATATATGTGGTCAAGCCACTATATTGTAGTCAAGCT
1 GCCAGAAT-AGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
*
46152569 GCCAGAGTAGATATATGTGGTCTAGCCACTATAATTGCAGTCAAGCC
1 GCCAGAATAGATATATGTGGTCTAGCCACTAT-ATTGCAGTCAAGCC
46152616 GCCAGAATAG--ATATGTGGT-TAGACCACTA
1 GCCAGAATAGATATATGTGGTCTAG-CCACTA
46152645 GATAGTTCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
44 3 0.04
45 15 0.22
46 28 0.41
47 22 0.32
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
GCCAGAATAGATATATGTGGTCTAGCCACTATATTGCAGTCAAGCC
Found at i:46155098 original size:31 final size:32
Alignment explanation
Indices: 46155062--46155126 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
46155052 CTTAGATAAT
46155062 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
46155093 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
46155125 TT
1 TT
46155127 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:46155703 original size:11 final size:11
Alignment explanation
Indices: 46155689--46155771 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 11
46155679 AAAAAACAGC
46155689 AAAAAGCGCAA
1 AAAAAGCGCAA
46155700 AAAAA--GCAA
1 AAAAAGCGCAA
46155709 AAAAAGCGCAA
1 AAAAAGCGCAA
* *
46155720 AAAAAGAG--T
1 AAAAAGCGCAA
46155729 AAAAAGCGCAA
1 AAAAAGCGCAA
*
46155740 AAAAA-AG--A
1 AAAAAGCGCAA
46155748 AAAAA--GC-A
1 AAAAAGCGCAA
46155756 AAAAAGCGCAA
1 AAAAAGCGCAA
46155767 AAAAA
1 AAAAA
46155772 AAGTTGCCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
7 1 0.02
8 12 0.20
9 16 0.27
10 3 0.05
11 27 0.46
ACGTcount: A:0.71, C:0.12, G:0.16, T:0.01
Consensus pattern (11 bp):
AAAAAGCGCAA
Found at i:46155712 original size:9 final size:9
Alignment explanation
Indices: 46155679--46155771 Score: 57
Period size: 10 Copynumber: 9.8 Consensus size: 9
46155669 ATAAAAGCAA
46155679 AAAAAACAGC
1 AAAAAA-AGC
**
46155689 AAAAAGCGC
1 AAAAAAAGC
46155698 AAAAAAAGC
1 AAAAAAAGC
46155707 AAAAAAAGCGC
1 AAAAAAA--GC
46155718 AAAAAAAG-
1 AAAAAAAGC
*
46155726 AGTAAAAAGCGC
1 A--AAAAA-AGC
46155738 AAAAAAA--
1 AAAAAAAGC
46155745 AGAAAAAAGC
1 A-AAAAAAGC
*
46155755 AAAAAAGCGC
1 AAAAAA-AGC
46155765 AAAAAAA
1 AAAAAAA
46155772 AAGTTGCCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.02
8 7 0.11
9 22 0.34
10 24 0.37
11 10 0.15
12 1 0.02
ACGTcount: A:0.71, C:0.13, G:0.15, T:0.01
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:46155772 original size:20 final size:20
Alignment explanation
Indices: 46155678--46155754 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
46155668 AATAAAAGCA
*
46155678 AAAAAAACAGCAAAAAGCGC
1 AAAAAAACAGAAAAAAGCGC
46155698 AAAAAAAGCA-AAAAAAGCGC
1 AAAAAAA-CAGAAAAAAGCGC
* *
46155718 AAAAAAAGAGTAAAAAGCGC
1 AAAAAAACAGAAAAAAGCGC
46155738 AAAAAAA-AGAAAAAAGC
1 AAAAAAACAGAAAAAAGC
46155755 AAAAAAGCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 10 0.20
20 39 0.76
21 2 0.04
ACGTcount: A:0.70, C:0.13, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAAAAACAGAAAAAAGCGC
Found at i:46158951 original size:31 final size:32
Alignment explanation
Indices: 46158915--46158979 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
46158905 CTTAGATAAT
46158915 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
46158946 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
46158978 TT
1 TT
46158980 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:46159770 original size:20 final size:20
Alignment explanation
Indices: 46159736--46159777 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
46159726 AACTATATAA
** *
46159736 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
46159756 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
46159776 AT
1 AT
46159778 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:46162920 original size:23 final size:23
Alignment explanation
Indices: 46162877--46162926 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
46162867 GTATAAGGAC
* * *
46162877 TAAATTGTATATAAGGTAAAAGT
1 TAAATTATATATAAAGTAAAAAT
46162900 TAAATTATATATTAAAG-AAAAAT
1 TAAATTATATA-TAAAGTAAAAAT
46162923 TAAA
1 TAAA
46162927 GGGACTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
TAAATTATATATAAAGTAAAAAT
Found at i:46163145 original size:21 final size:21
Alignment explanation
Indices: 46163085--46163145 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
46163075 AAAACAAATT
*
46163085 AAAGAAAAAGAAATAGAAAAAG
1 AAAGAAAAAGGAA-AGAAAAAG
*
46163107 -AA-AAAAAGTGAAACGAAACAG
1 AAAGAAAAAG-GAAA-GAAAAAG
46163128 AAAGAAAAAGGAAAGAAA
1 AAAGAAAAAGGAAAGAAA
46163146 GAAGGAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 7 0.21
21 14 0.42
22 6 0.18
23 6 0.18
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAGGAAAGAAAAAG
Found at i:46163524 original size:20 final size:20
Alignment explanation
Indices: 46163488--46163525 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46163478 GTGAAATTTG
*
46163488 TGTGAAAATATAGAATTAAT
1 TGTGAAAATATAAAATTAAT
46163508 TGTGAAGAA-ATAAAATTA
1 TGTGAA-AATATAAAATTA
46163526 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAT
Found at i:46164068 original size:41 final size:38
Alignment explanation
Indices: 46164021--46164131 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 38
46164011 TTCGACTTCG
46164021 AGTCGATGAGACATTGGGTGTCAATTTACTACTTTGGATTA
1 AGTCGATGAGACATT-GGTGTCAATTTA-TACTTTGG-TTA
* * * * * *
46164062 ATTCGATGAGGCACTGGTG-CCACTT-TACTTTGGTTT
1 AGTCGATGAGACATTGGTGTCAATTTATACTTTGGTTA
*
46164098 AGCCGATGAGACATTAGGTGTCAATTTATTACTT
1 AGTCGATGAGACATT-GGTGTCAATTTA-TACTT
46164132 CAAATTATCC
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
36 13 0.24
37 12 0.22
38 4 0.07
39 4 0.07
40 9 0.17
41 12 0.22
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (38 bp):
AGTCGATGAGACATTGGTGTCAATTTATACTTTGGTTA
Found at i:46165654 original size:32 final size:32
Alignment explanation
Indices: 46165489--46165657 Score: 158
Period size: 32 Copynumber: 5.3 Consensus size: 32
46165479 TGCTGCGATA
* * * * *
46165489 CTACTGATGGCTTTGTGCCAATCATATTACCG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * * *
46165521 TTACCGATGGTTGTGTGCCGATCATTTCACTG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * * *
46165553 TTACTGTTGGTTGTGTACCGATCATAACACTA
1 CTACTGATGGCTGTGTACCGATCATATCACTG
* * * *
46165585 CTACTGATGGCTTTGTACGGATCATATTACCG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
*
46165617 TTACTGATGGCTGTGTACCGATCATATCACTG
1 CTACTGATGGCTGTGTACCGATCATATCACTG
46165649 CTACTGATG
1 CTACTGATG
46165658 AATTTGTGCC
Statistics
Matches: 108, Mismatches: 29, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 108 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (32 bp):
CTACTGATGGCTGTGTACCGATCATATCACTG
Found at i:46165678 original size:64 final size:64
Alignment explanation
Indices: 46165552--46165671 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
46165542 TCATTTCACT
* * ** **
46165552 GTTACTGTTGGTTGTGTACCGATCATAACACTACTACTGATGGCTTTGTACGGATCATATTACC
1 GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATCATATTACC
* * *
46165616 GTTACTGATGGCTGTGTACCGATCATATCACTGCTACTGATGAATTTGTGCCAATC
1 GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATC
46165672 TCATTACTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (64 bp):
GTTACTGATGGCTGTGTACCGATCATAACACTACTACTGATGAATTTGTACCAATCATATTACC
Found at i:46174376 original size:47 final size:47
Alignment explanation
Indices: 46174324--46174729 Score: 575
Period size: 47 Copynumber: 8.6 Consensus size: 47
46174314 GATAATTGTG
* *
46174324 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGA
*
46174371 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGATGTGATGA
*
46174418 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCAGATGTGATGA
*
46174467 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGATGTGATGA
*
46174514 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCAGATGTGATGA
* *
46174563 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGA
* *
46174610 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGA
* * * * * *
46174657 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA-ACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGATGTGATGA
*
46174704 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
46174730 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 23, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
47 235 0.72
48 6 0.02
49 86 0.26
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGA
Found at i:46174431 original size:96 final size:96
Alignment explanation
Indices: 46174324--46174729 Score: 680
Period size: 96 Copynumber: 4.3 Consensus size: 96
46174314 GATAATTGTG
*
46174324 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
46174387 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
46174418 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
46174483 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
46174514 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
46174579 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
46174610 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
46174673 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
46174704 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
46174730 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
94 99 0.34
95 3 0.01
96 192 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:46174471 original size:143 final size:143
Alignment explanation
Indices: 46174324--46174729 Score: 633
Period size: 143 Copynumber: 2.9 Consensus size: 143
46174314 GATAATTGTG
* *
46174324 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
*
46174389 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
46174454 GCCGATGTGATGA
131 GCCGATGTGATGA
*
46174467 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA-ATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAAGTG--TATA
* *
46174531 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
63 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
46174594 ATAGCCGATGTGATGA
128 ATAGCCGATGTGATGA
* *
46174610 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
46174675 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
46174730 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
141 50 0.21
142 2 0.01
143 142 0.59
144 2 0.01
145 45 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
GCCGATGTGATGA
Found at i:46177169 original size:40 final size:40
Alignment explanation
Indices: 46177108--46177511 Score: 623
Period size: 40 Copynumber: 10.1 Consensus size: 40
46177098 AGGTCTCGAC
*
46177108 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
46177147 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
46177187 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
46177227 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
46177267 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
46177307 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
46177347 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
46177387 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
46177427 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * * * * * *
46177467 GTTATATCTGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
46177507 GATGT
1 GATGT
46177512 GTATTCGGGC
Statistics
Matches: 340, Mismatches: 22, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 5 0.01
40 333 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:46177776 original size:58 final size:57
Alignment explanation
Indices: 46177707--46177815 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
46177697 CGAATGATTA
* * *
46177707 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAACCACTATGTGTGCGAAATCGGTAATT
* * *
46177765 GAGGCACTGTGTGTGCGAGTTCTTCAACCAACCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAACCACTATGTGTGCGAAATCG
46177816 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAACCACTATGTGTGCGAAATCGGTAATT
Found at i:46181275 original size:47 final size:47
Alignment explanation
Indices: 46181223--46181579 Score: 552
Period size: 47 Copynumber: 7.6 Consensus size: 47
46181213 GATAATTGTG
* *
46181223 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
46181270 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46181317 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
46181366 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46181413 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46181460 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
46181507 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46181554 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
46181580 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 239 0.84
49 45 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:46185982 original size:24 final size:24
Alignment explanation
Indices: 46185937--46185985 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46185927 ATATTAGTTA
**
46185937 AAAAATATAAATATGTACATATAT
1 AAAAATATAAATACATACATATAT
* *
46185961 AAAAATATATATACATATATATAT
1 AAAAATATAAATACATACATATAT
46185985 A
1 A
46185986 GATTTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATATAAATACATACATATAT
Found at i:46188490 original size:169 final size:169
Alignment explanation
Indices: 46188003--46188463 Score: 771
Period size: 169 Copynumber: 2.7 Consensus size: 169
46187993 AGCTTCAAGA
* * *
46188003 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTTCCCACATCTTTAATCCACTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
*
46188068 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCA
66 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
*
46188133 ATGCTAGGGAAACAAGATTCACTACCTTTAGCTTTAATC
131 ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
* * *
46188172 TATTCCACTATAATTCCAAAGGGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
* * * * *
46188237 TATTTCAAGTCTGAACACCAGAGAGATAAGATTGGCCGCCCTCAACTTTAATCTGCTCCGCTGCA
66 TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
*
46188302 ATGCTAGGGAAACAAGATTCGCTACCTCTAGCTTTAATC
131 ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
*
46188341 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGC
1 TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
46188406 TATTTCAAGTCTTAACATCC-GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
66 TATTTCAAGTCTTAACA-CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
46188464 TGCTATAACG
Statistics
Matches: 268, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
169 266 0.99
170 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (169 bp):
TGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGC
TATTTCAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCA
ATGCTAGGGAAACAAGATTCACTACCTCTAGCTTTAATC
Found at i:46188532 original size:44 final size:44
Alignment explanation
Indices: 46188483--46188660 Score: 268
Period size: 44 Copynumber: 4.0 Consensus size: 44
46188473 GTCAGGAAAG
* *
46188483 TAAGATTCACGATCTTCAACCTATTCCACTGCTAACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
*
46188527 TAAGATTCACAACCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* *
46188571 TAGGATTCACAACCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
* * *
46188615 TAGGATTCACAATCTTCAACCTATTCTACTGCTATA-CAGGGAGA
1 TAAGATTCACAACCTTCAACCTATTCCACTGCTA-ACCAGGGAGA
46188659 TA
1 TA
46188661 GGGCTGGGGT
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
44 125 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
TAAGATTCACAACCTTCAACCTATTCCACTGCTAACCAGGGAGA
Found at i:46193712 original size:24 final size:24
Alignment explanation
Indices: 46193667--46193715 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46193657 ATATTAGTTA
**
46193667 AAAAATATAAATATGTACATATAT
1 AAAAATATAAATACATACATATAT
* *
46193691 AAAAATATATATACATATATATAT
1 AAAAATATAAATACATACATATAT
46193715 A
1 A
46193716 GATTTTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAAATATAAATACATACATATAT
Found at i:46199571 original size:21 final size:19
Alignment explanation
Indices: 46199534--46199608 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
46199524 AATCATATCT
46199534 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
46199553 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
46199574 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
46199593 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
46199609 CTTGAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:46201110 original size:28 final size:28
Alignment explanation
Indices: 46201070--46201141 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
46201060 AAACCAAAAG
* * *
46201070 TGCAAGCTAAAGTGGCGGACAGTCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
46201098 TGCAAGCCAAAGTGGCAGACAATCTAAA
1 TGCAAGCCAAAGTGGCAGACAATCTAAA
46201126 TGCAAGCCAAAAGTGG
1 TGCAAGCC-AAAGTGG
46201142 GTGCAAGCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.82
29 7 0.17
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.15
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAA
Found at i:46201147 original size:45 final size:45
Alignment explanation
Indices: 46201098--46201269 Score: 186
Period size: 45 Copynumber: 3.9 Consensus size: 45
46201088 ACAGTCTAAA
* *
46201098 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
* * * * * * *
46201143 TGCAAGCCCAATTGG-TGACAGTTTAAGTGAAAGCC-AAAGTTGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
* *
46201186 TGCAAGCCACAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTAGG
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
** * * *
46201231 TGCAAGCCAAAGTGGTGGATAGTCTAAGTGCGAGCCAAA
1 TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAA
46201270 GAGGCAGACA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
43 19 0.18
44 30 0.29
45 54 0.52
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (45 bp):
TGCAAGCCAAAGTGGCAGACAGTCTAAATGCAAGCCAAAAGTAGG
Found at i:46201233 original size:88 final size:89
Alignment explanation
Indices: 46201098--46201270 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 89
46201088 ACAGTCTAAA
* * *
46201098 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTGGGTGCAAGCCCAATTGGT-GAC
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
*
46201162 AGTTTAAGTGAAAGCCAAAGTTGG
66 AGTCTAAGTGAAAGCCAAAGTTGG
* * * *
46201186 TGCAAGCCACAGTGGCAGATAGTCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAT
1 TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
**
46201251 AGTCTAAGTGCGAGCCAAAG
66 AGTCTAAGTGAAAGCCAAAG
46201271 AGGCAGACAG
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 55 0.74
89 19 0.26
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (89 bp):
TGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAAGTAGGTGCAAGCCAAAGTGGTGGAC
AGTCTAAGTGAAAGCCAAAGTTGG
Found at i:46201270 original size:28 final size:28
Alignment explanation
Indices: 46201230--46201357 Score: 150
Period size: 28 Copynumber: 4.6 Consensus size: 28
46201220 CCAAAAGTAG
46201230 GTGCAAGCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* * ** *
46201258 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
* *
46201286 GTGCAAACCAAAGTGGCGGGA-AGTCTAA
1 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
* * *
46201314 ATACAATCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGATAGTCTAA
46201342 GTGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGG
46201358 CAGGCAGTCT
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 3 0.04
28 76 0.94
29 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGTGGATAGTCTAA
Found at i:46201297 original size:56 final size:56
Alignment explanation
Indices: 46201230--46201381 Score: 162
Period size: 56 Copynumber: 2.7 Consensus size: 56
46201220 CCAAAAGTAG
* * * *
46201230 GTGCAAGCCAAAGTGG-TGGATAGTCTAAGTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGA-AGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * * ** *
46201286 GTGCAAACCAAAGTGGCGGGAAGTCTAAATACAATCCAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
* * * *
46201342 GTGCAAGCCAAAGTGGCAGGCAGTCTAAATGCAAGTCAAA
1 GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAA
46201382 AGTAGCGGTA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 76 0.96
57 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (56 bp):
GTGCAAGCCAAAGTGGCGGGAAGTCTAAATACAAGCCAAAGAGGCAGACAGTCTAA
Found at i:46201366 original size:28 final size:28
Alignment explanation
Indices: 46201230--46201381 Score: 137
Period size: 28 Copynumber: 5.4 Consensus size: 28
46201220 CCAAAAGTAG
* *
46201230 GTGCAAGCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
* * *
46201258 GTGCGAGCCAAAGAGGCAGACAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * *
46201286 GTGCAAACCAAAGTGGCGGGAAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* * * * *
46201314 ATACAATCCAAAGTGG-TGGATAGTCTAA
1 GTGCAAGCCAAAGTGGCAGG-CAGTCTAA
46201342 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
1 GTGCAAGCCAAAGTGGCAGGCAGTCTAA
* *
46201370 ATGCAAGTCAAA
1 GTGCAAGCCAAA
46201382 AGTAGCGGTA
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
27 2 0.02
28 93 0.95
29 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCAGGCAGTCTAA
Found at i:46202847 original size:23 final size:22
Alignment explanation
Indices: 46202812--46202904 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 22
46202802 CTCTAAAAAA
* *
46202812 CCTTTGTGACATATTTTATGATG
1 CCTTTGAG-CATATTTTGTGATG
*
46202835 CCTTTGCAGCATATTCTGTGATG
1 CCTTTG-AGCATATTTTGTGATG
46202858 CCTTT-ATGACATATTTTGTGATG
1 CCTTTGA-G-CATATTTTGTGATG
*
46202881 CCCTTGTAG-ATTATTTTGTGATG
1 CCTTTG-AGCA-TATTTTGTGATG
46202904 C
1 C
46202905 ATTTATTGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
21 1 0.02
22 2 0.03
23 53 0.90
24 2 0.03
25 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (22 bp):
CCTTTGAGCATATTTTGTGATG
Found at i:46202868 original size:46 final size:46
Alignment explanation
Indices: 46202812--46202910 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
46202802 CTCTAAAAAA
* *
46202812 CCTTTGTGACATATTTTATGATGCCTTTGCAGCA-TATTCTGTGATG
1 CCTTTATGACATATTTTATGATGCCCTTGCAG-ATTATTCTGTGATG
* * *
46202858 CCTTTATGACATATTTTGTGATGCCCTTGTAGATTATTTTGTGATG
1 CCTTTATGACATATTTTATGATGCCCTTGCAGATTATTCTGTGATG
*
46202904 CATTTAT
1 CCTTTAT
46202911 TGAGAATCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (46 bp):
CCTTTATGACATATTTTATGATGCCCTTGCAGATTATTCTGTGATG
Found at i:46204988 original size:49 final size:49
Alignment explanation
Indices: 46204911--46205043 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
46204901 CCAGATATGT
* * * * * * *
46204911 CGGGCCATTGGTAGGTCGTGATAGTTGCTAACCATATTAGTGTATG-TGT
1 CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGA-GATGA
* * *
46204960 TGGGCCATAGGTAGGGCATGTTAATTGCTAACCAGATTGGTGGAGATGA
1 CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGAGATGA
*
46205009 CGGGCCACTA-GTAGAGCATGTTAGTTGCTAACCAG
1 CGGGCCA-TAGGTAGGGCATGTTAGTTGCTAACCAG
46205044 CCTAGCATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 66 0.96
50 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (49 bp):
CGGGCCATAGGTAGGGCATGTTAGTTGCTAACCAGATTAGTGGAGATGA
Found at i:46209832 original size:28 final size:28
Alignment explanation
Indices: 46209788--46209880 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
46209778 AAGTGGGGGC
** *
46209788 AAGCCAAAGTGATAGACAATCTAAGTGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
**
46209816 AAGCCAAAGTGGCAGACAATCTAAATAC
1 AAGCCAAAGTGGCAGACAATCTAAATGT
*
46209844 AAGCCAAAGTGGCAGACAATCTAAACGT
1 AAGCCAAAGTGGCAGACAATCTAAATGT
46209872 AAGCCAAAG
1 AAGCCAAAG
46209881 ATGGTGCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.15
Consensus pattern (28 bp):
AAGCCAAAGTGGCAGACAATCTAAATGT
Found at i:46209894 original size:72 final size:72
Alignment explanation
Indices: 46209816--46209991 Score: 183
Period size: 72 Copynumber: 2.4 Consensus size: 72
46209806 ATCTAAGTGT
* * * * *
46209816 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAGTGGCAGACAATCTAAACGTAAGCCAAAG
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
46209881 ATGGTGC
66 ATGGTGC
* * * * * * ** *
46209888 AAGCCAAAGTGAC-GAAAAATTTAAATGCAAGCCAAAGTTGCGGATAGTCTAAGTGCAAGTAAAA
1 AAGCCAAAGTGGCAG-AAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAA
*
46209952 CTTGGTGC
65 CATGGTGC
* *
46209960 AAGACAAAGTGGCAGAGAATCTAAATGCAAGC
1 AAGCCAAAGTGGCAGAAAATCTAAATGCAAGC
46209992 AAAAATGGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
71 1 0.01
72 81 0.98
73 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (72 bp):
AAGCCAAAGTGGCAGAAAATCTAAATGCAAGCCAAAGTGGCAGACAATCTAAACGCAAGCAAAAC
ATGGTGC
Found at i:46210248 original size:29 final size:29
Alignment explanation
Indices: 46210215--46210272 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
46210205 TAAGACATAT
46210215 TACATCAGTCTCGTTAAATTTGATTTCAA
1 TACATCAGTCTCGTTAAATTTGATTTCAA
46210244 TACATCAGTCTCGTTAAATTTGATTTCAA
1 TACATCAGTCTCGTTAAATTTGATTTCAA
46210273 CACAGAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
TACATCAGTCTCGTTAAATTTGATTTCAA
Found at i:46212484 original size:15 final size:15
Alignment explanation
Indices: 46212464--46212492 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46212454 GACTACTCGG
46212464 TTTTGGAAAATTTTA
1 TTTTGGAAAATTTTA
46212479 TTTTGGAAAATTTT
1 TTTTGGAAAATTTT
46212493 TAAAGCTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTGGAAAATTTTA
Found at i:46219424 original size:24 final size:26
Alignment explanation
Indices: 46219375--46219424 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
46219365 AGTTGTAGAG
*
46219375 AGAAATTTCTCTGAAGATATTATTCT
1 AGAAATTTCTCAGAAGATATTATTCT
*
46219401 AGAAATTTCT-AG-AGATATTTTTCT
1 AGAAATTTCTCAGAAGATATTATTCT
46219425 GATTTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (26 bp):
AGAAATTTCTCAGAAGATATTATTCT
Found at i:46221238 original size:16 final size:17
Alignment explanation
Indices: 46221208--46221239 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46221198 ACAATCTAAA
46221208 TGCAAGCCAAAAGTGGG
1 TGCAAGCCAAAAGTGGG
46221225 TGCAAGCC-AAAGTGG
1 TGCAAGCCAAAAGTGG
46221240 TGGACGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (17 bp):
TGCAAGCCAAAAGTGGG
Found at i:46221253 original size:45 final size:44
Alignment explanation
Indices: 46221091--46221268 Score: 194
Period size: 44 Copynumber: 4.0 Consensus size: 44
46221081 GACGGTCTAA
* ** * * *
46221091 GTGCAAGCCAATGTGGTGGGCAATCTAAGTGCAAGCCAAAGTTG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
46221135 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
**** *
46221179 GTGCAAGCCAAAACAACAAACAATCTAAATGCAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGG
** ** *
46221224 GTGCAAGCCAAAGTGGTGGACGGTTTAAATGCAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCC-AAAGTGG
46221269 TGGATAGTCT
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
44 70 0.62
45 42 0.38
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.16
Consensus pattern (44 bp):
GTGCAAGCCAAAGTGGCAGACAATCTAAATGCAAGCCAAAGTGG
Found at i:46221313 original size:28 final size:28
Alignment explanation
Indices: 46221225--46221361 Score: 139
Period size: 28 Copynumber: 4.9 Consensus size: 28
46221215 CAAAAGTGGG
* *
46221225 TGCAAGCCAAAGTGGTGGACGGTTTAAA
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
* *
46221253 TGCAAGCCAAAAGTGGTGGATAGTCTAAG
1 TGCAAGCC-AAAGTGGTGGACAGTCTAAA
* * *
46221282 TGCAAGCCAAAGTGGTGGGCAATCAAAA
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
* * * * *
46221310 TGCAAGCCAAAGTGGCGAATAGTCCAAG
1 TGCAAGCCAAAGTGGTGGACAGTCTAAA
**
46221338 TGCAAGCCAAAGTGGCAGACAGTC
1 TGCAAGCCAAAGTGGTGGACAGTC
46221362 CAAGTGGAAG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 65 0.73
29 24 0.27
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGTGGACAGTCTAAA
Found at i:46221348 original size:56 final size:57
Alignment explanation
Indices: 46221224--46221352 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 57
46221214 CCAAAAGTGG
** ** * * *
46221224 GTGCAAGCCAAAGTGGTGGACGGTTTAAATGCAAGCCAAAAGTGGTGGATAGTCTAA
1 GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
*
46221281 GTGCAAGCCAAAGTGGTGGGCAATCAAAATGCAAGCC-AAAGTGGCGAATAGTCCAA
1 GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
46221337 GTGCAAGCCAAAGTGG
1 GTGCAAGCCAAAGTGG
46221353 CAGACAGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 32 0.50
57 32 0.50
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (57 bp):
GTGCAAGCCAAAGTGGTGGACAATCAAAATGCAAGCCAAAAGTGGCGAATAGTCCAA
Found at i:46221362 original size:28 final size:28
Alignment explanation
Indices: 46221224--46221395 Score: 137
Period size: 28 Copynumber: 6.1 Consensus size: 28
46221214 CCAAAAGTGG
* * **
46221224 GTGCAAGCCAAAGTGGTGGACGGTTTAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * * *
46221252 ATGCAAGCCAAAAGTGGTGGATAGTCTAA
1 GTGCAAGCC-AAAGTGGCGGACAGTCCAA
* * * *
46221281 GTGCAAGCCAAAGTGGTGGGCAATCAAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * *
46221309 ATGCAAGCCAAAGTGGCGAATAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
*
46221337 GTGCAAGCCAAAGTGGCAGACAGTCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
* * * * * *
46221365 GTGGAAGACAAAATGACAGACAATCCAA
1 GTGCAAGCCAAAGTGGCGGACAGTCCAA
46221393 GTG
1 GTG
46221396 TAAGACACTC
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
28 94 0.80
29 24 0.20
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (28 bp):
GTGCAAGCCAAAGTGGCGGACAGTCCAA
Found at i:46222366 original size:31 final size:31
Alignment explanation
Indices: 46222331--46222389 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
46222321 GTTATCAGAG
* *
46222331 AAACTACAATGTAAAATTTTATTTTTTATAT
1 AAACTACAATGTAAAATTCTATATTTTATAT
** *
46222362 AAACTTTAGTGTAAAATTCTATATTTTA
1 AAACTACAATGTAAAATTCTATATTTTA
46222390 AATTTATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
AAACTACAATGTAAAATTCTATATTTTATAT
Found at i:46228327 original size:13 final size:13
Alignment explanation
Indices: 46228311--46228335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46228301 TTATTTAAAC
46228311 TTTTTATTTGATT
1 TTTTTATTTGATT
46228324 TTTTTATTTGAT
1 TTTTTATTTGAT
46228336 AAATTAATTA
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TTTTTATTTGATT
Found at i:46231351 original size:20 final size:20
Alignment explanation
Indices: 46231326--46231377 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
46231316 AACAATGAAT
46231326 TTGTTCATCAAGAGATACAA
1 TTGTTCATCAAGAGATACAA
*
46231346 TTGTTCA--AA-AAATACAA
1 TTGTTCATCAAGAGATACAA
* *
46231363 CTGTTTATCAAGAGA
1 TTGTTCATCAAGAGA
46231378 CAGAACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 12 0.48
18 2 0.08
19 2 0.08
20 9 0.36
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTTCATCAAGAGATACAA
Found at i:46231926 original size:28 final size:28
Alignment explanation
Indices: 46231895--46232033 Score: 188
Period size: 28 Copynumber: 4.9 Consensus size: 28
46231885 CAGTCCGCCT
*
46231895 TTTTGGCTTGCATTTGGACTGTCTATCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* * *
46231923 TTTTGGCTTGCATTTGGACTATCCGCCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
* *
46231951 CTTTGGATTGCACTTTGGACTGTCTGTCA
1 TTTTGGCTTGCA-TTTGGACTGTCTGTCA
*
46231980 TTTTGGCTTGCACTTGGACTGTCTGTCA
1 TTTTGGCTTGCATTTGGACTGTCTGTCA
*
46232008 TTTTGGCTTGCACTTTGGACTATCTG
1 TTTTGGCTTGCA-TTTGGACTGTCTG
46232034 CATGATCTTC
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 61 0.64
29 34 0.36
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (28 bp):
TTTTGGCTTGCATTTGGACTGTCTGTCA
Found at i:46231986 original size:57 final size:57
Alignment explanation
Indices: 46231896--46232033 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
46231886 AGTCCGCCTT
* *
46231896 TTTGGCTTGCA-TTTGGACTGTCTATCATTTTGGCTTGCATTTGGACTATCCGCCAC
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
* * * * *
46231952 TTTGGATTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTGTCTGTCAT
1 TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
*
46232009 TTTGGCTTGCACTTTGGACTATCTG
1 TTTGGCTTGCACTTTGGACTGTCTG
46232034 CATGATCTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
56 10 0.14
57 62 0.86
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (57 bp):
TTTGGCTTGCACTTTGGACTGTCTGTCATTTTGGCTTGCACTTGGACTATCCGCCAC
Found at i:46236527 original size:51 final size:51
Alignment explanation
Indices: 46236469--46236572 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 51
46236459 AACCATCACA
* *
46236469 AATTTTGTTCTTTC-AAATATTGATATATTAGCTCTTCTGGAGCTTTTAACT
1 AATTTTGTTC-TACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
* *
46236520 AATTTTGTTCTACGAAATATTGATATATTTGCTCTTTTGGAGCTTTCAACT
1 AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
46236571 AA
1 AA
46236573 GTTTCATATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (51 bp):
AATTTTGTTCTACGAAATATTGATATATTAGCTCTTCTGGAGCTTTCAACT
Found at i:46237302 original size:21 final size:21
Alignment explanation
Indices: 46237276--46237321 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46237266 TTAATAAAAA
* *
46237276 TAATT-ATAACTAATAATGAAT
1 TAATTAATAA-TAAAAATAAAT
46237297 TAATTAATAATAAAAATAAAT
1 TAATTAATAATAAAAATAAAT
46237318 TAAT
1 TAAT
46237322 CAAATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTAATAATAAAAATAAAT
Found at i:46245169 original size:24 final size:24
Alignment explanation
Indices: 46245131--46245218 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
46245121 GAGTCCTGGT
** *
46245131 GATTTGTTCAAATATTTTTCTAGC
1 GATTTGTTCGCATATTATTCTAGC
* *
46245155 GATTTTTTCGCATATTATTCTGGC
1 GATTTGTTCGCATATTATTCTAGC
* * *
46245179 GATCTGTTCACATATTATTCTCGC
1 GATTTGTTCGCATATTATTCTAGC
* *
46245203 GACTTGTTCGTATATT
1 GATTTGTTCGCATATT
46245219 GTGCTGATGA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (24 bp):
GATTTGTTCGCATATTATTCTAGC
Found at i:46245218 original size:48 final size:48
Alignment explanation
Indices: 46245126--46245247 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
46245116 TTTTGGAGTC
* * * * *
46245126 CTGGTGATTTGTTCAAATATTTTTCTAGCGATTTTTTCGCATATTATT
1 CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* * * * *
46245174 CTGGCGATCTGTTCACATATTATTCTCGCGACTTGTTCGTATATTGTG
1 CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
* *
46245222 CTGATGATTTGTTCACATATTGTTCT
1 CTGGTGATTTGTTCACATATTATTCT
46245248 GGTGGTTTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
CTGGTGATTTGTTCACATATTATTCTAGCGACTTGTTCGCATATTATG
Found at i:46245233 original size:24 final size:24
Alignment explanation
Indices: 46245206--46245262 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
46245196 TTCTCGCGAC
46245206 TTGTTCGTATATTGTGCTGATGAT
1 TTGTTCGTATATTGTGCTGATGAT
** * * *
46245230 TTGTTCACATATTGTTCTGGTGGT
1 TTGTTCGTATATTGTGCTGATGAT
*
46245254 TTGTCCGTA
1 TTGTTCGTA
46245263 ACACTGTTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.49
Consensus pattern (24 bp):
TTGTTCGTATATTGTGCTGATGAT
Found at i:46247423 original size:42 final size:42
Alignment explanation
Indices: 46247360--46247444 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
46247350 AATTTATTAG
46247360 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
* * *
46247402 AACCCTAAATATGAAATTAATTATGAACACTTAAGTGAGATA
1 AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
46247444 A
1 A
46247445 TCTTCTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.27
Consensus pattern (42 bp):
AACCCTAAATATAAAACTAATTATGAAAACTTAAGTGAGATA
Found at i:46248854 original size:19 final size:20
Alignment explanation
Indices: 46248822--46248861 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
46248812 ATTTAGGCTT
46248822 TATATATCATCCATCACACA
1 TATATATCATCCATCACACA
*
46248842 TATATAT-ATCCATTACACA
1 TATATATCATCCATCACACA
46248861 T
1 T
46248862 TCTTCTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (20 bp):
TATATATCATCCATCACACA
Found at i:46253002 original size:91 final size:88
Alignment explanation
Indices: 46252821--46253002 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 88
46252811 TTCACCGTTA
* * *
46252821 AAAATTAGTGGTGGAGGAGGTGTAAAGCTGACTGAAGACATTTTTACAAAAAACAACAAGGAAAC
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
**
46252886 ATATGTTTTTTCTTTTAGGAAAC
66 ATATGTTTTTTCTTTTAAAAAAC
* * *
46252909 AAAATTGGTGGTGGAAGAGATGTAAAGCTGGCTGAAGACGTTTTTACAAAAAAAAACTATAAGGA
1 AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAAC---AAGGA
46252974 AACATATGTTTTTTCTTTTAAAAAAC
63 AACATATGTTTTTTCTTTTAAAAAAC
46253000 AAA
1 AAA
46253003 GGCCCTCAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 51 0.61
91 32 0.39
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (88 bp):
AAAATTAGTGGTGGAAGAGATGTAAAGCTGACTGAAGACATTTTTACAAAAAAAAACAAGGAAAC
ATATGTTTTTTCTTTTAAAAAAC
Found at i:46253526 original size:29 final size:29
Alignment explanation
Indices: 46253482--46253549 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
46253472 CGCCTTTTTG
*
46253482 GCTTGCA-TTTGAACTG-TCTGTCACTTTA
1 GCTTGCACTTTGAACTGTTC-ATCACTTTA
* *
46253510 GCTTGCACTTTGGACTGTTCATCACTTTG
1 GCTTGCACTTTGAACTGTTCATCACTTTA
*
46253539 GCTTGTACTTT
1 GCTTGCACTTT
46253550 AGACAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 25 0.74
30 2 0.06
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (29 bp):
GCTTGCACTTTGAACTGTTCATCACTTTA
Found at i:46257346 original size:7 final size:7
Alignment explanation
Indices: 46257334--46257359 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46257324 TAGTCTCATC
46257334 TTTATAT
1 TTTATAT
46257341 TTTATAT
1 TTTATAT
46257348 TTTATAT
1 TTTATAT
46257355 TTTAT
1 TTTAT
46257360 GCTGCCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:46260699 original size:35 final size:35
Alignment explanation
Indices: 46260659--46260726 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
46260649 AGCTGGTTTC
**
46260659 GGTTGGATTAGCTCTTTTGAGCATTGGCGTGTTGT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
*
46260694 GGTTGGATTAAATCTTTTGAGTATTGGCGTGTT
1 GGTTGGATTAAATCTTTTGAGCATTGGCGTGTT
46260727 TAGGGTGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (35 bp):
GGTTGGATTAAATCTTTTGAGCATTGGCGTGTTGT
Found at i:46260750 original size:35 final size:34
Alignment explanation
Indices: 46260670--46260763 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
46260660 GTTGGATTAG
* * *
46260670 CTCTTTTGAGCATTGGCGTGTTGTGGTTGGATTAA
1 CTCTTTTGAGTATTGGCGTGTT-TGGGTGGACTAA
*
46260705 ATCTTTTGAGTATTGGCGTGTTTAGGGTGGACTAA
1 CTCTTTTGAGTATTGGCGTGTTT-GGGTGGACTAA
* *
46260740 CTCTTGTGAGTATTTGGTGTGTTT
1 CTCTTTTGAGTA-TTGGCGTGTTT
46260764 TGGAGGGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 39 0.78
36 10 0.20
ACGTcount: A:0.15, C:0.10, G:0.31, T:0.45
Consensus pattern (34 bp):
CTCTTTTGAGTATTGGCGTGTTTGGGTGGACTAA
Found at i:46262699 original size:16 final size:16
Alignment explanation
Indices: 46262678--46262710 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46262668 TGAATGATTT
46262678 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
46262694 AAGTTACATTTTTATG
1 AAGTTACATTTTTATG
46262710 A
1 A
46262711 TAATACTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (16 bp):
AAGTTACATTTTTATG
Found at i:46269177 original size:12 final size:12
Alignment explanation
Indices: 46269160--46269185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46269150 TGCCTATTGA
46269160 ACCATTTAGAAT
1 ACCATTTAGAAT
46269172 ACCATTTAGAAT
1 ACCATTTAGAAT
46269184 AC
1 AC
46269186 TGTCGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (12 bp):
ACCATTTAGAAT
Found at i:46270668 original size:20 final size:21
Alignment explanation
Indices: 46270628--46270668 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46270618 TATAATTTGA
*
46270628 TTTAATAAAAAGTTTGATTTT
1 TTTAATAAAAAGGTTGATTTT
46270649 TTTAATAAAAAGGTTG-TTTT
1 TTTAATAAAAAGGTTGATTTT
46270669 AAATTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TTTAATAAAAAGGTTGATTTT
Found at i:46270857 original size:11 final size:12
Alignment explanation
Indices: 46270837--46270873 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
46270827 TTTATTATCT
46270837 TTTATA-AAAAA
1 TTTATAGAAAAA
46270848 TTTA-AGAAAAA
1 TTTATAGAAAAA
*
46270859 ATTATAGAAAAA
1 TTTATAGAAAAA
46270871 TTT
1 TTT
46270874 CCCAAACGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 1 0.05
11 12 0.55
12 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
TTTATAGAAAAA
Found at i:46274051 original size:33 final size:33
Alignment explanation
Indices: 46274009--46274075 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46273999 ATACAAGTAC
46274009 CTTCATATTGTTTTTACCGATTTTACATTCTTG
1 CTTCATATTGTTTTTACCGATTTTACATTCTTG
46274042 CTTCATATTGTTTTTACCGATTTTACATTCTTG
1 CTTCATATTGTTTTTACCGATTTTACATTCTTG
46274075 C
1 C
46274076 GACAATGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (33 bp):
CTTCATATTGTTTTTACCGATTTTACATTCTTG
Found at i:46280227 original size:17 final size:17
Alignment explanation
Indices: 46280205--46280239 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46280195 AGATTTAACA
46280205 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
46280222 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
46280239 A
1 A
46280240 CCTTATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCAAACAAGCTTACAT
Found at i:46283402 original size:17 final size:18
Alignment explanation
Indices: 46283380--46283422 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
46283370 AAGATGATGT
*
46283380 TTTTTTTATGTTTTAA-G
1 TTTTTTTATATTTTAACG
*
46283397 TTTTTTTTTATTTTAACG
1 TTTTTTTATATTTTAACG
*
46283415 TTATTTTA
1 TTTTTTTA
46283423 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTTATATTTTAACG
Found at i:46288187 original size:39 final size:40
Alignment explanation
Indices: 46288086--46288277 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
46288076 TCGAATGATG
* * * *
46288086 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
* *
46288125 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
46288166 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
46288205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
46288244 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
46288278 AGCTATATCC
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.27
40 84 0.66
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:46288222 original size:79 final size:81
Alignment explanation
Indices: 46288086--46288268 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
46288076 TCGAATGATG
* *
46288086 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
46288150 TGTACGAGATACTA-A
66 TGTACGAGATACTATA
* * * **
46288165 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
46288227 TTTGTGCGAGTTACTATA
64 TTTGTACGAGATACTATA
* *
46288245 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46288269 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGATACTATA
Found at i:46288292 original size:79 final size:79
Alignment explanation
Indices: 46288139--46288303 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
46288129 GGACTAAGAT
* **
46288139 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
46288204 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
46288218 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
46288281 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46288297 CCGAAGG
1 CCGAAGG
46288304 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:46304443 original size:6 final size:6
Alignment explanation
Indices: 46304432--46304459 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46304422 ATTTATTCAT
46304432 CATCAC CATCAC CATCAC CATCAC CATC
1 CATCAC CATCAC CATCAC CATCAC CATC
46304460 CGTGACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
CATCAC
Found at i:46307449 original size:28 final size:28
Alignment explanation
Indices: 46307411--46307467 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
46307401 TATTCATCAC
46307411 AAATACAATAAAATTTC-ACATT-TTCA
1 AAATACAATAAAATTTCAACATTATTCA
**
46307437 AAATCACATATAACTTTTCAACATTATTCA
1 AAAT-ACA-ATAAAATTTCAACATTATTCA
46307467 A
1 A
46307468 TTTAGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 8 0.32
29 5 0.20
30 5 0.20
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATACAATAAAATTTCAACATTATTCA
Found at i:46323293 original size:23 final size:21
Alignment explanation
Indices: 46323263--46323305 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46323253 GAATAAATGA
46323263 TTTTAAAACCATTAAAATTATTT
1 TTTTAAAA-CA-TAAAATTATTT
*
46323286 TTTTAAAATATAAAATTATT
1 TTTTAAAACATAAAATTATT
46323306 AAAATTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAACATAAAATTATTT
Found at i:46325323 original size:20 final size:21
Alignment explanation
Indices: 46325285--46325323 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
46325275 TATTGGCATT
*
46325285 TAGTTGAGTAGTTGGATTGTA
1 TAGTTGAGTAGTTGAATTGTA
*
46325306 TAGTTGA-TAGTTTAATTG
1 TAGTTGAGTAGTTGAATTG
46325324 GTAGCTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TAGTTGAGTAGTTGAATTGTA
Found at i:46327033 original size:86 final size:86
Alignment explanation
Indices: 46326927--46327197 Score: 283
Period size: 86 Copynumber: 3.2 Consensus size: 86
46326917 TTCGGTTTAT
* ** * ** *
46326927 TCCAATGATGCACTGTGTGTGCCAATGGATTTACTTCGGTTTATCCAATGATGCGCTGTGTGTGA
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
*
46326992 TAGTATAGTTGCTTCAGCT-TA
66 TAGTATAATTGCTTC-GCTATA
* * * * *
46327013 TCCAATGATGCACTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGT
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* *
46327078 TAGAATAATTGCTTCGGTATA
66 TAGTATAATTGCTTCGCTATA
* * * * * * * *
46327099 TTCGATGATGCACCGTGTGTGCCAGTATAGTTACTTCTGTATATCCAATGATACATTGTGGGTGC
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* * *
46327164 TAGTATATTTGCTTTGGTATA
66 TAGTATAATTGCTTCGCTATA
*
46327185 TCCGATGATGCAC
1 TCCAATGATGCAC
46327198 AATTGGTTCC
Statistics
Matches: 153, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
85 2 0.01
86 151 0.99
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (86 bp):
TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
TAGTATAATTGCTTCGCTATA
Found at i:46327169 original size:43 final size:43
Alignment explanation
Indices: 46326917--46327197 Score: 215
Period size: 43 Copynumber: 6.5 Consensus size: 43
46326907 TAGGTGACTT
* * * ** *
46326917 TTCGGTTTATTCCAATGATGCACTGTGTGTGCCAATGGATTTAC
1 TTCGGTATA-TCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
46326961 TTCGGTTTATCCAATGATGCGCTGTGTGTGATAGTATAGTTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * *
46327004 TTCAGCT-TATCCAATGATGCACTGTGTGTG-TCGGTATACTTAC
1 TTC-GGTATATCCAATGATGCACTGTGTGTGCT-AGTATAGTTAC
* * * * * * * * *
46327047 TTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * *
46327090 TTCGGTATATTCGATGATGCACCGTGTGTGCCAGTATAGTTAC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* * * * * *
46327133 TTCTGTATATCCAATGATACATTGTGGGTGCTAGTATATTTGC
1 TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
* *
46327176 TTTGGTATATCCGATGATGCAC
1 TTCGGTATATCCAATGATGCAC
46327198 AATTGGTTCC
Statistics
Matches: 186, Mismatches: 47, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
42 3 0.02
43 171 0.92
44 12 0.06
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (43 bp):
TTCGGTATATCCAATGATGCACTGTGTGTGCTAGTATAGTTAC
Found at i:46327170 original size:129 final size:129
Alignment explanation
Indices: 46326960--46327196 Score: 280
Period size: 129 Copynumber: 1.8 Consensus size: 129
46326950 AATGGATTTA
* * * * * *
46326960 CTTCGGTTTATCCAATGATGCGCTGTGTGTGATAGTATAGTTGCTTCAGCTTATCCAATGATGCA
1 CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
* * *
46327025 CTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTG
66 CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
* * * *
46327089 CTTCGGTATATTCGATGATGCACCGTGTGTGCCAGTATAGTTACTTCTG-TATATCCAATGATAC
1 CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCT-TATCCAATGATAC
* * * * *
46327153 ATTGTGGGTG-CTAGTATATTTGCTTTGGTATATCCGATGATGCA
65 ACTGTGGGTGTC-AGTATACTTACTTCGGTATATACGATGATGCA
46327197 CAATTGGTTC
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
128 2 0.02
129 86 0.98
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (129 bp):
CTTCGGTATATCCAATGATGCACCGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
Found at i:46329292 original size:41 final size:41
Alignment explanation
Indices: 46329241--46329324 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
46329231 GGCCAAATGG
*
46329241 ACCGGAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
1 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
46329282 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
1 ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
46329323 AC
1 AC
46329325 TCGAGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (41 bp):
ACCGAAATGGGCCAAGTGGGCCCAATGGGCCCGTTGTCCCT
Found at i:46329547 original size:27 final size:27
Alignment explanation
Indices: 46329511--46329699 Score: 181
Period size: 27 Copynumber: 7.0 Consensus size: 27
46329501 AAAGGTTGTT
* *
46329511 AAATGACCAAAATACCCCCATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
* * *
46329538 AAATAACCAAAATTCCCTCGAT-GGTTA
1 AAATTACCAAAATACCC-CGATAGGGTA
* *
46329565 AAATTATCGAAATACCCCTGAT-GGGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
* * *
46329592 AAAGTATCGAAATACCCCTGATA-GGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
46329619 AAATTACCAAAATACCCTCGAT-GGGTA
1 AAATTACCAAAATACCC-CGATAGGGTA
*
46329646 AAATTACCAAAATACCCCCA-ATGGGTA
1 AAATTACCAAAATACCCCGATA-GGGTA
**
46329673 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
46329700 GAATGACCGT
Statistics
Matches: 138, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.02
27 130 0.94
28 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (27 bp):
AAATTACCAAAATACCCCGATAGGGTA
Found at i:46329690 original size:54 final size:53
Alignment explanation
Indices: 46329511--46329689 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 53
46329501 AAAGGTTGTT
* * * * * *
46329511 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATTCCCTCGATGGTTA
1 AAATTACCAAAATACCCCGAT-GGGTAAAATTACCAAAATACCCCCGATGGGTA
* * * * * * *
46329565 AAATTATCGAAATACCCCTGATGGGTAAAAGTATCGAAATACCCCTGATAGGTA
1 AAATTACCAAAATACCCC-GATGGGTAAAATTACCAAAATACCCCCGATGGGTA
*
46329619 AAATTACCAAAATACCCTCGATGGGTAAAATTACCAAAATACCCCCAATGGGTA
1 AAATTACCAAAATACCC-CGATGGGTAAAATTACCAAAATACCCCCGATGGGTA
46329673 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
46329690 TAATAGGGTA
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
54 99 0.97
55 3 0.03
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.21
Consensus pattern (53 bp):
AAATTACCAAAATACCCCGATGGGTAAAATTACCAAAATACCCCCGATGGGTA
Found at i:46329716 original size:81 final size:81
Alignment explanation
Indices: 46329511--46329699 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 81
46329501 AAAGGTTGTT
* ** * * * *
46329511 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATTCCCTCGATGGTTAAAATTATCGAA
1 AAATTACCAAAATACCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
**
46329576 ATACCCCTGATGGGTA
66 ATACCCCCAATGGGTA
* * * * *
46329592 AAAGTATCGAAATACCCCTGATA-GGTAAAATTACCAAAATACCCTCGATGGGTAAAATTACCAA
1 AAATTACCAAAATA-CCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAA
46329656 AATACCCCCAATGGGTA
65 AATACCCCCAATGGGTA
46329673 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCTAATAGGGTA
46329700 GAATGACCGT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.08
81 76 0.85
82 6 0.07
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (81 bp):
AAATTACCAAAATACCCTAATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
ATACCCCCAATGGGTA
Found at i:46346209 original size:24 final size:24
Alignment explanation
Indices: 46346157--46346209 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
46346147 ACCATATGTC
*
46346157 AACCACATCCAAACATACCACAAT
1 AACCACATCCAAACATACCAAAAT
* * *
46346181 GACCACATTCAAACATATCAAAAT
1 AACCACATCCAAACATACCAAAAT
46346205 AACCA
1 AACCA
46346210 TTAATAGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (24 bp):
AACCACATCCAAACATACCAAAAT
Found at i:46350132 original size:27 final size:27
Alignment explanation
Indices: 46350093--46350879 Score: 864
Period size: 27 Copynumber: 29.3 Consensus size: 27
46350083 AGAGGTCAAT
* *
46350093 AAATGACCGAAATACCCTCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * *
46350120 AAATAACCAAAATACCCTCAAACGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
46350147 AAATAACCAAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350174 GAATAACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350201 AAATGATCGAAATA-TCCCATCA-GGTA
1 AAATGACCGAAATACCCCCAT-AGGGTA
* * *
46350227 AAATGACCGAAATAACGCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
46350254 AAATAACTGAAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350281 AAATAACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
46350308 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
46350335 GAATGACTGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
46350362 GAATGACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
46350389 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
46350416 ATATGACCGAAATACCCCCATCA-GGTA
1 AAATGACCGAAATACCCCCAT-AGGGTA
* *
46350443 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350470 AAATGACTGAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350497 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** * *
46350524 AACTGACTAAAATACTCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350551 AAATGAACGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
46350578 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
46350605 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350632 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * ***
46350659 AAATGATCAAAATACCTTGATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350686 AAATGACCAAAATAACCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
46350713 AAATGATTGAAATACCCTGATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
46350740 AAATGACCGATATA-CCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
46350766 AAATGACTGAAATGCCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
46350793 AAATAATCGAAATAACCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
46350820 AAATGACCG-AATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
46350846 AAATGAATGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
46350873 AAATGAC
1 AAATGAC
46350880 TGTTATACCG
Statistics
Matches: 646, Mismatches: 107, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
26 66 0.10
27 579 0.90
28 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:46351435 original size:84 final size:84
Alignment explanation
Indices: 46351304--46351466 Score: 308
Period size: 84 Copynumber: 1.9 Consensus size: 84
46351294 ACACTGTTAC
*
46351304 TGTATTGGGCTAAGGCCCACAGTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
1 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
46351369 CTAAGGCCCACACTAATTT
66 CTAAGGCCCACACTAATTT
*
46351388 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTGTTACTGTATTGGG
1 TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
46351453 CTAAGGCCCACACT
66 CTAAGGCCCACACT
46351467 GTACTGTCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (84 bp):
TGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGATAAGGCCCACACTGTTACTGTATTGGG
CTAAGGCCCACACTAATTT
Found at i:46351468 original size:28 final size:28
Alignment explanation
Indices: 46351294--46351473 Score: 269
Period size: 28 Copynumber: 6.5 Consensus size: 28
46351284 TTAATGCACT
46351294 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
46351322 ACAGTGATT-CTGTATTGGGATAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
46351350 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
46351378 ACACTAATT-TTGTATTGGGCTAAGGCCC
1 ACACT-GTTACTGTATTGGGCTAAGGCCC
46351406 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
46351434 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
46351462 ACACTG-TACTGT
1 ACACTGTTACTGT
46351474 CAATGAATAG
Statistics
Matches: 139, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
27 10 0.07
28 125 0.90
29 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:46351487 original size:33 final size:30
Alignment explanation
Indices: 46351294--46351501 Score: 128
Period size: 28 Copynumber: 7.2 Consensus size: 30
46351284 TTAATGCACT
46351294 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
* * *
46351322 ACAGTGATTCTGT-AT--TGGGATAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
46351350 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
* **
46351378 ACACTAATTTTGT-AT--TGGGCTAAGGCCC
1 ACACT-GTACTGTCATGATGGGCTAAGGCCC
*
46351406 ACACTGATTCTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
46351434 ACACTGTTACTGT-AT--TGGGCTAAGGCCC
1 ACACTG-TACTGTCATGATGGGCTAAGGCCC
*
46351462 ACACTGTACTGTCAATGAATAGGGCTCAGGCCC
1 ACACTGTACTGTC-ATG-AT-GGGCTAAGGCCC
*
46351495 AGACTGT
1 ACACTGT
46351502 TACTACATGT
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.04
28 129 0.83
29 2 0.01
32 1 0.01
33 17 0.11
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (30 bp):
ACACTGTACTGTCATGATGGGCTAAGGCCC
Found at i:46360521 original size:21 final size:21
Alignment explanation
Indices: 46360496--46360536 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46360486 TGATAACAAC
46360496 TAATATATAATTAATT-TTATA
1 TAATATAT-ATTAATTGTTATA
46360517 TAATATATATTAATTGTTAT
1 TAATATATATTAATTGTTAT
46360537 TAACCTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATATATATTAATTGTTATA
Done.