Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 118 of 213
Found at i:33727119 original size:80 final size:81
Alignment explanation
Indices: 33726982--33727162 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
33726972 TTGAATGCTG
* *
33726982 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
33727046 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
33727062 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGA-TAAG-TCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCC-GGACTAAGAT-CCGAAGG
33727122 CATTCGTGCGAGTTTTAAAA
62 CATTCGTGCGAGTTTTAAAA
33727142 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
33727163 ATTGTATGAG
Statistics
Matches: 91, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
79 4 0.04
80 75 0.82
81 12 0.13
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:33734980 original size:40 final size:40
Alignment explanation
Indices: 33734949--33735078 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
33734939 GGACTAAGAT
33734949 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
33734989 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGG-TAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
33735028 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
33735068 CCGAAGGCATT
1 CCGAAGGCATT
33735079 GTATGAGTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.40
40 47 0.59
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:33735087 original size:39 final size:39
Alignment explanation
Indices: 33734903--33735115 Score: 191
Period size: 40 Copynumber: 5.4 Consensus size: 39
33734893 CTGTCCTGGC
* * * * **
33734903 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGAC
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGT
* *
33734943 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGT
* * *
33734983 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGG-
1 TAAGTCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGT
*
33735022 TAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAATCCGGGT
** *
33735062 TAAGTCCCGAAGGCATTGTATGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTA-AATCCGGGT
*
33735101 TATGTCCCGAAGGCA
1 TAAGTCCCGAAGGCA
33735116 CTTGAACGAG
Statistics
Matches: 144, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
38 4 0.03
39 57 0.40
40 75 0.52
41 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
Found at i:33735108 original size:79 final size:79
Alignment explanation
Indices: 33734903--33735115 Score: 245
Period size: 79 Copynumber: 2.7 Consensus size: 79
33734893 CTGTCCTGGC
* * * * *
33734903 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCTTTGT-ATGAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGA
*
33734967 GTTATTAATTCCGGGT
64 GTTATTAAATCCGGGT
** *
33734983 TAAGTCCCGAAGGCCTTTGTGCGAGATACTA-ATTCCGGG-TAAGTCCCGAAGGCATTCGTGCGA
1 TAAGTCCCGAAGG-CTTTGTATGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTCGTGCGA
33735046 GTT-TTAAAATCCGGGT
64 GTTATT-AAATCCGGGT
* * *
33735062 TAAGTCCCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTCCCGAAGGCA
1 TAAGTCCCGAAGGCTTTGTATGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
33735116 CTTGAACGAG
Statistics
Matches: 113, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 21 0.19
79 62 0.55
80 24 0.21
81 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCTTTGTATGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
TATTAAATCCGGGT
Found at i:33737749 original size:91 final size:91
Alignment explanation
Indices: 33737594--33737774 Score: 344
Period size: 91 Copynumber: 2.0 Consensus size: 91
33737584 TATGGGGTAA
*
33737594 TATATCCATTTCGGATGCCATATCCAGCATCAGCAAGATAATATTTACCTACAATTTTACAAAAC
1 TATATCCATTTCGGATGCCATATCCAGCATCAGCAAGATAATATTTACCCACAATTTTACAAAAC
33737659 ATAATTAATACTAATAAATTATGAGT
66 ATAATTAATACTAATAAATTATGAGT
*
33737685 TATATCTATTTCGGATGCCATATCCAGCATCAGCAAGATAATATTTACCCACAATTTTACAAAAC
1 TATATCCATTTCGGATGCCATATCCAGCATCAGCAAGATAATATTTACCCACAATTTTACAAAAC
33737750 ATAATTAATACTAATAAATTATGAG
66 ATAATTAATACTAATAAATTATGAG
33737775 CTTACTAAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (91 bp):
TATATCCATTTCGGATGCCATATCCAGCATCAGCAAGATAATATTTACCCACAATTTTACAAAAC
ATAATTAATACTAATAAATTATGAGT
Found at i:33743785 original size:42 final size:41
Alignment explanation
Indices: 33743723--33743848 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 41
33743713 AGTTCCATTC
* *
33743723 AACCCTAATGGTTTCTGTTCAGCTTTTTTGAGCTTCTGTTT
1 AACCCTTATGGTTTCTGTTCAGCTTTTATGAGCTTCTGTTT
* * *
33743764 AACCCTTATAGGTTTCCGTTCAGCTCTTATGAGCTT-TCGTTC
1 AACCCTTAT-GGTTTCTGTTCAGCTTTTATGAGCTTCT-GTTT
* * *
33743806 AACCCTTATGGGTTTCTGTTTAGCATTTATGTGCTTCTGTTT
1 AACCCTTAT-GGTTTCTGTTCAGCTTTTATGAGCTTCTGTTT
33743848 A
1 A
33743849 GCCTTCGGGC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 9 0.13
42 60 0.86
43 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (41 bp):
AACCCTTATGGTTTCTGTTCAGCTTTTATGAGCTTCTGTTT
Found at i:33743835 original size:21 final size:21
Alignment explanation
Indices: 33743811--33743850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33743801 CGTTCAACCC
*
33743811 TTATGGGTTTCTGTTTAGCAT
1 TTATGGGCTTCTGTTTAGCAT
*
33743832 TTATGTGCTTCTGTTTAGC
1 TTATGGGCTTCTGTTTAGC
33743851 CTTCGGGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.53
Consensus pattern (21 bp):
TTATGGGCTTCTGTTTAGCAT
Found at i:33759098 original size:28 final size:27
Alignment explanation
Indices: 33759041--33759192 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
33759031 TAAATTGTGC
* *
33759041 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
33759068 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
33759096 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33759123 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* * *
33759151 AGCAGTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33759178 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33759193 GACTTAATAA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:33759106 original size:55 final size:55
Alignment explanation
Indices: 33759041--33759192 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
33759031 TAAATTGTGC
* *
33759041 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
33759096 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
33759151 AGCAGTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
33759193 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:33772377 original size:12 final size:12
Alignment explanation
Indices: 33772360--33772384 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33772350 TGAAATGGTG
33772360 AGTAAATAAATA
1 AGTAAATAAATA
33772372 AGTAAATAAATA
1 AGTAAATAAATA
33772384 A
1 A
33772385 AATAGATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AGTAAATAAATA
Found at i:33775345 original size:11 final size:12
Alignment explanation
Indices: 33775319--33775349 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
33775309 TTTAAATTAT
33775319 AATTTAATATAA
1 AATTTAATATAA
33775331 AATTTAATA-AA
1 AATTTAATATAA
33775342 AATTTAAT
1 AATTTAAT
33775350 TTTACTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTTAATATAA
Found at i:33775591 original size:21 final size:22
Alignment explanation
Indices: 33775567--33775613 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
33775557 TAATTTACAT
33775567 AATATATAAAC-ATAAA-TGAAA
1 AATA-ATAAACTATAAACTGAAA
*
33775588 AATAATATACTATAAACTTGAAA
1 AATAATAAACTATAAAC-TGAAA
33775611 AAT
1 AAT
33775614 GAATCCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
23 8 0.36
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
AATAATAAACTATAAACTGAAA
Found at i:33778954 original size:60 final size:58
Alignment explanation
Indices: 33778869--33778994 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 58
33778859 TTATTTTTAT
* * ** *
33778869 TTTTTTGGTCATTCAACTATAAAAAGTTACAAAATGGTCACCCAACTATTAGTAATTTTC
1 TTTTTTAGTCACTCAACTATAAAAAGAGACAAAATGATCACCCAACTATT--TAATTTTC
* * *
33778929 TTTTTTAGTCACTCAACTATGAAAAGAGACAAAATGATTACCCAACTATTTAATTTTG
1 TTTTTTAGTCACTCAACTATAAAAAGAGACAAAATGATCACCCAACTATTTAATTTTC
33778987 TCTTTTTA
1 T-TTTTTA
33778995 TGGTCACCGG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 8 0.14
59 6 0.11
60 43 0.75
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (58 bp):
TTTTTTAGTCACTCAACTATAAAAAGAGACAAAATGATCACCCAACTATTTAATTTTC
Found at i:33779511 original size:126 final size:125
Alignment explanation
Indices: 33779263--33779504 Score: 326
Period size: 126 Copynumber: 1.9 Consensus size: 125
33779253 TTAAGAAAGA
* * * *
33779263 TTTCAAAATTTTAAAAATAAATTTACTTGTTTGGGTAAAAATATTGGAAAATTTTGAAACTTGTG
1 TTTCAAAATTCTAAAAATAAATTTACTTGTTTAGGTAAAAATATTGAAAAATTTTAAAACTTGTG
* * * * **
33779328 AGTAATTTCGAAAGGGGATTTCAATAGTTCAATTTTTTGTTCTAAATTCTAACTAAAGGT
66 AGTAATTTCAAAACGAGATTTCAAAAGAACAATTTTTTGTTCTAAATTCTAACTAAAGGT
*
33779388 TTTCAAAAATTCTAAAAATGAAA-TTACTTTTTTAGGTAAAAATATTGAAAAATTTTAAAACTTG
1 TTTC-AAAATTCTAAAAAT-AAATTTACTTGTTTAGGTAAAAATATTGAAAAATTTTAAAACTTG
* *
33779452 TGAGTAATTTCAAAACGAGATTTCAAAAGAAGAATTTTTT-TTTTCAAATTCTA
64 TGAGTAATTTCAAAACGAGATTTCAAAAGAACAATTTTTTGTTCT-AAATTCTA
33779505 CTTAAAGAGG
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
125 7 0.07
126 91 0.90
127 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (125 bp):
TTTCAAAATTCTAAAAATAAATTTACTTGTTTAGGTAAAAATATTGAAAAATTTTAAAACTTGTG
AGTAATTTCAAAACGAGATTTCAAAAGAACAATTTTTTGTTCTAAATTCTAACTAAAGGT
Found at i:33779653 original size:28 final size:28
Alignment explanation
Indices: 33779588--33779651 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
33779578 AACTTCAAAA
*
33779588 ATAAATTTTATTTAATTATAATATATTT
1 ATAAATTTTATTTAATTATAAAATATTT
* *
33779616 TTAAATTTTATTTTATTA-AAAATATTT
1 ATAAATTTTATTTAATTATAAAATATTT
*
33779643 ATACATTTT
1 ATAAATTTT
33779652 TACAAATCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
ATAAATTTTATTTAATTATAAAATATTT
Found at i:33779805 original size:16 final size:15
Alignment explanation
Indices: 33779779--33779808 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33779769 TACTAGTATC
33779779 GATAAATTTTAAAAT
1 GATAAATTTTAAAAT
33779794 GATAATATTTTAAAA
1 GATAA-ATTTTAAAA
33779809 AAATTCATCC
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:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
GATAAATTTTAAAAT
Found at i:33779882 original size:21 final size:21
Alignment explanation
Indices: 33779856--33779900 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
33779846 TTTAAAATTG
33779856 TATATATCTTAGCATAGTAGA
1 TATATATCTTAGCATAGTAGA
33779877 TATATATCTTAGCATAGTAGA
1 TATATATCTTAGCATAGTAGA
33779898 TAT
1 TAT
33779901 GATTTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
TATATATCTTAGCATAGTAGA
Found at i:33780315 original size:14 final size:15
Alignment explanation
Indices: 33780290--33780318 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33780280 GTTGGATGAC
33780290 TAAAATATAATTATA
1 TAAAATATAATTATA
33780305 TAAAA-ATAATTATA
1 TAAAATATAATTATA
33780319 AAAGGATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATAATTATA
Found at i:33781082 original size:10 final size:10
Alignment explanation
Indices: 33781067--33781091 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33781057 TCCTAACCGT
33781067 TAACTGCTGC
1 TAACTGCTGC
33781077 TAACTGCTGC
1 TAACTGCTGC
33781087 TAACT
1 TAACT
33781092 ACCACAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (10 bp):
TAACTGCTGC
Found at i:33786353 original size:23 final size:22
Alignment explanation
Indices: 33786301--33786353 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33786291 TCCACGTCTT
*
33786301 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
33786323 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
33786346 TTTCTTTT
1 TTTCTTTT
33786354 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33799312 original size:31 final size:32
Alignment explanation
Indices: 33799244--33799322 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 32
33799234 ATATAATATG
*
33799244 GTAATTAAATTAAATT--AATCATTATATAAT
1 GTAATTAAATTAAATTAAAATCATTACATAAT
* * *
33799274 GTGATTAACTTAAATTAAAAT-GTTACATAAT
1 GTAATTAAATTAAATTAAAATCATTACATAAT
*
33799305 GTAATTAAATTAAGTTAA
1 GTAATTAAATTAAATTAA
33799323 TAGGGGGTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 14 0.35
31 23 0.57
32 3 0.08
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.41
Consensus pattern (32 bp):
GTAATTAAATTAAATTAAAATCATTACATAAT
Found at i:33803366 original size:107 final size:101
Alignment explanation
Indices: 33803207--33803406 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 101
33803197 TACATTTGTA
* * *
33803207 GTGCCATAACCTAGTTATGGTCTTATCATCAGAACGCCATAAACCAGTTATGGTCTTACACATGT
1 GTGCCATAACCCAGTTATGGTCTTATCATCAAAACGCCATAAACCAGCTATGGTCTT--ACAT-T
* *
33803272 ATATATATACTGTCATGGTCCAACCATGGTCTTACGTTCAAT
63 -TA-A-ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAT
* * * **
33803314 GTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATCAAAACGCCATAAACCAGCTATGGTCTTACATTTAA
33803379 ACACTGCCATGGTCCAACCATGGTCTTA
66 ACACTGCCATGGTCCAACCATGGTCTTA
33803407 TCCGTAAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 26 0.31
102 1 0.01
103 2 0.02
104 1 0.01
105 4 0.05
107 49 0.59
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTATCATCAAAACGCCATAAACCAGCTATGGTCTTACATTTAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAT
Found at i:33803379 original size:33 final size:33
Alignment explanation
Indices: 33803297--33803406 Score: 87
Period size: 33 Copynumber: 3.3 Consensus size: 33
33803287 TGGTCCAACC
* * ** * *
33803297 ATGGTCTTACGTTCAATGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
*
33803330 ATGGTCTTTTCA-TTAAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAGCCCAGCT
* * * *
33803363 ATGGTCTTACATTTAAACACTGCCATGGTCCAACC
1 ATGGTCTTACATTTAAA-A-TGCCATAGCCCAGCT
33803398 ATGGTCTTA
1 ATGGTCTTA
33803407 TCCGTAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 4 0.07
33 33 0.54
34 4 0.07
35 20 0.33
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAGCCCAGCT
Found at i:33817349 original size:39 final size:40
Alignment explanation
Indices: 33817255--33817432 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
33817245 ATGTCCGAGT
* * * *
33817255 TAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCGGGC
*
33817295 TAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* * *
33817335 TAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
33817374 TAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
*
33817414 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
33817433 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.30
40 71 0.61
41 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:33817394 original size:79 final size:79
Alignment explanation
Indices: 33817301--33817465 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
33817291 GGACTAAGAT
* * *
33817301 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTA-C
1 CCGAAGGCAATTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGC
*
33817363 TAAATCCGGGTTAAGTC
64 TAAATCC-GGTTAAATC
* *
33817380 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
* *
33817445 TATCCGGTTAAATT
66 AATCCGGTTAAATC
33817459 CCGAAGG
1 CCGAAGG
33817466 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
79 48 0.64
80 27 0.36
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:33825285 original size:40 final size:39
Alignment explanation
Indices: 33825201--33825385 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
33825191 TTGAATGATG
* * * *
33825201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33825241 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33825281 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33825320 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
33825361 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33825386 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33825337 original size:79 final size:79
Alignment explanation
Indices: 33825201--33825418 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
33825191 TTGAATGATG
* * * * ** *
33825201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCAAT
33825265 TGTGCGAGATACTA-A
64 TGTGCGAGATACTATA
*
33825280 TTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGTTAAGT-CCGAAGGCAAT
*
33825344 TGTGCGAGTTACTATA
64 TGTGCGAGATACTATA
* * * *
33825360 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTATATCCGGGTT-AAGTCCGAAGG
33825419 TACGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 70 0.59
80 47 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGTTAAGTCCGAAGGCAATTG
TGCGAGATACTATA
Found at i:33829560 original size:13 final size:13
Alignment explanation
Indices: 33829542--33829567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33829532 TTCTCTATTC
33829542 TTTACATCACTTT
1 TTTACATCACTTT
33829555 TTTACATCACTTT
1 TTTACATCACTTT
33829568 ACATCACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATCACTTT
Found at i:33845413 original size:24 final size:23
Alignment explanation
Indices: 33845385--33845442 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
33845375 TCTTTTCTTT
* *
33845385 ATTTTCTTTTCATTTTTAGATTAG
1 ATTTTCTTTTC-TTTCTAGAATAG
*
33845409 GTTTTCTCTTTCTTTCTAGAATAG
1 ATTTTCT-TTTCTTTCTAGAATAG
*
33845433 ATTTTGTTTT
1 ATTTTCTTTT
33845443 TTTTTGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.11
24 21 0.75
25 4 0.14
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.62
Consensus pattern (23 bp):
ATTTTCTTTTCTTTCTAGAATAG
Found at i:33846440 original size:30 final size:31
Alignment explanation
Indices: 33846406--33846465 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
33846396 TCAAAATAAC
* *
33846406 TTTTT-ACTTTGAAAATTTTTTCAAAAAATA
1 TTTTTCACTTGGAAAATGTTTTCAAAAAATA
* *
33846436 TTTTTCAGTTGGTAAATGTTTTCAAAAAAT
1 TTTTTCACTTGGAAAATGTTTTCAAAAAAT
33846466 CTAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (31 bp):
TTTTTCACTTGGAAAATGTTTTCAAAAAATA
Found at i:33851307 original size:5 final size:5
Alignment explanation
Indices: 33851297--33851322 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33851287 TGAGTTTAGG
33851297 GAGAA GAGAA GAGAA GAGAA GAGAA G
1 GAGAA GAGAA GAGAA GAGAA GAGAA G
33851323 CAGGTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:33851527 original size:26 final size:25
Alignment explanation
Indices: 33851498--33851546 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
33851488 GTACATTATT
* *
33851498 ATTTTTAATTATTATTTATTTGTTTG
1 ATTTGTAATCATTA-TTATTTGTTTG
*
33851524 ATTTGTAATCCTTATTATTTGTT
1 ATTTGTAATCATTATTATTTGTT
33851547 ATATTTTGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.65
Consensus pattern (25 bp):
ATTTGTAATCATTATTATTTGTTTG
Found at i:33861410 original size:31 final size:31
Alignment explanation
Indices: 33861372--33861433 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33861362 CCCAATTTCC
33861372 TACTCCACTACCTTAGCTTTCTAAAACTAAG
1 TACTCCACTACCTTAGCTTTCTAAAACTAAG
33861403 TACTCCACTACCTTAGCTTTCTAAAACTAAG
1 TACTCCACTACCTTAGCTTTCTAAAACTAAG
33861434 GATTTTCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (31 bp):
TACTCCACTACCTTAGCTTTCTAAAACTAAG
Found at i:33862076 original size:16 final size:18
Alignment explanation
Indices: 33862045--33862077 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33862035 AATACAAAAG
33862045 TGGTATCGATATAAAATA
1 TGGTATCGATATAAAATA
33862063 TGGTATC-A-ATAAAAT
1 TGGTATCGATATAAAAT
33862078 TCAATAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (18 bp):
TGGTATCGATATAAAATA
Found at i:33864487 original size:21 final size:21
Alignment explanation
Indices: 33864461--33864514 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
33864451 TTAAAACCTG
33864461 ATGAGTATCGATACTTTTT-AA
1 ATGAGTATCGATA-TTTTTCAA
33864482 ATGAGTATCGATATTTTTCAA
1 ATGAGTATCGATATTTTTCAA
*
33864503 A-AAGTATCGATA
1 ATGAGTATCGATA
33864515 AAATAGTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (21 bp):
ATGAGTATCGATATTTTTCAA
Found at i:33864508 original size:20 final size:21
Alignment explanation
Indices: 33864464--33864514 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
33864454 AAACCTGATG
*
33864464 AGTATCGATACTTTTTAAATG
1 AGTATCGATACTTTTTAAATA
33864485 AGTATCGATA-TTTTTCAAA-A
1 AGTATCGATACTTTTT-AAATA
33864505 AGTATCGATA
1 AGTATCGATA
33864515 AAATAGTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (21 bp):
AGTATCGATACTTTTTAAATA
Found at i:33865058 original size:13 final size:13
Alignment explanation
Indices: 33865040--33865066 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33865030 TGATTCGAAG
33865040 TGTTAATAAATTC
1 TGTTAATAAATTC
33865053 TGTTAATAAATTC
1 TGTTAATAAATTC
33865066 T
1 T
33865067 AGAACTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TGTTAATAAATTC
Found at i:33880163 original size:78 final size:78
Alignment explanation
Indices: 33880034--33880202 Score: 257
Period size: 78 Copynumber: 2.2 Consensus size: 78
33880024 ACCATTGACC
* * *
33880034 GATCAAATAATTTGATTCATTCAGCTCAACTCCTAAGTTCATTCCAATGGTTATTCGGGAACTCC
1 GATCAATTAATTTGATTCATTCAGCTCAACTCCTAAGTCCACTCCAATGGTTATTCGGGAACTCC
*
33880099 AAATGTCAAAGCT
66 AAATGTCAAAACT
* * ** *
33880112 GATCAATTAATTTTATTCATTCAGCTTAACTTTTAAGTCCACTCCAATGGTTGTTCGGGAACTCC
1 GATCAATTAATTTGATTCATTCAGCTCAACTCCTAAGTCCACTCCAATGGTTATTCGGGAACTCC
33880177 AAATGTCAAAACT
66 AAATGTCAAAACT
33880190 GATCAATTAATTT
1 GATCAATTAATTT
33880203 CTTCAAGGAC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (78 bp):
GATCAATTAATTTGATTCATTCAGCTCAACTCCTAAGTCCACTCCAATGGTTATTCGGGAACTCC
AAATGTCAAAACT
Found at i:33890919 original size:24 final size:24
Alignment explanation
Indices: 33890877--33890947 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
33890867 ACAGAAAATG
*
33890877 AGCAAGAGACAAAAGAAAATGAGAA
1 AGCAA-AGAAAAAAGAAAATGAGAA
* *
33890902 GGCAAAGAAAAAAGAAAAAGAGAA
1 AGCAAAGAAAAAAGAAAATGAGAA
** *
33890926 ATAAAAGAAAAGAGAAAATGAG
1 AGCAAAGAAAAAAGAAAATGAG
33890948 CATGAGAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 34 0.89
25 4 0.11
ACGTcount: A:0.68, C:0.04, G:0.24, T:0.04
Consensus pattern (24 bp):
AGCAAAGAAAAAAGAAAATGAGAA
Found at i:33890944 original size:17 final size:17
Alignment explanation
Indices: 33890911--33890942 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33890901 AGGCAAAGAA
33890911 AAAAGAAAAAGAGAAAT
1 AAAAGAAAAAGAGAAAT
33890928 AAAAG-AAAAGAGAAA
1 AAAAGAAAAAGAGAAA
33890943 ATGAGCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAGAAAT
Found at i:33890979 original size:27 final size:28
Alignment explanation
Indices: 33890928--33890980 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
33890918 AAAGAGAAAT
*
33890928 AAAAGAAAAGAGAAAATGAGCATGAGAA
1 AAAAGAAAAGAGAAAATGAGAATGAGAA
33890956 AAAAGAAAA-AGAAAGA-GAGAATGAG
1 AAAAGAAAAGAGAAA-ATGAGAATGAG
33890981 CGAGAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (28 bp):
AAAAGAAAAGAGAAAATGAGAATGAGAA
Found at i:33890979 original size:33 final size:32
Alignment explanation
Indices: 33890928--33890989 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
33890918 AAAGAGAAAT
33890928 AAAAGAAAAGAGAAAATGAGCATGAGAAAAAAGA
1 AAAAGAAAAGAGAAAATGAGC--GAGAAAAAAGA
*
33890962 AAAAG-AAAGAGAGAATGAGCGAGAAAAA
1 AAAAGAAAAGAGAAAATGAGCGAGAAAAA
33890990 GAAGAATCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.30
33 14 0.52
34 5 0.19
ACGTcount: A:0.66, C:0.03, G:0.26, T:0.05
Consensus pattern (32 bp):
AAAAGAAAAGAGAAAATGAGCGAGAAAAAAGA
Found at i:33890995 original size:33 final size:33
Alignment explanation
Indices: 33890914--33890995 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 33
33890904 CAAAGAAAAA
*
33890914 AGAAAAAGAGAAATAAAAGAAAAGAGAAAATGAGC
1 AGAAAAAGA-AGA-AAAAGAAAAGAGAAAATGAGC
*
33890949 ATGAGAAAA-AAGAAAAAG-AAAGAGAGAATGAGC
1 A-GA-AAAAGAAGAAAAAGAAAAGAGAAAATGAGC
33890982 GAGAAAAAGAAGAA
1 -AGAAAAAGAAGAA
33890996 TCGAGTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
32 4 0.10
33 21 0.51
34 6 0.15
35 3 0.07
36 3 0.07
37 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (33 bp):
AGAAAAAGAAGAAAAAGAAAAGAGAAAATGAGC
Found at i:33891528 original size:52 final size:52
Alignment explanation
Indices: 33891467--33891683 Score: 276
Period size: 52 Copynumber: 4.2 Consensus size: 52
33891457 AGCATATTTT
* * *
33891467 CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCTTTGCTTGTTTTGTTG
1 CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCATTGATTGTTTAGTTG
*
33891519 CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCATTGATTGTTTTGTTG
1 CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCATTGATTGTTTAGTTG
* * * *
33891571 CATTCATAATTAAAGTCGTGTTTTTAGTTT-TGCTTAAATT-ATTGTTTAGTTA
1 CATTCATAAATAAAGTTGTGTTTTTA-TTTATGCTT-CATTGATTGTTTAGTTG
* * * * * *
33891623 TATTCATAAATTAAGTGGTGTTTTTAATTATGTTTCATTGTTTGTTTAGTTG
1 CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCATTGATTGTTTAGTTG
33891675 CATTCATAA
1 CATTCATAA
33891684 TATTTTTTAT
Statistics
Matches: 144, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
51 5 0.03
52 133 0.92
53 6 0.04
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (52 bp):
CATTCATAAATAAAGTTGTGTTTTTATTTATGCTTCATTGATTGTTTAGTTG
Found at i:33893604 original size:48 final size:48
Alignment explanation
Indices: 33893549--33893653 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
33893539 TGATAGTATT
33893549 AATGTTTGATTGAGTTTGTAATTTCATATTTGAGTTATGAGATATGAG
1 AATGTTTGATTGAGTTTGTAATTTCATATTTGAGTTATGAGATATGAG
33893597 AATGTTTGATTGAGTTTGTAATTTCATATTTGAGTTATGAGATATGAG
1 AATGTTTGATTGAGTTTGTAATTTCATATTTGAGTTATGAGATATGAG
33893645 AATGTTTGA
1 AATGTTTGA
33893654 CTAAATGATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.46
Consensus pattern (48 bp):
AATGTTTGATTGAGTTTGTAATTTCATATTTGAGTTATGAGATATGAG
Found at i:33898706 original size:21 final size:21
Alignment explanation
Indices: 33898673--33898716 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33898663 TTTCTTGTAC
*
33898673 TTAGGTACATTTAGTAGCATT
1 TTAGGTACATTTACTAGCATT
*
33898694 TTAGG-ACATTTTACTAGTATT
1 TTAGGTACA-TTTACTAGCATT
33898715 TT
1 TT
33898717 TTATCACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (21 bp):
TTAGGTACATTTACTAGCATT
Found at i:33899087 original size:42 final size:40
Alignment explanation
Indices: 33899010--33899089 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
33899000 TTTGTCCAAG
* *
33899010 AAAAAATATTAAAAAGGAGAAGATAATCTTAGGTTGTTTA
1 AAAAAATATTAAAAAGGAGAAGATAAACATAGGTTGTTTA
* *
33899050 AAAAAATTTTAAAAAGAGAAGAAGATAAACATGGGTTGTT
1 AAAAAATATTAAAAAG-G-AGAAGATAAACATAGGTTGTT
33899090 GGATTTACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 15 0.44
41 1 0.03
42 18 0.53
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.28
Consensus pattern (40 bp):
AAAAAATATTAAAAAGGAGAAGATAAACATAGGTTGTTTA
Found at i:33902665 original size:21 final size:20
Alignment explanation
Indices: 33902627--33902665 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33902617 CTGTAATTTG
*
33902627 TGGGATTTTTAAATATTTAA
1 TGGGATTTTTAAAGATTTAA
*
33902647 TGGGTATTTTTCAAGATTT
1 TGGG-ATTTTTAAAGATTT
33902666 TTAATTGATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (20 bp):
TGGGATTTTTAAAGATTTAA
Found at i:33906575 original size:27 final size:27
Alignment explanation
Indices: 33906536--33906704 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
33906526 AAAGGTCAAT
* *
33906536 AAATGACCGAAATATCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
33906563 AAATGACCAAAATACCCCTACAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
33906590 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
33906617 AAATGATCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
33906644 AAATGACCGAGATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
33906671 AAATAATCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
33906698 AAATGAC
1 AAATGAC
33906705 TATTATACCC
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:33906671 original size:81 final size:81
Alignment explanation
Indices: 33906536--33906704 Score: 268
Period size: 81 Copynumber: 2.1 Consensus size: 81
33906526 AAAGGTCAAT
*
33906536 AAATGACCGAAATATCCCTATAGGGTAAAATGACCAAAATACCCCTACAGGGTAAAATAATCGAA
1 AAATGACCGAAATATCCCTATAGGGTAAAATGACCAAAATACCCCCACAGGGTAAAATAATCGAA
*
33906601 ATACCCCCATAGGGTA
66 ATACCCCCATAAGGTA
* * * *
33906617 AAATGATCGAAATACTCCC-ATAGGGTAAAATGACCGAGATACCCCCATAGGGTAAAATAATCGA
1 AAATGACCGAAATA-TCCCTATAGGGTAAAATGACCAAAATACCCCCACAGGGTAAAATAATCGA
33906681 AATACCCCCATAAGGTA
65 AATACCCCCATAAGGTA
33906698 AAATGAC
1 AAATGAC
33906705 TATTATACCC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 76 0.95
82 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (81 bp):
AAATGACCGAAATATCCCTATAGGGTAAAATGACCAAAATACCCCCACAGGGTAAAATAATCGAA
ATACCCCCATAAGGTA
Found at i:33907044 original size:28 final size:28
Alignment explanation
Indices: 33907002--33907056 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
33906992 CACTGTACTA
* *
33907002 TTACTGTATTCGGCTAAGGCCTACACTG
1 TTACAGTATTCGGCTAAGGCCCACACTG
*
33907030 TTACAGTATTGGGCTAAGGCCCACACT
1 TTACAGTATTCGGCTAAGGCCCACACT
33907057 ATACTGTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (28 bp):
TTACAGTATTCGGCTAAGGCCCACACTG
Found at i:33909932 original size:40 final size:40
Alignment explanation
Indices: 33909834--33910003 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
33909824 TCCTCGTTCA
* * * *
33909834 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
33909873 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
33909913 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
33909953 AATGCCTTCAGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
33909993 AAGGCCTTCGG
1 AATGCCTTCGG
33910004 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:33910040 original size:80 final size:79
Alignment explanation
Indices: 33909832--33910055 Score: 209
Period size: 80 Copynumber: 2.8 Consensus size: 79
33909822 GCTCCTCGTT
* * * * * * *
33909832 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGG
33909896 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * * * *
33909911 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCAGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGG
** *
33909976 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * * * *
33909991 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCG
33910055 G
64 G
33910056 GCAGCATTCA
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 37 0.31
80 77 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:33915625 original size:27 final size:27
Alignment explanation
Indices: 33915595--33915772 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
33915585 ATATTGAGCC
* *
33915595 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
33915622 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33915649 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33915677 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
33915704 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
33915731 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
33915758 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33915773 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33915707 original size:55 final size:54
Alignment explanation
Indices: 33915595--33915772 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
33915585 ATATTGAGCC
* * * * *
33915595 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
33915649 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
33915704 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
33915758 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33915773 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:33931782 original size:15 final size:15
Alignment explanation
Indices: 33931762--33931805 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
33931752 AACAACTATG
33931762 GAAAAAATGGGAAAA
1 GAAAAAATGGGAAAA
*
33931777 GAAAAAATAGAGAAAA
1 GAAAAAAT-GGGAAAA
33931793 -AAAAACATGGGAA
1 GAAAAA-ATGGGAA
33931806 CAATGGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (15 bp):
GAAAAAATGGGAAAA
Found at i:33933507 original size:16 final size:16
Alignment explanation
Indices: 33933476--33933512 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33933466 ATGTGAAGAA
33933476 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
33933492 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
33933508 TATTA
1 TATTA
33933513 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:33933530 original size:19 final size:18
Alignment explanation
Indices: 33933498--33933533 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33933488 TTATTATTTT
*
33933498 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
33933516 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
33933534 CAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:33934277 original size:15 final size:15
Alignment explanation
Indices: 33934257--33934297 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
33934247 CTTGATAAAT
33934257 TGAAAAATTAAATGC
1 TGAAAAATTAAATGC
* *
33934272 TGAAAAAATAAATGT
1 TGAAAAATTAAATGC
33934287 TGAAAAATTAA
1 TGAAAAATTAA
33934298 GTATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (15 bp):
TGAAAAATTAAATGC
Found at i:33934789 original size:56 final size:56
Alignment explanation
Indices: 33934718--33934831 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
33934708 TTTTTTTACT
* *
33934718 TATCTAAATCTGAATTAGCAAATGTGTCTAAAAATATGAATCCGTAAATTATTGAG
1 TATCTAAATCCGAATTAGCAAATGTATCTAAAAATATGAATCCGTAAATTATTGAG
*
33934774 TATCTAAATCCGAATTAGCAAATGTATCTAAAAATATGAATCTGTAAATTATTGAG
1 TATCTAAATCCGAATTAGCAAATGTATCTAAAAATATGAATCCGTAAATTATTGAG
33934830 TA
1 TA
33934832 CTATTGTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (56 bp):
TATCTAAATCCGAATTAGCAAATGTATCTAAAAATATGAATCCGTAAATTATTGAG
Found at i:33939110 original size:69 final size:69
Alignment explanation
Indices: 33939020--33939152 Score: 173
Period size: 69 Copynumber: 1.9 Consensus size: 69
33939010 GACTAATATG
* * * *
33939020 TTTTATAACTATTTTTATATTTTTAATTATGATTTTTTAG-T-TTATAAGAA-TATATAACATAT
1 TTTTAAAAATATTTATATATTTTT-ATTATAATTTTTTAGCTATTATAA-AATTATATAA-ATAT
33939082 ATCTTGA
63 ATCTTGA
*
33939089 TTTTAAAAATATTTATATATTTTTATTATAATTTTTTAGCTATTATAAAATTTTATAAATATAT
1 TTTTAAAAATATTTATATATTTTTATTATAATTTTTTAGCTATTATAAAATTATATAAATATAT
33939153 ATGACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
68 14 0.25
69 30 0.54
70 12 0.21
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (69 bp):
TTTTAAAAATATTTATATATTTTTATTATAATTTTTTAGCTATTATAAAATTATATAAATATATC
TTGA
Found at i:33951845 original size:30 final size:30
Alignment explanation
Indices: 33951811--33951872 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
33951801 TGAATTATTT
* *
33951811 TTAAAAATTTGGTAACTCTTTTTATAAATA
1 TTAAAAATTAGATAACTCTTTTTATAAATA
** *
33951841 TTAAAAATTAGATGCCTCTTTTTGTAAATA
1 TTAAAAATTAGATAACTCTTTTTATAAATA
33951871 TT
1 TT
33951873 TTCAAAAAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (30 bp):
TTAAAAATTAGATAACTCTTTTTATAAATA
Found at i:33956250 original size:28 final size:28
Alignment explanation
Indices: 33956210--33956293 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
33956200 ATTGAATGAG
33956210 AAATGTGACAATATATCTGTTGTGATGT
1 AAATGTGACAATATATCTGTTGTGATGT
33956238 AAATGTGACAATATATCTGTTGTGATGT
1 AAATGTGACAATATATCTGTTGTGATGT
*
33956266 AAATGTGACAATATATTTGTTGTGATGT
1 AAATGTGACAATATATCTGTTGTGATGT
33956294 CATTTATGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (28 bp):
AAATGTGACAATATATCTGTTGTGATGT
Found at i:33957211 original size:19 final size:19
Alignment explanation
Indices: 33957170--33957213 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33957160 GTTATTTTAT
**
33957170 TAATAAAATAAAAAAAGGT
1 TAATAAAATAAAAAAAGCA
33957189 TAATAAAATAAAGAAAA-CA
1 TAATAAAATAAA-AAAAGCA
33957208 TAATAA
1 TAATAA
33957214 TTTTCTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
TAATAAAATAAAAAAAGCA
Found at i:33958317 original size:136 final size:135
Alignment explanation
Indices: 33958058--33958319 Score: 319
Period size: 136 Copynumber: 1.9 Consensus size: 135
33958048 TCATTAGGGT
* * * * * *
33958058 TTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCGATGGCTGAGTTTTGACATTTGTTGTGG
1 TTACCATGTTTCGGGTGCTGGTCTCGAATGTCCTACCGATGGCTAAGTTTCGACATTTGTTATGG
* * * * *
33958123 GTACTCGACAGCTTGTGGAGCAGCACCATATAGCTACATTTCTACTGACAGCTTGTGTGAGTAGA
66 ATAATCGACAGCTTGTGGAGCAGCACCATATAGCTA-ATTTCTACCGACAACTCGTGTGAGTAGA
33958188 CCCAGG
130 CCCAGG
* * * *
33958194 TTACCATGTTTTGGGTGCTGGTCTCGAATGTCCTACCGGTGGCTAAGTTTCGACTTTTTTTATGG
1 TTACCATGTTTCGGGTGCTGGTCTCGAATGTCCTACCGATGGCTAAGTTTCGACATTTGTTATGG
* * * *
33958259 ATAATCGATAGCTTGTGGAGCAGCATCGTGTAGCT-ATGTTCTGACCGACAACTCGTGTGAG
66 ATAATCGACAGCTTGTGGAGCAGCACCATATAGCTAAT-TTCT-ACCGACAACTCGTGTGAG
33958320 CAGGCCCATT
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
134 2 0.02
135 4 0.04
136 99 0.94
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (135 bp):
TTACCATGTTTCGGGTGCTGGTCTCGAATGTCCTACCGATGGCTAAGTTTCGACATTTGTTATGG
ATAATCGACAGCTTGTGGAGCAGCACCATATAGCTAATTTCTACCGACAACTCGTGTGAGTAGAC
CCAGG
Found at i:33966130 original size:35 final size:35
Alignment explanation
Indices: 33966107--33966206 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 35
33966097 TAATAGACCC
*
33966107 TTTCCATGATGCCGCTTCGTAGAGCCAGTAGATCA
1 TTTCCATGATGCCGCTCCGTAGAGCCAGTAGATCA
* *
33966142 TCTCCATGATGCCGCTCCTTAGAGCCAGTAGATCA
1 TTTCCATGATGCCGCTCCGTAGAGCCAGTAGATCA
* * *
33966177 TTTCCATGATGTCGCTCCGCAGAGCGAGTA
1 TTTCCATGATGCCGCTCCGTAGAGCCAGTA
33966207 AACTATTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (35 bp):
TTTCCATGATGCCGCTCCGTAGAGCCAGTAGATCA
Found at i:33972237 original size:61 final size:61
Alignment explanation
Indices: 33972097--33972225 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 61
33972087 TTGGATTTTA
* * * ** *
33972097 GGTCCACAC-AGCCGAAAT-GCTCAACCCGTATGGCCCACATGGCCTCACATATTCCCATGT
1 GGTCCACACGA-CCAAAATAGCCCAACCCATATGGCCCACACAGCCTCACATATGCCCATGT
* * *
33972157 GGTCCACACGACCAAAATAGCCCAACCCATGTGGCCCACACAGCTTCACATATGCCCGTGT
1 GGTCCACACGACCAAAATAGCCCAACCCATATGGCCCACACAGCCTCACATATGCCCATGT
33972218 GGTCCACA
1 GGTCCACA
33972226 GTGCCCAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
60 15 0.26
61 43 0.74
ACGTcount: A:0.26, C:0.37, G:0.19, T:0.18
Consensus pattern (61 bp):
GGTCCACACGACCAAAATAGCCCAACCCATATGGCCCACACAGCCTCACATATGCCCATGT
Found at i:33978660 original size:27 final size:27
Alignment explanation
Indices: 33978599--33978680 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
33978589 TAAAATAGTC
*
33978599 TTTTACCC-ACCA-GGGCATTACGGTCA
1 TTTTACCCTA-CAGGGGTATTACGGTCA
*
33978625 TTTTACCCTACAGGGGTATTACGGTTA
1 TTTTACCCTACAGGGGTATTACGGTCA
* *
33978652 GTTTT-CCCTACAGGGGTATTGCGATCA
1 -TTTTACCCTACAGGGGTATTACGGTCA
33978679 TT
1 TT
33978681 ATCCTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
26 12 0.25
27 32 0.67
28 4 0.08
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
TTTTACCCTACAGGGGTATTACGGTCA
Found at i:33980366 original size:12 final size:12
Alignment explanation
Indices: 33980351--33980379 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33980341 CCCTGATACC
33980351 CTCCACATATCA
1 CTCCACATATCA
33980363 CTCCACATATCA
1 CTCCACATATCA
33980375 CTCCA
1 CTCCA
33980380 ACCTCTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (12 bp):
CTCCACATATCA
Found at i:33984251 original size:44 final size:46
Alignment explanation
Indices: 33984168--33984258 Score: 159
Period size: 44 Copynumber: 2.0 Consensus size: 46
33984158 TTTACAGTAT
*
33984168 TGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAA
33984214 TGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAA
33984258 T
1 T
33984259 AGAGATGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.55
45 3 0.07
46 17 0.39
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.37
Consensus pattern (46 bp):
TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAA
Found at i:33984254 original size:39 final size:44
Alignment explanation
Indices: 33984168--33984271 Score: 128
Period size: 39 Copynumber: 2.4 Consensus size: 44
33984158 TTTACAGTAT
*
33984168 TGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGGAA
33984214 TGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-GAA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGGAA
**
33984253 TGGAATAGAGATGTAATAG
1 TGGAATAGAGGCGTAATAG
33984272 CATAAGAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.06
46 17 0.31
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.36
Consensus pattern (44 bp):
TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGGAA
Found at i:33984440 original size:18 final size:18
Alignment explanation
Indices: 33984417--33984550 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
33984407 TTATTATTAA
33984417 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
33984435 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
33984452 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
33984470 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
33984486 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
33984505 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
33984517 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
33984535 ATATAATTTGATAAAA
1 ATATAATTTAATAAAA
33984551 TTCTTAGTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 4 0.05
16 8 0.09
17 20 0.23
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:33984600 original size:61 final size:60
Alignment explanation
Indices: 33984451--33984632 Score: 210
Period size: 59 Copynumber: 3.0 Consensus size: 60
33984441 TTTAATAAAA
33984451 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAT
* * * ** * * * * *
33984511 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTAT
33984571 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAT
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAT
33984631 TA
1 TA
33984633 AATATAATTT
Statistics
Matches: 94, Mismatches: 20, Indels: 16
0.72 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.36
60 20 0.21
61 34 0.36
62 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (60 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAT
Found at i:33987354 original size:15 final size:14
Alignment explanation
Indices: 33987334--33987364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
33987324 GGGAATAAAC
33987334 AAATAAAATGATGAA
1 AAATAAAATGAT-AA
33987349 AAATAAAATGATAA
1 AAATAAAATGATAA
33987363 AA
1 AA
33987365 TTAATCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAATAAAATGATAA
Found at i:33988957 original size:86 final size:85
Alignment explanation
Indices: 33988785--33989085 Score: 281
Period size: 86 Copynumber: 3.4 Consensus size: 85
33988775 ACAATTAAAC
* * * *
33988785 CAATTGGTTACTTGAACTTTTC-AAATGTATAAAAAAAGTTCTTAATTTAAAAAAAAAACAATTA
1 CAATTGG-TACTTGAAC-TTTCAAAATGCATAAAAAAAGCTCTAAACTTAAAAAAAAAACAATTA
* *
33988849 AGCTCTTTCTTTTTTTTTTCACT
64 AGCCCCTTC-TTTTTTTTTCACT
* *
33988872 CAATTAGGTACTTGAACTTTCAAAATGCATCAAAAAAGCTCTCAAACTTAAAAAAAAAGCAATTA
1 CAATT-GGTACTTGAACTTTCAAAATGCATAAAAAAAGCTCT-AAACTTAAAAAAAAAACAATTA
33988937 AGCCCCTTC-TTTTTTTTCACT
64 AGCCCCTTCTTTTTTTTTCACT
* **
33988958 CAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAAAC-CTTCAATTTTTTTTCAAAAAAAAAA
1 CAATTG-GTACTTGAACTTTCAAAATGCATAAAAAAAGCTC-T-AA----ACTT--AAAAAAAAA
*
33989022 ACAATTAAG-CCCTT-TTTTTTTCTGCA-T
57 ACAATTAAGCCCCTTCTTTTTTT-TTCACT
**
33989049 CCAATTGGGTACTTGAACTGCCAAAATGCATAAAAAA
1 -CAATT-GGTACTTGAACTTTCAAAATGCATAAAAAA
33989086 GACCCTTTGA
Statistics
Matches: 183, Mismatches: 16, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
85 2 0.01
86 55 0.30
87 31 0.17
88 28 0.15
90 2 0.01
91 12 0.07
92 52 0.28
93 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (85 bp):
CAATTGGTACTTGAACTTTCAAAATGCATAAAAAAAGCTCTAAACTTAAAAAAAAAACAATTAAG
CCCCTTCTTTTTTTTTCACT
Found at i:33989228 original size:19 final size:20
Alignment explanation
Indices: 33989203--33989250 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
33989193 AATAATAAAA
33989203 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* *
33989223 -ATAAAAATCACTAAATTTT
1 AATAAAAATCAATAAAATTT
33989242 AATAAAAAT
1 AATAAAAAT
33989251 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:33989229 original size:20 final size:19
Alignment explanation
Indices: 33989189--33989318 Score: 58
Period size: 20 Copynumber: 6.8 Consensus size: 19
33989179 GACATGTGAC
*
33989189 AAAAAATAATAAAA--AAT
1 AAAAAATAATAAAATTTAT
33989206 -AAAAATCAATAAAATTTAT
1 AAAAAAT-AATAAAATTTAT
* *
33989225 -AAAAATCACTAAATTTTAAT
1 AAAAAAT-AATAAAATTT-AT
33989245 AAAAATATAA-AAAATATT-T
1 AAAAA-ATAATAAAAT-TTAT
* * *
33989264 -AAAATTGATTAAAAATTAT
1 AAAAAAT-AATAAAATTTAT
* *
33989283 AAAAAAATTATAAAAATTAT
1 -AAAAAATAATAAAATTTAT
*
33989303 AAAAAAATTATAAAAT
1 -AAAAAATAATAAAAT
33989319 GCATCAAGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.07
17 8 0.09
18 7 0.08
19 23 0.26
20 31 0.35
21 12 0.13
22 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAAATAATAAAATTTAT
Found at i:33989255 original size:18 final size:19
Alignment explanation
Indices: 33989203--33989256 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
33989193 AATAATAAAA
33989203 AATAAAAATCAATAAAATTT
1 AATAAAAATC-ATAAAATTT
*
33989223 -ATAAAAATCACTAAATTTT
1 AATAAAAATCA-TAAAATTT
33989242 AATAAAAAT-ATAAAA
1 AATAAAAATCATAAAA
33989257 AATATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 17 0.57
20 8 0.27
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAAATCATAAAATTT
Found at i:33989278 original size:11 final size:10
Alignment explanation
Indices: 33989244--33989317 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 10
33989234 TAAATTTTAA
33989244 TAAAAA-TA-
1 TAAAAATTAT
*
33989252 TAAAAAATAT
1 TAAAAATTAT
*
33989262 TTAAAATTGAT
1 TAAAAATT-AT
33989273 TAAAAATTAT
1 TAAAAATTAT
*
33989283 AAAAAAATTA-
1 -TAAAAATTAT
33989293 TAAAAATTAT
1 TAAAAATTAT
*
33989303 AAAAAAATTA-
1 -TAAAAATTAT
33989313 TAAAA
1 TAAAA
33989318 TGCATCAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 6 0.11
9 14 0.26
10 8 0.15
11 25 0.47
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:33989318 original size:8 final size:9
Alignment explanation
Indices: 33989190--33989317 Score: 73
Period size: 9 Copynumber: 13.4 Consensus size: 9
33989180 ACATGTGACA
*
33989190 AAAAATAAT
1 AAAAATTAT
33989199 AAAAA--AT
1 AAAAATTAT
*
33989206 AAAAATCAAT
1 AAAAAT-TAT
*
33989216 AAAATTTAT
1 AAAAATTAT
*
33989225 AAAAATCACT
1 AAAAATTA-T
**
33989235 AAATTTTAAT
1 AAAAATT-AT
33989245 AAAAA-TAT
1 AAAAATTAT
*
33989253 AAAAAATATT
1 AAAAATTA-T
*
33989263 TAAAATTGATT
1 AAAAATT-A-T
33989274 AAAAATTAT
1 AAAAATTAT
33989283 AAAAAAATTAT
1 --AAAAATTAT
33989294 AAAAATTAT
1 AAAAATTAT
33989303 AAAAAAATTAT
1 --AAAAATTAT
33989314 AAAA
1 AAAA
33989318 TGCATCAAGA
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
7 7 0.07
8 7 0.07
9 30 0.32
10 23 0.24
11 28 0.29
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33989625 original size:39 final size:38
Alignment explanation
Indices: 33989564--33989657 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 38
33989554 ATGACTTTAA
* * *
33989564 AAAAATTTATAATTTTT-TTATATTTTATAATTTTCCT
1 AAAATTTTATAATTTTTAATATATTTTATAATTTTACT
* *
33989601 ACAAATTTTATAATTTTTAATATATTTTATATTTTTATT
1 A-AAATTTTATAATTTTTAATATATTTTATAATTTTACT
*
33989640 AAAATTTAATAATTTTTA
1 AAAATTTTATAATTTTTA
33989658 TAAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
37 1 0.02
38 31 0.63
39 17 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (38 bp):
AAAATTTTATAATTTTTAATATATTTTATAATTTTACT
Found at i:33989666 original size:19 final size:19
Alignment explanation
Indices: 33989559--33989665 Score: 94
Period size: 19 Copynumber: 5.6 Consensus size: 19
33989549 TTATTATGAC
* *
33989559 TTTAAAAAAATTTATAATT
1 TTTATAAAATTTTATAATT
* *
33989578 TTT-TTATATTTTATAATT
1 TTTATAAAATTTTATAATT
**
33989596 TTCCTACAAATTTTATAATT
1 TTTATA-AAATTTTATAATT
*
33989616 TTTA-ATATATTTTAT-ATT
1 TTTATA-AAATTTTATAATT
*
33989634 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTTATAATT
33989654 TTTATAAAATTT
1 TTTATAAAATTT
33989666 ATTGATTTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
18 20 0.29
19 28 0.40
20 22 0.31
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:33989673 original size:19 final size:19
Alignment explanation
Indices: 33989565--33989677 Score: 81
Period size: 19 Copynumber: 6.0 Consensus size: 19
33989555 TGACTTTAAA
33989565 AAAATTT-ATAATTTTT-T
1 AAAATTTAATAATTTTTAT
* * * **
33989582 TATATTTTATAATTTTCCT
1 AAAATTTAATAATTTTTAT
*
33989601 ACAAATTTTATAATTTTTA-
1 A-AAATTTAATAATTTTTAT
* *
33989620 ATATATTTTAT-ATTTTTATT
1 A-AAATTTAATAATTTTTA-T
33989640 AAAATTTAATAATTTTTAT
1 AAAATTTAATAATTTTTAT
* *
33989659 AAAATTTATTGATTTTTAT
1 AAAATTTAATAATTTTTAT
33989678 TTTTATAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.06
18 15 0.19
19 35 0.45
20 22 0.29
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
AAAATTTAATAATTTTTAT
Found at i:33989690 original size:9 final size:9
Alignment explanation
Indices: 33989569--33989690 Score: 58
Period size: 9 Copynumber: 13.3 Consensus size: 9
33989559 TTTAAAAAAA
33989569 TTTATAATT
1 TTTATAATT
*
33989578 TTT-TTATAT
1 TTTATAAT-T
33989587 TTTATAATT
1 TTTATAATT
* *
33989596 TTCCTACAAAT
1 TT--TATAATT
33989607 TTTATAATT
1 TTTATAATT
33989616 TTTA-ATATAT
1 TTTATA-AT-T
33989626 TTTAT-ATT
1 TTTATAATT
*
33989634 TTTATTAAAAT
1 TTTA-T-AATT
*
33989645 TTAATAATT
1 TTTATAATT
**
33989654 TTTATAAAA
1 TTTATAATT
*
33989663 TTTATTGA-T
1 TTTA-TAATT
33989672 TTT-T-ATT
1 TTTATAATT
33989679 TTTATAATT
1 TTTATAATT
33989688 TTT
1 TTT
33989691 TGCCACATGT
Statistics
Matches: 85, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
6 1 0.01
7 5 0.06
8 10 0.12
9 46 0.54
10 11 0.13
11 12 0.14
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:33991431 original size:15 final size:16
Alignment explanation
Indices: 33991413--33991443 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
33991403 ACATATGTAT
33991413 TAGAATAGTTA-AACA
1 TAGAATAGTTAGAACA
33991428 TAGAATAGTTAGAACA
1 TAGAATAGTTAGAACA
33991444 ACTTTAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (16 bp):
TAGAATAGTTAGAACA
Found at i:33994967 original size:28 final size:28
Alignment explanation
Indices: 33994932--33995019 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
33994922 CGTAAGTTGA
33994932 GTTCACTAGTCTGTTTGGCAAACTGAGG
1 GTTCACTAGTCTGTTTGGCAAACTGAGG
** * *
33994960 GTTCACTAG-CATGTTTGGTGAATTGGGG
1 GTTCACTAGTC-TGTTTGGCAAACTGAGG
* * *
33994988 GTTCGCTAGTCTGTTTAGCTAACTGAGG
1 GTTCACTAGTCTGTTTGGCAAACTGAGG
33995016 GTTC
1 GTTC
33995020 GCCAGTTGAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
27 1 0.02
28 46 0.96
29 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (28 bp):
GTTCACTAGTCTGTTTGGCAAACTGAGG
Found at i:34000818 original size:51 final size:49
Alignment explanation
Indices: 34000693--34000982 Score: 240
Period size: 51 Copynumber: 5.7 Consensus size: 49
34000683 TATTATTCGA
* * *
34000693 TACACGTAGTAGCTTTCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CAAGCTTTCCGG
* *
34000743 TTCACGTAGTAGCCTTCACATAGTACCACACACGTGACAAAAGCTTTCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAC--AAGCTTTCCGG
* * * * * * **
34000794 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGC-TTT-CCGG
* * *
34000845 TTCACGTAGTAGCCTTTACATAGTACTACACACGTGACCAAAGC-TTCTTGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-C-AAGCTTTC-CGG
* * * * * * * * *
34000896 TACACATTGTAGCCTTCACTTAATACTACACATGTGACCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGC-TTT-CCGG
* *
34000947 TTCACGTAGTAGCCTTCACATAGTGCTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
34000983 TTCATCGATA
Statistics
Matches: 185, Mismatches: 45, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
49 5 0.03
50 38 0.21
51 139 0.75
52 1 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACAAGCTTTCCGG
Found at i:34000876 original size:102 final size:102
Alignment explanation
Indices: 34000693--34000982 Score: 404
Period size: 102 Copynumber: 2.9 Consensus size: 102
34000683 TATTATTCGA
* * * * * *** *
34000693 TACACGTAGTAGCTTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
*
34000757 TTCACATAGTACCACACACGTGACAAAAGCTT-TCCGG
66 TTCACATAGTACTACACACGTGACAAAAGCTTCT-CGG
*
34000794 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* * *
34000859 TTTACATAGTACTACACACGTGACCAAAGCTTCTTGG
66 TTCACATAGTACTACACACGTGACAAAAGCTTCTCGG
* *
34000896 TACACATTGTAGCCTTCACTTAATACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
*
34000961 TTCACATAGTGCTACACACGTG
66 TTCACATAGTACTACACACGTG
34000983 TTCATCGATA
Statistics
Matches: 168, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 39 0.23
102 128 0.76
103 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
TTCACATAGTACTACACACGTGACAAAAGCTTCTCGG
Found at i:34002815 original size:18 final size:19
Alignment explanation
Indices: 34002782--34002818 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
34002772 ATCCCAAACT
34002782 CCCAAACCTCTTTACTTCC
1 CCCAAACCTCTTTACTTCC
34002801 CCCAAACCT-TTTACTTCC
1 CCCAAACCTCTTTACTTCC
34002819 TTCCACTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (19 bp):
CCCAAACCTCTTTACTTCC
Found at i:34003060 original size:32 final size:31
Alignment explanation
Indices: 34003019--34003081 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
34003009 CGGCCCATTT
34003019 TTATTTTAAAA-ATTTTAAAAAATTAAAAAAAA
1 TTATTTTAAAATATTTT--AAAATTAAAAAAAA
34003051 TTATTTTAAAATTATTTTAAAATTAAAAAAA
1 TTATTTTAAAA-TATTTTAAAATTAAAAAAA
34003082 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 24 0.83
34 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TTATTTTAAAATATTTTAAAATTAAAAAAAA
Found at i:34003061 original size:11 final size:11
Alignment explanation
Indices: 34003047--34003075 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34003037 AAAATTAAAA
34003047 AAAATTATTTT
1 AAAATTATTTT
34003058 AAAATTATTTT
1 AAAATTATTTT
34003069 AAAATTA
1 AAAATTA
34003076 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:34003088 original size:40 final size:41
Alignment explanation
Indices: 34003020--34003163 Score: 184
Period size: 41 Copynumber: 3.5 Consensus size: 41
34003010 GGCCCATTTT
* * *
34003020 TATTTTAAAAATTTTAAAAAATTAAAAAAAATTATTTTAAAAT
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAAGTATTTTAAAAA
34003063 TATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAA
* * * *
34003104 AATTTTAAAATTAAAAAAAATT--TAAAAAGTATGTCAAAAA
1 TATTTTAAAATT-AAAAAAATTAAAAAAAAGTATTTTAAAAA
34003144 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
34003164 AAATATATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
39 8 0.09
40 26 0.28
41 39 0.42
42 13 0.14
43 6 0.07
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:34003411 original size:17 final size:17
Alignment explanation
Indices: 34003389--34003443 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
34003379 TCAAATATTT
34003389 TCCCTCCAAAATTTTAC
1 TCCCTCCAAAATTTTAC
*
34003406 TCCCTCC---ATTTATAT
1 TCCCTCCAAAATTT-TAC
*
34003421 TCCCCCCAAAATTTTAC
1 TCCCTCCAAAATTTTAC
*
34003438 TTCCTC
1 TCCCTC
34003444 AACCTCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
17 13 0.45
18 4 0.14
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (17 bp):
TCCCTCCAAAATTTTAC
Found at i:34003477 original size:20 final size:20
Alignment explanation
Indices: 34003446--34003483 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34003436 ACTTCCTCAA
34003446 CCTCTAAAACTTTTTATTTTC
1 CCTCTAAAAC-TTTTATTTTC
34003467 CCTCT-AAACTTTTATTT
1 CCTCTAAAACTTTTATTT
34003484 ATCACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
CCTCTAAAACTTTTATTTTC
Found at i:34007932 original size:8 final size:8
Alignment explanation
Indices: 34007919--34007944 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34007909 AAATGGTGAA
34007919 GTTGAAAG
1 GTTGAAAG
34007927 GTTGAAAG
1 GTTGAAAG
34007935 GTTGAAAG
1 GTTGAAAG
34007943 GT
1 GT
34007945 ATAGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.27
Consensus pattern (8 bp):
GTTGAAAG
Found at i:34011817 original size:15 final size:15
Alignment explanation
Indices: 34011779--34011823 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
34011769 CCCTTCTTTT
* *
34011779 TCATCACAAATCACA
1 TCATCACATATCATA
34011794 TCATCACATATCATA
1 TCATCACATATCATA
*
34011809 TCATTACATATCATA
1 TCATCACATATCATA
34011824 CACAAATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (15 bp):
TCATCACATATCATA
Found at i:34023834 original size:41 final size:40
Alignment explanation
Indices: 34023743--34023975 Score: 198
Period size: 41 Copynumber: 5.6 Consensus size: 40
34023733 TCTTTGAATG
* * * * * **
34023743 TAAGGGGTTACTAAGTGCAGATTCTCTGAATCATTGACCAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGA-TTA
* * * *
34023784 AAAGGGGTTGCGATGTGCTGATTCCCCGAATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
*
34023824 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATT-
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* *
34023865 TGAAAGGGGTTGCTATGTGCTAATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * **
34023907 TAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTA
*
34023951 TAAGGTGGTTTCTAAGTGCTGATTC
1 TAAGG-GGTTGCTAAGTGCTGATTC
34023976 AACCGTGTAA
Statistics
Matches: 159, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
40 9 0.06
41 80 0.50
42 33 0.21
43 7 0.04
44 30 0.19
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:34023876 original size:42 final size:41
Alignment explanation
Indices: 34023785--34023975 Score: 208
Period size: 41 Copynumber: 4.6 Consensus size: 41
34023775 ATTGACCAAA
* * *
34023785 AAGG-GGTTGCGATGTGCTGATTCCCCGAATCATTGATTAT
1 AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAT
*
34023825 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATT-T
1 AAGGTGGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT
* *
34023866 GAAAGG-GGTTGCTATGTGCTAATTCCCCGTATCATTGATTAT
1 --AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAT
* * **
34023908 AAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACAT
1 AAGGTGGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTAT
*
34023952 AAGGTGGTTTCTAAGTGCTGATTC
1 AAGGTGGTTGCTAAGTGCTGATTC
34023976 AACCGTGTAA
Statistics
Matches: 128, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
40 8 0.06
41 50 0.39
42 33 0.26
43 7 0.05
44 30 0.23
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
AAGGTGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAT
Found at i:34023883 original size:83 final size:83
Alignment explanation
Indices: 34023784--34023936 Score: 279
Period size: 83 Copynumber: 1.8 Consensus size: 83
34023774 CATTGACCAA
*
34023784 AAAGGGGTTGCGATGTGCTGATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCGATGTGCTAATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
34023849 CACCGTATCCTTGATTTG
66 CACCGTATCCTTGATTTG
* *
34023867 AAAGGGGTTGCTATGTGCTAATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCGATGTGCTAATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
34023932 CACCG
66 CACCG
34023937 GGATCCTTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (83 bp):
AAAGGGGTTGCGATGTGCTAATTCCCCGAATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTTG
Found at i:34031676 original size:41 final size:40
Alignment explanation
Indices: 34031612--34031799 Score: 207
Period size: 41 Copynumber: 4.5 Consensus size: 40
34031602 TTTTTGAATG
* * * *
34031612 TAAGGGGTTGCTAAATG-TAGATTCCCCGAATCATTGATCA
1 TAAGGGGTTGCTAAGTGCT-GATTCCCCGTATCATTAATTA
*
34031652 TAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTAATTA
1 T-AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTAATTA
* * * *
34031693 TAAGGTGGTTGCTAACTGCTGATTCCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTAATTA
* *
34031735 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCCTTAATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTAATTA
34031777 TAAGGTGGTTGCTAAGTGCTGAT
1 TAAGG-GGTTGCTAAGTGCTGAT
34031800 CCCACCATGT
Statistics
Matches: 126, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
40 9 0.07
41 67 0.53
42 28 0.22
43 18 0.14
44 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTAATTA
Found at i:34031751 original size:84 final size:83
Alignment explanation
Indices: 34031612--34031805 Score: 277
Period size: 84 Copynumber: 2.3 Consensus size: 83
34031602 TTTTTGAATG
34031612 TAAGG-GGTTGCTAAATG-TAGATTCC-CCGAATCATTGATCATAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAATGCT-GATTCCACCGAATCATTGATCATAAAGGGGTTGCTATGTGCTGA
34031674 TTCCCCGTATCATTAATTA
65 TTCCCCGTATCATTAATTA
* * * **
34031693 TAAGGTGGTTGCTAACTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAATGCTGATTCCACCGAATCATTGATCAT-AAAGGGGTTGCTATGTGCTGA
*
34031758 TTCCCCGTATCCTTAATTA
65 TTCCCCGTATCATTAATTA
* *
34031777 TAAGGTGGTTGCTAAGTGCTGATCCCACC
1 TAAGGTGGTTGCTAAATGCTGATTCCACC
34031806 ATGTAACGGT
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
81 5 0.05
82 17 0.17
83 13 0.13
84 66 0.65
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (83 bp):
TAAGGTGGTTGCTAAATGCTGATTCCACCGAATCATTGATCATAAAGGGGTTGCTATGTGCTGAT
TCCCCGTATCATTAATTA
Found at i:34037135 original size:23 final size:23
Alignment explanation
Indices: 34037105--34037150 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34037095 TACAAACATC
*
34037105 GATGCATAGCAAATATAGATTCA
1 GATGCATAGCAAATACAGATTCA
* *
34037128 GATGCATATCAATTACAGATTCA
1 GATGCATAGCAAATACAGATTCA
34037151 AATGTATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (23 bp):
GATGCATAGCAAATACAGATTCA
Found at i:34042287 original size:29 final size:30
Alignment explanation
Indices: 34042239--34042300 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
34042229 ATGATCAAAA
*
34042239 AAAAGAAAAGAAAAAAGAGCATATGTATTC
1 AAAAGAAAAGAAAAAAGAGCATATGTACTC
* * *
34042269 AAAA-AAAAGTAAAAGGAGCATGTGTACTC
1 AAAAGAAAAGAAAAAAGAGCATATGTACTC
34042298 AAA
1 AAA
34042301 TACAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.58, C:0.08, G:0.18, T:0.16
Consensus pattern (30 bp):
AAAAGAAAAGAAAAAAGAGCATATGTACTC
Found at i:34052086 original size:2 final size:2
Alignment explanation
Indices: 34052079--34052106 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34052069 TCAATTGAAA
34052079 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
34052107 CGATGACTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34054739 original size:13 final size:13
Alignment explanation
Indices: 34054721--34054750 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34054711 AATAATCATA
34054721 AAAACTTTTAATG
1 AAAACTTTTAATG
*
34054734 AAAACTTTTAATT
1 AAAACTTTTAATG
34054747 AAAA
1 AAAA
34054751 GTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (13 bp):
AAAACTTTTAATG
Found at i:34055581 original size:15 final size:15
Alignment explanation
Indices: 34055561--34055607 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
34055551 CTAAGGGTTT
34055561 GCACATACAGAGTTC
1 GCACATACAGAGTTC
*
34055576 GCACAT--AGGGTTC
1 GCACATACAGAGTTC
* *
34055589 ACGCATACAGAGTTC
1 GCACATACAGAGTTC
34055604 GCAC
1 GCAC
34055608 CTAGGGGTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
13 10 0.42
15 14 0.58
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (15 bp):
GCACATACAGAGTTC
Found at i:34055586 original size:28 final size:28
Alignment explanation
Indices: 34055548--34055717 Score: 135
Period size: 28 Copynumber: 6.0 Consensus size: 28
34055538 GTAGGGCTCA
*
34055548 CACCTAAGGGTTTGCACATACAGAGTTCG
1 CACCT-AGGGTTCGCACATACAGAGTTCG
* * *
34055577 CACATAGGGTTCACGCATACAGAGTTCG
1 CACCTAGGGTTCGCACATACAGAGTTCG
* * *
34055605 CACCTAGGGGTTTGCACATCCAAAGTTCG
1 CACCTA-GGGTTCGCACATACAGAGTTCG
* * * * *
34055634 CACCTAGTGCTCGCACA-AGTAGGGTTTG
1 CACCTAGGGTTCGCACATA-CAGAGTTCG
* * * *
34055662 CATCTAGGGGTTCACACATATAGAGTTGG
1 CACCTA-GGGTTCGCACATACAGAGTTCG
* *
34055691 CACCTAGGGTTTGCACATATAGAGTTC
1 CACCTAGGGTTCGCACATACAGAGTTC
34055718 ACATAGATAA
Statistics
Matches: 109, Mismatches: 28, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
28 61 0.56
29 47 0.43
30 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (28 bp):
CACCTAGGGTTCGCACATACAGAGTTCG
Found at i:34056950 original size:2 final size:2
Alignment explanation
Indices: 34056943--34056970 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34056933 AAATGGGTTA
34056943 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
34056971 GGTTCCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34057207 original size:8 final size:8
Alignment explanation
Indices: 34057172--34057207 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
34057162 TAAAAATAAA
34057172 AAAATTAT
1 AAAATTAT
*
34057180 AAATTTAT
1 AAAATTAT
*
34057188 AAATTTAT
1 AAAATTAT
34057196 AAAATTAT
1 AAAATTAT
34057204 AAAA
1 AAAA
34057208 ATTTATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAAATTAT
Found at i:34059479 original size:11 final size:11
Alignment explanation
Indices: 34059459--34059629 Score: 84
Period size: 11 Copynumber: 16.4 Consensus size: 11
34059449 ATAAAAATTA
34059459 AAAAAGTATTTT
1 AAAAA-TATTTT
34059471 AAAAATATTTT
1 AAAAATATTTT
**
34059482 --AAA-ATTAA
1 AAAAATATTTT
34059490 AAAAAGTATTTT
1 AAAAA-TATTTT
*
34059502 AAAAAAATTTT
1 AAAAATATTTT
*
34059513 AAAAAAATTTT
1 AAAAATATTTT
***
34059524 -AAAAT-TAAA
1 AAAAATATTTT
34059533 AAAAAGTATTTT
1 AAAAA-TATTTT
34059545 AAAAATATTTT
1 AAAAATATTTT
*
34059556 --AAA-A-TTA
1 AAAAATATTTT
34059563 AAAAAGTATTTT
1 AAAAA-TATTTT
*
34059575 AAAAAAATTTT
1 AAAAATATTTT
34059586 --AAA-A--TT
1 AAAAATATTTT
**
34059592 AAAAA-ATTAAA
1 AAAAATATT-TT
34059603 AAAAAGTATTTT
1 AAAAA-TATTTT
34059615 AAAAATATTTT
1 AAAAATATTTT
34059626 AAAA
1 AAAA
34059630 TTAAAAAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 39
0.68 0.11 0.22
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 9 0.07
9 13 0.11
10 11 0.09
11 50 0.41
12 31 0.26
13 3 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:34059480 original size:43 final size:41
Alignment explanation
Indices: 34059433--34059559 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 41
34059423 ACCAAAAATT
34059433 TATTTTAAAAATTAAAATAAAA-ATTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAATATTAAAAAA-TATTTTAAAAA
*
34059476 TATTTTAAAATTAAAAAAAGTATTTTAAAAAA-ATTTTAAAAA
1 TATTTTAAAATTAAAAAAA--ATATTAAAAAATATTTTAAAAA
* *
34059518 AATTTTAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTAAAAAAAA-TA-TTAAAAAATATTTTAAAA
34059560 TTAAAAAAGT
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
40 1 0.01
41 4 0.05
42 45 0.61
43 16 0.22
44 8 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAAATATTAAAAAATATTTTAAAAA
Found at i:34059493 original size:31 final size:30
Alignment explanation
Indices: 34059452--34059516 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 30
34059442 AATTAAAATA
*
34059452 AAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAGTATTTTAAAAAAATTTT
34059482 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
1 AAAATT-AAAAAAGTATTTTAAAAAAATTTT
34059513 AAAA
1 AAAA
34059517 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAAAGTATTTTAAAAAAATTTT
Found at i:34059549 original size:30 final size:31
Alignment explanation
Indices: 34059508--34059597 Score: 139
Period size: 30 Copynumber: 2.9 Consensus size: 31
34059498 TTTTAAAAAA
34059508 ATTTTAAAAAAATTTTAAAATTAAAAAAAAGT
1 ATTTT-AAAAAATTTTAAAATTAAAAAAAAGT
34059540 ATTTTAAAAATATTTTAAAATT--AAAAAAGT
1 ATTTTAAAAA-ATTTTAAAATTAAAAAAAAGT
34059570 ATTTTAAAAAAATTTTAAAATTAAAAAA
1 ATTTT-AAAAAATTTTAAAATTAAAAAA
34059598 TTAAAAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
30 24 0.44
31 10 0.19
32 20 0.37
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
ATTTTAAAAAATTTTAAAATTAAAAAAAAGT
Found at i:34059590 original size:40 final size:41
Alignment explanation
Indices: 34059540--34059643 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 41
34059530 AAAAAAAAGT
**
34059540 ATTTTAAAAATATTTTAAAATT-AAAAAAGTATTTTAAAAAA
1 ATTTT-AAAATATTAAAAAATTAAAAAAAGTATTTTAAAAAA
*
34059581 ATTTT-AAA-ATTAAAAAATTAAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATATTAAAAAATT-AAAAAAAGTATTTTAAAAAA
34059621 ATTTT-AAA-ATTAAAAAA-TAAAAA
1 ATTTTAAAATATTAAAAAATTAAAAA
34059644 TAAAAATATT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
38 14 0.24
39 4 0.07
40 35 0.60
41 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
ATTTTAAAATATTAAAAAATTAAAAAAAGTATTTTAAAAAA
Found at i:34068934 original size:23 final size:23
Alignment explanation
Indices: 34068904--34068953 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
34068894 GGTTTCAATT
* *
34068904 GAACAACCTTTTTCGCTACCCTC
1 GAACAACCTTCTTCACTACCCTC
34068927 GAACAACCTTCTTCACTACCCTC
1 GAACAACCTTCTTCACTACCCTC
34068950 GAAC
1 GAAC
34068954 CACAAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.08, T:0.26
Consensus pattern (23 bp):
GAACAACCTTCTTCACTACCCTC
Found at i:34069441 original size:12 final size:13
Alignment explanation
Indices: 34069400--34069441 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
34069390 TTTAATCAAC
*
34069400 TAATTTAATTAAT
1 TAATTTACTTAAT
*
34069413 TATATTTACTAAAT
1 TA-ATTTACTTAAT
34069427 TAATTT-CTTAAT
1 TAATTTACTTAAT
34069439 TAA
1 TAA
34069442 ATAATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTTACTTAAT
Found at i:34071394 original size:39 final size:39
Alignment explanation
Indices: 34071335--34071424 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
34071325 TATAATAGAT
*
34071335 TATAACAAGATCTAGAATTTGTTGTAGATCCTCAAGTAA
1 TATAACAAGATCTAGAATTTGTTGCAGATCCTCAAGTAA
* *
34071374 TATAACGAGATCT-GACATTTGTTGCAGATCCTCAGGTAA
1 TATAACAAGATCTAGA-ATTTGTTGCAGATCCTCAAGTAA
34071413 TATAACAAGATC
1 TATAACAAGATC
34071425 CAACATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.04
39 44 0.96
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
TATAACAAGATCTAGAATTTGTTGCAGATCCTCAAGTAA
Found at i:34071889 original size:22 final size:23
Alignment explanation
Indices: 34071839--34071890 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
34071829 TTGATGACTT
*
34071839 AAATTACAATTAACCAAATGTCTA
1 AAATAACAATTAACC-AATGTCTA
34071863 AAATAACAATTAGACC-ATGT-TA
1 AAATAACAATTA-ACCAATGTCTA
34071885 AAATAA
1 AAATAA
34071891 ATGTTAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.31
23 4 0.15
24 11 0.42
25 3 0.12
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (23 bp):
AAATAACAATTAACCAATGTCTA
Found at i:34071954 original size:15 final size:15
Alignment explanation
Indices: 34071939--34071967 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34071929 AATTAATTTA
34071939 AAATT-TGTTTAATT
1 AAATTGTGTTTAATT
34071953 AAATTGTGTTTAATT
1 AAATTGTGTTTAATT
34071968 GTTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
AAATTGTGTTTAATT
Found at i:34084866 original size:20 final size:20
Alignment explanation
Indices: 34084841--34084886 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
34084831 ACGTAAGTAT
34084841 GGTTTT-AGGTTAGAAAATAG
1 GGTTTTAAGGTTA-AAAATAG
34084861 GGTTTTAAAAGGTTAAAAATAG
1 GGTTTT--AAGGTTAAAAATAG
34084883 GGTT
1 GGTT
34084887 AAACAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
GGTTTTAAGGTTAAAAATAG
Done.