Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 318 of 335
Found at i:93607806 original size:24 final size:24
Alignment explanation
Indices: 93607750--93607867 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
93607740 GAGGAAGTGC
93607750 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93607774 -AAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
93607797 AAAAGGGCTTACGTCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93607821 -AAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93607844 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93607868 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
23 42 0.52
24 28 0.35
25 11 0.14
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:93607819 original size:47 final size:47
Alignment explanation
Indices: 93607750--93607867 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
93607740 GAGGAAGTGC
*
93607750 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
* * *
93607797 AAAAGGGCTTACGTCCCAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
*
93607844 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
93607868 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 52 0.83
48 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
Found at i:93608093 original size:31 final size:31
Alignment explanation
Indices: 93608058--93608159 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
93608048 CGTTTACAGT
93608058 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
93608089 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
93608127 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
93608158 AA
1 AA
93608160 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
31 31 0.49
33 1 0.02
36 1 0.02
38 30 0.48
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:93608182 original size:38 final size:38
Alignment explanation
Indices: 93608075--93608169 Score: 190
Period size: 38 Copynumber: 2.5 Consensus size: 38
93608065 TCGGCCCAGT
93608075 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
93608113 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
93608151 AATATGAAATATGAAAAGG
1 AATATGAAATATGAAAAGG
93608170 GCTACGACCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:93615858 original size:25 final size:25
Alignment explanation
Indices: 93615826--93615873 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93615816 CTATACCATG
* * *
93615826 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93615851 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
93615874 GTTTAGGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93615941 original size:20 final size:20
Alignment explanation
Indices: 93615916--93615973 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
93615906 TAAATATGGT
93615916 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
93615936 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
93615956 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
93615974 GGGTAATCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:93616081 original size:24 final size:24
Alignment explanation
Indices: 93616025--93616123 Score: 148
Period size: 23 Copynumber: 4.2 Consensus size: 24
93616015 GAGGAAGTGC
*
93616025 AAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93616049 -AAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93616072 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93616096 -AAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93616119 AAAAG
1 AAAAG
93616124 AGGCAAGGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 42 0.63
24 25 0.37
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:93616094 original size:47 final size:47
Alignment explanation
Indices: 93616025--93616123 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
93616015 GAGGAAGTGC
*
93616025 AAAAGGGCTTATACCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
* * *
93616072 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
93616119 AAAAG
1 AAAAG
93616124 AGGCAAGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTGATT
Found at i:93616369 original size:31 final size:31
Alignment explanation
Indices: 93616334--93616397 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
93616324 CGTTTACAGT
93616334 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* *
93616365 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
93616396 AA
1 AA
93616398 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:93618546 original size:17 final size:18
Alignment explanation
Indices: 93618510--93618556 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
93618500 ACATAAATAT
*
93618510 TTTAAATATTGAATTCAA
1 TTTAAATATTTAATTCAA
*
93618528 TTTAAATATTTTA-TCAA
1 TTTAAATATTTAATTCAA
93618545 TTTAAA-ATTTAA
1 TTTAAATATTTAA
93618557 CCCAAAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 11 0.42
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAATATTTAATTCAA
Found at i:93626433 original size:17 final size:15
Alignment explanation
Indices: 93626397--93626426 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93626387 TGTTCTTCTA
93626397 ATCTTTTTTACCAAT
1 ATCTTTTTTACCAAT
93626412 ATCTTTTTTACCAAT
1 ATCTTTTTTACCAAT
93626427 TGTTCTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (15 bp):
ATCTTTTTTACCAAT
Found at i:93627704 original size:25 final size:25
Alignment explanation
Indices: 93627670--93627719 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
93627660 TGCATGTGAT
* *
93627670 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
93627695 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
93627720 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:93632704 original size:25 final size:25
Alignment explanation
Indices: 93632670--93632719 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
93632660 TGCATGTGAT
* *
93632670 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
93632695 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
93632720 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:93634542 original size:26 final size:26
Alignment explanation
Indices: 93634513--93634674 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
93634503 TGATACAAAT
* *
93634513 TGATAATATGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
93634539 TGATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93634565 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93634591 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93634617 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93634643 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93634669 TGATAA
1 TGATAA
93634675 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93636192 original size:26 final size:26
Alignment explanation
Indices: 93636163--93636215 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
93636153 TTTACAGTTT
93636163 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
93636189 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
93636215 T
1 T
93636216 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:93641942 original size:39 final size:39
Alignment explanation
Indices: 93641895--93642114 Score: 291
Period size: 39 Copynumber: 5.6 Consensus size: 39
93641885 AATGTTCGAG
93641895 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
93641934 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
93641972 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
93642011 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
93642050 TGATATCC-GGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
93642089 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
93642115 GTTTGAACGA
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 42 0.26
39 102 0.64
40 15 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:93641984 original size:77 final size:78
Alignment explanation
Indices: 93641894--93642114 Score: 338
Period size: 77 Copynumber: 2.8 Consensus size: 78
93641884 GAATGTTCGA
93641894 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
93641959 AATTGTGC-AATT
66 AATTGTGCAAATT
93641971 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
93642036 AATTGTGCAAATT
66 AATTGTGCAAATT
* ** * ** * *
93642049 GTGATATCC-GGTTAAGTCCCGAAGGCCTTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAG
93642113 GC
64 GC
93642115 GTTTGAACGA
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
77 79 0.59
78 45 0.34
79 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
AATTGTGCAAATT
Found at i:93650001 original size:39 final size:39
Alignment explanation
Indices: 93649947--93650090 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
93649937 GAATGTTCGA
93649947 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
93649986 GTGATATCCGGGCTAAGCCCGAAGTCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93650025 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
93650064 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
93650091 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:93650037 original size:78 final size:79
Alignment explanation
Indices: 93649948--93650130 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
93649938 AATGTTCGAG
*
93649948 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGTC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
93650012 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
93650026 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
93650091 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
93650105 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
93650131 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 54 0.57
79 31 0.33
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:93651708 original size:26 final size:26
Alignment explanation
Indices: 93651672--93651833 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
93651662 TGATACAAAT
* *
93651672 TGATAATAGGTTAGTTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
93651698 TGATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93651724 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93651750 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93651776 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93651802 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93651828 TGATAA
1 TGATAA
93651834 GAATTTCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93661366 original size:13 final size:13
Alignment explanation
Indices: 93661336--93661373 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
93661326 TAAGATTGTA
93661336 AAAAAT-ATAAAT
1 AAAAATAATAAAT
*
93661348 AAAAATAATTAAT
1 AAAAATAATAAAT
*
93661361 AAAAATAAAAAAT
1 AAAAATAATAAAT
93661374 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAATAAAT
Found at i:93661483 original size:15 final size:15
Alignment explanation
Indices: 93661465--93661497 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
93661455 TTGATTTGAA
93661465 TCTGGATAATTTTTG
1 TCTGGATAATTTTTG
93661480 TCTGGATAATTTTTG
1 TCTGGATAATTTTTG
93661495 TCT
1 TCT
93661498 AGGTTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (15 bp):
TCTGGATAATTTTTG
Found at i:93661553 original size:10 final size:10
Alignment explanation
Indices: 93661530--93661586 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
93661520 TTGAATATTG
*
93661530 TAAAAACTATT
1 TAAAAATTA-T
93661541 TAAAAATTAT
1 TAAAAATTAT
*
93661551 TAAAAATGAT
1 TAAAAATTAT
*
93661561 AAAAAATTAT
1 TAAAAATTAT
* *
93661571 GAATAATTAT
1 TAAAAATTAT
93661581 TAAAAA
1 TAAAAA
93661587 ATTAATATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
10 30 0.79
11 8 0.21
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:93661554 original size:21 final size:20
Alignment explanation
Indices: 93661530--93661590 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
93661520 TTGAATATTG
*
93661530 TAAAAACTATTTAAAAATTAT
1 TAAAAA-TATTAAAAAATTAT
93661551 TAAAAATGA-TAAAAAATTAT
1 TAAAAAT-ATTAAAAAATTAT
* *
93661571 GAATAATTATTAAAAAATTA
1 TAA-AAATATTAAAAAATTA
93661591 ATATATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAAATATTAAAAAATTAT
Found at i:93668177 original size:126 final size:126
Alignment explanation
Indices: 93668021--93668260 Score: 417
Period size: 126 Copynumber: 1.9 Consensus size: 126
93668011 TAGCCTTAAA
93668021 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATTCTTC
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATTCTTC
* * *
93668086 GAATTCTTTAAATACCGAACATTTCATTTATTTTGAAAATTTTTTAGAGTGAACTGGTAAG
66 GAATTCTTTAAATACCGAACATTGCATTTATTTTGAAAAATTTTGAGAGTGAACTGGTAAG
* *
93668147 AGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
1 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATTCTTC
* *
93668212 GAATTCTTTAAATATCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 GAATTCTTTAAATACCGAACATTGCATTTATTTTGAAAAATTTTGAGAG
93668261 AAGATCAATG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 107 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
AGGATATTCGAATATTCAAAACAAACAAAGAAAGCAAAACCCAGTACGTTAGGGCACGATTCTTC
GAATTCTTTAAATACCGAACATTGCATTTATTTTGAAAAATTTTGAGAGTGAACTGGTAAG
Found at i:93668376 original size:13 final size:13
Alignment explanation
Indices: 93668343--93668393 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
93668333 CTAACCATAT
* *
93668343 ATAAATAATAAAA
1 ATAATTAATAGAA
93668356 ATAA-TAATA-ATA
1 ATAATTAATAGA-A
*
93668368 GTAATTAATAGAA
1 ATAATTAATAGAA
93668381 ATAATTAATAGAA
1 ATAATTAATAGAA
93668394 CAACAGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
13 22 0.67
14 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
ATAATTAATAGAA
Found at i:93668723 original size:14 final size:14
Alignment explanation
Indices: 93668696--93668734 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
93668686 AAATATATAT
93668696 ATATATACATAATAA
1 ATATATA-ATAATAA
93668711 ATATATAATAATAA
1 ATATATAATAATAA
*
93668725 ATAAATAATA
1 ATATATAATA
93668735 TAATAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATAATAATAA
Found at i:93668737 original size:19 final size:18
Alignment explanation
Indices: 93668686--93668742 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
93668676 TTCGCTTAAA
*
93668686 AAATATATATATATATACAT
1 AAATAAATATATA-ATA-AT
93668706 -AATAAATATATAATAAT
1 AAATAAATATATAATAAT
93668723 AAATAAATAATATAATAAT
1 AAATAAAT-ATATAATAAT
93668742 A
1 A
93668743 TGAAACATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
19 22 0.65
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAAATATATAATAAT
Found at i:93668781 original size:29 final size:29
Alignment explanation
Indices: 93668738--93668842 Score: 72
Period size: 30 Copynumber: 3.5 Consensus size: 29
93668728 AATAATATAA
93668738 TAATATGAAACATAACTCAAATTAATTAAAT
1 TAATA-GAAA-ATAACTCAAATTAATTAAAT
** *
93668769 TAATAGAAAATAA-T-AAAAAAATATAAAAA
1 TAATAGAAAATAACTCAAATTAAT-T-AAAT
* *
93668798 TAATGAGAATAA-AGCTCAAATTAATTAATT
1 TAAT-AGAA-AATAACTCAAATTAATTAAAT
*
93668828 TAACAGTAAAATAAC
1 TAATAG-AAAATAAC
93668843 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 17
0.67 0.12 0.20
Matches are distributed among these distances:
27 6 0.11
28 2 0.04
29 15 0.27
30 18 0.32
31 9 0.16
32 6 0.11
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.28
Consensus pattern (29 bp):
TAATAGAAAATAACTCAAATTAATTAAAT
Found at i:93668783 original size:60 final size:60
Alignment explanation
Indices: 93668717--93668847 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 60
93668707 ATAAATATAT
* *
93668717 AATAATAAATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAAT-AA-AAA-AATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAA
* *
93668777 AATAATAAAAAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
*
93668837 AATAACAAAAA
1 AATAATAAAAA
93668848 TAAAAAAGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
57 12 0.19
58 10 0.16
59 22 0.35
60 18 0.29
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (60 bp):
AATAATAAAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
Found at i:93669200 original size:29 final size:29
Alignment explanation
Indices: 93669167--93669226 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
93669157 GGTGTGGGGC
93669167 TGATGGAGGTAGTGGAT-GGTTTAGTAGGG
1 TGATGGAGGTAGT-GATCGGTTTAGTAGGG
* *
93669196 TGATGGAGTTAGTGATCGGTTTAGTGGGG
1 TGATGGAGGTAGTGATCGGTTTAGTAGGG
93669225 TG
1 TG
93669227 TTTAATTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.18, C:0.02, G:0.47, T:0.33
Consensus pattern (29 bp):
TGATGGAGGTAGTGATCGGTTTAGTAGGG
Found at i:93669697 original size:85 final size:85
Alignment explanation
Indices: 93669463--93669844 Score: 540
Period size: 85 Copynumber: 4.5 Consensus size: 85
93669453 AACGAAGATA
* * * *
93669463 AGATCTG-CAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCGAGTCTTCAACCTGTTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
*
93669527 CACCACTGCTCGAAGAG-CC
66 CACCACTGCTCGACGAGCCC
* *
93669546 AGGATCTGTAAATTTTAGCCTGTTA--CTACTGCTTAGGAGGTTAAGGCGAGTCTTTGACCTGCT
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
**
93669609 CCACCACTGCTCGGTGAGCCC
65 CCACCACTGCTCGACGAGCCC
* * * *
93669630 A-AGTCTGTAAACTTTAGCCTCTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTCGACCTGTT
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
93669694 CCACCACTGCTCGACGAGCCC
65 CCACCACTGCTCGACGAGCCC
* * *
93669715 AGATCTGTAAATTTTAGCCTGTTACCCTGCTGCTTAGAGGGTTAAGGCGAGTCTTCGACCTACTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
** *
93669780 TGCCACTGCTCGGCGAGCCC
66 CACCACTGCTCGACGAGCCC
93669800 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
93669845 AGCGTGTATC
Statistics
Matches: 264, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
82 1 0.00
83 69 0.26
84 9 0.03
85 184 0.70
86 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTGCTCGACGAGCCC
Found at i:93669914 original size:87 final size:87
Alignment explanation
Indices: 93669819--93670020 Score: 332
Period size: 87 Copynumber: 2.3 Consensus size: 87
93669809 AATTTTAGCC
* * * *
93669819 TGTTACCCTACTGCTTAGGGGGTTAAAGCGTGTATCTTTGATTTGCTCCAATATTACTTAGGGAG
1 TGTTACCCTATTGCTTAGGGAGTTAAAGCATGTATCTTTGATCTGCTCCAATATTACTTAGGGAG
93669884 ATAAGATCTATAATCTTCAGCT
66 ATAAGATCTATAATCTTCAGCT
* *
93669906 TGTTACCCTATTGCTTAAGGAGTTAAAGCATGTATCTTTGATCTGCTCCACTATTACTTAGGGAG
1 TGTTACCCTATTGCTTAGGGAGTTAAAGCATGTATCTTTGATCTGCTCCAATATTACTTAGGGAG
* *
93669971 ATAAGATCTATAATTTTTAGCT
66 ATAAGATCTATAATCTTCAGCT
93669993 TGTTACCCTATTGCTTAGGGAGTTAAAG
1 TGTTACCCTATTGCTTAGGGAGTTAAAG
93670021 GCTGCTGAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 106 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (87 bp):
TGTTACCCTATTGCTTAGGGAGTTAAAGCATGTATCTTTGATCTGCTCCAATATTACTTAGGGAG
ATAAGATCTATAATCTTCAGCT
Found at i:93677793 original size:21 final size:21
Alignment explanation
Indices: 93677767--93677811 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
93677757 ATTGGCTCAT
93677767 CATGTTGTTCT-GTGACTCCAG
1 CATGTTGTTCTAG-GACTCCAG
*
93677788 CATGTTTTTCTAGGACTCCAG
1 CATGTTGTTCTAGGACTCCAG
93677809 CAT
1 CAT
93677812 TTGATCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTAGGACTCCAG
Found at i:93681461 original size:125 final size:125
Alignment explanation
Indices: 93681240--93681471 Score: 403
Period size: 125 Copynumber: 1.9 Consensus size: 125
93681230 GTTTTAGCCT
93681240 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGGAAACCCAATACGTTAGGGCACGATTC
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGGAAACCCAATACGTTAGGGCACGATTC
*
93681305 TTCAAATTCTTTAAATACCGAGCATTGCCTTTATTTT-AAAATTTTTTAGAGTGAACTGG
66 TTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
* *
93681364 TAAGAGGGTATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAATACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAG-GAAACCCAATACGTTAGGGCACGATT
**
93681429 CTTTGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAA
65 CTTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAA
93681472 AATTTGAGAG
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
124 36 0.36
125 61 0.60
126 4 0.04
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGGAAACCCAATACGTTAGGGCACGATTC
TTCAAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
Found at i:93681596 original size:13 final size:13
Alignment explanation
Indices: 93681563--93681613 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
93681553 CTAACCATAT
* *
93681563 ATAAATAATAAAA
1 ATAATTAATAGAA
93681576 ATAA-TAATA-ATA
1 ATAATTAATAGA-A
*
93681588 GTAATTAATAGAA
1 ATAATTAATAGAA
93681601 ATAATTAATAGAA
1 ATAATTAATAGAA
93681614 CAACAGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 9 0.27
13 22 0.67
14 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
ATAATTAATAGAA
Found at i:93681940 original size:14 final size:14
Alignment explanation
Indices: 93681921--93681951 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93681911 ATATATTTAC
*
93681921 ATAATAAATATATA
1 ATAATAAATAAATA
93681935 ATAATAAATAAATA
1 ATAATAAATAAATA
93681949 ATA
1 ATA
93681952 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:93681952 original size:19 final size:18
Alignment explanation
Indices: 93681923--93681959 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
93681913 ATATTTACAT
93681923 AATAAATATATAATAATA
1 AATAAATATATAATAATA
93681941 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
93681960 TGGAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:93682037 original size:63 final size:64
Alignment explanation
Indices: 93681932--93682072 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 64
93681922 TAATAAATAT
*
93681932 ATAATAATAAATAAATAATATAATAATATGGAACATAACTCAAATTAATTAAATTAATAG-AAA
1 ATAATAATAAATAAATAATATAATAATATGGAACATAACTCAAATTAATTAAATTAACAGTAAA
* *
93681995 ATAATAATAAA-AACA-AATATAA-AATAATGAGAATA-AAGCTCAAATTAATTAATTTAACAGT
1 ATAATAATAAATAA-ATAATATAATAAT-ATG-GAACATAA-CTCAAATTAATTAAATTAACAGT
93682056 AAA
62 AAA
*
93682059 ATAACAA-AAATAAA
1 ATAATAATAAATAAA
93682073 AAAGGGGTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
61 3 0.04
62 14 0.21
63 40 0.59
64 11 0.16
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (64 bp):
ATAATAATAAATAAATAATATAATAATATGGAACATAACTCAAATTAATTAAATTAACAGTAAA
Found at i:93682371 original size:18 final size:18
Alignment explanation
Indices: 93682348--93682383 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93682338 ATAACAAGTA
*
93682348 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
93682366 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
93682384 ATGGTTTAGT
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:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:93682399 original size:29 final size:29
Alignment explanation
Indices: 93682366--93682428 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
93682356 GAGTTAGTGG
*
93682366 GGGTGATGGAGGTAGTGGA-TGGTTTAGTA
1 GGGTGATGGAGGTAGT-GATTGATTTAGTA
* *
93682395 GGGTGATGGAGTTAGTGATTGATTTAGTG
1 GGGTGATGGAGGTAGTGATTGATTTAGTA
93682424 GGGTG
1 GGGTG
93682429 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGATTGATTTAGTA
Found at i:93683071 original size:36 final size:38
Alignment explanation
Indices: 93683026--93683104 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 38
93683016 AATCTTTAAG
*
93683026 GATATGCAATCTTAGTTATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
93683062 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
93683102 GAT
1 GAT
93683105 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:93683073 original size:19 final size:19
Alignment explanation
Indices: 93683026--93683104 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
93683016 AATCTTTAAG
*
93683026 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
93683045 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93683062 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93683081 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
93683102 GAT
1 GAT
93683105 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 16 0.29
19 30 0.55
21 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:93688894 original size:10 final size:10
Alignment explanation
Indices: 93688879--93688934 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
93688869 ATTTCAAAAA
93688879 AAAAATAAAG
1 AAAAATAAAG
93688889 AAAAATAAA-
1 AAAAATAAAG
93688898 AAATAATAATA-
1 AAA-AATAA-AG
*
93688909 AAAAGAAAAAG
1 AAAA-ATAAAG
93688920 AAAAA-AAAG
1 AAAAATAAAG
93688929 AAAAAT
1 AAAAAT
93688935 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 12 0.30
10 17 0.43
11 11 0.28
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAAATAAAG
Found at i:93689885 original size:44 final size:44
Alignment explanation
Indices: 93689818--93690274 Score: 317
Period size: 44 Copynumber: 10.4 Consensus size: 44
93689808 CAAAGAAACA
*
93689818 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
93689862 AGATCTGACATTCTTGTGCTTATAGTGAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
93689907 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
93689950 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
93689994 AGATCTGACA-CTCCTGTGCTTACAGTGAAGCAGATCGAGGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
93690039 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATTGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
93690082 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
93690126 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * * *
93690171 AG--CATGGCATCCCTCTGTTTATAGAGAACA-AGTTGAAGATAGT
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * * * * * *
93690214 AGATTTCGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACC
1 AGATCTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAGC
* *
93690258 AGATTTGGCATCTCTGT
1 AGATCTGGCATCCCTGT
93690275 ATTGGCGGAG
Statistics
Matches: 319, Mismatches: 71, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.01
43 39 0.12
44 229 0.72
45 48 0.15
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:93690055 original size:132 final size:132
Alignment explanation
Indices: 93689818--93690261 Score: 701
Period size: 132 Copynumber: 3.4 Consensus size: 132
93689808 CAAAGAAACA
* * *
93689818 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
93689883 ATAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
93689948 GC
131 GC
*
93689950 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
93690015 ACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
66 ACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
93690080 GC
131 GC
*
93690082 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCAAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * *
93690147 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTCTGTTTATAGAGAACAAGTTGAAGATA
66 ACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
93690212 GT
131 GC
* * * * * * *
93690214 AGATTTCGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
93690262 TTGGCATCTC
Statistics
Matches: 289, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 288 1.00
133 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:93690275 original size:44 final size:44
Alignment explanation
Indices: 93690205--93690297 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
93690195 AGAACAAGTT
** *
93690205 GAAGATAGTAGATTTCGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTCGCATCTCTGTATTGGCAGAGAGCAGATC
* *
93690249 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTTCGCATCTCTGTATTGGCAGAGAGCAGATC
93690293 GAAGA
1 GAAGA
93690298 CATAGCTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTTCGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:93690616 original size:205 final size:205
Alignment explanation
Indices: 93690284--93690998 Score: 1173
Period size: 205 Copynumber: 3.5 Consensus size: 205
93690274 TATTGGCGGA
* * *
93690284 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* * * * *
93690349 TTGGCATCTCTGTATTGTTAGAGAATAAATCGAAGTCTGGCATCTCCACTTCGACTGAGGGCAGA
66 TTGGCATCTCTGTATAGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCGACGGAGGGCAGA
93690414 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
93690479 TGCTTACAAG
196 TGCTTACAAG
* * * *
93690489 AAGCAAATCAAAGACATAGCTGATTTGGCTTTCATGTGCTTACGTTGAAACAAATCTATGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* *
93690554 TTGGCATCTCTGTATAGTCAGAGAACAAACCAAAGTCTGGCATCTCTACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATAGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCGACGGAGGGCAGA
* *
93690619 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAATATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
93690684 TGCTTACAAG
196 TGCTTACAAG
* *
93690694 GAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* * * *
93690759 TTGGCATCTCTGTATTA-TCAGAGACCAAATTGAAGTTTAGCATCTCTACTTCGACGGAGGGCAG
66 TTGGCATCTCTGTA-TAGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCGACGGAGGGCAG
*
93690823 ACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
130 ACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTT
93690888 GTGCTTACAAG
195 GTGCTTACAAG
93690899 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTT-AAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATGA
* *
93690963 TTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
65 TTTGGCATCTCTGTATAGTCAGAGAACAAATCGAAG
93690999 AAGCAGATTT
Statistics
Matches: 470, Mismatches: 37, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
204 3 0.01
205 465 0.99
206 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
TTGGCATCTCTGTATAGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:93691149 original size:45 final size:45
Alignment explanation
Indices: 93691092--93691183 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
93691082 AAAGAAGCAA
* *
93691092 ATTTAGCGTCTCTGTATTAGACAGGG-AGCAGATCGAAGATAACAG
1 ATTTAGCGTCTCTGTATTAG-CAGGGAAACAGATCAAAGATAACAG
* * *
93691137 ATTTGGCGTCTCTGTATTAGCCGGGAAACAGATCAAAGATAGCAG
1 ATTTAGCGTCTCTGTATTAGCAGGGAAACAGATCAAAGATAACAG
93691182 AT
1 AT
93691184 ATCGCCTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 4 0.10
45 37 0.90
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
ATTTAGCGTCTCTGTATTAGCAGGGAAACAGATCAAAGATAACAG
Found at i:93691569 original size:36 final size:36
Alignment explanation
Indices: 93691529--93691616 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
93691519 ATGGAAATAT
93691529 AATCTTTAAGGATATG-T-AATCTTAGATATGACATGC
1 AATCTTT-A-GATATGATAAATCTTAGATATGACATGC
*
93691565 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATGATA-AATCTTAGATATGACATGC
93691601 AATC-TTAGATATGATA
1 AATCTTTAGATATGATA
93691617 TGCAATCTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
33 6 0.12
34 2 0.04
35 2 0.04
36 38 0.79
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAGATATGATAAATCTTAGATATGACATGC
Found at i:93691570 original size:19 final size:19
Alignment explanation
Indices: 93691539--93691636 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
93691529 AATCTTTAAG
*
93691539 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
93691558 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93691577 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93691594 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93691613 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
93691634 GAT
1 GAT
93691637 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.24
19 46 0.64
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:93692049 original size:16 final size:15
Alignment explanation
Indices: 93692021--93692072 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
93692011 TCTATGCATG
93692021 TATATAT-ATTATAT
1 TATATATCATTATAT
93692035 TATATATCATGTATAT
1 TATATATCAT-TATAT
93692051 CGTATATCATCTATTATAT
1 --TATAT-ATC-ATTATAT
93692070 TAT
1 TAT
93692073 TTATGTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (15 bp):
TATATATCATTATAT
Found at i:93692378 original size:8 final size:8
Alignment explanation
Indices: 93692365--93692391 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
93692355 TAATTATTAC
93692365 TTTGTATG
1 TTTGTATG
93692373 TTTGTATG
1 TTTGTATG
93692381 TTTGTATG
1 TTTGTATG
93692389 TTT
1 TTT
93692392 TGCTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (8 bp):
TTTGTATG
Found at i:93694659 original size:27 final size:27
Alignment explanation
Indices: 93694629--93694685 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
93694619 TCTCGAGAAA
93694629 TTGTTCATTTATATGAATTGAAATAAT
1 TTGTTCATTTATATGAATTGAAATAAT
93694656 TTGTTCATTTATATGAATTGAAATAAT
1 TTGTTCATTTATATGAATTGAAATAAT
93694683 TTG
1 TTG
93694686 AACATATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (27 bp):
TTGTTCATTTATATGAATTGAAATAAT
Found at i:93694692 original size:23 final size:25
Alignment explanation
Indices: 93694639--93694693 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
93694629 TTGTTCATTT
**
93694639 ATATGAATTGAAATAATTTGTTCATTT
1 ATATGAATTGAAATAATTTG-T-ATAC
93694666 ATATGAATTGAAATAATTTG-A-AC
1 ATATGAATTGAAATAATTTGTATAC
93694689 ATATG
1 ATATG
93694694 TGGTAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 5 0.19
24 1 0.04
27 20 0.77
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (25 bp):
ATATGAATTGAAATAATTTGTATAC
Found at i:93698805 original size:28 final size:28
Alignment explanation
Indices: 93698769--93698823 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
93698759 AAGTACTGAA
*
93698769 AGCGTGTCCAACTAGAAGCATTTTTTGT
1 AGCGCGTCCAACTAGAAGCATTTTTTGT
*
93698797 AGCGCGTCCAACTAGAAGCGTTTTTTG
1 AGCGCGTCCAACTAGAAGCATTTTTTG
93698824 CTAGGTTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (28 bp):
AGCGCGTCCAACTAGAAGCATTTTTTGT
Found at i:93702197 original size:16 final size:17
Alignment explanation
Indices: 93702162--93702213 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
93702152 ATATAAATTT
* *
93702162 TTATATTGTTATTTGT-
1 TTATATAGTTATTTATA
93702178 TTATATAGTTATTT-TA
1 TTATATAGTTATTTATA
*
93702194 TTATGTA-TTATTTATA
1 TTATATAGTTATTTATA
93702210 TTAT
1 TTAT
93702214 TATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (17 bp):
TTATATAGTTATTTATA
Found at i:93702205 original size:3 final size:3
Alignment explanation
Indices: 93702186--93702272 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
93702176 GTTTATATAG
* *
93702186 TTA TT- TTA TTA TGTA TTA TT- TATA TTA TTA TTA TTA TTT TTCA CTAA
1 TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TT-A -TTA
* *
93702233 TTA TTA TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA T
93702273 ATTTTACTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
2 6 0.09
3 48 0.73
4 11 0.17
5 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:93702206 original size:15 final size:15
Alignment explanation
Indices: 93702129--93702316 Score: 74
Period size: 13 Copynumber: 12.1 Consensus size: 15
93702119 CTATATATAT
*
93702129 TTATTTCTATTATTA
1 TTATTTATATTATTA
* *
93702144 TTATATATA-TATAAA
1 TTATTTATATTAT-TA
*
93702159 TT-TTTATATTGTTA
1 TTATTTATATTATTA
*
93702173 TTTGTTTATA-TAGTTA
1 -TTATTTATATTA-TTA
93702189 -T-TTTATTATGTATTA
1 TTATTTA-TAT-TATTA
93702204 TTTATATTATTATTATTA
1 -TTAT-TTA-TATTATTA
93702222 TT-TTTCACTAATTATTA
1 TTATTT-A-T-ATTATTA
*
93702239 TTATTT-TA-CATTA
1 TTATTTATATTATTA
93702252 TTATTTATA-TATTA
1 TTATTTATATTATTA
*
93702266 TT-GTTATATT-TTA
1 TTATTTATATTATTA
93702279 CTTGTATTATATATTTATTAA
1 --T-TATT-TATA-TTATT-A
93702300 TTATTTATATGTATTA
1 TTATTTATAT-TATTA
93702316 T
1 T
93702317 ATATATTCAC
Statistics
Matches: 135, Mismatches: 12, Indels: 51
0.68 0.06 0.26
Matches are distributed among these distances:
13 22 0.16
14 22 0.16
15 22 0.16
16 18 0.13
17 21 0.16
18 17 0.13
19 10 0.07
20 2 0.01
21 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATTTATATTATTA
Found at i:93702220 original size:30 final size:29
Alignment explanation
Indices: 93702129--93702323 Score: 96
Period size: 28 Copynumber: 6.9 Consensus size: 29
93702119 CTATATATAT
*
93702129 TTATTTCTATTATTATTATATATA-TATAA
1 TTATTT-TATTATTATTATATATATTATTA
* * * *
93702158 AT-TTTTA-TATTGTTATTTGT-TTATATA
1 TTATTTTATTATTATTATATATATTAT-TA
*
93702185 GTTATTTTATTATGTATTATTTATATTATTA
1 -TTATTTTATTAT-TATTATATATATTATTA
* *
93702216 TTA--TTATT-TT-TCA-CTA-ATTATTA
1 TTATTTTATTATTATTATATATATTATTA
*
93702239 TTATTTTACATTATTATT-TATATATTATTGT
1 TTATTTT--ATTATTATTATATATATTATT-A
*
93702270 TATATTTTACTT-GTATTATATAT-TTATTAA
1 T-TATTTTA-TTATTATTATATATATTATT-A
93702300 TTA-TTTA-TATGTATTATATATATT
1 TTATTTTATTAT-TATTATATATATT
93702324 CACATATATA
Statistics
Matches: 127, Mismatches: 17, Indels: 44
0.68 0.09 0.23
Matches are distributed among these distances:
23 10 0.08
24 2 0.02
25 4 0.03
26 15 0.12
27 7 0.06
28 25 0.20
29 13 0.10
30 23 0.18
31 18 0.14
32 10 0.08
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (29 bp):
TTATTTTATTATTATTATATATATTATTA
Found at i:93702259 original size:20 final size:19
Alignment explanation
Indices: 93702191--93702256 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
93702181 TATAGTTATT
*
93702191 TTATTATGTATTA-TTTATA
1 TTATTAT-TATTATTTTACA
*
93702210 TTATTATTATTATTTTTCA
1 TTATTATTATTATTTTACA
*
93702229 CTAATTATTATTATTTTACA
1 -TTATTATTATTATTTTACA
93702249 TTATTATT
1 TTATTATT
93702257 TATATATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.12
19 18 0.45
20 17 0.43
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATTTTACA
Found at i:93702396 original size:18 final size:19
Alignment explanation
Indices: 93702342--93702415 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 19
93702332 TACTTTCATA
* *
93702342 TTATA-TATTATAATTATT
1 TTATACTATTATCATTTTT
*
93702360 TTATATTATTATGTCATTTTT
1 TTATACTATTA--TCATTTTT
93702381 TTATACTATTAT-ATTTTT
1 TTATACTATTATCATTTTT
93702399 TTAT-CTTATTATCATTT
1 TTATAC-TATTATCATTT
93702416 AAGTTTTAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
17 1 0.02
18 21 0.44
19 10 0.21
21 16 0.33
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
TTATACTATTATCATTTTT
Found at i:93702715 original size:17 final size:17
Alignment explanation
Indices: 93702658--93702715 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
93702648 TCTAAACCAT
*
93702658 TATATTTTATATTTTTA
1 TATATTATATATTTTTA
*
93702675 TATAATTAT-TATTCTTA
1 TAT-ATTATATATTTTTA
93702692 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
93702706 TATATTATAT
1 TATATTATAT
93702716 CATTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 2 0.06
17 16 0.48
18 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:93704721 original size:33 final size:33
Alignment explanation
Indices: 93704679--93704751 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
93704669 TTAAACCTAA
*
93704679 TTTT-AACTAGTTTTAAACATCAAAACCTTCTT
1 TTTTAAACTAGTTTTAAACATCAAAACCCTCTT
*
93704711 TTTTAAACTAGTTTTAAACGTCAAAACCCTCTT
1 TTTTAAACTAGTTTTAAACATCAAAACCCTCTT
93704744 TTTTAAAC
1 TTTTAAAC
93704752 ATAATAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 4 0.11
33 34 0.89
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.42
Consensus pattern (33 bp):
TTTTAAACTAGTTTTAAACATCAAAACCCTCTT
Found at i:93709319 original size:15 final size:14
Alignment explanation
Indices: 93709289--93709315 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93709279 AAAATGTGTT
93709289 TTTTTTAATATTTA
1 TTTTTTAATATTTA
93709303 TTTTTTAATATTT
1 TTTTTTAATATTT
93709316 TATTATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:93709588 original size:39 final size:37
Alignment explanation
Indices: 93709530--93709614 Score: 136
Period size: 39 Copynumber: 2.3 Consensus size: 37
93709520 TGCCGTCAAA
*
93709530 TAATGTAAC-TTATTTAATCACAAAAGGATATTTTTG
1 TAATGTAACGTTATTTAATCACAAAAAGATATTTTTG
93709566 TAATGTAACGTCTCATTTAATCACAAAAAGATATTTTTG
1 TAATGTAACGT-T-ATTTAATCACAAAAAGATATTTTTG
93709605 TAATGTAACG
1 TAATGTAACG
93709615 CCTCGAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 9 0.20
37 1 0.02
38 1 0.02
39 34 0.76
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (37 bp):
TAATGTAACGTTATTTAATCACAAAAAGATATTTTTG
Found at i:93712375 original size:19 final size:19
Alignment explanation
Indices: 93712353--93712400 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
93712343 AAATAATTAT
*
93712353 TAAAAAACTAAAAGATATA
1 TAAAAAACTAAAAAATATA
93712372 TAAAAAAACTTAAAAAATATA
1 T-AAAAAAC-TAAAAAATATA
93712393 -AAAAAACT
1 TAAAAAACT
93712401 CTAAACTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 7 0.27
21 10 0.38
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
TAAAAAACTAAAAAATATA
Found at i:93712385 original size:21 final size:19
Alignment explanation
Indices: 93712354--93712405 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 19
93712344 AATAATTATT
93712354 AAAAAAC-TAAAAGATATATA
1 AAAAAACTTAAAA-A-ATATA
93712374 AAAAAACTTAAAAAATATA
1 AAAAAACTTAAAAAATATA
93712393 AAAAAACTCTAAA
1 AAAAAACT-TAAA
93712406 CTCTACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.43
20 12 0.40
21 5 0.17
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAAACTTAAAAAATATA
Found at i:93713156 original size:26 final size:24
Alignment explanation
Indices: 93713126--93713175 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
93713116 AAATAAAAAA
*
93713126 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
93713152 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
93713176 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:93713195 original size:21 final size:21
Alignment explanation
Indices: 93713146--93713204 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
93713136 ATAATAAATC
*
93713146 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
93713166 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
93713188 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
93713205 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:93717078 original size:14 final size:14
Alignment explanation
Indices: 93717061--93717088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93717051 TAAATTTGAT
93717061 TAAATAAAATAAAA
1 TAAATAAAATAAAA
93717075 TAAATAAAATAAAA
1 TAAATAAAATAAAA
93717089 ATCGAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:93718199 original size:19 final size:19
Alignment explanation
Indices: 93718177--93718237 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
93718167 TTAAAATCTT
93718177 AATTTTTAAAAAAAATATA
1 AATTTTTAAAAAAAATATA
* * *
93718196 AATTTGTAAAAACATTATTA
1 AATTTTTAAAAAAAATA-TA
* * *
93718216 AAATATTAAATAAAATATA
1 AATTTTTAAAAAAAATATA
93718235 AAT
1 AAT
93718238 AGCTACTATT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTTTTAAAAAAAATATA
Found at i:93719924 original size:28 final size:28
Alignment explanation
Indices: 93719888--93719943 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
93719878 ACCCATGTAA
* * *
93719888 TTTTTGTCCATTTTGGTAATTGTACTTG
1 TTTTGGTCCATTTTCGTAATTGAACTTG
* *
93719916 TTTTGGTCCCTTTTCGTACTTGAACTTG
1 TTTTGGTCCATTTTCGTAATTGAACTTG
93719944 ACAAATTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.12, C:0.16, G:0.18, T:0.54
Consensus pattern (28 bp):
TTTTGGTCCATTTTCGTAATTGAACTTG
Found at i:93730692 original size:29 final size:27
Alignment explanation
Indices: 93730636--93730692 Score: 62
Period size: 29 Copynumber: 2.0 Consensus size: 27
93730626 AACACTCATG
*
93730636 TGATTAATGTGTAAATATTCATGGAAGA
1 TGATTAATGTGTAAATATACAT-GAAGA
93730664 TGATTAAATGTGTAAAATATGACAT-AAGA
1 TGATT-AATGTGT-AAATAT-ACATGAAGA
93730693 GTAGGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 6 0.24
31 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (27 bp):
TGATTAATGTGTAAATATACATGAAGA
Found at i:93751521 original size:125 final size:124
Alignment explanation
Indices: 93751167--93751547 Score: 416
Period size: 125 Copynumber: 3.1 Consensus size: 124
93751157 CTATTGCGAT
* * * * * *
93751167 GTTTTTAACCTAGC-ACTGCTAATGCCA-TAAAAATACCATTAAAAACGA-TGCCGTTTTGTTTA
1 GTTTTTCACCTAGCGCCAGCTAATGCCACTATAAATGCCACTAAAAACGACT-CCGTTTTGTTTA
* * * * * * *
93751229 AAGTAAAATGATTTTTTATGGCATTTTTATGAAAAAAGCCTCTATTGTAGACTTTTTGCGGA
65 AAGTAAAATTATTTTTTACGGCATTTTTAT-AAAAAAGCCGCTATTCT-TACCTTTTGCGGC
* * *
93751291 GTTTTTCACCTAGCGCCA-CTAATGCCACTATAAACGCCACTAAAAACGGCGCCGTTTTGTTTAA
1 GTTTTTCACCTAGCGCCAGCTAATGCCACTATAAATGCCACTAAAAACGACTCCGTTTTGTTTAA
* * * *
93751355 AGTAAAATTA-TTTTTGCGGCTTTTTTTATAAAAAATGCCGCTATTACTTACCTATTGCAGC
66 AGTAAAATTATTTTTTACGGC-ATTTTTATAAAAAA-GCCGCTATT-CTTACCTTTTGCGGC
* * *
93751416 GTTTTTCACTTAGCG-CAGCTAATGCCACTATAAATGCCACTAAAAATGACTCTGTTTTGTTTAA
1 GTTTTTCACCTAGCGCCAGCTAATGCCACTATAAATGCCACTAAAAACGACTCCGTTTTGTTTAA
*
93751480 AGTAAAATTATTTTTTACGGCATTTTTGATAAAAACA-CCGCTATTGCTTACCTTTTGTGGC
66 AGTAAAATTATTTTTTACGGCATTTTT-ATAAAAA-AGCCGCTATT-CTTACCTTTTGCGGC
93751541 GTTTTTC
1 GTTTTTC
93751548 TCATAAATGC
Statistics
Matches: 215, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
124 38 0.18
125 159 0.74
126 17 0.08
127 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (124 bp):
GTTTTTCACCTAGCGCCAGCTAATGCCACTATAAATGCCACTAAAAACGACTCCGTTTTGTTTAA
AGTAAAATTATTTTTTACGGCATTTTTATAAAAAAGCCGCTATTCTTACCTTTTGCGGC
Found at i:93752709 original size:21 final size:21
Alignment explanation
Indices: 93752679--93752727 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
93752669 TAACAGAACC
*
93752679 GCTGATGTGGCAAATTAACTA
1 GCTGACGTGGCAAATTAACTA
* * *
93752700 GCTGACGTGGCTAGTTAACTT
1 GCTGACGTGGCAAATTAACTA
93752721 GCT-ACGT
1 GCTGACGT
93752728 TGGATGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (21 bp):
GCTGACGTGGCAAATTAACTA
Found at i:93752778 original size:3 final size:3
Alignment explanation
Indices: 93752770--93752824 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
93752760 CCCTTTAACA
* * * * *
93752770 AAG AAG AAG AAG AAG TAG CAG AAG AAG AAG AAG AAG AAA AAG CAG CAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
93752818 AAG AAG A
1 AAG AAG A
93752825 TTAAAGAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.62, C:0.05, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:93752802 original size:24 final size:24
Alignment explanation
Indices: 93752770--93752824 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
93752760 CCCTTTAACA
**
93752770 AAGAAGAAGAAGAAGTAGCAGAAG
1 AAGAAGAAGAAGAAAAAGCAGAAG
*
93752794 AAGAAGAAGAAGAAAAAGCAGCAG
1 AAGAAGAAGAAGAAAAAGCAGAAG
93752818 AAGAAGA
1 AAGAAGA
93752825 TTAAAGAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.05, G:0.31, T:0.02
Consensus pattern (24 bp):
AAGAAGAAGAAGAAAAAGCAGAAG
Found at i:93753736 original size:21 final size:20
Alignment explanation
Indices: 93753712--93753754 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
93753702 ACGTGCCAAC
*
93753712 TTAACTGGCCACGTCAGCTGG
1 TTAACTGGCCACATCAG-TGG
*
93753733 TTAACTTGCCACATCAGTGG
1 TTAACTGGCCACATCAGTGG
93753753 TT
1 TT
93753755 CTGTTAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (20 bp):
TTAACTGGCCACATCAGTGG
Found at i:93753852 original size:30 final size:31
Alignment explanation
Indices: 93753781--93753844 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
93753771 GGAAACAGTT
*
93753781 AGTTAGTGACTGTTTTGTCACTTTTTTATAA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
* *
93753812 CGTTAGTGACTGTTTTGTTA-TTTTTCA-AA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
93753841 AGTT
1 AGTT
93753845 GGGTGACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 6 0.21
31 18 0.62
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (31 bp):
AGTTAGTGACTGTTTTGTCACTTTTTCATAA
Found at i:93754044 original size:15 final size:14
Alignment explanation
Indices: 93754024--93754115 Score: 71
Period size: 15 Copynumber: 6.4 Consensus size: 14
93754014 ATCAAAACCC
*
93754024 CTAACCCTTAAACA
1 CTAAACCTTAAACA
*
93754038 CTAAACCATAGAAC-
1 CTAAACCTTA-AACA
*
93754052 CTTAAACCTTAAAATA
1 C-TAAACCTT-AAACA
*
93754068 CTAAACCATAAAC-
1 CTAAACCTTAAACA
*
93754081 CATAAATCTTAAACA
1 C-TAAACCTTAAACA
*
93754096 CTAAACTCTAAAACA
1 CTAAAC-CTTAAACA
93754111 CTAAA
1 CTAAA
93754116 TCCCAACCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.02
14 26 0.43
15 32 0.52
16 2 0.03
ACGTcount: A:0.51, C:0.26, G:0.01, T:0.22
Consensus pattern (14 bp):
CTAAACCTTAAACA
Found at i:93754079 original size:7 final size:7
Alignment explanation
Indices: 93754039--93754213 Score: 54
Period size: 7 Copynumber: 24.6 Consensus size: 7
93754029 CCTTAAACAC
93754039 TAAACCA
1 TAAACCA
*
93754046 TAGAACCT
1 TA-AACCA
*
93754054 TAAACCT
1 TAAACCA
**
93754061 TAAAATA
1 TAAACCA
93754068 CTAAACCA
1 -TAAACCA
93754076 TAAACCA
1 TAAACCA
* *
93754083 TAAATCT
1 TAAACCA
93754090 TAAA-CA
1 TAAACCA
93754096 CTAAACTC-
1 -TAAAC-CA
*
93754104 TAAAACA
1 TAAACCA
93754111 CTAAATCC-
1 -TAAA-CCA
* * *
93754119 CAACCCT
1 TAAACCA
*
93754126 TAAAACA
1 TAAACCA
93754133 TAAA-CA
1 TAAACCA
*
93754139 GTAAACCC
1 -TAAACCA
* *
93754147 TAAGCTA
1 TAAACCA
**
93754154 TAAACTG
1 TAAACCA
*
93754161 TAAAACA
1 TAAACCA
*
93754168 CTTAACCA
1 -TAAACCA
93754176 TAAACCA
1 TAAACCA
93754183 TAAACCA
1 TAAACCA
*
93754190 TAAACTA
1 TAAACCA
*
93754197 TAAA-GA
1 TAAACCA
*
93754203 TAAACCC
1 TAAACCA
93754210 TAAA
1 TAAA
93754214 ATATTTTTTT
Statistics
Matches: 122, Mismatches: 33, Indels: 26
0.67 0.18 0.14
Matches are distributed among these distances:
6 11 0.09
7 88 0.72
8 21 0.17
9 2 0.02
ACGTcount: A:0.52, C:0.25, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:93754081 original size:29 final size:29
Alignment explanation
Indices: 93754029--93754101 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
93754019 AACCCCTAAC
*
93754029 CCTTAAACACTAAACCATAGAACCTTAAA
1 CCTTAAACACTAAACCATAGAACCATAAA
*
93754058 CCTTAAAATACTAAACCATA-AACCATAAA
1 CCTT-AAACACTAAACCATAGAACCATAAA
*
93754087 TCTTAAACACTAAAC
1 CCTTAAACACTAAAC
93754102 TCTAAAACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 10 0.26
29 15 0.38
30 14 0.36
ACGTcount: A:0.51, C:0.26, G:0.01, T:0.22
Consensus pattern (29 bp):
CCTTAAACACTAAACCATAGAACCATAAA
Found at i:93754285 original size:41 final size:41
Alignment explanation
Indices: 93754240--93754370 Score: 106
Period size: 41 Copynumber: 3.2 Consensus size: 41
93754230 TTTGCTGCAA
*
93754240 TTTTCTCACAAATACCGCT-ACTGCATGACCTTTTGTGGCAT
1 TTTTCTCACAAACACCG-TAACTGCATGACCTTTTGTGGCAT
* * * **
93754281 TTTTCTCACAAACGCCGTAATTGCTTGACCTTTTGTGGTGT
1 TTTTCTCACAAACACCGTAACTGCATGACCTTTTGTGGCAT
* * * * * *
93754322 TTTTATCATAAACGCTGTTAA-TG-ATTAACCTTTTGCGGCAT
1 TTTTCTCACAAACACCG-TAACTGCA-TGACCTTTTGTGGCAT
93754363 TTTTCTCA
1 TTTTCTCA
93754371 TAAATGCTGC
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
41 68 0.94
42 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (41 bp):
TTTTCTCACAAACACCGTAACTGCATGACCTTTTGTGGCAT
Found at i:93754372 original size:41 final size:41
Alignment explanation
Indices: 93754267--93754379 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
93754257 CTACTGCATG
* * * *
93754267 ACCTTTTGTGGCATTTTTCTCACAAACGCCGTAATTGCTTG
1 ACCTTTTGTGGCATTTTTCTCATAAACGCTGTAATTGATTA
** *
93754308 ACCTTTTGTGGTGTTTTTATCATAAACGCTGTTAA-TGATTA
1 ACCTTTTGTGGCATTTTTCTCATAAACGCTG-TAATTGATTA
* *
93754349 ACCTTTTGCGGCATTTTTCTCATAAATGCTG
1 ACCTTTTGTGGCATTTTTCTCATAAACGCTG
93754380 CTATAGCTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 56 0.95
42 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (41 bp):
ACCTTTTGTGGCATTTTTCTCATAAACGCTGTAATTGATTA
Found at i:93770996 original size:122 final size:120
Alignment explanation
Indices: 93770783--93771005 Score: 286
Period size: 122 Copynumber: 1.8 Consensus size: 120
93770773 CCACAATAAC
* * *
93770783 AATGAGAATGAGAATAGAAATATAATGGGTATGAGGTTTTCCTAATCTCAATTTAACACAGAATA
1 AATGAGAATAAGAATAGAAATATAATGGATATGAGGTTTTCCTAATCTCAATTTAACACAAAATA
* *
93770848 TATGATAACTAAACTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
66 TATGATAACTAAACCAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
* * * * * *
93770903 AATGAGAATAAGCATAGTAATGTCATGGATATGAGG-TTTCTCTAATAACTCGATTTAATACAAA
1 AATGAGAATAAGAATAGAAATATAATGGATATGAGGTTTTC-CTAAT--CTCAATTTAACACAAA
* **
93770967 ATGTATGATAACTAGCCCAAGAATGCAAATTAAATGATA
63 ATATATGATAACTAAACCAAGAATGCAAATTAAATGATA
93771006 AAATAATGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
119 4 0.05
120 35 0.41
122 47 0.55
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (120 bp):
AATGAGAATAAGAATAGAAATATAATGGATATGAGGTTTTCCTAATCTCAATTTAACACAAAATA
TATGATAACTAAACCAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
Found at i:93771537 original size:55 final size:55
Alignment explanation
Indices: 93771437--93771558 Score: 156
Period size: 55 Copynumber: 2.2 Consensus size: 55
93771427 ATGCAATCCC
* *
93771437 CACGCCCGTGTTAATTTAACAGGTTCGACCACGAGTGTTAGACACGGACGTGTCA
1 CACGCCCGTGTTAATTTAACAGGTTCGACCACGAGTCTTACACACGGACGTGTCA
* * * * *
93771492 CACGCCCGTGTTAATTTAACAGGTTCGTCCATG-GTTCTTTCACACGGGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCGACCACGAG-TCTTACACACGGACGTGTCA
*
93771547 CACGCTCGTGTT
1 CACGCCCGTGTT
93771559 GTTTTGGCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 1 0.02
55 57 0.98
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTAACAGGTTCGACCACGAGTCTTACACACGGACGTGTCA
Found at i:93773661 original size:18 final size:17
Alignment explanation
Indices: 93773626--93773658 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
93773616 GCGGCTGTTT
93773626 TCGTTGGCTTTGTTTTA
1 TCGTTGGCTTTGTTTTA
93773643 TCGTTGGCTTTGTTTT
1 TCGTTGGCTTTGTTTT
93773659 TATGACTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.12, G:0.24, T:0.61
Consensus pattern (17 bp):
TCGTTGGCTTTGTTTTA
Found at i:93775285 original size:38 final size:38
Alignment explanation
Indices: 93775231--93775308 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
93775221 CTTAGATAGG
93775231 GTCTATTCCTCCTCTGAATAAGAGCTTATCTTGAATCA
1 GTCTATTCCTCCTCTGAATAAGAGCTTATCTTGAATCA
*
93775269 GTCTATTCCTCTTCTGAATAAGAGCTTATCTTGAATCA
1 GTCTATTCCTCCTCTGAATAAGAGCTTATCTTGAATCA
93775307 GT
1 GT
93775309 ATCCTGGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (38 bp):
GTCTATTCCTCCTCTGAATAAGAGCTTATCTTGAATCA
Found at i:93783625 original size:27 final size:27
Alignment explanation
Indices: 93783593--93783771 Score: 171
Period size: 27 Copynumber: 6.5 Consensus size: 27
93783583 AAAAATCCAG
* * *
93783593 GAAAAGAATAGCCTGTGTGGAAAACTCC
1 GAAAGGAAT-GCCTTTGTGGAAAACTCT
* *
93783621 GAAAGGAATTCCTTTATGGAAAACTCT
1 GAAAGGAATGCCTTTGTGGAAAACTCT
* * * *
93783648 GAAAAGAATAACCTTTGCGGCAAACT-T
1 GAAAGGAAT-GCCTTTGTGGAAAACTCT
* *
93783675 GAAAGGAATGTCTTTATGGAAAACTCT
1 GAAAGGAATGCCTTTGTGGAAAACTCT
** *
93783702 GAAAAAAATAGCCCTTTGTGGCAAACTCT
1 GAAAGGAAT-G-CCTTTGTGGAAAACTCT
*
93783731 GAAAGGAATGCCTTTGTGGACAACTCT
1 GAAAGGAATGCCTTTGTGGAAAACTCT
*
93783758 GAATGGAATGCCTT
1 GAAAGGAATGCCTT
93783772 GATGACACAT
Statistics
Matches: 121, Mismatches: 26, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
26 11 0.09
27 67 0.55
28 22 0.18
29 21 0.17
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGAAAACTCT
Found at i:93783726 original size:55 final size:55
Alignment explanation
Indices: 93783593--93783760 Score: 223
Period size: 55 Copynumber: 3.1 Consensus size: 55
93783583 AAAAATCCAG
* * *
93783593 GAAAAGAATAGCCTGTGTGGAAAACTCCGAAAGGAAT-TCCTTTATGGAAAACTCT
1 GAAAAGAATAGCCTTTGTGGCAAACTCTGAAAGGAATGT-CTTTATGGAAAACTCT
* *
93783648 GAAAAGAATAACCTTTGCGGCAAACT-TGAAAGGAATGTCTTTATGGAAAACTCT
1 GAAAAGAATAGCCTTTGTGGCAAACTCTGAAAGGAATGTCTTTATGGAAAACTCT
* * * *
93783702 GAAAAAAATAGCCCTTTGTGGCAAACTCTGAAAGGAATGCCTTTGTGGACAACTCT
1 GAAAAGAATAG-CCTTTGTGGCAAACTCTGAAAGGAATGTCTTTATGGAAAACTCT
93783758 GAA
1 GAA
93783761 TGGAATGCCT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
54 34 0.34
55 37 0.37
56 28 0.28
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (55 bp):
GAAAAGAATAGCCTTTGTGGCAAACTCTGAAAGGAATGTCTTTATGGAAAACTCT
Found at i:93785140 original size:18 final size:17
Alignment explanation
Indices: 93785110--93785145 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
93785100 ATCATTATAT
*
93785110 ATAATATTTAAATAAAA
1 ATAATATTAAAATAAAA
93785127 ATAATTATTAAAATAAAA
1 ATAA-TATTAAAATAAAA
93785145 A
1 A
93785146 GAATCCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATATTAAAATAAAA
Found at i:93791008 original size:18 final size:18
Alignment explanation
Indices: 93790985--93791020 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93790975 GTTGGCTGGG
*
93790985 TTTAGGGGAAACTTAAGA
1 TTTAGGGGAAACTCAAGA
93791003 TTTAGGGGAAACTCAAGA
1 TTTAGGGGAAACTCAAGA
93791021 AATGAATAAT
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:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TTTAGGGGAAACTCAAGA
Found at i:93796628 original size:7 final size:7
Alignment explanation
Indices: 93796616--93796657 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
93796606 CCAATTTGAG
93796616 AAAAAAT
1 AAAAAAT
93796623 AAAAAAAT
1 -AAAAAAT
93796631 AAAAAAT
1 AAAAAAT
93796638 AAAAAA-
1 AAAAAAT
93796644 AATAAAAT
1 AA-AAAAT
93796652 AAAAAA
1 AAAAAA
93796658 CACAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.06
7 21 0.66
8 9 0.28
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:93796635 original size:9 final size:8
Alignment explanation
Indices: 93796616--93796650 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
93796606 CCAATTTGAG
93796616 AAAAAATA
1 AAAAAATA
93796624 AAAAAAT-
1 AAAAAATA
93796631 AAAAAATAA
1 AAAAAAT-A
93796640 AAAAAATA
1 AAAAAATA
93796648 AAA
1 AAA
93796651 TAAAAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.28
8 11 0.44
9 7 0.28
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:93796636 original size:15 final size:14
Alignment explanation
Indices: 93796616--93796657 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
93796606 CCAATTTGAG
93796616 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
93796630 TAAAAAATAAAAAAA
1 -AAAAAATAAAAAAA
*
93796645 ATAAAATAAAAAA
1 AAAAAATAAAAAA
93796658 CACAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:93796657 original size:16 final size:16
Alignment explanation
Indices: 93796616--93796650 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
93796606 CCAATTTGAG
93796616 AAAAAAT-AAAAAAAT
1 AAAAAATAAAAAAAAT
93796631 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
93796647 AAAA
1 AAAA
93796651 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:93801378 original size:14 final size:14
Alignment explanation
Indices: 93801359--93801424 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
93801349 GTTTGCAGGT
*
93801359 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
93801373 AAAATGATTTCTGG
1 AAAATGATTTCCGG
* *
93801387 AAAATAATTTCTTGG
1 AAAATGATTTC-CGG
* *
93801402 -AAATGATTTCTGA
1 AAAATGATTTCCGG
93801415 AAAATGATTT
1 AAAATGATTT
93801425 ACTTTTCTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
13 2 0.04
14 40 0.89
15 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:93801391 original size:28 final size:28
Alignment explanation
Indices: 93801359--93801424 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
93801349 GTTTGCAGGT
* *
93801359 AAAATGTTTTC-CGGAAAATGATTTCTGG
1 AAAATGATTTCTCGG-AAATGATTTCTGA
* *
93801387 AAAATAATTTCTTGGAAATGATTTCTGA
1 AAAATGATTTCTCGGAAATGATTTCTGA
93801415 AAAATGATTT
1 AAAATGATTT
93801425 ACTTTTCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (28 bp):
AAAATGATTTCTCGGAAATGATTTCTGA
Found at i:93802379 original size:28 final size:28
Alignment explanation
Indices: 93802338--93802438 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
93802328 CAAACGGAGC
93802338 CTTAGTGTACGAAATATTGAGAATGACA
1 CTTAGTGTACGAAATATTGAGAATGACA
* *
93802366 CTTAGTGTATGAAATATTGAGAATGGCA
1 CTTAGTGTACGAAATATTGAGAATGACA
* *
93802394 CTTAGTGTGCGAGATATTGAGAATGACA
1 CTTAGTGTACGAAATATTGAGAATGACA
* *
93802422 CTTAGTGTGCAAAATAT
1 CTTAGTGTACGAAATAT
93802439 CGAATGATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (28 bp):
CTTAGTGTACGAAATATTGAGAATGACA
Found at i:93811816 original size:19 final size:19
Alignment explanation
Indices: 93811792--93811837 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
93811782 AAATAAGATT
93811792 AAAAGGGAGGCTGCGAATC
1 AAAAGGGAGGCTGCGAATC
93811811 AAAAGGGAGGCTGCGAATC
1 AAAAGGGAGGCTGCGAATC
93811830 AAAAGGGA
1 AAAAGGGA
93811838 AAACAGCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.37, T:0.09
Consensus pattern (19 bp):
AAAAGGGAGGCTGCGAATC
Found at i:93817345 original size:17 final size:18
Alignment explanation
Indices: 93817323--93817356 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
93817313 GAACTATGAA
93817323 GGCATTCGATC-TTTCAT
1 GGCATTCGATCATTTCAT
93817340 GGCATTCGATCATTTCA
1 GGCATTCGATCATTTCA
93817357 ATGAAAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (18 bp):
GGCATTCGATCATTTCAT
Found at i:93829368 original size:19 final size:19
Alignment explanation
Indices: 93829344--93829458 Score: 184
Period size: 19 Copynumber: 6.2 Consensus size: 19
93829334 AATCTTTAAG
93829344 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93829363 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93829382 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93829399 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93829418 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93829435 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
93829456 GAT
1 GAT
93829459 CTTGTAATCT
Statistics
Matches: 90, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
17 34 0.38
19 47 0.52
21 9 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:93829374 original size:36 final size:34
Alignment explanation
Indices: 93829344--93829457 Score: 167
Period size: 36 Copynumber: 3.2 Consensus size: 34
93829334 AATCTTTAAG
93829344 GATATG-CAATCTTAGATATGATATGCAATCTTA
1 GATATGACAATCTTAGATATGATATGCAATCTTA
93829377 GATATGATACAATCTTAGATATGATATGCAATCTTA
1 GATATG--ACAATCTTAGATATGATATGCAATCTTA
93829413 GATATGATACAATCTTAGATATGATATGCAATCTTGAA
1 GATATG--ACAATCTTAGATATGATATGCAATCTT--A
93829451 GATATGA
1 GATATGA
93829458 TCTTGTAATC
Statistics
Matches: 76, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
33 6 0.08
36 63 0.83
38 7 0.09
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (34 bp):
GATATGACAATCTTAGATATGATATGCAATCTTA
Found at i:93836545 original size:21 final size:21
Alignment explanation
Indices: 93836519--93836559 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
93836509 ATCTGCTCAA
*
93836519 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
93836540 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
93836560 TCGCTCGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:93838121 original size:53 final size:53
Alignment explanation
Indices: 93838063--93838170 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
93838053 TCCGAGTGTA
93838063 TGAACGACCTCGGACTACTAAAGCTTCTGTATCTCTGATTGAGTTTTTCTGTT
1 TGAACGACCTCGGACTACTAAAGCTTCTGTATCTCTGATTGAGTTTTTCTGTT
93838116 TGAACGACCTCGGACTACTAAAGCTTCTGTATCTCTGATTGAGTTTTTCTGTT
1 TGAACGACCTCGGACTACTAAAGCTTCTGTATCTCTGATTGAGTTTTTCTGTT
93838169 TG
1 TG
93838171 TCCTTCTTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (53 bp):
TGAACGACCTCGGACTACTAAAGCTTCTGTATCTCTGATTGAGTTTTTCTGTT
Found at i:93844070 original size:2 final size:2
Alignment explanation
Indices: 93844014--93844051 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93844004 AAAGAAAATG
93844014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93844052 GACTCAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93844951 original size:81 final size:81
Alignment explanation
Indices: 93844781--93845025 Score: 359
Period size: 81 Copynumber: 3.0 Consensus size: 81
93844771 TTGTAAAACA
* *
93844781 CAGAGCAATAGCGGCG-TTTTAT-TAAAAACGCCACTAAAAACAGAGCAAACTAGCGGCGCTTTT
1 CAGAGCATTAGCGGCGCTTTT-TGT-AAAACGCCGCTAAAAACAGAGC-AA-TAGCGGCGCTTTT
*
93844844 GGTAAAACGCCGCTAAAAGG
62 TGTAAAACGCCGCTAAAAGG
*
93844864 CGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGTA
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGTA
93844929 AAACGCCGCTAAAAGG
66 AAACGCCGCTAAAAGG
* * * *
93844945 CAGAGCATTAGCGGCGCTTATTGTAAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTTTGT
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGCTTTTTGT
93845010 AAAACGCCGCTAAAAG
65 AAAACGCCGCTAAAAG
93845026 TCATATAACC
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
81 69 0.46
82 40 0.27
83 36 0.24
84 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (81 bp):
CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGTA
AAACGCCGCTAAAAGG
Found at i:93844981 original size:122 final size:123
Alignment explanation
Indices: 93844774--93845024 Score: 386
Period size: 122 Copynumber: 2.0 Consensus size: 123
93844764 GTAAAAATTG
93844774 TAAAACACAGAGCAATAGCGGCGTTTTATTAAAAACGCCACTAAAAACAGAGCAAACTAGCGGCG
1 TAAAACACAGAGCAATAGCGGCGTTTTATTAAAAACGCCACTAAAAACAGAGC-AACTAGCGGCG
93844839 CTTTTGGTAAAACGCCGCTAAAAGGCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
65 CTTTTGGTAAAACGCCGCTAAAAGGCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
* * *
93844898 TAAAA-ACAGAGCAATAGCGGCGCTTTT-TGT-AAAACGCCGCTAAAAGGCAGAGC-ATTAGCGG
1 TAAAACACAGAGCAATAGCGGCG-TTTTAT-TAAAAACGCCACTAAAA-ACAGAGCAACTAGCGG
*
93844959 CGCTTATT-GTAAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
63 CGCTT-TTGGTAAAACGCCGCTAAAAGGCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
93845020 TAAAA
1 TAAAA
93845025 GTCATATAAC
Statistics
Matches: 119, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
122 69 0.58
123 34 0.29
124 16 0.13
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (123 bp):
TAAAACACAGAGCAATAGCGGCGTTTTATTAAAAACGCCACTAAAAACAGAGCAACTAGCGGCGC
TTTTGGTAAAACGCCGCTAAAAGGCGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGC
Found at i:93845027 original size:41 final size:41
Alignment explanation
Indices: 93844781--93845025 Score: 327
Period size: 41 Copynumber: 6.0 Consensus size: 41
93844771 TTGTAAAACA
* * *
93844781 CAGAGCAATAGCGGCG-TTTTAT-TAAAAACGCCACTAAAA-A
1 CAGAGCATTAGCGGCGCTTTT-TGT-AAAACGCCGCTAAAAGG
* *
93844821 CAGAGCAAACTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGG
1 CAGAGC--ATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
* *
93844864 CGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAA-A
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
*
93844904 CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
* *
93844945 CAGAGCATTAGCGGCGCTTATTGTAAAACGCCGCTAAAAGT
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
*
93844986 CGGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAG
1 CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAG
93845026 TCATATAACC
Statistics
Matches: 183, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
40 43 0.23
41 107 0.58
42 23 0.13
43 10 0.05
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGG
Found at i:93845312 original size:15 final size:15
Alignment explanation
Indices: 93845273--93845323 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
93845263 CGGTTTAATA
*
93845273 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
93845287 TCTATGATTTAGGGT
1 TTTATGGTTTAAGGT
93845302 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
93845317 TTAATGG
1 TTTATGG
93845324 CTATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:93848519 original size:137 final size:137
Alignment explanation
Indices: 93848273--93848559 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
93848263 CATTGGGCCT
* **
93848273 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACCGGGCCTT
* *
93848338 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACGTGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
93848403 CATATGC
131 CATATGC
*
93848410 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACCGGGCCTT
93848475 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
93848540 CATATGC
131 CATATGC
93848547 AAGCCCATTTGGG
1 AAGCCCATTTGGG
93848560 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACCGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:93848844 original size:25 final size:27
Alignment explanation
Indices: 93848807--93848859 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
93848797 TCAAACATGC
93848807 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
93848833 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
93848859 A
1 A
93848860 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:93850382 original size:26 final size:26
Alignment explanation
Indices: 93850346--93850403 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
93850336 CATGAAATTC
93850346 TTATCATGAAACATTTACCTAACAC-A
1 TTATCATGAAACATTTACCTAAC-CTA
93850372 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
93850398 TTATCA
1 TTATCA
93850404 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:93853964 original size:43 final size:43
Alignment explanation
Indices: 93853926--93854163 Score: 248
Period size: 43 Copynumber: 5.5 Consensus size: 43
93853916 TGCTAAAAAC
93853926 CATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
** * * * *
93853969 CATGGTCTTTAGCGGCGTTTTCAGGAAAAGCTCTGCTAAAGGT
1 CATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
* * * *
93854012 CATGACCTTTTAGCGGCATTTGTAGGAAAAGCGTCGCTAAAGGT
1 CATGACC-TTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
* * **
93854056 CATGACCTTTAGCAGCGCTTTTCCT-G-AAAA-CGCCACTAAAGAC
1 CATGACCTTTAGCGGCG-TTTT--TAGAAAAAGCGCCGCTAAAGGT
* * * * *
93854099 CATGACCTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAAGT
1 CATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
93854142 CATGACCTTTAGCGGCGTTTTT
1 CATGACCTTTAGCGGCGTTTTT
93854164 TAAAATAAAC
Statistics
Matches: 158, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 7 0.04
43 103 0.65
44 44 0.28
45 1 0.01
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGT
Found at i:93854066 original size:87 final size:85
Alignment explanation
Indices: 93853918--93854162 Score: 305
Period size: 86 Copynumber: 2.8 Consensus size: 85
93853908 TAAAGTGCTG
* * * * **
93853918 CTAAAAACCATGACCTTTAGCGGCGTTTTTAGAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 CTAAAGACCATGACCTTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCG
*
93853983 GCGTTTTCAGGAAAA-GCTCTG
66 GCGTTTTCAGGAAAACGC-C-A
** *
93854004 CTAAAGGTCATGACCTTTTAGCGGCATTTGTAGGAAAAGCGTCGCTAAAGGTCATGACCTTTAGC
1 CTAAAGACCATGACC-TTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGC
* **
93854069 AGCGCTTTTCCTGAAAACGCCA
65 GGCG-TTTTCAGGAAAACGCCA
*
93854091 CTAAAGACCATGACCTTTAGCGGCATTTGT-GGTAAAAGCGCCGCTAAAAGTCATGACCTTTAGC
1 CTAAAGACCATGACCTTTAGCGGCATTTGTAGG-AAAAGCGCCGCTAAAGGTCATGACCTTTAGC
93854155 GGCGTTTT
65 GGCGTTTT
93854163 TTAAAATAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
85 6 0.04
86 59 0.43
87 59 0.43
88 11 0.08
89 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (85 bp):
CTAAAGACCATGACCTTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCG
GCGTTTTCAGGAAAACGCCA
Found at i:93857877 original size:22 final size:22
Alignment explanation
Indices: 93857846--93857902 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
93857836 CATACTATTT
* *
93857846 TTTTTCATTTG-TAACCATACTA
1 TTTTTAATTTGCT-ACCACACTA
**
93857868 TTTTTAATTTGCTTTCACACTA
1 TTTTTAATTTGCTACCACACTA
93857890 TTTTTAATTTGCT
1 TTTTTAATTTGCT
93857903 TTCAACATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTTAATTTGCTACCACACTA
Found at i:93857903 original size:22 final size:22
Alignment explanation
Indices: 93857864--93857906 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
93857854 TTGTAACCAT
93857864 ACTATTTTTAATTTGCTTTCAC
1 ACTATTTTTAATTTGCTTTCAC
93857886 ACTATTTTTAATTTGCTTTCA
1 ACTATTTTTAATTTGCTTTCA
93857907 ACATTGTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (22 bp):
ACTATTTTTAATTTGCTTTCAC
Found at i:93859868 original size:19 final size:19
Alignment explanation
Indices: 93859844--93859922 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
93859834 AATCTTTAAG
93859844 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93859863 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93859882 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
93859899 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
93859920 GAT
1 GAT
93859923 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:93859874 original size:36 final size:36
Alignment explanation
Indices: 93859834--93859921 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 36
93859824 ATGGAAATAT
93859834 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
93859870 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
*
93859906 AATCTTGAAGATATGA
1 AATCTTTAAGATATGA
93859922 TCTTGTAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.63
37 1 0.02
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Done.