Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 62 of 173
Found at i:17797492 original size:27 final size:27
Alignment explanation
Indices: 17797462--17797513 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
17797452 CTCAACTCTT
* * *
17797462 CAAAACATATTTGTGAGCTTGGCTCGC
1 CAAAACATATATGTAAGCTTAGCTCGC
17797489 CAAAACATATATGTAAGCTTAGCTC
1 CAAAACATATATGTAAGCTTAGCTC
17797514 ACCAGAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (27 bp):
CAAAACATATATGTAAGCTTAGCTCGC
Found at i:17806374 original size:27 final size:27
Alignment explanation
Indices: 17806332--17806391 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
17806322 CTATTCTGAC
* *
17806332 GGACTACCCCGCGTTT-TGTGTCTTAGT
1 GGACTACCCCGCGTTTAT-TGTCCTAGA
* *
17806359 GGACTACCCTGGGTTTATTGTCCTAGA
1 GGACTACCCCGCGTTTATTGTCCTAGA
17806386 GGACTA
1 GGACTA
17806392 ACTCGTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (27 bp):
GGACTACCCCGCGTTTATTGTCCTAGA
Found at i:17808328 original size:18 final size:18
Alignment explanation
Indices: 17808307--17808343 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17808297 AAGAGTGAAA
17808307 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
17808325 AATAAGGGATAACATAGT
1 AATAAGGGATAACATAGT
17808343 A
1 A
17808344 TCATAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (18 bp):
AATAAGGGATAACATAGT
Found at i:17812999 original size:11 final size:11
Alignment explanation
Indices: 17812949--17812999 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
17812939 ATAAAAGTTC
17812949 TAAAATA-AAT
1 TAAAATAGAAT
17812959 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
17812972 TCAAAATAGACT
1 T-AAAATAGAAT
*
17812984 CAAAATAGAAT
1 TAAAATAGAAT
17812995 TAAAA
1 TAAAA
17813000 GAACCATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 16 0.48
12 3 0.09
13 7 0.21
14 3 0.09
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:17813089 original size:3 final size:3
Alignment explanation
Indices: 17813081--17813119 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
17813071 AAAGATAAAC
17813081 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17813120 CATATACTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17814758 original size:100 final size:100
Alignment explanation
Indices: 17814634--17814999 Score: 473
Period size: 100 Copynumber: 3.7 Consensus size: 100
17814624 TAACTCGCAA
** * * * * * *
17814634 CTTTAAT-CTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
1 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCC
* * * *
17814698 ACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
65 ACTGCATCGCCAGGGAGGTAAGATTTGCTGTTGTAG
* * *
17814734 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGACTTTAATCTGTTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
* * ** * *
17814799 CTGCATCGTCAGGGAGGTAATATTCACTGCTGTGG
66 CTGCATCGCCAGGGAGGTAAGATTTGCTGTTGTAG
*
17814834 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
*
17814899 CTGCATCGCCAGGGTGGTAAGATTTGCTGTTGTAG
66 CTGCATCGCCAGGGAGGTAAGATTTGCTGTTGTAG
* * **
17814934 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
17814999 C
66 C
17815000 GATGTGGCTT
Statistics
Matches: 232, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 230 0.99
101 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (100 bp):
CTTTAATCCTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
CTGCATCGCCAGGGAGGTAAGATTTGCTGTTGTAG
Found at i:17814764 original size:50 final size:50
Alignment explanation
Indices: 17814634--17814993 Score: 269
Period size: 50 Copynumber: 7.2 Consensus size: 50
17814624 TAACTCGCAA
** * * * *
17814634 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * ** * * ** *
17814684 CTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* *
17814734 CTTTAATCCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGT-G
1 CTTTAAT-CTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
** * * * * *
17814783 ACTTTAATCTGTTCCACTGC-ATCGTCAGGGAGGTAATATTCACTGCTGTGG
1 -CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGATGTAG
* * *
17814834 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
* ** * * ** ** *
17814884 CTTTAATCTGCTCCACTGC-ATCGCCAGGGTGGTAAGATTTGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAAT-GTCGGGGAAGTAAGATTCACTGATGTAG
* * * *
17814934 CTTTAATCTTTTTAACTGCAGTGTCGGGGAAGTGAGATTCACTGATGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
17814984 CTTTAATCTG
1 CTTTAATCTG
17814994 CTCCACGATG
Statistics
Matches: 232, Mismatches: 70, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
49 7 0.03
50 219 0.94
51 6 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (50 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCACTGATGTAG
Found at i:17814990 original size:200 final size:200
Alignment explanation
Indices: 17814634--17814999 Score: 543
Period size: 200 Copynumber: 1.8 Consensus size: 200
17814624 TAACTCGCAA
** * * *
17814634 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
*
17814699 CTACACCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
*
17814764 AGCAAGATTCACCGATGTGACTTTAATCTGTTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
131 AGCAAGATTCACCGATGTGACTTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
17814829 TGTGG
196 TGTGG
* * * *
17814834 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
* * ** * *
17814899 CTGCATCGCCAGGGTGGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAGTGTCGGGGA
66 CTACACCGCCAGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
** * *
17814964 AGTGAGATTCACTGATGTGGCTTTAATCTGCTCCAC
131 AGCAAGATTCACCGATGTGACTTTAATCTGCTCCAC
17815000 GATGTGGCTT
Statistics
Matches: 145, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
200 145 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (200 bp):
CTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACTGATGTAGCTTCAATCTGCTCCA
CTACACCGCCAGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCCTTTTAACTGCAATGTCGGGGA
AGCAAGATTCACCGATGTGACTTTAATCTGCTCCACTGCATCGTCAGGGAGGTAATATTCACTGC
TGTGG
Found at i:17815007 original size:23 final size:23
Alignment explanation
Indices: 17814977--17815022 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17814967 GAGATTCACT
17814977 GATGTGGCTTTAATCTGCTCCAC
1 GATGTGGCTTTAATCTGCTCCAC
* *
17815000 GATGTGGCTTTAATTTTCTCCAC
1 GATGTGGCTTTAATCTGCTCCAC
17815023 TGCATCACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (23 bp):
GATGTGGCTTTAATCTGCTCCAC
Found at i:17815213 original size:44 final size:44
Alignment explanation
Indices: 17815165--17815376 Score: 160
Period size: 44 Copynumber: 4.6 Consensus size: 44
17815155 TCAATTTCAA
* * *
17815165 GGAGATAGGATTACTAGCTTTAATCTGCTCCTCTGTAATCTTAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCTCTGTAATCTCAG
* *
17815209 GGAGATAAGATTTCTGGCTTCAATCTGATGCATCTACTCTACTGTAA-CTTCAG
1 GGAGATAAGATTACTAGCTTCAATC---TG---CT-C-CT-CTGTAATC-TCAG
* * * * * *
17815262 AGAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAATCTCAG
1 GGAGATAAGAT--TACTAGCTTCAATCTGCTCCTCTGTAATCTCAG
* *
17815306 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAG
1 GGAGATAAGATTACTAGCTTCAATCTGCTCCTCTGTAATCTCAG
* *
17815350 GGAGATAAGATTTCTGGCTTCAATCTG
1 GGAGATAAGATTACTAGCTTCAATCTG
17815377 TGGCTTAAAT
Statistics
Matches: 131, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 87 0.66
45 2 0.02
46 1 0.01
47 4 0.03
50 3 0.02
51 1 0.01
52 3 0.02
53 25 0.19
54 1 0.01
55 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
GGAGATAAGATTACTAGCTTCAATCTGCTCCTCTGTAATCTCAG
Found at i:17815272 original size:141 final size:142
Alignment explanation
Indices: 17815092--17815376 Score: 493
Period size: 141 Copynumber: 2.0 Consensus size: 142
17815082 AGATAAGACA
*
17815092 TGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT-T
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* * * *
17815156 CAATTTCAAGGAGATAGGATTACTAGCTTTAATCTGCTCCTCTGTAATCTTAGGGAGATAAGATT
66 -AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
17815221 TCTGGCTTCAATC
130 TCTGGCTTCAATC
17815234 TGATGC-ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
17815298 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
17815363 CTGGCTTCAATC
131 CTGGCTTCAATC
17815375 TG
1 TG
17815377 TGGCTTAAAT
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
141 129 0.95
142 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATC
Found at i:17817700 original size:15 final size:15
Alignment explanation
Indices: 17817676--17817712 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17817666 TTTTTCTCTC
*
17817676 ATTTTTATTTTGATT
1 ATTTTGATTTTGATT
17817691 ATTTTGATTTTGATT
1 ATTTTGATTTTGATT
*
17817706 TTTTTGA
1 ATTTTGA
17817713 AAGGATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (15 bp):
ATTTTGATTTTGATT
Found at i:17822563 original size:3 final size:3
Alignment explanation
Indices: 17822555--17822608 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
17822545 AAAGATAAAC
17822555 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17822603 ATA ATA
1 ATA ATA
17822609 CATATACTCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17826252 original size:79 final size:78
Alignment explanation
Indices: 17826121--17826337 Score: 253
Period size: 79 Copynumber: 2.7 Consensus size: 78
17826111 TGATGTCGGG
* * * *
17826121 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCGGACTAAGATCCGAAGGCATTTGTGCG
1 CTAAGTCCCGAAGGCATTTGTGCGAA-T-ACTATAACCGGGCTAAG-TCCGAAGGCATTTGTGCG
17826184 AGATACTAAATCCGGA
63 AGATACTAAATCCGGA
*
17826200 CTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGTCCGAAGGCATTTGTGCG
1 CTAAG-TCCCGAAGGCATTTGTGCGA-ATACTATA-ACCGGGCTAAGTCCGAAGGCATTTGTGCG
* *
17826263 AGTTACTAAATCCGGG
63 AGATACTAAATCCGGA
* * *
17826279 TTAAGTCCCGAAGGCATTTGTGCGATTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTGTGCGAATACTATAACCGGGCTAAGT-CCGAAGGCATTTG
17826338 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
78 16 0.13
79 84 0.71
80 18 0.15
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CTAAGTCCCGAAGGCATTTGTGCGAATACTATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGA
TACTAAATCCGGA
Found at i:17826260 original size:39 final size:39
Alignment explanation
Indices: 17826117--17826337 Score: 245
Period size: 39 Copynumber: 5.6 Consensus size: 39
17826107 TGAATGATGT
* * *
17826117 CGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT-
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAATC
*
17826156 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAATC
* *
17826196 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAATC
*
17826236 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAATC
* *
17826275 CGGGTTAAGTCCCGAAGGCATTTGTGCGA-TTACTATAA-C
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTA-AATC
*
17826314 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
17826338 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 87 0.53
40 77 0.47
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAATC
Found at i:17826355 original size:79 final size:78
Alignment explanation
Indices: 17826160--17826370 Score: 207
Period size: 79 Copynumber: 2.7 Consensus size: 78
17826150 CCATATCGGA
** *
17826160 CTAAGATCCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGC
1 CTAAG-TCCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGC
*
17826223 GAGATACTAATTCCGGG
62 GAGATACTAATACCGGG
** * *
17826240 CTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-
1 CTAAGTCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAG
*
17826304 TTACT-ATAACCGGG
65 ATACTAAT-ACCGGG
* * *
17826318 CTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CTAAGT-CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
17826371 TACGTGATTT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
77 2 0.02
78 31 0.27
79 74 0.65
80 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
CTAAGTCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGA
TACTAATACCGGG
Found at i:17834103 original size:77 final size:80
Alignment explanation
Indices: 17833966--17834188 Score: 255
Period size: 77 Copynumber: 2.8 Consensus size: 80
17833956 TTGAATGATG
* * * *
17833966 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAG-TCCCGAAGGCA
17834028 TTTGTGCGAGATACT-AA
63 TTTGTGCGAGATACTAAA
17834045 TCCGGACTAAGAT-CCGAAGGCA-TT-TGCGAGATACTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
17834106 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * *
17834123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGTCCCGAAGGCATTT
17834188 G
66 G
17834189 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
76 2 0.02
77 37 0.30
78 25 0.20
79 23 0.19
80 36 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:17834152 original size:40 final size:40
Alignment explanation
Indices: 17833966--17834188 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
17833956 TTGAATGATG
* * * *
17833966 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
17834006 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
17834045 TCCGGACTAAGAT-CCGAAGGCA-TT-TGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
17834083 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17834123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17834164 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17834189 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
37 12 0.07
38 22 0.13
39 25 0.15
40 94 0.58
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17835713 original size:15 final size:15
Alignment explanation
Indices: 17835693--17835721 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17835683 GTATTGTTGC
17835693 TTGATAACATGGTGA
1 TTGATAACATGGTGA
17835708 TTGATAACATGGTG
1 TTGATAACATGGTG
17835722 TGTGAGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:17838127 original size:23 final size:22
Alignment explanation
Indices: 17838084--17838127 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17838074 TTCTAAGTCG
17838084 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17838107 ATATTCACTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17838128 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17838244 original size:45 final size:45
Alignment explanation
Indices: 17838175--17838260 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
17838165 AGATACTCGG
* * *
17838175 TGGATTCAGCACATAGTAACCACCTTATTAATCAATGATGTCCGA
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGA
*
17838220 TGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
17838261 TCGGTTCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGA
Found at i:17838437 original size:50 final size:51
Alignment explanation
Indices: 17838316--17838450 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 51
17838306 TACCATCCAA
* * *
17838316 TACACGTAGTAGCCTGCACATAGTACTACACACGTAATCGAAACTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCCAAACTATCCGG
* * * * * * *
17838367 TACGCATAGTAGCCTACACATAGTGCTACACATGCGACCC-ATC-ATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCCAAACTA-TCCGG
*
17838417 TACACGTAGTAGCCTGCACATAGTAATACACACG
1 TACACGTAGTAGCCTGCACATAGTACTACACACG
17838451 TTACCATCAC
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
49 1 0.01
50 35 0.52
51 31 0.46
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGCAACCCAAACTATCCGG
Found at i:17848792 original size:12 final size:12
Alignment explanation
Indices: 17848758--17848795 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
17848748 GAAATAAATC
*
17848758 AAAATTTATGAA
1 AAAATTTATTAA
17848770 AAAATTTATTAA
1 AAAATTTATTAA
*
17848782 AAAATTAATTAA
1 AAAATTTATTAA
17848794 AA
1 AA
17848796 CTCAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATTTATTAA
Found at i:17852466 original size:16 final size:15
Alignment explanation
Indices: 17852441--17852474 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17852431 GAAGTTGATA
*
17852441 ATAATTAATATACATT
1 ATAATAAATATA-ATT
17852457 ATAATAAATATAATT
1 ATAATAAATATAATT
17852472 ATA
1 ATA
17852475 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:17860704 original size:17 final size:17
Alignment explanation
Indices: 17860678--17860710 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17860668 TTTCGGAACA
17860678 AAATAAAAATAAAATAC
1 AAATAAAAATAAAATAC
*
17860695 AAATACAAATAAAATA
1 AAATAAAAATAAAATA
17860711 AAGGTAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAATAC
Found at i:17874803 original size:17 final size:17
Alignment explanation
Indices: 17874781--17874822 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17874771 ATTGAGATAA
*
17874781 AAATAAATAACCAAAAT
1 AAATAAATAACAAAAAT
*
17874798 AAATAAATAAGAAAAAT
1 AAATAAATAACAAAAAT
*
17874815 AAACAAAT
1 AAATAAAT
17874823 GAATTAGATC
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:0.07, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAAATAACAAAAAT
Found at i:17878868 original size:69 final size:69
Alignment explanation
Indices: 17878774--17878910 Score: 163
Period size: 69 Copynumber: 2.0 Consensus size: 69
17878764 GCTAAAGCTC
* * * *
17878774 AATATGGATAAACCACGAATGTCAGTAATG-AAGTTAAACTAG-CAACAAC-GATGCAGACAAGC
1 AATATGGACAAACCACCAATATCAGTAATGCAA-ATAAA-TAGCCAACAACAG-TGCAGACAAGC
17878836 TGCTAGA
63 TGCTAGA
* * *
17878843 AATATGGACAAGCCACCAATATCAGTAATGCAAATAAATTGCCAATAACAGTGCAGACAAGCTGC
1 AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
17878908 TAG
66 TAG
17878911 TAATGTGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
68 2 0.03
69 53 0.91
70 3 0.05
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (69 bp):
AATATGGACAAACCACCAATATCAGTAATGCAAATAAATAGCCAACAACAGTGCAGACAAGCTGC
TAGA
Found at i:17886855 original size:7 final size:7
Alignment explanation
Indices: 17886826--17886890 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
17886816 TTTTAATTTT
*
17886826 TAATAAA
1 TAATATA
*
17886833 TAAGATAA
1 TAATAT-A
*
17886841 TAAAATA
1 TAATATA
17886848 TAATATA
1 TAATATA
*
17886855 TTA-ATA
1 TAATATA
17886861 TAATATA
1 TAATATA
17886868 TAATATA
1 TAATATA
*
17886875 TATTATA
1 TAATATA
*
17886882 TATTATA
1 TAATATA
17886889 TA
1 TA
17886891 TTAATTGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
6 5 0.10
7 38 0.78
8 6 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:17886891 original size:7 final size:7
Alignment explanation
Indices: 17886845--17886893 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
17886835 AGATAATAAA
*
17886845 ATATAAT
1 ATATTAT
17886852 ATATTAAT
1 ATATT-AT
*
17886860 ATAATAT
1 ATATTAT
*
17886867 ATAATAT
1 ATATTAT
17886874 ATATTAT
1 ATATTAT
17886881 ATATTAT
1 ATATTAT
17886888 ATATTA
1 ATATTA
17886894 ATTGTAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
ATATTAT
Found at i:17899061 original size:6 final size:6
Alignment explanation
Indices: 17899050--17899077 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17899040 GACTTGAATG
17899050 AATATA AATATA AATATA AATATA AATA
1 AATATA AATATA AATATA AATATA AATA
17899078 AACAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:17899475 original size:12 final size:12
Alignment explanation
Indices: 17899446--17899482 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
17899436 AATTGAGATA
17899446 AAAATAAATAATG
1 AAAATAAATAA-G
17899459 AAAATAAATAAG
1 AAAATAAATAAG
17899471 AAAATAAA-AAG
1 AAAATAAATAAG
17899482 A
1 A
17899483 CGATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAG
Found at i:17911277 original size:20 final size:20
Alignment explanation
Indices: 17911231--17911277 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
17911221 ACTTGTACGG
17911231 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
17911251 ATCTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
17911271 GTTTGCA
1 GTTTGCA
17911278 TTATGGTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:17915458 original size:19 final size:19
Alignment explanation
Indices: 17915429--17915477 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
17915419 TGAATTAATA
*
17915429 TTTTCTTTTTTCTTTT-CT
1 TTTTTTTTTTTCTTTTCCT
17915447 TTTATTTTTTTTCTTTTCCT
1 TTT-TTTTTTTTCTTTTCCT
17915467 TTTTTTTTTTT
1 TTTTTTTTTTT
17915478 TTGAGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTTTCTTTTCCT
Found at i:17922368 original size:9 final size:9
Alignment explanation
Indices: 17922354--17922384 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17922344 GGTCAAAATC
17922354 AAAAATGAA
1 AAAAATGAA
17922363 AAAAATG-A
1 AAAAATGAA
17922371 AAAAATGAA
1 AAAAATGAA
17922380 AAAAA
1 AAAAA
17922385 AAAATAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAATGAA
Found at i:17922373 original size:8 final size:8
Alignment explanation
Indices: 17922354--17922383 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17922344 GGTCAAAATC
17922354 AAAAATGAA
1 AAAAATG-A
17922363 AAAAATGA
1 AAAAATGA
17922371 AAAAATGA
1 AAAAATGA
17922379 AAAAA
1 AAAAA
17922384 AAAAATAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAATGA
Found at i:17925262 original size:18 final size:19
Alignment explanation
Indices: 17925233--17925268 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
17925223 TGATATGGCC
17925233 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTTCACTTA
17925252 AAAATCA-TTTTTCACTT
1 AAAATCACTTTTTCACTT
17925269 TGGCAAGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATCACTTTTTCACTTA
Found at i:17934168 original size:12 final size:12
Alignment explanation
Indices: 17934143--17934181 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17934133 ACTCGCTTCT
* *
17934143 TTACTTACTCAC
1 TTACTTGCTTAC
*
17934155 TTACTTGTTTAC
1 TTACTTGCTTAC
17934167 TTACTTGCTTAC
1 TTACTTGCTTAC
17934179 TTA
1 TTA
17934182 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:17934498 original size:50 final size:50
Alignment explanation
Indices: 17934381--17934619 Score: 194
Period size: 50 Copynumber: 4.7 Consensus size: 50
17934371 TGATAATACA
* * * * * *
17934381 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAG
* * *
17934430 TGCCAATGCCATATCCCAGATATGGTCTTGCATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* * ** * *
17934480 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* * ***
17934530 TGCGAACGCCATGTCCCAGACATGGTCTTACATGGGTCCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC-A-G
* **
17934585 ATGTCAATGCCATGTCCCAGACAACGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
17934620 TGATCTCATT
Statistics
Matches: 152, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
48 5 0.03
49 33 0.22
50 82 0.54
53 2 0.01
55 1 0.01
56 29 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
Found at i:17942041 original size:50 final size:51
Alignment explanation
Indices: 17941915--17942157 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 51
17941905 CTGATAATAC
* * * *
17941915 ATGCCAAAGCTATATCCCAGACATAGTCTTACATGGGA--TGT-TT-TCT-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TCTTATCTCG
* * * * *
17941962 TACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGA-GTTCTTATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* ** *
17942014 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC-TCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * *
17942064 ATGCCAACGCCATGTCCTAGACATGGTCTTACATAGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TTATCTC---G
17942120 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
17942158 TCTCATTCCC
Statistics
Matches: 158, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 33 0.21
50 76 0.48
51 3 0.02
52 3 0.02
53 6 0.04
56 36 0.23
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
Found at i:17942090 original size:100 final size:104
Alignment explanation
Indices: 17941965--17942151 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 104
17941955 TTTTCTGTAC
* * * * * *
17941965 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGA-GT-TC-TTATATC-GATGCCCATGCCA
1 TGCCAACGCCATATCCTAGACATGGTCTTACATAGGACCTCTCATAATATCAGATGCCAATGCCA
17942026 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
66 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
* *
17942065 TGCCAACGCCATGTCCTAGACATGGTCTTACATAGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCTAGACATGGTCTTACATAGGACCTCTCATAATATC-A-GATGCCAATGC
17942130 CATGTCCCAGACATGGTCTTAC
64 CATGTCCCAGACATGGTCTTAC
17942152 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 33 0.45
101 1 0.01
102 2 0.03
103 5 0.07
106 32 0.44
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (104 bp):
TGCCAACGCCATATCCTAGACATGGTCTTACATAGGACCTCTCATAATATCAGATGCCAATGCCA
TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
Found at i:17947445 original size:21 final size:21
Alignment explanation
Indices: 17947407--17947446 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17947397 ACCTACTGTT
*
17947407 GAAGAGGAAGTTGCTGTTGGA
1 GAAGAGGAAGTTCCTGTTGGA
17947428 GAAGAGGAAG-TCCTTGTTG
1 GAAGAGGAAGTTCC-TGTTG
17947447 CAGATGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.28, C:0.07, G:0.40, T:0.25
Consensus pattern (21 bp):
GAAGAGGAAGTTCCTGTTGGA
Found at i:17950548 original size:18 final size:19
Alignment explanation
Indices: 17950515--17950554 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17950505 AAAGGATGAG
*
17950515 AAATGAGAAGAGAAAA-GA
1 AAATGAGAAGAAAAAAGGA
*
17950533 AAATGAGAATAAAAAAGGA
1 AAATGAGAAGAAAAAAGGA
17950552 AAA
1 AAA
17950555 GTTGCACGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (19 bp):
AAATGAGAAGAAAAAAGGA
Found at i:17958708 original size:87 final size:86
Alignment explanation
Indices: 17958551--17958714 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
17958541 TGCATGCATA
* * * *
17958551 AGGTTGAGTTCTTACTCTTAATTCATTCATAGCCCAGGGTTTGGGTGGTCCTATTAAGACAAACT
1 AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAACT
17958616 TGATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
* * * * **
17958637 AGGTTGAGTTTATTACTCTTAA-TGAGTTCATATCCCATAGTTTGGGTGGTCCAAGTGAGACGGA
1 AGGTTGAG-TTATTACTCTTAATTCA-TTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAA
17958701 CTTGATGAATTCAC
64 CTTGATGAATTCAC
17958715 CAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
86 10 0.15
87 56 0.85
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (86 bp):
AGGTTGAGTTATTACTCTTAATTCATTCATAGCCCAGAGTTTGGGTGGTCCAAGTAAGACAAACT
TGATGAATTCACTGACATGTG
Found at i:17959118 original size:19 final size:19
Alignment explanation
Indices: 17959094--17959137 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
17959084 AGGGATCAAA
* *
17959094 TTGAGACAAATCAT-AAATT
1 TTGAGA-AAAACATGAAAAT
17959113 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
17959132 TTGAGA
1 TTGAGA
17959138 TGTAGGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:17960389 original size:40 final size:40
Alignment explanation
Indices: 17960330--17960428 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
17960320 ATGCATTTAG
*
17960330 AGGGTATCAAAGTACAAACAAGGGCACATATGTGCAGTCA
1 AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
* * * * *
17960370 GGGGTACCGAAGTATAAACAAGGGCACGTATGTGCATTCA
1 AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
17960410 AGGGTACCAAAGTACAAAC
1 AGGGTACCAAAGTACAAAC
17960429 GGGGACATGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (40 bp):
AGGGTACCAAAGTACAAACAAGGGCACATATGTGCAGTCA
Found at i:17960443 original size:40 final size:40
Alignment explanation
Indices: 17960321--17960449 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
17960311 GACATTAAAA
* * *
17960321 TGCATTTAGAGGGTATCAAAGTACAAACAAGGGCACAT-ATG
1 TGCATTCA-AGGGTACCAAAGTACAAAC-AGGGGACATGATG
* * * * * *
17960362 TGCAGTCAGGGGTACCGAAGTATAAACAAGGG-CACGTATG
1 TGCATTCAAGGGTACCAAAGTACAAACAGGGGACATG-ATG
17960402 TGCATTCAAGGGTACCAAAGTACAAAC-GGGGACATGGATG
1 TGCATTCAAGGGTACCAAAGTACAAACAGGGGACAT-GATG
17960442 TGCATTCA
1 TGCATTCA
17960450 TATATAACCT
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
38 2 0.03
39 6 0.09
40 54 0.78
41 7 0.10
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
TGCATTCAAGGGTACCAAAGTACAAACAGGGGACATGATG
Found at i:17974608 original size:44 final size:44
Alignment explanation
Indices: 17974545--17974643 Score: 189
Period size: 44 Copynumber: 2.2 Consensus size: 44
17974535 CTAGGCATAT
17974545 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
1 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
*
17974589 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGATA
1 GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
17974633 GGATACCCTTC
1 GGATACCCTTC
17974644 TAGTCTCACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (44 bp):
GGATACCCTTCCGGGCTCTCTACTGGCATAAGTTATACACGACA
Found at i:17981300 original size:56 final size:57
Alignment explanation
Indices: 17981164--17981309 Score: 199
Period size: 57 Copynumber: 2.6 Consensus size: 57
17981154 AAAATCTGCC
* *
17981164 TAAAAAAAGGAGAAGATAATCTTGGGATGTT-AGTTTTTATCCTAGAAAAAATAATT
1 TAAAAAAAGGAGAAGATAATCTTGGGTTGTTGAGTTTTTATCCTAGAAAAAAGAATT
* *
17981220 TAAAAAAAAGGAAAAGATATTCTTGGGTTGTTGA-TTTTTATCCTAGAAAAAAAGAATT
1 T-AAAAAAAGGAGAAGATAATCTTGGGTTGTTGAGTTTTTATCCTAG-AAAAAAGAATT
* *
17981278 T-AGAAAAGGAGAAGATAATCTTGGATTGTTGA
1 TAAAAAAAGGAGAAGATAATCTTGGGTTGTTGA
17981310 AAAAAGAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
56 28 0.35
57 39 0.49
58 12 0.15
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (57 bp):
TAAAAAAAGGAGAAGATAATCTTGGGTTGTTGAGTTTTTATCCTAGAAAAAAGAATT
Found at i:17981348 original size:41 final size:42
Alignment explanation
Indices: 17981267--17981349 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
17981257 TTATCCTAGA
* *
17981267 AAAAAAGAATTTAGAAAAGGAGAAGATAATCTTGGATTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
* * *
17981309 AAAAAAGAATTTA-AAGAGGAGAATATAAACATGGGTTGTTG
1 AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
17981350 GATTTACCCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 23 0.64
42 13 0.36
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.25
Consensus pattern (42 bp):
AAAAAAGAATTTAGAAAAGGAGAAGATAAACATGGATTGTTG
Found at i:17987028 original size:53 final size:55
Alignment explanation
Indices: 17986897--17987035 Score: 201
Period size: 57 Copynumber: 2.5 Consensus size: 55
17986887 ATCTACTTAA
* * * * *
17986897 AAAAAAGGAGAATATTATCCTGGGATGTTGGTTTTTATCCTAGAAAAGAAAATTTT
1 AAAAAAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAA-TTT
17986953 AAAAAGAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAA-AAAA-TT
1 AAAAA-AGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAATTT
17987007 AAAAAAGGAGAAGATAATCTTGGGTTGTT
1 AAAAAAGGAGAAGATAATCTTGGGTTGTT
17987036 GAAAAAAGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
53 24 0.31
54 7 0.09
56 9 0.12
57 37 0.48
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (55 bp):
AAAAAAGGAGAAGATAATCTTGGGTTGTTAGTTTTTATCCTAGAAAAGAAAATTT
Found at i:17987040 original size:40 final size:43
Alignment explanation
Indices: 17986996--17987075 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
17986986 TTTTATCCTA
* * *
17986996 GAAAAAA-AA-TTAAAAA-AGGAGAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTTGTT
17987036 GAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTT
1 GAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTT
17987076 CGTGGATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 7 0.21
41 2 0.06
42 7 0.21
43 18 0.53
ACGTcount: A:0.54, C:0.03, G:0.23, T:0.21
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGAAGAAGATAAACATGGGTTGTT
Found at i:17998077 original size:73 final size:73
Alignment explanation
Indices: 17997990--17998175 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
17997980 ACAACTTGAC
17997990 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
17998055 CACTAACA
66 CACTAACA
*
17998063 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCTACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
17998128 CACTAACA
66 CACTAACA
*
17998136 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
17998176 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:17998184 original size:3 final size:3
Alignment explanation
Indices: 17998176--17998204 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17998166 ATTACATCCA
17998176 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17998205 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18002495 original size:73 final size:73
Alignment explanation
Indices: 18002408--18002593 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
18002398 ACAACTTGAC
18002408 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
18002473 CACTAACA
66 CACTAACA
18002481 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
18002546 CACTAACA
66 CACTAACA
*
18002554 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
18002594 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:18002602 original size:3 final size:3
Alignment explanation
Indices: 18002594--18002622 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18002584 ATTACATCCA
18002594 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18002623 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18009580 original size:33 final size:33
Alignment explanation
Indices: 18009524--18009588 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
18009514 AATGATGAAT
18009524 TGCACATATGTGCCCTAGATTGTA-TTTCGGTAA
1 TGCACATATGTGCCCTAGATTGTACTTT-GGTAA
* *
18009557 TGCACATATGTGCCCTTGGTTGTACTTTGGTA
1 TGCACATATGTGCCCTAGATTGTACTTTGGTA
18009589 CCCCTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (33 bp):
TGCACATATGTGCCCTAGATTGTACTTTGGTAA
Found at i:18012618 original size:24 final size:24
Alignment explanation
Indices: 18012591--18012645 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
18012581 TATATGATGC
18012591 TATTGTGAATTGTAAAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
*
18012615 TATTGTGAATTGTAGAAGAAAACA
1 TATTGTGAATTGTAAAAGAAAACA
18012639 TATTGTG
1 TATTGTG
18012646 TTAAAATGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (24 bp):
TATTGTGAATTGTAAAAGAAAACA
Found at i:18016479 original size:39 final size:40
Alignment explanation
Indices: 18016402--18016548 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
18016392 TAGCTCCTCG
* * *
18016402 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
18016442 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
18016481 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
18016521 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
18016549 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:18016559 original size:80 final size:80
Alignment explanation
Indices: 18016448--18016628 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
18016438 CTCATTCAAT
* * *
18016448 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
18016511 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
18016527 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
18016591 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
18016608 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
18016629 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:18016588 original size:40 final size:40
Alignment explanation
Indices: 18016445--18016628 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
18016435 TAACTCATTC
* *
18016445 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
18016485 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
18016525 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
18016565 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
18016606 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18016629 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:18024327 original size:39 final size:40
Alignment explanation
Indices: 18024250--18024396 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
18024240 TAGCTCCTCG
* * *
18024250 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
18024290 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
18024329 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
18024369 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
18024397 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:18024407 original size:80 final size:80
Alignment explanation
Indices: 18024296--18024476 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
18024286 CTCATTCAAT
* * *
18024296 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
18024359 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
18024375 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
18024439 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
18024456 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
18024477 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:18024436 original size:40 final size:40
Alignment explanation
Indices: 18024293--18024476 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
18024283 TAACTCATTC
* *
18024293 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
18024333 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
18024373 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
18024413 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
18024454 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
18024477 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:18027669 original size:20 final size:20
Alignment explanation
Indices: 18027646--18027721 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
18027636 GACATATGTT
18027646 CCCCTGATTGTACTTCGGTA
1 CCCCTGATTGTACTTCGGTA
* *
18027666 CCCCTGAGTTGCACATAC-GT-
1 CCCCTGA-TTGTAC-TTCGGTA
* *
18027686 GCCCTTATTCGTACTTCGGTA
1 CCCCTGATT-GTACTTCGGTA
18027707 CCCCTAGA-TGTACTT
1 CCCCT-GATTGTACTT
18027722 TTGTACTCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 4 0.10
20 23 0.55
21 12 0.29
22 3 0.07
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGTACTTCGGTA
Found at i:18035624 original size:21 final size:21
Alignment explanation
Indices: 18035583--18035624 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18035573 ACGAAAAATC
*
18035583 CAAGTATAGTGTGGAACTTGT
1 CAAGTATAGTGTGAAACTTGT
*
18035604 CAAGTAATAG-GTGAAATTTGT
1 CAAGT-ATAGTGTGAAACTTGT
18035625 ATACGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (21 bp):
CAAGTATAGTGTGAAACTTGT
Found at i:18038896 original size:22 final size:22
Alignment explanation
Indices: 18038871--18038913 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18038861 GGTATAATTG
* * *
18038871 TAAATTAATAATAAAACTAAAT
1 TAAAATAATAAAAAAAATAAAT
18038893 TAAAATAATAAAAAAAATAAA
1 TAAAATAATAAAAAAAATAAA
18038914 ATTTTCATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAATAATAAAAAAAATAAAT
Found at i:18040633 original size:23 final size:23
Alignment explanation
Indices: 18040607--18040679 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
18040597 ATAAGTGCCA
18040607 CACTTATATGTAGCCGAAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
* *
18040630 CACTGATATGTAGCCGTAGCTAC
1 CACTTATATGTAGCCGAAGCTAC
*
18040653 CA-TTGAAATGTAGCCGAAGCTAC
1 CACTT-ATATGTAGCCGAAGCTAC
18040676 CACT
1 CACT
18040680 GATCAATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.02
23 41 0.95
24 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTTATATGTAGCCGAAGCTAC
Found at i:18047375 original size:17 final size:17
Alignment explanation
Indices: 18047353--18047392 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
18047343 TCATTCATGT
*
18047353 AAACATATATAACACCC
1 AAACATATATAACACCA
18047370 AAACATATATAACACCA
1 AAACATATATAACACCA
18047387 AAACAT
1 AAACAT
18047393 GTTCTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATATATAACACCA
Found at i:18047932 original size:23 final size:23
Alignment explanation
Indices: 18047899--18047950 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
18047889 ATAAGTGCCA
* *
18047899 CACTGATATGTAGCCGAAGGTAC
1 CACTGAAATGTAGCCGAAGCTAC
18047922 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18047945 CACTGA
1 CACTGA
18047951 TCAATAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:18049707 original size:40 final size:40
Alignment explanation
Indices: 18049631--18049800 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
18049621 TGCACGTACC
* * * *
18049631 TACCCCTGAATGCTCATATGTGTCCTTGCTTT-TACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTG-TTTGTACTTTGG
* * *
18049671 TACCCCTGAATGTACATACGTGCCTCTTTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
18049711 TACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
* *
18049751 TACCCCTGAATGCACTTACGTTCCCCTGTTTGTACTTTGG
1 TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
*
18049791 TACCTCTGAA
1 TACCCCTGAA
18049801 AGCATTATAA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.03
40 109 0.97
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGG
Found at i:18049756 original size:20 final size:20
Alignment explanation
Indices: 18049733--18049794 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
18049723 CACATACATG
18049733 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * *
18049753 CCCCTGAATGCACTTAC-GTT
1 CCCCTGTTTGTACTT-CGGTA
*
18049773 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
18049793 CC
1 CC
18049795 TCTGAAAGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:18051673 original size:25 final size:25
Alignment explanation
Indices: 18051593--18051708 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
18051583 ACATACCACA
* * *
18051593 GCTCTTGCGAGCATCCTGATATTTT
1 GCTCTTGCGAGCTTCCTGATAATTG
** * *
18051618 GCTCTTATGAGCTTCTTG-TTATATG
1 GCTCTTGCGAGCTTCCTGATAAT-TG
*
18051643 GTTCTTGCGAGCTTCCTGATAATTG
1 GCTCTTGCGAGCTTCCTGATAATTG
** *
18051668 GCTCTTTG-GAGCTTCCCAATAACTG
1 GCTC-TTGCGAGCTTCCTGATAATTG
**
18051693 GCTCTTATGAGCTTCC
1 GCTCTTGCGAGCTTCC
18051709 CAAATAATAG
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
24 4 0.06
25 60 0.86
26 6 0.09
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (25 bp):
GCTCTTGCGAGCTTCCTGATAATTG
Found at i:18051709 original size:25 final size:25
Alignment explanation
Indices: 18051651--18051733 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
18051641 TGGTTCTTGC
** *
18051651 GAGCTTCCTGATAATTGGCTCTTTG
1 GAGCTTCCCAATAACTGGCTCTTTG
18051676 GAGCTTCCCAATAACTGGCTCTTAT-
1 GAGCTTCCCAATAACTGGCTCTT-TG
*
18051701 GAGCTTCCCAAATAA-TAGCT-TTTCG
1 GAGCTTCCC-AATAACTGGCTCTTT-G
18051726 GAGCTTCC
1 GAGCTTCC
18051734 TGATATTGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 41 0.82
26 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCAATAACTGGCTCTTTG
Found at i:18059428 original size:73 final size:73
Alignment explanation
Indices: 18059319--18059471 Score: 234
Period size: 73 Copynumber: 2.1 Consensus size: 73
18059309 TAGCTCTCAC
* * * * * *
18059319 GAGCATCTCGATATTGGCTCTCTTGAGCTTCCTGATATATGGCACTTACGAGCTTTCTGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
18059384 GCTCTTGG
66 GCTCTTGG
*
18059392 GAGCATCTCGATATTGGCTCTCTTAAGCTTATTGATATATGACACTCACGAGCTTCCCGTTAATA
1 GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
*
18059457 GCTCTTTG
66 GCTCTTGG
18059465 GAGCATC
1 GAGCATC
18059472 CTGATTGGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (73 bp):
GAGCATCTCGATATTGGCTCTCTTAAGCTTACTGATATATGACACTCACGAGCTTCCCGTTAATA
GCTCTTGG
Found at i:18059599 original size:25 final size:24
Alignment explanation
Indices: 18059571--18059642 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
18059561 TGGTTATTGT
*
18059571 GAGCTTCCTAATAATTGGCT-TTTC
1 GAGCTTCCTAATAA-TGGCTCTTAC
**
18059595 AGAGCTTCCCGATAACTGGCTCTTAC
1 -GAGCTTCCTAATAA-TGGCTCTTAC
18059621 GAGCTTCCTGAATAATGGCTCT
1 GAGCTTCCT-AATAATGGCTCT
18059643 CTAGAGATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (24 bp):
GAGCTTCCTAATAATGGCTCTTAC
Found at i:18059712 original size:25 final size:25
Alignment explanation
Indices: 18059660--18059712 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
18059650 TAGTTGATAT
* *
18059660 TGGCTCGCATGAACTTCCCGTTACA
1 TGGCTCACATGAACTTCCCATTACA
* * *
18059685 TGGCTCACATGAGCTTCTCATTATA
1 TGGCTCACATGAACTTCCCATTACA
18059710 TGG
1 TGG
18059713 ATTAAGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
TGGCTCACATGAACTTCCCATTACA
Found at i:18065009 original size:21 final size:21
Alignment explanation
Indices: 18064983--18065023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18064973 ACTAACATGT
*
18064983 ATGTCTCTAGA-TTAGAGTGCC
1 ATGTCTCAAGACTTA-AGTGCC
18065004 ATGTCTCAAGACTTAAGTGC
1 ATGTCTCAAGACTTAAGTGC
18065024 AAAGGACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (21 bp):
ATGTCTCAAGACTTAAGTGCC
Found at i:18105537 original size:29 final size:28
Alignment explanation
Indices: 18105494--18105571 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
18105484 TCATGAGATT
18105494 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
18105524 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
18105551 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
18105572 GTTTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:18105826 original size:173 final size:175
Alignment explanation
Indices: 18105524--18105852 Score: 545
Period size: 173 Copynumber: 1.9 Consensus size: 175
18105514 AAATTGTACA
* * *
18105524 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGTTTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
18105589 TGTGCGAACCCAATATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
18105654 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
18105700 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
18105765 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
18105828 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
18105853 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 76 0.53
175 5 0.03
176 62 0.43
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18111870 original size:49 final size:49
Alignment explanation
Indices: 18111807--18111999 Score: 305
Period size: 49 Copynumber: 3.9 Consensus size: 49
18111797 CGTTTTCTCA
* *
18111807 ATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
* *
18111856 ATACCATAGCCCAACTATGGTCTTACACGTAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
* * *
18111905 ATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
*
18111954 ATGCCATAGCCCAACTATGGTCTTATACGGAATCACATAATCACAT
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACA-AATCACAT
18112000 GTTCACATAT
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
49 126 0.95
50 6 0.05
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (49 bp):
ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
Found at i:18113039 original size:102 final size:102
Alignment explanation
Indices: 18112867--18113404 Score: 828
Period size: 102 Copynumber: 5.3 Consensus size: 102
18112857 CCAGTGATTC
* * * * * *
18112867 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATTAGCACTCAACAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
*
18112932 ACCAATG-ATTCAGGGAATCAGCACTTAGCAACCCCTCG
65 ACCAATGAATT-AGGGAATCAGCACTTAGCAACCCCTTG
*
18112970 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
18113035 CCAATGAATCAGGGAATCAGCACTTAGCAACTCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
*
18113072 GGGGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
18113136 CCAATGAATTGGGGAATCAGCACGTAGCAACCCCATTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCC-TTG
* *
18113174 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGAAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
18113239 CCGATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
18113276 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* * * * *
18113341 TCGATGAATTGGGGAATCAACACTTATCAACCCCTTG
66 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
* *
18113378 GGGGAATCGGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
18113405 TATATTCAAT
Statistics
Matches: 402, Mismatches: 30, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
101 73 0.18
102 221 0.55
103 108 0.27
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:18113076 original size:27 final size:27
Alignment explanation
Indices: 18113046--18113097 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
18113036 CAATGAATCA
*
18113046 GGGAATCAGCACTTAGCAACTCCTTGG
1 GGGAATCAGCACTTAGCAACCCCTTGG
18113073 GGGAATCAGCACTTAGCAACCCCTT
1 GGGAATCAGCACTTAGCAACCCCTT
18113098 CACATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCTTGG
Found at i:18113391 original size:27 final size:28
Alignment explanation
Indices: 18113351--18113404 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
18113341 TCGATGAATT
*
18113351 GGGGAATCAACACTTATCAA-CCCCTTG
1 GGGGAATCAACACTTAGCAATCCCCTTG
**
18113378 GGGGAATCGGCACTTAGCAATCCCCTT
1 GGGGAATCAACACTTAGCAATCCCCTT
18113405 TATATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGAATCAACACTTAGCAATCCCCTTG
Found at i:18116842 original size:14 final size:15
Alignment explanation
Indices: 18116806--18116842 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
18116796 CAAACATTTG
18116806 TCAACATTAATTATT
1 TCAACATTAATTATT
*
18116821 T-AATATTAATTATT
1 TCAACATTAATTATT
18116835 TCAA-ATTA
1 TCAACATTA
18116843 CATTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
TCAACATTAATTATT
Found at i:18116923 original size:61 final size:61
Alignment explanation
Indices: 18116857--18117044 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
18116847 TTATAGTATC
18116857 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** * *
18116918 ATATATTTTAATTATAATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTATC
1 ATATATTATGATTTTAATAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
* * *
18116977 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
18117038 ATATATT
1 ATATATT
18117045 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.32
60 14 0.15
61 39 0.41
62 2 0.02
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:18116939 original size:16 final size:16
Alignment explanation
Indices: 18116918--18116963 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18116908 TTATTAAATT
18116918 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
18116934 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
18116949 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
18116964 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:18117030 original size:120 final size:120
Alignment explanation
Indices: 18116813--18117081 Score: 454
Period size: 120 Copynumber: 2.2 Consensus size: 120
18116803 TTGTCAACAT
* *
18116813 TAAT-TATTTAATATTAATTAT-TTCAAATTACATTTTATAGTATCATATATTATGATTTTAATA
1 TAATATATTTAATAATAATTATGTT-AAATTACATTTTATAGTATCATATATTATGATTTGAATA
18116876 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
18116932 TAATATATTTAATAATAATTATGTTAAATTATC-TTTTATAGTATCATATATTATGATTTGAGTA
1 TAATATATTTAATAATAATTATGTTAAATTA-CATTTTATAGTATCATATATTATGATTTGAATA
*
18116996 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
18117052 TAATATATTTAATAATAATTATGTTTAAAT
1 TAATATATTTAATAATAATTATG-TTAAAT
18117082 ATGATTAAAT
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 129 0.91
121 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAATAA
ATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:18117041 original size:59 final size:58
Alignment explanation
Indices: 18116858--18117041 Score: 139
Period size: 57 Copynumber: 3.1 Consensus size: 58
18116848 TATAGTATCA
*
18116858 TATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * *
18116917 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAATA-AAT-TCATATAAGAAT-ATTATTATTAAGA--AT-TTTAT-TA-AA
18116975 T
58 T
* *
18116976 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
18117037 TATAT
1 TATAT
18117042 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 11 0.12
57 15 0.16
58 12 0.13
59 11 0.12
61 6 0.06
62 12 0.13
63 15 0.16
64 11 0.12
65 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAATAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:18117059 original size:16 final size:16
Alignment explanation
Indices: 18117038--18117079 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18117028 TTATTAAATT
*
18117038 ATATATTTTAATTATA
1 ATATATTTTAATAATA
18117054 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
18117069 AT-TATGTTTAA
1 ATATAT-TTTAA
18117080 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:18117064 original size:15 final size:15
Alignment explanation
Indices: 18117029--18117070 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18117019 TTAAGAATTT
*
18117029 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18117043 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18117057 TATTTAATAATAAT
1 TATTTAATTATAAT
18117071 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18117305 original size:45 final size:43
Alignment explanation
Indices: 18117205--18117314 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
18117195 TTTTCCATTA
18117205 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
18117244 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
18117289 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
18117315 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:18117316 original size:16 final size:16
Alignment explanation
Indices: 18117295--18117362 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
18117285 GATTTGCTAT
*
18117295 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
18117311 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
18117327 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18117343 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18117359 TACA
1 TACA
18117363 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18121027 original size:49 final size:49
Alignment explanation
Indices: 18120964--18121156 Score: 289
Period size: 49 Copynumber: 3.9 Consensus size: 49
18120954 TGTTTTCTCA
* **
18120964 ATGCCATAGTCCAACTATGGTCTTACACATAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
*
18121013 ATACCATAGCCCAACTATGGTCTTACA-GGCAATCACAAATCACATACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGG-AATCACAAATCACATACCG
* * *
18121062 ATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTACCG
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
*
18121111 ATGCCATAGCCCAACTATGGTCTTATACGGAATCACATAATCACAT
1 ATGCCATAGCCCAACTATGGTCTTACACGGAATCACA-AATCACAT
18121157 GTTCACATAT
Statistics
Matches: 129, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
49 121 0.94
50 8 0.06
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (49 bp):
ATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAATCACATACCG
Found at i:18122185 original size:42 final size:42
Alignment explanation
Indices: 18122126--18122336 Score: 242
Period size: 42 Copynumber: 5.5 Consensus size: 42
18122116 ACCCCTCGGG
*
18122126 GGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* *
18122168 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
18122201 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* *
18122243 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
*
18122276 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
18122318 GGAATCAGCACTTAGCAAC
1 GGAATCAGCACTTAGCAAC
18122337 TACCAATGAA
Statistics
Matches: 141, Mismatches: 10, Indels: 36
0.75 0.05 0.19
Matches are distributed among these distances:
33 36 0.26
34 12 0.09
35 6 0.04
36 6 0.04
37 2 0.01
38 2 0.01
39 6 0.04
40 6 0.04
41 11 0.08
42 54 0.38
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:18122204 original size:102 final size:103
Alignment explanation
Indices: 18122021--18122222 Score: 307
Period size: 102 Copynumber: 2.0 Consensus size: 103
18122011 CCAGTGATTC
* * * *
18122021 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATTAGCACTCAACAATC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
*
18122086 ACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
* * * *
18122124 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
*
18122188 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATGAATCAGGGAATCAGCACTTAGCAACCCC
18122223 CTTCACATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 55 0.62
103 34 0.38
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTCAACAACC
ACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCG
Found at i:18122219 original size:75 final size:75
Alignment explanation
Indices: 18122124--18122372 Score: 453
Period size: 75 Copynumber: 3.3 Consensus size: 75
18122114 CAACCCCTCG
*
18122124 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
18122189 CCAATGAATC
66 CCAATGAATC
18122199 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
18122264 CCAATGAATC
66 CCAATGAATC
* *
18122274 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACTA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
18122339 CCAATGAATT
66 CCAATGAATC
*
18122349 GGGGAATTAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
18122373 ATTGGGGGAA
Statistics
Matches: 169, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 169 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATC
Found at i:18122427 original size:103 final size:103
Alignment explanation
Indices: 18122243--18122475 Score: 349
Period size: 103 Copynumber: 2.2 Consensus size: 103
18122233 AAAATACGGT
*
18122243 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTT
1 GGAATCAGCACTTAGCAACC-CC-AT---TGGGGGAATCAGCACTTAGCAACCCCCTTCACATTT
* * * *
18122308 AAAATACAGTGGAATCAGCACTTAGCAACTACCAATGAATTGG
61 AAAATACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
*
18122351 GGAATTAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 GGAATCAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
* *
18122416 ACGGTGGAATCAACAATTAGCAACCACCGATGAATTAG
66 ACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
18122454 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
18122476 CTTCACATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
103 93 0.80
106 2 0.02
107 2 0.02
108 19 0.16
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
ACAGTGGAATCAACAATTAGCAACCACCAATGAATTAG
Found at i:18122438 original size:42 final size:42
Alignment explanation
Indices: 18122379--18122517 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
18122369 CCCCATTGGG
18122379 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* * * * * *
18122421 GGAATCAACAATTAGCAA-CCAC--C-GA--TGAATTA--G-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
18122454 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
18122496 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
18122518 TTGGGGGAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
33 16 0.21
34 4 0.05
36 6 0.08
37 1 0.01
38 1 0.01
39 6 0.08
41 4 0.05
42 38 0.50
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:18122438 original size:253 final size:253
Alignment explanation
Indices: 18121986--18122515 Score: 841
Period size: 253 Copynumber: 2.1 Consensus size: 253
18121976 TATCCGTTAT
* * * *
18121986 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
** *
18122051 ATTCAAAGATATGGTGGAATTAGCACTCAACAATCACCAATGATTCAGGGAATCAGCACTTAGCA
66 ATTCAAAGATACAGTGGAATCAGCACTCAACAATCACCAATGATTCAGGGAATCAGCACTTAGCA
* * *
18122116 ACCCCTCGGGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTT
131 ACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACAATT
*
18122181 AGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
196 AGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
18122239 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
* * * * *
18122304 ATTTAAA-ATACAGTGGAATCAGCACTTAGCAA-CTACCAATGAATT-GGGGAATTAGCACTTAG
66 ATTCAAAGATACAGTGGAATCAGCACTCAACAATC-ACCAATG-ATTCAGGGAATCAGCACTTAG
*
18122366 CAACCCCATTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACA
129 CAACCCC-TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACA
* *
18122431 ATTAGCAACCACCGATGAATTAGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
193 ATTAGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
18122492 CGGTGGAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
18122516 CCTTGGGGGA
Statistics
Matches: 255, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
251 1 0.00
252 49 0.19
253 205 0.80
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (253 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTCAAAGATACAGTGGAATCAGCACTCAACAATCACCAATGATTCAGGGAATCAGCACTTAGCA
ACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACAATT
AGCAACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:18126484 original size:97 final size:98
Alignment explanation
Indices: 18126341--18126517 Score: 230
Period size: 97 Copynumber: 1.8 Consensus size: 98
18126331 GGGCTTGAAA
* ** * *
18126341 ATATCTTATGTTCCTCAACCATTCTGATAAGCGTGTTAGGTGTGAGAGCATACCTTATGTACCT-
1 ATATCTTATGTTCCTCAACCATTCTAATAAGCGCATTAAGTGTGAGAACATACCTTATGTACCTC
18126405 AGCCATTTTGATAAGTGTGTTAAGTGTGGGAAC
66 AGCCATTTTGATAAGTGTGTTAAGTGTGGGAAC
* * * * ** **
18126438 ATATTTTATGTTTCTCAGCCATTCTAATAAGTGCATTAAGTGTGAGAACATATTTTATGTTTCTC
1 ATATCTTATGTTCCTCAACCATTCTAATAAGCGCATTAAGTGTGAGAACATACCTTATGTACCTC
18126503 AGCCATTTTGATAAG
66 AGCCATTTTGATAAG
18126518 ATAAGTATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
97 51 0.77
98 15 0.23
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (98 bp):
ATATCTTATGTTCCTCAACCATTCTAATAAGCGCATTAAGTGTGAGAACATACCTTATGTACCTC
AGCCATTTTGATAAGTGTGTTAAGTGTGGGAAC
Found at i:18126517 original size:49 final size:49
Alignment explanation
Indices: 18126341--18126517 Score: 203
Period size: 49 Copynumber: 3.6 Consensus size: 49
18126331 GGGCTTGAAA
* * * *
18126341 ATATCTTATGTTCCTCAACCATTCTGATAAGCGTGTTAGGTGTGAGAGC
1 ATATCTTATGTTCCTCAGCCATTCTGATAAGTGTGTTAAGTGTGAGAAC
* * * *
18126390 ATACCTTATGTACCT-AGCCATTTTGATAAGTGTGTTAAGTGTGGGAAC
1 ATATCTTATGTTCCTCAGCCATTCTGATAAGTGTGTTAAGTGTGAGAAC
* * * **
18126438 ATATTTTATGTTTCTCAGCCATTCTAATAAGTGCATTAAGTGTGAGAAC
1 ATATCTTATGTTCCTCAGCCATTCTGATAAGTGTGTTAAGTGTGAGAAC
* * *
18126487 ATATTTTATGTTTCTCAGCCATTTTGATAAG
1 ATATCTTATGTTCCTCAGCCATTCTGATAAG
18126518 ATAAGTATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
48 38 0.35
49 70 0.65
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (49 bp):
ATATCTTATGTTCCTCAGCCATTCTGATAAGTGTGTTAAGTGTGAGAAC
Found at i:18148039 original size:15 final size:16
Alignment explanation
Indices: 18148019--18148051 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18148009 TTTTAGTTAA
18148019 TTAAATA-TTTTTATT
1 TTAAATATTTTTTATT
18148034 TTAAATATTTTTTATT
1 TTAAATATTTTTTATT
18148050 TT
1 TT
18148052 CCTAGTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAAATATTTTTTATT
Found at i:18173712 original size:20 final size:20
Alignment explanation
Indices: 18173678--18173715 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18173668 ATCAATCAAT
**
18173678 GATAATTAATTATTTAATTA
1 GATAATTAAGGATTTAATTA
18173698 GATAATTAAGGATTTAAT
1 GATAATTAAGGATTTAAT
18173716 CGATTATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:18176684 original size:15 final size:15
Alignment explanation
Indices: 18176664--18176692 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18176654 TAAAATGATC
18176664 GAAATACCCTCGATT
1 GAAATACCCTCGATT
18176679 GAAATACCCTCGAT
1 GAAATACCCTCGAT
18176693 GGATAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
GAAATACCCTCGATT
Found at i:18176710 original size:27 final size:27
Alignment explanation
Indices: 18176679--18176972 Score: 201
Period size: 27 Copynumber: 11.0 Consensus size: 27
18176669 ACCCTCGATT
* *
18176679 GAAATACCCTCGATGGATAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
18176706 AAAATA-CCT-AATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
*
18176731 GAAATACCCTCGAAGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGATC
* *
18176758 GAAATACCCTCGAAGGGTAAAATGGTC
1 GAAATACCCTCGATGGGTAAAATGATC
* * * *
18176785 GAAGTATCCTTGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATGATC
* * *
18176812 GAAATGCCC-CTATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* ** * *
18176839 AAAATACCCTCGCCGAGTAGAAT-ATC
1 GAAATACCCTCGATGGGTAAAATGATC
*
18176865 GAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
18176892 GTAATACCC-CTG-TAGAGTAAAATGACC
1 GAAATACCCTC-GAT-GGGTAAAATGATC
* * *
18176919 GTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTCGAT-GGGTAAAATGATC
* * *
18176946 GTAATGCCC-CAATAGGGTAAAATGATC
1 GAAATACCCTCGAT-GGGTAAAATGATC
18176973 ATAATAACCC
Statistics
Matches: 210, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
25 17 0.08
26 28 0.13
27 164 0.78
28 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGATC
Found at i:18176803 original size:54 final size:54
Alignment explanation
Indices: 18176679--18177051 Score: 192
Period size: 54 Copynumber: 7.0 Consensus size: 54
18176669 ACCCTCGATT
* * * * ** *
18176679 GAAATACCCTCGATGGATAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
*
18176731 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAATGGTC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
18176785 GAAGTATCCTTGATGGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
* ** * * *
18176839 AAAATACCCTCGCCGAGTAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * * * *
18176892 GTAATACCC-CTGTAGAGTAAAATGACCGTAATACCCTTG-TCGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGATCGAAATACCC-CGATAGGGTAAAATGATC
* * * * * *
18176946 GTAATGCCC-CAATAGGGTAAAATGATC-ATAATAACCCTG-TAAGGTAAAATGACC
1 GAAATACCCTCGA-AGGGTAAAATGATCGA-AAT-ACCCCGATAGGGTAAAATGATC
* * * * * * * **
18177000 GTACTGCCCTTGTAGGGTAAAATGA-CTGTAATGCCCATATAGGGTAAAATGA
1 GAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCCGATAGGGTAAAATGA
18177052 CCGTACTGCC
Statistics
Matches: 253, Mismatches: 53, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
52 30 0.12
53 50 0.20
54 169 0.67
55 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (54 bp):
GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCGATAGGGTAAAATGATC
Found at i:18176912 original size:80 final size:81
Alignment explanation
Indices: 18176696--18177161 Score: 241
Period size: 81 Copynumber: 5.8 Consensus size: 81
18176686 CCTCGATGGA
* * * * * * *
18176696 TAAAATGACCAAAATA-CCTAAT-GGGTAAAATGATTGAAATA-CCCTCGAAGGGTAAAATGATC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCT-GTAGAGTAAAATGACC
* ** *
18176758 GAAATACCCTCGAAGGG
65 AAAATACCCTCGCCGAG
** * *** * * * * *
18176775 TAAAATGGTCGAAGTATCCTTGAT-GGGTAAAATGATTGAAATGCCCCTATAGGGTAAAATGACC
1 TAAAATGACCGAAATA-CCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
18176839 AAAATACCCTCGCCGAG
65 AAAATACCCTCGCCGAG
* * *
18176856 TAGAAT-ATCGAAATACCCTC-ATAGGGTAAAATGACCGTAATACCCCTGTAGAGTAAAATGACC
1 TAAAATGACCGAAATACCC-CAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
** * * *
18176919 GTAATACCCTTGTCGGG
65 AAAATACCCTCGCCGAG
* * * *
18176936 TAAAATGACCGTAATGCCCCAATAGGGTAAAATGATCATAATAACCCTGTA-AGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGACC
** * * * ** *
18177000 GTACTGCCCTTGTAGGG
65 AAAATACCCTCGCCGAG
* * * * * *
18177017 TAAAATGACTGTAAT-GCCCATATAGGGTAAAATGACCGTACTGCCCCTGTA-AGGTAAAATGAC
1 TAAAATGACCGAAATACCCCA-ATAGGGTAAAATGATCGTAATACCCCTGTAGA-GTAAAATGAC
*** * ** *
18177080 TTTAATGCCCAT-GTAGGG
64 CAAAATACCC-TCGCCGAG
* ** * * * *
18177098 TAAAATGACCGTAATACCCCTGTAAGGTAAAATGATTGTAATACCCTTGTAGGGTAAAATGACC
1 TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACC
18177162 GTAATGCCTT
Statistics
Matches: 313, Mismatches: 62, Indels: 22
0.79 0.16 0.06
Matches are distributed among these distances:
79 16 0.05
80 64 0.20
81 225 0.72
82 8 0.03
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCAATAGGGTAAAATGATCGTAATACCCCTGTAGAGTAAAATGACCA
AAATACCCTCGCCGAG
Found at i:18176977 original size:27 final size:27
Alignment explanation
Indices: 18176877--18177169 Score: 334
Period size: 27 Copynumber: 10.9 Consensus size: 27
18176867 AATACCCTCA
*
18176877 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
18176904 TAGAGTAAAATGACCGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* **
18176931 TCGGGTAAAATGACCGTAATGCCCCAA
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * **
18176958 TAGGGTAAAATGATCATAATAACCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
18176985 TAAGGTAAAATGACCGTACTGCCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* * *
18177012 TAGGGTAAAATGACTGTAATGCCCATA
1 TAGGGTAAAATGACCGTAATGCCCCTG
*
18177039 TAGGGTAAAATGACCGTACTGCCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** *
18177066 TAAGGTAAAATGACTTTAATGCCCATG
1 TAGGGTAAAATGACCGTAATGCCCCTG
*
18177093 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
* ** * *
18177120 TAAGGTAAAATGATTGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATGCCCCTG
18177147 TAGGGTAAAATGACCGTAATGCC
1 TAGGGTAAAATGACCGTAATGCC
18177170 TTGGTGGGTA
Statistics
Matches: 217, Mismatches: 49, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 217 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATGCCCCTG
Found at i:18177282 original size:24 final size:24
Alignment explanation
Indices: 18177207--18177288 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
18177197 CTCGAGGTCA
* * *
18177207 AATGATTGATTTGTCTATGGTTA-
1 AATGACTGATTTGTCTGTGATTAG
* * *
18177230 AATGACTGATTTGTGTGTGTTTGG
1 AATGACTGATTTGTCTGTGATTAG
* * *
18177254 TATGATTGATTTGTTTGTGATTAG
1 AATGACTGATTTGTCTGTGATTAG
18177278 AATGACTGATT
1 AATGACTGATT
18177289 CTGAGCATGA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 18 0.39
24 28 0.61
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTAG
Found at i:18177504 original size:32 final size:32
Alignment explanation
Indices: 18177463--18177662 Score: 215
Period size: 32 Copynumber: 6.3 Consensus size: 32
18177453 GCGATGCTAT
* *
18177463 TGATGGCTTTGTGTCGATTATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
18177495 TGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * **
18177527 TGATGGCTTTATGCCGGTCATATTACCACTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* *
18177559 TGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
* * * * *
18177591 TGATGG-TTGTGTGCCGGTTATATCACTGCTAC
1 TGATGGCTT-TGTGCCGATCATATTACCGTTAC
* * *
18177623 TGTTGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTTTGTGCCGATCATATTACCGTTAC
*
18177654 TTATGGCTT
1 TGATGGCTT
18177663 GTAGCCGTTC
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
31 12 0.09
32 127 0.90
33 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACCGTTAC
Found at i:18177567 original size:64 final size:64
Alignment explanation
Indices: 18177463--18177662 Score: 242
Period size: 64 Copynumber: 3.1 Consensus size: 64
18177453 GCGATGCTAT
* * * * *
18177463 TGATGGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * *
18177527 TGATGGCTTTATGCCGGTCATATTACCACTACTGACGGCTTTGTGCCGATCATATTACAGTTAC
1 TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
* * * * *
18177591 TGATGG-TTGTGTGCCGGTTATATCACTGCTACTGTTGGCTTTGTGCCAATCATATTACTG-TAC
1 TGATGGCTT-TGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
*
18177654 TTATGGCTT
1 TGATGGCTT
18177663 GTAGCCGTTC
Statistics
Matches: 115, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 10 0.09
64 105 0.91
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (64 bp):
TGATGGCTTTGTGCCGGTTATATTACCGCTACTGATGGCTTTGTGCCGATCATATTACAGTTAC
Found at i:18177631 original size:96 final size:96
Alignment explanation
Indices: 18177467--18177648 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
18177457 TGCTATTGAT
* * * * *
18177467 GGCTTTGTGTCGATTATATTACCGTTACTGATGGCTTTGTGCCGGTCATATTACCGTTACTGATG
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
**
18177532 GCTTTATGCCGGTCATATTACCACTACTGAC
66 GCTTTATGCCAATCATATTACCACTACTGAC
* * *
18177563 GGCTTTGTGCCGATCATATTACAGTTACTGATGG-TTGTGTGCCGGTTATATCACTGCTACTGTT
1 GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTT-TGTGCCGGTCATATCACCGCTACTGAT
*
18177627 GGCTTTGTGCCAATCATATTAC
65 GGCTTTATGCCAATCATATTAC
18177649 TGTACTTATG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 2 0.03
96 72 0.97
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (96 bp):
GGCTTTGTGCCGATCATATTACAGTTACTGATGGCTTTGTGCCGGTCATATCACCGCTACTGATG
GCTTTATGCCAATCATATTACCACTACTGAC
Found at i:18179315 original size:15 final size:16
Alignment explanation
Indices: 18179295--18179324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18179285 TAGTGCCTTG
18179295 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
18179310 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
18179325 AGCATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:18184896 original size:27 final size:27
Alignment explanation
Indices: 18184865--18184919 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
18184855 GTGTAAGCTT
* *
18184865 TCTCACACTGTTGTTTTAATATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
*
18184892 TCTCATACCGTTGTTTTAACATGTGAA
1 TCTCACACCGTTGTTTTAACATGTGAA
18184919 T
1 T
18184920 GTGTGCTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (27 bp):
TCTCACACCGTTGTTTTAACATGTGAA
Found at i:18191782 original size:27 final size:27
Alignment explanation
Indices: 18191712--18192189 Score: 407
Period size: 27 Copynumber: 17.9 Consensus size: 27
18191702 GTTATGACAA
* *
18191712 AAATACCCTCATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
18191739 AAATA-CCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
18191765 AAATACCCCCATAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* **
18191792 AAATA-CCCCATAGGGTAAAATAACAA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
18191818 AAATACCCCCATCGGGTAAAA-GACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
18191844 AAATATCCCAATAGAGTAAAATGAACG
1 AAATACCCCCATAGGGTAAAATGACCG
** *
18191871 AAATACCCTTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* ** *
18191898 AAATGCCCTTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
18191925 AAATACCCTCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* **
18191952 AAATAACCCCATAGGGTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
18191979 AAATACCCCCACAGGGTAAAAAGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * ** *
18192006 AAATACCCTCAAAATGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
18192033 AAATACCCCTGA-AGGGTCAAATGACCG
1 AAATACCCC-CATAGGGTAAAATGACCG
* * *
18192060 TAATACCCTCGA-AGGGTAAAATGACCA
1 AAATACCC-CCATAGGGTAAAATGACCG
* * *
18192087 AAATGCCCCCGA-AGGGTGAAATGATCG
1 AAATACCCCC-ATAGGGTAAAATGACCG
* * * * *
18192114 GAATACCCCTGA-AGGGTGAAATGATCA
1 AAATACCCC-CATAGGGTAAAATGACCG
* * *
18192141 AAATACCCCCGA-AGGGTCAAATGATCA
1 AAATACCCCC-ATAGGGTAAAATGACCG
18192168 AAATACCCCC-TAGGGTAAAATG
1 AAATACCCCCATAGGGTAAAATG
18192190 GCTGTTATAC
Statistics
Matches: 375, Mismatches: 67, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
26 76 0.20
27 297 0.79
28 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:18192393 original size:26 final size:26
Alignment explanation
Indices: 18192357--18192407 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
18192347 GGAAGTATAT
*
18192357 TGTTATTGGCAGCTTTG-TAGCGATAC
1 TGTTACTGGCAGCTTTGCT-GCGATAC
18192383 TGTTACTGGCAGCTTTGCTGCGATA
1 TGTTACTGGCAGCTTTGCTGCGATA
18192408 TTAGTGTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:18192565 original size:28 final size:28
Alignment explanation
Indices: 18192525--18192634 Score: 168
Period size: 28 Copynumber: 4.0 Consensus size: 28
18192515 ACTGTACTGG
18192525 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
18192553 TTACTATATTGGGCCAAGGCCCACAGTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
18192581 TTACTGTATTGGGCTAAGGCCTACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
18192609 TTACTGTATTGGGCTAATG-CCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
18192635 GTACTGTTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 6 0.08
28 67 0.92
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:18196721 original size:10 final size:10
Alignment explanation
Indices: 18196706--18196730 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18196696 GATAAGGTTG
18196706 AGGTTTTATA
1 AGGTTTTATA
18196716 AGGTTTTATA
1 AGGTTTTATA
18196726 AGGTT
1 AGGTT
18196731 AAATTACCCA
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:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
AGGTTTTATA
Found at i:18204380 original size:15 final size:15
Alignment explanation
Indices: 18204360--18204394 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
18204350 CCATCCAAAC
18204360 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
18204375 GTTTCAAACTAACTT
1 GTTTCAAACTAACTT
18204390 GTTTC
1 GTTTC
18204395 CTTCGACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (15 bp):
GTTTCAAACTAACTT
Found at i:18206549 original size:54 final size:54
Alignment explanation
Indices: 18206455--18206602 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 54
18206445 ATGTCCTAGC
* *
18206455 CCGTGTGCTAGGTCGTGTAACTCAT-TGAATTGCTC-TACACGCCCGTGTACCAGG
1 CCGTGTGCTAGGTCGTGTAACTC-TCTGAGTTGC-CACACACGCCCGTGTACCAGG
* * * *
18206509 TCGTGTGCTAGGTCGTGTAACTCTCTGCGTTGCCACACACGGCCGTGTGCCAGG
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
* * *
18206563 CCATGTGTTAGGACGTGTAACTCTCTGAGTTGCCACACAC
1 CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACAC
18206603 TCTCCTATGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 79 0.98
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (54 bp):
CCGTGTGCTAGGTCGTGTAACTCTCTGAGTTGCCACACACGCCCGTGTACCAGG
Done.