Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 248 of 318
Found at i:78013746 original size:79 final size:77
Alignment explanation
Indices: 78013540--78013757 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 77
78013530 TTGAATGATG
* * * *
78013540 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTATATCCGG-TTAAG-TCCGAAGGCATT
78013604 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* * * *
78013620 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCAGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCG
*
78013685 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** ** ** *
78013700 -CCGGGCTTTGTCCCGAAGGCATTTGAGTGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTATATCCGGTT-AAGTCCGAAGG
78013758 TACGTGATTC
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 66 0.57
80 48 0.42
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:78020819 original size:40 final size:39
Alignment explanation
Indices: 78020730--78020911 Score: 127
Period size: 40 Copynumber: 4.6 Consensus size: 39
78020720 TGAATGATGT
* * * * * *
78020730 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTACAAAAC
* * *
78020770 CCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTA-ATAAAT
1 CCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACA-AAAC
* * * *
78020810 CTGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACAAAAC
1 CCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACAAAAC
* *
78020849 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-
1 CCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAC-AAAAC
**
78020889 CCGGGCTTTGTCCCGAAGGCATT
1 CCGGGCTAAGT-CCGAAGGCATT
78020912 TGAGTGAGTC
Statistics
Matches: 114, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 30 0.26
40 74 0.65
41 10 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACAAAAC
Found at i:78020866 original size:79 final size:81
Alignment explanation
Indices: 78020730--78020913 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
78020720 TGAATGATGT
* * * *
78020730 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAACCCGGACTAAGATCCGAAGGCATTC
78020794 GTGCGAGTTAATA-AA
66 GTGCGAGTTAATATAA
* * **
78020809 TCTGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACAAAACCCGGGTTAAG-TCCCGAAGGCAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAACCCGGACTAAGAT-CCGAAGGCAT
*
78020871 TCGTGCGAGTTACTATAA
64 TCGTGCGAGTTAATATAA
**
78020889 CCGGGCTTTGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78020914 AGTGAGTCGT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:78036192 original size:40 final size:40
Alignment explanation
Indices: 78036137--78036360 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
78036127 TTATTCGATG
78036137 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
78036177 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
78036220 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
78036260 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
78036300 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
78036340 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
78036361 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:78036280 original size:83 final size:80
Alignment explanation
Indices: 78036141--78036360 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
78036131 TCGATGATAT
* **
78036141 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
78036206 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
78036224 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
78036289 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
78036304 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
78036361 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:78038253 original size:11 final size:11
Alignment explanation
Indices: 78038239--78038266 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
78038229 TGATTGATCT
78038239 GAAAAGTGTCA
1 GAAAAGTGTCA
78038250 GAAAAGTGTCA
1 GAAAAGTGTCA
78038261 GAAAAG
1 GAAAAG
78038267 CTTTGATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.29, T:0.14
Consensus pattern (11 bp):
GAAAAGTGTCA
Found at i:78039014 original size:11 final size:11
Alignment explanation
Indices: 78039000--78039048 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
78038990 AGGTAAATAT
78039000 TATTTTATTAA
1 TATTTTATTAA
*
78039011 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
78039024 TATTTTATTAT
1 TATTTTATTAA
78039035 TATTTTATTAA
1 TATTTTATTAA
78039046 TAT
1 TAT
78039049 ATAAAGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 19 0.59
12 6 0.19
13 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:78039050 original size:24 final size:24
Alignment explanation
Indices: 78038995--78039050 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
78038985 TAATTAGGTA
78038995 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* * * *
78039020 GAGATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
78039044 AATATAT
1 AATATAT
78039051 AAAGAAAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:78040915 original size:46 final size:46
Alignment explanation
Indices: 78040856--78041072 Score: 281
Period size: 46 Copynumber: 4.7 Consensus size: 46
78040846 TGAAATATGG
* * * *
78040856 AAGACCATAGTTGAAAAATACCATGACAACATGACGGGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
** *
78040902 AAGACCATGGTTGAAAGATACCATGGCAGTATGACATGAAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* *
78040948 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* * * *
78040994 ATGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
* * * *
78041040 AAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
78041073 TCAAAGATAA
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 150 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAT
Found at i:78043110 original size:18 final size:18
Alignment explanation
Indices: 78043080--78043115 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
78043070 AATTGAGTCC
78043080 GAGATTCATCGAGCCGTAT
1 GAGATTCATCGAG-CGTAT
78043099 GAGATT-ATCGAGCGTAT
1 GAGATTCATCGAGCGTAT
78043116 CGGGCCGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (18 bp):
GAGATTCATCGAGCGTAT
Found at i:78045475 original size:192 final size:192
Alignment explanation
Indices: 78045148--78045532 Score: 752
Period size: 192 Copynumber: 2.0 Consensus size: 192
78045138 GCTGCTATTG
78045148 AAGTAGTGTTTAATGTCTAATTAAATTATCCAAGTGATGATTAACTATTACTGTTTAAGATGGTG
1 AAGTAGTGTTTAATGTCTAATTAAATTATCCAAGTGATGATTAACTATTACTGTTTAAGATGGTG
78045213 TCAAGGCTTATTTGATCGTCTGAATGCAGTTAATTAGCGGCAGGAAGCTTTGTTAGTTTAGTTAG
66 TCAAGGCTTATTTGATCGTCTGAATGCAGTTAATTAGCGGCAGGAAGCTTTGTTAGTTTAGTTAG
78045278 GTTGTACTATTTATGATAGTTGAAAATAACTATTAAATATTCTAAAATTTTTCCCTTGTTTA
131 GTTGTACTATTTATGATAGTTGAAAATAACTATTAAATATTCTAAAATTTTTCCCTTGTTTA
78045340 AAGTAGTGTTTAATGTCTAATTAAATTATCCAAGTGATGATTAACTATTACTGTTTAAGATGGTG
1 AAGTAGTGTTTAATGTCTAATTAAATTATCCAAGTGATGATTAACTATTACTGTTTAAGATGGTG
* *
78045405 TCAAGGCTTATTTGATCGTCTGAATGTAGTTAATTAGCGGCAGGAAGGTTTGTTAGTTTAGTTAG
66 TCAAGGCTTATTTGATCGTCTGAATGCAGTTAATTAGCGGCAGGAAGCTTTGTTAGTTTAGTTAG
78045470 GTTGTACTATTTATGATAGTTGAAAATAACTATTAAATATTCTAAAATTTTTCCCTTGTTTA
131 GTTGTACTATTTATGATAGTTGAAAATAACTATTAAATATTCTAAAATTTTTCCCTTGTTTA
78045532 A
1 A
78045533 TTGATGTCTA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 191 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (192 bp):
AAGTAGTGTTTAATGTCTAATTAAATTATCCAAGTGATGATTAACTATTACTGTTTAAGATGGTG
TCAAGGCTTATTTGATCGTCTGAATGCAGTTAATTAGCGGCAGGAAGCTTTGTTAGTTTAGTTAG
GTTGTACTATTTATGATAGTTGAAAATAACTATTAAATATTCTAAAATTTTTCCCTTGTTTA
Found at i:78047037 original size:2 final size:2
Alignment explanation
Indices: 78047030--78047062 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
78047020 ATTGAAAGGG
78047030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78047063 AAAGTCGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78048490 original size:40 final size:39
Alignment explanation
Indices: 78048445--78048652 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
78048435 TCGGAATACA
*
78048445 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78048485 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
78048525 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78048565 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
78048605 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
78048645 CCGGATAT
1 CCGGATAT
78048653 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78048585 original size:80 final size:81
Alignment explanation
Indices: 78048445--78048650 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
78048435 TCGGAATACA
* * *
78048445 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
78048509 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
78048525 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
78048588 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
78048605 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
78048651 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:78056501 original size:40 final size:40
Alignment explanation
Indices: 78056456--78056663 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
78056446 CGGAATACAA
*
78056456 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
* * * *
78056496 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
* * * *
78056536 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78056576 CCGGATGTAGTCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACAT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
78056616 CCGGATATAATTACCA-GCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CATGCACAAATGCCTTCGGGTCTTAGC
78056656 CCGGATAT
1 CCGGATAT
78056664 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 138 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
Found at i:78056596 original size:80 final size:80
Alignment explanation
Indices: 78056456--78056662 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
78056446 CGGAATACAA
* *
78056456 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
78056521 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
78056536 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
*
78056599 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
* * ** * *
78056616 CCGGATATAATTACCA-GCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAA-CAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATA
78056663 TCATTCAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 102 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:78060859 original size:40 final size:38
Alignment explanation
Indices: 78060814--78061015 Score: 160
Period size: 39 Copynumber: 5.2 Consensus size: 38
78060804 CGGAATACAA
78060814 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTC-GGTCTTAGC
* * * *
78060854 CCGGATAGAACGACTTGCACAAATGCCTTCGGTATTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGTCTTAGC
* *
78060893 CCGGATTTAACAACTGCAAACGAAT-CC--CGGTCTTAGC
1 CCGGATATAACCACTGC--ACGAATGCCTTCGGTCTTAGC
* ** *
78060930 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAATGCCTTC-GGTCTTAGC
** ** * *
78060969 CCGGATATAATTACTAGCATAAATGTCTTCGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGTCTTAGC
78061008 CCGGATAT
1 CCGGATAT
78061016 CATTCAATTG
Statistics
Matches: 132, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
35 3 0.02
36 4 0.03
37 20 0.15
38 6 0.05
39 60 0.45
40 39 0.30
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (38 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGTCTTAGC
Found at i:78068805 original size:40 final size:40
Alignment explanation
Indices: 78068760--78068927 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
78068750 CGGAATACGA
* * *
78068760 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
* * *
78068800 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
* *
78068840 CCGGATTTAACAAC-TCGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACAT-GCACAAATGCCTTCGGGTATTAGC
* * * *
78068880 CCGGATATAATTACCA-GCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAA-CAACATGCACAAATGCCTTCGGGTA-TTAGC
78068920 CCGGATAT
1 CCGGATAT
78068928 CATTCAATTG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.02
40 105 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
Found at i:78068904 original size:80 final size:80
Alignment explanation
Indices: 78068776--78068925 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 80
78068766 ATAACCACAT
* **
78068776 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTA-TTAGC
1 GCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACCAGCACAAATGCCTTCGGG-ACTTAGC
78068840 CCGGATTTAACAACTC
65 CCGGATTTAACAACTC
* ** * *
78068856 GCACGAATGCCTTCGGGTATTAGCCCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACCAGCACAAATGCCTTCGGGACTTAGCC
78068921 CGGAT
66 CGGAT
78068926 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACCAGCACAAATGCCTTCGGGACTTAGCC
CGGATTTAACAACTC
Found at i:78086137 original size:33 final size:33
Alignment explanation
Indices: 78086077--78086175 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 33
78086067 ATAGACTTTA
** * *
78086077 TCTGTGTTTATTGTGTTAGAAGGCTATCTCTGT
1 TCTGTGTTTATTGTCCTAGCAGACTATCTCTGT
* * *
78086110 TCTGTGTTTGTTGTCCTAGCAGACTATCTATAT
1 TCTGTGTTTATTGTCCTAGCAGACTATCTCTGT
* * * * *
78086143 TATGTGTTTACTATCCCAACAGACTATCTCTGT
1 TCTGTGTTTATTGTCCTAGCAGACTATCTCTGT
78086176 GGATTCCATA
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (33 bp):
TCTGTGTTTATTGTCCTAGCAGACTATCTCTGT
Found at i:78089063 original size:28 final size:28
Alignment explanation
Indices: 78089023--78089090 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
78089013 AGTAAGTCCA
*
78089023 CACACTTAGTGCT-TAATAATCAAACTCG
1 CACACTTAGTGCTAT-ACAATCAAACTCG
*
78089051 CACACTTAGTGCTATACAATTAAACTCG
1 CACACTTAGTGCTATACAATCAAACTCG
78089079 CACACTTAGTGC
1 CACACTTAGTGC
78089091 CAATCTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACTCG
Found at i:78094774 original size:39 final size:40
Alignment explanation
Indices: 78094690--78094872 Score: 171
Period size: 39 Copynumber: 4.7 Consensus size: 40
78094680 ACGACTCGCT
** * *
78094690 CAAATGCCTTC-GGACGAAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
78094729 CGAATGCCTTCGGGACTTAACCCGGGTTTA-TAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
78094768 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
78094807 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
78094848 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78094873 CATCATTCGA
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
38 15 0.13
39 48 0.41
40 43 0.37
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:78094789 original size:78 final size:80
Alignment explanation
Indices: 78094690--78094872 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 80
78094680 ACGACTCGCT
* ** * *
78094690 CAAATGCCTTCGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCCG
* *
78094753 GGTTTA-TAACTT-GCA
64 GATATAGTAACTTAGCA
* **
78094768 CAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
78094833 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
78094848 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
78094873 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 52 0.58
79 16 0.18
80 18 0.20
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:78094872 original size:40 final size:39
Alignment explanation
Indices: 78094683--78094872 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
78094673 GGATATAACG
* ** * *
78094683 ACTCGCTCAAATGCCTTC-GGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
78094722 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTA-TA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
78094761 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
78094800 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
78094840 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
78094873 CATCATTCGA
Statistics
Matches: 119, Mismatches: 23, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
38 17 0.14
39 45 0.38
40 49 0.41
41 8 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:78101995 original size:39 final size:40
Alignment explanation
Indices: 78101884--78102065 Score: 171
Period size: 39 Copynumber: 4.7 Consensus size: 40
78101874 ACGACTCGCT
** * *
78101884 CAAATGCCTTC-GGACGAAGCCC--ATTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* *
78101922 CGAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
78101961 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
78102000 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
78102041 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78102066 CATCATTCGA
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
38 21 0.18
39 53 0.46
40 33 0.28
41 9 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:78102065 original size:40 final size:39
Alignment explanation
Indices: 78101927--78102065 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 39
78101917 TCGCACGAAT
*
78101927 GCCTTCGGGACTTAACCCGG-TTTAGTAACTTGCACAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAA
* * *
78101965 TGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAAT
1 -GCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC-AAA
* * * *
78102005 GCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACAAA
78102045 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
78102066 CATCATTCGA
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
38 11 0.14
39 28 0.35
40 35 0.43
41 7 0.09
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAA
Found at i:78105531 original size:28 final size:28
Alignment explanation
Indices: 78105462--78105562 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
78105452 GACAAGATTG
* * * *
78105462 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
78105492 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78105520 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
78105549 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78105563 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78110375 original size:50 final size:50
Alignment explanation
Indices: 78110256--78110694 Score: 398
Period size: 50 Copynumber: 8.7 Consensus size: 50
78110246 ATTGTGAGAA
* * *** *
78110256 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
*
78110308 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * ** * * * *
78110358 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
78110409 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
78110459 TACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
78110509 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAATTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
78110560 CACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
78110610 CACATGTGTACTAATAAGTGTAGGCCACTACGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
78110659 CTCATTTGTAGTACTAAATGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA
78110695 GTACCAGATA
Statistics
Matches: 311, Mismatches: 70, Indels: 15
0.79 0.18 0.04
Matches are distributed among these distances:
49 34 0.11
50 163 0.52
51 75 0.24
52 39 0.13
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:78110536 original size:151 final size:151
Alignment explanation
Indices: 78110260--78110690 Score: 623
Period size: 151 Copynumber: 2.8 Consensus size: 151
78110250 TGAGAACACA
* * *
78110260 TGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAA-ATGG--TTAGGTCACGTGTGTAGTACTA
* **
78110324 AGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTAT
63 AGTGTAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
78110389 GCATACCCGACAACTTCAATCACG
128 GCATACCCGACAACTTCAATCACG
*
78110413 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTTACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGT
* *
78110478 GTAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GTAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCA
*
78110543 TACCCGACAATTTCAATCACG
131 TACCCGACAACTTCAATCACG
* * * * *
78110564 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTTAGGTCACATGTGTACTAATAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * *
78110629 GTAGGCCACTACGTGTACCGGATTGTT-GGTCTCATTTGTAGTACTAAATGCAGGCCACTATG
66 GTAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
78110691 TGTAGTACCA
Statistics
Matches: 253, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
150 31 0.12
151 186 0.74
153 33 0.13
154 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGT
GTAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCGACAACTTCAATCACG
Found at i:78110565 original size:101 final size:100
Alignment explanation
Indices: 78110260--78110647 Score: 388
Period size: 101 Copynumber: 3.8 Consensus size: 100
78110250 TGAGAACACA
* * * * * *
78110260 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAG--TTAGGTCACATGTGTAGTACTAA
* * * * *
78110325 GTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCA
64 GTGCAGGCTACTACGTGTACCCGAAATTTAGGTTACG
* ** * * * * * *
78110362 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCA-ATCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TAGTT-AGGTCACATGTGTAGTACTAA
*
78110426 GTGCAGGCTACTACGTGTA-TC-AAATGGTTAGGTTACG
64 GTGCAGGCTACTACGTGTACCCGAAAT--TTAGGTTACG
*
78110463 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAGT
* * * *
78110528 GCAGGCTACTATGCGTACCCGACAATTTCA-ATCACG
66 GCAGGCTACTACGTGTACCCGA-AATTT-AGGTTACG
* * * *
78110564 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTTAGGTCACATGTGTACTAATAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAGT
* *
78110629 GTAGGCCACTACGTGTACC
66 GCAGGCTACTACGTGTACC
78110648 GGATTGTTGG
Statistics
Matches: 236, Mismatches: 41, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
99 3 0.01
100 37 0.16
101 160 0.68
102 33 0.14
103 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCCGAAATTTAGGTTACG
Found at i:78124681 original size:25 final size:26
Alignment explanation
Indices: 78124646--78124696 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
78124636 ACTCGATCTA
*
78124646 TGGATTCCTTTATTATGTTTCACCCT
1 TGGATTCCTTTATTAGGTTTCACCCT
78124672 TGGATT-CTTTATTAGGTTTCACCCT
1 TGGATTCCTTTATTAGGTTTCACCCT
78124697 ACTCCGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.49
Consensus pattern (26 bp):
TGGATTCCTTTATTAGGTTTCACCCT
Found at i:78128822 original size:14 final size:15
Alignment explanation
Indices: 78128805--78128836 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
78128795 ATTACTCCCC
78128805 AAAAATA-GCATGG-
1 AAAAATATGCATGGT
78128818 AAAAATATGCATGGT
1 AAAAATATGCATGGT
78128833 AAAA
1 AAAA
78128837 CTAATAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAAATATGCATGGT
Found at i:78134213 original size:16 final size:15
Alignment explanation
Indices: 78134192--78134221 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
78134182 GAATGGAGTA
78134192 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
78134208 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
78134222 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:78143329 original size:40 final size:40
Alignment explanation
Indices: 78143270--78143477 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
78143260 CATTGGAATG
* * *
78143270 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
78143310 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
78143350 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
78143390 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * ** * * *
78143430 ATAACCGAGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
78143470 ATATCCGG
1 ATATCCGG
78143478 TTAAATTTCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:78149844 original size:42 final size:42
Alignment explanation
Indices: 78149797--78149910 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
78149787 AACCATACCA
* * *
78149797 ATGCCATATCCCAAATATGGTCTTACATG-AGATCTCATATTG
1 ATGCCATATCCCAAATATGGTCTTACACGAAG-TATCATATCG
* *
78149839 ATGCCAATAGCCCAACTATGGTCTTACACGAAGTATCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACACGAAGTATCATATCG
* *
78149882 ATGCCATATCCTAGATATGGTCTTACACG
1 ATGCCATATCCCAAATATGGTCTTACACG
78149911 TAATCTCAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 25 0.41
43 34 0.56
44 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAGTATCATATCG
Found at i:78154262 original size:37 final size:37
Alignment explanation
Indices: 78154214--78154292 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
78154204 AAGAACATAG
78154214 TATATCATTTAATCTAACAATAATTGATTATGATTTA
1 TATATCATTTAATCTAACAATAATTGATTATGATTTA
*
78154251 TATATCATTTAATCTAACGATAATTGATTATGATTTA
1 TATATCATTTAATCTAACAATAATTGATTATGATTTA
78154288 TATAT
1 TATAT
78154293 TATTCAATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATCATTTAATCTAACAATAATTGATTATGATTTA
Found at i:78156163 original size:16 final size:16
Alignment explanation
Indices: 78156142--78156174 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
78156132 CCAATAATCG
78156142 TCTTTAATTCAAGTAT
1 TCTTTAATTCAAGTAT
78156158 TCTTTAATTCAAGTAT
1 TCTTTAATTCAAGTAT
78156174 T
1 T
78156175 GATAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TCTTTAATTCAAGTAT
Found at i:78156510 original size:19 final size:18
Alignment explanation
Indices: 78156475--78156520 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
78156465 ACAATAACTA
*
78156475 CAAAGTCCAAAAGAAAGTC
1 CAAA-TCCAAAACAAAGTC
78156494 CAAATCCAAAACCAAAGTC
1 CAAATCCAAAA-CAAAGTC
78156513 CAAATCCA
1 CAAATCCA
78156521 TTAAACATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.52, C:0.28, G:0.09, T:0.11
Consensus pattern (18 bp):
CAAATCCAAAACAAAGTC
Found at i:78157731 original size:27 final size:27
Alignment explanation
Indices: 78157687--78157760 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
78157677 TACTGAAATG
* * *
78157687 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAGAATTACCAAAGTA
* ***
78157714 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*
78157741 CCCTTGATTTATAGAATTAC
1 CCCTCGATTTATAGAATTAC
78157761 TGTTTTATCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCAAAGTA
Found at i:78157761 original size:27 final size:27
Alignment explanation
Indices: 78157712--78157815 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
78157702 ATTACCAAAG
*
78157712 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
78157739 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
78157766 TATCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACT-GTTT
78157793 TACCCTCGA-TTAT-GAAATTACTG
1 TACCCTCGATTTATAG-AATTACTG
78157816 AAATACCCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 10 0.15
27 56 0.84
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:78157846 original size:27 final size:27
Alignment explanation
Indices: 78157807--78157933 Score: 87
Period size: 27 Copynumber: 4.7 Consensus size: 27
78157797 CTCGATTATG
**
78157807 AAATTACTGAAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTAGT-GGGTA
* * **
78157834 GAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTGGGTA
* * ** *
78157861 AAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTGGGTA
* * **
78157888 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTGGGTA
78157915 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
78157934 GATTTACAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.04
27 71 0.89
28 6 0.08
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTGGGTA
Found at i:78157874 original size:54 final size:53
Alignment explanation
Indices: 78157807--78157934 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 53
78157797 CTCGATTATG
** *
78157807 AAATTACTGAAATACCCCTGTAGGGT-AGAATTACCAAAATATCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGT-GGGTGA-AATTACCAAAATA-CCCTCAATTTGTA
* ** *
78157861 AAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GTGGGTGAAATTACCAAAATACCCTCAATTTGTA
78157915 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
78157935 ATTTACAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.08
54 55 0.87
55 3 0.05
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGTGGGTGAAATTACCAAAATACCCTCAATTTGTA
Found at i:78157938 original size:27 final size:27
Alignment explanation
Indices: 78157835--78157958 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
78157825 TGTAGGGTAG
*
78157835 AATTACCAAAATATCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
78157862 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
78157889 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
78157916 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
78157943 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
78157959 TTCACTTTCT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.06
27 71 0.89
28 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:78157946 original size:54 final size:54
Alignment explanation
Indices: 78157835--78158015 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 54
78157825 TGTAGGGTAG
* * ***
78157835 AATTACCAAAATATCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* *
78157889 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * * *
78157943 AATTACAGAAATACCCTTCACTTTCTAAAAATTA-TAGGAATACCATTGGTTTACAA
1 AATTACCGAAATACCC-TCAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
*
78157999 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
78158016 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
53 4 0.04
54 57 0.53
55 9 0.08
56 37 0.35
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:78158098 original size:27 final size:27
Alignment explanation
Indices: 78158066--78158134 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
78158056 GACTAAAATA
78158066 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
78158093 CCCCTATAGGGTAAAGTGACCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
*
78158120 CCCCTGTAGGGTAAA
1 CCCCTATAGGGTAAA
78158135 GTGACCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:78158135 original size:27 final size:27
Alignment explanation
Indices: 78158083--78158161 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
78158073 TAGGTAAAAA
*
78158083 GACCGTAAAGCCCCTATAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
78158110 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
78158137 GACCATAATA-CCCCTGTATGGTAAA
1 GACCGTAA-AGCCCCTGTAGGGTAAA
78158162 ATGTCAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:78158834 original size:24 final size:24
Alignment explanation
Indices: 78158798--78158844 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
78158788 TATAATATGA
* * * *
78158798 AAAATGACTATTTTGCCTCTAGGT
1 AAAATAACCATTTTACCCCTAGGT
78158822 AAAATAACCATTTTACCCCTAGG
1 AAAATAACCATTTTACCCCTAGG
78158845 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (24 bp):
AAAATAACCATTTTACCCCTAGGT
Found at i:78158896 original size:10 final size:10
Alignment explanation
Indices: 78158881--78158941 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
78158871 ATATTGTTAT
78158881 ACATGATATG
1 ACATGATATG
78158891 ACATGATATG
1 ACATGATATG
78158901 CACATGATATG
1 -ACATGATATG
** *
78158912 TTATGAGATG
1 ACATGATATG
78158922 CACATGATATG
1 -ACATGATATG
78158933 -CTATGATAT
1 AC-ATGATAT
78158942 ACTTATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:78158906 original size:21 final size:20
Alignment explanation
Indices: 78158881--78158941 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
78158871 ATATTGTTAT
78158881 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
78158902 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
78158923 ACATGATATGCTATGATAT
1 ACATGATATGC-ATGATAT
78158942 ACTTATTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:78158907 original size:11 final size:11
Alignment explanation
Indices: 78158881--78158933 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
78158871 ATATTGTTAT
78158881 ACATGATATG-
1 ACATGATATGC
78158891 ACATGATATGC
1 ACATGATATGC
78158902 ACATGATATG-
1 ACATGATATGC
** *
78158912 TTATGAGATGC
1 ACATGATATGC
78158923 ACATGATATGC
1 ACATGATATGC
78158934 TATGATATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 17 0.49
11 18 0.51
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:78159021 original size:24 final size:24
Alignment explanation
Indices: 78158989--78159035 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
78158979 AGGAAGTGCA
**
78158989 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAAGCCTCCAGTTATT
78159012 AAAAGAGGCTAAGCCTCCAGTTAT
1 AAAAG-GGCTAAGCCTCCAGTTAT
78159036 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAAGCCTCCAGTTATT
Found at i:78160966 original size:45 final size:45
Alignment explanation
Indices: 78160914--78161005 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
78160904 AATCATCATC
*
78160914 TTCTTCCTTCTTTACTGCTTGTTTAAGAAAGGAAAGAAATAAATT
1 TTCTTCCTTCTCTACTGCTTGTTTAAGAAAGGAAAGAAATAAATT
*
78160959 TTCTTCCTTCTCTACTGCTTGTTTGAGAAAGGAAAGAAATAAATT
1 TTCTTCCTTCTCTACTGCTTGTTTAAGAAAGGAAAGAAATAAATT
78161004 TT
1 TT
78161006 AAGTTTGCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (45 bp):
TTCTTCCTTCTCTACTGCTTGTTTAAGAAAGGAAAGAAATAAATT
Found at i:78162889 original size:27 final size:26
Alignment explanation
Indices: 78162859--78163298 Score: 387
Period size: 27 Copynumber: 16.2 Consensus size: 26
78162849 GAGCATAATC
* *
78162859 GTCATTTTACCATACAGGGTTATTACG
1 GTCATTTTACCCTACAGGG-CATTACG
78162886 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* * * *
78162913 GTCATTTTGCCTTTCAAGGGTATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
78162940 GTAATTTTACCCTACAGAAGCATTACG
1 GTCATTTTACCCTACAG-GGCATTACG
* * * *
78162967 GTAATTTTACCTTATAGGGGCATTATG
1 GTCATTTTACCCTACA-GGGCATTACG
* * *
78162994 GACATTTTACCCTATAGGGTCATTAGG
1 GTCATTTTACCCTACAGGG-CATTACG
* *
78163021 GTCATTTTACCC-AAACGGGTATTACG
1 GTCATTTTACCCTACA-GGGCATTACG
*
78163047 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
78163074 ATCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
* * *
78163101 ATCATTTTACCTTAGAAGAGAAGGGCATTACG
1 GTCATTTTACCCT-----A-CAGGGCATTACG
*
78163133 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACA-GGGCATTACG
78163160 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* * *
78163187 GTCATTTTGCCCTATAAGGCCATTACG
1 GTCATTTTACCCTA-CAGGGCATTACG
*
78163214 GTCATTTTAACCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
* * *
78163241 GTCATTTTACCCTATAGAGGTATTATG
1 GTCATTTTACCCTACAG-GGCATTACG
* *
78163268 GTCATTTTACCCTATAGAGGTATTACG
1 GTCATTTTACCCTACAG-GGCATTACG
78163295 GTCA
1 GTCA
78163299 AATAACGACC
Statistics
Matches: 349, Mismatches: 46, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
26 27 0.08
27 293 0.84
28 7 0.02
32 22 0.06
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:78163028 original size:81 final size:80
Alignment explanation
Indices: 78162880--78163298 Score: 441
Period size: 81 Copynumber: 5.1 Consensus size: 80
78162870 ATACAGGGTT
* * *
78162880 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTT-GCCTTTCAAGGGTATTACGGTAA
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTAT--AGGGTATTACGGTCA
* *
78162944 TTTTACCCTACAGAAGC
64 TTTTACCCTATAGAGGC
* * * * * *
78162961 ATTACGGTAATTTTACCTTATAGGGGCATTATGGACATTTTACCCTATAGGGTCATTAGGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGT-ATTACGGTCAT
* *
78163026 TTTACCC-AAACG-GGT
65 TTTACCCTATA-GAGGC
* * * * *
78163041 ATTACGGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTACAAGGGTATTACGATCAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTA-TAGGGTATTACGGTCAT
* *
78163106 TTTACCTTAGAAGAGAAGGGC
65 TTTACCCT---ATAG-A-GGC
* * *
78163127 ATTACGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTACAGGGGCATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATA-GGGTATTACGGTCAT
*
78163192 TTTGCCCTATA-AGGCC
65 TTTACCCTATAGAGG-C
* * *
78163208 ATTACGGTCATTTTAACCTACAAGGGCATTACGGTCATTTTACCCTATAGAGGTATTATGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAG-GGTATTACGGTCAT
*
78163273 TTTACCCTATAGAGGT
65 TTTACCCTATAGAGGC
78163289 ATTACGGTCA
1 ATTACGGTCA
78163299 AATAACGACC
Statistics
Matches: 279, Mismatches: 44, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
80 65 0.23
81 137 0.49
82 7 0.03
83 3 0.01
84 2 0.01
85 1 0.00
86 64 0.23
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (80 bp):
ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGTATTACGGTCATT
TTACCCTATAGAGGC
Found at i:78167693 original size:27 final size:27
Alignment explanation
Indices: 78167663--78167734 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
78167653 ATTATAGCTG
78167663 CCAGAAAT-AGTAAATGTGGCAAAGCCA
1 CCAG-AATCAGTAAATGTGGCAAAGCCA
* * *
78167690 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAATCAGTAAATGTGGCAAAGCCA
* *
78167717 CTAGTAA-CAGTGAATGTG
1 CCAG-AATCAGTAAATGTG
78167735 ATATAGTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAATCAGTAAATGTGGCAAAGCCA
Found at i:78167921 original size:27 final size:27
Alignment explanation
Indices: 78167891--78168195 Score: 340
Period size: 27 Copynumber: 11.1 Consensus size: 27
78167881 GGCATAATCA
* *
78167891 TCATTTTACCATACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
78167918 TCATTTTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
78167945 TCATTTTACCTTTCAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* **
78167972 TCATTTTACCCTACAAGGACATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * * *
78167999 TCATTTTACCCTATAGAGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
78168026 TCATTTTACCCAAGAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
78168053 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
78168080 TCATTTTACCCTAGAGAAGAGGGGCATTACGG
1 TCATTTTACCCT-----ACAGGGGTATTACGG
* * *
78168112 TTATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
78168139 TTATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
78168166 TCATTTTACCTTACAGGGGTACTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
78168193 TCA
1 TCA
78168196 AATAAAAACC
Statistics
Matches: 238, Mismatches: 35, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
27 214 0.90
32 24 0.10
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:78172569 original size:39 final size:39
Alignment explanation
Indices: 78172438--78172628 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
78172428 GGATATAACG
* ** **
78172438 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
78172478 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
78172518 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
78172556 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
78172596 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
78172629 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:78172573 original size:78 final size:80
Alignment explanation
Indices: 78172478--78172628 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
78172468 GGTTATAGCG
* * * *
78172478 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
78172540 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
78172556 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
78172621 AGCCCGGA
66 AGCCCGGA
78172629 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:78180595 original size:39 final size:39
Alignment explanation
Indices: 78180464--78180654 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
78180454 GGATATAACG
* ** **
78180464 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
78180504 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
78180544 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
78180582 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
78180622 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
78180655 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:78180599 original size:78 final size:80
Alignment explanation
Indices: 78180504--78180654 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
78180494 GGTTATAGCG
* * * *
78180504 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
78180566 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
78180582 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
78180647 AGCCCGGA
66 AGCCCGGA
78180655 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:78184014 original size:28 final size:28
Alignment explanation
Indices: 78183974--78184068 Score: 151
Period size: 27 Copynumber: 3.5 Consensus size: 28
78183964 GTACGAGATT
78183974 GCACTAAGTGTGCATGCTGGAAATAATG
1 GCACTAAGTGTGCATGCTGGAAATAATG
*
78184002 GCACTAAGTGTGCGTGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATA-ATG
78184031 G--CTAAGTGTGCATGCTGGAAAT-ATG
1 GCACTAAGTGTGCATGCTGGAAATAATG
78184056 GCACTAAGTGTGC
1 GCACTAAGTGTGC
78184069 GAGCTCGAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.06
27 30 0.48
28 24 0.39
29 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
GCACTAAGTGTGCATGCTGGAAATAATG
Found at i:78184085 original size:54 final size:55
Alignment explanation
Indices: 78183977--78184086 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 55
78183967 CGAGATTGCA
* * *
78183977 CTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCGTGCTGGAAATATATGG
1 CTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCGAGCTCGAAAGATATGG
* *
78184032 CTAAGTGTGCATGCTGGAAAT-ATGGCACTAAGTGTGCGAGCTCGAAGGGTATGG
1 CTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCGAGCTCGAAAGATATGG
78184086 C
1 C
78184087 ACTATGTGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 29 0.58
55 21 0.42
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (55 bp):
CTAAGTGTGCATGCTGGAAATAATGGCACTAAGTGTGCGAGCTCGAAAGATATGG
Found at i:78184090 original size:29 final size:29
Alignment explanation
Indices: 78184052--78184128 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
78184042 ATGCTGGAAA
* *
78184052 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
* * * *
78184081 TATGGCACTATGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
78184110 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
78184129 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:78191467 original size:29 final size:29
Alignment explanation
Indices: 78191434--78191592 Score: 203
Period size: 29 Copynumber: 5.5 Consensus size: 29
78191424 TGACGAGATT
78191434 GCACTAAGTGTGCGTGCTGGAAATATATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
78191463 GCACTAAGTGTGCGTGCTGGAAATATATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
*
78191492 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
* * ***
78191521 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGTGCTGGAAATATATG
* * * **
78191550 GCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGTGCTGGAAAT-ATATG
78191579 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
78191593 AAATCGAGTA
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGTGCTGGAAATATATG
Found at i:78195275 original size:23 final size:24
Alignment explanation
Indices: 78195249--78195295 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
78195239 ATTCATTTCG
* * *
78195249 TGAATAAATCAAAATATC-ATCTA
1 TGAACAAAACAAAAAATCGATCTA
78195272 TGAACAAAACAAAAAATCGATCTA
1 TGAACAAAACAAAAAATCGATCTA
78195296 GGTACGGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.23
Consensus pattern (24 bp):
TGAACAAAACAAAAAATCGATCTA
Found at i:78198718 original size:27 final size:26
Alignment explanation
Indices: 78198670--78198721 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78198660 GCGAGGCTAC
*
78198670 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
78198696 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
78198722 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:78199623 original size:27 final size:27
Alignment explanation
Indices: 78199384--78199625 Score: 263
Period size: 27 Copynumber: 9.0 Consensus size: 27
78199374 GGCAAAATGG
* * * *
78199384 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
78199411 TAATTCTACCCTATAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * * *
78199437 GTATTTTTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
78199465 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
78199492 TAATTCTACCCTACAGGGGCATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
78199519 TAATTCTACCCTACAGAGGCATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
78199546 TAATTCTACCCTACAAGGGCT-TTTTGG
1 TAATTCTACCCTAC-AGGGGTATTTCGA
*
78199573 TAATTCTACCCTACAGGGGCATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
78199600 TAATTCTACCCTACCGGAGTATTTCG
1 TAATTCTACCCTACAGGGGTATTTCG
78199626 GTATTTTACA
Statistics
Matches: 181, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
26 5 0.03
27 173 0.96
28 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:78199665 original size:27 final size:26
Alignment explanation
Indices: 78199616--78199666 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
78199606 TACCCTACCG
* *
78199616 GAGTATTTCGGTATTTTACAAATCGA
1 GAGTATTTCGATATTTCACAAATCGA
78199642 GAGTATTTCGATAATTTCACAAATC
1 GAGTATTTCGAT-ATTTCACAAATC
78199667 AGGGGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (26 bp):
GAGTATTTCGATATTTCACAAATCGA
Found at i:78199674 original size:27 final size:27
Alignment explanation
Indices: 78199618--78199824 Score: 229
Period size: 27 Copynumber: 7.7 Consensus size: 27
78199608 CCCTACCGGA
* * *
78199618 GTATTTCGGT-ATTTTACAAATC-GAGA
1 GTATTTTGGTAATTTTACAAACCAG-GG
* * * *
78199644 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
78199671 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
78199698 GCATTTTGGTAATTTTACAAACAAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
78199725 GTATATTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
78199752 GTATTTTGGTAATTTTACAAAACTAGGG
1 GTATTTTGGTAATTTTAC-AAACCAGGG
* * * *
78199780 GTATTTTAGTAATTTTAAAAACTAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
78199807 GTATTTTGGTAATTTTAC
1 GTATTTTGGTAATTTTAC
78199825 TGATCGAGGG
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
26 9 0.06
27 121 0.78
28 25 0.16
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:78199711 original size:54 final size:55
Alignment explanation
Indices: 78199644--78199849 Score: 256
Period size: 54 Copynumber: 3.8 Consensus size: 55
78199634 CAAATCGAGA
* * * * *
78199644 GTATTTCGATAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAATCAAGGGGTATTTTAGTAATTTTACAAACCAGGG
* *
78199698 GCATTTTGGTAATTTTACAAA-CAAGGGGTATATTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAATCAAGGGGTATTTTAGTAATTTTACAAACCAGGG
* * * * *
78199752 GTATTTTGGTAATTTTACAAAACTAGGGGTATTTTAGTAATTTTAAAAACTAAGG
1 GTATTTTGGTAATTTTACAAATCAAGGGGTATTTTAGTAATTTTACAAACCAGGG
** *
78199807 GTATTTTGGTAATTTTACTGATCGA-GGGTATTTTAGTAATTTT
1 GTATTTTGGTAATTTTACAAATCAAGGGGTATTTTAGTAATTTT
78199850 GTAAATCGAG
Statistics
Matches: 133, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 83 0.62
55 49 0.37
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (55 bp):
GTATTTTGGTAATTTTACAAATCAAGGGGTATTTTAGTAATTTTACAAACCAGGG
Found at i:78199845 original size:27 final size:28
Alignment explanation
Indices: 78199653--78199849 Score: 192
Period size: 27 Copynumber: 7.2 Consensus size: 28
78199643 AGTATTTCGA
* * *
78199653 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAAACAAGGGGTATTTTAG
* * * *
78199680 TAATTTTAC-AAGCCAGGGGCATTTTGG
1 TAATTTTACAAAACAAGGGGTATTTTAG
*
78199707 TAATTTTAC-AAACAAGGGGTATATTAG
1 TAATTTTACAAAACAAGGGGTATTTTAG
* *
78199734 TAATTTTAC-AAACCAGGGGTATTTTGG
1 TAATTTTACAAAACAAGGGGTATTTTAG
*
78199761 TAATTTTACAAAACTAGGGGTATTTTAG
1 TAATTTTACAAAACAAGGGGTATTTTAG
*
78199789 TAATTTTA-AAAACTAA-GGGTATTTTGG
1 TAATTTTACAAAAC-AAGGGGTATTTTAG
** * *
78199816 TAATTTTACTGATCGA-GGGTATTTTAG
1 TAATTTTACAAAACAAGGGGTATTTTAG
78199843 TAATTTT
1 TAATTTT
78199850 GTAAATCGAG
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.02
27 116 0.79
28 27 0.18
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (28 bp):
TAATTTTACAAAACAAGGGGTATTTTAG
Found at i:78199857 original size:27 final size:27
Alignment explanation
Indices: 78199628--78199863 Score: 160
Period size: 27 Copynumber: 8.7 Consensus size: 27
78199618 GTATTTCGGT
* * *
78199628 ATTTTACAAATCGAGAGTA-TTTCGATA
1 ATTTTACAAAACGAGGGTATTTTAG-TA
* * *
78199655 ATTTCACAAATC-AGGGGTATTTTGGTA
1 ATTTTACAAAACGA-GGGTATTTTAGTA
* * * *
78199682 ATTTTAC-AAGCCAGGGGCATTTTGGTA
1 ATTTTACAAAACGA-GGGTATTTTAGTA
* *
78199709 ATTTTAC-AAACAAGGGGTATATTAGTA
1 ATTTTACAAAACGA-GGGTATTTTAGTA
* *
78199736 ATTTTAC-AAACCAGGGGTATTTTGGTA
1 ATTTTACAAAACGA-GGGTATTTTAGTA
*
78199763 ATTTTACAAAACTAGGGGTATTTTAGTA
1 ATTTTACAAAACGA-GGGTATTTTAGTA
* *
78199791 ATTTTA-AAAACTAAGGGTATTTTGGTA
1 ATTTTACAAAAC-GAGGGTATTTTAGTA
** *
78199818 ATTTTACTGATCGAGGGTATTTTAGTA
1 ATTTTACAAAACGAGGGTATTTTAGTA
** *
78199845 ATTTTGTAAATCGAGGGTA
1 ATTTTACAAAACGAGGGTA
78199864 AAACGGTAAT
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
26 4 0.02
27 141 0.80
28 31 0.18
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTTTACAAAACGAGGGTATTTTAGTA
Found at i:78199872 original size:27 final size:27
Alignment explanation
Indices: 78199842--78200009 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
78199832 GGGTATTTTA
*
78199842 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78199869 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78199896 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78199923 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78199950 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78199977 GTAATTCTGTAAATCAATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
78200004 GTAATT
1 GTAATT
78200010 TTACAAGTCG
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78199872 original size:109 final size:108
Alignment explanation
Indices: 78199653--78199874 Score: 232
Period size: 109 Copynumber: 2.0 Consensus size: 108
78199643 AGTATTTCGA
* * * * *
78199653 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGCATTTTGGTAATTTTACAA
1 TAATTTCACAAAACAGGGGTATTTTAGTAATTTTAAAAACCAAGGGCATTTTGGTAATTTTACAA
****
78199718 ACAAGGGGTATATTAGTAATTTTACAAACCAGGGGTATTTTGG
66 ACAAGGGGTATATTAGTAATTTTACAAACCAGGGGTAAAACGG
* * *
78199761 TAATTTTACAAAACTAGGGGTATTTTAGTAATTTTAAAAACTAAGGGTATTTTGGTAATTTTACT
1 TAATTTCACAAAAC-AGGGGTATTTTAGTAATTTTAAAAACCAAGGGCATTTTGGTAATTTTAC-
* * * * ** *
78199826 GATCGA-GGGTATTTTAGTAATTTTGTAAATC-GAGGGTAAAACGG
64 AAACAAGGGGTATATTAGTAATTTTACAAACCAG-GGGTAAAACGG
78199870 TAATT
1 TAATT
78199875 CTATAAATCA
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
108 13 0.14
109 76 0.83
110 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (108 bp):
TAATTTCACAAAACAGGGGTATTTTAGTAATTTTAAAAACCAAGGGCATTTTGGTAATTTTACAA
ACAAGGGGTATATTAGTAATTTTACAAACCAGGGGTAAAACGG
Found at i:78199912 original size:81 final size:81
Alignment explanation
Indices: 78199840--78200023 Score: 242
Period size: 81 Copynumber: 2.3 Consensus size: 81
78199830 GAGGGTATTT
* *
78199840 TAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTG
1 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTG
78199905 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * ** *
78199921 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTG
1 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTG
* *
78199986 TAAATCAATGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
78200002 CAGTAATTTTACAAGTCGAGGG
1 TAGTAATTCTATAAATCGAGGG
78200024 CATTTTAGTA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTG
TAAATCGAGGGTAAAA
Found at i:78206720 original size:2 final size:2
Alignment explanation
Indices: 78206713--78206746 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
78206703 ACCAGAACAG
78206713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78206747 GTGGCGAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78207512 original size:27 final size:27
Alignment explanation
Indices: 78207482--78207641 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 27
78207472 GGGCAAAATG
* * *
78207482 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
78207509 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
78207536 GTATTTCTACCCTATATGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
78207563 GTAATTCTA-CCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
78207589 GTAATTCTACCATAC-AGGAGTATTTCA
1 GTAATTCTACCCTACAAGG-GTATTTCA
**
78207616 GTAATTCTACCCTACGGGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
78207642 GGTATTTTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
26 25 0.22
27 85 0.76
28 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:78207612 original size:53 final size:54
Alignment explanation
Indices: 78207481--78207645 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
78207471 GGGGCAAAAT
* ** * * *
78207481 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCATACATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
78207535 GGTATTTCTACCCTATATGGGTATTTCAGTAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCATACATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
78207588 GGTAATTCTACCATACA-GGAGTATTTCAGTAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCATACATGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTC
78207642 GGTA
1 GGTA
78207646 TTTTCCAAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
52 2 0.02
53 46 0.47
54 50 0.51
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCATACATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:78207674 original size:53 final size:53
Alignment explanation
Indices: 78207501--78207667 Score: 184
Period size: 53 Copynumber: 3.1 Consensus size: 53
78207491 CCCCACAAGG
* *
78207501 GTATCTCAGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTATAT-G-G-
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTT-T--CC-ATATCGAGA
*
78207555 GTATTTCAGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCATA-C-AGGA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT-ATT-TTCCATATCGA-GA
* *
78207608 GTATTTCAGTAATTCTACCCTACGGGGGTATTTCGGTATTTTCCAAATCGAGA
1 GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTCCATATCGAGA
78207661 GTATTTC
1 GTATTTC
78207668 GATAATTTCA
Statistics
Matches: 98, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
51 3 0.03
52 8 0.08
53 48 0.49
54 38 0.39
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (53 bp):
GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTTCCATATCGAGA
Found at i:78207691 original size:27 final size:27
Alignment explanation
Indices: 78207661--78207747 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
78207651 CAAATCGAGA
*
78207661 GTATTTCGATAATTTCAAAAATCAGGG
1 GTATTTCGATAATTTCAAAAACCAGGG
* * * * *
78207688 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTCGATAATTTCAAAAACCAGGG
* * * *
78207715 GTATTT-TAGTAATTTTACAAACCAAGG
1 GTATTTCGA-TAATTTCAAAAACCAGGG
78207742 GTATTT
1 GTATTT
78207748 TAGTAATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GTATTTCGATAATTTCAAAAACCAGGG
Found at i:78207728 original size:54 final size:54
Alignment explanation
Indices: 78207670--78207783 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
78207660 AGTATTTCGA
* * * * *
78207670 TAATTTCAAAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
1 TAATTTCAAAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAG
* * *
78207724 TAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAG
1 TAATTTCAAAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAG
78207778 TAATTT
1 TAATTT
78207784 TGTAAATCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (54 bp):
TAATTTCAAAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAG
Found at i:78207748 original size:27 final size:27
Alignment explanation
Indices: 78207686--78207784 Score: 162
Period size: 27 Copynumber: 3.7 Consensus size: 27
78207676 CAAAAATCAG
* * *
78207686 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
78207713 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
78207740 GGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTAGTAATTTTACAAACCAA
78207767 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
78207785 GTAAATCGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:78207807 original size:27 final size:27
Alignment explanation
Indices: 78207777--78207917 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
78207767 GGGTATTTTA
*
78207777 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78207804 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78207831 ATAATTTTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78207858 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78207885 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
78207912 GTAATT
1 GTAATT
78207918 TTACAAGTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78207808 original size:54 final size:54
Alignment explanation
Indices: 78207750--78207923 Score: 183
Period size: 54 Copynumber: 3.2 Consensus size: 54
78207740 GGGTATTTTA
*
78207750 GTAATTTTACAAA-CTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATC-AAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAACG
* * * *
78207804 GTAATTCTATAAATCAAGGGTA--AAACGATAATTTTGTAAATCGAAGGTAAAACG
1 GTAATTTTACAAATCAAGGGTATTATA-G-TAATTTTGTAAATCGAGGGTAAAACG
* * * ** * * *
78207858 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTTTACAAATCAAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAACG
78207912 GTAATTTTACAA
1 GTAATTTTACAA
78207924 GTTGAGGGCA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 97 0.94
55 2 0.02
56 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.30
Consensus pattern (54 bp):
GTAATTTTACAAATCAAGGGTATTATAGTAATTTTGTAAATCGAGGGTAAAACG
Found at i:78207931 original size:54 final size:54
Alignment explanation
Indices: 78207776--78207917 Score: 232
Period size: 54 Copynumber: 2.6 Consensus size: 54
78207766 AGGGTATTTT
*
78207776 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
*
78207830 -GATAATTTTGTAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AG-TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* *
78207884 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATT
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATT
78207918 TTACAAGTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.98
55 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (54 bp):
AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:78209878 original size:43 final size:43
Alignment explanation
Indices: 78209817--78209910 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
78209807 CCTAAGACAT
*
78209817 GGGTGTGTTTACTAGCCGTGTGAGGCACACGGCCTGTTTACAC
1 GGGTGTGTCTACTAGCCGTGTGAGGCACACGGCCTGTTTACAC
78209860 GGGTGTGTCTACTAGCCGTGTGAGGCACACGGCCTGTTTACAC
1 GGGTGTGTCTACTAGCCGTGTGAGGCACACGGCCTGTTTACAC
*
78209903 GGGCGTGT
1 GGGTGTGT
78209911 GACCTTTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (43 bp):
GGGTGTGTCTACTAGCCGTGTGAGGCACACGGCCTGTTTACAC
Found at i:78214382 original size:27 final size:27
Alignment explanation
Indices: 78214352--78214409 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
78214342 AGGTCTAGGG
*
78214352 TTTGA-CCAATGTTAGAAAAGTGTGTAT
1 TTTGATCCAATGGTAGAAAA-TGTGTAT
*
78214379 TTTGATGTCTAATGGTAGAAAATGTGTAT
1 TTTGA--TCCAATGGTAGAAAATGTGTAT
78214408 TT
1 TT
78214410 GGTGTATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTGATCCAATGGTAGAAAATGTGTAT
Found at i:78215190 original size:15 final size:16
Alignment explanation
Indices: 78215164--78215193 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78215154 GATGAACCTC
78215164 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
78215180 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
78215194 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:78220675 original size:24 final size:23
Alignment explanation
Indices: 78220648--78220694 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
78220638 AATATGAAAT
78220648 AGTA-TTAAATGAAGATAAAATAAA
1 AGTACTTAAA-GAAGAT-AAATAAA
78220672 AGTACTTAAAGAAGATAAATAAA
1 AGTACTTAAAGAAGATAAATAAA
78220695 GATAAAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (23 bp):
AGTACTTAAAGAAGATAAATAAA
Found at i:78234626 original size:19 final size:21
Alignment explanation
Indices: 78234599--78234641 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
78234589 AATCTTTAAG
*
78234599 GATATGCAATCTT-A-GATAT
1 GATAGGCAATCTTGATGATAT
78234618 GATAGGCAATCTTGATGATAT
1 GATAGGCAATCTTGATGATAT
78234639 GAT
1 GAT
78234642 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (21 bp):
GATAGGCAATCTTGATGATAT
Found at i:78237856 original size:80 final size:81
Alignment explanation
Indices: 78237730--78237890 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 81
78237720 CTAATTAGTT
78237730 AAAGTTATTAAAAAGAGAAAGAAAAAGAGAGAGAGAGAAAAGGGTCACGGCTGAGTGAAAAAGAA
1 AAAGTTATTAAAAAGAGAAAGAAAAAGAGAGAGAGAGAAAAGGGTCACGGCTGAGTGAAAAAGAA
78237795 GTTGAATGGGAATTAA
66 GTTGAATGGGAATTAA
78237811 AAAGTTATTAAAAAGAGAAAG-AAAAGAGAGAGAGAGAAAAGGGTCACGGCTGAGTGAAAAAGAA
1 AAAGTTATTAAAAAGAGAAAGAAAAAGAGAGAGAGAGAAAAGGGTCACGGCTGAGTGAAAAAGAA
78237875 GTTGAATGGGAATTAA
66 GTTGAATGGGAATTAA
78237891 TGACATTCCC
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 59 0.74
81 21 0.26
ACGTcount: A:0.52, C:0.04, G:0.30, T:0.15
Consensus pattern (81 bp):
AAAGTTATTAAAAAGAGAAAGAAAAAGAGAGAGAGAGAAAAGGGTCACGGCTGAGTGAAAAAGAA
GTTGAATGGGAATTAA
Found at i:78240377 original size:6 final size:6
Alignment explanation
Indices: 78240362--78240415 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
78240352 TTATTTCAAA
* * *
78240362 AAAAAT AAAAAG AAAAATG AAAAAG AAAAAT AAAAA- AAATAAT AAAAAG
1 AAAAAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG
78240411 AAAAA
1 AAAAA
78240416 ATGGAGTGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 3 0.07
6 30 0.71
7 9 0.21
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.09
Consensus pattern (6 bp):
AAAAAG
Found at i:78240379 original size:12 final size:12
Alignment explanation
Indices: 78240362--78240415 Score: 83
Period size: 12 Copynumber: 4.4 Consensus size: 12
78240352 TTATTTCAAA
78240362 AAAAATAAAAAG
1 AAAAATAAAAAG
78240374 AAAAATGAAAAAG
1 AAAAAT-AAAAAG
78240387 AAAAATAAAAA-
1 AAAAATAAAAAG
78240398 AAATAATAAAAAG
1 AAA-AATAAAAAG
78240411 AAAAA
1 AAAAA
78240416 ATGGAGTGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.08
12 21 0.54
13 15 0.38
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.09
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:78240416 original size:25 final size:26
Alignment explanation
Indices: 78240361--78240417 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
78240351 TTTATTTCAA
78240361 AAAAAATAAAAAGAAAAATGAAAAAG
1 AAAAAATAAAAAGAAAAATGAAAAAG
78240387 -AAAAATAAAAA-AAATAAT-AAAAAG
1 AAAAAATAAAAAGAAA-AATGAAAAAG
78240411 AAAAAAT
1 AAAAAAT
78240418 GGAGTGGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (26 bp):
AAAAAATAAAAAGAAAAATGAAAAAG
Found at i:78241358 original size:44 final size:43
Alignment explanation
Indices: 78241298--78241749 Score: 321
Period size: 44 Copynumber: 10.3 Consensus size: 43
78241288 CAGAGAAACA
* * *
78241298 AGATTTGGCATCCCTGTGTTTATAGGAAATAGATCGAAGATAGT
1 AGATCTGGCAT-CCTGTGTTTATAGGAAACAGATCGAAGATAGC
* * * * **
78241342 AGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCA-TCCTGTGTTTATAG-GAAACAGATCGAAGATAGC
* *
78241387 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCAT-CCTGTGTTTATAGGAAACAGA-TCGAAGATAGC
*
78241430 AGATTTGGCATCCCTGTGTTTATAAGG-AACAGATCGAAGATAGC
1 AGATCTGGCAT-CCTGTGTTTAT-AGGAAACAGATCGAAGATAGC
* * * * **
78241474 AGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCA-TCCTGTGTTTATAG-GAAACAGATCGAAGATAGC
* *
78241519 AG--CATGGCATCGCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATC-CTGTGTTTATAGGAAACAGA-TCGAAGATAGC
* *
78241562 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCAT-CCTGTGTTTATAGGAAACAGATCGAAGATAGC
* * * ** * **
78241606 AGATCTGACACTCCTGTGCTTACAGCGAAGTACATCGAAGATTTC
1 AGATCTGGCA-TCCTGTGTTTATAG-GAAACAGATCGAAGATAGC
* *
78241651 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCAT-CCTGTGTTTATAGGAAACAGA-TCGAAGATAGC
* * * * *
78241694 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAAC
1 AGATCTGGCAT-CCTGTGTTTATAGGAAACAGATCGAAGATAGC
78241738 AGATCTGGCATC
1 AGATCTGGCATC
78241750 TCCATTTCGA
Statistics
Matches: 323, Mismatches: 58, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.01
43 51 0.16
44 212 0.66
45 57 0.18
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
AGATCTGGCATCCTGTGTTTATAGGAAACAGATCGAAGATAGC
Found at i:78241490 original size:88 final size:87
Alignment explanation
Indices: 78241298--78241749 Score: 363
Period size: 88 Copynumber: 5.1 Consensus size: 87
78241288 CAGAGAAACA
* * * * * * *
78241298 AGATTTGGCATCCCTGTGTTTATAGGAAATAGATCGAAGATAGTAGATCTGACA-CTCCTGTGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATC-CCTGTGTT
* **
78241362 TA-CAGCGAAGCAGATCGAAGATTTC
65 TATAAG-GAA-CA-ATCGAAGATAGC
*
78241387 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGT
78241449 TTATAAGGAACAGATCGAAGATAGC
64 TTATAAGGAACA-ATCGAAGATAGC
* * * * ** *
78241474 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA--TGGCATCGCTGTG
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTG
* *
78241536 TTTATAGGGAACAAGTTGAAGATAGC
63 TTTATAAGGAACAA-TCGAAGATAGC
* * * *
78241562 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACA-CTCCTGTGCT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATC-CCTGTGTT
* * **
78241626 TA-CAGCGAAGTACATCGAAGATTTC
65 TATAAG-GAA-CA-ATCGAAGATAGC
*
78241651 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGT
* * *
78241713 TTATAGGGAACAAATTGAAGATAAC
64 TTATAAGGAAC-AATCGAAGATAGC
78241738 AGATCTGGCATC
1 AGATCTGGCATC
78241750 TCCATTTCGA
Statistics
Matches: 290, Mismatches: 48, Indels: 51
0.75 0.12 0.13
Matches are distributed among these distances:
86 1 0.00
87 47 0.16
88 206 0.71
89 33 0.11
90 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGTTT
ATAAGGAACAATCGAAGATAGC
Found at i:78241535 original size:132 final size:132
Alignment explanation
Indices: 78241298--78241744 Score: 788
Period size: 132 Copynumber: 3.4 Consensus size: 132
78241288 CAGAGAAACA
* *
78241298 AGATTTGGCATCCCTGTGTTTAT-AGGAAATAGATCGAAGATAGTAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAAGG-AACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
78241362 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
78241427 AGC
130 AGC
78241430 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
78241495 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCGCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
78241560 GC
131 GC
*
78241562 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* *
78241627 ACAGCGAAGTACATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
78241692 GC
131 GC
* * * *
78241694 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAACAGATCTG
1 AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTG
78241745 GCATCTCCAT
Statistics
Matches: 304, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
132 301 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAAGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:78242362 original size:16 final size:17
Alignment explanation
Indices: 78242312--78242362 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
78242302 ATGAAAATAT
* *
78242312 AATCTTTAAGGATACGC
1 AATCTTGAAGGATATGC
*
78242329 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
78242348 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
78242363 ATCTTGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.21
17 7 0.24
18 3 0.10
19 13 0.45
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:78242381 original size:22 final size:21
Alignment explanation
Indices: 78242322--78242364 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
78242312 AATCTTTAAG
*
78242322 GATACGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
78242341 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
78242362 GAT
1 GAT
78242365 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:78245684 original size:18 final size:18
Alignment explanation
Indices: 78245661--78245696 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
78245651 GTGAAACGTA
*
78245661 TGTTTTGTGATGTTGATG
1 TGTTTTGTGATATTGATG
78245679 TGTTTTGTGATATTGATG
1 TGTTTTGTGATATTGATG
78245697 ATTATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.56
Consensus pattern (18 bp):
TGTTTTGTGATATTGATG
Found at i:78246010 original size:47 final size:47
Alignment explanation
Indices: 78245899--78246010 Score: 136
Period size: 47 Copynumber: 2.3 Consensus size: 47
78245889 ATGTGGAAGT
* * ** *
78245899 TATTGGCAGTTTATCTACGATTTTGGTGGCTTTTTTCCATGATTTTGAT
1 TATTGGCA-ATTATCTACGATTTTGGTGGC-TTTGTCCACAATTTTGAC
78245948 TATTGGCAATATATCTACGATTTTGGTGGC-TTGTCCACAATTTTGAC
1 TATTGGCAAT-TATCTACGATTTTGGTGGCTTTGTCCACAATTTTGAC
78245995 TATTGGCAACTTATCT
1 TATTGGCAA-TTATCT
78246011 GCATTACTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
47 27 0.48
48 2 0.04
49 27 0.48
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.46
Consensus pattern (47 bp):
TATTGGCAATTATCTACGATTTTGGTGGCTTTGTCCACAATTTTGAC
Found at i:78251782 original size:20 final size:20
Alignment explanation
Indices: 78251737--78251808 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
78251727 TGTTCTTCGA
*
78251737 TACCCATGATTGCACTT-ATG
1 TACCCCTGATTGCACTTCA-G
* * *
78251757 TGCCCCTGTTTGTACTTCAG
1 TACCCCTGATTGCACTTCAG
*
78251777 TACCCCTGATTGCACTTCGG
1 TACCCCTGATTGCACTTCAG
* *
78251797 TGCCTCTGATTG
1 TACCCCTGATTG
78251809 TAGATTCGTG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.36
Consensus pattern (20 bp):
TACCCCTGATTGCACTTCAG
Found at i:78251787 original size:40 final size:39
Alignment explanation
Indices: 78251665--78251810 Score: 168
Period size: 40 Copynumber: 3.7 Consensus size: 39
78251655 TTATTGAATT
* *
78251665 ATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAGCCCTA
1 ATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTG
* * * *
78251705 ACTGCATTTACGTGCCCCTGTTTGTTCTTCGATACCCATG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTCG-TACCCCTG
*
78251745 ATTGCACTTATGTGCCCCTGTTTGTACTTCAGTACCCCTG
1 ATTGCACTTACGTGCCCCTGTTTGTACTTC-GTACCCCTG
* *
78251785 ATTGCACTT-CGGTGCCTCTGATTGTA
1 ATTGCACTTAC-GTGCCCCTGTTTGTA
78251811 GATTCGTGTG
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 87 0.98
41 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.37
Consensus pattern (39 bp):
ATTGCACTTACGTGCCCCTGTTTGTACTTCGTACCCCTG
Found at i:78260429 original size:18 final size:18
Alignment explanation
Indices: 78260406--78260442 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
78260396 TCATCAAGTC
78260406 ATGCAAGTGATCATTTCA
1 ATGCAAGTGATCATTTCA
78260424 ATGCAAGTGATCATTTCA
1 ATGCAAGTGATCATTTCA
78260442 A
1 A
78260443 GTACAAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
ATGCAAGTGATCATTTCA
Found at i:78262802 original size:39 final size:39
Alignment explanation
Indices: 78262742--78262848 Score: 153
Period size: 39 Copynumber: 2.7 Consensus size: 39
78262732 GATGTGTATG
* *
78262742 AATGTGCGA-ATTGTGAAATCCGGGCTAAGCCCAAAGGCA
1 AATGTGCGAGA-TATGATATCCGGGCTAAGCCCAAAGGCA
*
78262781 AATGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAGATATGATATCCGGGCTAAGCCCAAAGGCA
* *
78262820 TATGTGCGAGATATGATATCCAGGCTAAG
1 AATGTGCGAGATATGATATCCGGGCTAAG
78262849 TCCTGAAGGC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 61 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (39 bp):
AATGTGCGAGATATGATATCCGGGCTAAGCCCAAAGGCA
Found at i:78262886 original size:40 final size:40
Alignment explanation
Indices: 78262761--78262903 Score: 146
Period size: 39 Copynumber: 3.6 Consensus size: 40
78262751 ATTGTGAAAT
* ** * *
78262761 CCGGGCTAAG-CCCAAAGGCAAATGTGCGAGATATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCATAA
* * *
78262800 CCGGGCTAAG-CCCGAAGGCATATGTGCGAGATATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCATAA
* * * *
78262839 CCAGGCTAAGTCCTGAAGGCATTTGTGCGGGTTATCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCATAA
* *
78262879 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78262904 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 46 0.51
40 44 0.49
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCATAA
Found at i:78270714 original size:38 final size:38
Alignment explanation
Indices: 78270663--78270817 Score: 249
Period size: 38 Copynumber: 4.0 Consensus size: 38
78270653 GATGTGTATG
78270663 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
78270701 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
*
78270739 AATGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGC
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGC
* *
78270777 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AA-TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
78270817 A
1 A
78270818 TTTGTGCGGG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
38 75 0.69
39 24 0.22
40 10 0.09
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (38 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:78270841 original size:40 final size:40
Alignment explanation
Indices: 78270682--78270861 Score: 145
Period size: 38 Copynumber: 4.6 Consensus size: 40
78270672 ATTGTGATAT
* * *** *
78270682 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * ** *
78270720 CCGGGCTAAG-CCCGAAGGCA-ATGTGCGAGATATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
78270758 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
78270797 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
78270837 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78270862 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
38 55 0.44
39 24 0.19
40 45 0.36
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:78276734 original size:20 final size:22
Alignment explanation
Indices: 78276699--78276738 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
78276689 TCGGGACTAA
78276699 ACCAAGAACTTTAGAAAATTTT
1 ACCAAGAACTTTAGAAAATTTT
78276721 ACCAA-AAC-TTAGAAAATT
1 ACCAAGAACTTTAGAAAATT
78276739 CTTCACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (22 bp):
ACCAAGAACTTTAGAAAATTTT
Found at i:78278604 original size:39 final size:40
Alignment explanation
Indices: 78278490--78278670 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
78278480 ACGGATCACT
** * *
78278490 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
78278530 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
*
78278570 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
78278609 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
78278650 CAAA-GCCTT-GGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
78278671 AGACATCATT
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 38 0.32
40 69 0.59
41 8 0.07
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:78285028 original size:40 final size:39
Alignment explanation
Indices: 78284860--78285030 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
78284850 AGAAATTGAA
* *
78284860 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78284900 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78284940 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78284980 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
78285020 TGATATCCGGG
1 TGATATCCGGG
78285031 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78293061 original size:40 final size:39
Alignment explanation
Indices: 78292893--78293073 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
78292883 AGAAATTGAA
* *
78292893 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78292933 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78292973 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78293013 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78293053 TGATATCCGGGTTAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
78293074 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 4 0.03
40 103 0.90
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78294774 original size:71 final size:70
Alignment explanation
Indices: 78294688--78294850 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
78294678 CGATTTGTCT
78294688 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
78294753 CTTTCA
66 C-TTCA
78294759 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
78294824 CTTCA
66 CTTCA
78294829 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
78294851 ATGGAATCAG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 26 0.28
71 66 0.72
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTCA
Found at i:78295327 original size:30 final size:30
Alignment explanation
Indices: 78295293--78295352 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78295283 ATTTAATACG
78295293 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78295323 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78295353 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78299980 original size:92 final size:92
Alignment explanation
Indices: 78299869--78300038 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
78299859 GCCCCTAAGT
* *
78299869 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78299934 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
78299961 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78300026 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78300039 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:78300035 original size:46 final size:46
Alignment explanation
Indices: 78299864--78300035 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
78299854 AACCCGCCCC
* * *
78299864 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
78299910 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
78299956 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
78300002 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78300036 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:78300054 original size:46 final size:46
Alignment explanation
Indices: 78299866--78300054 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
78299856 CCCGCCCCTA
* ** * *
78299866 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
78299911 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
78299959 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
78300004 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
78300050 AGTGA
1 AGTGA
78300055 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:78300474 original size:30 final size:30
Alignment explanation
Indices: 78300440--78300499 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78300430 ATTTAATACG
78300440 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78300470 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78300500 GGCTCGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78307979 original size:30 final size:29
Alignment explanation
Indices: 78307945--78308003 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
78307935 ATTTAATACG
78307945 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
78307975 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
78308004 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:78314355 original size:93 final size:93
Alignment explanation
Indices: 78314242--78314412 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
78314232 GCCCCTAAGT
* *
78314242 GAACTCAGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78314306 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
78314335 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78314400 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78314413 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Done.