Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 127 of 226
Found at i:39429120 original size:47 final size:47
Alignment explanation
Indices: 39429036--39429491 Score: 714
Period size: 47 Copynumber: 9.6 Consensus size: 47
39429026 TATTTGAATA
*
39429036 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39429085 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39429132 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39429181 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
39429228 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGTCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39429275 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
39429324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
39429371 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
39429418 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39429465 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39429492 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 278 0.73
49 101 0.27
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:39429148 original size:96 final size:94
Alignment explanation
Indices: 39429036--39429491 Score: 723
Period size: 96 Copynumber: 4.8 Consensus size: 94
39429026 TATTTGAATA
39429036 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
39429101 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
39429132 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
39429197 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39429228 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATA
39429293 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
39429324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
39429389 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
39429418 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
39429483 TGTGATAAG
66 TGTGATAAG
39429492 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
94 144 0.43
96 193 0.57
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:39429211 original size:143 final size:143
Alignment explanation
Indices: 39429036--39429491 Score: 763
Period size: 143 Copynumber: 3.2 Consensus size: 143
39429026 TATTTGAATA
* *
39429036 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
39429101 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
39429166 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
39429181 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
39429246 TGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
39429311 GGCCGATGTGATG
131 GGCCGATGTGATG
39429324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
39429389 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGCGACAGGGCCGAGT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
*
39429452 GGCCAATGTGATG
131 GGCCGATGTGATG
* *
39429465 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
39429492 TCCCGAAGGG
Statistics
Matches: 297, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
141 54 0.18
143 231 0.78
145 12 0.04
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:39429711 original size:37 final size:37
Alignment explanation
Indices: 39429610--39429711 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
39429600 CCGCGCTCTA
* *
39429610 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
*
39429647 AAGACCTGATGACTACGTGTGGAGATTTTGTCCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
* * *
39429684 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
39429712 CGTCTGAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
Found at i:39430640 original size:50 final size:49
Alignment explanation
Indices: 39430536--39430715 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 49
39430526 GAGGTCCCAC
* * * **
39430536 GTAAGACCATGTCTGAGACATGGCATTGGCACTGAGATGAGAGCT-CTCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGA-AACTCCT-AT
* * *
39430586 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATAATAACTCCTAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGA-AACTCCTAT
* * * * * * *
39430636 GTAAGACCATATCTGGGATATGGCTTTGGTAGT-ACAGGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGAAAC-TCCTAT
*
39430685 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
39430716 TGTTATTATC
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 3 0.03
49 36 0.34
50 66 0.62
51 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACTGACATGAAACTCCTAT
Found at i:39435744 original size:40 final size:40
Alignment explanation
Indices: 39435689--39435772 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
39435679 AATGATTTGA
39435689 AGAAAACGTACTGGTGGGCAGGAATGAAAAGAGATATTTC
1 AGAAAACGTACTGGTGGGCAGGAATGAAAAGAGATATTTC
39435729 AGAAAACGTACTGGTGGGCAGGAATGAAAAGAGATATTTC
1 AGAAAACGTACTGGTGGGCAGGAATGAAAAGAGATATTTC
39435769 AGAA
1 AGAA
39435773 TTTGTTTCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.19
Consensus pattern (40 bp):
AGAAAACGTACTGGTGGGCAGGAATGAAAAGAGATATTTC
Found at i:39436869 original size:33 final size:32
Alignment explanation
Indices: 39436819--39436918 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 32
39436809 CATGCAATAT
* *
39436819 CAGTCTGGGCCTGAGCCCTATACAGTAACAGTA
1 CAGTGTGGGCCTTAGCCC-ATACAGTAACAGTA
*
39436852 CAGTGTGGGCCTTAGCCC--A-A--AACAATAA
1 CAGTGTGGGCCTTAGCCCATACAGTAACAGT-A
* *
39436880 CAGTGTGGGCCTTAGTCCAATACAGTTATCAGTA
1 CAGTGTGGGCCTTAG-CCCATACAG-TAACAGTA
39436914 CAGTG
1 CAGTG
39436919 CAATAATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
27 5 0.09
28 16 0.30
29 3 0.06
30 1 0.02
31 1 0.02
32 1 0.02
33 16 0.30
34 6 0.11
35 4 0.08
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (32 bp):
CAGTGTGGGCCTTAGCCCATACAGTAACAGTA
Found at i:39437299 original size:53 final size:52
Alignment explanation
Indices: 39437242--39437398 Score: 156
Period size: 53 Copynumber: 2.9 Consensus size: 52
39437232 AAATCTCCTA
* * *
39437242 AGGGTATAGCAGCCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTCTG
1 AGGGTATATCAGCCATTTTACCCT-TGGGGTATTTCGGTCATTTTACCCTCCG
* *
39437295 AGGGTATTTCA-CTCATTTTACCCTTCGGGGTATTTCAGTCATTTTACCCTCCG
1 AGGGTATATCAGC-CATTTTACCCTT-GGGGTATTTCGGTCATTTTACCCTCCG
* * * * *
39437348 GGGGCA-ATTCAGTCTTTTTACCTTTTGAGGGTATTTCGGTCATTTTACCCT
1 AGGGTATA-TCAGCCATTTTACC-CTTG-GGGTATTTCGGTCATTTTACCCT
39437399 TTAGGGGTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 60 0.70
54 24 0.28
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (52 bp):
AGGGTATATCAGCCATTTTACCCTTGGGGTATTTCGGTCATTTTACCCTCCG
Found at i:39437310 original size:27 final size:26
Alignment explanation
Indices: 39437255--39437451 Score: 162
Period size: 27 Copynumber: 7.4 Consensus size: 26
39437245 GTATAGCAGC
* **
39437255 CATTTTACCCTATGGGGTATTTTGGT
1 CATTTTACCCTCTGGGGTATTTCAGT
*
39437281 CATTTTACCCTCTGAGGGTATTTCACT
1 CATTTTACCCTCTG-GGGTATTTCAGT
39437308 CATTTTACCCT-TCGGGGTATTTCAGT
1 CATTTTACCCTCT-GGGGTATTTCAGT
* * *
39437334 CATTTTACCCTCCGGGGGCAATTCAGT
1 CATTTTACCCT-CTGGGGTATTTCAGT
* * * *
39437361 CTTTTTACCTTTTGAGGGTATTTCGGT
1 CATTTTACCCTCTG-GGGTATTTCAGT
* **
39437388 CATTTTACCCTTTAGGGGTATTTTGGT
1 CATTTTACCCTCT-GGGGTATTTCAGT
* * * *
39437415 CATTCTACCCTTTGGGGGTGTTTCGGT
1 CATTTTACCCTCT-GGGGTATTTCAGT
*
39437442 TATTTTACCC
1 CATTTTACCC
39437452 ACGAATTGCA
Statistics
Matches: 141, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
26 37 0.26
27 103 0.73
28 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (26 bp):
CATTTTACCCTCTGGGGTATTTCAGT
Found at i:39437439 original size:54 final size:53
Alignment explanation
Indices: 39437255--39437451 Score: 200
Period size: 54 Copynumber: 3.7 Consensus size: 53
39437245 GTATAGCAGC
* * *
39437255 CATTTTACCCTAT-GGGGTATTTTGGTCATTTTACCCTCTGAGGGTATTTCACT
1 CATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTCTG-GGGTATTTCAGT
* * * * *
39437308 CATTTTACCC-TTCGGGGTATTTCAGTCATTTTACCCTCCGGGGGCAATTCAGT
1 CATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCT-CTGGGGTATTTCAGT
* * * * **
39437361 CTTTTTACCTTTTGAGGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTTGGT
1 CATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTCT-GGGGTATTTCAGT
* * *
39437415 CATTCTACCCTTTGGGGGTGTTTCGGTTATTTTACCC
1 CATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCC
39437452 ACGAATTGCA
Statistics
Matches: 116, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 1 0.01
53 49 0.42
54 66 0.57
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (53 bp):
CATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTCTGGGGTATTTCAGT
Found at i:39445841 original size:33 final size:33
Alignment explanation
Indices: 39445791--39445856 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
39445781 CATGCAATAT
* * *
39445791 CAGTCTGGGCCTGAGCCCTATATAGTAACAGTA
1 CAGTCTGGGCCTGAGCCCAAAACAGTAACAGTA
* *
39445824 CAGTGTGGGCCTTAGCCCAAAACAGTAACAGTA
1 CAGTCTGGGCCTGAGCCCAAAACAGTAACAGTA
39445857 TGGGCCTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (33 bp):
CAGTCTGGGCCTGAGCCCAAAACAGTAACAGTA
Found at i:39445860 original size:28 final size:28
Alignment explanation
Indices: 39445817--39445878 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
39445807 CCTATATAGT
*
39445817 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTATGGGCCTTAGCCCAA
39445844 AACAGTAACAGTATGGGCCTTAGCCCAA
1 AACAGTAACAGTATGGGCCTTAGCCCAA
*
39445872 TACAGTA
1 AACAGTA
39445879 GTCAGTACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTATGGGCCTTAGCCCAA
Found at i:39446477 original size:20 final size:20
Alignment explanation
Indices: 39446452--39446490 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39446442 TGAGTTATTT
39446452 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
39446472 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
39446491 GAGGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:39448882 original size:13 final size:13
Alignment explanation
Indices: 39448864--39448890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39448854 AGTCTAACAT
39448864 AGTCATTTATTTC
1 AGTCATTTATTTC
39448877 AGTCATTTATTTC
1 AGTCATTTATTTC
39448890 A
1 A
39448891 TGTAAGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
AGTCATTTATTTC
Found at i:39450821 original size:27 final size:27
Alignment explanation
Indices: 39450793--39451005 Score: 286
Period size: 27 Copynumber: 7.9 Consensus size: 27
39450783 TAGGTATAAT
* *
39450793 GACCGTAATGCCCCTATAGCGTAAAAT
1 GACCGTAATGCCCCTATAGGGTAAAAA
* *
39450820 GACCGTAATGCCCCTATAGCGTAAAAT
1 GACCGTAATGCCCCTATAGGGTAAAAA
*
39450847 GACCGTAATGCCCCTGTAGGGTAAAAA
1 GACCGTAATGCCCCTATAGGGTAAAAA
** *
39450874 GATTGTAATGCCCCTATAGGTTAAAAA
1 GACCGTAATGCCCCTATAGGGTAAAAA
** *
39450901 GACTATAATGCCCCTGTAGGGTAAAAA
1 GACCGTAATGCCCCTATAGGGTAAAAA
39450928 GACCGTAATGCCCCTATAGGGTAAAAA
1 GACCGTAATGCCCCTATAGGGTAAAAA
*
39450955 GACCGTAATGCCCTTATAGGGTAAAATA
1 GACCGTAATGCCCCTATAGGGTAAAA-A
*
39450983 -ACCGTAATG-CCCTAGAGGGTAAA
1 GACCGTAATGCCCCTATAGGGTAAA
39451006 TGATTATTTT
Statistics
Matches: 168, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 12 0.07
27 155 0.92
28 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
GACCGTAATGCCCCTATAGGGTAAAAA
Found at i:39451018 original size:25 final size:25
Alignment explanation
Indices: 39450990--39451064 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
39450980 ATAACCGTAA
39450990 TGCCCTAGAGGGTAAATGATT-ATTT
1 TGCCCT-GAGGGTAAATGATTGATTT
*
39451015 TGCCCCTGAGTGTAAATGATTGATTT
1 TG-CCCTGAGGGTAAATGATTGATTT
* *
39451041 T-CCCTTGA-TGTAAATGACTGATTT
1 TGCCC-TGAGGGTAAATGATTGATTT
39451065 GTCTGTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 18 0.40
25 18 0.40
26 9 0.20
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (25 bp):
TGCCCTGAGGGTAAATGATTGATTT
Found at i:39451052 original size:24 final size:26
Alignment explanation
Indices: 39450992--39451064 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
39450982 AACCGTAATG
*
39450992 CCCTAGAGGGTAAATGATT-ATTTTGC
1 CCCT-GAGTGTAAATGATTGATTTTGC
39451018 CCCTGAGTGTAAATGATTGATTTT-C
1 CCCTGAGTGTAAATGATTGATTTTGC
* *
39451043 CCTTGA-TGTAAATGACTGATTT
1 CCCTGAGTGTAAATGATTGATTT
39451065 GTCTGTGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 15 0.35
25 19 0.44
26 9 0.21
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
CCCTGAGTGTAAATGATTGATTTTGC
Found at i:39451221 original size:27 final size:26
Alignment explanation
Indices: 39451191--39451247 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
39451181 GTTTCTGGTG
*
39451191 GCTTGGCCACATATACTATTACTGGCA
1 GCTTGGCCACA-ATACTATTACTAGCA
* * *
39451218 GCTTTGCTACAATACTGTTACTAGCA
1 GCTTGGCCACAATACTATTACTAGCA
39451244 GCTT
1 GCTT
39451248 TGTTCCGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (26 bp):
GCTTGGCCACAATACTATTACTAGCA
Found at i:39451298 original size:32 final size:32
Alignment explanation
Indices: 39451257--39451383 Score: 164
Period size: 32 Copynumber: 4.0 Consensus size: 32
39451247 TTGTTCCGAT
* *
39451257 GTTACTGATGGCTTTGTGCCGATCATATTGCC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
39451289 GTTACTGATGGCTTTGTGCCAATCATATTACC
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
* * * * * *
39451321 ATTACTGATGACTGTGTGCCGATCATATCACT
1 GTTACTGATGGCTTTGTGCCAATCATATTACC
* *
39451353 GCTACTGATGGCTTTATGCCAATCATATTAC
1 GTTACTGATGGCTTTGTGCCAATCATATTAC
39451384 TGTACTTTTG
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 80 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCAATCATATTACC
Found at i:39451341 original size:64 final size:64
Alignment explanation
Indices: 39451258--39451383 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
39451248 TGTTCCGATG
* * ** * *
39451258 TTACTGATGGCTTTGTGCCGATCATATTGCCGTTACTGATGGCTTTGTGCCAATCATATTACCA
1 TTACTGATGACTGTGTGCCGATCATATCACCGCTACTGATGGCTTTATGCCAATCATATTACCA
*
39451322 TTACTGATGACTGTGTGCCGATCATATCACTGCTACTGATGGCTTTATGCCAATCATATTAC
1 TTACTGATGACTGTGTGCCGATCATATCACCGCTACTGATGGCTTTATGCCAATCATATTAC
39451384 TGTACTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (64 bp):
TTACTGATGACTGTGTGCCGATCATATCACCGCTACTGATGGCTTTATGCCAATCATATTACCA
Found at i:39451694 original size:46 final size:45
Alignment explanation
Indices: 39451590--39451694 Score: 104
Period size: 46 Copynumber: 2.2 Consensus size: 45
39451580 TGCATTGTTG
* * * *
39451590 CATTTTTATTATTGATTCTGTCACTGTAATGGGCTTAGGCCCACATG
1 CATTTTT-TT-TTGATTCTATCACTATAATGGGCTAAGGCCCACATA
* *
39451637 TATTCTATTTTTGATTCTAAT-ACTATAATGGGCTAAGGCCCACACTA
1 CATT-TTTTTTTGATTCT-ATCACTATAATGGGCTAAGGCCCACA-TA
39451684 CATTTTTTTTT
1 CATTTTTTTTT
39451695 TGTTTTGGGC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
46 35 0.74
47 10 0.21
48 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (45 bp):
CATTTTTTTTTGATTCTATCACTATAATGGGCTAAGGCCCACATA
Found at i:39454970 original size:50 final size:50
Alignment explanation
Indices: 39454895--39455130 Score: 337
Period size: 50 Copynumber: 4.7 Consensus size: 50
39454885 CATTTGGGTA
*
39454895 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
39454945 GAGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
39454995 AAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGATGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*** * * * *
39455045 GAGAGGTCCCCCATAAGACCATGTTTGGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
**
39455095 GAGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
39455131 ATTTGGCATG
Statistics
Matches: 163, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 137 0.84
51 26 0.16
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:39455832 original size:50 final size:50
Alignment explanation
Indices: 39455757--39455998 Score: 317
Period size: 50 Copynumber: 4.8 Consensus size: 50
39455747 CATTTGGGTA
* *
39455757 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAC
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
39455807 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTTGCACTGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
39455857 AAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
39455907 GAGAGGTCCC-TCATAAGACCATGTTTGGGACAT-GCATGGGCACCGATAT
1 GAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** *
39455956 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGC
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
39455999 TTGTTATTAT
Statistics
Matches: 165, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
49 16 0.10
50 142 0.86
51 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:39463366 original size:50 final size:50
Alignment explanation
Indices: 39463286--39463528 Score: 308
Period size: 50 Copynumber: 4.9 Consensus size: 50
39463276 CATTTGGGTA
* * *
39463286 GAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAC
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
39463336 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTTGCACTGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
39463386 AAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *** * * *
39463436 GAGAGGCCCCCCATAAGACCATGTTTGGGACAT-GCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** *
39463485 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39463529 TGTTATTATC
Statistics
Matches: 162, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
49 16 0.10
50 139 0.86
51 7 0.04
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:39466578 original size:13 final size:13
Alignment explanation
Indices: 39466560--39466584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39466550 TCAAATGACC
39466560 AAATTTTCACACG
1 AAATTTTCACACG
39466573 AAATTTTCACAC
1 AAATTTTCACAC
39466585 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:39471413 original size:30 final size:30
Alignment explanation
Indices: 39471374--39471443 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
39471364 ACTGTATTTG
*
39471374 CACTATTACTGTATTAGACTAAGGCCCACA
1 CACTGTTACTGTATTAGACTAAGGCCCACA
* * * *
39471404 CTCTGTTACTGTATTGGGCTATGGCCCACA
1 CACTGTTACTGTATTAGACTAAGGCCCACA
*
39471434 CACTGCTACT
1 CACTGTTACT
39471444 ATATAGGGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (30 bp):
CACTGTTACTGTATTAGACTAAGGCCCACA
Found at i:39471453 original size:30 final size:30
Alignment explanation
Indices: 39471396--39471461 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
39471386 ATTAGACTAA
* * * *
39471396 GGCCCACACTCTGTTACTGTATTGGGCTAT
1 GGCCCACACACTGCTACTATATAGGGCTAT
*
39471426 GGCCCACACACTGCTACTATATAGGGCTCT
1 GGCCCACACACTGCTACTATATAGGGCTAT
39471456 GGCCCA
1 GGCCCA
39471462 GACTGATTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.26
Consensus pattern (30 bp):
GGCCCACACACTGCTACTATATAGGGCTAT
Found at i:39479328 original size:30 final size:29
Alignment explanation
Indices: 39479281--39479349 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
39479271 AACCGTCTCA
* *
39479281 TTTCATATTCGATGGTTGAAACCATCCCT
1 TTTCATAATCCATGGTTGAAACCATCCCT
**
39479310 TTTCATTAATCCATGGTTGTCACCATCCCT
1 TTTCA-TAATCCATGGTTGAAACCATCCCT
39479340 TTTCATAATC
1 TTTCATAATC
39479350 AATAGCCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (29 bp):
TTTCATAATCCATGGTTGAAACCATCCCT
Found at i:39485635 original size:28 final size:28
Alignment explanation
Indices: 39485574--39485629 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39485564 AATAAAAGAA
39485574 AATCAAGTCTTCGTCTTTTATATTCTTT
1 AATCAAGTCTTCGTCTTTTATATTCTTT
39485602 AATCAAGTCTTCGTCTTTTATATTCTTT
1 AATCAAGTCTTCGTCTTTTATATTCTTT
39485630 CTTCAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (28 bp):
AATCAAGTCTTCGTCTTTTATATTCTTT
Found at i:39486468 original size:25 final size:25
Alignment explanation
Indices: 39486434--39486570 Score: 141
Period size: 25 Copynumber: 5.5 Consensus size: 25
39486424 TACCGATTTA
* *
39486434 AGCTCTTATGAGCTTACCGTTACTC
1 AGCTCGTATGAGCTTACCGTTATTC
39486459 AGCTCGTATGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGTTATTC
* ** * *
39486484 AACTCAAAAGAGCTTACTGTTATTC
1 AGCTCGTATGAGCTTACCGTTATTC
* *
39486509 AGCTCGTAGGAGCTTAGCGTTATTC
1 AGCTCGTATGAGCTTACCGTTATTC
* * * *
39486534 AACTTGAATGAGCTTACCGTT-TAC
1 AGCTCGTATGAGCTTACCGTTATTC
*
39486558 AGCTCATATGAGC
1 AGCTCGTATGAGC
39486571 ATACATGTAT
Statistics
Matches: 89, Mismatches: 23, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
24 11 0.12
25 78 0.88
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGTTATTC
Found at i:39486511 original size:50 final size:50
Alignment explanation
Indices: 39486443--39486570 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
39486433 AAGCTCTTAT
*
39486443 GAGCTTACCGTTACTCAGCTCGTATGAGCTTACCGTTATTCAACTCAAAA
1 GAGCTTACCGTTATTCAGCTCGTATGAGCTTACCGTTATTCAACTCAAAA
* * * ** *
39486493 GAGCTTACTGTTATTCAGCTCGTAGGAGCTTAGCGTTATTCAACTTGAAT
1 GAGCTTACCGTTATTCAGCTCGTATGAGCTTACCGTTATTCAACTCAAAA
* *
39486543 GAGCTTACCGTT-TACAGCTCATATGAGC
1 GAGCTTACCGTTATTCAGCTCGTATGAGC
39486571 ATACATGTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 13 0.19
50 54 0.81
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (50 bp):
GAGCTTACCGTTATTCAGCTCGTATGAGCTTACCGTTATTCAACTCAAAA
Found at i:39497100 original size:40 final size:40
Alignment explanation
Indices: 39497044--39497131 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
39497034 ATTGGTACTC
39497044 TCTGTCTGGTGCGTTTC-AGTTGGATTAG-TTCTTATGAGCT
1 TCTGTCTGGTGCGTTTCGA-TTGGATTAGCTT-TTATGAGCT
* *
39497084 TCTGTCTGGTGTGTTTCGATTGGATTAGCTTTTATGTGCT
1 TCTGTCTGGTGCGTTTCGATTGGATTAGCTTTTATGAGCT
39497124 TCTGTCTG
1 TCTGTCTG
39497132 TCGTCTTCGG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.10, C:0.15, G:0.27, T:0.48
Consensus pattern (40 bp):
TCTGTCTGGTGCGTTTCGATTGGATTAGCTTTTATGAGCT
Found at i:39508370 original size:21 final size:21
Alignment explanation
Indices: 39508344--39508391 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
39508334 CCAGTCAGTG
39508344 TACACGGGCATGTGAAGTAGC
1 TACACGGGCATGTGAAGTAGC
*
39508365 TACACGGGCGTGTGAAGTAGC
1 TACACGGGCATGTGAAGTAGC
*
39508386 CACACG
1 TACACG
39508392 ACCATATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.17
Consensus pattern (21 bp):
TACACGGGCATGTGAAGTAGC
Found at i:39513907 original size:56 final size:56
Alignment explanation
Indices: 39513818--39513942 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
39513808 TATGTAAAAC
* ** *
39513818 TATGTAAAATTATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
39513874 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
39513930 TAGGTAAAATTAT
1 TATGTAAAATTAT
39513943 GTTATGGTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 62 0.98
57 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAAAAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:39513962 original size:23 final size:23
Alignment explanation
Indices: 39513936--39514044 Score: 164
Period size: 23 Copynumber: 4.7 Consensus size: 23
39513926 AAATTAGGTA
* *
39513936 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
39513959 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
39513982 AAATTAAGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
39514005 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
39514028 AAATTAGGGTAGAGTTT
1 AAATTAGGTTAGGGTTT
39514045 AGGGTTAGGG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 79 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:39514099 original size:29 final size:29
Alignment explanation
Indices: 39514043--39515016 Score: 1469
Period size: 29 Copynumber: 34.2 Consensus size: 29
39514033 AGGGTAGAGT
39514043 TTAGGGTTAGGGTTTTTAATT-AA--A--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514067 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514096 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514125 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514153 GTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514182 TTAGGGTTAGGATTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514211 TTAAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514240 TTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514270 TTAGGGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
**
39514299 TTAATGTTAGGG-TTTTAATTAAATTAAGG
1 TTAGGGTTAGGGTTTTTAATTAAATT-AGG
39514328 -TAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514356 TTTAGGGTTA-GGTTTTTAATTAAATTAGG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514385 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
39514414 TTAAGGTTAGGG-TTTTAATTATATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514442 GTAGGGTTAGGGTTTTTAATT-AA--A--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514466 TTA-GGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514494 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514523 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
39514551 GTACGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514580 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514609 TTAAGGTTAGGGTTTTTAATT-AA--A--
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514633 TTAGGG-TAGGG-TTTTAATTATATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514660 GTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514689 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514718 TTAGGGTTAGGGTTATTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514747 TTAGGATTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514776 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
39514804 GTAGGGTTAGGGTTTTTAATCAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514833 TTTAGTGTTAGGGTTTTTAATAATTAAATTAGG
1 -TTAGGGTTAGGG-TTTT--TAATTAAATTAGG
*
39514866 TTAAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514895 TTAAGGTTAGGG-TTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514923 GTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39514952 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
*
39514981 TCAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG
39515010 TTAGGGT
1 TTAGGGT
39515017 ATGAAATAAA
Statistics
Matches: 868, Mismatches: 49, Indels: 61
0.89 0.05 0.06
Matches are distributed among these distances:
22 8 0.01
23 23 0.03
24 30 0.03
25 3 0.00
26 3 0.00
27 6 0.01
28 174 0.20
29 545 0.63
30 46 0.05
31 8 0.01
32 10 0.01
33 12 0.01
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGG
Found at i:39514173 original size:86 final size:86
Alignment explanation
Indices: 39514067--39515016 Score: 1437
Period size: 86 Copynumber: 11.1 Consensus size: 86
39514057 TTTAATTAAA
39514067 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
39514132 TAGGGTTTTAATTAAATTAGG
66 TAGGGTTTTAATTAAATTAGG
* *
39514153 GTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAAGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
39514218 TAGGGTTTTTAATTAAATTAGG
66 TAGGG-TTTTAATTAAATTAGG
* *
39514240 TTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAATG
1 -TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG
39514305 TTAGGGTTTTAATTAAATTAAGG
65 TTAGGGTTTTAATTAAATT-AGG
*
39514328 -TAGGGTTAGGGTTTTTAATTAAATTAGGTTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGG-TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG
39514391 TTAGGGTTTTTAATTAAATTAGG
65 TTAGGG-TTTTAATTAAATTAGG
* * *
39514414 TTAAGGTTAGGG-TTTTAATTATATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTT-A-G-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
*
39514475 --GGTTTTTAATTAAATTAGG
66 TAGGGTTTTAATTAAATTAGG
* * *
39514494 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGGTACGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
39514558 TAGGGTTTTTAATTAAATTAGG
66 TAGGG-TTTTAATTAAATTAGG
*
39514580 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTA-G----GG-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
*
39514639 TAGGGTTTTAATTATATTAGG
66 TAGGGTTTTAATTAAATTAGG
* *
39514660 GTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
39514725 TAGGGTTATTAATTAAATTAGG
66 TAGGGTT-TTAATTAAATTAGG
* * * *
39514747 TTAGGATTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGGTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
*
39514811 TAGGGTTTTTAATCAAATTAGG
66 TAGGG-TTTTAATTAAATTAGG
* *
39514833 TTTAGTGTTAGGGTTTTTAATAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTA
1 -TTAGGGTTAGGG-TTTT--TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
39514898 AGGTTAGGGTTTTAATTAAATTAGG
62 AGGTTAGGGTTTTAATTAAATTAGG
* * *
39514923 GTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTCAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
39514988 TAGGGTTTTTAATTAAATTAGG
66 TAGGG-TTTTAATTAAATTAGG
39515010 TTAGGGT
1 TTAGGGT
39515017 ATGAAATAAA
Statistics
Matches: 794, Mismatches: 41, Indels: 57
0.89 0.05 0.06
Matches are distributed among these distances:
80 113 0.14
81 33 0.04
82 3 0.00
84 1 0.00
85 12 0.02
86 319 0.40
87 160 0.20
88 77 0.10
89 10 0.01
90 40 0.05
91 26 0.03
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (86 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGT
TAGGGTTTTAATTAAATTAGG
Found at i:39514492 original size:18 final size:21
Alignment explanation
Indices: 39514447--39514501 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 21
39514437 TTAGGGTAGG
39514447 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
39514469 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
39514492 GGTTAGGGTT
1 -GTTAGGGTT
39514502 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:39515050 original size:26 final size:25
Alignment explanation
Indices: 39515020--39515077 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
39515010 TTAGGGTATG
39515020 AAATAAA-TTACGATTTTTATTACATC
1 AAATAAACTT-CGA-TTTTATTACATC
* *
39515046 AAATAGAACTTCTATTTTATTATATC
1 AAATA-AACTTCGATTTTATTACATC
39515072 AAATAA
1 AAATAA
39515078 TATCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 4 0.14
28 2 0.07
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (25 bp):
AAATAAACTTCGATTTTATTACATC
Found at i:39517381 original size:30 final size:30
Alignment explanation
Indices: 39517337--39517399 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
39517327 GCCATTGATG
39517337 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTA-TTTAAA
*
39517368 AAAATAT-AAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
39517397 AAA
1 AAA
39517400 TGAAATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.29
30 15 0.48
31 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:39523755 original size:29 final size:30
Alignment explanation
Indices: 39523711--39523771 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
39523701 AGTCACTTAC
39523711 AAATTGGAAGAATACTTGAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
* *
39523741 AAATT-GAAGAGTACTTTAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
39523770 AA
1 AA
39523772 TCTTAGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.25
Consensus pattern (30 bp):
AAATTGGAAGAATACTTGAAAACATTAAAG
Found at i:39530264 original size:34 final size:34
Alignment explanation
Indices: 39530221--39530287 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
39530211 CCCCTCAATC
39530221 CCCAACCCCCTTTCTCTTTTTCTATCGTGACGCT
1 CCCAACCCCCTTTCTCTTTTTCTATCGTGACGCT
39530255 CCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
1 CCCAACCCCCTTTCTCTTTTTCTATCGTGACGC
39530288 AGAGAGCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.12, C:0.42, G:0.09, T:0.37
Consensus pattern (34 bp):
CCCAACCCCCTTTCTCTTTTTCTATCGTGACGCT
Found at i:39531409 original size:20 final size:20
Alignment explanation
Indices: 39531384--39531421 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39531374 GGTGGGTTAC
39531384 AGATTTCCATTTACCATTTT
1 AGATTTCCATTTACCATTTT
*
39531404 AGATTTCCATTTATCATT
1 AGATTTCCATTTACCATT
39531422 AACGAGAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.50
Consensus pattern (20 bp):
AGATTTCCATTTACCATTTT
Found at i:39542152 original size:34 final size:34
Alignment explanation
Indices: 39542109--39542177 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
39542099 ACATGTTATG
* *
39542109 ACATCAATCCTTTAGCCTAGATTCTTTCTTGTAA
1 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
39542143 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
1 ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
39542177 A
1 A
39542178 TTTAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (34 bp):
ACATCAATCCTGTAGCCTAGATTCTCTCTTGTAA
Found at i:39543821 original size:23 final size:23
Alignment explanation
Indices: 39543794--39543846 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
39543784 AGTGTTATTG
39543794 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
39543817 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
39543840 ATCAGTG
1 ATCAGTG
39543847 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:39545703 original size:8 final size:8
Alignment explanation
Indices: 39545690--39545718 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
39545680 GAAGTTTATC
39545690 TTTTTTTG
1 TTTTTTTG
39545698 TTTTTTTG
1 TTTTTTTG
39545706 TTTTTTTG
1 TTTTTTTG
39545714 TTTTT
1 TTTTT
39545719 ATCACTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:39559751 original size:13 final size:13
Alignment explanation
Indices: 39559733--39559780 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
39559723 ATTTCCATAA
* *
39559733 AACCATTTAGTTT
1 AACCATTTCGTAT
*
39559746 AACCATTTCGTAC
1 AACCATTTCGTAT
39559759 AACCATTTCGTAT
1 AACCATTTCGTAT
39559772 AACCATTTC
1 AACCATTTC
39559781 ATTTTACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (13 bp):
AACCATTTCGTAT
Found at i:39561405 original size:45 final size:43
Alignment explanation
Indices: 39561328--39561454 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 43
39561318 TGTGTACCAG
* * * * *
39561328 GTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCTATCGG
1 GTATCATTGATTAT-AAGGT-GTTGCTATGTGCTGATTCCACCGA
*
39561373 GT-TCTATTGATTATGAAGGTGATTGCTATGTGCTGTTTCCACCGA
1 GTATC-ATTGATTAT-AAGGTG-TTGCTATGTGCTGATTCCACCGA
* *
39561418 GTATCATTGACTATAAGGGTGGTGCTATGTGCTGATT
1 GTATCATTGATTATAA-GGTGTTGCTATGTGCTGATT
39561455 TCGAAGTGTT
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
44 19 0.28
45 47 0.69
46 2 0.03
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (43 bp):
GTATCATTGATTATAAGGTGTTGCTATGTGCTGATTCCACCGA
Found at i:39567931 original size:14 final size:15
Alignment explanation
Indices: 39567905--39567935 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
39567895 TGGAAGGGTA
39567905 AAATTATAAATAATG
1 AAATTATAAATAATG
39567920 AAATTA-AAATAATG
1 AAATTATAAATAATG
39567934 AA
1 AA
39567936 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATTATAAATAATG
Found at i:39568777 original size:40 final size:40
Alignment explanation
Indices: 39568707--39568913 Score: 225
Period size: 40 Copynumber: 5.2 Consensus size: 40
39568697 TACTTCAGTA
** *
39568707 CCCTGAATGCACATACGTGCCCCTACTTGTACTTCGGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * * * *
39568747 CCTTTAATGCACATGCATGCCTCTGTTTGTACTTTGATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * *
39568787 CCCTGAATGCACATACGTTCCACTATTTGTACTTTAGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * *
39568827 CCCTGAATGCAAATACGTACCCCTGTTTGTACTTTGATAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * **
39568867 CCCTAAATGCACATATGTGCCATTGTTTGTACTTTGGTAC
1 CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
*
39568907 CTCTGAA
1 CCCTGAA
39568914 AACATTATAA
Statistics
Matches: 134, Mismatches: 33, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (40 bp):
CCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAC
Found at i:39571653 original size:18 final size:17
Alignment explanation
Indices: 39571630--39571680 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
39571620 AACTTAAAAA
39571630 AATTGAGAGAGTTGAGAG
1 AATTGAGA-AGTTGAGAG
39571648 AATTGA-AAGTTTAGAGAG
1 AATTGAGAAG-TT-GAGAG
*
39571666 AATAGAGAAAGTTGA
1 AATTGAG-AAGTTGA
39571681 ATTTGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 18 0.64
19 2 0.07
20 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (17 bp):
AATTGAGAAGTTGAGAG
Found at i:39574204 original size:6 final size:6
Alignment explanation
Indices: 39574189--39574240 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
39574179 TTAAAATATT
* * * *
39574189 TATGTA TATGTG TATGTA TATGTA AATGTA TATGTA TATGCA TATGCA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
39574237 TATG
1 TATG
39574241 CATGTCTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (6 bp):
TATGTA
Found at i:39575632 original size:3 final size:3
Alignment explanation
Indices: 39575624--39575684 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
39575614 TAAGAAACAT
* *
39575624 AGA AGA AGA AGA AGA AGA AAA AGA TAGA AGA AGA AGA AGA AGA AAA
1 AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA
* *
39575670 AGA AAA AAA AGA AGA
1 AGA AGA AGA AGA AGA
39575685 GGATGAGGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:39575656 original size:25 final size:25
Alignment explanation
Indices: 39575622--39575672 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
39575612 AATAAGAAAC
39575622 ATAGAAGAAGAAGAAGAAGAAAAAG
1 ATAGAAGAAGAAGAAGAAGAAAAAG
39575647 ATAGAAGAAGAAGAAGAAGAAAAAG
1 ATAGAAGAAGAAGAAGAAGAAAAAG
39575672 A
1 A
39575673 AAAAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (25 bp):
ATAGAAGAAGAAGAAGAAGAAAAAG
Found at i:39578208 original size:23 final size:23
Alignment explanation
Indices: 39578182--39578243 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
39578172 TAAAAAAAAC
39578182 AAAATATATATACATATATAGATAA
1 AAAATA-AT-TACATATATAGATAA
*
39578207 AAAATAATTACATATATATATAAA
1 AAAATAATTACATATATAGAT-AA
39578231 AAAATAATTACAT
1 AAAATAATTACAT
39578244 TATCAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 12 0.34
24 17 0.49
25 6 0.17
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATTACATATATAGATAA
Found at i:39579815 original size:44 final size:44
Alignment explanation
Indices: 39579763--39579873 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
39579753 AATTTGCTCT
* ** *
39579763 CTGCAACTTCAGAGAGATAAGATC-TGTGGTTTTAATCAACTCCA
1 CTGCAACTTCAGGGAGATAAGATCAT-CAGCTTTAATCAACTCCA
* **
39579807 CTGCAACTTCAGGGAGATAGGATCATCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCATCAGCTTTAATCAACTCCA
39579851 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGGGAGATAAGAT
39579874 TCGCCATCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCATCAGCTTTAATCAACTCCA
Found at i:39579948 original size:44 final size:46
Alignment explanation
Indices: 39579802--39580614 Score: 130
Period size: 44 Copynumber: 18.7 Consensus size: 46
39579792 TTTTAATCAA
* * ** * * *
39579802 CTCCACTGCAACTTC-AGGGAGATAGGA-TCATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
* *
39579846 CTCCACTGCAACTTC-AGGGAGATAAGATTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
* *
39579891 C-CTCACTACAACTTCAAGAG-GATAAGAC-CTG-CTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAAGAGAGATAAGACTC-GCCAT-CTTCAGTCTG
* * *
39579935 CTCCACTGCAACTTC-AGGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAG-TCTG
* * * * * *
39579976 CT-CTCTACAACTTC-AGAGAGATAAGA-TC-CAAGAT-TTTAATCCG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGC--CATCTTCAGTCTG
* * * * **
39580019 CTCCACTGCAACTTC-AGGGAGATAGGATTATCGGC-T-TT-AACCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGA--CTCGCCATCTTCAGTCTG
** * ** **
39580063 CTCCACTATAACTTC-AGGGAGATAAGGTTTTCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
* * * *
39580108 CTTCACTACAACTTCAGGAG-GATAAGAACT-G-CTTACTT-AGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAG-ACTCGCCAT-CTTCAGTCTG
* * * *
39580152 TTCCACTGCAACTTC-AGGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAG-TCTG
* * * * *
39580193 CT-CTCTGCAACTTC-AGAGAGATAAGA-TC-CAAGAT-TTTAATCCG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGC--CATCTTCAGTCTG
* * * * **
39580236 CTCCATTGCAACTTC-AGAGAGATAGGATTATCGGC-T-TT-AACCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGA--CTCGCCATCTTCAGTCTG
* * * ** **
39580280 CTCCACAGTAACTTC-AGGGAGATAAGGTTTTCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
*
39580325 C-CTCACTGCAACTTC-AGCAG-GATAAGAC-CTG-CTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAAG-AGAGATAAGACTC-GCCAT-CTTCAGTCTG
* * *
39580369 CTCCACTGCAACTTC-AGGGAGATAAGACTAG--A--TGC-GATCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAG-TCTG
* * * * *
39580410 CT-CTCTGCAACTTC-AGAGAGATAAGA-TC-CAAGAT-TTTAATCCG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGC--CATCTTCAGTCTG
* * * * * * **
39580453 CTCCACTACAACTT-TAGGGAGATAGGATTATCGGC-T-TT-AACCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGA--CTCGCCATCTTCAGTCTG
* * ** *
39580497 CTTCACTGCAACTTC-AGGGAGATAAGGTTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
* **
39580542 CCCCACTGCAACTTCAAGAG-GATAAGAC-CTG-TTTACTT-AGTCTG
1 CTCCACTGCAACTTCAAGAGAGATAAGACTC-GCCAT-CTTCAGTCTG
*
39580586 CTCCACTGCAACTTC-AGGGAGATAAGACT
1 CTCCACTGCAACTTCAAGAGAGATAAGACT
39580615 AGATGCGATC
Statistics
Matches: 565, Mismatches: 129, Indels: 149
0.67 0.15 0.18
Matches are distributed among these distances:
39 3 0.01
40 71 0.13
41 17 0.03
42 10 0.02
43 33 0.06
44 290 0.51
45 125 0.22
46 10 0.02
47 6 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (46 bp):
CTCCACTGCAACTTCAAGAGAGATAAGACTCGCCATCTTCAGTCTG
Found at i:39580030 original size:84 final size:85
Alignment explanation
Indices: 39579837--39580042 Score: 233
Period size: 84 Copynumber: 2.4 Consensus size: 85
39579827 GATCATCAGC
* *
39579837 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-CATC-TCAGTCTGCCTCACTACAA
* *
39579902 CTTCAAGAGGATAAGACCTGCT
64 CTTCAAGAGGATAAGACCAGAT
* * *
39579924 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-GC-GATCTG-CTCTCTACA
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCTCAG-TCTGCCTCACTACA
39579985 ACTTC-AGAGAGATAAGATCCAAGAT
63 ACTTCAAGAG-GATAAGA-CC-AGAT
*
39580010 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
39580043 GGATTATCGG
Statistics
Matches: 104, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
83 4 0.04
84 51 0.49
85 7 0.07
86 3 0.03
87 3 0.03
89 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (85 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGCATCTCAGTCTGCCTCACTACAACT
TCAAGAGGATAAGACCAGAT
Found at i:39580100 original size:217 final size:217
Alignment explanation
Indices: 39579719--39580704 Score: 1607
Period size: 217 Copynumber: 4.5 Consensus size: 217
39579709 TTCGATCCAT
* * *
39579719 TCCACTGCAACATCAGGGAGATAAGACTAGATGCAATTTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
*** * ** * * *
39579784 ATCTGTGGTTTTAATCAACTCCACTGCAACTTCAGGGAGATAGGATCATCAGCTTTAATCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
* * *
39579849 CACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGAT
131 CACTACAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGAT
39579914 AAGACCTGCTTACTTAGTCTGC
196 AAGACCTGCTTACTTAGTCTGC
*
39579936 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
39580001 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
* * * *
39580066 CACTATAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCTTCACTACAACTTCAGGAGGAT
131 CACTACAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGAT
* *
39580131 AAGAACTGCTTACTTAGTCTGT
196 AAGACCTGCTTACTTAGTCTGC
39580153 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* *
39580218 ATCCAAGATTTTAATCCGCTCCATTGCAACTTCAGAGAGATAGGATTATCGGCTTTAACCTGCTC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
* * *
39580283 CAC-AGTAACTTCAGGGAGATAAGGTTTTCCATCTTCAGTCTGCCTCACTGCAACTTC-AGCAGG
131 CACTA-CAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAG-AGG
39580346 ATAAGACCTGCTTACTTAGTCTGC
194 ATAAGACCTGCTTACTTAGTCTGC
39580370 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* * *
39580435 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTT
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
* * *
39580500 CACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAAGAGGAT
131 CACTACAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGAT
*
39580565 AAGACCTGTTTACTTAGTCTGC
196 AAGACCTGCTTACTTAGTCTGC
39580587 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
* * *
39580652 ATCCAAGATTTTAATCCGCTCCACTACAACTTTAAGGAGATAGGATTATCGGC
66 ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
39580705 CACCGATCCG
Statistics
Matches: 724, Mismatches: 41, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
216 2 0.00
217 720 0.99
218 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCCAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTC
CACTACAACTTCAGGGAGATAAGGTTTGCCATCTTCAGTCTGCCTCACTACAACTTCAAGAGGAT
AAGACCTGCTTACTTAGTCTGC
Found at i:39592707 original size:23 final size:24
Alignment explanation
Indices: 39592677--39592726 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
39592667 TATATATATG
39592677 CATATATAGAT-AAAAAATAATTA
1 CATATATAGATAAAAAAATAATTA
*
39592700 CATATATATATAAAAAAATAATTA
1 CATATATAGATAAAAAAATAATTA
39592724 CAT
1 CAT
39592727 TATCAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
CATATATAGATAAAAAAATAATTA
Found at i:39604484 original size:27 final size:28
Alignment explanation
Indices: 39604434--39604487 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
39604424 CAATTATATC
39604434 GCATTATTTGTTATTCGGCAGTTTTACT
1 GCATTATTTGTTATTCGGCAGTTTTACT
**
39604462 GCATTA-TTGTTATTCGGTGGTTTTAC
1 GCATTATTTGTTATTCGGCAGTTTTAC
39604488 CACTTTGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (28 bp):
GCATTATTTGTTATTCGGCAGTTTTACT
Found at i:39611944 original size:14 final size:15
Alignment explanation
Indices: 39611919--39611947 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39611909 TATCTTTAAA
39611919 TGTGATTGTATGTAT
1 TGTGATTGTATGTAT
39611934 TGTGA-TGTATGTAT
1 TGTGATTGTATGTAT
39611948 GAAAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TGTGATTGTATGTAT
Found at i:39616403 original size:76 final size:76
Alignment explanation
Indices: 39616271--39616412 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
39616261 TTCGGCAGCC
* * *
39616271 ACAATTAACTTCAGCTGGACACCATTTAAGACATCATTAAATTCGATAGTAGCAAGACAAATTAA
1 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
39616336 ATGATGTAATG
66 ATGATGTAATG
* * *
39616347 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTTGGCAGCCA-CAAGACACATTA
1 ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAG-CAGCAAGACAAATTA
39616411 AA
65 AA
39616413 GTGGCTCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (76 bp):
ACAATTAAATTCAGCTGGACACCATTTAAGACATCATTAAATTCGACAGCAGCAAGACAAATTAA
ATGATGTAATG
Found at i:39618565 original size:24 final size:24
Alignment explanation
Indices: 39618521--39618575 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
39618511 GCCTGTGTCT
* * *
39618521 GCATTTGTATCTGAATCTGAATAC
1 GCATCTGTATCTGAATATGAACAC
*
39618545 GCATCTGTATCTGATTATGAACAC
1 GCATCTGTATCTGAATATGAACAC
*
39618569 ACATCTG
1 GCATCTG
39618576 ACTCTGTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (24 bp):
GCATCTGTATCTGAATATGAACAC
Found at i:39618642 original size:15 final size:16
Alignment explanation
Indices: 39618613--39618642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39618603 CTTGATGATA
39618613 ATTTATGAGTATAATT
1 ATTTATGAGTATAATT
39618629 ATTTATGA-TATAAT
1 ATTTATGAGTATAAT
39618643 GTTGTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (16 bp):
ATTTATGAGTATAATT
Found at i:39633747 original size:45 final size:45
Alignment explanation
Indices: 39633683--39633768 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
39633673 ACTAGAGTCA
39633683 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
1 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
*
39633728 AACTCTTGTTCCACGTCATTATCCGATTCAATTGCCATTTT
1 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTT
39633769 TTAACTATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (45 bp):
AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
Found at i:39636691 original size:9 final size:10
Alignment explanation
Indices: 39636664--39636688 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39636654 CGCCTTTTTC
39636664 TTCTTTCTTT
1 TTCTTTCTTT
39636674 TTCTTTCTTT
1 TTCTTTCTTT
39636684 TTCTT
1 TTCTT
39636689 CTTCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:39637907 original size:101 final size:100
Alignment explanation
Indices: 39637789--39637986 Score: 378
Period size: 101 Copynumber: 2.0 Consensus size: 100
39637779 ATCTAACAAA
*
39637789 AAATTATTAATTGTTTTATTCAATAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATA-TTTT
39637854 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
65 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
39637890 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
39637955 TATTTTTAATTCAAATGGTTTTCATTTAATTG
66 TATTTTTAATTCAAATGGTTTTCATTTAATTG
39637987 TATTTTTTTG
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 37 0.39
101 59 0.61
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (100 bp):
AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
TATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
Found at i:39638026 original size:100 final size:100
Alignment explanation
Indices: 39637813--39638026 Score: 272
Period size: 100 Copynumber: 2.1 Consensus size: 100
39637803 TTTATTCAAT
*
39637813 AGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
1 AGTATTTGTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
*** * *
39637878 ATTTAATTGAATAAATTATTAATTGTTTTATTCAAA
66 ATTTAATTG-ATAAATTATTAATAAATTGATACAAA
*
39637914 AGTATTTTTAATAAATAAATTTAATTGAATAGAATA-TTTTATATTTTTAATTCAAATGGTTTTC
1 AGTATTTGTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
** *
39637978 ATTTAATTG-TATTTTTTTGAATAAATTGA-ACAAA
66 ATTTAATTGATAAATTATT-AATAAATTGATACAAA
*
39638012 ATTAATATTGTAATA
1 AGT-AT-TTGTAATA
39638027 TTTTTAAGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
98 12 0.12
99 8 0.08
100 44 0.44
101 36 0.36
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (100 bp):
AGTATTTGTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
ATTTAATTGATAAATTATTAATAAATTGATACAAA
Found at i:39640402 original size:40 final size:40
Alignment explanation
Indices: 39640214--39640413 Score: 208
Period size: 40 Copynumber: 5.0 Consensus size: 40
39640204 CGAATACACG
* * * *
39640214 TCACCAGCATGATTGCTCTTCGGGACCTA-CCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
39640253 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * * *
39640293 TTACTAGCACGAATGCTCTTCGGAACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
39640333 TCACTAGCATGAATGCTCTTTGGGACTTAGTCCGGTTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39640373 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
39640412 TC
1 TC
39640414 GTTGAGACCT
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 26 0.19
40 109 0.81
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:39645592 original size:45 final size:45
Alignment explanation
Indices: 39645528--39645613 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
39645518 ACTAGAGTCA
39645528 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
1 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
*
39645573 AACTCTTGTTCCACGTCATTATCCGATTCAATTGCCATTTT
1 AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTT
39645614 TTAACTATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (45 bp):
AACTCTTATTCCACGTCATTATCCGATTCAATTGCCATTTTGTCG
Found at i:39648539 original size:9 final size:10
Alignment explanation
Indices: 39648512--39648536 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39648502 CGCCTTTTTC
39648512 TTCTTTCTTT
1 TTCTTTCTTT
39648522 TTCTTTCTTT
1 TTCTTTCTTT
39648532 TTCTT
1 TTCTT
39648537 CTTCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:39649754 original size:101 final size:100
Alignment explanation
Indices: 39649642--39649843 Score: 386
Period size: 101 Copynumber: 2.0 Consensus size: 100
39649632 ATCTAACAAA
*
39649642 AAATTATTAATTGTTTTATTCAATAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTT
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATA-TTTT
39649707 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
65 ATATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
39649743 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
1 AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
39649808 TATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
66 TATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
39649843 A
1 A
39649844 TTTTTTTGAA
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 41 0.41
101 59 0.59
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (100 bp):
AAATTATTAATTGTTTTATTCAAAAGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTA
TATTTTTAATTCAAATGGTTTTCATTTAATTGAAT
Found at i:39649867 original size:100 final size:101
Alignment explanation
Indices: 39649666--39649867 Score: 309
Period size: 100 Copynumber: 2.0 Consensus size: 101
39649656 TTTATTCAAT
39649666 AGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
1 AGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
*** * *
39649731 ATTTAATTGAATAAATTATTAATTGTTTTATTCAAA
66 ATTTAATTGAATAAATTATTAATAAATTGATACAAA
39649767 AGTATTTTTAATAAATAAATTTAATTGAATAGAATA-TTTTATATTTTTAATTCAAATGGTTTTC
1 AGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
** *
39649831 ATTTAATTGAATATTTTTTTGAATAAATTGA-ACAAA
66 ATTTAATTGAATAAATTATT-AATAAATTGATACAAA
39649867 A
1 A
39649868 TTAATATTGT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 50 0.54
101 42 0.46
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (101 bp):
AGTATTTTTAATAAATAAATTTAATTGAATAGAATATTTTTATATTTTTAATTCAAATGGTTTTC
ATTTAATTGAATAAATTATTAATAAATTGATACAAA
Found at i:39651426 original size:26 final size:26
Alignment explanation
Indices: 39651330--39651678 Score: 174
Period size: 26 Copynumber: 13.8 Consensus size: 26
39651320 TATTGTTTAT
* *
39651330 TTATTTATTTTAAAATCATTTCA-ATA
1 TTATTTATTTTAAACT-ATTTTATATA
*
39651356 TTACTTAATTTT-AACTATTTTAT-TA
1 TTA-TTTATTTTAAACTATTTTATATA
* * *
39651381 TTACTTATTTT-AAGTTTTTTCATATA
1 TTATTTATTTTAAACTATTTT-ATATA
39651407 TTA-TTATTTTAAACTATTTTATACT-
1 TTATTTATTTTAAACTATTTTATA-TA
* * * *
39651432 TTATTAATTTTAAATTGTTTTATATG
1 TTATTTATTTTAAACTATTTTATATA
* * * *
39651458 GTATTCATTTCAAACTGTTTTAT-T-
1 TTATTTATTTTAAACTATTTTATATA
* *
39651482 GTATATTATTTTAAACTATTATATATA
1 TTAT-TTATTTTAAACTATTTTATATA
* **
39651509 TTATTTATTTTAAATTGCTTTATATA
1 TTATTTATTTTAAACTATTTTATATA
** *
39651535 -TA--T-TTTCGAACTATTTTATATT
1 TTATTTATTTTAAACTATTTTATATA
* ** *
39651557 TTACTTATGATAAGA-T-TTTT-CATA
1 TTATTTATTTTAA-ACTATTTTATATA
** * * *
39651581 TGGTTTATTTTGAACCATTTTGTATA
1 TTATTTATTTTAAACTATTTTATATA
* ** * *
39651607 TTATTTATTTAAAAAAAAATTCATATA
1 TTATTTATTT-TAAACTATTTTATATA
39651634 TTATTTATTTTAAAC-ATTTT-TATA
1 TTATTTATTTTAAACTATTTTATATA
* *
39651658 TTATTTACTTTAAATTATTTT
1 TTATTTATTTTAAACTATTTT
39651679 TTACATATTA
Statistics
Matches: 242, Mismatches: 60, Indels: 43
0.70 0.17 0.12
Matches are distributed among these distances:
22 13 0.05
23 4 0.02
24 43 0.18
25 61 0.25
26 91 0.38
27 30 0.12
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TTATTTATTTTAAACTATTTTATATA
Found at i:39651442 original size:51 final size:52
Alignment explanation
Indices: 39651334--39651522 Score: 144
Period size: 51 Copynumber: 3.7 Consensus size: 52
39651324 GTTTATTTAT
* **
39651334 TTATTTTAAAATCATTTCA-ATATTACTTAATTTT-AACTATTTTATTATTAC
1 TTATTTTAAATTGTTTTCATATATTA-TTAATTTTAAACTATTTTATTATTAC
*
39651385 TTATTTTAAGTT-TTTTCATATATTATT-ATTTTAAACTATTTTA-TACTTTA-
1 TTATTTTAAATTGTTTTCATATATTATTAATTTTAAACTATTTTATTA--TTAC
** * * * *
39651435 TTAATTTTAAATTGTTTT-ATATGGTATTCATTTCAAACTGTTTTATTGTATA-
1 TT-ATTTTAAATTGTTTTCATATATTATTAATTTTAAACTATTTTATTAT-TAC
* * * *
39651487 TTATTTTAAACTATTAT-ATATATTATTTATTTTAAA
1 TTATTTTAAATTGTTTTCATATATTATTAATTTTAAA
39651523 TTGCTTTATA
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
49 7 0.06
50 19 0.17
51 64 0.57
52 22 0.19
53 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (52 bp):
TTATTTTAAATTGTTTTCATATATTATTAATTTTAAACTATTTTATTATTAC
Found at i:39653064 original size:27 final size:27
Alignment explanation
Indices: 39653034--39653123 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
39653024 GTTTATTTAT
39653034 TTATTTTAAAATCTTTTCATATATTAC
1 TTATTTTAAAATCTTTTCATATATTAC
* *
39653061 TTATTTTAAACTGTTTT-AT-TATTAC
1 TTATTTTAAAATCTTTTCATATATTAC
**
39653086 TTATTTTAAGTTTCTTTTTCATATATTA-
1 TTATTTTAA-AATC-TTTTCATATATTAC
39653114 TTATTTTAAA
1 TTATTTTAAA
39653124 CTATTTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.28
26 3 0.06
27 19 0.36
28 11 0.21
29 5 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTTTAAAATCTTTTCATATATTAC
Found at i:39653145 original size:26 final size:25
Alignment explanation
Indices: 39653034--39653265 Score: 145
Period size: 26 Copynumber: 9.1 Consensus size: 25
39653024 GTTTATTTAT
* *
39653034 TTATTTTAAAATCTTTTCATATATTA
1 TTATTTTAAACTATTTT-ATATATTA
*
39653060 CTTATTTTAAACTGTTTTAT-TATTA
1 -TTATTTTAAACTATTTTATATATTA
*
39653085 CTTATTTTAAGTTTCT-TTTTCATATATTA
1 -TTATTTTAA---ACTATTTT-ATATATTA
39653114 TTATTTTAAACTATTTTATACT-TTA
1 TTATTTTAAACTATTTTATA-TATTA
* * **
39653139 TTAATTTTAAATTGTTTTATATGGTA
1 TT-ATTTTAAACTATTTTATATATTA
* * *
39653165 TTCATTTCAAACTGTTTTAT-TGTATA
1 TT-ATTTTAAACTATTTTATATAT-TA
*
39653191 TTATTTTAAACTATTATATATATTA
1 TTATTTTAAACTATTTTATATATTA
* **
39653216 TTTATTTTAAATTGCTTTATATA-TA
1 -TTATTTTAAACTATTTTATATATTA
** *
39653241 -T-TTTCGAACTATTTTATATTTTA
1 TTATTTTAAACTATTTTATATATTA
39653264 TT
1 TT
39653266 TATGATAAGT
Statistics
Matches: 166, Mismatches: 25, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
22 13 0.08
23 3 0.02
24 1 0.01
25 46 0.28
26 66 0.40
27 19 0.11
28 13 0.08
29 5 0.03
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTTTAAACTATTTTATATATTA
Found at i:39653361 original size:26 final size:26
Alignment explanation
Indices: 39653332--39653393 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 26
39653322 AAAAAAAATC
*
39653332 ATATATTATTTATTTTAAAC-CTTTT
1 ATATATTATTTATTTTAAACTGTTTT
* * *
39653357 -TATATTATTTACTTTAAATTTTTTTT
1 ATATATTATTTATTTTAAA-CTGTTTT
*
39653383 ACATATTATTT
1 ATATATTATTT
39653394 TGTTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 17 0.57
26 4 0.13
27 9 0.30
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (26 bp):
ATATATTATTTATTTTAAACTGTTTT
Found at i:39655778 original size:25 final size:25
Alignment explanation
Indices: 39655742--39655795 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
39655732 AATAAATTAG
39655742 CATGCATGCTTCCTTGAATGCCGTT
1 CATGCATGCTTCCTTGAATGCCGTT
* * * *
39655767 CATGCATTCTTCTTTTAATGCTGTT
1 CATGCATGCTTCCTTGAATGCCGTT
39655792 CATG
1 CATG
39655796 TACCTGCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (25 bp):
CATGCATGCTTCCTTGAATGCCGTT
Found at i:39656013 original size:76 final size:76
Alignment explanation
Indices: 39655881--39656022 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
39655871 TTCGGCAACC
* * * * *
39655881 ACAATTAACTTCAGCTGGACACAATTTAAGACATCATTAAATTCGGTAGTAGCAAGACAAATTAA
1 ACAATTAAATTCAACTAGACACAATTTAAGACATCATTAAATTCGGCAGCAGCAAGACAAATTAA
39655946 ATGAAGTAATG
66 ATGAAGTAATG
* * * * *
39655957 ACAATTAAATTCAACTAGACACCATTTAAGACGTCATTAAATTTGGCGGCCA-CAAGACACATTA
1 ACAATTAAATTCAACTAGACACAATTTAAGACATCATTAAATTCGGCAG-CAGCAAGACAAATTA
39656021 AA
65 AA
39656023 GTGGCTCTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 54 0.98
77 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (76 bp):
ACAATTAAATTCAACTAGACACAATTTAAGACATCATTAAATTCGGCAGCAGCAAGACAAATTAA
ATGAAGTAATG
Found at i:39656870 original size:12 final size:11
Alignment explanation
Indices: 39656853--39656882 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
39656843 TATCTTGACC
39656853 TTTTCTTTTCAT
1 TTTTCTTTTC-T
39656865 TTTTCTTTTCT
1 TTTTCTTTTCT
39656876 TTTTCTT
1 TTTTCTT
39656883 GGTGCCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:39658135 original size:24 final size:24
Alignment explanation
Indices: 39658096--39658145 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
39658086 TGTCTTCATT
* * *
39658096 TGTATCTGAATCTGAATACGCATC
1 TGTATCTGAATATGAACACACATC
*
39658120 TGTATCTGATTATGAACACACATC
1 TGTATCTGAATATGAACACACATC
39658144 TG
1 TG
39658146 ACTCTGTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (24 bp):
TGTATCTGAATATGAACACACATC
Found at i:39659173 original size:23 final size:24
Alignment explanation
Indices: 39659124--39659173 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
39659114 TAAGAAACTC
* *
39659124 TTTACTTTAGTTACTTTAGTTATA
1 TTTACTTTAGTTACTTTAGTAAAA
39659148 TTTACTTTAG-TACTTTAGTAAAA
1 TTTACTTTAGTTACTTTAGTAAAA
39659171 TTT
1 TTT
39659174 TTGAGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTACTTTAGTTACTTTAGTAAAA
Found at i:39662053 original size:23 final size:23
Alignment explanation
Indices: 39662010--39662053 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39662000 GTCTATGTCT
* *
39662010 GCATTTGTATCTGAATCTGAATC
1 GCATCTGTATCTGAATATGAATC
*
39662033 GCATCTGTATCTGATTATGAA
1 GCATCTGTATCTGAATATGAA
39662054 CACACATCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (23 bp):
GCATCTGTATCTGAATATGAATC
Found at i:39662231 original size:22 final size:22
Alignment explanation
Indices: 39662150--39662232 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
39662140 TATGACATTT
*
39662150 TGATATG-ATATATGATAAGCTC
1 TGATATGTA-ATATGATATGCTC
** * * *
39662172 AAATATGTTACATGATATGCTT
1 TGATATGTAATATGATATGCTC
* * *
39662194 TGATTTGTTATGTGATATGCTC
1 TGATATGTAATATGATATGCTC
39662216 TGATATGTAATATGATA
1 TGATATGTAATATGATA
39662233 CGAAATTTTG
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (22 bp):
TGATATGTAATATGATATGCTC
Found at i:39666237 original size:31 final size:31
Alignment explanation
Indices: 39666199--39666302 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
39666189 CTCTTTTTGG
39666199 CCTAATTTGGTACATGAACTTGACATTTTAT
1 CCTAATTTGGTACATGAACTTGACATTTTAT
* * ** *
39666230 CCTAATTTGGTACCTAAACTT--TTTTTTAG
1 CCTAATTTGGTACATGAACTTGACATTTTAT
* * *
39666259 CCCAATTTGGTA-ACTGAACTAGACATTTTTT
1 CCTAATTTGGTACA-TGAACTTGACATTTTAT
**
39666290 ATTAATTTGGTAC
1 CCTAATTTGGTAC
39666303 CTAAATTTAT
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
29 21 0.40
31 32 0.60
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (31 bp):
CCTAATTTGGTACATGAACTTGACATTTTAT
Found at i:39666245 original size:59 final size:60
Alignment explanation
Indices: 39666173--39666307 Score: 184
Period size: 60 Copynumber: 2.3 Consensus size: 60
39666163 TTTTTTTTCT
* * * *
39666173 TAATTTGGTACCTAAAC-TCTTTTTGGCCTAATTTGGT-ACATGAACTTGACATTTTATCC
1 TAATTTGGTACCTAAACTTCTTTTTAGCCCAATTTGGTAAC-TGAACTAGACATTTTATAC
* * *
39666232 TAATTTGGTACCTAAACTTTTTTTTAGCCCAATTTGGTAACTGAACTAGACATTTTTTAT
1 TAATTTGGTACCTAAACTTCTTTTTAGCCCAATTTGGTAACTGAACTAGACATTTTATAC
39666292 TAATTTGGTACCTAAA
1 TAATTTGGTACCTAAA
39666308 TTTATTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 17 0.25
60 48 0.72
61 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (60 bp):
TAATTTGGTACCTAAACTTCTTTTTAGCCCAATTTGGTAACTGAACTAGACATTTTATAC
Found at i:39668300 original size:19 final size:18
Alignment explanation
Indices: 39668265--39668301 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
39668255 AATGAAGACT
39668265 TTGCATAAAAAGAAAAAA
1 TTGCATAAAAAGAAAAAA
*
39668283 TTGCATAAAAAGACAAAA
1 TTGCATAAAAAGAAAAAA
39668301 T
1 T
39668302 ACCAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (18 bp):
TTGCATAAAAAGAAAAAA
Found at i:39673675 original size:56 final size:55
Alignment explanation
Indices: 39673615--39673722 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 55
39673605 TTTAATCGTT
* * * *
39673615 CCTATCTGATAGGCGCGAATCAATATTTTATGTA-AATTTTTTTTCATTTAATTGCA
1 CCTATCTAACAGGCACGAATCAAT-TTTT-TGTATAAATTTTTTTCATTTAATTGCA
*
39673671 CCTATCTAACAGGCACGAATCAATTTTTTGTATTAAATTTTTTTCGTTTAAT
1 CCTATCTAACAGGCACGAATCAATTTTTTGTA-TAAATTTTTTTCATTTAAT
39673723 AAAATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
54 4 0.09
55 4 0.09
56 37 0.82
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (55 bp):
CCTATCTAACAGGCACGAATCAATTTTTTGTATAAATTTTTTTCATTTAATTGCA
Found at i:39673837 original size:27 final size:27
Alignment explanation
Indices: 39673807--39673911 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
39673797 GATAGGCGTT
* *
39673807 ACTAGTTGAGCCTATCTCAGAGGTGCG
1 ACTAGTTGAGCCTATCTCACAGGCGCG
39673834 ACTAGTTGAGCCTATCTCACAGGCGCG
1 ACTAGTTGAGCCTATCTCACAGGCGCG
* * * *
39673861 GCTAGTTCAGCCTATCTGACAGGCGTG
1 ACTAGTTGAGCCTATCTCACAGGCGCG
* * * *
39673888 AGTAGTTGTGCCTAACTCAAAGGC
1 ACTAGTTGAGCCTATCTCACAGGC
39673912 ACGAATGGTG
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (27 bp):
ACTAGTTGAGCCTATCTCACAGGCGCG
Found at i:39677456 original size:33 final size:33
Alignment explanation
Indices: 39677408--39677484 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
39677398 AGTGCGGCAA
* * *
39677408 TGGATACGGGTCGGAAGGGGCAGAGTACTAAGG
1 TGGATACGAGCCGGAAGGAGCAGAGTACTAAGG
** *
39677441 TGGATACGAGCCGGAAGGAGTGGAGTACTGAGG
1 TGGATACGAGCCGGAAGGAGCAGAGTACTAAGG
39677474 TGGATACGAGC
1 TGGATACGAGC
39677485 TAGGATGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.44, T:0.16
Consensus pattern (33 bp):
TGGATACGAGCCGGAAGGAGCAGAGTACTAAGG
Found at i:39677498 original size:33 final size:33
Alignment explanation
Indices: 39677430--39677509 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
39677420 GGAAGGGGCA
* * *
39677430 GAGTACTAAGGTGGATACGAGCCGGAAGGAGTG
1 GAGTACTGAGGTGGATACGAGCAGGAAGGACTG
*
39677463 GAGTACTGAGGTGGATACGAGCTAGG-ATGACTG
1 GAGTACTGAGGTGGATACGAGC-AGGAAGGACTG
39677496 GAGTACTGAGGTGG
1 GAGTACTGAGGTGG
39677510 TAGTGGGCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 40 0.95
34 2 0.05
ACGTcount: A:0.28, C:0.11, G:0.42, T:0.19
Consensus pattern (33 bp):
GAGTACTGAGGTGGATACGAGCAGGAAGGACTG
Found at i:39681538 original size:21 final size:19
Alignment explanation
Indices: 39681514--39681553 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
39681504 TTTAATCAAC
*
39681514 ATTTTAATAAATCAATAAAAA
1 ATTTAAATAAAT-AA-AAAAA
39681535 ATTTAAATAAATAAAAAAA
1 ATTTAAATAAATAAAAAAA
39681554 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTTAAATAAATAAAAAAA
Found at i:39681547 original size:17 final size:17
Alignment explanation
Indices: 39681521--39681562 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
39681511 AACATTTTAA
* *
39681521 TAAATCAATAAAAAATT
1 TAAATAAATAAAAAAAT
39681538 TAAATAAATAAAAAAAT
1 TAAATAAATAAAAAAAT
*
39681555 AAAATAAA
1 TAAATAAA
39681563 ATTACATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAATAAAAAAAT
Found at i:39681769 original size:60 final size:60
Alignment explanation
Indices: 39681696--39681814 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
39681686 ATACTAAACT
* * *
39681696 AAACACAACAATTTATAACTTAATCATAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCATAAATTACTAACAAATTAATTTTAAAATAATTAC
*
39681756 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCATAAATTACTAACAAATTAATTTTAAAATAATTA
39681815 TAAAAAGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCATAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:39681988 original size:4 final size:4
Alignment explanation
Indices: 39681975--39682048 Score: 66
Period size: 4 Copynumber: 18.8 Consensus size: 4
39681965 AATACATTAC
*
39681975 CTTT -TTT CTTT CTTT CTTT CTTT CTTT C-TT C-TT C-TT CTTT TTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
39682019 CTTCT CCTTT CTCT CTTTT CTTT CTGT CTT
1 CTT-T -CTTT CTTT C-TTT CTTT CTTT CTT
39682049 CCGGTGGTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
3 12 0.20
4 39 0.66
5 5 0.08
6 3 0.05
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:39682020 original size:14 final size:14
Alignment explanation
Indices: 39681980--39682049 Score: 72
Period size: 14 Copynumber: 5.0 Consensus size: 14
39681970 ATTACCTTTT
39681980 TTCTTTCTTTCTTTC
1 TTCTTTCTTTC-TTC
39681995 TTTCTTTC-TTCTTC
1 -TTCTTTCTTTCTTC
*
39682009 TTCTTTTTTTCTTC
1 TTCTTTCTTTCTTC
* *
39682023 TCCTTTCTCTCTT-
1 TTCTTTCTTTCTTC
*
39682036 TTCTTTCTGTCTTC
1 TTCTTTCTTTCTTC
39682050 CGGTGGTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.37
14 19 0.41
15 3 0.07
16 7 0.15
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:39682100 original size:20 final size:20
Alignment explanation
Indices: 39682075--39682118 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
39682065 TTTTTCTTCC
* *
39682075 CATTGAAGGGACAGCAGCAG
1 CATTGAAGGGACAACAACAG
39682095 CATTGAAGGGACAACAACAG
1 CATTGAAGGGACAACAACAG
39682115 CATT
1 CATT
39682119 AATGGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (20 bp):
CATTGAAGGGACAACAACAG
Found at i:39683129 original size:23 final size:23
Alignment explanation
Indices: 39683099--39683142 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
39683089 TCAGAGCTTA
39683099 GGTTATTTAACACTCGAACCTTT
1 GGTTATTTAACACTCGAACCTTT
*
39683122 GGTTATTTAACACTCGGACCT
1 GGTTATTTAACACTCGAACCT
39683143 AAGTTGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (23 bp):
GGTTATTTAACACTCGAACCTTT
Found at i:39698892 original size:28 final size:28
Alignment explanation
Indices: 39698852--39698912 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
39698842 CCTTTTTGGC
*
39698852 TTCTTGTTCCTTAGGTTGCCATTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
* * *
39698880 TTCTTGTTCCTTATGCTGTCGTTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
39698908 TTCTT
1 TTCTT
39698913 TCCTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.13, T:0.54
Consensus pattern (28 bp):
TTCTTGTTCCTTAGGCTGCCATTTCAAT
Found at i:39712096 original size:17 final size:17
Alignment explanation
Indices: 39712074--39712116 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
39712064 CACGGCCTAG
*
39712074 CCACATGGTCATGTGGT
1 CCACATGGTCATGTGGC
* **
39712091 CCACATAGTTGTGTGGC
1 CCACATGGTCATGTGGC
39712108 CCACATGGT
1 CCACATGGT
39712117 TTGACTCATG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (17 bp):
CCACATGGTCATGTGGC
Found at i:39712298 original size:16 final size:16
Alignment explanation
Indices: 39712274--39712318 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
39712264 ATTTCTTACT
*
39712274 TTTACTTTTACTTTTA
1 TTTATTTTTACTTTTA
39712290 TTTATTTTTACTTTTTA
1 TTTATTTTTAC-TTTTA
*
39712307 TTT-TTTTGACTT
1 TTTATTTTTACTT
39712319 ATATGTTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 8 0.31
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTTTACTTTTA
Found at i:39716116 original size:14 final size:14
Alignment explanation
Indices: 39716028--39716119 Score: 103
Period size: 14 Copynumber: 6.4 Consensus size: 14
39716018 ATACACTATA
39716028 AGCTCGCACATTAGGT
1 AGCTCGCACA--AGGT
*
39716044 AGCTCGTACAAGAGT
1 AGCTCGCACAAG-GT
* *
39716059 AACTCGCACAAGGA
1 AGCTCGCACAAGGT
39716073 AGCTCGCACAAGGT
1 AGCTCGCACAAGGT
*
39716087 AGTTCGCACAAGGT
1 AGCTCGCACAAGGT
* *
39716101 AGCTCACACAAAGT
1 AGCTCGCACAAGGT
39716115 AGCTC
1 AGCTC
39716120 CAACAATGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
14 44 0.68
15 12 0.18
16 9 0.14
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (14 bp):
AGCTCGCACAAGGT
Found at i:39716693 original size:27 final size:28
Alignment explanation
Indices: 39716654--39716711 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
39716644 TCCCCTTTTC
*
39716654 TTTCTCTATTTTTTATTGTCTTTC-TTT
1 TTTCTCTATTTTTGATTGTCTTTCATTT
* *
39716681 TTTCTCT-TCTTTTGCTTTTCTTTCATTT
1 TTTCTCTAT-TTTTGATTGTCTTTCATTT
39716709 TTT
1 TTT
39716712 TCCTTTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.73
28 6 0.23
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTCTCTATTTTTGATTGTCTTTCATTT
Found at i:39716717 original size:19 final size:19
Alignment explanation
Indices: 39716677--39716735 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 19
39716667 TATTGTCTTT
* * *
39716677 CTTTT-TTCTCTTCTTTTG
1 CTTTTCTTCTATTTTTTTC
39716695 CTTTTCTT-TCATTTTTTTC
1 CTTTTCTTCT-ATTTTTTTC
39716714 C-TTTCTTCTATTTTTCTTC
1 CTTTTCTTCTATTTTT-TTC
39716733 CTT
1 CTT
39716736 GATCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 18 0.55
19 14 0.42
20 1 0.03
ACGTcount: A:0.03, C:0.24, G:0.02, T:0.71
Consensus pattern (19 bp):
CTTTTCTTCTATTTTTTTC
Found at i:39716778 original size:22 final size:21
Alignment explanation
Indices: 39716753--39716796 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
39716743 TTTTCCTTTT
*
39716753 TGCTTCCAATTTTCAGCAACCA
1 TGCTGCCAATTTTCAGC-ACCA
*
39716775 TGCTGCCAATTTTTAGCACCA
1 TGCTGCCAATTTTCAGCACCA
39716796 T
1 T
39716797 AATCTCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (21 bp):
TGCTGCCAATTTTCAGCACCA
Found at i:39717469 original size:13 final size:13
Alignment explanation
Indices: 39717451--39717476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39717441 CTAAACCTTG
39717451 TGTGTGATTGTAT
1 TGTGTGATTGTAT
39717464 TGTGTGATTGTAT
1 TGTGTGATTGTAT
39717477 AATGATCTAT
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:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
TGTGTGATTGTAT
Found at i:39730247 original size:28 final size:28
Alignment explanation
Indices: 39730215--39730285 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
39730205 AACAGTACAG
* *
39730215 TGTGGGCCTTAGCTCAATACAGCAATAA
1 TGTGGGCCTTAGCCCAATACAGCAACAA
*
39730243 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGCAACAA
* *
39730271 TGTAGCCCTTAGCCC
1 TGTGGGCCTTAGCCC
39730286 TAAATAGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGCAACAA
Found at i:39730466 original size:26 final size:26
Alignment explanation
Indices: 39730444--39730508 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
39730434 AGTAAAGCTA
39730444 CCAGTAACAGTATCGCAACAAAGTTG
1 CCAGTAACAGTATCGCAACAAAGTTG
* * *
39730470 CTAGCAACAGTATCGCAGCAAAGTTG
1 CCAGTAACAGTATCGCAACAAAGTTG
39730496 CCAGTAACAGTAT
1 CCAGTAACAGTAT
39730509 ACTTCCTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
CCAGTAACAGTATCGCAACAAAGTTG
Found at i:39730685 original size:27 final size:27
Alignment explanation
Indices: 39730654--39730849 Score: 131
Period size: 27 Copynumber: 7.3 Consensus size: 27
39730644 GGGGTATAAT
39730654 AGTCATTTTACCTTATGAGGGTATTTC
1 AGTCATTTTACCTTATGAGGGTATTTC
* * * *
39730681 GGTCATTTCACCCTT-CGA-GGTATTTT
1 AGTCATTTTA-CCTTATGAGGGTATTTC
*
39730707 AGTCATTTTACCCTATGA-GGTAATTT-
1 AGTCATTTTACCTTATGAGGGT-ATTTC
* *
39730733 GGTCATTTCT-CC-CATCGAGGGTATTTC
1 AGTCATTT-TACCTTAT-GAGGGTATTTC
* * * *
39730760 GGTTATTTCACCCTT-TGGGGGTATTTC
1 AGTCATTTTA-CCTTATGAGGGTATTTC
* *
39730787 AGTCATTTTACCCTGT-AGGAGTATTTC
1 AGTCATTTTACCTTATGAGG-GTATTTC
*
39730814 AGTCATTTTACC-TATCGGGGGTATTTC
1 AGTCATTTTACCTTAT-GAGGGTATTTC
*
39730841 AATCATTTT
1 AGTCATTTT
39730850 CCCACAAATC
Statistics
Matches: 133, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
25 5 0.04
26 42 0.32
27 77 0.58
28 9 0.07
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCTTATGAGGGTATTTC
Found at i:39730710 original size:53 final size:53
Alignment explanation
Indices: 39730654--39730840 Score: 177
Period size: 53 Copynumber: 3.5 Consensus size: 53
39730644 GGGGTATAAT
*
39730654 AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTCGAGGTATTTT
1 AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTCGAGGTATTTC
* * *
39730707 AGTCATTTTACCCTATGA-GGTAATTT-GGTCATTTCTCCCATCGAGGGTATTTC
1 AGTCATTTTACCTTATGAGGGT-ATTTCGGTCATTTCACCCTTCGA-GGTATTTC
* * * * * * *
39730760 GGTTATTTCACCCTT-TGGGGGTATTTCAGTCATTTTACCCTGTAG-GAGTATTTC
1 AGTCATTTTA-CCTTATGAGGGTATTTCGGTCATTTCACCCT-TCGAG-GTATTTC
*
39730814 AGTCATTTTACC-TATCGGGGGTATTTC
1 AGTCATTTTACCTTAT-GAGGGTATTTC
39730841 AATCATTTTC
Statistics
Matches: 108, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
52 20 0.19
53 45 0.42
54 41 0.38
55 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (53 bp):
AGTCATTTTACCTTATGAGGGTATTTCGGTCATTTCACCCTTCGAGGTATTTC
Found at i:39730711 original size:26 final size:26
Alignment explanation
Indices: 39730673--39730800 Score: 116
Period size: 26 Copynumber: 4.8 Consensus size: 26
39730663 ACCTTATGAG
39730673 GGTATTTCGGTCATTTCACCCTTCGA
1 GGTATTTCGGTCATTTCACCCTTCGA
** *
39730699 GGTATTTTAGTCATTTTACCCTAT-GA
1 GGTATTTCGGTCATTTCACCCT-TCGA
* *
39730725 GGTAATTT-GGTCATTTCTCCCATCGA
1 GGT-ATTTCGGTCATTTCACCCTTCGA
* * *
39730751 GGGTATTTCGGTTATTTCACCCTTTGGG
1 -GGTATTTCGGTCATTTCACCC-TTCGA
* *
39730779 GGTATTTCAGTCATTTTACCCT
1 GGTATTTCGGTCATTTCACCCT
39730801 GTAGGAGTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
25 1 0.01
26 41 0.51
27 37 0.46
28 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTCGGTCATTTCACCCTTCGA
Found at i:39735229 original size:19 final size:19
Alignment explanation
Indices: 39735205--39735246 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
39735195 ACCTAAAATT
*
39735205 ATTAATTCT-AATTTTTTTA
1 ATTAATTCTGAA-TTATTTA
39735224 ATTAATTCTGAATTATTTA
1 ATTAATTCTGAATTATTTA
39735243 ATTA
1 ATTA
39735247 TCTAACCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTAATTCTGAATTATTTA
Found at i:39737969 original size:76 final size:76
Alignment explanation
Indices: 39737762--39737977 Score: 218
Period size: 76 Copynumber: 2.8 Consensus size: 76
39737752 TATTTCAATC
* * * * * * ** * * *
39737762 TGTCATCCTGGATTACCTAGCAACGATGACCTACCACCCCGAATTTCCAGACAACGATGGTTTAT
1 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATCACTAGACAATGATGGTTCAT
*
39737827 CGAATCAAATC
66 CGAATCAAATA
* * * * * * * *
39737838 TTTCATCCTGGGTTGCCCAGAAATAATAGCCTACCACATCGAATTGA-TCGACAATGATGGTTCA
1 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAA-TCACTAGACAATGATGGTTCA
39737902 TCGAATCAAATA
65 TCGAATCAAATA
* *
39737914 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGGATCACTAGGCAATGATGGTTCA
1 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATCACTAGACAATGATGGTTCA
39737978 CAAAATAATA
Statistics
Matches: 110, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
75 2 0.02
76 107 0.97
77 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (76 bp):
TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATCACTAGACAATGATGGTTCAT
CGAATCAAATA
Found at i:39738767 original size:19 final size:19
Alignment explanation
Indices: 39738745--39738782 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
39738735 TCAATCATCC
39738745 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
39738764 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
39738783 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:39742068 original size:15 final size:16
Alignment explanation
Indices: 39742044--39742082 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
39742034 TCATTCAATG
*
39742044 AATATCTTTTT-CATA
1 AATATTTTTTTACATA
39742059 AATATTTTTTTACATA
1 AATATTTTTTTACATA
*
39742075 AAGATTTT
1 AATATTTT
39742083 AGTTTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
AATATTTTTTTACATA
Found at i:39742665 original size:19 final size:19
Alignment explanation
Indices: 39742624--39742664 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
39742614 TTTTGAGCAA
*
39742624 TTTAATTTTTTTATCTTCT
1 TTTAATTTCTTTATCTTCT
*
39742643 TTTAACTTTCTTTATTTTCT
1 TTTAA-TTTCTTTATCTTCT
39742663 TT
1 TT
39742665 ATTTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATTTCTTTATCTTCT
Found at i:39750211 original size:14 final size:15
Alignment explanation
Indices: 39750192--39750224 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
39750182 AAGGTTAAAG
39750192 AAAAA-CACTTTTCA
1 AAAAACCACTTTTCA
*
39750206 AAAAACCATTTTTCA
1 AAAAACCACTTTTCA
39750221 AAAA
1 AAAA
39750225 TAAACTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAACCACTTTTCA
Found at i:39763675 original size:13 final size:13
Alignment explanation
Indices: 39763659--39763722 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
39763649 TTTAAACCAA
*
39763659 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
39763672 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
39763685 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
39763698 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
39763711 ACTTTTCAAAAG
1 ACTTTTCAAAAG
39763723 TAATGAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Done.