Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 165 of 172
Found at i:53924341 original size:19 final size:19
Alignment explanation
Indices: 53924317--53924356 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
53924307 TCTGCAAAAG
53924317 TGCAAAACGTATCATCATC
1 TGCAAAACGTATCATCATC
53924336 TGCAAAACGTATCATCATC
1 TGCAAAACGTATCATCATC
53924355 TG
1 TG
53924357 GTGCAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (19 bp):
TGCAAAACGTATCATCATC
Found at i:53924730 original size:112 final size:112
Alignment explanation
Indices: 53924533--53924868 Score: 645
Period size: 112 Copynumber: 3.0 Consensus size: 112
53924523 TAACTAAAAC
*
53924533 GATGTGTACTTCCGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
1 GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
53924598 AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
66 AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
53924645 GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
1 GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
53924710 AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
66 AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
53924757 GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
1 GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
* *
53924822 AGACAAGCTCAATCGACAAGAGTACAAAGAATAGAAGAATGCAATAA
66 AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
53924869 TGCTTAAAAC
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 221 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (112 bp):
GATGTGTACTTCAGTATAAATAAATAATCAATGCAATCCTAGGGTTCACATTTTAAGGGAGAGGC
AGACAAGCTCAATTGACAAGAGTACAAAGAATAGCAGAATGCAATAA
Found at i:53935150 original size:34 final size:34
Alignment explanation
Indices: 53935111--53935187 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
53935101 ATGTCTTTCA
*
53935111 TATAGACATAACTGGCCAAATAGATATATCTTCT-
1 TATAGACATAACCGGCCAAATAGATATATCTT-TG
* *
53935145 TATAGACATAACCGTCCAAATAGATATATGTTTG
1 TATAGACATAACCGGCCAAATAGATATATCTTTG
53935179 TATAGACAT
1 TATAGACAT
53935188 GAATTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (34 bp):
TATAGACATAACCGGCCAAATAGATATATCTTTG
Found at i:53941499 original size:18 final size:18
Alignment explanation
Indices: 53941476--53941514 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53941466 CTCATTCCAC
53941476 CTTGGGTTCGATCCTCAG
1 CTTGGGTTCGATCCTCAG
*
53941494 CTTGGGTTCGATCCTCGG
1 CTTGGGTTCGATCCTCAG
53941512 CTT
1 CTT
53941515 TTAAATGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.28, G:0.28, T:0.36
Consensus pattern (18 bp):
CTTGGGTTCGATCCTCAG
Found at i:53941925 original size:27 final size:26
Alignment explanation
Indices: 53941895--53941957 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
53941885 AGATAATTAA
53941895 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
53941922 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
53941949 AATATAAAT
1 AATA-AAAT
53941958 AAAATAGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:53941944 original size:15 final size:15
Alignment explanation
Indices: 53941924--53941953 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53941914 ATAATCCTAA
*
53941924 TAATTATCTTAATAT
1 TAATTATCCTAATAT
53941939 TAATTATCCTAATAT
1 TAATTATCCTAATAT
53941954 AAATAAAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:53943163 original size:45 final size:45
Alignment explanation
Indices: 53943099--53943189 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
53943089 ATTTTATTAT
53943099 TACTTAGAACTATACAAATATGAAGTATACCATGTTCTACTACTG
1 TACTTAGAACTATACAAATATGAAGTATACCATGTTCTACTACTG
53943144 TACTTAGAACTATACAAATATGAAGTATACCATGTTCTACTACTG
1 TACTTAGAACTATACAAATATGAAGTATACCATGTTCTACTACTG
53943189 T
1 T
53943190 TCAGAATGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (45 bp):
TACTTAGAACTATACAAATATGAAGTATACCATGTTCTACTACTG
Found at i:53947396 original size:72 final size:72
Alignment explanation
Indices: 53947279--53947534 Score: 503
Period size: 72 Copynumber: 3.6 Consensus size: 72
53947269 ACAACTTGAC
*
53947279 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
53947344 ACTAACA
66 ACTAACA
53947351 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
53947416 ACTAACA
66 ACTAACA
53947423 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
53947488 ACTAACA
66 ACTAACA
53947495 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
53947535 AATAATAATA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 183 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:53947543 original size:3 final size:3
Alignment explanation
Indices: 53947535--53947560 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
53947525 ATTACATCCA
53947535 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
53947561 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53950440 original size:72 final size:72
Alignment explanation
Indices: 53950323--53950506 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
53950313 ACAACTTGAC
*
53950323 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
53950388 ACTAACA
66 ACTAACA
53950395 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
53950460 ACTAACA
66 ACTAACA
53950467 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
53950507 AATAATAATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:53950515 original size:3 final size:3
Alignment explanation
Indices: 53950507--53950607 Score: 202
Period size: 3 Copynumber: 33.7 Consensus size: 3
53950497 ATTACATCCA
53950507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53950555 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53950603 AAT AA
1 AAT AA
53950608 AACATGTGAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53962812 original size:13 final size:13
Alignment explanation
Indices: 53962794--53962818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53962784 TTGTTCTATA
53962794 TAAAAAATTAATC
1 TAAAAAATTAATC
53962807 TAAAAAATTAAT
1 TAAAAAATTAAT
53962819 ACGAACAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATC
Found at i:53963228 original size:25 final size:23
Alignment explanation
Indices: 53963189--53963247 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
53963179 TTTTTATACA
*
53963189 TTTT-AATTTAGTTTTCATATTT
1 TTTTAAATTTAATTTTCATATTT
**
53963211 TTTTAGGAATTTAATTTTTTTATTT
1 TTTTA--AATTTAATTTTCATATTT
53963236 TTTTAAATTTAA
1 TTTTAAATTTAA
53963248 AAATTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 7 0.23
25 20 0.65
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTAAATTTAATTTTCATATTT
Found at i:53963385 original size:75 final size:76
Alignment explanation
Indices: 53963297--53963447 Score: 241
Period size: 76 Copynumber: 2.0 Consensus size: 76
53963287 GTTAAATATG
* * * * *
53963297 TTAGTTTGTTATTTTAAAAT-TAAAAAATTACTCGCATGATAATTATGTAATAAAAAACTTTGAT
1 TTAGTGTGATATTTTAAAATAAAAAAAATTACTCGCATAATAACTATGTAATAAAAAACTTTGAT
53963361 ATTGTAAATCT
66 ATTGTAAATCT
*
53963372 TTAGTGTGATATTTTAAAATAAAAAAAATTACTCGCATAATAACTATGTAATAAAAAATTTTGAT
1 TTAGTGTGATATTTTAAAATAAAAAAAATTACTCGCATAATAACTATGTAATAAAAAACTTTGAT
53963437 ATTGTAAATCT
66 ATTGTAAATCT
53963448 CAAATCCTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 18 0.26
76 51 0.74
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (76 bp):
TTAGTGTGATATTTTAAAATAAAAAAAATTACTCGCATAATAACTATGTAATAAAAAACTTTGAT
ATTGTAAATCT
Found at i:53968362 original size:15 final size:15
Alignment explanation
Indices: 53968336--53968380 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
53968326 AGATTAAACC
53968336 TTAATT-AACCTTAA
1 TTAATTAAACCTTAA
* *
53968350 TTAGTTAAACCTTAG
1 TTAATTAAACCTTAA
*
53968365 TTAATTAAATCTTAA
1 TTAATTAAACCTTAA
53968380 T
1 T
53968381 CACAATTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.44
Consensus pattern (15 bp):
TTAATTAAACCTTAA
Found at i:53971296 original size:26 final size:26
Alignment explanation
Indices: 53971267--53971348 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
53971257 TGGTACAAAT
*
53971267 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
53971293 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
53971319 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
53971345 TGAT
1 TGAT
53971349 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:53977666 original size:5 final size:5
Alignment explanation
Indices: 53977658--53977699 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
53977648 ATTTTATGTT
53977658 ATATA ATAT- A-ATA ATATA ATATA ATATA ATAGTA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA ATATA ATA
53977700 ACATAATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 25 0.74
6 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:53977676 original size:13 final size:13
Alignment explanation
Indices: 53977658--53977708 Score: 66
Period size: 13 Copynumber: 3.7 Consensus size: 13
53977648 ATTTTATGTT
53977658 ATATAATATAATA
1 ATATAATATAATA
53977671 ATATAATATAATATA
1 ATATAATAT-A-ATA
53977686 ATAGTAATATAATA
1 ATA-TAATATAATA
*
53977700 ACATAATAT
1 ATATAATAT
53977709 CATTTACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 15 0.44
14 6 0.18
15 7 0.21
16 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:53980737 original size:25 final size:25
Alignment explanation
Indices: 53980703--53980753 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
53980693 CATCATAAAG
*
53980703 TAAATTTCTTAACCCTTCTGCTTCT
1 TAAATTTCTTAACCATTCTGCTTCT
53980728 TAAATTTCTTAACCATTCTGCTTCT
1 TAAATTTCTTAACCATTCTGCTTCT
53980753 T
1 T
53980754 TAGATGAGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (25 bp):
TAAATTTCTTAACCATTCTGCTTCT
Found at i:53992354 original size:21 final size:21
Alignment explanation
Indices: 53992328--53992382 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
53992318 CAGATATTCT
53992328 ATAATTTATTTTAATCGGTAA
1 ATAATTTATTTTAATCGGTAA
* *
53992349 ATAATTAATATT-AT-GGTAA
1 ATAATTTATTTTAATCGGTAA
53992368 AT-A-TTATTTTTAATC
1 ATAATTTA-TTTTAATC
53992383 TGAAAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
17 2 0.07
18 4 0.15
19 9 0.33
20 2 0.07
21 10 0.37
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (21 bp):
ATAATTTATTTTAATCGGTAA
Found at i:53994855 original size:66 final size:66
Alignment explanation
Indices: 53994784--53995048 Score: 512
Period size: 66 Copynumber: 4.0 Consensus size: 66
53994774 TTAAAAAAAA
* *
53994784 TACTTCTAGCTCTAAAAGTAGTATAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
1 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
53994849 T
66 T
53994850 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
1 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
53994915 T
66 T
53994916 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
1 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
53994981 T
66 T
53994982 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
1 TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
53995047 T
66 T
53995048 T
1 T
53995049 TGAAAAACAC
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 197 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (66 bp):
TACTTCTAGCTCTAAAAGTAGCACAAATTATTTTTGGTTTAAATTTTTAACTGTTCAGAAGTGCT
T
Found at i:53995353 original size:24 final size:24
Alignment explanation
Indices: 53995295--53995353 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
53995285 TTCTAATTAA
*
53995295 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
** * *
53995319 -TGCCTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
53995343 ATTTTATAAAT
1 ATTTTATAAAT
53995354 TAAAATATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:53995499 original size:18 final size:18
Alignment explanation
Indices: 53995478--53995518 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
53995468 TAAAATAGAC
53995478 ATTTTATTTCTTAAAAAT
1 ATTTTATTTCTTAAAAAT
*
53995496 ATTTTATTTCTTAAAAGT
1 ATTTTATTTCTTAAAAAT
53995514 ATTTT
1 ATTTT
53995519 TTAACAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTATTTCTTAAAAAT
Found at i:53996114 original size:14 final size:14
Alignment explanation
Indices: 53996079--53996118 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
53996069 GTAACGGTAC
*
53996079 AATAACTAAAATAT
1 AATAATTAAAATAT
*
53996093 AATAAATTAAAATTT
1 AAT-AATTAAAATAT
53996108 AATAATTAAAA
1 AATAATTAAAA
53996119 AAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATTAAAATAT
Found at i:53997098 original size:6 final size:6
Alignment explanation
Indices: 53997089--53997123 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
53997079 AAAAAGAGAA
53997089 TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGGGA
1 TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGGGA
53997124 AGGACCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.31
Consensus pattern (6 bp):
TGGGAT
Found at i:53997658 original size:36 final size:36
Alignment explanation
Indices: 53997611--53997684 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
53997601 ATTGATTCAT
*
53997611 ATATTCATTT-AATTTAACTATAATATATAAAAAAAA
1 ATATACATTTAAATTTAACTATAATATA-AAAAAAAA
*
53997647 ATATACATTTAAATTTAACTATAATATAAAAAATAA
1 ATATACATTTAAATTTAACTATAATATAAAAAAAAA
53997683 AT
1 AT
53997685 TTTACTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 18 0.51
37 17 0.49
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (36 bp):
ATATACATTTAAATTTAACTATAATATAAAAAAAAA
Found at i:53999727 original size:76 final size:76
Alignment explanation
Indices: 53999601--53999754 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
53999591 AGATAATACT
* * *
53999601 TAAAATTACTCATAATCTCTCCTGACCCATAAATAAGAGAATAATGTGTTTTAGCGCACTTAAAC
1 TAAAATTACTCATAAACTCTCCTAACCCATAAATAAGAGAATAATATGTTTTAGCGCACTTAAAC
53999666 CCATTTCCTCC
66 CCATTTCCTCC
*
53999677 TAAAATTACTCATAAACTCTCCTAACCCATAAATAGGAGAATAATATGTTTTAGCGCACTTAAAC
1 TAAAATTACTCATAAACTCTCCTAACCCATAAATAAGAGAATAATATGTTTTAGCGCACTTAAAC
53999742 CCATTTCCTCC
66 CCATTTCCTCC
53999753 TA
1 TA
53999755 CATTGATACT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (76 bp):
TAAAATTACTCATAAACTCTCCTAACCCATAAATAAGAGAATAATATGTTTTAGCGCACTTAAAC
CCATTTCCTCC
Found at i:54006120 original size:33 final size:33
Alignment explanation
Indices: 54006070--54006144 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
54006060 GTCCACCATG
* *
54006070 TACCCTTGATTCACATACCCAGGGTGAGACATA
1 TACCCTTGACTCACATACCCAGGATGAGACATA
*
54006103 TACCCTTGACTCGCATACCCAGGATGAGACATA
1 TACCCTTGACTCACATACCCAGGATGAGACATA
54006136 TACCCTTGA
1 TACCCTTGA
54006145 TTCATGTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (33 bp):
TACCCTTGACTCACATACCCAGGATGAGACATA
Found at i:54006407 original size:21 final size:20
Alignment explanation
Indices: 54006373--54006437 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
54006363 CTCTTTCCCA
* *
54006373 TTCTTATCAGCGCCGGCATCT
1 TTCTTTTCACCGCCGGC-TCT
*
54006394 TTCTTTTCTCCGCC-G-TCT
1 TTCTTTTCACCGCCGGCTCT
*
54006412 TTCTTTTCACCGCCGTCGTCT
1 TTCTTTTCACCGCCGGC-TCT
54006433 TTCTT
1 TTCTT
54006438 AGGCGGGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 16 0.44
20 1 0.03
21 19 0.53
ACGTcount: A:0.06, C:0.35, G:0.14, T:0.45
Consensus pattern (20 bp):
TTCTTTTCACCGCCGGCTCT
Found at i:54006414 original size:18 final size:18
Alignment explanation
Indices: 54006391--54006428 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
54006381 AGCGCCGGCA
*
54006391 TCTTTCTTTTCTCCGCCG
1 TCTTTCTTTTCACCGCCG
54006409 TCTTTCTTTTCACCGCCG
1 TCTTTCTTTTCACCGCCG
54006427 TC
1 TC
54006429 GTCTTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.39, G:0.11, T:0.47
Consensus pattern (18 bp):
TCTTTCTTTTCACCGCCG
Found at i:54007929 original size:4 final size:4
Alignment explanation
Indices: 54007920--54007960 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
54007910 GGTTGATAAG
54007920 GTAT GTAT GTAT GTAT GTAT G-AT G-AGT GTAT GTTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT G-TAT GTAT G
54007961 ATGGTCGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.12
4 25 0.74
5 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:54009510 original size:14 final size:12
Alignment explanation
Indices: 54009498--54009543 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
54009488 CACGTATATG
54009498 TATATAAAAATA
1 TATATAAAAATA
54009510 TATATAAAAATTA
1 TATATAAAAA-TA
*
54009523 TAAAATATAAAATA
1 T-ATATA-AAAATA
54009537 TATATAA
1 TATATAA
54009544 GTATGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:54009557 original size:27 final size:26
Alignment explanation
Indices: 54009498--54009560 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
54009488 CACGTATATG
54009498 TATATA-AAAATATATATAAAAATTA
1 TATATATAAAATATATATAAAAATTA
* **
54009523 TAAAATATAAAATATATATAAGTATGTA
1 T-ATATATAAAATATATATAAAAAT-TA
54009551 TATATATAAA
1 TATATATAAA
54009561 TGAGGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.13
27 23 0.74
28 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
TATATATAAAATATATATAAAAATTA
Found at i:54011173 original size:15 final size:15
Alignment explanation
Indices: 54011153--54011181 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54011143 ATTTGAAAAA
54011153 CAAAATTCAAGCGTT
1 CAAAATTCAAGCGTT
54011168 CAAAATTCAAGCGT
1 CAAAATTCAAGCGT
54011182 AGGTTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
CAAAATTCAAGCGTT
Found at i:54014266 original size:44 final size:45
Alignment explanation
Indices: 54014203--54014295 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
54014193 GTTGAAGTAG
* *
54014203 AATAGAAGTTATAATAATTA-T-ACATTTAGAAATAATTATAATTT
1 AATAGAAGTTATAACAATTATTAACATTTAAAAAT-ATTATAATTT
*
54014247 AATAGAAGTTATGACAATTATTACACATTTAAAAATATTATAATTT
1 AATAGAAGTTATAACAATTATTA-ACATTTAAAAATATTATAATTT
54014293 AAT
1 AAT
54014296 TTACAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 18 0.42
45 1 0.02
46 13 0.30
47 11 0.26
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (45 bp):
AATAGAAGTTATAACAATTATTAACATTTAAAAATATTATAATTT
Found at i:54022627 original size:52 final size:51
Alignment explanation
Indices: 54022548--54022651 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 51
54022538 CTTAGCAACA
54022548 TTCAGCAGAATTTGTGGGTATTTTGAGTGATTTCTTCTAGAATAGGATAAG
1 TTCAGCAGAATTTGTGGGTATTTTGAGTGATTTCTTCTAGAATAGGATAAG
*
54022599 TNTCAGCAGGATTTGTGGGTATTTTGAGTGATTTCTTCTAGAATAGGATAAG
1 T-TCAGCAGAATTTGTGGGTATTTTGAGTGATTTCTTCTAGAATAGGATAAG
54022651 T
1 T
54022652 ATTTGACTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 1 0.02
52 50 0.98
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (51 bp):
TTCAGCAGAATTTGTGGGTATTTTGAGTGATTTCTTCTAGAATAGGATAAG
Found at i:54030833 original size:13 final size:13
Alignment explanation
Indices: 54030815--54030842 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54030805 AGTACCATAA
54030815 AATTTAAAGTCAT
1 AATTTAAAGTCAT
54030828 AATTTAAAGTCAT
1 AATTTAAAGTCAT
54030841 AA
1 AA
54030843 AGTGATCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (13 bp):
AATTTAAAGTCAT
Found at i:54031424 original size:15 final size:15
Alignment explanation
Indices: 54031404--54031436 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
54031394 TTGTGACATG
54031404 AATCCTTAATGTCGC
1 AATCCTTAATGTCGC
*
54031419 AATCCTTAATGTTGC
1 AATCCTTAATGTCGC
54031434 AAT
1 AAT
54031437 ATTACCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (15 bp):
AATCCTTAATGTCGC
Found at i:54052576 original size:13 final size:13
Alignment explanation
Indices: 54052558--54052607 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
54052548 AACTTTATTG
*
54052558 ATTTTTTTTCATA
1 ATTTTTTTACATA
*
54052571 ATTTTTTTAAAATA
1 ATTTTTTT-ACATA
* *
54052585 ATTTTTTTGCATT
1 ATTTTTTTACATA
54052598 ATTTTTTTAC
1 ATTTTTTTAC
54052608 CGTCTAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTTTTTTACATA
Found at i:54068114 original size:258 final size:258
Alignment explanation
Indices: 54067657--54068173 Score: 1007
Period size: 258 Copynumber: 2.0 Consensus size: 258
54067647 TGGATGGCTT
54067657 TTATTTTATCTGGATCAACTTCAATACCTCTTTCACTGACAATAAAGCCTAGCAACTTTCCCGAG
1 TTATTTTATCTGGATCAACTTCAATACCTCTTTCACTGACAATAAAGCCTAGCAACTTTCCCGAG
54067722 GTAGCCCCAAATGTACATTTGGCTGGATTAAGCTTTAGCTGAAACTTTCTCAGCCTTTCAAACAA
66 GTAGCCCCAAATGTACATTTGGCTGGATTAAGCTTTAGCTGAAACTTTCTCAGCCTTTCAAACAA
54067787 CTTCTTGAGGTTCACTACATGCTCTTCTTCCCCTCAGGATTTAGCAATCATGTCGTCGACGTAGA
131 CTTCTTGAGGTTCACTACATGCTCTTCTTCCCCTCAGGATTTAGCAATCATGTCGTCGACGTAGA
54067852 CCTCTATTTCTTTATGCATCATGTCATGAAATAACGTTACCATAGCCCTCTGATATATTGCCC
196 CCTCTATTTCTTTATGCATCATGTCATGAAATAACGTTACCATAGCCCTCTGATATATTGCCC
54067915 TTATTTTATCTGGATCAACTTCAATACCTCTTTCACTGACAATAAAGCCTAGCAACTTTCCCGAG
1 TTATTTTATCTGGATCAACTTCAATACCTCTTTCACTGACAATAAAGCCTAGCAACTTTCCCGAG
*
54067980 GTAGCCCCAAATGTACATTTGGCTGGATTAAGCTTTAGCTGAAACTTTCTCAGCCTTTCGAACAA
66 GTAGCCCCAAATGTACATTTGGCTGGATTAAGCTTTAGCTGAAACTTTCTCAGCCTTTCAAACAA
54068045 CTTCTTGAGGTTCACTACATGCTCTTCTTCCCCTCAGGATTTAGCAATCATGTCGTCGACGTAGA
131 CTTCTTGAGGTTCACTACATGCTCTTCTTCCCCTCAGGATTTAGCAATCATGTCGTCGACGTAGA
* *
54068110 CCTCTATTTCTTTATGCATCATGTCATGGAATAACGTTACCATAGCCCTCTGATATGTTGCCC
196 CCTCTATTTCTTTATGCATCATGTCATGAAATAACGTTACCATAGCCCTCTGATATATTGCCC
54068173 T
1 T
54068174 AGCATTCTTT
Statistics
Matches: 256, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
258 256 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (258 bp):
TTATTTTATCTGGATCAACTTCAATACCTCTTTCACTGACAATAAAGCCTAGCAACTTTCCCGAG
GTAGCCCCAAATGTACATTTGGCTGGATTAAGCTTTAGCTGAAACTTTCTCAGCCTTTCAAACAA
CTTCTTGAGGTTCACTACATGCTCTTCTTCCCCTCAGGATTTAGCAATCATGTCGTCGACGTAGA
CCTCTATTTCTTTATGCATCATGTCATGAAATAACGTTACCATAGCCCTCTGATATATTGCCC
Found at i:54069531 original size:286 final size:286
Alignment explanation
Indices: 54069007--54069573 Score: 1089
Period size: 286 Copynumber: 2.0 Consensus size: 286
54068997 AAACGAAATG
54069007 TTATGGCATGGAATGAGGCAAATGTACAGATAGGCTATGAAATGAGGAGATGATTATGAAATTAG
1 TTATGGCATGGAATGAGGCAAATGTACAGATAGGCTATGAAATGAGGAGATGATTATGAAATTAG
* *
54069072 TGATAATGCGAAAGATCGTGATAAAATGCATCTTCATTGATATTCATTTAAATGATAAAGAGTGA
66 TGATAATGCGAAAGATCGTGATAAAATACATCTTAATTGATATTCATTTAAATGATAAAGAGTGA
54069137 ATGCAAGCTCTTACAAAAGAATTCTATTATATCTAAGGACACAATAGAATGTTAATGTTTGAGCA
131 ATGCAAGCTCTTACAAAAGAATTCTATTATATCTAAGGACACAATAGAATGTTAATGTTTGAGCA
54069202 TTACTCTGAAAGCTACAAGAAGGTCCTCGGCAGTCCAATTGTTCAACATAAAACCCGGAGGACAA
196 TTACTCTGAAAGCTACAAGAAGGTCCTCGGCAGTCCAATTGTTCAACATAAAACCCGGAGGACAA
54069267 TGGCGTATCGTTGACACATCTGCAGT
261 TGGCGTATCGTTGACACATCTGCAGT
* *
54069293 TTATGGTATGGTATGAGGCAAATGTACAGATAGGCTATGAAATGAGGAGATGATTATGAAATTAG
1 TTATGGCATGGAATGAGGCAAATGTACAGATAGGCTATGAAATGAGGAGATGATTATGAAATTAG
*
54069358 TGATAATGCGAAAGATCGTGATAAAATATATCTTAATTGATATTCATTTAAATGATAAAGAGTGA
66 TGATAATGCGAAAGATCGTGATAAAATACATCTTAATTGATATTCATTTAAATGATAAAGAGTGA
54069423 ATGCAAGCTCTTACAAAAGAATTCTATTATATCTAAGGACACAATAGAATGTTAATGTTTGAGCA
131 ATGCAAGCTCTTACAAAAGAATTCTATTATATCTAAGGACACAATAGAATGTTAATGTTTGAGCA
54069488 TTACTCTGAAAGCTACAAGAAGGTCCTCGGCAGTCCAATTGTTCAACATAAAACCCGGAGGACAA
196 TTACTCTGAAAGCTACAAGAAGGTCCTCGGCAGTCCAATTGTTCAACATAAAACCCGGAGGACAA
54069553 TGGCGTATCGTTGACACATCT
261 TGGCGTATCGTTGACACATCT
54069574 TTAATAGCCT
Statistics
Matches: 276, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 276 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (286 bp):
TTATGGCATGGAATGAGGCAAATGTACAGATAGGCTATGAAATGAGGAGATGATTATGAAATTAG
TGATAATGCGAAAGATCGTGATAAAATACATCTTAATTGATATTCATTTAAATGATAAAGAGTGA
ATGCAAGCTCTTACAAAAGAATTCTATTATATCTAAGGACACAATAGAATGTTAATGTTTGAGCA
TTACTCTGAAAGCTACAAGAAGGTCCTCGGCAGTCCAATTGTTCAACATAAAACCCGGAGGACAA
TGGCGTATCGTTGACACATCTGCAGT
Found at i:54076321 original size:55 final size:55
Alignment explanation
Indices: 54076255--54076364 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
54076245 CAGAATTCGT
*
54076255 TCAGCAGGGCATTAGCACATTCTTTTACTAAATATGATTGTCCAAGATAAAGCAA
1 TCAGCAGGGCATTAGCAAATTCTTTTACTAAATATGATTGTCCAAGATAAAGCAA
54076310 TCAGCAGGGCATTAGCAAATTCTTTTACTAAATATGATTGTCCAAGATAAAGCAA
1 TCAGCAGGGCATTAGCAAATTCTTTTACTAAATATGATTGTCCAAGATAAAGCAA
54076365 ATTATCCAGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (55 bp):
TCAGCAGGGCATTAGCAAATTCTTTTACTAAATATGATTGTCCAAGATAAAGCAA
Found at i:54080247 original size:97 final size:97
Alignment explanation
Indices: 54080081--54080269 Score: 369
Period size: 97 Copynumber: 1.9 Consensus size: 97
54080071 TAAAATACAT
*
54080081 GTATATTTGCTTATCATATAAGTATATTATTAAATTATATATTAGTATTAAGTAAAAGATATTTA
1 GTATATTTGCTTATCATAAAAGTATATTATTAAATTATATATTAGTATTAAGTAAAAGATATTTA
54080146 TATAATAAATAGATTAAAGAAAGGCAAATATA
66 TATAATAAATAGATTAAAGAAAGGCAAATATA
54080178 GTATATTTGCTTATCATAAAAGTATATTATTAAATTATATATTAGTATTAAGTAAAAGATATTTA
1 GTATATTTGCTTATCATAAAAGTATATTATTAAATTATATATTAGTATTAAGTAAAAGATATTTA
54080243 TATAATAAATAGATTAAAGAAAGGCAA
66 TATAATAAATAGATTAAAGAAAGGCAA
54080270 CTGTAAGGAT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (97 bp):
GTATATTTGCTTATCATAAAAGTATATTATTAAATTATATATTAGTATTAAGTAAAAGATATTTA
TATAATAAATAGATTAAAGAAAGGCAAATATA
Found at i:54083733 original size:22 final size:23
Alignment explanation
Indices: 54083706--54083882 Score: 125
Period size: 22 Copynumber: 7.4 Consensus size: 23
54083696 CACTAATGAA
54083706 CAGAGAGCACTGAAGTGCTATA-
1 CAGAGAGCACTGAAGTGCTATAT
*
54083728 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
*
54083750 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
54083775 CAGAGAGCACAAATGATTTGTGCTA-AT
1 CAGAGAGCAC---TGA--AGTGCTATAT
* *
54083802 CAGAGAGGACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
54083827 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
54083849 CAGAGAGCACT-AATGTGCTAATATT
1 CAGAGAGCACTGAA-GTGCT-ATA-T
54083874 CAGAGAGCA
1 CAGAGAGCA
54083883 TGCTGAGGTC
Statistics
Matches: 127, Mismatches: 9, Indels: 35
0.74 0.05 0.20
Matches are distributed among these distances:
21 3 0.02
22 56 0.44
23 3 0.02
24 7 0.06
25 38 0.30
27 11 0.09
28 4 0.03
30 5 0.04
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (23 bp):
CAGAGAGCACTGAAGTGCTATAT
Found at i:54083807 original size:52 final size:46
Alignment explanation
Indices: 54083706--54083882 Score: 232
Period size: 47 Copynumber: 3.7 Consensus size: 46
54083696 CACTAATGAA
*
54083706 CAGAGAGCACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
54083750 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGATTTGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCAC-AA--A--TGTGCTAAT
*
54083802 CAGAGAGGACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
* *
54083849 CAGAGAGCACTAATGTGCTAATATTCAGAGAGCA
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCA
54083883 TGCTGAGGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 15
0.86 0.04 0.11
Matches are distributed among these distances:
44 18 0.15
46 7 0.06
47 45 0.38
48 2 0.02
49 1 0.01
50 1 0.01
51 2 0.02
52 43 0.36
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (46 bp):
CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:54083869 original size:99 final size:96
Alignment explanation
Indices: 54083706--54083882 Score: 275
Period size: 99 Copynumber: 1.8 Consensus size: 96
54083696 CACTAATGAA
*
54083706 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGCTAA
1 CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTAACGTGCTAA
54083771 -ATATCAGAGAGCACAAATGATTTGTGCTAAT
66 TAT-TCAGAGAGCACAAATGATTTGTGCTAAT
* * *
54083802 CAGAGAGGACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAATCAGAGAGCACTAATGTGC
1 CAGAGAGCACTGAAGTGCT--ATA-CAGAGAGCACAAATGTGCTAATCAGAGAGCACTAACGTGC
54083867 TAATATTCAGAGAGCA
63 TAATATTCAGAGAGCA
54083883 TGCTGAGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
96 17 0.23
98 3 0.04
99 51 0.70
100 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (96 bp):
CAGAGAGCACTGAAGTGCTATACAGAGAGCACAAATGTGCTAATCAGAGAGCACTAACGTGCTAA
TATTCAGAGAGCACAAATGATTTGTGCTAAT
Found at i:54085416 original size:30 final size:30
Alignment explanation
Indices: 54085382--54085439 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
54085372 TCCGAGCCTT
*
54085382 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
54085412 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
54085440 GGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:54085669 original size:13 final size:13
Alignment explanation
Indices: 54085651--54085682 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
54085641 TTTCCAGCAA
54085651 TTATGAATTTATT
1 TTATGAATTTATT
54085664 TTATGAATTTATT
1 TTATGAATTTATT
*
54085677 TGATGA
1 TTATGA
54085683 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:54085890 original size:50 final size:50
Alignment explanation
Indices: 54085777--54086018 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
54085767 ATTTGGGTAA
* * *
54085777 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
54085833 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
54085883 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
54085933 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
54085983 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
54086019 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:54085966 original size:100 final size:103
Alignment explanation
Indices: 54085777--54086026 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
54085767 ATTTGGGTAA
54085777 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
54085842 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
54085883 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
54085945 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
54085983 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
54086027 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:54090842 original size:24 final size:24
Alignment explanation
Indices: 54090815--54090868 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54090805 TTTCTCCTAG
*
54090815 GGGAGCAAGAGGTGGTCCTTCAAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
* *
54090839 GGGAGCAAGGGGTGGTCCTCCTAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
54090863 GGGAGC
1 GGGAGC
54090869 TTCAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (24 bp):
GGGAGCAAGAGGTGGTCCTCCAAT
Found at i:54093182 original size:22 final size:22
Alignment explanation
Indices: 54093146--54093197 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
54093136 AAATTAATAA
54093146 ATAATAAA-TTTTAAA-AAAAAGT
1 ATAA-AAATTTTTAAATAAAAA-T
*
54093168 ATTAAAATTTTTAAATAAAAAT
1 ATAAAAATTTTTAAATAAAAAT
54093190 ATAAAAAT
1 ATAAAAAT
54093198 ACAAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 18 0.69
23 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAAAATTTTTAAATAAAAAT
Found at i:54093193 original size:8 final size:8
Alignment explanation
Indices: 54093182--54093211 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
54093172 AAATTTTTAA
54093182 ATAAAAAT
1 ATAAAAAT
54093190 ATAAAAAT
1 ATAAAAAT
*
54093198 ACAAAAAT
1 ATAAAAAT
54093206 ATAAAA
1 ATAAAA
54093212 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (8 bp):
ATAAAAAT
Found at i:54093494 original size:9 final size:9
Alignment explanation
Indices: 54093422--54093658 Score: 74
Period size: 9 Copynumber: 25.2 Consensus size: 9
54093412 TTTGGTACTA
54093422 AATTTTTAT
1 AATTTTTAT
*
54093431 AATATTTAT
1 AATTTTTAT
54093440 -ATTTCTT-T
1 AATTT-TTAT
*
54093448 ACATTTTGCAT
1 A-ATTTT-TAT
54093459 AATTTGCTTAT
1 AATTT--TTAT
* * *
54093470 GACTTTATAA
1 -AATTTTTAT
54093480 AATTTTTAT
1 AATTTTTAT
*
54093489 AATTTTTTT
1 AATTTTTAT
*
54093498 ATATTTCTAT
1 A-ATTTTTAT
54093508 -ATATTTTAT
1 AAT-TTTTAT
* *
54093517 AAAATTTTAC
1 -AATTTTTAT
54093527 AATTTTTTAT
1 AA-TTTTTAT
*
54093537 ATTTTTTAT
1 AATTTTTAT
*
54093546 GATTTTTAT
1 AATTTTTAT
* *
54093555 ATTTTTTCT
1 AATTTTTAT
54093564 AATTTTTAAT
1 AATTTTT-AT
*
54093574 AAATATTTAGT
1 -AATTTTTA-T
*
54093585 -A-TTTGA-
1 AATTTTTAT
54093591 AATTTTTTATT
1 AA-TTTTTA-T
*
54093602 AAATTTTAAT
1 -AATTTTTAT
*
54093612 AATATTTAT
1 AATTTTTAT
*
54093621 AAATTTTATT
1 AATTTTTA-T
* *
54093631 GATTTTAAT
1 AATTTTTAT
*
54093640 -TTTTTTAT
1 AATTTTTAT
*
54093648 AATTTTAAT
1 AATTTTTAT
54093657 AA
1 AA
54093659 GAGCAGTAAC
Statistics
Matches: 162, Mismatches: 42, Indels: 48
0.64 0.17 0.19
Matches are distributed among these distances:
7 1 0.01
8 15 0.09
9 86 0.53
10 36 0.22
11 17 0.10
12 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:54093558 original size:27 final size:27
Alignment explanation
Indices: 54093424--54093571 Score: 89
Period size: 28 Copynumber: 5.2 Consensus size: 27
54093414 TGGTACTAAA
* *
54093424 TTTTTATAATATTTATATTTCTTTACAT
1 TTTTTATAATTTTTATATTT-TTTATAT
** * * * *
54093452 TTTGCATAATTTGCTTATGACTTTATAAAA
1 TTTTTATAATTT--TTAT-ATTTTTTATAT
* *
54093482 TTTTTATAATTTTTTTATATTTCTATAT
1 TTTTTATAATTTTTATAT-TTTTTATAT
* * *
54093510 ATTTTATAAAATTTTACAATTTTTTATAT
1 TTTTTAT-AATTTTTA-TATTTTTTATAT
* * *
54093539 TTTTTATGATTTTTATATTTTTTCTAA
1 TTTTTATAATTTTTATATTTTTTATAT
54093566 TTTTTA
1 TTTTTA
54093572 ATAAATATTT
Statistics
Matches: 89, Mismatches: 25, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
27 16 0.18
28 30 0.34
29 20 0.22
30 20 0.22
31 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTTATAATTTTTATATTTTTTATAT
Found at i:54093863 original size:91 final size:92
Alignment explanation
Indices: 54093677--54093864 Score: 229
Period size: 92 Copynumber: 2.1 Consensus size: 92
54093667 ACTTAATTGC
* * *** * * *
54093677 TTTTGTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGTTAGTTTAAGTATTCAATTGAGTGC
1 TTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAATGAGTGC
* *
54093742 AAAAAAAGTAGGTGCTTAATTGCTTTT
66 AAAAAAAGTAGGGGCTTAATTACTTTT
*
54093769 TTTTTTTGAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTAAAAGTTCAAGTAC-CTAAATGAGT
1 TTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAGTACTC-AAATGAGT
*
54093832 GTAAAAAAA-TAGGGGCTTAATTACTTTT
64 GCAAAAAAAGTAGGGGCTTAATTACTTTT
54093860 TTTTT
1 TTTTT
54093865 AATTAAGAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
91 24 0.29
92 58 0.71
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (92 bp):
TTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAATGAGTGC
AAAAAAAGTAGGGGCTTAATTACTTTT
Found at i:54103230 original size:13 final size:13
Alignment explanation
Indices: 54103212--54103236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54103202 TTCTCTTCCC
54103212 TTTTTTATTTTTA
1 TTTTTTATTTTTA
54103225 TTTTTTATTTTT
1 TTTTTTATTTTT
54103237 CACTATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:54106096 original size:16 final size:18
Alignment explanation
Indices: 54106067--54106102 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
54106057 TTAATCAATT
54106067 AATTAAATTAA-TTTCTC
1 AATTAAATTAATTTTCTC
54106084 AATTAAA-TAATTTTCTC
1 AATTAAATTAATTTTCTC
54106101 AA
1 AA
54106103 CTCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:54121793 original size:25 final size:25
Alignment explanation
Indices: 54121759--54121811 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
54121749 AAAGGAAAAT
54121759 TATATTTTTGGTCTGTCTATTTTTC
1 TATATTTTTGGTCTGTCTATTTTTC
*
54121784 TATATTTTTGGTCTGTCTCTTTTTC
1 TATATTTTTGGTCTGTCTATTTTTC
54121809 TAT
1 TAT
54121812 CCCTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (25 bp):
TATATTTTTGGTCTGTCTATTTTTC
Found at i:54136239 original size:57 final size:57
Alignment explanation
Indices: 54136147--54136261 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
54136137 TAATAGAAGC
*
54136147 CCAGCAACATTCCTTAATAGCAATAGCATTGTCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
54136204 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
1 CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
54136261 C
1 C
54136262 TTTTTGCTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (57 bp):
CCAGCAACATTCCTTAATAGCAATAGCATTATCTGCATGTATACAAATCCTAAACAT
Found at i:54136468 original size:15 final size:15
Alignment explanation
Indices: 54136448--54136477 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54136438 AGGATTCTTA
*
54136448 GTATCTACATCATTT
1 GTATCTACATAATTT
54136463 GTATCTACATAATTT
1 GTATCTACATAATTT
54136478 TGATAAATTT
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:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (15 bp):
GTATCTACATAATTT
Found at i:54159624 original size:46 final size:46
Alignment explanation
Indices: 54159513--54159741 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
54159503 TTATCTTTGA
* * * * **
54159513 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
54159560 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
54159606 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
54159652 CATGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTCATAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
54159698 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
54159742 ATCAGAGAGC
Statistics
Matches: 158, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 125 0.79
47 33 0.21
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGCTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:54159739 original size:92 final size:92
Alignment explanation
Indices: 54159518--54159739 Score: 309
Period size: 92 Copynumber: 2.4 Consensus size: 92
54159508 TTTGACATGA
* * * ***
54159518 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCCCGTCATGTTGCCATGGTATCTTTCAA
* ** *
54159583 CCATGGTCTTATTCATTTCATGTCACGC
65 CCATGATCTTACACATTTCATATCACGC
* *
54159611 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*
54159676 CATGATCTTACACATTTCATATCAGGC
66 CATGATCTTACACATTTCATATCACGC
*
54159703 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
54159740 ATATCAGAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
92 85 0.75
93 28 0.25
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGATCTTACACATTTCATATCACGC
Found at i:54161920 original size:18 final size:20
Alignment explanation
Indices: 54161905--54161941 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54161895 TAATAATAAA
*
54161905 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
54161925 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
54161942 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:54163091 original size:16 final size:17
Alignment explanation
Indices: 54163063--54163094 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
54163053 GAATCCTAGA
54163063 AGTTATAAGGATTAAAT
1 AGTTATAAGGATTAAAT
54163080 AGTTAT-AGGATTAAA
1 AGTTATAAGGATTAAA
54163095 AGTGAGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (17 bp):
AGTTATAAGGATTAAAT
Found at i:54163475 original size:21 final size:23
Alignment explanation
Indices: 54163451--54163497 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
54163441 AATATGCTAT
*
54163451 AAATTGAAAGTTTA-TGATAG-G
1 AAATTGAAAGGTTATTGATAGAG
54163472 AAA-TGAAAGGTTATTGATAGAG
1 AAATTGAAAGGTTATTGATAGAG
54163494 AAAT
1 AAAT
54163498 CACTTTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 9 0.41
21 9 0.41
22 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (23 bp):
AAATTGAAAGGTTATTGATAGAG
Found at i:54165123 original size:68 final size:64
Alignment explanation
Indices: 54165013--54165265 Score: 228
Period size: 68 Copynumber: 3.9 Consensus size: 64
54165003 ATACAAATGG
** * * *
54165013 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
54165076 ATTA
62 A-TA
* *
54165080 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
54165145 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
54165210 TA
63 TA
* * *
54165212 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
54165266 CAAAATTATG
Statistics
Matches: 154, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 22 0.14
67 33 0.21
68 51 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:54166161 original size:22 final size:22
Alignment explanation
Indices: 54166136--54166181 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
54166126 TTATGAACCT
54166136 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
54166158 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
54166180 GT
1 GT
54166182 ATGTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (22 bp):
GTTTATGATTGTAATAGTGAAA
Found at i:54167113 original size:5 final size:5
Alignment explanation
Indices: 54167103--54167128 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
54167093 CTGTCTTAAA
54167103 AATAG AATAG AATAG AATAG AATAG A
1 AATAG AATAG AATAG AATAG AATAG A
54167129 TTTTCAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:54171788 original size:30 final size:31
Alignment explanation
Indices: 54171751--54171836 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
54171741 TTTGTTTAAA
54171751 AAAAAATTAATAGGGATATTTTAGATAATAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
*** * *
54171782 -AAAAATTAATATAAATATTTTAGGTAGTAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
* * *
54171812 AAAAAATCAATAGGGGTAATTTAGA
1 AAAAAATTAATAGGGATATTTTAGA
54171837 CATTAACCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.34
Consensus pattern (31 bp):
AAAAAATTAATAGGGATATTTTAGATAATAT
Found at i:54178888 original size:14 final size:13
Alignment explanation
Indices: 54178866--54178907 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
54178856 AATTCCAGTG
54178866 TTCTTTCTTGTTTC
1 TTCTTTCTT-TTTC
*
54178880 TTCTCTCTTTTCTC
1 TTCTTTCTTTT-TC
54178894 TTCTTTCTTTTTC
1 TTCTTTCTTTTTC
54178907 T
1 T
54178908 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTTTTC
Found at i:54180042 original size:15 final size:16
Alignment explanation
Indices: 54180022--54180056 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
54180012 ATAAAATTAC
54180022 ATATATTA-ATTTAAA
1 ATATATTATATTTAAA
*
54180037 ATATATTATATTTAAC
1 ATATATTATATTTAAA
54180053 ATAT
1 ATAT
54180057 GATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTATATTTAAA
Found at i:54181159 original size:6 final size:6
Alignment explanation
Indices: 54181148--54181173 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54181138 TTCTAAATTA
54181148 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
54181174 TTTATGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:54181976 original size:127 final size:127
Alignment explanation
Indices: 54181830--54182100 Score: 479
Period size: 127 Copynumber: 2.1 Consensus size: 127
54181820 ACCAACTTTA
*
54181830 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* *
54181895 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTTTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
54181957 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* * *
54182022 ATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTCTGCGTTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
*
54182084 TAAAACAAAGGAGATGT
1 TAAAACAAAGGCGATGT
54182101 CCTAATGTGT
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 137 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
Found at i:54182172 original size:98 final size:98
Alignment explanation
Indices: 54182003--54182198 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
54181993 GGGATCGTGC
*
54182003 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
*
54182068 TGCGTTTTCTAAACCTTAAAACAAAGGAGATGT
66 CGCGTTTTCTAAACCTTAAAACAAAGGAGATGT
*
54182101 CCTAATGTGTTGGGTTTTGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
*
54182166 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
66 CGCGTTTTCTAAACCTTAAAACAAAGGAGATGT
54182199 TTGGTGTTCA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (98 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCGTTTTCTAAACCTTAAAACAAAGGAGATGT
Found at i:54182267 original size:225 final size:225
Alignment explanation
Indices: 54181876--54182325 Score: 774
Period size: 225 Copynumber: 2.0 Consensus size: 225
54181866 GGGATCGTGC
*
54181876 CCTAATGTGTTGGGTTTCGATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
54181941 CGCATTTTTTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
* * * *
54182006 AATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCTTTTAAAATTTCGTCTGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
*
54182071 GTTTTCTAAACCTTAAAACAAAGGAGATGT
196 ATTTTCTAAACCTTAAAACAAAGGAGATGT
*
54182101 CCTAATGTGTTGGGTTTTGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* *
54182166 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
54182231 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
* *
54182296 ATTTTTTAAACCTTAAAACAAAGGCGATGT
196 ATTTTCTAAACCTTAAAACAAAGGAGATGT
54182326 TTGATGTTTA
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
225 211 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (225 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGGATCGTGCCCT
AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
ATTTTCTAAACCTTAAAACAAAGGAGATGT
Found at i:54182327 original size:127 final size:127
Alignment explanation
Indices: 54182101--54182547 Score: 723
Period size: 127 Copynumber: 3.5 Consensus size: 127
54182091 AAGGAGATGT
*
54182101 CCTAATGTGTTGGGTTTTGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
54182166 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGC
* *
54182228 CCTAATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* *
54182293 CGCATTTTTTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGC
*
54182355 CCTAATGTGTTGGGTTTCGATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
54182420 CGCGTTTTCTAAACCTTAAAACAAAGGTGATGTTTGATGTTTAGAAATTTGAGGAATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGC
** * ** **
54182482 CCTAATGTGCGGGGTTTCGATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
54182547 C
66 C
54182548 ATATTTTTCT
Statistics
Matches: 296, Mismatches: 24, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
127 296 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (127 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGC
Found at i:54190047 original size:18 final size:19
Alignment explanation
Indices: 54190021--54190059 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
54190011 TTTCAATTCA
54190021 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
54190040 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
54190058 AT
1 AT
54190060 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:54190465 original size:44 final size:43
Alignment explanation
Indices: 54190416--54190503 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
54190406 CTCACAAATA
*
54190416 TTCTTACAATAAAATTTTCAGAATTTTTGGTTTAGCCATTAAG
1 TTCTTACAATAAAATTTTCAGAAGTTTTGGTTTAGCCATTAAG
54190459 NTTCTTACAATAAAATTTTCAGAAGTTTTGGTTTAGCCATTAAG
1 -TTCTTACAATAAAATTTTCAGAAGTTTTGGTTTAGCCATTAAG
54190503 T
1 T
54190504 ACAGTTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.43
Consensus pattern (43 bp):
TTCTTACAATAAAATTTTCAGAAGTTTTGGTTTAGCCATTAAG
Found at i:54191191 original size:5 final size:5
Alignment explanation
Indices: 54191181--54191225 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
54191171 TTACTTATTT
* *
54191181 ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
54191226 TTTTAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:54192545 original size:29 final size:30
Alignment explanation
Indices: 54192513--54192571 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
54192503 TTATGTGTAT
*
54192513 AATTG-CATCAAATTAAAATTCATGTATAC
1 AATTGACATCAAATCAAAATTCATGTATAC
* *
54192542 AATTGCACATTAAATCAAAGTTCATGTATA
1 AATTG-ACATCAAATCAAAATTCATGTATA
54192572 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTGACATCAAATCAAAATTCATGTATAC
Found at i:54192574 original size:29 final size:27
Alignment explanation
Indices: 54192508--54192574 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
54192498 GAGTTTTATG
*
54192508 TGTATAATTGCATCAAATTAAAATTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
54192535 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
54192566 TGTATAATT
1 TGTATAATT
54192575 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 9 0.27
31 19 0.58
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:54193398 original size:20 final size:19
Alignment explanation
Indices: 54193347--54193399 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
54193337 ATTAATTTTG
*
54193347 TAATATTTTTTTATAATAT
1 TAATATTTTTTTAAAATAT
**
54193366 TAACT-TTCCTTTAAAATCAT
1 TAA-TATTTTTTTAAAAT-AT
54193386 TAATATTTTTTTAA
1 TAATATTTTTTTAA
54193400 TGAGTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATTTTTTTAAAATAT
Found at i:54198384 original size:7 final size:7
Alignment explanation
Indices: 54198368--54198427 Score: 111
Period size: 7 Copynumber: 8.6 Consensus size: 7
54198358 CCTATAATTA
54198368 TTAGGGT
1 TTAGGGT
*
54198375 TTATGGT
1 TTAGGGT
54198382 TTAGGGT
1 TTAGGGT
54198389 TTAGGGT
1 TTAGGGT
54198396 TTAGGGT
1 TTAGGGT
54198403 TTAGGGT
1 TTAGGGT
54198410 TTAGGGT
1 TTAGGGT
54198417 TTAGGGT
1 TTAGGGT
54198424 TTAG
1 TTAG
54198428 CCATAATCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:54213843 original size:32 final size:32
Alignment explanation
Indices: 54213806--54213912 Score: 108
Period size: 32 Copynumber: 3.4 Consensus size: 32
54213796 TAAAGGAATA
54213806 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
* * * *
54213838 TTGTTATCATTTTACAAAATTGAAGTTGTAAT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
* * * * **
54213870 TTGTTACCGTTTCA-CAAATAAAAGTTGATGT
1 TTGTTATCATTTAACCAAATTAAAGTTGAAAT
*
54213901 TTATTATCATTT
1 TTGTTATCATTT
54213913 CACAGAACTG
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
31 20 0.34
32 39 0.66
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTAACCAAATTAAAGTTGAAAT
Found at i:54214232 original size:21 final size:21
Alignment explanation
Indices: 54214185--54214232 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
54214175 TTAATCAATT
*
54214185 TAAATTTTAAAACCCTAAACC
1 TAAACTTTAAAACCCTAAACC
* *
54214206 TTAACTTTAAGACCCT-AACC
1 TAAACTTTAAAACCCTAAACC
54214226 ATAAACT
1 -TAAACT
54214233 CTAACACAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAACTTTAAAACCCTAAACC
Found at i:54217377 original size:10 final size:10
Alignment explanation
Indices: 54217362--54217386 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54217352 TTTACTATTC
54217362 AAAAAAATTA
1 AAAAAAATTA
54217372 AAAAAAATTA
1 AAAAAAATTA
54217382 AAAAA
1 AAAAA
54217387 TATTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:54223495 original size:14 final size:15
Alignment explanation
Indices: 54223471--54223505 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
54223461 ACAAGACTAA
*
54223471 ATTCTTTCTTCTTTC
1 ATTCCTTCTTCTTTC
54223486 -TTCCTTCTTCTTTC
1 ATTCCTTCTTCTTTC
54223500 ATTCCT
1 ATTCCT
54223506 GTACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTCCTTCTTCTTTC
Found at i:54232410 original size:24 final size:25
Alignment explanation
Indices: 54232366--54232415 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
54232356 TCCCTAAACT
*
54232366 AAAAGTCTATCTTGTTGTGGCCAAA
1 AAAAGTCTATCGTGTTGTGGCCAAA
54232391 AAAAGTTCTATCGTG-T-TGGCCAAA
1 AAAAG-TCTATCGTGTTGTGGCCAAA
54232415 A
1 A
54232416 TGAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (25 bp):
AAAAGTCTATCGTGTTGTGGCCAAA
Found at i:54244708 original size:37 final size:37
Alignment explanation
Indices: 54244666--54244736 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
54244656 AAATTTATTC
54244666 GGGCTGGACGGAAAAGGCATGAAATCAGCAGGAATTT
1 GGGCTGGACGGAAAAGGCATGAAATCAGCAGGAATTT
* *
54244703 GGGCTGGACGGCAAGGGCATGAAATCAGCAGGAA
1 GGGCTGGACGGAAAAGGCATGAAATCAGCAGGAA
54244737 AATTAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.38, T:0.13
Consensus pattern (37 bp):
GGGCTGGACGGAAAAGGCATGAAATCAGCAGGAATTT
Found at i:54245328 original size:38 final size:38
Alignment explanation
Indices: 54245286--54245362 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
54245276 AAGCTTAAGG
54245286 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
1 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
54245324 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
1 GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
54245362 G
1 G
54245363 GACAACAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (38 bp):
GAAAAATGGTAATAAACAGCTTGCACTAAAACAATATT
Found at i:54247111 original size:22 final size:22
Alignment explanation
Indices: 54247086--54247130 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
54247076 TGTGATGACG
54247086 TTATCTT-ATAAATAT-TATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
54247108 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
54247130 T
1 T
54247131 GGTTTGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:54252168 original size:30 final size:30
Alignment explanation
Indices: 54252134--54252196 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
54252124 ACTTATTCTA
54252134 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
54252164 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
54252194 TTG
1 TTG
54252197 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:54252356 original size:12 final size:12
Alignment explanation
Indices: 54252326--54252358 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
54252316 TATATATTTT
54252326 AAAATT-ATATA
1 AAAATTAATATA
54252337 AAAA-TAATATA
1 AAAATTAATATA
54252348 AAAATTAATAT
1 AAAATTAATAT
54252359 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:54255392 original size:25 final size:24
Alignment explanation
Indices: 54255364--54255416 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
54255354 ATTAATAACG
* *
54255364 ATAAATGGTATTTAAATATTTTAAT
1 ATAAATGATA-TTAAATAATTTAAT
* *
54255389 ATAACTGATATTATATAATTTAAT
1 ATAAATGATATTAAATAATTTAAT
54255413 ATAA
1 ATAA
54255417 TTAGAAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (24 bp):
ATAAATGATATTAAATAATTTAAT
Found at i:54256902 original size:13 final size:13
Alignment explanation
Indices: 54256871--54256903 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
54256861 TAATCTCATT
54256871 ATTTTTTATTAAA
1 ATTTTTTATTAAA
*
54256884 ACTTTTTATT-AA
1 ATTTTTTATTAAA
54256896 ATTTTTTA
1 ATTTTTTA
54256904 GTGTGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTTATTAAA
Found at i:54257224 original size:23 final size:23
Alignment explanation
Indices: 54257182--54257225 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
54257172 CTTATCATGT
*
54257182 AAAAAAAATATAAATTTTAAAAA
1 AAAAAAAATATAAATATTAAAAA
54257205 AAAAAAAATATATAA-ATTAAA
1 AAAAAAAATATA-AATATTAAA
54257226 TCTCGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (23 bp):
AAAAAAAATATAAATATTAAAAA
Found at i:54258048 original size:34 final size:34
Alignment explanation
Indices: 54258009--54258079 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
54257999 ATAATAAGGG
54258009 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
1 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
54258043 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
1 TTTTAAAATTGATACAAGAGTTCATAGTCATATT
54258077 TTT
1 TTT
54258080 CAAGGGGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (34 bp):
TTTTAAAATTGATACAAGAGTTCATAGTCATATT
Found at i:54259150 original size:51 final size:51
Alignment explanation
Indices: 54259074--54259175 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
54259064 TTATTAGGTT
*
54259074 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACCCGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
54259125 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
54259176 AGTAAATGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (51 bp):
CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
Found at i:54266661 original size:18 final size:18
Alignment explanation
Indices: 54266640--54266687 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
54266630 TAATAAGAAT
*
54266640 TATTAAAATATTATTTCA
1 TATTAAAATATTATATCA
54266658 TATTTAAAATAAATTATATCA
1 TA-TTAAAAT--ATTATATCA
54266679 T-TTAAAATA
1 TATTAAAATA
54266688 AACCACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 14 0.54
21 9 0.35
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAAATATTATATCA
Found at i:54267372 original size:228 final size:227
Alignment explanation
Indices: 54266968--54267630 Score: 762
Period size: 228 Copynumber: 2.9 Consensus size: 227
54266958 CTTTGAAGAA
* * *
54266968 GATGCAGATCTTTGTGAAAACCCTTACCGGCAAGACCATAACACTCGAGGTCGAAAGCTCCGACA
1 GATGCAGATCTTTGTCAAAA-CCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * *
54267033 CCATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCCGACCAGCAGCGTCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* ** * * **
54267098 ATTTTCGCTGGCAAACAGCTCGAAGACGGTCGGACCCTT-GCTGATTATAACATCCAGAAAGAAT
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGA-CCTTGGCTGATTATAACATCCAGAAAGAAT
*
54267162 CCACCCTCCACCTCGTCTT-ACGCCTTCGTGG-GG
194 CCACCCTTCACCTCGTCTTGA-GCCTTCGTGGAGG
* * * *
54267195 GCATGCAAATCTTTGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGAC
* *
54267260 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAACAGCGTTT
64 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCT
* *
54267325 GATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAATATCCA-AAAGGAA
129 CATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAA-GAA
* * *
54267389 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
* * * * * * * * * *
54267424 GATGCAGATTTTTGTCAAGACTTTGACAGGCAAAACAATCACCTTGGAGGTTGAAAGCTCCGATA
1 GATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * * * * **
54267489 CCATTGACAATGTTAAGGCAAAGATTCAGGATAAGGAAGGAATCCCACCTGATCAGCA-AATGCT
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGT-CT
* * * *
54267553 CATC-TCTGCCGGCAAACAATTGGAAGATGGGAGGACTTTGGCTGATTATAACATTCAGAAAGAG
129 CATCTTC-GCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAA
*
54267617 TCTACCCTTCACCT
193 TCCACCCTTCACCT
54267631 TGTTCTTCGT
Statistics
Matches: 369, Mismatches: 58, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
227 15 0.04
228 347 0.94
229 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (227 bp):
GATGCAGATCTTTGTCAAAACCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACAC
CATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
Found at i:54273503 original size:12 final size:12
Alignment explanation
Indices: 54273471--54273505 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
54273461 TTTTAGATTT
54273471 AAAAAATTAATA
1 AAAAAATTAATA
**
54273483 AAATTATTAATA
1 AAAAAATTAATA
54273495 AAAAAATTAAT
1 AAAAAATTAAT
54273506 TTATTCTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:54276263 original size:3 final size:3
Alignment explanation
Indices: 54276255--54276281 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
54276245 AGTATCTAAA
54276255 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
54276282 ATTGAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:54284442 original size:50 final size:49
Alignment explanation
Indices: 54284363--54284642 Score: 294
Period size: 50 Copynumber: 5.6 Consensus size: 49
54284353 ATTGTGAATA
* * * * *
54284363 CACGTGTGTAGAACTAAGTGCAGGCTACTACATGTACCATACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTGAGGT
* * * * ** *
54284413 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG--TGAGGT
* * **
54284464 CACGTGTGTAGTACTAAGTGTAGGCTGCTACGTGTATTAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTGAGGT
*
54284514 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTGAGGT
*
54284564 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-TGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTG-AGGT
* * *
54284613 CGCATGAGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
54284643 TGCGTATCAG
Statistics
Matches: 196, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 32 0.16
50 124 0.63
51 37 0.19
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTGAGGT
Found at i:54287828 original size:65 final size:65
Alignment explanation
Indices: 54287759--54287971 Score: 309
Period size: 65 Copynumber: 3.3 Consensus size: 65
54287749 TTTCTGAGTG
* **
54287759 GTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
*
54287824 GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
* * * ** * *
54287889 GTACACACAAAGTGTACATAACCTTTTCAAATGATATACACAAAGTATACTTTTCCTTTTCTAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
*
54287954 GGTATACACAAAGTATAC
1 -GTACACACAAAGTATAC
54287972 TTTTCCTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 120 0.89
66 15 0.11
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
Found at i:54287980 original size:98 final size:98
Alignment explanation
Indices: 54287749--54287980 Score: 277
Period size: 98 Copynumber: 2.4 Consensus size: 98
54287739 TGTACGTTTA
* * * *
54287749 TTTCTGAGTGGTACACACAAAGTATACCTTTCCTTTTCAAATGGTATACACAAAGTATACCTAAC
1 TTTCT-AGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGGTACACACAAAGTATACATAAC
* *
54287814 CTTTCCAAGTGTACACACAAAGTGTACATAACCT
65 CTTTCCAAATGTACACACAAAGTATACATAACCT
* * ** * *
54287848 TTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT-GTACACACAAAGTGTACATAACC
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGGTACACACAAAGTATACATAACC
* * * **
54287912 TTTTCAAATGATATACACAAAGTATACTTTTCCT
66 TTTCCAAATG-TACACACAAAGTATACATAACCT
*
54287946 TTTCTAGTGGTATACACAAAGTATACTTTTCCTTT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCTTT
54287981 TCACATTCGA
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
97 28 0.25
98 78 0.71
99 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (98 bp):
TTTCTAGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGGTACACACAAAGTATACATAACC
TTTCCAAATGTACACACAAAGTATACATAACCT
Found at i:54287982 original size:33 final size:33
Alignment explanation
Indices: 54287755--54287971 Score: 249
Period size: 33 Copynumber: 6.6 Consensus size: 33
54287745 TTTATTTCTG
* **
54287755 AGTGGTACACACAAAGTATACCTTTCCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* *
54287788 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * *
54287821 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* *
54287853 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * *
54287886 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * * ** *
54287918 AATGATATACACAAAGTATACTTTTCCTTTTCT
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
54287951 AGTGGTATACACAAAGTATAC
1 AGTGGTATACACAAAGTATAC
54287972 TTTTCCTTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
32 54 0.36
33 98 0.64
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (33 bp):
AGTGGTATACACAAAGTATACCTAACCTTTTCA
Found at i:54288018 original size:29 final size:29
Alignment explanation
Indices: 54287976--54288074 Score: 189
Period size: 29 Copynumber: 3.4 Consensus size: 29
54287966 GTATACTTTT
54287976 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
54288005 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
54288034 CCTTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
54288063 CCTTTTCACATT
1 CCTTTTCACATT
54288075 GTACACACAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:54296690 original size:39 final size:39
Alignment explanation
Indices: 54296642--54296899 Score: 372
Period size: 39 Copynumber: 6.6 Consensus size: 39
54296632 ACACAAATGT
* *
54296642 CTTCGGGACTTAGCCCGGATATAACACCAGTACAAATAC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
* *
54296681 CTTCAGGACTTAGCACGGATATAACACCAGCACGAATAC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
* * **
54296720 CTTCGGGACTTAGCCCGGATATGACACTAGCATTAATAC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
* *
54296759 CTTCGGGACTTAGCCCGGATATGACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
* * *
54296798 CTTCGGGACTTAGCCCGGACATAACAACAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
**
54296837 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGG
1 CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
*
54296876 CTTCGGGACTTAGCCCGGACATAA
1 CTTCGGGACTTAGCCCGGATATAA
54296900 ATCTCACACA
Statistics
Matches: 198, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 198 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAACACCAGCACGAATAC
Found at i:54306052 original size:44 final size:44
Alignment explanation
Indices: 54306002--54306087 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
54305992 AGATCCAACA
*
54306002 CAAATATTTTACGTGGAAAAACCCCTCTGAAAAGGATAAAAATC
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
*
54306046 CAAATATTTTACGTAGAAAAACCCCTCTGAAGAGGATAAAAA
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAA
54306088 ACCACATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (44 bp):
CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
Found at i:54310092 original size:21 final size:21
Alignment explanation
Indices: 54310067--54310114 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
54310057 AGGTCGAATT
*
54310067 TATTTTATTAAAAAATTAAAA
1 TATTTTATTAAAAAAATAAAA
* *
54310088 TATTTTTTTAAAAAAATAAGA
1 TATTTTATTAAAAAAATAAAA
54310109 TATTTT
1 TATTTT
54310115 CTTTCACCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTTTATTAAAAAAATAAAA
Found at i:54313919 original size:3 final size:3
Alignment explanation
Indices: 54313911--54313945 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
54313901 CTTTGTTTCT
54313911 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
54313946 TTTTTTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:54316999 original size:16 final size:16
Alignment explanation
Indices: 54316978--54317011 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
54316968 CCCATTAGGA
54316978 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
54316994 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
54317010 CA
1 CA
54317012 TCGCACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
CACAAAATCGAATTAT
Found at i:54324555 original size:297 final size:298
Alignment explanation
Indices: 54323602--54325089 Score: 2692
Period size: 298 Copynumber: 5.0 Consensus size: 298
54323592 TTTCGTAACA
* **
54323602 TTTGGGCCCCTTTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCAAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
* * * * * *
54323667 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGGTGAGACATATCTTCATTATTTAGACATCTCCG
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54323732 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
54323797 GAATAGGTCGTAT-TCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
54323861 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
*
54323899 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
* * * * *
54323964 TCTTTCGTGAACCCTTTGGGATCTTAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
* *
54324029 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACATATTTCTTATATTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* * *
54324094 GAATAGGTCGTATCTCTTATATTTTATTCCCAACAGTCAGCTTAAATATTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
54324159 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
54324197 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
54324262 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54324327 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
54324392 GAATAGGTCGTAT-TCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
54324456 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
54324494 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
54324559 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54324624 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
54324689 GAATAGGTCGTGTCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
*
54324754 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
* **
54324792 TTTGGGCCCCTCTATGAACCTTTTGGGCTCTCAATTGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
54324857 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54324922 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
54324987 GAATAGGTCGTGTCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
* *
54325052 CTAATAATCTAAAAAGGTTTATATCAAGCAAACGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
54325090 ACCAAAGTGC
Statistics
Matches: 1157, Mismatches: 32, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
297 491 0.42
298 666 0.58
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (298 bp):
TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
Found at i:54324733 original size:595 final size:595
Alignment explanation
Indices: 54323602--54325089 Score: 2706
Period size: 595 Copynumber: 2.5 Consensus size: 595
54323592 TTTCGTAACA
* **
54323602 TTTGGGCCCCTTTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCAAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
* * * * * *
54323667 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGGTGAGACATATCTTCATTATTTAGACATCTCCG
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54323732 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
54323797 GAATAGGTCGTATTCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTC
196 GAATAGGTCGTATTCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTC
54323862 TAATAATCTAAAAAAGTTTATATCAAGCAAATGACCTTTTGGGCCCCTCTGTGAACCTTTTGGGC
261 TAATAATCTAAAAAAGTTTATATCAAGCAAATGACCTTTTGGGCCCCTCTGTGAACCTTTTGGGC
* * *
54323927 TCTCAACGGAGGTAAGGCATATCTTCAATATCTCGACTCTTTCGTGAACCCTTTGGGATCTTAGC
326 TCTCAACGGAGGTAAGGCATATCTTCAATATCTCGACCCTTTCGTGAACCCTTTGGAATCTCAGC
*
54323992 GAAGATGAGACATATCTTCAATATTTAGACCTCTCCGTGAACCCTTCGAGCACTATGAATTTCTA
391 GAAGATGAGACATATCTTCAATATTTAGACCTCTCCATGAACCCTTCGAGCACTATGAATTTCTA
* *
54324057 GTGACTAACATATATTACATATTTCTTATATTTCAATGAATAGGTCGTATCTCTTATATTTTATT
456 GTGACTAACATATATTACACATTTCTTATATTTCAATGAATAGGTCGTATCTCTTACATTTTATT
*
54324122 CCCAACAGTCAGCTTAAATATTTTCTATTTTACATTTCTAATAATCTAAAAAAGTTTATATCAAG
521 ACCAACAGTCAGCTTAAATATTTTCTATTTTACATTTCTAATAATCTAAAAAAGTTTATATCAAG
*
54324187 CAAATGACCT
586 CAAACGACCT
54324197 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
54324262 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54324327 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
54324392 GAATAGGTCGTATTCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTC
196 GAATAGGTCGTATTCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTC
54324457 TAATAATCTAAAAAAGTTTATATCAAGCAAATGACCTTTTGGGCCCCTCTGTGAACCTTTTGGGC
261 TAATAATCTAAAAAAGTTTATATCAAGCAAATGACCTTTTGGGCCCCTCTGTGAACCTTTTGGGC
*
54324522 TCTCAACGGAGGTAAGGCATATCTTCAATATCTTGACCCTTTCGTGAACCCTTTGGAATCTCAGC
326 TCTCAACGGAGGTAAGGCATATCTTCAATATCTCGACCCTTTCGTGAACCCTTTGGAATCTCAGC
*
54324587 GAAGATGAGACATATCTTTAATATTTAGACCTCTCCATGAACCCTTCGAGCACTATGAATTTCTA
391 GAAGATGAGACATATCTTCAATATTTAGACCTCTCCATGAACCCTTCGAGCACTATGAATTTCTA
* *
54324652 GTGACTAACATATATTACACATTTCTTATGTTTCAATGAATAGGTCGTGTCTCTTACATTTTATT
456 GTGACTAACATATATTACACATTTCTTATATTTCAATGAATAGGTCGTATCTCTTACATTTTATT
*
54324717 ACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTCTAATAATCTAAAAAAGTTTATATCAAG
521 ACCAACAGTCAGCTTAAATATTTTCTATTTTACATTTCTAATAATCTAAAAAAGTTTATATCAAG
54324782 CAAACGACCT
586 CAAACGACCT
* **
54324792 TTTGGGCCCCTCTATGAACCTTTTGGGCTCTCAATTGAGGTAAGGCATATCTTCAATATCTTGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
54324857 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
66 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
54324922 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* *
54324987 GAATAGGTCGTGTCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTAT-TCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
* *
54325052 CTAATAATCTAAAAAGGTTTATATCAAGCAAACGACCT
260 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
54325090 ACCAAAGTGC
Statistics
Matches: 863, Mismatches: 29, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
595 777 0.90
596 86 0.10
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (595 bp):
TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTTGAC
CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTCCA
TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
GAATAGGTCGTATTCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTTC
TAATAATCTAAAAAAGTTTATATCAAGCAAATGACCTTTTGGGCCCCTCTGTGAACCTTTTGGGC
TCTCAACGGAGGTAAGGCATATCTTCAATATCTCGACCCTTTCGTGAACCCTTTGGAATCTCAGC
GAAGATGAGACATATCTTCAATATTTAGACCTCTCCATGAACCCTTCGAGCACTATGAATTTCTA
GTGACTAACATATATTACACATTTCTTATATTTCAATGAATAGGTCGTATCTCTTACATTTTATT
ACCAACAGTCAGCTTAAATATTTTCTATTTTACATTTCTAATAATCTAAAAAAGTTTATATCAAG
CAAACGACCT
Found at i:54328915 original size:33 final size:33
Alignment explanation
Indices: 54328873--54328938 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
54328863 AAAAAAGCAA
54328873 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
54328906 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
54328939 ACTCTACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (33 bp):
GTGCAGAAGCAACCACCACTGCACTATGAATTT
Found at i:54332617 original size:19 final size:19
Alignment explanation
Indices: 54332570--54332609 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
54332560 TTGACACAAG
*
54332570 TTAATACTAACATAACAAATA
1 TTAATA-TAA-ATAAAAAATA
54332591 TTAATATAAATAAAAAATA
1 TTAATATAAATAAAAAATA
54332610 CTTATATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAATATAAATAAAAAATA
Found at i:54333420 original size:23 final size:22
Alignment explanation
Indices: 54333394--54333437 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
54333384 GTAAATTTAA
54333394 CTTTATACT-TTTTAATTCTTTGT
1 CTTTATA-TATTTTAATT-TTTGT
54333417 CTTTATATATTTTAATTTTTG
1 CTTTATATATTTTAATTTTTG
54333438 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
CTTTATATATTTTAATTTTTGT
Found at i:54334309 original size:21 final size:23
Alignment explanation
Indices: 54334262--54334310 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
54334252 AGTCATAATA
*
54334262 ATTAAATTAAATTAACAATTTAC
1 ATTAAATTAAATTAACAATTAAC
* *
54334285 ATTAAA-T-AATTAATAATTAAG
1 ATTAAATTAAATTAACAATTAAC
54334306 ATTAA
1 ATTAA
54334311 GTTAGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAATTAAATTAACAATTAAC
Found at i:54336272 original size:23 final size:21
Alignment explanation
Indices: 54336242--54336288 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
54336232 TTGATTTTAA
*
54336242 TTTTTATTACTAGTTTATAATTT
1 TTTTTATT-CT-GTTAATAATTT
*
54336265 TTTTTATTGTGTTAATAATTT
1 TTTTTATTCTGTTAATAATTT
54336286 TTT
1 TTT
54336289 ATTGTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 1 0.05
23 8 0.36
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (21 bp):
TTTTTATTCTGTTAATAATTT
Done.