Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 268 of 335
Found at i:81153116 original size:49 final size:49
Alignment explanation
Indices: 81153035--81153341 Score: 537
Period size: 49 Copynumber: 6.3 Consensus size: 49
81153025 CCCTTCGGGA
* * * * * *
81153035 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81153082 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81153131 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
81153180 CTTATCACATATATACACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81153229 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81153278 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81153327 CTTATCACATATATA
1 CTTATCACATATATA
81153342 TATCTCATAC
Statistics
Matches: 250, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 10 0.04
48 1 0.00
49 239 0.96
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:81155931 original size:40 final size:40
Alignment explanation
Indices: 81155886--81156091 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
81155876 CGGAATACAA
*
81155886 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
81155926 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
81155966 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
81156006 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
81156046 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
81156086 CCGGAT
1 CCGGAT
81156092 GTCATTCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:81156026 original size:80 final size:80
Alignment explanation
Indices: 81155886--81156093 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
81155876 CGGAATACAA
* * * * *
81155886 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
81155951 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
81155966 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
81156030 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
81156046 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
81156094 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:81168233 original size:40 final size:40
Alignment explanation
Indices: 81168188--81168393 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
81168178 CGGAATACAA
*
81168188 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
81168228 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
81168268 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
81168308 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
81168348 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
81168388 CCGGAT
1 CCGGAT
81168394 GTCATTCAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:81168328 original size:80 final size:80
Alignment explanation
Indices: 81168188--81168395 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
81168178 CGGAATACAA
* * * * *
81168188 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
81168253 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
81168268 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
81168332 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
81168348 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
81168396 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:81173530 original size:22 final size:22
Alignment explanation
Indices: 81173497--81173564 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
81173487 CCAATATATT
*
81173497 AGCTCATAAGAGCTTACTGTTC
1 AGCTCAAAAGAGCTTACTGTTC
***
81173519 AGCTCGCCAGAGCTTACTGTTTC
1 AGCTCAAAAGAGCTTACTG-TTC
81173542 AGCTCAAAAGAGCTTACTGTTC
1 AGCTCAAAAGAGCTTACTGTTC
81173564 A
1 A
81173565 TTAGCTCAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 20 0.51
23 19 0.49
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (22 bp):
AGCTCAAAAGAGCTTACTGTTC
Found at i:81173546 original size:23 final size:23
Alignment explanation
Indices: 81173497--81173562 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
81173487 CCAATATATT
*
81173497 AGCTCATAAGAGCTTACTG-TTC
1 AGCTCAAAAGAGCTTACTGTTTC
***
81173519 AGCTCGCCAGAGCTTACTGTTTC
1 AGCTCAAAAGAGCTTACTGTTTC
81173542 AGCTCAAAAGAGCTTACTGTT
1 AGCTCAAAAGAGCTTACTGTT
81173563 CATTAGCTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.43
23 21 0.57
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (23 bp):
AGCTCAAAAGAGCTTACTGTTTC
Found at i:81179246 original size:39 final size:39
Alignment explanation
Indices: 81179132--81179353 Score: 243
Period size: 39 Copynumber: 5.6 Consensus size: 39
81179122 GCTACTCGTT
* * * *
81179132 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAACTCGCA
* *
81179172 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
81179212 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
81179251 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
81179290 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
81179331 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
81179354 ACATCATTCG
Statistics
Matches: 161, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 78 0.48
40 73 0.45
41 10 0.06
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:81179300 original size:78 final size:79
Alignment explanation
Indices: 81179132--81179353 Score: 261
Period size: 79 Copynumber: 2.8 Consensus size: 79
81179122 GCTACTCGTT
*
81179132 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
*
81179197 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * * *
81179212 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
81179275 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * * *
81179290 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CATAGCCCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCG
81179354 ACATCATTCG
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 36 0.30
79 60 0.50
80 25 0.21
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:81179315 original size:118 final size:120
Alignment explanation
Indices: 81179134--81179353 Score: 279
Period size: 118 Copynumber: 1.9 Consensus size: 120
81179124 TACTCGTTCA
*
81179134 AATGCCTTCAGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* * *
81179199 TTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * * **
81179253 AATGCCTTC-GGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
81179315 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
81179354 ACATCATTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
117 4 0.05
118 60 0.70
119 22 0.26
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:81187321 original size:39 final size:39
Alignment explanation
Indices: 81187209--81187413 Score: 313
Period size: 39 Copynumber: 5.2 Consensus size: 39
81187199 TACTCGTTCA
* * *
81187209 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACC
* *
81187249 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
*
81187289 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCACACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
81187328 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
*
81187367 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
81187406 AATGCCTT
1 AATGCCTT
81187414 TGGATCTTAG
Statistics
Matches: 156, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 108 0.69
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
Found at i:81187469 original size:40 final size:40
Alignment explanation
Indices: 81187207--81187469 Score: 283
Period size: 39 Copynumber: 6.6 Consensus size: 40
81187197 GCTACTCGTT
* *
81187207 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA-
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAC
* *
81187247 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* *
81187288 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACAC
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
*
81187327 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCAC
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
*
81187366 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA-
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* * * * *
81187404 CAAATGCCTT-TGGATCTTAGTCCGG-ATATGGTCACTTAGCA-
1 CAAA-GCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCAC
81187445 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
81187470 CATCATTCGA
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 5 0.03
39 106 0.53
40 72 0.36
41 16 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
Found at i:81191757 original size:18 final size:18
Alignment explanation
Indices: 81191731--81191805 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
81191721 CTTGGCCCAT
*
81191731 TACAGTAACAGTAAACAG
1 TACAATAACAGTAAACAG
81191749 TACAATAACAGTAAACAG
1 TACAATAACAGTAAACAG
** * * *
81191767 TGTAGTAGCAGT-AACGG
1 TACAATAACAGTAAACAG
81191784 TATGCAATAACAGTAAACAG
1 TA--CAATAACAGTAAACAG
81191804 TA
1 TA
81191806 TGCAAGTCCT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
17 5 0.12
18 25 0.58
19 7 0.16
20 6 0.14
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (18 bp):
TACAATAACAGTAAACAG
Found at i:81192302 original size:27 final size:27
Alignment explanation
Indices: 81192280--81192465 Score: 309
Period size: 27 Copynumber: 6.9 Consensus size: 27
81192270 TGAGGGTAAA
*
81192280 ATCGTTATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
81192307 ATCGTCATTTTTATCACATAAGGGCAAT
1 ATCGTCA-TTTTATCACATAAGGGCAAT
*
81192335 ATCGTTATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
* *
81192362 ATTGTCATTTTATCACATAAGGACAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
81192389 ATCGTCATTTTATCACATAAGGGTAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
81192416 ATTGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
81192443 ATCGTCATTTTATCACATAAGGG
1 ATCGTCATTTTATCACATAAGGG
81192466 TTCAAGTACG
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 121 0.82
28 26 0.18
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (27 bp):
ATCGTCATTTTATCACATAAGGGCAAT
Found at i:81192830 original size:16 final size:16
Alignment explanation
Indices: 81192809--81192853 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
81192799 CACTTTTTGG
81192809 CTTTTCAGCCTTTCGC
1 CTTTTCAGCCTTTCGC
** *
81192825 CTTTTCAGGTTTTCGG
1 CTTTTCAGCCTTTCGC
*
81192841 CTTTTCATCCTTT
1 CTTTTCAGCCTTT
81192854 GCAGTTTCAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.29, G:0.13, T:0.51
Consensus pattern (16 bp):
CTTTTCAGCCTTTCGC
Found at i:81196464 original size:16 final size:17
Alignment explanation
Indices: 81196443--81196478 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
81196433 AACGCCCCAA
81196443 AAAAATCCCGAAA-CCC
1 AAAAATCCCGAAATCCC
*
81196459 AAAAATCTCGAAATCCC
1 AAAAATCCCGAAATCCC
81196476 AAA
1 AAA
81196479 CTTTCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.53, C:0.31, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAATCCCGAAATCCC
Found at i:81197956 original size:29 final size:29
Alignment explanation
Indices: 81197912--81197973 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
81197902 GTTAGCATGA
*
81197912 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
81197940 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
81197969 ATATG
1 ATATG
81197974 CATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:81199379 original size:11 final size:11
Alignment explanation
Indices: 81199363--81199399 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
81199353 AAGCCCATTG
81199363 GGCCCAGTTTT
1 GGCCCAGTTTT
*
81199374 GGCCCA--TTG
1 GGCCCAGTTTT
81199383 GGCCCAGTTTT
1 GGCCCAGTTTT
81199394 GGCCCA
1 GGCCCA
81199400 TCGAGGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (11 bp):
GGCCCAGTTTT
Found at i:81199380 original size:20 final size:20
Alignment explanation
Indices: 81199355--81199400 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
81199345 TGGTCCGTAA
81199355 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
81199375 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
81199395 GCCCAT
1 GCCCAT
81199401 CGAGGCCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTTG
Found at i:81199414 original size:21 final size:20
Alignment explanation
Indices: 81199355--81199414 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
81199345 TGGTCCGTAA
* *
81199355 GCCCATTGGGCCCAGTTTTG
1 GCCCATCGGGCCCACTTTTG
* *
81199375 GCCCATTGGGCCCAGTTTTG
1 GCCCATCGGGCCCACTTTTG
*
81199395 GCCCATCGAGGCCCTCTTTT
1 GCCCATCG-GGCCCACTTTT
81199415 TCCGAAGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 27 0.75
21 9 0.25
ACGTcount: A:0.10, C:0.33, G:0.27, T:0.30
Consensus pattern (20 bp):
GCCCATCGGGCCCACTTTTG
Found at i:81200245 original size:15 final size:15
Alignment explanation
Indices: 81200221--81200250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
81200211 CTAATGTATT
81200221 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
81200236 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
81200251 ACAAGTATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:81202918 original size:49 final size:49
Alignment explanation
Indices: 81202848--81203105 Score: 439
Period size: 49 Copynumber: 5.3 Consensus size: 49
81202838 CCCCTCGGGA
* *
81202848 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
81202895 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
81202944 CTTATCACATTTATACACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81202993 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
81203042 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81203091 CTTATCACATATATA
1 CTTATCACATATATA
81203106 TACCTCATAC
Statistics
Matches: 200, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 10 0.05
48 1 0.00
49 189 0.94
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:81205182 original size:40 final size:41
Alignment explanation
Indices: 81205138--81205236 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 41
81205128 TCGATTGTCC
* * **
81205138 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
81205178 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
* *
81205219 TCGGGACTTAGCCTGGAT
1 TCGGGACATAGCCCGGAT
81205237 ACCATTCGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:81206024 original size:40 final size:40
Alignment explanation
Indices: 81205967--81206247 Score: 429
Period size: 40 Copynumber: 7.0 Consensus size: 40
81205957 CGAATACACG
* * * * *
81205967 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
81206007 TCACTAGCATGAATGCTCCTCGGAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
81206047 TCACTAGCATGAATGCTCCTCGGAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
* * *
81206087 TCGCTAGCACGAATGCTCTTCGAAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
81206127 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
81206167 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
81206207 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
81206246 TC
1 TC
81206248 GTCGAGACTT
Statistics
Matches: 226, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 4 0.02
40 222 0.98
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:81208648 original size:49 final size:49
Alignment explanation
Indices: 81208569--81208777 Score: 377
Period size: 49 Copynumber: 4.3 Consensus size: 49
81208559 CCCCTCGGGA
* *
81208569 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81208616 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81208665 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
81208714 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
81208763 CTTATCACATATATA
1 CTTATCACATATATA
81208778 TACCTCATAC
Statistics
Matches: 157, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 10 0.06
48 1 0.01
49 146 0.93
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:81216553 original size:16 final size:16
Alignment explanation
Indices: 81216518--81216561 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
81216508 ATGAAACGGC
* **
81216518 AAAAGCCGAAATGCTG
1 AAAAGCTGAAATGCAA
81216534 AAAAGCTGAAATGCAA
1 AAAAGCTGAAATGCAA
*
81216550 AAAAGTTGAAAT
1 AAAAGCTGAAAT
81216562 TTGGGCTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.16
Consensus pattern (16 bp):
AAAAGCTGAAATGCAA
Found at i:81219611 original size:19 final size:19
Alignment explanation
Indices: 81219579--81219625 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
81219569 ACTTGGGTTG
* *
81219579 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
81219598 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
81219617 TG-ATGGGCT
1 AGAATGGGCT
81219626 GTTGGACCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:81219747 original size:28 final size:28
Alignment explanation
Indices: 81219698--81219809 Score: 120
Period size: 28 Copynumber: 4.0 Consensus size: 28
81219688 GCATGAATAT
* *
81219698 AATATGATTTGGGCCTAATGGGCCATAG
1 AATATGAATTGGGCCTAGTGGGCCATAG
* *
81219726 AATGTGAATTGGGCCTAGTGGGTCATAAG
1 AATATGAATTGGGCCTAGTGGGCCAT-AG
* *
81219755 AATATAAATTGGGCCATA-TGGGCCATTTG
1 AATATGAATTGGGCC-TAGTGGGCCA-TAG
*
81219784 AATAAG-ATTGGGCCTAGTGGGCCATA
1 AATATGAATTGGGCCTAGTGGGCCATA
81219810 TACATGTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
27 3 0.04
28 37 0.54
29 26 0.38
30 3 0.04
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (28 bp):
AATATGAATTGGGCCTAGTGGGCCATAG
Found at i:81223622 original size:18 final size:18
Alignment explanation
Indices: 81223599--81223638 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
81223589 ACCATCGTAT
*
81223599 AATGAAAGTTC-TACGATC
1 AATGAAA-TTCATACAATC
81223617 AATGAAATTCATACAATC
1 AATGAAATTCATACAATC
81223635 AATG
1 AATG
81223639 TTTCAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (18 bp):
AATGAAATTCATACAATC
Found at i:81227404 original size:23 final size:23
Alignment explanation
Indices: 81227372--81227415 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
81227362 AAAATTTCAC
* *
81227372 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
81227395 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
81227416 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:81227555 original size:13 final size:13
Alignment explanation
Indices: 81227518--81227555 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
81227508 TAAAGCAGAG
*
81227518 AAAAGGAAAAAGA
1 AAAAGAAAAAAGA
81227531 AAAA-AAACAAAGA
1 AAAAGAAA-AAAGA
81227544 AAAAGAAAAAAG
1 AAAAGAAAAAAG
81227556 GAAGAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:81246401 original size:39 final size:39
Alignment explanation
Indices: 81246332--81246450 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
81246322 ATTATATTAT
* *
81246332 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
81246370 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
81246409 CAGCACGAAGCTTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
81246448 CAG
1 CAG
81246451 TGTCTTGCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 14 0.19
39 61 0.81
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:81256133 original size:111 final size:110
Alignment explanation
Indices: 81255937--81256156 Score: 334
Period size: 111 Copynumber: 2.0 Consensus size: 110
81255927 AATTGCAGGG
81255937 AAGGTTAGATATCTATAAAGGGGTTATATTGAGTTAAAAAAAATTAATTCATAAACTCCAGTAAT
1 AAGGTTAGATATCTATAAAGGGGTTATATTGAGTTAAAAAAAATTAATTCATAAACTCCAGTAAT
*
81256002 ACCTTGTACCCTATTCCGGCAATGAATACGGGTAGGGGGTATTATA
66 ACC-TATACCCTATTCCGGCAATGAATACGGGTAGGGGGTATTATA
* ** *
81256048 AAGGTTAGATATCTATAAAGGGGTTTTATTGAGTTTAAAAAAAAATTAATTTGTAAACTCCGGTA
1 AAGGTTAGATATCTATAAAGGGGTTATATTGAG-TT-AAAAAAAATTAATTCATAAACTCCAGTA
* * *
81256113 ATGCC-ATACCTTATTTCGGCAATGAATACGGGTAGGGGGTATTA
64 ATACCTATACCCTATTCCGGCAATGAATACGGGTAGGGGGTATTA
81256157 CAGTCTGTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
111 68 0.69
112 2 0.02
113 29 0.29
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (110 bp):
AAGGTTAGATATCTATAAAGGGGTTATATTGAGTTAAAAAAAATTAATTCATAAACTCCAGTAAT
ACCTATACCCTATTCCGGCAATGAATACGGGTAGGGGGTATTATA
Found at i:81272872 original size:27 final size:26
Alignment explanation
Indices: 81272828--81272879 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
81272818 CTCGCTGCAA
*
81272828 TCTGGTGTCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
81272855 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
81272880 GCAGCTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:81277313 original size:30 final size:30
Alignment explanation
Indices: 81277279--81277336 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
81277269 TTTTCAAATA
* * *
81277279 TAGGGGTAGAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
81277309 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
81277337 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:81277844 original size:46 final size:47
Alignment explanation
Indices: 81277673--81277891 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 47
81277663 TCATGTATGT
* * * * *
81277673 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-A
1 GAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGA-GACGTA
* * * * *
81277719 GAGCAAGTGTAAGACCATGTCGGGGACATGGCATCGGCATTGAGAC-AA
1 GAGCCAGTGTAAGA-CATGTCCGGGACAT-GCATCGGCCTCGAGACGTA
* * ** * *
81277767 GAGCTAGTGTAAGACATGTCTGAAACTTGCATCGGCCTCGGGACGTA
1 GAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACGTA
*
81277814 -AGCCAGTGTAAGACATGTCCAGGACATGCATCGG-CTACGAGACGT-
1 GAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCT-CGAGACGTA
* *
81277859 --GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCCGGGACAT-GCATC
81277892 AGCATGGATA
Statistics
Matches: 139, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 66 0.47
47 24 0.17
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACGTA
Found at i:81285144 original size:40 final size:40
Alignment explanation
Indices: 81285017--81285146 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
81285007 ATGCTGGAAA
* * *
81285017 TTATATCCGAGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
81285057 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
81285097 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
81285137 TTATATCCGG
1 TTATATCCGG
81285147 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:81288874 original size:40 final size:40
Alignment explanation
Indices: 81288766--81289015 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
81288756 CGGGATTTAA
* * * * *
81288766 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
81288806 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81288846 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81288886 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81288926 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81288966 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81289006 CCGGATATAT
1 CCGGATATAT
81289016 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:81297049 original size:40 final size:40
Alignment explanation
Indices: 81296941--81297150 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
81296931 CGGGATTTAA
* * * * *
81296941 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
81296981 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81297021 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81297061 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81297101 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
81297141 CCGGATATAT
1 CCGGATATAT
81297151 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:81300058 original size:40 final size:40
Alignment explanation
Indices: 81299931--81300060 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
81299921 ATGCTGGAAA
* * *
81299931 TTATATCCGAGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
81299971 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
81300011 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
81300051 TTATATCCGG
1 TTATATCCGG
81300061 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:81301828 original size:25 final size:27
Alignment explanation
Indices: 81301800--81301851 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
81301790 CACAACTTTT
81301800 ACAAAGTGATTTTTGAT-AAAA-ATAA
1 ACAAAGTGATTTTTGATGAAAACATAA
81301825 ACAAAGTGATTTTTGATGAAAACATAA
1 ACAAAGTGATTTTTGATGAAAACATAA
81301852 TTTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 17 0.68
26 4 0.16
27 4 0.16
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (27 bp):
ACAAAGTGATTTTTGATGAAAACATAA
Found at i:81306117 original size:32 final size:32
Alignment explanation
Indices: 81306081--81306161 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
81306071 CTAAATTTTG
* * *
81306081 GGCCCACATGGCCTAAA-TTGCCTTGCCCGTGT
1 GGCCCACATGGCCCAAATTTG-CTTGCACATGT
* * *
81306113 GGCCCACACGACCCAAATTTGTTTGCACATGT
1 GGCCCACATGGCCCAAATTTGCTTGCACATGT
81306145 GGCCCACATGGCCCAAA
1 GGCCCACATGGCCCAAA
81306162 ATGACCTAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 37 0.93
33 3 0.08
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (32 bp):
GGCCCACATGGCCCAAATTTGCTTGCACATGT
Found at i:81318932 original size:27 final size:27
Alignment explanation
Indices: 81318901--81319166 Score: 171
Period size: 27 Copynumber: 9.8 Consensus size: 27
81318891 CGGTTTACAG
*
81318901 AATTACCGTTCTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
81318928 AATTACCATTTTACCCTCGATTCATAG
1 AATTACCGTTTTACCCTCGATTTATAA
81318955 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTATAA
***** * *
81318982 AATTACTAAAATACTCCTAG-TTTGTAA
1 AATTACCGTTTTAC-CCTCGATTTATAA
***** * *
81319009 AATTACTAAAGTACCC-CTAATTTGTAA
1 AATTACCGTTTTACCCTC-GATTTATAA
* ***
81319036 AATTACTGAAATACCCTCGACTTGTA-AA
1 AATTACCGTTTTACCCTCGA-TT-TATAA
**** *
81319064 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
81319091 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
81319118 AATTACTGTTTTACCC-CTGATTTACAA
1 AATTACCGTTTTACCCTC-GATTTATAA
81319145 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
81319167 GTGAAATTAC
Statistics
Matches: 197, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
26 5 0.03
27 164 0.83
28 27 0.14
29 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTATAA
Found at i:81319095 original size:55 final size:54
Alignment explanation
Indices: 81318966--81319098 Score: 162
Period size: 55 Copynumber: 2.4 Consensus size: 54
81318956 ATTACCGTTT
* * *
81318966 TACCCTCGATTTATAAAATTACTAAAATACTCCTAGTTTGTAAAATTACTAAAG
1 TACCCTCGATTTATAAAATTACTGAAATACTCCTAGCTTGTAAAATTACCAAAG
* * *
81319020 TACCC-CTAATTTGTAAAATTACTGAAATAC-CCTCGACTTGTAAAAATTACCAAAG
1 TACCCTC-GATTTATAAAATTACTGAAATACTCCTAG-CTTGT-AAAATTACCAAAG
*
81319075 TACCCTCGATTTATAGAATTACTG
1 TACCCTCGATTTATAAAATTACTG
81319099 TTTTACCCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 5 0.08
54 29 0.44
55 31 0.47
56 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTGAAATACTCCTAGCTTGTAAAATTACCAAAG
Found at i:81319160 original size:136 final size:134
Alignment explanation
Indices: 81318912--81319186 Score: 286
Period size: 136 Copynumber: 2.0 Consensus size: 134
81318902 ATTACCGTTC
***
81318912 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTCATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTCATAGAATTACCGTTTTACCCTCGATT
* * ** *
81318977 TATAAAATTACTAAAATACTCCTAGTTTGTAAAATTACTAAAGTACCC-CTAATTTGTAAAATTA
66 TACAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAGTACCCTC-AA-TTGTAAAATTA
*
81319041 CTGAAA
129 CTAAAA
* *
81319047 TACCCTCGACTTGTA-AAAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCGA
1 TACCCTCGA-TT-TATAAAATTACCAAAGTACCCTCGATTCATAGAATTACCGTTTTACCCTCGA
* **** **** * *
81319111 TTTACAGAATTACTGTTTTACCCCT-GATTTACAAAATTACCGTTTTACCCTCGATTGTGAAATT
64 TTTACAAAATTACTAAAATACCCCTAG-TTTACAAAATTACCAAAGTACCCTCAATTGTAAAATT
81319175 ACTAAAA
128 ACTAAAA
81319182 TACCC
1 TACCC
81319187 CTATAAGGTA
Statistics
Matches: 114, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
135 30 0.26
136 81 0.71
137 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (134 bp):
TACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTCATAGAATTACCGTTTTACCCTCGATT
TACAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAGTACCCTCAATTGTAAAATTACT
AAAA
Found at i:81319188 original size:27 final size:26
Alignment explanation
Indices: 81319158--81319246 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
81319148 TACCGTTTTA
* *
81319158 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTAGATTGT-AAATTACCAAAATAC
* ** *
81319185 CCCTATAAGGTAGAATTACCAAAACAC
1 CCCTAGATTGTA-AATTACCAAAATAC
*
81319212 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGT-AAATTACCAAAATAC
81319239 CCCT-GATT
1 CCCTAGATT
81319247 TACAAAATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
26 4 0.08
27 43 0.90
28 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (26 bp):
CCCTAGATTGTAAATTACCAAAATAC
Found at i:81319253 original size:27 final size:27
Alignment explanation
Indices: 81319198--81319274 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
81319188 TATAAGGTAG
* **
81319198 AATTACCAAAACACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTACAA
81319225 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTACAA
*
81319252 AATTA-CAGAAATACCCTTGATTT
1 AATTACCA-AAATACCCCTGATTT
81319275 GTAGATTTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.05
27 41 0.93
28 1 0.02
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTACAA
Found at i:81319276 original size:54 final size:54
Alignment explanation
Indices: 81318968--81319294 Score: 184
Period size: 54 Copynumber: 6.0 Consensus size: 54
81318958 TACCGTTTTA
* * *
81318968 CCCTCGATTTATAAAATTACTA-AAATACTCCTAG-TTTGTAAAATTACTAAAGTAC
1 CCCT-GATTTATAAAATTAC-AGAAATAC-CCTCGATTTGTAAAATTACCAAAATAC
* * * * *
81319023 CCCTAATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTA-
1 CCCTGATTTATAAAATTACAGAAATACCCTCGATTTGT-AAAATTACCAAAATAC
* * *** ** * *****
81319077 CCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
1 CCCT-GATTTATAAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATAC
* * *** * *
81319132 CCCTGATTTACAAAATTACCGTTTTACCCTCGA-TTGTGAAATTACTAAAATAC
1 CCCTGATTTATAAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATAC
* * * *
81319185 CCCT-A-TAAGGTAGAATTACCA-AAACACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTA--TAAAATTA-CAGAAATACCCTCGA-TTTGTAAAATTACCAAAATAC
* * * * *
81319239 CCCTGATTTACAAAATTACAGAAATACCCTTGATTTGTAGATTTACCAAAACAC
1 CCCTGATTTATAAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATAC
81319293 CC
1 CC
81319295 TTGTAGGATG
Statistics
Matches: 206, Mismatches: 52, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
51 2 0.01
52 3 0.01
53 32 0.16
54 118 0.57
55 49 0.24
56 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (54 bp):
CCCTGATTTATAAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAATAC
Found at i:81319369 original size:27 final size:27
Alignment explanation
Indices: 81319328--81319392 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
81319318 ACCCCTAAAA
* * *
81319328 GGTAAAAAGACCGTAA-AGCCTCTGTAG
1 GGTAAAATGATCGTAATACCCT-TGTAG
* *
81319355 GGTAAAGTGATCGTAATACCCTTGTAT
1 GGTAAAATGATCGTAATACCCTTGTAG
81319382 GGTAAAATGAT
1 GGTAAAATGAT
81319393 GAATACGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (27 bp):
GGTAAAATGATCGTAATACCCTTGTAG
Found at i:81320800 original size:46 final size:45
Alignment explanation
Indices: 81320747--81320922 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
81320737 TATTTGGGCA
81320747 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
81320793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
81320840 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
81320886 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81320923 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:81320902 original size:93 final size:93
Alignment explanation
Indices: 81320743--81320914 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
81320733 AGGATATTTG
* *
81320743 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81320808 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
81320836 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81320901 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
81320915 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:81323874 original size:15 final size:15
Alignment explanation
Indices: 81323848--81323917 Score: 99
Period size: 15 Copynumber: 4.7 Consensus size: 15
81323838 ATATCTTGGG
81323848 TTTCTTTA-TCTGGA
1 TTTCTTTATTCTGGA
*
81323862 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
81323877 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
81323892 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
81323907 TTTCTTTATTC
1 TTTCTTTATTC
81323918 GTTTTCTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.18
15 38 0.78
16 2 0.04
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:81323892 original size:30 final size:30
Alignment explanation
Indices: 81323839--81323917 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
81323829 CATAGTATCA
* *
81323839 TATCTTGGGTTTCTTTA-TCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
81323868 TAT-TCTGGATTTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
81323898 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
81323918 GTTTTCTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 14 0.32
30 28 0.64
31 1 0.02
ACGTcount: A:0.13, C:0.16, G:0.14, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:81326355 original size:46 final size:45
Alignment explanation
Indices: 81326302--81326477 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
81326292 TATTTGGGCA
81326302 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
81326348 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
81326395 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
81326441 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81326478 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:81326457 original size:93 final size:93
Alignment explanation
Indices: 81326298--81326469 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
81326288 AGGATATTTG
* *
81326298 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81326363 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
81326391 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81326456 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
81326470 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:81328421 original size:20 final size:20
Alignment explanation
Indices: 81328396--81328462 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
81328386 GATATGATAT
*
81328396 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
81328416 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
81328436 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
81328456 ACATGAT
1 ACATGAT
81328463 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:81328572 original size:51 final size:50
Alignment explanation
Indices: 81328512--81328646 Score: 220
Period size: 51 Copynumber: 2.7 Consensus size: 50
81328502 GAGGAAGTGC
*
81328512 AAAAGGGCTTATGCCCCAGTTTATTAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAGGGCTT-TGCCCCAGTTTACCA
81328563 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATT-AAAAGGGCTTTGCCCCAGTTTACCA
81328614 AAAAGGGCTT-TGCCCCAG-TTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAG-GGCT
81328647 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 49 0.60
52 10 0.12
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:81328573 original size:26 final size:26
Alignment explanation
Indices: 81328512--81328633 Score: 178
Period size: 25 Copynumber: 4.8 Consensus size: 26
81328502 GAGGAAGTGC
**
81328512 AAAAGGGCTTATGCCCCAGTTTA-TT
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
81328537 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
**
81328563 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCA
81328589 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
81328614 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
81328634 ATTAAAAGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 56 0.63
26 33 0.37
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:81328859 original size:42 final size:42
Alignment explanation
Indices: 81328779--81328866 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
81328769 TAGTCTCCCC
* ** *
81328779 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
81328821 AAATGGGCTTGCATACATCCATTGACATTACTTGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
81328863 AAAT
1 AAAT
81328867 AGGCCTATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:81328927 original size:31 final size:31
Alignment explanation
Indices: 81328892--81328972 Score: 153
Period size: 31 Copynumber: 2.6 Consensus size: 31
81328882 ACCGTTTACA
*
81328892 GAAAAGGCTTTGGCCCAGTGATATGATTTAT
1 GAAAAGGCTTCGGCCCAGTGATATGATTTAT
81328923 GAAAAGGCTTCGGCCCAGTGATATGATTTAT
1 GAAAAGGCTTCGGCCCAGTGATATGATTTAT
81328954 GAAAAGGCTTCGGCCCAGT
1 GAAAAGGCTTCGGCCCAGT
81328973 AACCGTTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
GAAAAGGCTTCGGCCCAGTGATATGATTTAT
Found at i:81331274 original size:13 final size:13
Alignment explanation
Indices: 81331254--81331291 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
81331244 CCAAAGCAGT
81331254 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
* *
81331267 GTAAAAGAACAAA
1 GAAAAAGAAAAAA
81331280 GAAAAAGAAAAA
1 GAAAAAGAAAAA
81331292 TGGAAGAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.03
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:81331614 original size:66 final size:66
Alignment explanation
Indices: 81331508--81331638 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
81331498 CACTGAATTA
81331508 AACTTAAGTCAATACTTCAACGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
1 AACTTAAGTCAATACTTCAACGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
81331573 G
66 G
* * *
81331574 AACTTAAGTTAATACTTCAAGGGTAAGGATTTGGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
1 AACTTAAGTCAATACTTCAACGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
81331639 AAGACTCGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (66 bp):
AACTTAAGTCAATACTTCAACGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
G
Found at i:81336539 original size:27 final size:27
Alignment explanation
Indices: 81336398--81336714 Score: 401
Period size: 27 Copynumber: 11.9 Consensus size: 27
81336388 CCAAATTGAT
*
81336398 AAATGATTGTTTTGCCCTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
81336424 AAATGACTATTTTGCCCTTA-GTGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
81336450 AAATGACTGTTTTGCCCTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
81336476 AAATGACTGTTTTGCCCTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
81336502 AAATGTCTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
81336529 AAATGATTGTTTTGCCCTTATGTAGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
81336556 AAATGACTATTTTTGCTCTTATGTGGTA
1 AAATGACT-GTTTTGCCCTTATGTGGTA
* *
81336584 AAATAATTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
81336611 AAATGATTGTTTTGCCCTTATGTGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
81336638 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * * *
81336665 AAATGACTATTTTACCCTTATATGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
81336692 AGATGACTATTTTGCTC-TATGTG
1 AAATGACTGTTTTGCCCTTATGTG
81336715 ATGTATACAT
Statistics
Matches: 258, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 97 0.38
27 139 0.54
28 22 0.09
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:81336985 original size:38 final size:38
Alignment explanation
Indices: 81336934--81337021 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
81336924 GTGCTAATTC
* **
81336934 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCGTA
1 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
81336972 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
1 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
81337010 TGGAGTGTAGGG
1 TGGAGTGTAGGG
81337022 TTGGACGGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.20, C:0.10, G:0.40, T:0.30
Consensus pattern (38 bp):
TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
Found at i:81337089 original size:18 final size:18
Alignment explanation
Indices: 81337066--81337112 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
81337056 AGGACTTGTA
81337066 TACTGTTACTACACTGAT
1 TACTGTTACTACACTGAT
* *
81337084 TACTGTTATTGCACTGAT
1 TACTGTTACTACACTGAT
*
81337102 TATTGTTACTA
1 TACTGTTACTA
81337113 TAATGGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (18 bp):
TACTGTTACTACACTGAT
Found at i:81345361 original size:17 final size:18
Alignment explanation
Indices: 81345333--81345371 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
81345323 CCGAGTTTGT
81345333 TTTCACGAAAAT-AGTTG
1 TTTCACGAAAATCAGTTG
81345350 ATTTCA-GAAAATCAGTTG
1 -TTTCACGAAAATCAGTTG
81345368 TTTC
1 TTTC
81345372 CATAAAGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTCACGAAAATCAGTTG
Found at i:81347065 original size:44 final size:43
Alignment explanation
Indices: 81347003--81347131 Score: 179
Period size: 44 Copynumber: 3.0 Consensus size: 43
81346993 ATAGGATTCT
* *
81347003 GATATGTGATTTTGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTGATTATATGTAAGACCACGTCTGGGACATTGGCATC
* * *
81347046 GATTTGTGATT-TGCATGTAAGACCATGTCTGGGACAGTGGCATC
1 GATATGTGATTAT--ATGTAAGACCACGTCTGGGACATTGGCATC
*
81347090 GATATGTGATTATATGTAAGACCACATCTGGGACATTGGCAT
1 GATATGTGATTATATGTAAGACCACGTCTGGGACATTGGCAT
81347132 TGTACGAGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 36 0.48
44 37 0.49
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GATATGTGATTATATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:81349630 original size:40 final size:39
Alignment explanation
Indices: 81349520--81349669 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
81349510 TTAATCACGT
* * *
81349520 GCACAAATGCCTTC-GGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
81349559 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
81349599 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
81349639 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
81349670 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 28 0.30
40 64 0.70
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:81364447 original size:71 final size:71
Alignment explanation
Indices: 81364361--81364524 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81364351 CGATTTGTCT
81364361 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
81364426 CTTTCA
66 CTTTCA
81364432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
81364497 CTTTCA
66 CTTTCA
81364503 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
81364525 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:81364562 original size:71 final size:70
Alignment explanation
Indices: 81364361--81364558 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
81364351 CGATTTGTCT
* * * *
81364361 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
81364426 CTTTCA
65 CTTTCA
* * * *
81364432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
81364497 CTTTCA
65 CTTTCA
* *
81364503 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
81364559 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:81375087 original size:40 final size:40
Alignment explanation
Indices: 81375028--81375168 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
81375018 AATGTTATAC
* * * * *
81375028 CCGGGATAAGTCCCAAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATCAAAT
* ** *
81375068 CCGGGCTAAGACGCGAAGGCATTCGTGCGAGTTG-TCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATCAAAT
* * *
81375108 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATCAAAT
*
81375148 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
81375169 ATTGTGCTTG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 80 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATCAAAT
Found at i:81382673 original size:40 final size:40
Alignment explanation
Indices: 81382618--81382785 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
81382608 CATTTGAATG
* * *
81382618 TTATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA
* * *
81382658 TTATATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTTG-
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGA
* * * * *
81382698 TCAAATCTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA
** * * * * *
81382738 CCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA
81382778 TTATATCC
1 TTATATCC
81382786 AGTTAGATTC
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA
Found at i:81384789 original size:27 final size:28
Alignment explanation
Indices: 81384711--81384826 Score: 112
Period size: 27 Copynumber: 4.2 Consensus size: 28
81384701 CAGCATGGCT
* * *
81384711 ACCAGATACAGAGA-ATGTGACAGAGTC
1 ACCAGATACAGATATATGTGGCAGAGCC
* *
81384738 ACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGATACAGATA-TATGTGGCAGAGCC
*
81384767 ACCAGA-ACAGATATATGTGGCAGGGCC
1 ACCAGATACAGATATATGTGGCAGAGCC
* * *
81384794 ACCAGA-ACAGATAATTTATGGCATAGCC
1 ACCAGATACAGAT-ATATGTGGCAGAGCC
81384822 ACCAG
1 ACCAG
81384827 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
27 37 0.49
28 23 0.31
29 15 0.20
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
ACCAGATACAGATATATGTGGCAGAGCC
Found at i:81384816 original size:55 final size:56
Alignment explanation
Indices: 81384711--81384826 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
81384701 CAGCATGGCT
* * *
81384711 ACCAGATACAGAGAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCC
1 ACCAGATACAGAGAATGTGACAGAGCCACCAGATACAGATAATTTATGGCA-TAGCC
* * *
81384767 ACCAGA-ACAGATATATGTGGCAGGGCCACCAGA-ACAGATAATTTATGGCATAGCC
1 ACCAGATACAGAGA-ATGTGACAGAGCCACCAGATACAGATAATTTATGGCATAGCC
81384822 ACCAG
1 ACCAG
81384827 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
ACCAGATACAGAGAATGTGACAGAGCCACCAGATACAGATAATTTATGGCATAGCC
Found at i:81384975 original size:28 final size:28
Alignment explanation
Indices: 81384935--81385024 Score: 153
Period size: 28 Copynumber: 3.2 Consensus size: 28
81384925 TTAACCCTAA
* *
81384935 GGGTATAAAGGTAATTTTGCATACATAG
1 GGGTATTATGGTAATTTTGCATACATAG
*
81384963 GGGTATTATGGTAATTTTGCATACATAA
1 GGGTATTATGGTAATTTTGCATACATAG
81384991 GGGTATTATGGTAATTTTGCATACATAG
1 GGGTATTATGGTAATTTTGCATACATAG
81385019 GGGTAT
1 GGGTAT
81385025 AATAGTACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.37
Consensus pattern (28 bp):
GGGTATTATGGTAATTTTGCATACATAG
Found at i:81392612 original size:28 final size:27
Alignment explanation
Indices: 81392569--81392658 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
81392559 GTGACAGAGT
*
81392569 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
81392598 CATCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
* **
81392625 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
81392653 CACCAG
1 CACCAG
81392659 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
27 23 0.44
28 23 0.44
29 6 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:81392810 original size:28 final size:28
Alignment explanation
Indices: 81392779--81392855 Score: 154
Period size: 28 Copynumber: 2.8 Consensus size: 28
81392769 TATAAAGGTC
81392779 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
81392807 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
81392835 ATTTTGCATACATAGGGGTAT
1 ATTTTGCATACATAGGGGTAT
81392856 AATAGTACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.39
Consensus pattern (28 bp):
ATTTTGCATACATAGGGGTATTATGGTA
Found at i:81393118 original size:8 final size:8
Alignment explanation
Indices: 81393102--81393133 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
81393092 CCCAAAATAC
81393102 CGGCTTTT
1 CGGCTTTT
*
81393110 CGGCATTT
1 CGGCTTTT
81393118 CGGCTTTT
1 CGGCTTTT
81393126 CGGCTTTT
1 CGGCTTTT
81393134 GCCGATCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:81395997 original size:33 final size:33
Alignment explanation
Indices: 81395952--81396020 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
81395942 TCAAGGCCCT
81395952 CTTTTCCCGAAGTACGTTAAGACGTCACAAAAA
1 CTTTTCCCGAAGTACGTTAAGACGTCACAAAAA
*
81395985 CTTTTCCTGAAGTACGTTAAGACGTCACAAAAA
1 CTTTTCCCGAAGTACGTTAAGACGTCACAAAAA
81396018 CTT
1 CTT
81396021 ACTTACCACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (33 bp):
CTTTTCCCGAAGTACGTTAAGACGTCACAAAAA
Found at i:81403677 original size:40 final size:40
Alignment explanation
Indices: 81403618--81403893 Score: 453
Period size: 40 Copynumber: 6.9 Consensus size: 40
81403608 CTCGACGATG
* *
81403618 ATCCGGGCTAAATCTCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
81403658 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
*
81403698 ATTCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
81403738 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
81403778 ATCCGGGCTAAATCCCAAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
81403818 ATCCGGGCTAAGTCCCGAAGGGCATTCATGTCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
* * * *
81403858 ATCCGGGCTAAATCTCAAAGGGCATTCATGCCGGTG
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
81403894 ATGTGTATTC
Statistics
Matches: 222, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:81409828 original size:38 final size:38
Alignment explanation
Indices: 81409726--81409830 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 38
81409716 AATTCGAGTT
* * ** *
81409726 TAAAGACCCGCTGACTATACGTAGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATATATAGAGATTATGTCCGGA
* *
81409764 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGGA
1 TAAAGACCCGATGGCTATATATAGAGATTATGTCCGGA
*
81409802 TTAAGACCC-ACTGGCT-TCATATAGAGATT
1 TAAAGACCCGA-TGGCTAT-ATATAGAGATT
81409831 TCATCCGAGC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 2 0.04
38 53 0.96
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (38 bp):
TAAAGACCCGATGGCTATATATAGAGATTATGTCCGGA
Found at i:81409914 original size:40 final size:40
Alignment explanation
Indices: 81409858--81410133 Score: 480
Period size: 40 Copynumber: 6.9 Consensus size: 40
81409848 CTCGACGATG
*
81409858 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
81409898 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
*
81409938 ATTCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
81409978 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
*
81410018 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
*
81410058 ATCCGGGCTAAGTCCCGAAGGGCATTCATGCCGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
* * * *
81410098 ATCCGGGCTAAATCTCGATGGGCATTCATGCCGGTG
1 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
81410134 ATGTGTATTC
Statistics
Matches: 227, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:81413325 original size:71 final size:71
Alignment explanation
Indices: 81413241--81413404 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81413231 CGATTTGTCT
81413241 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
81413306 CTTTCA
66 CTTTCA
81413312 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
81413377 CTTTCA
66 CTTTCA
81413383 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
81413405 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:81413442 original size:71 final size:70
Alignment explanation
Indices: 81413241--81413438 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
81413231 CGATTTGTCT
* * * *
81413241 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
81413306 CTTTCA
65 CTTTCA
* * * *
81413312 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
81413377 CTTTCA
65 CTTTCA
* *
81413383 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
81413439 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:81424514 original size:40 final size:40
Alignment explanation
Indices: 81424459--81424662 Score: 223
Period size: 40 Copynumber: 5.1 Consensus size: 40
81424449 TGAATGATAC
* * *
81424459 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
81424499 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
81424539 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
81424579 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * * *
81424619 CCGGGTTAAGACCCTAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
81424659 CCGG
1 CCGG
81424663 TTAAATTCTG
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 131 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:81424594 original size:80 final size:80
Alignment explanation
Indices: 81424459--81424662 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
81424449 TGAATGATAC
* * * *
81424459 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTA
* ** *
81424524 TGCTAGTGATTATAT
66 TGCAAGTGACCAAAT
* *
81424539 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTT
* *
81424603 GTGCAAGTTACCAAAT
65 ATGCAAGTGACCAAAT
* * * *
81424619 CCGGGTTAAGACCCTAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATATCCGG
81424663 TTAAATTCTG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
79 3 0.03
80 99 0.94
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCAAGTGACCAAAT
Found at i:81434114 original size:28 final size:28
Alignment explanation
Indices: 81434083--81434187 Score: 201
Period size: 28 Copynumber: 3.8 Consensus size: 28
81434073 TATAAAGGTC
81434083 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
81434111 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
*
81434139 ATTTTGCATACATAGGTGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
81434167 ATTTTGCATACATAGGGGTAT
1 ATTTTGCATACATAGGGGTAT
81434188 AATAGTACAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.40
Consensus pattern (28 bp):
ATTTTGCATACATAGGGGTATTATGGTA
Found at i:81438158 original size:40 final size:40
Alignment explanation
Indices: 81438114--81438299 Score: 223
Period size: 40 Copynumber: 4.7 Consensus size: 40
81438104 CACATGCATG
* *
81438114 AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACA
* ** *
81438154 AATGCCTTCGGGTATTAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACA
** *
81438194 AATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACA
* *
81438234 AATGCCTTCGGGTCTTAGCCCGGAT-GTAGTC-ACTAGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATAG-A-ACAACTCGCACA
* *
81438274 ATTGCCTTCGGGTCTTAACCCGGATA
1 AATGCCTTCGGGTCTTAGCCCGGATA
81438300 TAATTACCAG
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 129 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACA
Found at i:81438246 original size:80 final size:80
Alignment explanation
Indices: 81438113--81438299 Score: 252
Period size: 80 Copynumber: 2.3 Consensus size: 80
81438103 CCACATGCAT
* *
81438113 GAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGA
1 GAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACAAATGCCTTCGGGTATTAGCCCGGA
* *
81438178 TTTA-ACAACTCGCAC
66 TGTAGAC-ACTAGCAC
** * *
81438193 GAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGA
1 GAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACAAATGCCTTCGGGTATTAGCCCGGA
*
81438258 TGTAGTCACTAGCAC
66 TGTAGACACTAGCAC
*
81438273 -AATTGCCTTCGGGTCTTAACCCGGATA
1 GAA-TGCCTTCGGGTCTTAGCCCGGATA
81438300 TAATTACCAG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 91 0.97
81 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTCGCACAAATGCCTTCGGGTATTAGCCCGGA
TGTAGACACTAGCAC
Found at i:81438323 original size:40 final size:39
Alignment explanation
Indices: 81438114--81438340 Score: 213
Period size: 40 Copynumber: 5.7 Consensus size: 39
81438104 CACATGCATG
* * *
81438114 AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAAC-CGCACA
* * *
81438154 AATGCCTTCGGGTATTAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAAC-CGCACA
* *
81438194 AATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAAC-CGCACA
* * *
81438234 AATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATA-ACAAC-CGCACA
* * ** *
81438274 ATTGCCTTCGGGTCTTAACCCGGATATAATTACCAGCATA
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACC-GCACA
* ** *
81438314 AATGTCTTCGGAACTTAGCCCAGATAT
1 AATGCCTTCGGGTCTTAGCCCGGATAT
81438341 CATTCAATTG
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 159 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACCGCACA
Found at i:81438323 original size:80 final size:79
Alignment explanation
Indices: 81438113--81438334 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
81438103 CCACATGCAT
* * * *
81438113 GAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGA
1 GAATGCCTTCGGGTCTTAGCCCGGATATAACAAC-CGCACAAATGCCTTCGGGTCTTAGCCCGGA
* *
81438178 TTTAACAACTCGCAC
65 TGTAACAACTAGCAC
* *
81438193 GAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGA
1 GAATGCCTTCGGGTCTTAGCCCGGATATAACAAC-CGCACAAATGCCTTCGGGTCTTAGCCCGGA
*
81438258 TGTAGTC-ACTAGCAC
65 TGTA-ACAACTAGCAC
* ** * * **
81438273 -AATTGCCTTCGGGTCTTAACCCGGATATAATTACCAGCATAAATGTCTTCGGAACTTAGCCC
1 GAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACC-GCACAAATGCCTTCGGGTCTTAGCCC
81438335 AGATATCATT
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
79 3 0.02
80 117 0.97
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GAATGCCTTCGGGTCTTAGCCCGGATATAACAACCGCACAAATGCCTTCGGGTCTTAGCCCGGAT
GTAACAACTAGCAC
Found at i:81438331 original size:120 final size:120
Alignment explanation
Indices: 81438113--81438334 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 120
81438103 CCACATGCAT
* *
81438113 GAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGA
1 GAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCCGGA
* * **
81438178 TTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCAC
66 TATAACAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATTTAACAACTCGCAC
* * *
81438233 GAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 GAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAACCCG
** * *
81438296 GATATAATTAC-CAGCATAAATGTCTTCGGAACTTAGCCC
64 GATATAACAACTC-GCACAAATGCCTTCGGAACTTAGCCC
81438335 AGATATCATT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 3 0.03
120 82 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
GAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCCGGA
TATAACAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATTTAACAACTCGCAC
Found at i:81445880 original size:40 final size:40
Alignment explanation
Indices: 81445817--81446003 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
81445807 ATAACCACAT
* * ** * * *
81445817 GCACGAATGCCTTTGGGCCTTAGCCCGAATAGAACGAGTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTC
* * * *
81445857 GCACAAATGCCTTCGGGTATTAGCCTGGATTTAACAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTC
81445897 GCACGAATGCCTTCGGGTCTTAGCCC-AGATTTAACAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGA-ATTTAACAACTC
* * *** *
81445937 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTTACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTC
*
81445977 GCAC-AATTGCCTTCGGGTCTTAACCCG
1 GCACGAA-TGCCTTCGGGTCTTAGCCCG
81446004 GATATAATTA
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 120 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTC
Found at i:81445950 original size:80 final size:80
Alignment explanation
Indices: 81445801--81446003 Score: 205
Period size: 80 Copynumber: 2.5 Consensus size: 80
81445791 CGGAATACGA
* * * * * *
81445801 CCGGATATAACCAC-ATGCACGAATGCCTTTGGGCCTTAGCCCGAATAGAACGAGTTGCACAAAT
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACAACTCGCACAAAT
81445865 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAGC
* * * ** *
81445881 CTGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCC-AGATTTAACAACTCGCACGAAT
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGCCCGA-ATAGAACAACTCGCACAAAT
*
81445945 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTATTAGC
*** *
81445961 CCGGATATAGTTACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
1 CCGGATATAACAACTAGCACGAA-TGCCTTCGGGTCTTAGCCCG
81446004 GATATAATTA
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
79 3 0.03
80 96 0.97
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACAACTCGCACAAATG
CCTTCGGGTATTAGC
Found at i:81446004 original size:40 final size:39
Alignment explanation
Indices: 81445857--81446047 Score: 177
Period size: 40 Copynumber: 4.8 Consensus size: 39
81445847 AGAACGAGTT
* * * ** *
81445857 GCACAAATGCCTTCGGGTATTAGCCTGGATTTAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
* * ** *
81445897 GCACGAATGCCTTCGGGTCTTAGCCCAGATTTAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
*
81445937 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTTACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
* *
81445977 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTACCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACTA
* * *
81446017 GCATAAATGTCTTC-GGACTTAGCCCGGATAT
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATAT
81446048 CATTCAATTG
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.13
40 113 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
Found at i:81449292 original size:40 final size:40
Alignment explanation
Indices: 81449236--81449403 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
81449226 CAATTGAATG
* * *
81449236 ATATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
81449277 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
81449316 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
81449356 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
81449396 ATATCCGG
1 ATATCCGG
81449404 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:81449369 original size:80 final size:79
Alignment explanation
Indices: 81449236--81449403 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
81449226 CAATTGAATG
* *
81449236 ATATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
81449301 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
81449316 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
81449380 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
81449396 ATATCCGG
1 ATATCCGG
81449404 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:81462575 original size:46 final size:45
Alignment explanation
Indices: 81462519--81462694 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
81462509 TGTTTGGGCA
*
81462519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
*** * * * *
81462565 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAAAG
* *
81462610 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* * * *
81462657 ACTCGAGCTCATTGAGTTGAGTCCGATTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81462695 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.65
47 35 0.33
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:81464212 original size:14 final size:14
Alignment explanation
Indices: 81464189--81464222 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
81464179 TTCAGAAAAG
*
81464189 TATGAATAAAAGTT
1 TATGATTAAAAGTT
81464203 TATGATTAAAAGTT
1 TATGATTAAAAGTT
81464217 TATGAT
1 TATGAT
81464223 ACATATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
TATGATTAAAAGTT
Found at i:81468054 original size:46 final size:45
Alignment explanation
Indices: 81468004--81468179 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
81467994 TGTTTGGGCA
81468004 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
81468050 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
81468097 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
81468143 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81468180 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:81468159 original size:93 final size:93
Alignment explanation
Indices: 81468000--81468171 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
81467990 AGGATGTTTG
* *
81468000 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81468065 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
81468093 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
81468158 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
81468172 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:81469759 original size:42 final size:43
Alignment explanation
Indices: 81469709--81469822 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
81469699 TATGTTTTAT
* *
81469709 GTGTAAGACCACGTCTAGGACGTTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
*
81469751 GTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTAC
* * *
81469794 ATGTAAGACCACATCTGGGACGTTAGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
81469823 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 32 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:81475932 original size:40 final size:41
Alignment explanation
Indices: 81475887--81476053 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 41
81475877 CGGAATATAA
*
81475887 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
81475927 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
81475967 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
81476007 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
81476046 CCGGATAT
1 CCGGATAT
81476054 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 17 0.16
40 89 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:81476037 original size:80 final size:79
Alignment explanation
Indices: 81475903--81476053 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
81475893 ATAATCAAGT
*
81475903 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
81475968 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
81475983 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
81476046 CCGGATAT
64 CCGGATAT
81476054 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:81476898 original size:17 final size:19
Alignment explanation
Indices: 81476875--81476920 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
81476865 AAGAAGCATG
81476875 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
81476893 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
81476911 AATCATGCTC
1 AATCATGCTC
81476921 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:81478176 original size:28 final size:28
Alignment explanation
Indices: 81478111--81478211 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
81478101 ATAGTGAATC
*
81478111 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
81478140 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
81478168 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
81478198 CGCACACTTAGTGC
1 CGCACACTTAGTGC
81478212 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:81486520 original size:29 final size:30
Alignment explanation
Indices: 81486457--81486534 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
81486447 TACGGTGACG
*
81486457 AGAT-TGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
*
81486485 ATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* * *
81486514 GGGTATGGCACTATGTGTGCG
1 AGATATGGCACTAAGTGTGCG
81486535 GGCTTAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.90
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (30 bp):
AGATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:81494899 original size:58 final size:59
Alignment explanation
Indices: 81494809--81494941 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
81494799 GTGACGAGAT
* * *
81494809 TGGCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGCAGGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * * * * *
81494867 TGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
*
81494925 TGGCACTGAGTGTGCGA
1 TGGCACTAAGTGTGCGA
81494942 AATCGAGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (59 bp):
TGGCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:81494903 original size:29 final size:29
Alignment explanation
Indices: 81494809--81494881 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
81494799 GTGACGAGAT
*
81494809 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCAGGCTGGAAATATA
81494838 TGGCACTAAGTGTGCAGGCTGGAAATATA
1 TGGCACTAAGTGTGCAGGCTGGAAATATA
81494867 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
81494882 GAGCTCGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAGGCTGGAAATATA
Found at i:81494977 original size:2 final size:2
Alignment explanation
Indices: 81494972--81494996 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81494962 GTGTGCGTAC
81494972 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
81494997 CTCCGATCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81498567 original size:29 final size:29
Alignment explanation
Indices: 81498513--81498572 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
81498503 TTCCCGAGCC
81498513 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGC-AAAGTT
* *
81498543 TAGGGG-AAAAGTGTAATTTTTCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAGTT
81498571 TA
1 TA
81498573 TTAAATGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.29
29 14 0.50
30 6 0.21
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAATTATGCAAAGTT
Found at i:81499037 original size:46 final size:46
Alignment explanation
Indices: 81498987--81499112 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
81498977 TGGTTGAGCA
81498987 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
81499033 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
81499079 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
81499113 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:81506538 original size:46 final size:46
Alignment explanation
Indices: 81506488--81506612 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
81506478 TGGTTGAGCA
*
81506488 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
81506534 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
81506580 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
81506613 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
45 12 0.16
46 63 0.84
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:81508362 original size:32 final size:32
Alignment explanation
Indices: 81508326--81508391 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
81508316 ATTTTGGGCT
* * *
81508326 CACACAGCCTAAATTGCCTTGCCCGTGTGGCC
1 CACACAGCCCAAATTGCCTTACCCATGTGGCC
* *
81508358 CACACGGCCCAAATTGTCTTACCCATGTGGCC
1 CACACAGCCCAAATTGCCTTACCCATGTGGCC
81508390 CA
1 CA
81508392 AATTGTCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (32 bp):
CACACAGCCCAAATTGCCTTACCCATGTGGCC
Found at i:81508389 original size:23 final size:23
Alignment explanation
Indices: 81508363--81508412 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
81508353 TGGCCCACAC
81508363 GGCCCAAATTGTCTTACCCATGT
1 GGCCCAAATTGTCTTACCCATGT
*
81508386 GGCCCAAATTGTCTTGCCCATGT
1 GGCCCAAATTGTCTTACCCATGT
81508409 GGCC
1 GGCC
81508413 ACATGGCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.22, T:0.28
Consensus pattern (23 bp):
GGCCCAAATTGTCTTACCCATGT
Found at i:81516463 original size:6 final size:6
Alignment explanation
Indices: 81516447--81516495 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
81516437 TCCAAAGTAG
* * *
81516447 AGAAAA GGAAAA AGAAAA AGAACAA AGGAAA AGAAAA ATGGAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA A-GAAAA AGAAA
81516496 GAAGGGGGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:81516473 original size:13 final size:12
Alignment explanation
Indices: 81516447--81516495 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
81516437 TCCAAAGTAG
*
81516447 AGAAAAGGAAAA
1 AGAAAAAGAAAA
81516459 AGAAAAAGAACAA
1 AGAAAAAGAA-AA
*
81516472 AGGAAAAGAAAA
1 AGAAAAAGAAAA
*
81516484 ATGGAAAAGAAA
1 A-GAAAAAGAAA
81516496 GAAGGGGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 12 0.36
13 21 0.64
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:81519881 original size:40 final size:40
Alignment explanation
Indices: 81519837--81519951 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
81519827 TTATAGTGAT
81519837 TCGCACAATTGCCTTCGGGAATTAGA-CCGGATTTAATAAC
1 TCGCACAA-TGCCTTCGGGAATTAGACCCGGATTTAATAAC
* * **
81519877 TCGCACGAATGCCTTCGGGACTTA-ACCCGGTTTTGGTAAC
1 TCGCAC-AATGCCTTCGGGAATTAGACCCGGATTTAATAAC
*
81519917 TCGCACAAATGCCTTCGGGAGTT-GACCCGGATTTA
1 TCGCAC-AATGCCTTCGGGAATTAGACCCGGATTTA
81519952 GTCACTTAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 61 0.95
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
TCGCACAATGCCTTCGGGAATTAGACCCGGATTTAATAAC
Found at i:81519921 original size:80 final size:80
Alignment explanation
Indices: 81519795--81519986 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
81519785 GGATATAGCG
* * * * * * *
81519795 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
81519860 AGA-CCGGATTTAATA
66 -GACCCGGATTTAATA
* * * *
81519875 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
81519940 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
81519955 ACTTAGCACAAAAGCCTTC-GGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
81519987 ACACCATTCG
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 78 0.84
81 13 0.14
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:81527894 original size:40 final size:39
Alignment explanation
Indices: 81527836--81528024 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 39
81527826 GGATATAGCG
* * * *
81527836 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
81527876 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * * *
81527916 ACTCGCACAA-TGCCTTCGGGACTTAACCCGTTTTGGTA
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
* * *
81527954 ACTCGCACAAATGCCTTC-GG--ATTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
81527992 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
81528025 ACACCATTCG
Statistics
Matches: 117, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
36 1 0.01
37 4 0.03
38 24 0.21
39 39 0.33
40 40 0.34
41 7 0.06
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Done.