Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 194 of 433
Found at i:61199238 original size:27 final size:26
Alignment explanation
Indices: 61199078--61199259 Score: 89
Period size: 24 Copynumber: 7.4 Consensus size: 26
61199068 ATCTGAGCTG
* *
61199078 TATATTGGGAAGCTCA-TAAGAG-CA
1 TATATCGGGAAGCTCACAAAGAGCCA
***
61199102 TA-ATCGGGAAGCTCA-TGCGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
** *
61199126 -ATAAAGGGTAGCTC-CAAAGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* ** *
61199150 T-TAACGGGAAGCTC-CGGATAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
** * **
61199174 TATATCAAGAAGTTCA-AGTGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
* *
61199199 TA-A-CAGAAAGCTCACAAAGAGCCAA
1 TATATCGGGAAGCTCACAAAGAGCC-A
* *
61199224 TTTATCGGGAAGCTCACGAAGAGCCA
1 TATATCGGGAAGCTCACAAAGAGCCA
61199250 TATATCGGGA
1 TATATCGGGA
61199260 TACTCATAAG
Statistics
Matches: 117, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
23 25 0.21
24 45 0.38
25 19 0.16
26 11 0.09
27 17 0.15
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (26 bp):
TATATCGGGAAGCTCACAAAGAGCCA
Found at i:61199265 original size:26 final size:27
Alignment explanation
Indices: 61199206--61199259 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
61199196 CCATAACAGA
*
61199206 AAGCTCACAAAGAGCCAATTTATCGGG
1 AAGCTCACAAAGAGCCAATATATCGGG
*
61199233 AAGCTCACGAAGAGCC-ATATATCGGG
1 AAGCTCACAAAGAGCCAATATATCGGG
61199259 A
1 A
61199260 TACTCATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
AAGCTCACAAAGAGCCAATATATCGGG
Found at i:61199389 original size:24 final size:25
Alignment explanation
Indices: 61199329--61199389 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
61199319 TTCGAAAAGC
*
61199329 TATAACAGGAAGCTCACAAGAACCA
1 TATAACGGGAAGCTCACAAGAACCA
* * * *
61199354 TATAATGAGAAGCT-ATAAGATCCA
1 TATAACGGGAAGCTCACAAGAACCA
61199378 TATAACGGGAAG
1 TATAACGGGAAG
61199390 ATCGAAAGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAGAACCA
Found at i:61206099 original size:40 final size:40
Alignment explanation
Indices: 61206054--61206220 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
61206044 CGGAATATAA
61206054 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61206094 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
61206134 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61206174 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61206213 CCGGATAT
1 CCGGATAT
61206221 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61206204 original size:80 final size:79
Alignment explanation
Indices: 61206054--61206220 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
61206044 CGGAATATAA
* *
61206054 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
61206119 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
61206134 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
61206196 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
61206213 CCGGATAT
1 CCGGATAT
61206221 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:61207068 original size:17 final size:19
Alignment explanation
Indices: 61207045--61207090 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
61207035 AAGAAGCATG
61207045 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
61207063 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
61207081 AATCATGCTC
1 AATCATGCTC
61207091 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:61214100 original size:40 final size:40
Alignment explanation
Indices: 61214055--61214221 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
61214045 CGGAATATAA
61214055 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61214095 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
61214135 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61214175 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61214214 CCGGATAT
1 CCGGATAT
61214222 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61214205 original size:80 final size:79
Alignment explanation
Indices: 61214055--61214221 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
61214045 CGGAATATAA
* *
61214055 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
61214120 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
61214135 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
61214197 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
61214214 CCGGATAT
1 CCGGATAT
61214222 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:61215069 original size:17 final size:19
Alignment explanation
Indices: 61215046--61215091 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
61215036 AAGAAGCATG
61215046 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
61215064 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
61215082 AATCATGCTC
1 AATCATGCTC
61215092 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:61217082 original size:80 final size:80
Alignment explanation
Indices: 61216998--61217146 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
61216988 TATGGTAACC
* * * *
61216998 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
61217062 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
61217078 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
61217143 CCGG
66 CCGG
61217147 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:61217088 original size:40 final size:38
Alignment explanation
Indices: 61217039--61217146 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
61217029 ATCACGATTT
*
61217039 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
61217079 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
61217119 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
61217147 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:61223965 original size:30 final size:30
Alignment explanation
Indices: 61223929--61224029 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
61223919 GACAAGATTG
* * *
61223929 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
61223959 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
61223987 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
61224016 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61224030 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:61224041 original size:29 final size:28
Alignment explanation
Indices: 61223958--61224033 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
61223948 AAAATTGTAC
* *
61223958 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
61223986 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
61224015 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
61224034 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:61227995 original size:47 final size:47
Alignment explanation
Indices: 61227925--61228365 Score: 693
Period size: 47 Copynumber: 9.4 Consensus size: 47
61227915 CCCTTCGAGA
* *
61227925 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
61227972 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61228019 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61228066 CTTATCTCATATATACACTTTCACATTCATCACCTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61228113 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61228160 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61228207 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61228254 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61228301 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61228348 CTTATCACATATACACAC
1 CTTATCACATATATACAC
61228366 CTTGTACATC
Statistics
Matches: 366, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 366 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61238048 original size:21 final size:21
Alignment explanation
Indices: 61238014--61238063 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
61238004 TACTTTTTCA
61238014 TTTTT-TTTA-TTTTTAAGTT
1 TTTTTATTTACTTTTTAAGTT
61238033 TTTTATATTTACTTTTTAAGTT
1 TTTT-TATTTACTTTTTAAGTT
61238055 TTTTTATTT
1 TTTTTATTT
61238064 GTCATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.14
20 1 0.04
21 9 0.32
22 14 0.50
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTATTTACTTTTTAAGTT
Found at i:61238076 original size:38 final size:37
Alignment explanation
Indices: 61238004--61238080 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 37
61237994 TGGTTCTTTG
* * *
61238004 TACTTTTTCATTTTTTTTATTTTTAAGTTTTTTATATT
1 TACTTTTTAAGTTTTTTTATTTGTAAGTTTTTTAT-TT
*
61238042 TACTTTTTAAGTTTTTTTATTTGTCA-TTTATTTATTT
1 TACTTTTTAAGTTTTTTTATTTGTAAGTTT-TTTATTT
61238079 TA
1 TA
61238081 TTTATTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 7 0.21
38 27 0.79
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.71
Consensus pattern (37 bp):
TACTTTTTAAGTTTTTTTATTTGTAAGTTTTTTATTT
Found at i:61238166 original size:20 final size:20
Alignment explanation
Indices: 61238100--61238207 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 20
61238090 TTATTATTGG
*
61238100 TTTTATAAAATTTTAAATGTA
1 TTTT-TAAAATTTTAAATATA
* * *
61238121 TATTTAAATGTTTTATAATATT
1 TTTTTAAA-ATTTTA-AATATA
61238143 TTTTTAAAATTTTAAATATA
1 TTTTTAAAATTTTAAATATA
61238163 TTTTT-AAA-TTTAAATATTA
1 TTTTTAAAATTTTAAATA-TA
*
61238182 TTTTTTAAATTCTT-AATATTA
1 TTTTTAAAATT-TTAAATA-TA
61238203 TTTTT
1 TTTTT
61238208 TAATATTATA
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
18 8 0.11
19 10 0.14
20 17 0.23
21 26 0.35
22 13 0.18
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTTTAAATATA
Found at i:61238187 original size:42 final size:43
Alignment explanation
Indices: 61238091--61238188 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
61238081 TTTATTTGTT
* **
61238091 TATTATTGGTTTTATAAAATTTTAAATGTATATTTAAATGTTTTA
1 TATTATT--TTTTATAAAATTTTAAATATATATTTAAATGTTAAA
* *
61238136 TAATATTTTTT-TAAAATTTTAAATATATTTTTAAAT-TTAAA
1 TATTATTTTTTATAAAATTTTAAATATATATTTAAATGTTAAA
61238177 TATTATTTTTTA
1 TATTATTTTTTA
61238189 AATTCTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
41 13 0.28
42 23 0.50
43 4 0.09
45 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (43 bp):
TATTATTTTTTATAAAATTTTAAATATATATTTAAATGTTAAA
Found at i:61238327 original size:20 final size:21
Alignment explanation
Indices: 61238283--61238342 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
61238273 TTTATAATAC
* *
61238283 TTTAAATGTATATTTTAAAATT
1 TTTAAATATATATTTT-TAATT
61238305 TTTAAATATATATTTTTAA-T
1 TTTAAATATATATTTTTAATT
61238325 TTTAAATATA-ATTTTTAA
1 TTTAAATATATATTTTTAA
61238343 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 8 0.22
20 11 0.31
21 2 0.06
22 15 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAATATATATTTTTAATT
Found at i:61238342 original size:13 final size:13
Alignment explanation
Indices: 61238324--61238383 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
61238314 ATATTTTTAA
61238324 TTTTAAATATAAT
1 TTTTAAATATAAT
*
61238337 TTTTAAAT-TATTT
1 TTTTAAATATA-AT
*
61238350 TTTTAAATAATGATT
1 TTTTAAAT-AT-AAT
*
61238365 TTTTAAA-ATTAT
1 TTTTAAATATAAT
61238377 TTTTAAA
1 TTTTAAA
61238384 GATATTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 10 0.25
13 19 0.47
15 10 0.25
16 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TTTTAAATATAAT
Found at i:61238345 original size:20 final size:21
Alignment explanation
Indices: 61238283--61238345 Score: 85
Period size: 20 Copynumber: 3.0 Consensus size: 21
61238273 TTTATAATAC
* *
61238283 TTTAAATGTATATTTTAAAATT
1 TTTAAATATATATTTTTAAA-T
61238305 TTTAAATATATATTTTT-AAT
1 TTTAAATATATATTTTTAAAT
61238325 TTTAAATATA-ATTTTTAAAT
1 TTTAAATATATATTTTTAAAT
61238345 T
1 T
61238346 ATTTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.16
20 15 0.39
21 2 0.05
22 15 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAATATATATTTTTAAAT
Found at i:61238350 original size:29 final size:30
Alignment explanation
Indices: 61238301--61238380 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 30
61238291 TATATTTTAA
61238301 AATTTTTAAATATATATTTTTAATTTTAAAT-AT-
1 AATTTTTAAA-AT-TA-TTTT--TTTTAAATAATG
61238334 AATTTTT-AAATTA-TTTTTTTAAATAATG
1 AATTTTTAAAATTATTTTTTTTAAATAATG
*
61238362 ATTTTTTAAAATTATTTTT
1 AATTTTTAAAATTATTTTT
61238381 AAAGATATTC
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 8 0.19
27 2 0.05
28 9 0.21
29 6 0.14
30 6 0.14
31 2 0.05
32 2 0.05
33 7 0.17
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
AATTTTTAAAATTATTTTTTTTAAATAATG
Found at i:61238366 original size:26 final size:27
Alignment explanation
Indices: 61238324--61238380 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 27
61238314 ATATTTTTAA
61238324 TTTTAAATATAATTTTT-AAATTATTT
1 TTTTAAATATAATTTTTAAAATTATTT
*
61238350 TTTTAAATAATGATTTTTTAAAATTATTT
1 TTTTAAAT-AT-AATTTTTAAAATTATTT
61238379 TT
1 TT
61238381 AAAGATATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.30
27 2 0.07
28 6 0.22
29 11 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTAAATATAATTTTTAAAATTATTT
Found at i:61238545 original size:13 final size:14
Alignment explanation
Indices: 61238529--61238557 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61238519 TATAAAATTT
61238529 ATATATATTA-AAA
1 ATATATATTAGAAA
61238542 ATATATATTAGAAA
1 ATATATATTAGAAA
61238556 AT
1 AT
61238558 TAAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATTAGAAA
Found at i:61238782 original size:15 final size:14
Alignment explanation
Indices: 61238751--61238793 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
61238741 AAGTAAGTTA
61238751 TTTATAGTTTTTAT
1 TTTATAGTTTTTAT
*
61238765 TTTATATTTTTATAT
1 TTTATAGTTTT-TAT
*
61238780 TTTATAGTTATTAT
1 TTTATAGTTTTTAT
61238794 AATATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (14 bp):
TTTATAGTTTTTAT
Found at i:61242530 original size:9 final size:9
Alignment explanation
Indices: 61242516--61242548 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
61242506 GTTAAACGAA
61242516 TCGAGTTAT
1 TCGAGTTAT
*
61242525 TCGAGTTAA
1 TCGAGTTAT
61242534 TCGAGTTAT
1 TCGAGTTAT
61242543 TCGAGT
1 TCGAGT
61242549 CAACTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:61242537 original size:18 final size:18
Alignment explanation
Indices: 61242514--61242548 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
61242504 GAGTTAAACG
61242514 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
61242532 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
61242549 CAACTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:61242617 original size:9 final size:9
Alignment explanation
Indices: 61242600--61242636 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61242590 TGAGTTTTTG
61242600 AATTCGAAT
1 AATTCGAAT
*
61242609 AACTCGAAT
1 AATTCGAAT
61242618 AATTCGAAT
1 AATTCGAAT
61242627 AATTCGAAT
1 AATTCGAAT
61242636 A
1 A
61242637 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:61243316 original size:18 final size:18
Alignment explanation
Indices: 61243274--61243319 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
61243264 GGTATCAATT
* *
61243274 TCACATTTTATCTTTAAAA
1 TCACATTTT-TATTAAAAA
61243293 T-A-ATTTTTATTAAAAA
1 TCACATTTTTATTAAAAA
61243309 TCACATTTTTA
1 TCACATTTTTA
61243320 CATCTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TCACATTTTTATTAAAAA
Found at i:61243668 original size:5 final size:5
Alignment explanation
Indices: 61243658--61243683 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61243648 CTCAGAAATT
61243658 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
61243684 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:61252227 original size:10 final size:10
Alignment explanation
Indices: 61252200--61252241 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
61252190 TTAAATTCTA
61252200 AAAGATAAAT
1 AAAGATAAAT
61252210 ACAA-ATAAAT
1 A-AAGATAAAT
*
61252220 AAAGATAATT
1 AAAGATAAAT
*
61252230 AAAGATCAAT
1 AAAGATAAAT
61252240 AA
1 AA
61252242 CCCAAACAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:61254199 original size:26 final size:24
Alignment explanation
Indices: 61254169--61254218 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
61254159 TAACTAAAAA
*
61254169 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
61254195 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
61254219 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:61259119 original size:22 final size:22
Alignment explanation
Indices: 61259085--61259147 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
61259075 CACTTGACAT
*
61259085 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCGTGTGGG
61259106 AGGGGCAACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
61259128 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
61259148 ACCATTCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 6 0.15
22 34 0.85
ACGTcount: A:0.19, C:0.29, G:0.43, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:61260394 original size:46 final size:47
Alignment explanation
Indices: 61260251--61260425 Score: 137
Period size: 47 Copynumber: 3.7 Consensus size: 47
61260241 GGTAAGGTAT
* * * *
61260251 CGATGCCGTGTCTCAGACATGGTCTTACACT-GGCTATCATCTCGTA-GC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCCTA-CGTCTCG-AGGC
* * *
61260299 CAACG-CATGTCCCAGACATGTCTTAACACTAGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTT-ACACTAGCCTACGTCTCGAGGC
* *
61260346 CGATG-TATGTCCCAGACATGTCTTACACTAGCACT-CGTCTC-ATTGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCGA-GGC
* * *
61260392 CGATGCCATCTCTCAGACATGGACTTACACTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGC
61260426 TCTCACAAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 27 0.26
47 58 0.56
48 18 0.17
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGAGGC
Found at i:61263441 original size:30 final size:30
Alignment explanation
Indices: 61263405--61263507 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
61263395 GTCATAAAGT
*
61263405 AGTTCATATCACCTGGACATGGACGGTTCG
1 AGTTCATATCACCTGGACATGGGCGGTTCG
* ** * *
61263435 AGTTCATGTCACCCAGACATGGGTGGTTCT
1 AGTTCATATCACCTGGACATGGGCGGTTCG
* * *
61263465 AGTTCATATCACTTGGACATGGGCAGTTTG
1 AGTTCATATCACCTGGACATGGGCGGTTCG
61263495 AGTTCATATCACC
1 AGTTCATATCACC
61263508 CAAAGCAACC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGGCGGTTCG
Found at i:61265263 original size:28 final size:28
Alignment explanation
Indices: 61265223--61265278 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
61265213 AAGAAAAGAA
61265223 AAAAAATAAAATAAAGAGTTTAAGGGTT
1 AAAAAATAAAATAAAGAGTTTAAGGGTT
61265251 AAAAAATAAAATAAAGAGTTTAAGGGTT
1 AAAAAATAAAATAAAGAGTTTAAGGGTT
61265279 CGGCATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.18, T:0.25
Consensus pattern (28 bp):
AAAAAATAAAATAAAGAGTTTAAGGGTT
Found at i:61266183 original size:41 final size:44
Alignment explanation
Indices: 61266069--61266202 Score: 148
Period size: 45 Copynumber: 3.1 Consensus size: 44
61266059 TAGGATTTCC
* * *
61266069 TATATGTGTTCTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA
1 TATATGTGAT-TCGTGTAAGACCATGTCTGGGATATTGGCATCGA
*
61266114 TATATGTGGTTACGTGTAAGACCATGTCTGGGATATTGGCATC-A
1 TATATGTGATT-CGTGTAAGACCATGTCTGGGATATTGGCATCGA
* * * * *
61266158 -A-ATTTGATTCGTGTAAGACCTTGTCTGGGACAGTGGCAACGA
1 TATATGTGATTCGTGTAAGACCATGTCTGGGATATTGGCATCGA
61266200 TAT
1 TAT
61266203 GAGATAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
41 27 0.36
42 7 0.09
43 2 0.03
44 2 0.03
45 38 0.50
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TATATGTGATTCGTGTAAGACCATGTCTGGGATATTGGCATCGA
Found at i:61270235 original size:14 final size:14
Alignment explanation
Indices: 61270206--61270253 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
61270196 TTTGAATATC
*
61270206 TTAAAAAATA-ATT
1 TTAAAAAATATAAT
61270219 TTAAAAAATATAAT
1 TTAAAAAATATAAT
61270233 TT-AAAAATATTATAT
1 TTAAAAAATA-TA-AT
61270248 TTAAAA
1 TTAAAA
61270254 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 17 0.57
14 6 0.20
15 4 0.13
16 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAAATATAAT
Found at i:61270254 original size:14 final size:13
Alignment explanation
Indices: 61270206--61270253 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
61270196 TTTGAATATC
61270206 TTAAAAA-ATAATT
1 TTAAAAATATAA-T
61270219 TTAAAAAATATAAT
1 TT-AAAAATATAAT
61270233 TTAAAAATATTATAT
1 TTAAAAATA-TA-AT
61270248 TTAAAA
1 TTAAAA
61270254 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.29
14 10 0.32
15 12 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAATATAAT
Found at i:61270255 original size:22 final size:21
Alignment explanation
Indices: 61270230--61270304 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
61270220 TAAAAAATAT
61270230 AATTTAAAAATATTATATTTAA
1 AATTTAAAAATA-TATATTTAA
61270252 AA-TTAAAAA-ATATATTTAAA
1 AATTTAAAAATATATATTT-AA
*
61270272 AGATTT-AAAATATACATTTAA
1 A-ATTTAAAAATATATATTTAA
61270293 AATATTATAAAA
1 AAT-TTA-AAAA
61270305 CAAATAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.16
20 6 0.13
21 17 0.38
22 11 0.24
23 4 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:61270293 original size:35 final size:35
Alignment explanation
Indices: 61270213--61270294 Score: 87
Period size: 35 Copynumber: 2.3 Consensus size: 35
61270203 ATCTTAAAAA
* *
61270213 ATAATTTTAAAAAATATAATTTAAAAATATTATAT
1 ATAAATTTAAAAAATATAATTTAAAAATATTAAAT
* *
61270248 TTAAAATTAAAAAATAT-ATTTAAAAGAT-TTAAAAT
1 ATAAATTTAAAAAATATAATTTAAAA-ATATT-AAAT
*
61270283 ATACATTTAAAA
1 ATAAATTTAAAA
61270295 TATTATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 10 0.26
35 28 0.74
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (35 bp):
ATAAATTTAAAAAATATAATTTAAAAATATTAAAT
Found at i:61270392 original size:23 final size:23
Alignment explanation
Indices: 61270352--61270422 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
61270342 ATATATTTTA
* * *
61270352 AATATTTTATAATATTAAAAAATT
1 AATA-TTTAAAATTTTAAAAAAAT
61270376 AATATTTAAAATTTTAAAAAAAT
1 AATATTTAAAATTTTAAAAAAAT
*
61270399 -ATATTTAAAATATTTAAAATAAT
1 AATATTTAAAAT-TTTAAAAAAAT
61270422 A
1 A
61270423 TTATAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.27
23 26 0.63
24 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATTTAAAATTTTAAAAAAAT
Found at i:61270423 original size:23 final size:23
Alignment explanation
Indices: 61270352--61270468 Score: 93
Period size: 22 Copynumber: 5.2 Consensus size: 23
61270342 ATATATTTTA
*
61270352 AATAT-TTTATAATA-TTAAAA-
1 AATATATTTAAAATATTTAAAAT
*
61270372 AATTAATATTTAAAAT-TTTAAAAA
1 AA-T-ATATTTAAAATATTTAAAAT
61270396 AATATATTTAAAATATTTAAAAT
1 AATATATTTAAAATATTTAAAAT
* *
61270419 AATAT-TATAAAATATTTCAAAT
1 AATATATTTAAAATATTTAAAAT
* * *
61270441 -ATACATTTCAAATTTTATAAAAT
1 AATATATTTAAAATATT-TAAAAT
61270464 CAATA
1 -AATA
61270469 ATAAACAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.03
21 4 0.05
22 36 0.46
23 31 0.40
24 2 0.03
25 3 0.04
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATATTTAAAATATTTAAAAT
Found at i:61270492 original size:24 final size:23
Alignment explanation
Indices: 61270457--61270531 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 23
61270447 TTCAAATTTT
61270457 ATAAAATCAATAATA-AACAAATAA
1 ATAAAA-CAATAA-AGAACAAATAA
*
61270481 ATAAAACAAATAAAGGACAAATAA
1 ATAAAAC-AATAAAGAACAAATAA
* *
61270505 A-AAAAC-TTAAA-AAGTAAATAA
1 ATAAAACAATAAAGAA-CAAATAA
61270526 ATAAAA
1 ATAAAA
61270532 AACTTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 11 0.26
22 4 0.09
23 7 0.16
24 20 0.47
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (23 bp):
ATAAAACAATAAAGAACAAATAA
Found at i:61270533 original size:25 final size:24
Alignment explanation
Indices: 61270499--61270559 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
61270489 AATAAAGGAC
*
61270499 AAATAAAAAAACTTAAAAAGTAAAT
1 AAATAAAAAAACTTAAAAAG-AAAA
61270524 AAAT-AAAAAACTTAAAAAGAAAA
1 AAATAAAAAAACTTAAAAAGAAAA
*
61270547 AAAAAAGAAAAAC
1 AAATAA-AAAAAC
61270560 GACAAAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.19
24 16 0.50
25 10 0.31
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (24 bp):
AAATAAAAAAACTTAAAAAGAAAA
Found at i:61271814 original size:15 final size:15
Alignment explanation
Indices: 61271794--61271861 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
61271784 GTACTACAAA
61271794 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
61271809 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
61271826 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
61271843 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
61271856 ATATTT
1 ATATTT
61271862 TCAATAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.25
15 12 0.27
16 1 0.02
17 7 0.16
18 1 0.02
19 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:61273182 original size:16 final size:16
Alignment explanation
Indices: 61273161--61273193 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61273151 TAAATAATAT
61273161 AAATTAAAAAAATTAA
1 AAATTAAAAAAATTAA
61273177 AAATTAAAAAAATTAA
1 AAATTAAAAAAATTAA
61273193 A
1 A
61273194 TAAAAGGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTAAAAAAATTAA
Found at i:61273188 original size:10 final size:9
Alignment explanation
Indices: 61273161--61273198 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
61273151 TAAATAATAT
61273161 AAATTAAAA
1 AAATTAAAA
61273170 AAATT--AA
1 AAATTAAAA
61273177 AAATTAAAA
1 AAATTAAAA
61273186 AAATTAAATA
1 AAATTAAA-A
61273196 AAA
1 AAA
61273199 GGATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.27
9 15 0.58
10 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTAAAA
Found at i:61288603 original size:3 final size:3
Alignment explanation
Indices: 61288595--61288622 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61288585 TTGACAAATT
61288595 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
61288623 CTTACAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:61290332 original size:24 final size:24
Alignment explanation
Indices: 61290305--61290351 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
61290295 GCTTATTGCC
61290305 GGTGAATTATTATAAGTTTATGCT
1 GGTGAATTATTATAAGTTTATGCT
61290329 GGTGAATTATTATAAGTTTATGC
1 GGTGAATTATTATAAGTTTATGC
61290352 CTAAAAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (24 bp):
GGTGAATTATTATAAGTTTATGCT
Found at i:61291947 original size:47 final size:46
Alignment explanation
Indices: 61291887--61292146 Score: 151
Period size: 47 Copynumber: 5.5 Consensus size: 46
61291877 ATGGTAGCCC
*
61291887 GTGTAAGACCATGTCTGGGACATGGCATGGACGTAGAGGTGAGTGCCA
1 GTGTAAGACCATGTCTGGGACAT-GCATGGACCTA-AGGTGAGTGCCA
*
61291935 GTGTAAGA-CATGTCTGGGACATGCAT-CAGCCTCAA--TGATGTTAGCCA
1 GTGTAAGACCATGTCTGGGACATGCATGGA-CCT-AAGGTGA-G-T-GCCA
* * ** *
61291982 GTGTAAGA-CGTGTTTGGGACATGCATCGG--CTAAGGTTCGTGCTA
1 GTGTAAGACCATGTCTGGGACATGCAT-GGACCTAAGGTGAGTGCCA
* * * *** * *
61292026 GTGTAAG-GCATGTCTGGGACATGCATCAGCACGTATACACGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGCAT--GGACCTA-AGGTGAGTGCCA
* * * *
61292074 GTGTAAGACCATGTCTGGGACATGGCATCGACCT-CGATGGAGATAACCA
1 GTGTAAGACCATGTCTGGGACAT-GCATGGACCTAAGGT-GAG-T-GCCA
61292123 GTGTAAGACCATGTCTGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
61292147 GCAGTGGTAA
Statistics
Matches: 164, Mismatches: 29, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
44 29 0.18
45 6 0.04
46 12 0.07
47 49 0.30
48 25 0.15
49 39 0.24
50 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GTGTAAGACCATGTCTGGGACATGCATGGACCTAAGGTGAGTGCCA
Found at i:61291960 original size:94 final size:93
Alignment explanation
Indices: 61291788--61292146 Score: 309
Period size: 94 Copynumber: 3.8 Consensus size: 93
61291778 GTTATGTGAG
* * * * * * * * * *
61291788 AGCCAGTATAGGACCATGTCTGGGACGTGGAATCGGCATTGAGATGAGGGCTAGTGTAATACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCCAGTGTAAGACATG
*
61291853 TCTGGGACCTGCATCTA-CCGCATCATGGT
65 TCTGGGACATGCATC-AGCCGCATCATGGT
*
61291882 AGCCCGTGTAAGACCATGTCTGGGACATGGCAT-GGACGTAGAGGTGAGTGCCAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TAGAGGTGAGTGCCAGTGTAAGACAT
* * *
61291946 GTCTGGGACATGCATCAGCCTCAATGATGTT
64 GTCTGGGACATGCATCAGCCGC-ATCATGGT
* * ** * *
61291977 AGCCAGTGTAAGA-CGTGTTTGGGACAT-GCATCGGCTA-AGGTTCGTGCTAGTGTAAGGCATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCCAGTGTAAGACATGT
* *
61292039 CTGGGACATGCATCAGCACGTATACACGAG-
66 CTGGGACATGCATCAGC-CGCAT-CATG-GT
* * * * *
61292069 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATG-GAGATAACCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GCTAGAGGTGAG-T-GCCAGTGTAAGA-C
61292133 ATGTCTGGGACATG
62 ATGTCTGGGACATG
61292147 GCAGTGGTAA
Statistics
Matches: 212, Mismatches: 39, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
91 40 0.19
92 17 0.08
93 20 0.09
94 87 0.41
95 21 0.10
96 3 0.01
97 9 0.04
98 15 0.07
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCCAGTGTAAGACATGT
CTGGGACATGCATCAGCCGCATCATGGT
Found at i:61292044 original size:44 final size:43
Alignment explanation
Indices: 61291887--61292052 Score: 154
Period size: 47 Copynumber: 3.6 Consensus size: 43
61291877 ATGGTAGCCC
*
61291887 GTGTAAGACCATGTCTGGGACATGGCAT-GGACGTAGAGGTGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGG-C-TA-AGGT-TGTGCCA
* * *
61291935 GTGTAAGACATGTCTGGGACATGCATCAGCCTCAATGATGTTAGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-GGCT-AAGGTTG-T-GCCA
* * *
61291982 GTGTAAGACGTGTTTGGGACATGCATCGGCTAAGGTTCGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTAAGGTT-GTGCCA
*
61292026 GTGTAAGGCATGTCTGGGACATGCATC
1 GTGTAAGACATGTCTGGGACATGCATC
61292053 AGCACGTATA
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
44 27 0.27
45 6 0.06
46 12 0.12
47 45 0.45
48 9 0.09
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTAAGGTTGTGCCA
Found at i:61292095 original size:49 final size:48
Alignment explanation
Indices: 61292022--61292146 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 48
61292012 TAAGGTTCGT
* *
61292022 GCTAGTGTAAG-GCATGTCTGGGACATGCATC-AGCACGTATACACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCACG-ATACA-GAGA
* ** *
61292070 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACCACGATACAGAGA
* *
61292119 ACCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
61292147 GCAGTGGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 12 0.18
49 42 0.64
50 8 0.12
51 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACCACGATACAGAGA
Found at i:61299585 original size:49 final size:48
Alignment explanation
Indices: 61299512--61299636 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 48
61299502 TAAGTTTTGT
*
61299512 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCGT-GTATACACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCG-ATACA-GAGA
* ** *
61299560 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGATACAGAGA
* *
61299609 GCCAGTGTAAGACCATGTCAGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
61299637 GCAGCGGAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
48 13 0.19
49 42 0.63
50 11 0.16
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGATACAGAGA
Found at i:61303203 original size:5 final size:5
Alignment explanation
Indices: 61303193--61303217 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61303183 AATTTGCAAA
61303193 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
61303218 TTGTTGTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:61306590 original size:32 final size:32
Alignment explanation
Indices: 61306554--61306616 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
61306544 ACAGACTGAC
61306554 AGTCCCACTATTTCCCATTATGTCTGAAAGAT
1 AGTCCCACTATTTCCCATTATGTCTGAAAGAT
*
61306586 AGTCCCACTATTTCCTATTATGTCTGAAAGA
1 AGTCCCACTATTTCCCATTATGTCTGAAAGA
61306617 AACTATCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (32 bp):
AGTCCCACTATTTCCCATTATGTCTGAAAGAT
Found at i:61309685 original size:20 final size:20
Alignment explanation
Indices: 61309660--61309697 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61309650 TGATTAAACT
61309660 TAATCACTTTAATATTAAGA
1 TAATCACTTTAATATTAAGA
61309680 TAATCACTTTAATATTAA
1 TAATCACTTTAATATTAA
61309698 ATCAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATCACTTTAATATTAAGA
Found at i:61310611 original size:64 final size:64
Alignment explanation
Indices: 61310510--61310640 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
61310500 AATCATGGAG
*
61310510 TCAGTCCATAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
1 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
61310574 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
1 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
61310638 TCA
1 TCA
61310641 AACTGCTTTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (64 bp):
TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
Found at i:61311122 original size:13 final size:13
Alignment explanation
Indices: 61311104--61311128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61311094 ACAAATGGAT
61311104 TTAGAATTAATTC
1 TTAGAATTAATTC
61311117 TTAGAATTAATT
1 TTAGAATTAATT
61311129 TATCTTGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTAGAATTAATTC
Found at i:61316509 original size:23 final size:22
Alignment explanation
Indices: 61316466--61316512 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
61316456 TTTTATTTCT
* *
61316466 TTATTTTATTAATATATTATAA
1 TTATATTATTAATATAATATAA
61316488 TTATATTATATAATATAATATAA
1 TTATATTAT-TAATATAATATAA
61316511 TT
1 TT
61316513 TACTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATTATTAATATAATATAA
Found at i:61316521 original size:17 final size:18
Alignment explanation
Indices: 61316500--61316542 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
61316490 ATATTATATA
61316500 ATATAATATAATTTACTT
1 ATATAATATAATTTACTT
* *
61316518 -TATATTATTATTTACTT
1 ATATAATATAATTTACTT
61316535 ATATAATA
1 ATATAATA
61316543 AGTAAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATATAATTTACTT
Found at i:61321936 original size:13 final size:12
Alignment explanation
Indices: 61321918--61321953 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
61321908 GGGTTCCTAT
61321918 GGCCGTAGGGCCA
1 GGCCGT-GGGCCA
61321931 GGCCGTGGGGCCA
1 GGCCGT-GGGCCA
61321944 GGCCGTGGGC
1 GGCCGTGGGC
61321954 AGATTTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.08, C:0.31, G:0.53, T:0.08
Consensus pattern (12 bp):
GGCCGTGGGCCA
Found at i:61322933 original size:20 final size:20
Alignment explanation
Indices: 61322908--61322975 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
61322898 GTAACAGTAT
*
61322908 TCGACACATATAGCGTCTCA
1 TCGACACATATAGTGTCTCA
61322928 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTCTCA
61322948 TCGACACATATAGTGTCTCA
1 TCGACACATATAGTGTCTCA
61322968 TCGACACA
1 TCGACACA
61322976 CAGTCGGAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
TCGACACATATAGTGTCTCA
Found at i:61323750 original size:19 final size:20
Alignment explanation
Indices: 61323726--61323763 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
61323716 TAAATTTTCC
61323726 TTTCCTT-TTTCTTTCCCTT
1 TTTCCTTATTTCTTTCCCTT
61323745 TTTCCTTATTTCTTTCCCT
1 TTTCCTTATTTCTTTCCCT
61323764 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCCTTATTTCTTTCCCTT
Found at i:61323834 original size:18 final size:17
Alignment explanation
Indices: 61323807--61323843 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
61323797 TTTCTTTATT
*
61323807 TTATTAATATATTATAA
1 TTATTAATATAATATAA
61323824 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
61323842 TT
1 TT
61323844 TACTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:61329882 original size:56 final size:55
Alignment explanation
Indices: 61329739--61329898 Score: 189
Period size: 56 Copynumber: 2.9 Consensus size: 55
61329729 TTTGATGGCA
* *
61329739 TGATACATGCTAGGTCTGGGAGCTTGTA-TAGCCCCGTTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGC--GTGATTATG
* * * * *
61329795 TGGTATACGCTAGGTCCGGGAGCTTAT-GTAGCCCCGTTGAGAGGCGTGATTATG
1 TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGCGTGATTATG
* * *
61329849 TGATGCATGCTAGGTCTGGGTGCTTTTAGGTAGCCCTGTTGAGAGGCGTG
1 TGATACATGCTAGGTCTGGGAGCTTTTA-GTAGCCCCGTTGAGAGGCGTG
61329899 CTATGTTATG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
54 28 0.32
56 59 0.68
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (55 bp):
TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGCGTGATTATG
Found at i:61335410 original size:14 final size:14
Alignment explanation
Indices: 61335393--61335425 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
61335383 TTCCATTTGA
*
61335393 CATATATTTCATAG
1 CATATATGTCATAG
61335407 CATATATGTCATAG
1 CATATATGTCATAG
61335421 CATAT
1 CATAT
61335426 TCAAAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (14 bp):
CATATATGTCATAG
Found at i:61353292 original size:23 final size:24
Alignment explanation
Indices: 61353235--61353292 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
61353225 TGTTTACTCG
* **
61353235 CTTCGGTGGTG-TCTAGTTACCTG
1 CTTCGGTGGTGTTCCAGTTACCCA
**
61353258 CTTCGGCAGTGTTCCA-TTACCCA
1 CTTCGGTGGTGTTCCAGTTACCCA
61353281 CTTCGGTGGTGT
1 CTTCGGTGGTGT
61353293 CCCGTTTAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.10, C:0.26, G:0.28, T:0.36
Consensus pattern (24 bp):
CTTCGGTGGTGTTCCAGTTACCCA
Found at i:61356671 original size:25 final size:25
Alignment explanation
Indices: 61356639--61356687 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
61356629 AACCAACAAG
*
61356639 AACAAAGTTCCTATACATGCCATAC
1 AACAAAGTCCCTATACATGCCATAC
61356664 AACAAAGTCCCTATACATGCCATA
1 AACAAAGTCCCTATACATGCCATA
61356688 TACTCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.29, G:0.08, T:0.22
Consensus pattern (25 bp):
AACAAAGTCCCTATACATGCCATAC
Found at i:61359168 original size:46 final size:46
Alignment explanation
Indices: 61359024--61359385 Score: 184
Period size: 46 Copynumber: 7.7 Consensus size: 46
61359014 TTTGTGTGCT
* * *** **
61359024 AGTGTAAGACATGTATGAGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTTAAGATGAGAGCC
* * * * ** *
61359070 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGAGACAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTTAAGATGAGAGCC
*
61359118 AGTGTAAGACATGTTTGGGACATGCATCGGCTTTAAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTTAAGATG-AGAGCC
* * *
61359164 AGTGTAAGACATGTCTGGGACATGCATCGGC--TACGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTTAAGATGA-GAGCC
* * * * * *
61359208 AGTGTAAAACCATGTCTGAG-CATGGAATCGGC-ATAGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTTA-AGA--TGAGAGCC
* * * * ** * *
61359257 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGATCTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTTAAGAT-GAGAGCC
* *
61359306 AGTTTAAGACCATGTCTGGGACATGGCATCGAC-TT--GATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTTAAGAT-GA-GAGCC
*
61359353 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
61359386 ATCATACCCT
Statistics
Matches: 244, Mismatches: 56, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 17 0.07
45 16 0.07
46 59 0.24
47 58 0.24
48 25 0.10
49 53 0.22
50 13 0.05
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTTAAGATGAGAGCC
Found at i:61359314 original size:49 final size:47
Alignment explanation
Indices: 61359065--61359383 Score: 228
Period size: 46 Copynumber: 6.8 Consensus size: 47
61359055 CACATTATGA
* * *
61359065 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGAGAC-AA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGA-TCGAT
* * * * *
61359113 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTTTA-AGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGAT
* *
61359157 GTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA--GAT
1 G--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATCGAT
* * * * * * * *
61359203 GTGTCAGTGTAAAACCATGTCTGAG-CATGGAATCGGCATAGATATG-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAT-CGAT
* * *
61359250 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGATCTCGAT
1 --GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA--TCGAT
* * *
61359302 -AGTCAGTTTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGAT
*
61359348 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
61359384 GCATCATACC
Statistics
Matches: 217, Mismatches: 36, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
44 15 0.07
45 21 0.10
46 50 0.23
47 46 0.21
48 20 0.09
49 50 0.23
50 10 0.05
51 3 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATCGAT
Found at i:61364057 original size:53 final size:53
Alignment explanation
Indices: 61363977--61364082 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
61363967 CTCAGCAACA
*
61363977 GATACTTATTCTTTATTGTAACCTTATTGAGCTGTTGATAATCAATACACATT
1 GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
* *
61364030 GATACTTCTTCTTTATCGTAACCTTATTGAGCTGTTGATAGTCAATACACATT
1 GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
61364083 CTTATTAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (53 bp):
GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
Found at i:61366579 original size:40 final size:40
Alignment explanation
Indices: 61366509--61366686 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
61366499 AAACCAAGTA
* * *
61366509 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
61366548 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61366588 CCTTCGAGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
61366628 CCTTTGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61366668 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61366687 TTACCATCCG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 14 0.11
40 108 0.89
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61378609 original size:19 final size:20
Alignment explanation
Indices: 61378585--61378627 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
61378575 CTTTAACCAA
61378585 CAAGCATAGATGGAC-GTTT
1 CAAGCATAGATGGACGGTTT
*
61378604 CAAGCATGGATGGACGGTTT
1 CAAGCATAGATGGACGGTTT
61378624 CAAG
1 CAAG
61378628 TATGAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (20 bp):
CAAGCATAGATGGACGGTTT
Found at i:61378710 original size:50 final size:50
Alignment explanation
Indices: 61378650--61378821 Score: 229
Period size: 50 Copynumber: 3.4 Consensus size: 50
61378640 ACAATTTCAT
* * *
61378650 TGCATAGAGACATTTTCCTCATTTAAATACATGATCATGGGTGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
*
61378700 TGCATAGAGACATTTTTCACATTCAAATACATGATCATGGATGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
* * * * *
61378750 TGCATAAAGACGTTTTTCTTATTCAAATACATGATAATGAAT-GTTTTCAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTT-AA
* *
61378800 TGCATAGAGACGTTTATCTCAT
1 TGCATAGAGACATTTTTCTCAT
61378822 CTTGATACAT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
49 5 0.05
50 103 0.95
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (50 bp):
TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
Found at i:61378830 original size:50 final size:50
Alignment explanation
Indices: 61378650--61378882 Score: 222
Period size: 50 Copynumber: 4.6 Consensus size: 50
61378640 ACAATTTCAT
* * * *
61378650 TGCATAGAGACATTTTCCTCATTTAAATACATGATCATGGGTGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
* *
61378700 TGCATAGAGACATTTTTCACATTCAAATACATGATCATGGATGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
* * * *
61378750 TGCATAAAGACGTTTTTCTTATTCAAATACATGATAATGAAT-GTTTTCAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTT-AA
* * ** *** *
61378800 TGCATAGAGACGTTTATCTCA-TCTTGATACATGA-AATGGAAAATTTCAAA
1 TGCATAGAGACATTTTTCTCATTC-AAATACATGATAATGGATGGTTT-TAA
*
61378850 TGCAT-GAAGACATTTTTCCTCAATCAAATACAT
1 TGCATAG-AGACATTTTT-CTCATTCAAATACAT
61378883 CAACATGGAT
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 13 0.08
50 128 0.84
51 10 0.07
52 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (50 bp):
TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
Found at i:61382785 original size:30 final size:30
Alignment explanation
Indices: 61382742--61382800 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
61382732 GCAGGTGGGA
61382742 TGGGAAGGAAGTAAAAATTTTAGGAGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGAGGAAAG
* *
61382773 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGGAGGAAA
61382801 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 15 0.58
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGGAGGAAAG
Found at i:61383027 original size:9 final size:9
Alignment explanation
Indices: 61383013--61383058 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
61383003 TATAGTTTGA
61383013 TATTCGAAT
1 TATTCGAAT
61383022 TATTCGAAT
1 TATTCGAAT
61383031 TATTCGAAT
1 TATTCGAAT
*
61383040 TATTCGAGT
1 TATTCGAAT
*
61383049 TATTCAAAT
1 TATTCGAAT
61383058 T
1 T
61383059 TGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:61385010 original size:12 final size:12
Alignment explanation
Indices: 61384993--61385019 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61384983 ATTTAACCAT
61384993 TCAAATATCAAA
1 TCAAATATCAAA
61385005 TCAAATATCAAA
1 TCAAATATCAAA
61385017 TCA
1 TCA
61385020 TCAAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAATATCAAA
Found at i:61385186 original size:62 final size:62
Alignment explanation
Indices: 61385116--61385241 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
61385106 ACAGGGACAA
61385116 GTTTTAAATTTAATAGAAAGTTTTAGAAAATTTTGAAAAATTTTTAAAATTGGGGTCACACG
1 GTTTTAAATTTAATAGAAAGTTTTAGAAAATTTTGAAAAATTTTTAAAATTGGGGTCACACG
61385178 GTTTTAAATTTAATAGAAAGTTTTAGAAAATTTTGAAAAATTTTTAAAATTGGGGTCACACG
1 GTTTTAAATTTAATAGAAAGTTTTAGAAAATTTTGAAAAATTTTTAAAATTGGGGTCACACG
61385240 GT
1 GT
61385242 CGTGTGACAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.39
Consensus pattern (62 bp):
GTTTTAAATTTAATAGAAAGTTTTAGAAAATTTTGAAAAATTTTTAAAATTGGGGTCACACG
Found at i:61389080 original size:26 final size:26
Alignment explanation
Indices: 61389044--61389153 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
61389034 TGATACAAAT
61389044 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61389070 TGATAATAGGTCAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61389096 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61389122 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61389148 TGATAA
1 TGATAA
61389154 GAATTTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:61392190 original size:46 final size:46
Alignment explanation
Indices: 61392123--61392217 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
61392113 CGGTTAATTT
*
61392123 GAGAAAAAAAGCTAGAAAAATGGAAGGAAGAAGACCCCATAGGG-GA
1 GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCAT-GGGAGA
*
61392169 GAGAAAAAAAGCTAGTAAAATGAAAGGAAGAAGACCCCATGGGAGA
1 GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCATGGGAGA
61392215 GAG
1 GAG
61392218 GGATGGTCGG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 3 0.07
46 43 0.93
ACGTcount: A:0.52, C:0.11, G:0.31, T:0.07
Consensus pattern (46 bp):
GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCATGGGAGA
Found at i:61394678 original size:2 final size:2
Alignment explanation
Indices: 61394671--61394699 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61394661 TTTGATACAT
61394671 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
61394700 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:61396412 original size:28 final size:29
Alignment explanation
Indices: 61396381--61396436 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
61396371 TTTTTACAAT
*
61396381 ATTTCCACATCCAAGA-CACTTTTCATTG
1 ATTTCCACATCCAAGATCAATTTTCATTG
* * *
61396409 ATTTTCATATCCAATATCAATTTTCATT
1 ATTTCCACATCCAAGATCAATTTTCATT
61396437 TTGTACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (29 bp):
ATTTCCACATCCAAGATCAATTTTCATTG
Found at i:61404389 original size:51 final size:51
Alignment explanation
Indices: 61404320--61404469 Score: 237
Period size: 51 Copynumber: 2.9 Consensus size: 51
61404310 GTTGCTACTA
*
61404320 ATGAATATGCTGGTGATTTTGCAACATCAGATGGGGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * *
61404371 ATGAATATGTTGGTGATTTTGCAACATCAGATTGAGTGGATAATGTAGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
** *
61404422 ATGAATATGCTGGTGATTTTGCAACATTTGATGGACTGGATAATGTTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTG
61404470 TTGCTACACG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 89 1.00
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.35
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:61406616 original size:55 final size:53
Alignment explanation
Indices: 61406479--61406686 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
61406469 ATCCTTTTGA
* * *
61406479 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
61406532 AACTCACCAATGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
61406586 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
61406640 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
61406687 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 9 0.07
55 70 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:61406632 original size:108 final size:110
Alignment explanation
Indices: 61406479--61406679 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
61406469 ATCCTTTTGA
* * *
61406479 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
61406542 -TGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
61406587 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGAT-TCCCTTGCCTTAGAAACCTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAT-CCTTGCCTTAGAAACCTCACCAA
*
61406651 TTGCCATGCCTTGGCATGGTCTTACATGG
65 TTGCCATGCCTCGGCATGGTCTTACATGG
61406680 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:61411020 original size:23 final size:23
Alignment explanation
Indices: 61410982--61411025 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61410972 TGGAAAGATT
* *
61410982 AAGGATTTCATAATTTGGTTCTA
1 AAGGATTTCACAATTTCGTTCTA
*
61411005 AAGGATTTCACGATTTCGTTC
1 AAGGATTTCACAATTTCGTTC
61411026 CTAATAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
AAGGATTTCACAATTTCGTTCTA
Found at i:61413523 original size:43 final size:43
Alignment explanation
Indices: 61413457--61413630 Score: 180
Period size: 43 Copynumber: 4.1 Consensus size: 43
61413447 TACGGGTACA
*
61413457 ATGCCGATGTCCCAGACATGGTCTTACATGTAAT-TCAGTATCG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAATCTCAG-ATCG
* * * *
61413500 ATGCCTCTGTCCCAGACAGGGTCTTATA-GAAAT-T-AGATACG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAATCTCAGAT-CG
*
61413541 ATGCCTATGTCCCAGACATGGTCTTACACT-TAAATCTCAAATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA-TGT-AATCTCAGATCG
* * *
61413585 AGGCCTATGTCCCAAACACGGTCTTACATG-ATATCTCAGATCG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTA-ATCTCAGATCG
61413628 ATG
1 ATG
61413631 TTAAAGTTCC
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.27
42 6 0.06
43 40 0.37
44 28 0.26
45 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACATGGTCTTACATGTAATCTCAGATCG
Found at i:61421098 original size:42 final size:43
Alignment explanation
Indices: 61421017--61421118 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
61421007 TCCTGGACTT
* * *
61421017 GGTCTTACATGTAATTCAGTATCGATACCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGTATCGATACCTATGTCCCAGACAG
* *
61421060 GGTCTTACACG-AAATCAG-ATACGATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATACCTATGTCCCAGACAG
**
61421102 ATTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
61421119 TCAAGTCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 33 0.66
43 15 0.30
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATACCTATGTCCCAGACAG
Found at i:61422631 original size:35 final size:35
Alignment explanation
Indices: 61422592--61422708 Score: 98
Period size: 35 Copynumber: 3.3 Consensus size: 35
61422582 TCGTAAAAAT
61422592 TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
*** * * *
61422627 TTTAGGTAGGGATTCA-AAGATTT---AATTCGTAAAAA
1 TTTAGG--GATTTTAAGAAGATTTCGGAATGC-T-AAGA
61422662 TTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 -TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
*
61422698 TTTAGGTATTT
1 TTTAGGGATTT
61422709 CAAGTTTTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 18
0.66 0.14 0.20
Matches are distributed among these distances:
33 4 0.07
34 5 0.08
35 26 0.43
36 16 0.27
37 5 0.08
38 4 0.07
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (35 bp):
TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
Found at i:61422643 original size:71 final size:71
Alignment explanation
Indices: 61422562--61422705 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
61422552 CTAATAGTTT
61422562 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
61422627 TTTAGG
66 TTTAGG
61422633 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
61422698 TTTAGG
66 TTTAGG
61422704 TA
1 TA
61422706 TTTCAAGTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (71 bp):
TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
TTTAGG
Found at i:61422667 original size:36 final size:36
Alignment explanation
Indices: 61422562--61422668 Score: 89
Period size: 35 Copynumber: 3.0 Consensus size: 36
61422552 CTAATAGTTT
61422562 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
*** * * *
61422598 --GATTTTAAGAAGATTTCGGAATGC-T-AAGA-TTTAGG
1 TAGGGATTCA-AAGATTT---AATTCGTAAAAATTTTAGG
61422633 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
61422669 GATTTTAAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 18
0.62 0.15 0.22
Matches are distributed among these distances:
33 4 0.08
34 5 0.10
35 16 0.32
36 16 0.32
37 5 0.10
38 4 0.08
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (36 bp):
TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
Found at i:61425372 original size:21 final size:20
Alignment explanation
Indices: 61425320--61425378 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
61425310 TTATAAAAAC
*
61425320 ATAAAAAATCATT-AAATTT
1 ATAAAAAATAATTAAAATTT
61425339 ATAAAAAA-AATTAAAATTT
1 ATAAAAAATAATTAAAATTT
61425358 ATAAAAAATATATTAGAAATT
1 ATAAAAAATA-ATTA-AAATT
61425379 AATTAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 3 0.09
19 22 0.63
20 1 0.03
21 4 0.11
22 5 0.14
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAAAAAATAATTAAAATTT
Found at i:61425426 original size:14 final size:13
Alignment explanation
Indices: 61425402--61425431 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61425392 ATAATTTTAT
61425402 AATAATTTTTAAA
1 AATAATTTTTAAA
*
61425415 AATAATTTTTTAA
1 AATAATTTTTAAA
61425428 AATA
1 AATA
61425432 GAAAATCAAC
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:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAATTTTTAAA
Found at i:61425604 original size:18 final size:19
Alignment explanation
Indices: 61425563--61425615 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
61425553 TTTTATAAAA
61425563 TTTTATAAAAGACAATTTATG
1 TTTTATAAAA-A-AATTTATG
61425584 -TTTATAAAAAAA-TTATGG
1 TTTTATAAAAAAATTTAT-G
61425602 TTTTTATAAAAAAA
1 -TTTTATAAAAAAA
61425616 ATATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 1 0.03
20 21 0.72
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (19 bp):
TTTTATAAAAAAATTTATG
Found at i:61425789 original size:18 final size:18
Alignment explanation
Indices: 61425755--61425794 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
61425745 CGATTAATTT
*
61425755 AATTAAAAAATTATTAAA
1 AATTAAAAAAATATTAAA
61425773 AATTCAAAAAAAT-TTAAA
1 AATT-AAAAAAATATTAAA
61425791 AATT
1 AATT
61425795 TCAGTTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAAAAAAATATTAAA
Found at i:61427821 original size:22 final size:22
Alignment explanation
Indices: 61427796--61427839 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61427786 TAGTCATATA
*
61427796 ATAAATTATTAATATAATAAAT
1 ATAAACTATTAATATAATAAAT
* *
61427818 ATAAACTATTATTTTAATAAAT
1 ATAAACTATTAATATAATAAAT
61427840 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAACTATTAATATAATAAAT
Found at i:61427866 original size:19 final size:18
Alignment explanation
Indices: 61427842--61427877 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
61427832 TAATAAATTA
*
61427842 TTTAATATTTCAATTTTAT
1 TTTAATAATT-AATTTTAT
61427861 TTTAATAATTAATTTTA
1 TTTAATAATTAATTTTA
61427878 AAAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATAATTAATTTTAT
Found at i:61427915 original size:14 final size:13
Alignment explanation
Indices: 61427879--61427904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61427869 TTAATTTTAA
61427879 AAATAATATTTTT
1 AAATAATATTTTT
61427892 AAATAATATTTTT
1 AAATAATATTTTT
61427905 CACATATTAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:61427949 original size:15 final size:15
Alignment explanation
Indices: 61427931--61427987 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
61427921 ATTAAATATT
61427931 AATATTTTAATAATA
1 AATATTTTAATAATA
*
61427946 AATATTTATTAGAATTATA
1 AATA-TT-TT--AATAATA
*
61427965 AATATATTAATAATA
1 AATATTTTAATAATA
*
61427980 AATGTTTT
1 AATATTTT
61427988 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:61430079 original size:30 final size:30
Alignment explanation
Indices: 61430045--61430101 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61430035 ACGGCCATGC
*
61430045 CACAC-GGACGTGTGGCCTACCCGTGTGTCA
1 CACACAGG-CGTGTGGACTACCCGTGTGTCA
61430075 CACACAGGCGTGTGGACTACCCGTGTG
1 CACACAGGCGTGTGGACTACCCGTGTG
61430102 GAAGTGTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.19
Consensus pattern (30 bp):
CACACAGGCGTGTGGACTACCCGTGTGTCA
Found at i:61436804 original size:40 final size:40
Alignment explanation
Indices: 61436742--61436999 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
61436732 AAGCCAAGTA
* * * * * *
61436742 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61436781 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61436821 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61436861 CCTTCGGGACTTATCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61436901 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61436941 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61436981 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61437000 TTATCATCCA
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.07
40 183 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61449206 original size:40 final size:40
Alignment explanation
Indices: 61449149--61449312 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
61449139 TGAATGATAC
* * * *
61449149 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
61449189 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
61449229 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
61449269 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
61449309 CCGG
1 CCGG
61449313 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:61453986 original size:14 final size:14
Alignment explanation
Indices: 61453967--61453995 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61453957 ATTCTACCGA
61453967 CAATGTGTTAGTAG
1 CAATGTGTTAGTAG
61453981 CAATGTGTTAGTAG
1 CAATGTGTTAGTAG
61453995 C
1 C
61453996 CGAATTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (14 bp):
CAATGTGTTAGTAG
Found at i:61457354 original size:27 final size:28
Alignment explanation
Indices: 61457297--61457366 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
61457287 AAATTTGTAC
**
61457297 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
61457325 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
61457352 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61457367 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:61457375 original size:27 final size:27
Alignment explanation
Indices: 61457297--61457378 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
61457287 AAATTTGTAC
* *
61457297 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
61457325 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
61457352 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
61457379 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:61464333 original size:39 final size:40
Alignment explanation
Indices: 61464150--61464333 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
61464140 GCTACTCGTT
* * *
61464150 CAAATACCTTCGGGAC-AAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61464189 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
61464229 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
61464269 -AAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTAGCA
1 CAAA-TGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
61464309 CAGA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61464334 CATCATTCGA
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
39 37 0.28
40 89 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61465048 original size:2 final size:2
Alignment explanation
Indices: 61465041--61465066 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61465031 ATGTGCAAAC
61465041 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
61465067 GCAAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61468705 original size:179 final size:178
Alignment explanation
Indices: 61468405--61468956 Score: 921
Period size: 179 Copynumber: 3.1 Consensus size: 178
61468395 TCCGATTCAT
61468405 CAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGTGAT
1 CAAAT-CATAAATACCGCAGGGGCATTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGTGAT
61468470 CGTACCTCGTTCTAAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCG
65 CGTACCTCGTTCTAAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCG
61468535 ATCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
130 ATCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
61468584 CAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGTGAT
1 CAAAT-CATAAATACCGCAGGGGCATTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGTGAT
61468649 CGTACCTCGTTCTAAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCG
65 CGTACCTCGTTCTAAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCG
61468714 ATCTCAAATCTATCTTTGAAAA-ACTGAGGCTCCCTTTAGTTGATCAAA
130 ATCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
* * * * ** *
61468762 CAAATCATCAATATGCGGTAACGGATATTTAGTGAGCCCGAACGGCATCACTAAGAACTTGTAGT
1 CAAATCAT-AA-ATACCG-CAGGGGCA-TTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGT
* *
61468827 GACCGTACCTCGTTCTGAAAGAAGTTTTGGGTAC-TCCGAATCTCGAATCCACAACTGATAATAA
62 GATCGTACCTCGTTCT-AAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAA
*
61468891 CCGGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
126 CCCGATCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
*
61468944 -AAATCATCAATAC
1 CAAATCATAAATAC
61468957 GGGTAACGGA
Statistics
Matches: 355, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
177 3 0.01
178 33 0.09
179 159 0.45
180 5 0.01
181 112 0.32
182 43 0.12
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (178 bp):
CAAATCATAAATACCGCAGGGGCATTAGTGAGCCCGAACGGCATCACTAAGAACTCGTAGTGATC
GTACCTCGTTCTAAAGAAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCGA
TCTCAAATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAA
Found at i:61472684 original size:40 final size:40
Alignment explanation
Indices: 61472586--61472752 Score: 220
Period size: 40 Copynumber: 4.2 Consensus size: 40
61472576 AATCCTTACA
*
61472586 TAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
61472626 TA-CCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CT
*
61472665 TAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CT
* *
61472705 TAGTCCGGATTTAGTAACTTAGCAC-AA-GCCTTCGGGACT
1 TAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACT
61472744 TAGCCCGGA
1 TAGCCCGGA
61472753 CATCATTCGA
Statistics
Matches: 118, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
38 3 0.03
39 47 0.40
40 63 0.53
41 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACT
Found at i:61472695 original size:79 final size:79
Alignment explanation
Indices: 61472586--61472752 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 79
61472576 AATCCTTACA
* *
61472586 TAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-CCCGGATTTAGTAAC-TCGC
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTTAGC
61472647 ACAAATGCCTTC-GGATCT
64 AC-AA-GCCTTCGGGA-CT
* *
61472665 TAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCAC
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTTAGCAC
61472730 AAGCCTTCGGGACT
66 AAGCCTTCGGGACT
61472744 TAGCCCGGA
1 TAGCCCGGA
61472753 CATCATTCGA
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
78 3 0.04
79 49 0.63
80 21 0.27
81 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTTAGCAC
AAGCCTTCGGGACT
Found at i:61476922 original size:40 final size:40
Alignment explanation
Indices: 61476860--61477117 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
61476850 AAGCCAAGTA
* * * * *
61476860 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61476899 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61476939 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61476979 CCTTCGGGACTTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61477019 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
61477059 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61477099 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61477118 TTATCATCCA
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 187 0.94
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61485094 original size:30 final size:30
Alignment explanation
Indices: 61485060--61485116 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
61485050 ACTGCCATGC
* * *
61485060 CACACGGGCGTGTGGCCTACCCGTGTGTCA
1 CACACGAGCGTGTGGACTACCCATGTGTCA
61485090 CACACGAGCGTGTGGACTACCCATGTG
1 CACACGAGCGTGTGGACTACCCATGTG
61485117 GAAGTGTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.19
Consensus pattern (30 bp):
CACACGAGCGTGTGGACTACCCATGTGTCA
Found at i:61486536 original size:67 final size:67
Alignment explanation
Indices: 61486423--61486739 Score: 363
Period size: 67 Copynumber: 4.7 Consensus size: 67
61486413 TATTTTTTGT
* * * * *
61486423 CATAACCTAGCTATGGTCTTACACATTATGCCCCATGTTTGTTGTCCT-GACAGATTTCCTTTGT
1 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTAGA-AGACTTCCTTTGT
61486487 TGC
65 TGC
61486490 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTA-ACAGACTTCCTTTGT
1 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTAGA-AGACTTCCTTTGT
*
61486554 TGT
65 TGC
* * * * *
61486557 CATAGCCTAGCTATGGTTTTACACAATTTACCCTATGTTTATTGTCCTAGAGGAATTCCTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGTT
61486622 GC
66 GC
* * * * * * * ** * *
61486624 AATAGCGTAGCTATGGTATTGCAGAGTACACCTTATG-TTATTGTCCTGGAGGACTTCCTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGTT
*
61486688 AC
66 GC
*
61486690 CATAGCCTAGCTATGGTCTTACAC-ATCATACCCCATGTTTATTATCCTAG
1 CATAGCCTAGCTATGGTCTTACACAAT-ATACCCCATGTTTATTGTCCTAG
61486740 CGGACTTCTA
Statistics
Matches: 211, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.00
66 52 0.25
67 157 0.74
68 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (67 bp):
CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGTT
GC
Found at i:61490502 original size:40 final size:40
Alignment explanation
Indices: 61490457--61490595 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 40
61490447 TTCGAATGAT
61490457 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
*
61490497 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
61490536 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
61490577 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
61490596 ACAATCGAGC
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 38 0.43
40 49 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:61490538 original size:39 final size:39
Alignment explanation
Indices: 61490457--61490564 Score: 182
Period size: 39 Copynumber: 2.8 Consensus size: 39
61490447 TTCGAATGAT
*
61490457 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACCAA
61490497 ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTACCAA
*
61490536 ATCCGGGTTAAGTCCCGAAGGCATT-TGCG
1 ATCCGGGTTAATTCCCGAAGGCATTGTGCG
61490565 CGAATTACTA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 4 0.06
39 39 0.59
40 23 0.35
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTACCAA
Found at i:61490624 original size:79 final size:79
Alignment explanation
Indices: 61490455--61490635 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 79
61490445 TATTCGAATG
* * * * *
61490455 ATATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCA
1 ATATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACA
* *
61490520 TTGTGCGAGTTACC
66 TCGAGCGAGTTACC
* *
61490534 AAATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATAA-CCGGGCT-ATGTCCCGAAGA
1 ATATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGA
*
61490597 CAATCGAGCGAG-TAGCT
64 C-ATCGAGCGAGTTA-CC
*
61490614 ATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGTTAAATCCCGAAGG
61490636 TACGTGATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 68 0.79
80 16 0.19
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (79 bp):
ATATCCGGGTTAAATCCCGAAGGCATTTGCGCGAATTACTAAATCCGGGCTAATTCCCGAAGACA
TCGAGCGAGTTACC
Found at i:61498496 original size:40 final size:40
Alignment explanation
Indices: 61498451--61498590 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
61498441 TTCGAATGAT
61498451 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
61498491 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
61498531 ATCTGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
61498572 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
61498591 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Done.